========== block24717 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem] ========== #randfold block24717: 0.136 #forester #identity: 0.00 block24717 TGCCATCAGAAGACTGAAG #rat_gr964916_libT5S1 19 1 block24717 gtcTGCCATCAGAAGACTGAAGgaaccagtagaccagcccttcctacggtctgagacctgcctggcctgca *********************************************************************** block24717 >>>>>>>>>>>>..................................................................... #ENSRNOT00000054439 ENSRNOG00000036317 block24717 ((..((((.(((.((((((.(((((...((......))..))))).)))))).....)))..))))..)). 0.990 -21.20 # #block24717 chromosome:10:55913745:55913815:-1 Same_strand|Boundary_non-coding|ENSRNOT00000054439|ENSRNOG00000036317 ## ENSRNOG00000036317|miRNA|| ========== block73558 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block73558: 0.025 #forester #identity: 0.00 block73558 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block73558 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block73558 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000038803 ENSRNOG00000032593 block73558 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054440 ENSRNOG00000036318 block73558 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block73558 chromosome:10:45778212:45778268:1 Same_strand|Exonic_coding|ENSRNOT00000038803|ENSRNOG00000032593 ## Same_strand|Exonic_non-coding|ENSRNOT00000054440|ENSRNOG00000036318 ## ENSRNOG00000036318|miRNA|| ## ENSRNOG00000032593|protein_coding|| ========== block118553 (miRNA) [miRNAunknown_lenNOK_randfoldOK] ========== #randfold block118553: 0.005 #forester #identity: 0.00 block118553 ACAAGGATGAATCTTTGTT #rat_gr69734_libT2S2 19 1 block118553 ttgcgaggtgaaggctattaattacactgagtgacaaagactctccgtgctgtatgatcgacACAAGGATGAATCTTTGTTactgactgcaaataataggactgtggccacgtaa ******************************************************************************************************************* block118553 ...........<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.................. #ENSRNOT00000062129 ENSRNOG00000040376 block118553 .((((.(((..((.((((((.((.((...(((((((((((.(((((.((.(((.......))))).))).)).)))))))))))...)).)).))))))..))...))).)))). 1.000 -34.30 # #block118553 chromosome:11:33538453:33538567:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000062129|ENSRNOG00000040376 ## ENSRNOG00000040376|miRNA|| ========== block136480 (miRNA) [miRNAunknown_lenNOK_cloningOK_Multihit_randfoldOK] ========== #randfold block136480: 0.003 #forester #identity: 0.00 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT3S2 19 6 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT2S1 19 5 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT3S1 19 4 block136480 ATGTGTGTGTGTATGTCCTGGTC #rat_gr238366_libT2S1 23 3 block136480 ATGTGTGTGTGTATGTCCTG #rat_gr238365_libT2S1 20 1 block136480 ATATGTGTGTGTGTATGTCC #rat_gr212469_libT3S1 20 1 block136480 ATATGTGTGTGTGTATGTCC #rat_gr212469_libT3S2 20 1 block136480 ATATGTGTGTGTGTATGTCC #rat_gr212469_libT4S2 20 1 block136480 ATATGTGTGTGTGTATGTCC #rat_gr212469_libT5S2 20 1 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT1S1 19 1 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT1S2 19 1 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT2S2 19 1 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT4S1 19 1 block136480 ATATGTGTGTGTGTATGTC #rat_gr212467_libT4S2 19 1 block136480 atatggaattttcctctgtgtgtatatgcatgtatttccattttatatgaggatATATGTGTGTGTGTATGTCCTGGTCatatatttgtata ******************************************************************************************** block136480 ...................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000062957 ENSRNOG00000041204 block136480 (((..((.....((..((((..((((((((((((((..(((.....)))..))))))))))))))..))))....)).......))..))). 0.790 -22.90 # #block136480 chromosome:11:79429989:79430080:-1 Same_strand|Exonic_non-coding|ENSRNOT00000062957|ENSRNOG00000041204 ## ENSRNOG00000041204|miRNA|| ========== block284879 (miRNA) [miRNAunknown_nonpairedHIGH_bulgeHIGH] ========== #randfold block284879: 0.095 #forester #identity: 0.00 block284879 AACACTGATTTCAAATGGTGC #rat_gr26543_libT1S1 21 1 block284879 gtcttcccttgatttcttgaaggagagagccagtcctgggtacagctgttcctctgcagtctaccctctgctgtgctgcaattcttactcctaaAACACTGATTTCAAATGGTGCtagat ************************************************************************************************************************ block284879 ............................................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000053760 ENSRNOG00000035637 rno-mir-29b-2 block284879 ((((.((.((((..((.((.((((((((((((((...(((((..(((((......))))).)))))...)))).))......)))..)))))....))..))..))))..))....)))) 0.940 -31.10 # #block284879 chromosome:13:110967568:110967687:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000053760|ENSRNOG00000035637 ## ENSRNOG00000035637|miRNA|rno-mir-29b-2|rno-mir-29b-2 [Source:miRBase;Acc:MI0000862] ========== block321874 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block321874: 0.025 #forester #identity: 0.00 block321874 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block321874 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block321874 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000044575 ENSRNOG00000031540 block321874 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054482 ENSRNOG00000036362 block321874 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block321874 chromosome:13:86732859:86732915:1 Same_strand|Exonic_non-coding|ENSRNOT00000044575|ENSRNOG00000031540 ## ENSRNOG00000036362|miRNA|| ## ENSRNOG00000031540|pseudogene|| ========== block344455 (miRNA) [miRNAunknown_lenNOK_shortStem_nonpairedHIGH] ========== #randfold block344455: 0.378 #forester #identity: 0.00 block344455 TTGTGCTTGAGAGTGAGA #rat_gr1150146_libT5S2 18 1 block344455 taggttcgtccaggtggaggtcctgaagctgactagtgagatgcagaggagggagtctcttggaaggcgcagaggcctagTTGTGCTTGAGAGTGAGAct **************************************************************************************************** block344455 ..................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054495 ENSRNOG00000036377 block344455 .((.(((((((((((..((((((((..(((..((((.(((((............)))))))))..))).))).)))))......))))).)).)))).)) 0.830 -27.50 # #block344455 chromosome:14:27986174:27986273:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054495|ENSRNOG00000036377 ## ENSRNOG00000036377|miRNA|| ========== block360209 (miRNA) [miRNAunknown_lenNOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block360209: 0.109 #forester #identity: 0.00 block360209 TACAAATGTGGTGGAATC #rat_gr739511_libT3S2 18 1 block360209 atcgtaattggacacgtagattctggcaagtccaccacaataggccacctgatcTACAAATGTGGTGGAATCaacaaaagaaccattgaaaagtatga ************************************************************************************************** block360209 .....................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063520 ENSRNOG00000041767 block360209 .(((((..............((.((.....(((((((((.((((........))))....))))))))).....)).))..............))))) 0.450 -18.19 # #block360209 chromosome:14:67224165:67224262:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063520|ENSRNOG00000041767 ## ENSRNOG00000041767|miRNA|| ========== block487552 (miRNA) [miRNAunknown_lenNOK_Multihit_nonpairedHIGH] ========== #randfold block487552: 0.123 #forester #identity: 0.00 block487552 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 block487552 cccaggcatctctgGGCGAGTATCTCTTTGAGctccccactctcaaggatgactagacctctgagccttccaaggg **************************************************************************** block487552 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......... #ENSRNOT00000054499 ENSRNOG00000036382 block487552 (((((((.((...((...(((...((((((((.........))))))))..)))...))...)))))).....))) 0.840 -22.20 # #block487552 chromosome:15:36824391:36824466:1 Same_strand|Exonic_non-coding|ENSRNOT00000054499|ENSRNOG00000036382 ## ENSRNOG00000036382|miRNA|| ========== block596083 (miRNA) [miRNAunknown_lenNOK] ========== #randfold block596083: 0.299 #forester #identity: 0.00 block596083 AGGCACACAGCATAGCGTT #rat_gr176837_libT1S1 19 1 block596083 gcctggaggccctgattggccagtgaatcttgagtgacatcaacccatcccgtaggattagagtgcgctgaAGGCACACAGCATAGCGTTtcctggc ************************************************************************************************* block596083 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......... #ENSRNOT00000043659 ENSRNOG00000036404 block596083 (((.((((((.(((....((..(((..((((.((((.(((......((((....))))....))))))).))))..))).)).))).)))))).))) 0.670 -30.30 # #block596083 chromosome:17:7856943:7857039:-1 Same_strand|Exonic_non-coding|ENSRNOT00000043659|ENSRNOG00000036404 ## ENSRNOG00000036404|miRNA|| ========== block609715 (miRNA) [miRNAunknown_lenNOK_Multihit_nonpairedHIGH] ========== #randfold block609715: 0.380 #forester #identity: 0.00 block609715 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 block609715 ggcatctctgGGCGAGTATCTCTTTGAGcacctcactgtcaagcatgactaggaggcctctgagccttccaaggggct ****************************************************************************** block609715 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............. #ENSRNOT00000054514 ENSRNOG00000036399 block609715 (((..((((.((.(((...(((...(((..((((.((((((....)))).)))))).))).))).))))).))))))) 0.920 -23.10 # #block609715 chromosome:17:33448444:33448521:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054514|ENSRNOG00000036399 ## ENSRNOG00000036399|miRNA|| ========== block615069 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block615069: 0.025 #forester #identity: 0.00 block615069 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block615069 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block615069 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054512 ENSRNOG00000036397 block615069 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000048298 ENSRNOG00000018804 RGD1306939 block615069 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block615069 chromosome:17:47394410:47394466:-1 Same_strand|Boundary_non-coding|ENSRNOT00000025440|ENSRNOG00000018804 ## Same_strand|Exonic_non-coding|ENSRNOT00000054512|ENSRNOG00000036397 ## Same_strand|Exonic_coding|ENSRNOT00000048298|ENSRNOG00000018804 ## ENSRNOG00000036397|miRNA|| ## ENSRNOG00000018804|protein_coding|RGD1306939|similar to mKIAA0386 protein (RGD1306939), mRNA [Source:RefSeq_dna;Acc:NM_001014009] ========== block647898 (miRNA) [miRNAunknown_lenNOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block647898: 0.398 #forester #identity: 0.00 block647898 ATCTCGCTGGGGCCTACA #rat_gr224348_libT1S2 18 2 block647898 ATCTCGCTGGGGCCTACA #rat_gr224348_libT3S2 18 2 block647898 ATCTCGCTGGGGCCTACA #rat_gr224348_libT3S1 18 1 block647898 ATCTCGCTGGGGCCTACA #rat_gr224348_libT4S1 18 1 block647898 ATCTCGCTGGGGCCTACA #rat_gr224348_libT5S1 18 1 block647898 ATCTCGCTGGGGCCTACA #rat_gr224348_libT5S2 18 1 block647898 acatctcctgaggtggtcctggatccctggagtcccagagtgaaagtccagctttagaatttgggtggggcaggctgATCTCGCTGGGGCCTACAgaaaatgt ******************************************************************************************************* block647898 ...............................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............ #ENSRNOT00000054515 ENSRNOG00000036400 block647898 ((((...(((....(((((((((((((((....((((((...((((.....))))....)))))).....))))..)))))....))))))..)))...)))) 0.840 -31.90 # #block647898 chromosome:17:20033144:20033246:1 Same_strand|Exonic_non-coding|ENSRNOT00000054515|ENSRNOG00000036400 ## ENSRNOG00000036400|miRNA|| ========== block868019 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block868019: 0.025 #forester #identity: 0.00 block868019 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block868019 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block868019 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000028315 ENSRNOG00000020843 LOC364392 block868019 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054422 ENSRNOG00000036301 block868019 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block868019 chromosome:1:95929444:95929500:-1 Same_strand|Exonic_coding|ENSRNOT00000028315|ENSRNOG00000020843 ## Same_strand|Exonic_non-coding|ENSRNOT00000054422|ENSRNOG00000036301 ## ENSRNOG00000036301|miRNA|| ## ENSRNOG00000020843|protein_coding|LOC364392|Ferritin light chain 1 (Ferritin L subunit 1). [Source:UniProtKB/Swiss-Prot;Acc:P02793] ========== block875797 (miRNA) [miRNAunknown_lenNOK] ========== #randfold block875797: 0.157 #forester #identity: 0.00 block875797 TGATCTGGCCAAAGCCTGA #rat_gr955353_libT1S2 19 1 block875797 gcttttatacttgttagactctggttagagtacactaatcggctggtaccTGATCTGGCCAAAGCCTGActttaaactgc ******************************************************************************** block875797 .>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>. #ENSRNOT00000062154 ENSRNOG00000040401 block875797 ((.((((.....(((((.((.((((((((((((.((....))...))))....)))))))).)).)))))..))))..)) 0.970 -18.70 # #block875797 chromosome:1:115592418:115592497:-1 Same_strand|Exonic_non-coding|ENSRNOT00000062154|ENSRNOG00000040401 ## ENSRNOG00000040401|miRNA|| ========== block875849 (miRNA) [miRNAunknown_lenNOK_randfoldOK] ========== #randfold block875849: 0.005 #forester #identity: 0.00 block875849 TGATCTGGCCAAAGCCTGA #rat_gr955353_libT1S2 19 1 block875849 ccctccggctgcagggctttttttcctgttagacttctggctagagtccactaatcctctggtaccTGATCTGGCCAAAGCCTGActataacctgctccagagagga *********************************************************************************************************** block875849 .......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................ #ENSRNOT00000063693 ENSRNOG00000041940 block875849 (((((.((..(((((............(((((.(((.((((((((....((((......))))......))))))))))).))))).....))))).)).))).)). 0.990 -35.73 # #block875849 chromosome:1:115747538:115747644:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063693|ENSRNOG00000041940 ## ENSRNOG00000041940|miRNA|| ========== block875889 (miRNA) [miRNAunknown_lenNOK] ========== #randfold block875889: 0.064 #forester #identity: 0.00 block875889 TGATCTGGCCAAAGCCTGA #rat_gr955353_libT1S2 19 1 block875889 cactctccggccttaggggtttttttcctgttagacttctggctagagtccactaatcttctggtaccTGATCTGGCCAAAGCCTGActataacctgctccagagaggaagactg ******************************************************************************************************************* block875889 .........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...................... #ENSRNOT00000062990 ENSRNOG00000041237 block875889 ((.(((((...(((.(((((.........(((((.(((.((((((((....((((......))))......))))))))))).)))))........))))).))).))).)).)) 0.740 -33.33 # #block875889 chromosome:1:115856368:115856482:-1 Same_strand|Exonic_non-coding|ENSRNOT00000062990|ENSRNOG00000041237 ## ENSRNOG00000041237|miRNA|| ========== block875914 (miRNA) [miRNAunknown_lenNOK_randfoldOK] ========== #randfold block875914: 0.001 #forester #identity: 0.00 block875914 TGATCTGGCCAAAGCCTGA #rat_gr955353_libT1S2 19 1 block875914 ccctctggctgcagggctttttttcctgttaggcttctggctagagtccactaattttctggtaccTGATCTGGCCAAAGCCTGActataacctgctccagagagga *********************************************************************************************************** block875914 .......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................ #ENSRNOT00000063020 ENSRNOG00000041267 block875914 ((((((((..(((((............(((((((((.((((((((....((((......))))......))))))))))))))))).....))))).)))))).)). 0.990 -47.43 # #block875914 chromosome:1:115910435:115910541:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063020|ENSRNOG00000041267 ## ENSRNOG00000041267|miRNA|| ========== block893717 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block893717: 0.007 #forester #identity: 0.00 block893717 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT2S2 20 1 block893717 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT5S2 20 1 block893717 ATGGCTCTCACTGAAGACC #rat_gr234045_libT3S1 19 1 block893717 aaacaggaaacatgcagtcagctggcttttaaaaacttgacaaggcaatgtgtatgtatgtattaagaatgcatatataATGGCTCTCACTGAAGACCAgcagttgtattgtagctgttg ************************************************************************************************************************ block893717 ...................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063308 ENSRNOG00000041555 block893717 .(((((...((((((((...(((((((((........(((..((.((.(((((((((((.........))))))))))).)).)).)))..)))).)))))..)))))).))..))))). 0.900 -32.50 # #block893717 chromosome:1:161283689:161283808:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063308|ENSRNOG00000041555 ## ENSRNOG00000041555|miRNA|| ========== block974910 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem_nonpairedHIGH_bulgeHIGH] ========== #randfold block974910: 0.168 #forester #identity: 0.00 block974910 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 block974910 gcgcagaccggcatggcccaggcatctctgGGCGAGTATCTCTTTGAGcgc *************************************************** block974910 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000047289 ENSRNOG00000001492 Slc8a2 block974910 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000020402 ENSRNOG00000015128 Uble1a block974910 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054425 ENSRNOG00000032060 block974910 (((((((...((...(((((((....)))))))..))...)))....)))) 0.780 -17.80 # #block974910 chromosome:1:76647415:76647465:1 Same_strand|Exonic_non-coding|ENSRNOT00000054425|ENSRNOG00000032060 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000020402|ENSRNOG00000015128 ## Same_strand|Exonic_coding|ENSRNOT00000047289|ENSRNOG00000001492 ## Same_strand|Boundary_non-coding|ENSRNOT00000002042|ENSRNOG00000001492 ## ENSRNOG00000032060|miRNA|| ## ENSRNOG00000001492|protein_coding|Slc8a2|Sodium/calcium exchanger 2 precursor (Na(+)/Ca(2+)-exchange protein 2). [Source:UniProtKB/Swiss-Prot;Acc:P48768] ## ENSRNOG00000015128|protein_coding|Uble1a|SUMO-activating enzyme subunit 1 (Ubiquitin-like 1-activating enzyme E1A). [Source:UniProtKB/Swiss-Prot;Acc:Q6AXQ0] ========== block987819 (miRNA) [miRNAunknown_lenNOK_multiarm_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block987819: 0.393 #forester #identity: 0.00 block987819 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 block987819 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 block987819 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 block987819 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 block987819 cccaggcatctctgggcaagtatctctttgAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggg **************************************************************************** block987819 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......... #ENSRNOT00000054421 ENSRNOG00000036300 block987819 (((((((((....((((.(((....(((((((.......))).))))....)))..))))..)))))).....))) 0.690 -20.40 # #block987819 chromosome:1:101125881:101125956:1 Same_strand|Exonic_non-coding|ENSRNOT00000054421|ENSRNOG00000036300 ## ENSRNOG00000036300|miRNA|| ========== block993126 (miRNA) [miRNAunknown_lenNOK_loopOverlap] ========== #randfold block993126: 0.396 #forester #identity: 0.00 block993126 CCTTTGTTTTTACAGCTTACAGTCA #rat_gr387077_libT3S2 25 1 block993126 gctgggttttcactggctctgacacttacagggtttaggagcagtcttCCTTTGTTTTTACAGCTTACAGTCAggctttggctagatcaggtaccagt ************************************************************************************************** block993126 ........................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000053681 ENSRNOG00000035558 block993126 (((((.......(((((((((((.......((((((((((((((.......))))))))).)))))...))))).....))))))........))))) 0.580 -24.46 # #block993126 chromosome:1:115954523:115954620:1 Opposite_strand|Boundary_non-coding|ENSRNOT00000053681|ENSRNOG00000035558 ## ENSRNOG00000035558|miRNA|| ========== block1005545 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block1005545: 0.025 #forester #identity: 0.00 block1005545 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block1005545 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block1005545 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000035257 ENSRNOG00000022941 LOC682465 block1005545 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054418 ENSRNOG00000036296 block1005545 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block1005545 chromosome:1:146506989:146507045:1 Same_strand|Exonic_non-coding|ENSRNOT00000054418|ENSRNOG00000036296 ## Same_strand|Exonic_coding|ENSRNOT00000035257|ENSRNOG00000022941 ## ENSRNOG00000036296|miRNA|| ## ENSRNOG00000022941|protein_coding|LOC682465| ========== block1021844 (miRNA) [miRNAunknown_lenNOK_shortStem] ========== #randfold block1021844: 0.216 #forester #identity: 0.00 block1021844 GCGGGGCTAGGGCCGGGA #rat_gr564790_libT1S1 18 1 block1021844 gctgGCGGGGCTAGGGCCGGGAcagagcccgtggtggggcggcctgcggtccggcgatctcaggctgcgcgccaggccccggcgccgctctttcggcctgccgtccctccgg **************************************************************************************************************** block1021844 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000025618 ENSRNOG00000018916 NP_001099768.1 block1021844 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................................... #ENSRNOT00000062140 ENSRNOG00000040387 block1021844 .((((.(((((..((((((((..(((((..(((.(((((((((.(((((((.((.....)).))))))).)))..)))))).))).)))))))))))))...))))).)))) 0.990 -66.30 # #block1021844 chromosome:1:186997225:186997336:1 Same_strand|Exonic_non-coding|ENSRNOT00000062140|ENSRNOG00000040387 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000025618|ENSRNOG00000018916 ## ENSRNOG00000040387|miRNA|| ## ENSRNOG00000018916|protein_coding|NP_001099768.1|B-cell CLL/lymphoma 7C [Source:RefSeq_peptide;Acc:NP_001099768] ========== block1044021 (miRNA) [miRNAunknown] ========== #randfold block1044021: 0.168 #forester #identity: 0.00 block1044021 TGATAGCCCTGTACAATGCTGCT #rat_gr954367_libT5S2 23 2 block1044021 gttaataaagctacatctgtcctcaggggctgccacctggggctctggctggctttggctgtagcaagctctctgtgcttTGATAGCCCTGTACAATGCTGCTtgaact ************************************************************************************************************* block1044021 ----------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000025736 ENSRNOG00000018944 NP_001099843.1 block1044021 ........................................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000053762 ENSRNOG00000035639 rno-mir-107 block1044021 (((....((((..(((.(((.....(((((((.(((..((((((...((((((....)))..))).))))))..)))......)))))))..))))))..)))).))). 0.600 -33.10 # #block1044021 chromosome:1:238806768:238806876:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000053762|ENSRNOG00000035639 ## Opposite_strand|Intronic_coding|ENSRNOT00000025736|ENSRNOG00000018944 ## ENSRNOG00000035639|miRNA|rno-mir-107|rno-mir-107 [Source:miRBase;Acc:MI0000890] ## ENSRNOG00000018944|protein_coding|NP_001099843.1|pantothenate kinase 1 [Source:RefSeq_peptide;Acc:NP_001099843] ========== block1131275 (miRNA) [miRNAunknown_multiarm_5varHIGH_loopOverlap] ========== #randfold block1131275: 0.026 #forester #identity: 0.00 block1131275 CCTTCAAGTATGCCTGGGTC #rat_gr383370_libT2S1 20 1 block1131275 GCTCCTTCAAGTATGCCTGGG #rat_gr569684_libT1S1 21 1 block1131275 TGGGAAAAGGCTCCTTCAAGT #rat_gr1020427_libT5S2 21 1 block1131275 agtttgaaaaggaggctgctgagaTGGGAAAAGGCTCCTTCAAGTATGCCTGGGTCttgggcaaactg ******************************************************************** block1131275 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............................................ #ENSRNOT00000063218 ENSRNOG00000041465 block1131275 ((((((..((((((((((((..((.((((......)))))).)))).))))...))))...)))))). 0.860 -20.90 # #block1131275 chromosome:2:19568117:19568184:-1 Same_strand|Boundary_non-coding|ENSRNOT00000063218|ENSRNOG00000041465 ## ENSRNOG00000041465|miRNA|| ========== block1131276 (miRNA) [miRNAunknown_lenNOK_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block1131276: 0.464 #forester #identity: 0.00 block1131276 AGTCCACCACAACCGGCCAC #rat_gr196898_libT1S1 20 1 block1131276 GGCAAGTCCACCACAACCG #rat_gr592498_libT2S2 19 1 block1131276 ttctGGCAAGTCCACCACAACCGGCCACctgctctacaaatgtgatggaatcgataaaagaa ************************************************************** block1131276 .................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063218 ENSRNOG00000041465 block1131276 .(((......((((.((((...(((.....))).......)))).)))).........))). 0.910 -9.26 # #block1131276 chromosome:2:19568194:19568255:-1 Same_strand|Boundary_non-coding|ENSRNOT00000063218|ENSRNOG00000041465 ## ENSRNOG00000041465|miRNA|| ========== block1150311 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block1150311: 0.025 #forester #identity: 0.00 block1150311 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block1150311 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block1150311 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054544 ENSRNOG00000036432 block1150311 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000049594 ENSRNOG00000039093 block1150311 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block1150311 chromosome:2:61990117:61990173:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054544|ENSRNOG00000036432 ## ENSRNOG00000039093|pseudogene|| ## ENSRNOG00000036432|miRNA|| ========== block1348807 (miRNA) [miRNAunknown_lenNOK_nonpairedHIGH] ========== #randfold block1348807: 0.015 #forester #identity: 0.00 block1348807 GAGTACCCAGACAGAATCA #rat_gr515930_libT2S1 19 2 block1348807 cctgggtggggggactgggtctgggatgggtaccctccttatcagcaagatccgggagGAGTACCCAGACAGAATCAtgaacaccttcagtgtggt ************************************************************************************************ block1348807 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000013863 ENSRNOG00000010170 Tubb4 block1348807 .............................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063246 ENSRNOG00000041493 block1348807 ((....((..((...((..((((...(((((((((((((.(((.....)))..)))))).)))))))..))))..))......))..))....)). 0.800 -38.40 # #block1348807 chromosome:3:3388023:3388118:-1 Same_strand|Exonic_coding|ENSRNOT00000013863|ENSRNOG00000010170 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063246|ENSRNOG00000041493 ## ENSRNOG00000041493|miRNA|| ## ENSRNOG00000010170|protein_coding|Tubb4|Tubulin beta-2C chain. [Source:UniProtKB/Swiss-Prot;Acc:Q6P9T8] ========== block1403937 (miRNA) [miRNAunknown_lenNOK_nonpairedHIGH] ========== #randfold block1403937: 0.094 #forester #identity: 0.00 block1403937 GGGCAGACTGGGCAGGAGA #rat_gr606167_libT2S1 19 1 block1403937 tagggagctaaggttccagagagctgggcttcgagaggaagtGGGCAGACTGGGCAGGAGAgacct ****************************************************************** block1403937 ....................................................>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000062121 ENSRNOG00000040368 block1403937 .(((...((...((.((((...(((..(((((.....))))).)))...))))))...))...))) 0.970 -18.30 # #block1403937 chromosome:3:119122143:119122208:-1 Same_strand|Boundary_non-coding|ENSRNOT00000062121|ENSRNOG00000040368 ## ENSRNOG00000040368|miRNA|| ========== block1786309 (miRNA) [miRNAunknown_shortStem] ========== #randfold block1786309: 0.070 #forester #identity: 0.00 block1786309 GCATCTGGCATTGTGGTTCC #rat_gr537538_libT3S1 20 1 block1786309 tgGCATCTGGCATTGTGGTTCCtgcatgaaaacagtggccggcggggcctggacctacaataccacttctgcagtcacagtgaagtctgcca ******************************************************************************************** block1786309 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000050705 ENSRNOG00000030438 LOC689401 block1786309 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...... #ENSRNOT00000054580 ENSRNOG00000036472 block1786309 .((((.((..((((((((...(((((.((....(((((......(((......)))......)))))))))))))))))))).))..)))). 0.700 -31.50 # #block1786309 chromosome:5:146450651:146450742:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054580|ENSRNOG00000036472 ## Same_strand|Exonic_coding|ENSRNOT00000050705|ENSRNOG00000030438 ## ENSRNOG00000036472|miRNA|| ## ENSRNOG00000030438|protein_coding|LOC689401|60S ribosomal protein L37a. [Source:UniProtKB/Swiss-Prot;Acc:P61515] ========== block1888094 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block1888094: 0.025 #forester #identity: 0.00 block1888094 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block1888094 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block1888094 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000044711 ENSRNOG00000031506 Ftl1 block1888094 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054579 ENSRNOG00000036471 block1888094 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block1888094 chromosome:5:152846605:152846661:1 Same_strand|Exonic_coding|ENSRNOT00000044711|ENSRNOG00000031506 ## Same_strand|Exonic_non-coding|ENSRNOT00000054579|ENSRNOG00000036471 ## ENSRNOG00000036471|miRNA|| ## ENSRNOG00000031506|protein_coding|Ftl1|Ferritin light chain 1 (Ferritin L subunit 1). [Source:UniProtKB/Swiss-Prot;Acc:P02793] ========== block1969405 (miRNA) [miRNAunknown_lenNOK_Multihit_bulgeHIGH] ========== #randfold block1969405: 0.120 #forester #identity: 0.00 block1969405 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 block1969405 gccccaggtatctgtgGGCGAGTATCTCTTTGAGtgcctcactcttaagctcaactcagaggcctctgcgccttccaaggggc *********************************************************************************** block1969405 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............ #ENSRNOT00000054608 ENSRNOG00000036500 block1969405 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................. #ENSRNOT00000006164 ENSRNOG00000004662 block1969405 (((((.((.......(((((((....(((((((((..................)))))))))...)).))))).))..))))) 0.610 -27.37 # #block1969405 chromosome:6:115677153:115677235:-1 Same_strand|Exonic_non-coding|ENSRNOT00000006164|ENSRNOG00000004662 ## ENSRNOG00000036500|miRNA|| ## ENSRNOG00000004662|pseudogene|| ========== block1981451 (miRNA) [miRNAunknown_bulgeHIGH] ========== #randfold block1981451: 0.152 #forester #identity: 0.00 block1981451 GGTAGTGGGCCGAGCCGAGTGACA #rat_gr618578_libT2S2 24 1 block1981451 ccgcgttgGGTAGTGGGCCGAGCCGAGTGACAtacacctacgttaagtgcatgctcacccgaggcacacttacctgaagg ******************************************************************************** block1981451 .............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........... #ENSRNOT00000062113 ENSRNOG00000040360 block1981451 ((...((((((((((.(((....((.(((((((.(((.........))).))).)))).)).))).)))).)))))).)) 1.000 -26.90 # #block1981451 chromosome:6:134416220:134416299:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000062113|ENSRNOG00000040360 ## ENSRNOG00000040360|miRNA|| ========== block2010885 (miRNA) [miRNAunknown_lenNOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block2010885: 0.350 #forester #identity: 0.00 block2010885 TGGGCGAGTATCTCCTTGA #rat_gr1035482_libT3S2 19 1 block2010885 ggcaggaccacaaccagcgcagactggcatgatccagccatctcTGGGCGAGTATCTCCTTGAgtgcc ******************************************************************** block2010885 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000009779 ENSRNOG00000024503 CT025539.18 block2010885 >>>>>>>>>>>>>>>>>>............................................................ #ENSRNOT00000044011 ENSRNOG00000029714 block2010885 ...>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054618 ENSRNOG00000036511 block2010885 (((((((.....((..((.((((.((((........))))..)))).))..))...)))).....))) 0.610 -20.30 # #block2010885 chromosome:6:36946371:36946438:1 Same_strand|Boundary_non-coding|ENSRNOT00000035660|ENSRNOG00000024503 ## Same_strand|Exonic_non-coding|ENSRNOT00000054618|ENSRNOG00000036511 ## Same_strand|Intronic_coding|ENSRNOT00000009779|ENSRNOG00000024503 ## ENSRNOG00000024503|protein_coding|CT025539.18|4933425L03Rik protein [Source:UniProtKB/TrEMBL;Acc:Q6PGH6] ## ENSRNOG00000036511|miRNA|| ========== block2029349 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block2029349: 0.004 #forester #identity: 0.00 block2029349 ATGGCTCTCACTGAAGACC #rat_gr234045_libT3S1 19 1 block2029349 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT2S2 20 1 block2029349 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT5S2 20 1 block2029349 cagacaggtgtcATGGCTCTCACTGAAGACCAgcagtcgtactgtagctgttggtttcaagcagacgcctagagaactgtct ********************************************************************************** block2029349 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000049945 ENSRNOG00000032407 Npas3 block2029349 ..................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063231 ENSRNOG00000041478 block2029349 .((((((...((..((((((..((..(((((((((((.........)))))))))))..)).))).)))..))...)))))) 1.000 -30.50 # #block2029349 chromosome:6:73866630:73866711:1 Same_strand|Intronic_coding|ENSRNOT00000049945|ENSRNOG00000032407 ## Same_strand|Boundary_non-coding|ENSRNOT00000063231|ENSRNOG00000041478 ## ENSRNOG00000041478|miRNA|| ## ENSRNOG00000032407|protein_coding|Npas3|neuronal PAS domain protein 3 Gene [Source:MGI Symbol;Acc:MGI:1351610] ========== block2029350 (miRNA) [miRNAunknown_lenNOK_5varHIGH_randfoldOK] ========== #randfold block2029350: 0.009 #forester #identity: 0.00 block2029350 TGTCTTCCTGTGGTTTGTTG #rat_gr1082401_libT1S1 20 2 block2029350 GTCTTCCTGTGGTTTGTT #rat_gr642276_libT1S1 18 2 block2029350 TCTTCCTGTGGTTTGTTG #rat_gr913073_libT1S1 18 1 block2029350 CTTCCTGTGGTTTGTTGGCTC #rat_gr462465_libT1S1 21 1 block2029350 tcaagcagacgcctagagaacTGTCTTCCTGTGGTTTGTTGGCTCttctggacttcaatagagagtgactattccatttggaagaaacaaccccttgttgtgtctggtttgac ***************************************************************************************************************** block2029350 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000049945 ENSRNOG00000032407 Npas3 block2029350 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....................................................................................... #ENSRNOT00000063231 ENSRNOG00000041478 block2029350 ((((((((((((...(((.....((((((.((((...(((.((((.((((........)))))))))))....))))..))))))........)))...))))))).))))). 0.850 -35.42 # #block2029350 chromosome:6:73866686:73866798:1 Same_strand|Intronic_coding|ENSRNOT00000049945|ENSRNOG00000032407 ## Same_strand|Boundary_non-coding|ENSRNOT00000063231|ENSRNOG00000041478 ## ENSRNOG00000041478|miRNA|| ## ENSRNOG00000032407|protein_coding|Npas3|neuronal PAS domain protein 3 Gene [Source:MGI Symbol;Acc:MGI:1351610] ========== block2174028 (miRNA) [miRNAunknown_nonpairedHIGH] ========== #randfold block2174028: 0.025 #forester #identity: 0.00 block2174028 AGAGGGAGACCCAGGCTCGGAC #rat_gr144381_libT5S2 22 1 block2174028 ccggaggggctgaggggggatggggggaAGAGGGAGACCCAGGCTCGGACcgaacaataagcaccctcgagatccgagcaccggggacccccctcccgcccctcccgagtcgctgg ******************************************************************************************************************** block2174028 ------------------------------------------------------------------------------------------------------------------------------ #ENSRNOT00000022247 ENSRNOG00000016598 NP_001101586.1 block2174028 .....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<............. #ENSRNOT00000054621 ENSRNOG00000036514 block2174028 ((((...((((..((((((.(((((((....(((...(((..(((((((.(((.............)))...)))))))...)))..))).))))))).))))))..)))).)))) 0.420 -55.92 # #block2174028 chromosome:7:141778222:141778337:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054621|ENSRNOG00000036514 ## Opposite_strand|Intronic_coding|ENSRNOT00000022247|ENSRNOG00000016598 ## ENSRNOG00000016598|protein_coding|NP_001101586.1|homeo box C5 [Source:RefSeq_peptide;Acc:NP_001101586] ## ENSRNOG00000036514|miRNA|| ## {SimpF: oe = 0.80 -1 CpG} ========== block2186333 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block2186333: 0.025 #forester #identity: 0.00 block2186333 GGCAGGGCCACAACCAGCG #rat_gr593905_libT3S2 19 1 block2186333 ccgtagggtGGCAGGGCCACAACCAGCGcagactggcgtggcccaggcatctctggg ********************************************************* block2186333 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000052297 ENSRNOG00000039298 RGD1560687_predicted block2186333 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054635 ENSRNOG00000036528 block2186333 ((.(((((..((.(((((((..((((......)))).)))))))..))..))))))) 1.000 -27.70 # #block2186333 chromosome:7:13799804:13799860:1 Same_strand|Exonic_coding|ENSRNOT00000052297|ENSRNOG00000039298 ## Same_strand|Exonic_non-coding|ENSRNOT00000054635|ENSRNOG00000036528 ## ENSRNOG00000039298|protein_coding|RGD1560687_predicted| ## ENSRNOG00000036528|miRNA|| ========== block2186335 (miRNA) [miRNAunknown_lenNOK_loopOverlap] ========== #randfold block2186335: 0.448 #forester #identity: 0.00 block2186335 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 block2186335 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 block2186335 ttgagcgcctcattcTGAAGCACGACTAGGCCTCTGTGccttccaaggggctccctcctctgctctacaccggccgcctcag ********************************************************************************** block2186335 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000052297 ENSRNOG00000039298 RGD1560687_predicted block2186335 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........................................... #ENSRNOT00000054635 ENSRNOG00000036528 block2186335 .((((((((.......((.(((.((...(((((((..........)))))))...))...)))))......))).)).))). 0.590 -20.62 # #block2186335 chromosome:7:13799872:13799953:1 Same_strand|Exonic_non-coding|ENSRNOT00000054635|ENSRNOG00000036528 ## ENSRNOG00000039298|protein_coding|RGD1560687_predicted| ## ENSRNOG00000036528|miRNA|| ========== block2203384 (miRNA) [miRNAunknown_lenNOK_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block2203384: 0.106 #forester #identity: 0.00 block2203384 TACAAATGTGGTGGAATC #rat_gr739511_libT3S2 18 1 block2203384 ccacaactggccacctgatcTACAAATGTGGTGGAATCaacaaaaaaaaccatcgaaaagtttgaaaaggaggctgctgagatggg ************************************************************************************** block2203384 ...>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.... #ENSRNOT00000063371 ENSRNOG00000041618 block2203384 (((.....((((.(((......(((((.((((((...............))))))....)))))...))).)))).......))). 0.890 -18.56 # #block2203384 chromosome:7:37002753:37002838:1 Same_strand|Exonic_non-coding|ENSRNOT00000063371|ENSRNOG00000041618 ## ENSRNOG00000041618|miRNA|| ========== block2247822 (miRNA) [miRNAunknown_lenNOK_multiarm_5varHIGH_loopOverlap_randfoldOK] ========== #randfold block2247822: 0.002 #forester #identity: 0.00 block2247822 TGAGAACTTACCTTGTTGT #rat_gr939998_libT5S1 19 2 block2247822 TACCTTGTTGTGGGGGTCCA #rat_gr752368_libT5S1 20 2 block2247822 AACTTACCTTGTTGTGGGGGT #rat_gr39444_libT5S1 21 1 block2247822 aaactggagcagaaagttaggaccTGAGAACTTACCTTGTTGTGGGGGTCCAtggtgaggagtggttgtcaggggggacgaccaagttta ****************************************************************************************** block2247822 ......................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054628 ENSRNOG00000036521 block2247822 (((((((........(((....(((((.((((..(((..((((((....))))))..)))...)))).)))))...)))..))).)))). 0.410 -29.50 # #block2247822 chromosome:7:112748651:112748740:1 Same_strand|Boundary_non-coding|ENSRNOT00000054628|ENSRNOG00000036521 ## ENSRNOG00000036521|miRNA|| ========== block2286931 (miRNA) [miRNAunknown_lenNOK_shortStem_nonpairedHIGH] ========== #randfold block2286931: 0.453 #forester #identity: 0.00 block2286931 ACAGTAGTCAGCACATTGGTTA #rat_gr81430_libT5S1 22 1 block2286931 ACAGTAGTCAGCACATTGG #rat_gr81429_libT4S2 19 1 block2286931 ACAGTAGTCAGCACATTGGTTAggctgggcttgggtcagcagtgacagtgggaacagaccatctaaggtgagtgccatctctgt ************************************************************************************ block2286931 ---------------------------------------------------------------------------------------------- #ENSRNOT00000010947 ENSRNOG00000007649 Dnm2 block2286931 ---------------------------------------------------------------------------------------------- #ENSRNOT00000010362 ENSRNOG00000007649 Dnm2 block2286931 ---------------------------------------------------------------------------------------------- #ENSRNOT00000052366 ENSRNOG00000007649 Dnm2 block2286931 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................................................. #ENSRNOT00000063014 ENSRNOG00000041261 block2286931 ((((.((...((((.((((...(((((..(((..((((....))))...)))..))).))..)))).....))))...)))))) 0.640 -22.80 # #block2286931 chromosome:8:20600449:20600532:-1 Opposite_strand|Intronic_coding|ENSRNOT00000052366|ENSRNOG00000007649 ## Same_strand|Exonic_non-coding|ENSRNOT00000063014|ENSRNOG00000041261 ## ENSRNOG00000041261|miRNA|| ## ENSRNOG00000007649|protein_coding|Dnm2|Dynamin-2 (EC 3.6.5.5). [Source:UniProtKB/Swiss-Prot;Acc:P39052] ========== block2304553 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_nonpairedHIGH] ========== #randfold block2304553: 0.152 #forester #identity: 0.00 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT2S1 18 129 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT3S2 18 96 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT1S2 18 83 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT2S2 18 80 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT3S1 18 77 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT1S1 18 70 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT5S2 18 63 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT4S2 18 61 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT4S1 18 46 block2304553 ATCTCGCTGGGGCCTCCA #rat_gr224351_libT5S1 18 44 block2304553 TCTCGCTGGGGCCTCCAGAAA #rat_gr901483_libT1S1 21 1 block2304553 TCTCGCTGGGGCCTCCAGAAA #rat_gr901483_libT5S1 21 1 block2304553 ATCTCGCTGGGGCCTCCAGAA #rat_gr224358_libT1S1 21 1 block2304553 TCTCGCTGGGGCCTCCAGA #rat_gr901482_libT3S1 19 1 block2304553 ATCTCGCTGGGGCCTCCAGA #rat_gr224357_libT5S2 20 1 block2304553 TCTCGCTGGGGCCTCCAG #rat_gr901481_libT1S1 18 1 block2304553 TCTCGCTGGGGCCTCCAG #rat_gr901481_libT3S2 18 1 block2304553 ATCTCGCTGGGGCCTCCAG #rat_gr224356_libT1S2 19 1 block2304553 aggtggcccttcagcccgagtcccagagtaagagtcaggccttagaatttggatgagtggtctgATCTCGCTGGGGCCTCCAgaaaatattagttccatc **************************************************************************************************** block2304553 ......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...................... #ENSRNOT00000054644 ENSRNOG00000036537 block2304553 .(((((..((.......(((((((((.....((((((((((.................))))))).))).))))))).))...........))..))))) 0.570 -30.90 # #block2304553 chromosome:8:47940272:47940371:-1 Same_strand|Boundary_non-coding|ENSRNOT00000054644|ENSRNOG00000036537 ## ENSRNOG00000036537|miRNA|| ========== block2309808 (miRNA) [miRNAunknown_lenNOK_bulgeHIGH] ========== #randfold block2309808: 0.137 #forester #identity: 0.00 block2309808 ATTCCGGCAAGTCCACCA #rat_gr242002_libT1S2 18 3 block2309808 TCCGGCAAGTCCACCACAAC #rat_gr867873_libT3S1 20 1 block2309808 gacacatagATTCCGGCAAGTCCACCACAACtggactcctgatctacaaatgtggtgggatcggcaaaagaaccgtc ***************************************************************************** block2309808 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000035438 ENSRNOG00000027199 block2309808 ...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063281 ENSRNOG00000041528 block2309808 (((.........((((....(((((((((..((((.......))))....))))))))).))))..........))) 0.700 -18.61 # #block2309808 chromosome:8:55728692:55728768:-1 Same_strand|Boundary_non-coding|ENSRNOT00000063281|ENSRNOG00000041528 ## Same_strand|Exonic_coding|ENSRNOT00000035438|ENSRNOG00000027199 ## ENSRNOG00000041528|miRNA|| ## ENSRNOG00000027199|protein_coding|| ========== block2366963 (miRNA) [miRNAunknown_Multihit_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block2366963: 0.009 #forester #identity: 0.00 block2366963 TCCGTAGGGTGGCAGGGCCAC #rat_gr868534_libT5S1 21 1 block2366963 cctctgtgacttgttggaaagccactttctggataaggaggtgaagctcatcaagaagatgggcaaccacctgaccaaccTCCGTAGGGTGGCAGGGCCACtaccagcgcagactggc ********************************************************************************************************************** block2366963 ............................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054637 ENSRNOG00000036530 block2366963 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000034574 ENSRNOG00000026524 block2366963 ((((((((.((.(((((...((((((((.((((...(((((((..(((((((.....)))))))...)))))..))....)))).))))))))....)))..)).))))))))..)). 0.850 -45.80 # #block2366963 chromosome:8:125535758:125535875:-1 Same_strand|Boundary_non-coding|ENSRNOT00000054637|ENSRNOG00000036530 ## Same_strand|Exonic_non-coding|ENSRNOT00000034574|ENSRNOG00000026524 ## ENSRNOG00000026524|pseudogene|| ## ENSRNOG00000036530|miRNA|| ========== block2575647 (miRNA) [miRNAunknown_Multihit_shortStem_nonpairedHIGH] ========== #randfold block2575647: 0.250 #forester #identity: 0.00 block2575647 TCCGTAGGGTGGCAGGGCCAC #rat_gr868534_libT5S1 21 1 block2575647 TCCGTAGGGTGGCAGGGCCACaaccagcatagtcaggtgtgcaccatgcacctctggg ********************************************************** block2575647 -------------------------------------------------------------------- #ENSRNOT00000018552 ENSRNOG00000013781 Kcnq5 block2575647 -------------------------------------------------------------------- #ENSRNOT00000040034 ENSRNOG00000013781 Kcnq5 block2575647 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++>>>>>>>>>>> #ENSRNOT00000048965 ENSRNOG00000030559 block2575647 ............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054654 ENSRNOG00000036549 block2575647 .(((.(((...(((((..(((.(((..........))))))..)).))).))).))). 0.470 -19.30 # #block2575647 chromosome:9:20293764:20293821:1 Opposite_strand|Intronic_coding|ENSRNOT00000018552|ENSRNOG00000013781 ## Same_strand|Exonic_coding|ENSRNOT00000048965|ENSRNOG00000030559 ## Same_strand|Boundary_non-coding|ENSRNOT00000054654|ENSRNOG00000036549 ## ENSRNOG00000036549|miRNA|| ## ENSRNOG00000013781|protein_coding|Kcnq5|Potassium voltage-gated channel KQT-like subfamily member 5 (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q8K3W7] ## ENSRNOG00000030559|protein_coding|| ========== block2575648 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block2575648: 0.008 #forester #identity: 0.00 block2575648 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 block2575648 acctctgGGCGAGTATCTCTTTGAGcgcctcactttcaagcaggaataggaggccttccgagcgaagccgccttagg ***************************************************************************** block2575648 --------------------------------------------------------------------------------------- #ENSRNOT00000018552 ENSRNOG00000013781 Kcnq5 block2575648 --------------------------------------------------------------------------------------- #ENSRNOT00000040034 ENSRNOG00000013781 Kcnq5 block2575648 ++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................. #ENSRNOT00000048965 ENSRNOG00000030559 block2575648 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................... #ENSRNOT00000054654 ENSRNOG00000036549 block2575648 .(((..(((((.((.((.(((.(((.(((((...(((......)))...))))).))).))).)).))))))).))) 1.000 -30.80 # #block2575648 chromosome:9:20293813:20293889:1 Opposite_strand|Intronic_coding|ENSRNOT00000018552|ENSRNOG00000013781 ## Same_strand|Exonic_coding|ENSRNOT00000048965|ENSRNOG00000030559 ## Same_strand|Exonic_non-coding|ENSRNOT00000054654|ENSRNOG00000036549 ## ENSRNOG00000036549|miRNA|| ## ENSRNOG00000013781|protein_coding|Kcnq5|Potassium voltage-gated channel KQT-like subfamily member 5 (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q8K3W7] ## ENSRNOG00000030559|protein_coding|| ========== block2832336 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block2832336: 0.008 #forester #identity: 0.00 block2832336 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 block2832336 cagagcagactggcgtggcccaggcatctctgGGCGAGTATCTCTTTGAGcacctcactctgaagcactactaggcctctgtgccttccaaggggctccctcctctgctctg **************************************************************************************************************** block2832336 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............................ #ENSRNOT00000054663 ENSRNOG00000036559 block2832336 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................. #ENSRNOT00000049856 ENSRNOG00000034150 block2832336 (((((((((..((...(((((((((((....((((.((((...(((((((.......))).))))...))))..))))..))))))......))))).))...))))))))) 0.590 -43.10 # #block2832336 chromosome:X:139087857:139087968:-1 Same_strand|Exonic_coding|ENSRNOT00000049856|ENSRNOG00000034150 ## Same_strand|Exonic_non-coding|ENSRNOT00000054663|ENSRNOG00000036559 ## ENSRNOG00000034150|protein_coding|| ## ENSRNOG00000036559|miRNA|| ========== block2835042 (miRNA) [miRNAunknown_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block2835042: 0.102 #forester #identity: 0.00 block2835042 ATTGGGAACATTTGGCATAC #rat_gr244801_libT4S1 20 1 block2835042 tttgtttttgtaataggaatcagatacggaattctttttgcagtatgttcctgtataagaacataagcgtATTGGGAACATTTGGCATACataattttgtatcaatatatggggagggag ************************************************************************************************************************ block2835042 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000046779 ENSRNOG00000037484 block2835042 ...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...................... #ENSRNOT00000062142 ENSRNOG00000040389 block2835042 (((.(((..((.(((.......(((((((((((.....(((...(((((((((...................)))))))))...))).....)))))))))))..)))))..))).))). 0.810 -24.91 # #block2835042 chromosome:X:139994775:139994894:-1 Opposite_strand|Intronic_coding|ENSRNOT00000046779|ENSRNOG00000037484 ## Same_strand|Exonic_non-coding|ENSRNOT00000062142|ENSRNOG00000040389 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000056740|ENSRNOG00000037484 ## ENSRNOG00000040389|miRNA|| ## ENSRNOG00000037484|protein_coding|| ========== block3181898 (miRNA) [miRNAunknown_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block3181898: 0.371 #forester #identity: 0.00 block3181898 CGGAGATGGGAAAAGGCTCC #rat_gr397098_libT2S1 20 2 block3181898 ggctgCGGAGATGGGAAAAGGCTCCttaaagtatgcctgggtcctggacaaactgaaagct ************************************************************* block3181898 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000017180 ENSRNOG00000012863 LOC364172 block3181898 >>>>>>>>>>>>>>>>>>>>>.................................................. #ENSRNOT00000063327 ENSRNOG00000041574 block3181898 ((((.(((...(((((..((((............))))...)))))......)))..)))) 0.980 -14.70 # #block3181898 chromosome:X:156023014:156023074:1 Same_strand|Boundary_non-coding|ENSRNOT00000063327|ENSRNOG00000041574 ## Same_strand|Exonic_coding|ENSRNOT00000017180|ENSRNOG00000012863 ## ENSRNOG00000041574|miRNA|| ## ENSRNOG00000012863|protein_coding|LOC364172| ========== block2247823 (miRNA) [miRNAunknown_lenNOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block2247823: 0.035 #forester #identity: 0.00 block2247823 GATAGACAAAGAACTGTACA #rat_gr518995_libT5S1 20 4 block2247823 GATAGACAAAGAACTGTAC #rat_gr518994_libT5S1 19 3 block2247823 TAGACAAAGAACTGTACA #rat_gr759751_libT5S1 18 1 block2247823 AGACAAAGAACTGTACATTCT #rat_gr136553_libT5S1 21 1 block2247823 AGACAAAGAACTGTACATTCTG #rat_gr136554_libT5S1 22 1 block2247823 GACAAAGAACTGTACATTCTG #rat_gr491199_libT5S1 21 1 block2247823 ttctgtggGATAGACAAAGAACTGTACAttctggaagaaagacctacatagtgaaagtggctggggaagccaggggtgtgtgtgtgtgtgtctccagagg **************************************************************************************************** block2247823 >>>>>>>>>>>>>>>>>>>........................................................................................... #ENSRNOT00000054628 ENSRNOG00000036521 block2247823 (((((.((((((.(((....((...(((((((((........((..(((.......)))...)).....)))))).)))..)).))).))))))))))). 0.410 -27.72 # #block2247823 chromosome:7:112748741:112748840:1 Same_strand|Boundary_non-coding|ENSRNOT00000054628|ENSRNOG00000036521 ## ENSRNOG00000036521|miRNA|| ========== block360185 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem] ========== #randfold block360185: 0.336 #forester #identity: 0.00 block360185 CTGGTTAATGATAACAATG #rat_gr452532_libT3S2 19 2 block360185 GGTTAATGATAACAATGCA #rat_gr623410_libT3S1 19 1 block360185 aagaCTGGTTAATGATAACAATGCAtcttaaagccttcagaaggaaagaatgttttgtggaccattttgtgtgtgtgggggggcagttttaagttattagttttcaaaatcagtactt ********************************************************************************************************************** block360185 ......>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......... #ENSRNOT00000054493 ENSRNOG00000036375 block360185 ((((((((((..(((.(((((((...((((((((((((........((((((.((....)).))))))..........))))))...)))))).)))).))).))).))))))).))) 0.730 -23.87 # #block360185 chromosome:14:67222702:67222819:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054493|ENSRNOG00000036375 ## ENSRNOG00000036375|miRNA|| ========== block581372 (miRNA) [miRNAunknown_lenNOK_Multihit] ========== #randfold block581372: 0.100 #forester #identity: 0.00 block581372 ATGGCTCTCACTGAAGACC #rat_gr234045_libT3S1 19 1 block581372 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT2S2 20 1 block581372 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT5S2 20 1 block581372 agttgcagattgttataagacaccatttagcATGGCTCTCACTGAAGACCAgcagtcgtactgtagctgttggtttcaagcagacgcctaaagagctgtcttcctgtggtttgttggctc ************************************************************************************************************************ block581372 .....................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................... #ENSRNOT00000063272 ENSRNOG00000041519 block581372 (((((((((((.....((((((...(((.....((((((..((..(((((((((((.........)))))))))))..)).))).)))...)))..)))))).....))))))).)))). 0.680 -31.20 # #block581372 chromosome:16:61728499:61728618:1 Same_strand|Boundary_non-coding|ENSRNOT00000063272|ENSRNOG00000041519 ## ENSRNOG00000041519|miRNA|| ========== block581373 (miRNA) [miRNAunknown_lenNOK_5varHIGH] ========== #randfold block581373: 0.016 #forester #identity: 0.00 block581373 TGTCTTCCTGTGGTTTGTTG #rat_gr1082401_libT1S1 20 2 block581373 GTCTTCCTGTGGTTTGTT #rat_gr642276_libT1S1 18 2 block581373 TCTTCCTGTGGTTTGTTG #rat_gr913073_libT1S1 18 1 block581373 CTTCCTGTGGTTTGTTGGCTC #rat_gr462465_libT1S1 21 1 block581373 tcaagcagacgcctaaagagcTGTCTTCCTGTGGTTTGTTGGCTCttctggacttcaatagagagtgacttttccatctggaagaaacaaccccttgttgtgtctggtttgac ***************************************************************************************************************** block581373 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....................................................................................... #ENSRNOT00000063272 ENSRNOG00000041519 block581373 ((((((((((((...(((.....((((((.((((...(((.((((.((((........)))))))))))....))))..))))))........)))...))))))).))))). 0.780 -34.92 # #block581373 chromosome:16:61728574:61728686:1 Same_strand|Boundary_non-coding|ENSRNOT00000063272|ENSRNOG00000041519 ## ENSRNOG00000041519|miRNA|| ========== block1348162 (miRNA) [miRNAunknown_lenNOK_Multihit_bulgeHIGH] ========== #randfold block1348162: 0.063 #forester #identity: 0.00 block1348162 CTGGTTAATGATAACAATG #rat_gr452532_libT3S2 19 2 block1348162 GGTTAATGATAACAATGCA #rat_gr623410_libT3S1 19 1 block1348162 gaacggtttcagaagtgtttgtctcaattggccttttaagtttaatagtaaaagaCTGGTTAATGATAACAATGCAtcgtaaaaccgtc ***************************************************************************************** block1348162 .........................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054562 ENSRNOG00000036451 block1348162 ..(((((((..((.(((.((((....(((((((.....(((((.........))))))))))))....))))))).))...))))))). 0.990 -18.70 # #block1348162 chromosome:3:2406845:2406933:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054562|ENSRNOG00000036451 ## ENSRNOG00000036451|miRNA|| ========== sblock10005 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerOK_Multihit_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock10005: 0.466 #forester #identity: 0.00 sblock10005 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock10005 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock10005 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock10005 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock10005 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock10005 cccaggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggg **************************************************************************** sblock10005 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000010824 ENSRNOG00000008008 Garnl1 sblock10005 >>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000010684 ENSRNOG00000008008 Garnl1 sblock10005 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......... #ENSRNOT00000054612 ENSRNOG00000036504 sblock10005 (((((((((....((((.(((....(((((((.......))).))))....)))..))))..)))))).....))) 0.550 -21.20 # #sblock10005 chromosome:6:76153136:76153211:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054612|ENSRNOG00000036504 ## Same_strand|Boundary_non-coding|ENSRNOT00000010684|ENSRNOG00000008008 ## Same_strand|Intronic_non-coding|ENSRNOT00000010684|ENSRNOG00000008008 ## Same_strand|Intronic_coding|ENSRNOT00000010824|ENSRNOG00000008008 ## ENSRNOG00000008008|protein_coding|Garnl1|GTPase-activating RapGAP domain-like 1 (GAP-related-interacting partner to E12) (GRIPE) (Tuberin-like protein 1). [Source:UniProtKB/Swiss-Prot;Acc:O55007] ## ENSRNOG00000036504|miRNA|| ========== sblock10783 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerNOK_Multihit] ========== #randfold sblock10783: 0.082 #forester #identity: 0.00 sblock10783 TGTGTGTGGCAGTTTTAAGT #rat_gr1089293_libT2S1 20 1 sblock10783 CTGGTTAATGATAACAATG #rat_gr452532_libT3S2 19 2 sblock10783 GGTTAATGATAACAATGCA #rat_gr623410_libT3S1 19 1 sblock10783 aagaCTGGTTAATGATAACAATGCAttgtaaaaccttcagcaggaaagaaggttttgtggaccactttttttgTGTGTGTGGCAGTTTTAAGTtattcgttttcagaatcagtactt ********************************************************************************************************************* sblock10783 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000010869 ENSRNOG00000008022 Apaf1 sblock10783 ......>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......... #ENSRNOT00000054633 ENSRNOG00000036526 sblock10783 ((((((((((..(((.(((((((.(((.((((((..((((((.(((((((((((.....))))..))))))).)))...)))..))))))))))))).))).))).))))))).))) 0.570 -25.50 # #sblock10783 chromosome:7:27984327:27984443:-1 Same_strand|Intronic_coding|ENSRNOT00000010869|ENSRNOG00000008022 ## Same_strand|Exonic_non-coding|ENSRNOT00000054633|ENSRNOG00000036526 ## ENSRNOG00000036526|miRNA|| ## ENSRNOG00000008022|protein_coding|Apaf1|Apoptotic protease-activating factor 1 (Apaf-1). [Source:UniProtKB/Swiss-Prot;Acc:Q9EPV5] ========== sblock10839 (miRNA) [miRNAunknown_lenNOK_cloningOK_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock10839: 0.001 #forester #identity: 0.00 sblock10839 CCTGAAAACACTGAGGCT #rat_gr377217_libT1S1 18 1 sblock10839 TATACCTCAGTTTTATCAG #rat_gr791676_libT1S2 19 3 sblock10839 TATACCTCAGTTTTATCAGGTG #rat_gr791679_libT1S1 22 2 sblock10839 TATACCTCAGTTTTATCAGGT #rat_gr791678_libT1S2 21 2 sblock10839 TATACCTCAGTTTTATCAGG #rat_gr791677_libT1S1 20 2 sblock10839 TATACCTCAGTTTTATCAGGTG #rat_gr791679_libT1S2 22 1 sblock10839 ATACCTCAGTTTTATCAGG #rat_gr208652_libT1S2 19 1 sblock10839 caggctggggagcattccaagttctgtggtacTATACCTCAGTTTTATCAGGTGttcattcaaatcaCCTGAAAACACTGAGGCTgcgtcccactgaacatcagcttcctggactctg ********************************************************************************************************************** sblock10839 -------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000014703 ENSRNOG00000010865 Cohh1_predicted sblock10839 -------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000033021 ENSRNOG00000010865 Cohh1_predicted sblock10839 ...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....................... #ENSRNOT00000063101 ENSRNOG00000041348 sblock10839 (((.(((((((((.......((((.((((.((....(((((((.((.(((((((...........))))))).)).)))))))....)).)))).))))....)))))))))...))) 0.990 -46.30 # #sblock10839 chromosome:7:71189219:71189336:-1 Opposite_strand|Intronic_non-coding|ENSRNOT00000014703|ENSRNOG00000010865 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000014768|ENSRNOG00000010865 ## Opposite_strand|Intronic_coding|ENSRNOT00000033021|ENSRNOG00000010865 ## Same_strand|Exonic_non-coding|ENSRNOT00000063101|ENSRNOG00000041348 ## ENSRNOG00000010865|protein_coding|Cohh1_predicted| ## ENSRNOG00000041348|miRNA|| ========== sblock11851 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerNOK_loopOverlap_bulgeHIGH] ========== #randfold sblock11851: 0.344 #forester #identity: 0.00 sblock11851 AGAACCATTGAAAAGTTTG #rat_gr133305_libT2S1 19 1 sblock11851 TACAAATGTGGTGGAATCGACAAAA #rat_gr739513_libT5S2 25 1 sblock11851 TACAAATGTGGTGGAATCGACA #rat_gr739512_libT3S2 22 1 sblock11851 TACAAATGTGGTGGAATC #rat_gr739511_libT3S2 18 1 sblock11851 ccggcaagtccaccacaaccggccacctgatcTACAAATGTGGTGGAATCGACAAAAGAACCATTGAAAAGTTTGagaaggaggctgcggaggcaagtataagg ******************************************************************************************************** sblock11851 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++ #ENSRNOT00000013608 ENSRNOG00000009439 Eef1a1 sblock11851 ...............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................. #ENSRNOT00000063162 ENSRNOG00000041409 sblock11851 ((.((..(((..((.....(((((.(((..(((.(((((.((((((..((.......)).))))))....))))))))))).))))).)).)))..))....)) 0.880 -23.70 # #sblock11851 chromosome:8:83465660:83465763:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063162|ENSRNOG00000041409 ## Same_strand|Exonic_coding|ENSRNOT00000013608|ENSRNOG00000009439 ## ENSRNOG00000041409|miRNA|| ## ENSRNOG00000009439|protein_coding|Eef1a1|Elongation factor 1-alpha 1 (EF-1-alpha-1) (Elongation factor 1 A-1) (eEF1A-1) (Elongation factor Tu) (EF-Tu). [Source:UniProtKB/Swiss-Prot;Acc:P62630] ========== sblock12650 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock12650: 0.001 #forester #identity: 0.00 sblock12650 TACATCTGGGCAACTGATTGA #rat_gr745902_libT1S2 21 21 sblock12650 TACATCTGGGCAACTGATTGA #rat_gr745902_libT1S1 21 12 sblock12650 CATCTGGGCAACTGATTGA #rat_gr310941_libT1S2 19 9 sblock12650 TACATCTGGGCAACTGATT #rat_gr745900_libT1S1 19 7 sblock12650 CATCTGGGCAACTGATTGA #rat_gr310941_libT1S1 19 6 sblock12650 TACATCTGGGCAACTGAT #rat_gr745899_libT1S2 18 6 sblock12650 CATCTGGGCAACTGATTGAACT #rat_gr310944_libT1S1 22 5 sblock12650 TACATCTGGGCAACTGATTG #rat_gr745901_libT1S2 20 5 sblock12650 TACATCTGGGCAACTGAT #rat_gr745899_libT1S1 18 5 sblock12650 TACATCTGGGCAACTGATT #rat_gr745900_libT1S2 19 4 sblock12650 CATCTGGGCAACTGATTGAAC #rat_gr310943_libT1S2 21 2 sblock12650 TACATCTGGGCAACTGATTGAAC #rat_gr745903_libT1S1 23 2 sblock12650 TACATCTGGGCAACTGATTGAAC #rat_gr745903_libT1S2 23 2 sblock12650 TACATCTGGGCAACTGATTG #rat_gr745901_libT1S1 20 2 sblock12650 CATCTGGGCAACTGATTGAACT #rat_gr310944_libT1S2 22 1 sblock12650 ACATCTGGGCAACTGATTGAAC #rat_gr84102_libT1S1 22 1 sblock12650 CATCTGGGCAACTGATTGAA #rat_gr310942_libT1S2 20 1 sblock12650 ACATCTGGGCAACTGATTGA #rat_gr84101_libT1S1 20 1 sblock12650 ACATCTGGGCAACTGATTGA #rat_gr84101_libT1S2 20 1 sblock12650 ATACATCTGGGCAACTGATTGA #rat_gr208041_libT1S1 22 1 sblock12650 CATCTGGGCAACTGATTG #rat_gr310940_libT1S1 18 1 sblock12650 GGCAATAAATACATCTGGG #rat_gr592527_libT1S2 19 1 sblock12650 TGGCAATAAATACATCTGG #rat_gr1007690_libT1S2 19 1 sblock12650 TTCATTCGGCTGTCCAGA #rat_gr1113839_libT1S1 18 61 sblock12650 TTCATTCGGCTGTCCAGATGT #rat_gr1113842_libT1S1 21 55 sblock12650 TTCATTCGGCTGTCCAGATGT #rat_gr1113842_libT1S2 21 36 sblock12650 TTCATTCGGCTGTCCAGATG #rat_gr1113841_libT1S1 20 34 sblock12650 TTCATTCGGCTGTCCAGAT #rat_gr1113840_libT1S1 19 30 sblock12650 TTCATTCGGCTGTCCAGA #rat_gr1113839_libT1S2 18 29 sblock12650 TTCATTCGGCTGTCCAGATG #rat_gr1113841_libT1S2 20 27 sblock12650 TTCATTCGGCTGTCCAGAT #rat_gr1113840_libT1S2 19 15 sblock12650 TTCATTCGGCTGTCCAGATGTA #rat_gr1113843_libT1S1 22 13 sblock12650 TTCATTCGGCTGTCCAGATGTA #rat_gr1113843_libT1S2 22 8 sblock12650 TCATTCGGCTGTCCAGATGT #rat_gr825085_libT1S1 20 5 sblock12650 TCATTCGGCTGTCCAGATGTATC #rat_gr825087_libT1S1 23 2 sblock12650 TCATTCGGCTGTCCAGATGTA #rat_gr825086_libT1S2 21 2 sblock12650 CATTCGGCTGTCCAGATGT #rat_gr316085_libT1S1 19 2 sblock12650 TCATTCGGCTGTCCAGATGT #rat_gr825085_libT1S2 20 2 sblock12650 TCATTCGGCTGTCCAGAT #rat_gr825083_libT1S1 18 2 sblock12650 CTGTCCAGATGTATCCAAGTACCC #rat_gr454327_libT1S1 24 1 sblock12650 CTGTCCAGATGTATCCAA #rat_gr454326_libT1S1 18 1 sblock12650 TCATTCGGCTGTCCAGATGTATC #rat_gr825087_libT1S2 23 1 sblock12650 TTCATTCGGCTGTCCAGATGTATC #rat_gr1113844_libT1S1 24 1 sblock12650 TCATTCGGCTGTCCAGATG #rat_gr825084_libT1S1 19 1 sblock12650 gagagatgaggggttaagagTTCATTCGGCTGTCCAGATGTatccaagtaccctgttatttggcaataaaTACATCTGGGCAACTGATTGAacttttcgcttctcttgactc **************************************************************************************************************** sblock12650 ........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.... #ENSRNOT00000063291 ENSRNOG00000041538 sblock12650 (((....(((..((.(((((((((.((((.((((((((((((((((((((......)))))))......))))))))))))).)))).))))))))).))..)))....))) 1.000 -51.70 # #sblock12650 chromosome:X:31139089:31139200:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063291|ENSRNOG00000041538 ## ENSRNOG00000041538|miRNA|| ========== sblock12721 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock12721: 0.001 #forester #identity: 0.00 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT4S1 22 10 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT5S2 21 8 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT1S2 21 7 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT5S2 21 6 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT2S1 21 6 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT1S2 22 5 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT4S1 18 5 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT1S1 21 4 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT2S2 21 4 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT1S1 22 4 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT5S2 22 4 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT4S1 20 4 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT3S1 21 4 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT4S1 21 4 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT3S2 21 3 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT5S1 21 3 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT2S2 22 3 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT3S1 22 3 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT3S2 22 3 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT4S2 22 3 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT1S1 20 3 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT2S1 20 3 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT4S2 20 3 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT1S2 20 3 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT4S1 20 3 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT5S2 20 3 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT2S1 18 3 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT3S1 18 3 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT1S2 21 2 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT3S1 21 2 sblock12721 ATTGGGGACGCTTCGCATTCAT #rat_gr244839_libT5S1 22 2 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT5S1 20 2 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT5S2 20 2 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT5S1 21 2 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT2S2 20 2 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT3S1 20 2 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT4S2 20 2 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT5S1 20 2 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT1S1 18 2 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT1S2 18 2 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT2S2 18 2 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT3S2 18 2 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT4S2 18 2 sblock12721 TTGGGGACGCTTCGCATTCATG #rat_gr1144719_libT1S1 22 1 sblock12721 TTGGGGACGCTTCGCATTCATG #rat_gr1144719_libT4S1 22 1 sblock12721 TGGGGACGCTTCGCATTCAT #rat_gr1037551_libT1S1 20 1 sblock12721 TGGGGACGCTTCGCATTCAT #rat_gr1037551_libT5S1 20 1 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT4S1 21 1 sblock12721 TTGGGGACGCTTCGCATTCAT #rat_gr1144718_libT4S2 21 1 sblock12721 TGGGGACGCTTCGCATTCA #rat_gr1037550_libT1S1 19 1 sblock12721 TTGGGGACGCTTCGCATTCA #rat_gr1144717_libT2S2 20 1 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT1S1 21 1 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT3S2 21 1 sblock12721 ATTGGGGACGCTTCGCATTCA #rat_gr244838_libT4S2 21 1 sblock12721 TTGGGGACGCTTCGCATTC #rat_gr1144716_libT3S1 19 1 sblock12721 TTGGGGACGCTTCGCATTC #rat_gr1144716_libT4S2 19 1 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT1S1 20 1 sblock12721 ATTGGGGACGCTTCGCATTC #rat_gr244837_libT2S1 20 1 sblock12721 TATTGGGGACGCTTCGCATTC #rat_gr801396_libT5S2 21 1 sblock12721 TTGGGGACGCTTCGCATT #rat_gr1144715_libT1S2 18 1 sblock12721 ATTGGGGACGCTTCGCATT #rat_gr244836_libT2S1 19 1 sblock12721 ATTGGGGACGCTTCGCATT #rat_gr244836_libT4S1 19 1 sblock12721 ATTGGGGACGCTTCGCAT #rat_gr244835_libT5S2 18 1 sblock12721 TATTGGGGACGCTTCGCAT #rat_gr801395_libT2S1 19 1 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT5S2 20 450 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT4S1 20 277 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT3S1 20 233 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT5S1 20 194 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT5S1 18 162 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT4S2 20 157 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT3S1 18 156 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT5S2 18 150 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT5S2 19 141 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT4S2 19 127 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT4S1 18 123 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT2S2 20 110 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT3S2 20 110 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT1S1 20 107 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT1S1 18 104 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT5S1 19 102 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT3S2 18 102 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT4S2 18 98 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT2S1 20 94 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT3S1 19 92 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT3S2 19 81 sblock12721 TTTTGCGATGTGTTCCTAAT #rat_gr1186536_libT1S2 20 78 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT1S2 18 75 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT2S1 18 75 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT4S1 19 69 sblock12721 TTTTGCGATGTGTTCCTA #rat_gr1186534_libT2S2 18 69 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT1S1 19 39 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT2S1 19 36 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT2S2 19 36 sblock12721 TTTTGCGATGTGTTCCTAA #rat_gr1186535_libT1S2 19 35 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT5S1 21 21 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT5S2 22 17 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT4S1 21 17 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT4S2 22 13 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT3S2 21 13 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT5S2 19 13 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT3S1 21 10 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT5S2 21 10 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT3S2 22 9 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT2S1 21 9 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT4S2 19 9 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT3S1 22 8 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT1S2 21 8 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT4S2 18 8 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT5S1 23 7 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT4S1 19 7 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT5S1 19 6 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT3S2 23 5 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT1S2 22 5 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT2S2 21 5 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT5S2 18 5 sblock12721 TTTGCGATGTGTTCCTAATAT #rat_gr1169307_libT2S2 21 4 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT1S1 22 4 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT4S1 22 4 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT5S1 22 4 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT3S1 19 4 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT5S1 18 4 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT1S2 23 3 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT3S1 23 3 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT1S1 21 3 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT3S1 18 3 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT4S1 18 3 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT2S1 23 2 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT5S2 23 2 sblock12721 TTTGCGATGTGTTCCTAATAT #rat_gr1169307_libT3S2 21 2 sblock12721 TTTGCGATGTGTTCCTAATAT #rat_gr1169307_libT4S1 21 2 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT2S1 22 2 sblock12721 TTTTGCGATGTGTTCCTAATA #rat_gr1186537_libT4S2 21 2 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT1S2 19 2 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT2S2 19 2 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT1S1 18 2 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT3S2 18 2 sblock12721 TTTGCGATGTGTTCCTAATATG #rat_gr1169308_libT3S2 22 1 sblock12721 TTTGCGATGTGTTCCTAATATG #rat_gr1169308_libT5S2 22 1 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT1S1 23 1 sblock12721 TTTTGCGATGTGTTCCTAATATG #rat_gr1186539_libT4S1 23 1 sblock12721 TTTGCGATGTGTTCCTAATAT #rat_gr1169307_libT1S2 21 1 sblock12721 TTTGCGATGTGTTCCTAATAT #rat_gr1169307_libT5S2 21 1 sblock12721 TTTTGCGATGTGTTCCTAATAT #rat_gr1186538_libT2S2 22 1 sblock12721 TTTGCGATGTGTTCCTAATA #rat_gr1169306_libT1S1 20 1 sblock12721 TTTGCGATGTGTTCCTAATA #rat_gr1169306_libT4S1 20 1 sblock12721 TTTGCGATGTGTTCCTAATA #rat_gr1169306_libT4S2 20 1 sblock12721 TTTGCGATGTGTTCCTAATA #rat_gr1169306_libT5S1 20 1 sblock12721 TTTGCGATGTGTTCCTAATA #rat_gr1169306_libT5S2 20 1 sblock12721 TTTTTGCGATGTGTTCCTAATA #rat_gr1193133_libT3S1 22 1 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT1S1 19 1 sblock12721 TTTGCGATGTGTTCCTAAT #rat_gr1169305_libT3S2 19 1 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT2S1 18 1 sblock12721 TTTGCGATGTGTTCCTAA #rat_gr1169304_libT2S2 18 1 sblock12721 TTTTTGCGATGTGTTCCTAA #rat_gr1193132_libT2S1 20 1 sblock12721 TTTTTGCGATGTGTTCCTA #rat_gr1193131_libT1S1 19 1 sblock12721 TTTTTGCGATGTGTTCCTA #rat_gr1193131_libT5S2 19 1 sblock12721 TTTTTGCGATGTGTTCCT #rat_gr1193130_libT2S2 18 1 sblock12721 AAGCCAGATGCTGAACTAT #rat_gr45950_libT2S1 19 1 sblock12721 AAGCCAGATGCTGAACTAT #rat_gr45950_libT5S1 19 1 sblock12721 aagccagatgctgaactatTTTTGCGATGTGTTCCTAATatgtactatgagtgtattggggacgcttcgcattcatggttctgcatca **************************************************************************************** sblock12721 -------------------------------------------------------------------------------------------------- #ENSRNOT00000046779 ENSRNOG00000037484 sblock12721 ...>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054660 ENSRNOG00000036556 sblock12721 ......(((((.(((((((...(((((.(((((((((((((..((.....))))))))))))))).)))))...))))))).))))). 1.000 -41.20 # #sblock12721 chromosome:X:139995085:139995172:-1 Opposite_strand|Intronic_coding|ENSRNOT00000046779|ENSRNOG00000037484 ## Same_strand|Exonic_non-coding|ENSRNOT00000054660|ENSRNOG00000036556 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000056740|ENSRNOG00000037484 ## ENSRNOG00000036556|miRNA|| ## ENSRNOG00000037484|protein_coding|| ========== sblock12728 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock12728: 0.001 #forester #identity: 0.00 sblock12728 GAGCAGGGCAGGGTTTCCCAT #rat_gr507771_libT4S2 21 6 sblock12728 GAGCAGGGCAGGGTTTCCCA #rat_gr507770_libT4S2 20 6 sblock12728 GAGCAGGGCAGGGTTTCCCA #rat_gr507770_libT1S2 20 4 sblock12728 GAGCAGGGCAGGGTTTCCCA #rat_gr507770_libT4S1 20 4 sblock12728 GAGCAGGGCAGGGTTTCCC #rat_gr507769_libT1S1 19 4 sblock12728 GAGCAGGGCAGGGTTTCCCAT #rat_gr507771_libT1S1 21 3 sblock12728 GAGCAGGGCAGGGTTTCCCAT #rat_gr507771_libT4S1 21 3 sblock12728 AGAGCAGGGCAGGGTTTCCC #rat_gr142883_libT1S1 20 3 sblock12728 AGGGAGAGCAGGGCAGGGTT #rat_gr185455_libT1S1 20 3 sblock12728 GAGCAGGGCAGGGTTTCCCATA #rat_gr507772_libT4S2 22 2 sblock12728 GAGCAGGGCAGGGTTTCCCAT #rat_gr507771_libT1S2 21 2 sblock12728 GAGCAGGGCAGGGTTTCCCAT #rat_gr507771_libT5S1 21 2 sblock12728 GAGCAGGGCAGGGTTTCCC #rat_gr507769_libT1S2 19 2 sblock12728 AGAGCAGGGCAGGGTTTCCC #rat_gr142883_libT4S1 20 2 sblock12728 AGGGAGAGCAGGGCAGGGT #rat_gr185453_libT1S1 19 2 sblock12728 AAGGGAGAGCAGGGCAGGG #rat_gr51920_libT4S1 19 2 sblock12728 GAGCAGGGCAGGGTTTCCCATA #rat_gr507772_libT1S2 22 1 sblock12728 GAGCAGGGCAGGGTTTCCCAT #rat_gr507771_libT5S2 21 1 sblock12728 GAGCAGGGCAGGGTTTCCCA #rat_gr507770_libT1S1 20 1 sblock12728 GAGCAGGGCAGGGTTTCCCA #rat_gr507770_libT3S1 20 1 sblock12728 GAGCAGGGCAGGGTTTCCC #rat_gr507769_libT4S1 19 1 sblock12728 GAGCAGGGCAGGGTTTCCC #rat_gr507769_libT4S2 19 1 sblock12728 GAGCAGGGCAGGGTTTCCC #rat_gr507769_libT5S2 19 1 sblock12728 AGGGAGAGCAGGGCAGGGTTTCCC #rat_gr185459_libT1S2 24 1 sblock12728 AGGGAGAGCAGGGCAGGGTTTCCC #rat_gr185459_libT4S1 24 1 sblock12728 AGGGAGAGCAGGGCAGGGTTTCC #rat_gr185458_libT1S1 23 1 sblock12728 AAGGGAGAGCAGGGCAGGGTTTCC #rat_gr51921_libT4S1 24 1 sblock12728 AGGGAGAGCAGGGCAGGGTTTC #rat_gr185457_libT1S1 22 1 sblock12728 AGGGAGAGCAGGGCAGGGTTTC #rat_gr185457_libT4S2 22 1 sblock12728 AGGGAGAGCAGGGCAGGGTTT #rat_gr185456_libT1S1 21 1 sblock12728 AGGGAGAGCAGGGCAGGGTTT #rat_gr185456_libT1S2 21 1 sblock12728 GGGAGAGCAGGGCAGGGTT #rat_gr604115_libT1S1 19 1 sblock12728 AGGGAGAGCAGGGCAGGGTT #rat_gr185455_libT5S1 20 1 sblock12728 AGGGAGAGCAGGGCAGGGT #rat_gr185453_libT1S2 19 1 sblock12728 AGGGAGAGCAGGGCAGGGT #rat_gr185453_libT4S2 19 1 sblock12728 AGGGAGAGCAGGGCAGGG #rat_gr185452_libT1S2 18 1 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT1S1 22 126 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT1S2 22 98 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT1S2 19 91 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT1S1 18 81 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT1S1 21 78 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT1S2 18 73 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT1S1 19 72 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT1S2 21 64 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT4S2 22 31 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT5S1 22 27 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT4S2 18 27 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT4S1 21 26 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT4S1 19 26 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT4S2 19 25 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT5S1 18 22 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT5S2 22 19 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT4S1 22 17 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT5S2 19 16 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT4S1 18 16 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT5S2 21 15 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT4S2 21 13 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT5S2 18 10 sblock12728 AGACCCTGGTCTGCACTCTGTC #rat_gr138887_libT1S2 22 8 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT3S2 22 7 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT5S1 21 7 sblock12728 GACCCTGGTCTGCACTCTGT #rat_gr496595_libT1S2 20 7 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT5S1 19 7 sblock12728 AGACCCTGGTCTGCACTC #rat_gr138884_libT4S2 18 7 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT3S1 22 6 sblock12728 AGACCCTGGTCTGCACTCTGTCT #rat_gr138888_libT1S1 23 5 sblock12728 AGACCCTGGTCTGCACTC #rat_gr138884_libT1S1 18 5 sblock12728 AGACCCTGGTCTGCACTCTGTC #rat_gr138887_libT1S1 22 4 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT3S1 19 4 sblock12728 AGACCCTGGTCTGCACTCT #rat_gr138885_libT1S1 19 4 sblock12728 AGACCCTGGTCTGCACTCTGTCT #rat_gr138888_libT1S2 23 3 sblock12728 AGACCCTGGTCTGCACTCTGTCT #rat_gr138888_libT4S2 23 3 sblock12728 AGACCCTGGTCTGCACTCT #rat_gr138885_libT5S1 19 3 sblock12728 GACCCTGGTCTGCACTCTGTCTG #rat_gr496598_libT1S2 23 2 sblock12728 AGACCCTGGTCTGCACTCTGTCT #rat_gr138888_libT5S2 23 2 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT3S1 21 2 sblock12728 AGACCCTGGTCTGCACTCTGTC #rat_gr138887_libT5S1 22 2 sblock12728 GACCCTGGTCTGCACTCTGT #rat_gr496595_libT1S1 20 2 sblock12728 GACCCTGGTCTGCACTCTGT #rat_gr496595_libT5S2 20 2 sblock12728 AGACCCTGGTCTGCACTCTG #rat_gr138886_libT1S1 20 2 sblock12728 AGACCCTGGTCTGCACTCTG #rat_gr138886_libT1S2 20 2 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT3S2 18 2 sblock12728 AGACCCTGGTCTGCACTCT #rat_gr138885_libT1S2 19 2 sblock12728 AGACCCTGGTCTGCACTC #rat_gr138884_libT1S2 18 2 sblock12728 CCCTGGTCTGCACTCTGTCTGG #rat_gr362673_libT1S2 22 1 sblock12728 GACCCTGGTCTGCACTCTGTCTG #rat_gr496598_libT1S1 23 1 sblock12728 GACCCTGGTCTGCACTCTGTCTG #rat_gr496598_libT4S2 23 1 sblock12728 GACCCTGGTCTGCACTCTGTCT #rat_gr496597_libT2S2 22 1 sblock12728 AGACCCTGGTCTGCACTCTGTCT #rat_gr138888_libT4S1 23 1 sblock12728 ACCCTGGTCTGCACTCTGTC #rat_gr99744_libT1S1 20 1 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT2S1 21 1 sblock12728 GACCCTGGTCTGCACTCTGTC #rat_gr496596_libT3S2 21 1 sblock12728 AGACCCTGGTCTGCACTCTGTC #rat_gr138887_libT4S1 22 1 sblock12728 GACCCTGGTCTGCACTCTGT #rat_gr496595_libT3S2 20 1 sblock12728 GACCCTGGTCTGCACTCTGT #rat_gr496595_libT4S2 20 1 sblock12728 GACCCTGGTCTGCACTCTGT #rat_gr496595_libT5S1 20 1 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT2S1 19 1 sblock12728 GACCCTGGTCTGCACTCTG #rat_gr496594_libT3S2 19 1 sblock12728 AGACCCTGGTCTGCACTCTG #rat_gr138886_libT4S2 20 1 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT2S1 18 1 sblock12728 GACCCTGGTCTGCACTCT #rat_gr496593_libT3S1 18 1 sblock12728 AGACCCTGGTCTGCACTCT #rat_gr138885_libT3S1 19 1 sblock12728 AGACCCTGGTCTGCACTCT #rat_gr138885_libT4S2 19 1 sblock12728 AGACCCTGGTCTGCACTCT #rat_gr138885_libT5S2 19 1 sblock12728 GAGACCCTGGTCTGCACTCT #rat_gr504397_libT5S1 20 1 sblock12728 AGACCCTGGTCTGCACTC #rat_gr138884_libT5S1 18 1 sblock12728 tggaatgttggaactgctgctgttgggaGACCCTGGTCTGCACTCTGTCTggaaacttacagaagggagagcagggcagggtttcccatacagaggcacaggcaaccac ************************************************************************************************************* sblock12728 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000049429 ENSRNOG00000003523 Fgf13 sblock12728 ......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................. #ENSRNOT00000054382 ENSRNOG00000036259 sblock12728 (((..((((.....((((.((((((((((((((((.(((((.((((.((((........))))..)))).))))).)))))))))))).)))).))))..)))).))). 1.000 -56.70 # #sblock12728 chromosome:X:144243818:144243926:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054382|ENSRNOG00000036259 ## Same_strand|Intronic_coding|ENSRNOT00000049429|ENSRNOG00000003523 ## ENSRNOG00000003523|protein_coding|Fgf13|fibroblast growth factor 13 [Source:RefSeq_peptide;Acc:NP_445880] ## ENSRNOG00000036259|miRNA|| ========== sblock12743 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock12743: 0.002 #forester #identity: 0.00 sblock12743 TGATTGACATGTCTGCAGTGGA #rat_gr956893_libT4S2 22 2 sblock12743 TGATTGACATGTCTGCAGTGGA #rat_gr956893_libT5S2 22 2 sblock12743 TGATTGACATGTCTGCAGTG #rat_gr956892_libT4S1 20 2 sblock12743 TGATTGACATGTCTGCAGTGGAG #rat_gr956894_libT4S2 23 1 sblock12743 TGATTGACATGTCTGCAGTGGA #rat_gr956893_libT5S1 22 1 sblock12743 TGATTGACATGTCTGCAGTG #rat_gr956892_libT4S2 20 1 sblock12743 TGATTGACATGTCTGCAG #rat_gr956891_libT5S1 18 1 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT5S1 21 33 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT5S2 21 30 sblock12743 TACTCCAGAATATGGCAA #rat_gr754429_libT4S2 18 25 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT4S2 21 23 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT4S1 21 16 sblock12743 TACTCCAGAATATGGCAA #rat_gr754429_libT5S1 18 14 sblock12743 TACTCCAGAATATGGCAAT #rat_gr754430_libT5S1 19 11 sblock12743 TACTCCAGAATATGGCAA #rat_gr754429_libT5S2 18 10 sblock12743 TACTCCAGAATATGGCAATCATGC #rat_gr754435_libT5S2 24 9 sblock12743 TACTCCAGAATATGGCAA #rat_gr754429_libT4S1 18 9 sblock12743 TACTCCAGAATATGGCAATCATG #rat_gr754434_libT5S2 23 8 sblock12743 TACTCCAGAATATGGCAATCATGC #rat_gr754435_libT4S2 24 7 sblock12743 TACTCCAGAATATGGCAATCAT #rat_gr754433_libT5S2 22 7 sblock12743 TACTCCAGAATATGGCAATCAT #rat_gr754433_libT4S2 22 6 sblock12743 TACTCCAGAATATGGCAATC #rat_gr754431_libT4S2 20 6 sblock12743 TACTCCAGAATATGGCAAT #rat_gr754430_libT4S2 19 6 sblock12743 TACTCCAGAATATGGCAAT #rat_gr754430_libT4S1 19 4 sblock12743 TACTCCAGAATATGGCAATCATG #rat_gr754434_libT5S1 23 3 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT1S1 21 3 sblock12743 TACTCCAGAATATGGCAAT #rat_gr754430_libT5S2 19 3 sblock12743 TACTCCAGAATATGGCAATCATGC #rat_gr754435_libT1S1 24 2 sblock12743 TACTCCAGAATATGGCAATCATGC #rat_gr754435_libT4S1 24 2 sblock12743 TACTCCAGAATATGGCAATCATG #rat_gr754434_libT4S1 23 2 sblock12743 ACTCCAGAATATGGCAATCA #rat_gr117928_libT5S1 20 2 sblock12743 ACTCCAGAATATGGCAATCATGC #rat_gr117931_libT4S2 23 1 sblock12743 ACTCCAGAATATGGCAATCATGC #rat_gr117931_libT5S2 23 1 sblock12743 TACTCCAGAATATGGCAATCATGC #rat_gr754435_libT3S1 24 1 sblock12743 ACTCCAGAATATGGCAATCATG #rat_gr117930_libT4S1 22 1 sblock12743 TACTCCAGAATATGGCAATCATG #rat_gr754434_libT2S1 23 1 sblock12743 TACTCCAGAATATGGCAATCATG #rat_gr754434_libT3S2 23 1 sblock12743 TACTCCAGAATATGGCAATCATG #rat_gr754434_libT4S2 23 1 sblock12743 ACTCCAGAATATGGCAATCAT #rat_gr117929_libT5S2 21 1 sblock12743 TACTCCAGAATATGGCAATCAT #rat_gr754433_libT2S2 22 1 sblock12743 TACTCCAGAATATGGCAATCAT #rat_gr754433_libT4S1 22 1 sblock12743 ACTCCAGAATATGGCAATCA #rat_gr117928_libT4S1 20 1 sblock12743 ACTCCAGAATATGGCAATCA #rat_gr117928_libT4S2 20 1 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT1S2 21 1 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT2S1 21 1 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT3S1 21 1 sblock12743 TACTCCAGAATATGGCAATCA #rat_gr754432_libT3S2 21 1 sblock12743 TACTCCAGAATATGGCAATC #rat_gr754431_libT4S1 20 1 sblock12743 TACTCCAGAATATGGCAATC #rat_gr754431_libT5S1 20 1 sblock12743 ACTCCAGAATATGGCAAT #rat_gr117927_libT5S1 18 1 sblock12743 TACTCCAGAATATGGCAAT #rat_gr754430_libT3S2 19 1 sblock12743 ttgatcatgacaactgtgtgtggttcttTACTCCAGAATATGGCAATCAtgcataattaaatgtgattgacatgtctgcagtggagtaacacatgcaatatatggcatgtgcag ****************************************************************************************************************** sblock12743 ........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......................... #ENSRNOT00000063039 ENSRNOG00000041286 sblock12743 .((..((((.((..((((((((...(((((((.(((.(((((.(((((..((((......))))))))).)))))))).)))))))...)))))))).....)).))))..)). 0.950 -35.60 # #sblock12743 chromosome:X:154190972:154191085:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063039|ENSRNOG00000041286 ## ENSRNOG00000041286|miRNA|| ========== sblock12807 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock12807: 0.007 #forester #identity: 0.00 sblock12807 CTCTGCAACCTTAGGACTT #rat_gr431329_libT1S2 19 5 sblock12807 CTCTGCAACCTTAGGACT #rat_gr431328_libT2S2 18 2 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT1S1 20 74 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT1S2 20 62 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT1S1 19 60 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT1S1 18 50 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT5S2 20 45 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT5S2 21 38 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT1S2 18 36 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT4S2 20 27 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT1S2 19 26 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT5S2 18 25 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT5S1 20 22 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT1S2 21 22 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT4S2 19 21 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT5S2 19 21 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT5S1 21 21 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT1S1 21 20 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT1S1 22 20 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT4S1 20 19 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT4S1 18 18 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT4S2 18 18 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT4S2 21 16 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT3S1 20 15 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT4S1 19 14 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT3S1 18 13 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT3S2 20 13 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT5S1 19 11 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT4S1 21 11 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT5S1 18 10 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT3S1 19 10 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT4S2 22 9 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT2S2 20 7 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT3S1 21 7 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT3S2 21 7 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT1S2 22 7 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT5S2 22 7 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT4S1 22 6 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT2S1 18 5 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT3S2 19 5 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT3S2 22 5 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT3S2 18 4 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT2S2 21 4 sblock12807 CCGTCCTGAGCTTGTCGAGCTAT #rat_gr369459_libT1S1 23 4 sblock12807 CCGTCCTGAGCTTGTCGAGCTAT #rat_gr369459_libT5S2 23 3 sblock12807 CCGTCCTGAGCTTGTCGA #rat_gr369454_libT2S2 18 2 sblock12807 CCGTCCTGAGCTTGTCGAGCT #rat_gr369457_libT2S1 21 2 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT3S1 22 2 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT5S1 22 2 sblock12807 CCGTCCTGAGCTTGTCGAGCTAT #rat_gr369459_libT3S1 23 2 sblock12807 CCGTCCTGAGCTTGTCGAG #rat_gr369455_libT2S2 19 1 sblock12807 CCGTCCTGAGCTTGTCGAGC #rat_gr369456_libT2S1 20 1 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT2S1 22 1 sblock12807 CCGTCCTGAGCTTGTCGAGCTA #rat_gr369458_libT2S2 22 1 sblock12807 CCGTCCTGAGCTTGTCGAGCTAT #rat_gr369459_libT3S2 23 1 sblock12807 CCGTCCTGAGCTTGTCGAGCTAT #rat_gr369459_libT4S2 23 1 sblock12807 CGTCCTGAGCTTGTCGAGCT #rat_gr404287_libT1S1 20 1 sblock12807 ctttgtgtcatggcttcacctgaatgcatgactctgcaaccttaggacttgcagaattaacagaatgCCGTCCTGAGCTTGTCGAGCTatgcgtttctgggcatttcatctctacaga ********************************************************************************************************************** sblock12807 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000004505 ENSRNOG00000032208 RGD1563178_predicted sblock12807 ..................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..................... #ENSRNOT00000062106 ENSRNOG00000040353 sblock12807 .((((((..((((.....((.(((((((((.(((.((((.((((((((..(((............))).)))))))).)))).))).)))))))))..)).....))))...)))))) 0.980 -38.30 # #sblock12807 chromosome:X:88378172:88378289:1 Same_strand|Exonic_non-coding|ENSRNOT00000062106|ENSRNOG00000040353 ## Same_strand|Intronic_coding|ENSRNOT00000004505|ENSRNOG00000032208 ## ENSRNOG00000040353|miRNA|| ## ENSRNOG00000032208|protein_coding|RGD1563178_predicted| ========== sblock12836 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerNOK_loopOverlap_bulgeHIGH] ========== #randfold sblock12836: 0.078 #forester #identity: 0.00 sblock12836 TACAAATGTGGTGGAATC #rat_gr739511_libT3S2 18 1 sblock12836 TACAAATGTGGTGGAATCGACA #rat_gr739512_libT3S2 22 1 sblock12836 TACAAATGTGGTGGAATCGACAAAA #rat_gr739513_libT5S2 25 1 sblock12836 AGAACCATTGAAAAGTTTG #rat_gr133305_libT2S1 19 1 sblock12836 ggcaagtccaccacaaccggccacctgatcTACAAATGTGGTGGAATCGACAAAAGAACCATTGAAAAGTTTGagaaggaggctgcggagatgggaaaaggctc ******************************************************************************************************** sblock12836 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000017180 ENSRNOG00000012863 LOC364172 sblock12836 .............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............. #ENSRNOT00000063327 ENSRNOG00000041574 sblock12836 (((...(((........(((((.(((..(((.(((((.((((((..((.......)).))))))....))))))))))).)))))........)))....))). 0.990 -27.49 # #sblock12836 chromosome:X:156022934:156023037:1 Same_strand|Exonic_coding|ENSRNOT00000017180|ENSRNOG00000012863 ## Same_strand|Exonic_non-coding|ENSRNOT00000063327|ENSRNOG00000041574 ## ENSRNOG00000041574|miRNA|| ## ENSRNOG00000012863|protein_coding|LOC364172| ========== sblock2014 (miRNA) [miRNAunknown_cloningHIGH_multiarm_DicerNOK_shortStem_bulgeHIGH] ========== #randfold sblock2014: 0.043 #forester #identity: 0.00 sblock2014 TTGGAGACTAAGACAATAGA #rat_gr1141847_libT2S1 20 1 sblock2014 TTGGAGACTAAGACAATAGAG #rat_gr1141848_libT2S1 21 1 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT1S1 21 258 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT1S1 22 249 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT1S2 22 235 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT1S1 19 216 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT1S1 20 215 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT1S2 20 162 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT1S2 21 161 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT1S2 19 151 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT1S1 21 139 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT1S1 18 120 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT3S1 21 106 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT5S1 21 99 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT5S2 22 98 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT1S2 18 85 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT5S2 21 81 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT1S2 21 81 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT1S1 23 77 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT4S2 21 76 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT5S2 20 72 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT3S2 21 72 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT5S1 20 66 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT5S1 21 63 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT5S1 19 60 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT5S1 22 60 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT5S2 21 60 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT3S1 19 58 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT3S1 20 57 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT3S1 22 55 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT5S2 19 54 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT1S2 18 51 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT1S1 18 50 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT1S1 20 49 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT5S2 23 47 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT3S2 22 46 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT1S2 23 43 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT3S2 19 40 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT3S2 20 40 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT1S2 20 40 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT3S1 18 39 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT4S1 19 39 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT4S1 22 39 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT4S2 20 38 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT1S1 22 38 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT4S2 18 36 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT3S1 21 36 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT2S2 21 35 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT1S1 19 35 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT4S1 21 34 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT5S2 18 34 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT4S1 20 30 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT1S2 22 30 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT2S1 22 29 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT1S2 19 28 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT5S1 18 27 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT4S2 19 27 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT5S2 20 27 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT5S2 18 26 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT5S1 18 26 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT2S2 20 25 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT5S1 22 25 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT2S2 19 24 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT5S1 23 24 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT3S1 18 24 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT3S2 21 24 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT2S2 22 23 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT5S1 20 23 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT3S1 23 22 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT3S2 18 22 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT3S2 18 21 sblock2014 AAGGTAGATAGAACAGGTCTT #rat_gr53625_libT2S1 21 21 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT2S1 23 20 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT4S1 23 20 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT3S1 20 19 sblock2014 AAGGTAGATAGAACAGGTC #rat_gr53623_libT2S1 19 18 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT5S2 19 18 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT3S1 22 18 sblock2014 AAGGTAGATAGAACAGGTCT #rat_gr53624_libT2S1 20 16 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT4S2 23 16 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT3S2 23 15 sblock2014 AAGGTAGATAGAACAGGTCTTG #rat_gr53626_libT4S2 22 14 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT3S1 19 14 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT3S2 20 14 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT4S1 18 13 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT2S2 18 13 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT4S2 20 13 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT5S1 19 12 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT4S1 21 12 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT3S2 22 12 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT2S2 18 11 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT3S2 19 11 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT2S2 21 11 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT5S2 22 11 sblock2014 AAGGTAGATAGAACAGGTCTTGT #rat_gr53627_libT2S2 23 10 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT4S2 21 10 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT4S1 18 9 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT4S1 20 9 sblock2014 AAGGTAGATAGAACAGGT #rat_gr53622_libT2S1 18 8 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT2S2 19 8 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT5S2 23 8 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT2S2 20 7 sblock2014 AGGTAGATAGAACAGGTCTTG #rat_gr190355_libT2S1 21 7 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT4S2 22 7 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT4S2 18 6 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT4S2 19 6 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT4S1 22 6 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT1S1 24 5 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT4S1 19 5 sblock2014 AGGTAGATAGAACAGGTCTT #rat_gr190354_libT2S1 20 5 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT2S1 22 5 sblock2014 AGGTAGATAGAACAGGTCTTGT #rat_gr190356_libT2S2 22 5 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT1S1 23 5 sblock2014 AGGTAGATAGAACAGGTC #rat_gr190352_libT2S1 18 4 sblock2014 AGGTAGATAGAACAGGTCT #rat_gr190353_libT2S1 19 4 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT3S1 23 4 sblock2014 AAAGGTAGATAGAACAGGTCT #rat_gr19169_libT5S1 21 2 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT3S2 24 2 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT2S1 23 2 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT5S1 23 2 sblock2014 AAAGGTAGATAGAACAGG #rat_gr19166_libT1S1 18 1 sblock2014 AAAGGTAGATAGAACAGG #rat_gr19166_libT1S2 18 1 sblock2014 AAAGGTAGATAGAACAGGT #rat_gr19167_libT5S2 19 1 sblock2014 AAAGGTAGATAGAACAGGTC #rat_gr19168_libT1S1 20 1 sblock2014 AAAGGTAGATAGAACAGGTC #rat_gr19168_libT3S2 20 1 sblock2014 AAAGGTAGATAGAACAGGTC #rat_gr19168_libT5S2 20 1 sblock2014 AAAGGTAGATAGAACAGGTCT #rat_gr19169_libT1S2 21 1 sblock2014 AAAGGTAGATAGAACAGGTCT #rat_gr19169_libT4S2 21 1 sblock2014 AAAGGTAGATAGAACAGGTCTT #rat_gr19170_libT1S2 22 1 sblock2014 AAAGGTAGATAGAACAGGTCTT #rat_gr19170_libT3S1 22 1 sblock2014 AAAGGTAGATAGAACAGGTCTTG #rat_gr19171_libT1S1 23 1 sblock2014 AAAGGTAGATAGAACAGGTCTTG #rat_gr19171_libT2S2 23 1 sblock2014 AAAGGTAGATAGAACAGGTCTTG #rat_gr19171_libT5S1 23 1 sblock2014 AAAGGTAGATAGAACAGGTCTTGT #rat_gr19172_libT1S2 24 1 sblock2014 AAAGGTAGATAGAACAGGTCTTGT #rat_gr19172_libT2S2 24 1 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT1S2 24 1 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT4S1 24 1 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT4S2 24 1 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT5S1 24 1 sblock2014 AAGGTAGATAGAACAGGTCTTGTT #rat_gr53628_libT5S2 24 1 sblock2014 AAGGTAGATAGAACAGGTCTTGTTT #rat_gr53629_libT5S1 25 1 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT1S2 23 1 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT3S2 23 1 sblock2014 AGGTAGATAGAACAGGTCTTGTT #rat_gr190357_libT4S2 23 1 sblock2014 AGGTAGATAGAACAGGTCTTGTTT #rat_gr190358_libT1S2 24 1 sblock2014 GGTAGATAGAACAGGTCTT #rat_gr618326_libT2S2 19 1 sblock2014 GTAGATAGAACAGGTCTTG #rat_gr629649_libT3S1 19 1 sblock2014 gtttagtcatattcttttggagactaagacaatagagtccttgaagtcaagctgactctgcctttagcctcctacatgaaAAGGTAGATAGAACAGGTCTTGttt ********************************************************************************************************* sblock2014 .....................................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063179 ENSRNOG00000041426 sblock2014 ((((.(((.(((..((((((((.(((((....(((((((((((....))))..)))))))..))))).)))).....))))..)))))).))))........... 0.980 -26.90 # #sblock2014 chromosome:1:137743970:137744074:1 Same_strand|Boundary_non-coding|ENSRNOT00000063179|ENSRNOG00000041426 ## intergenic ## ENSRNOG00000041426|miRNA|| ========== sblock2584 (miRNA) [miRNAunknown_multiarm_DicerNOK_shortStem_5varHIGH_loopOverlap_mirtron] ========== #randfold sblock2584: 0.110 #forester #identity: 0.00 sblock2584 TCTCGCGAGCCCAGGGTGCA #rat_gr901439_libT1S2 20 1 sblock2584 ACCGAGCCCCTGTGCCGCCC #rat_gr101062_libT1S2 20 2 sblock2584 TGACCGAGCCCCTGTGCCGCCCCC #rat_gr935085_libT1S2 24 1 sblock2584 GAGCCCCTGTGCCGCCCCCA #rat_gr508973_libT1S1 20 1 sblock2584 cctgggTCTCGCGAGCCCAGGGTGCAgccggacTGACCGAGCCCCTGTGCCGCCCCCAg *********************************************************** sblock2584 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>> #ENSRNOT00000015092 ENSRNOG00000010771 Q9ERV0_RAT sblock2584 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..... #ENSRNOT00000063374 ENSRNOG00000041621 sblock2584 .(((((....(((.((.(((((.((...(((.....))).))))))).))))).))))) 1.000 -28.20 # #sblock2584 chromosome:10:13846752:13846810:1 Same_strand|Exonic_non-coding|ENSRNOT00000063374|ENSRNOG00000041621 ## Same_strand|Intronic_coding|ENSRNOT00000015092|ENSRNOG00000010771 ## ENSRNOG00000010771|protein_coding|Q9ERV0_RAT|Pkd1 (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q9ERV0] ## ENSRNOG00000041621|miRNA|| ========== sblock2652 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_loopOverlap_mirtron_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock2652: 0.323 #forester #identity: 0.00 sblock2652 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock2652 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock2652 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock2652 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock2652 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock2652 CCTCTGCTCTGCACCGACC #rat_gr376484_libT3S1 19 1 sblock2652 aggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggggctccctCCTCTGCTCTGCACCGACCgcct ******************************************************************************************************* sblock2652 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000038803 ENSRNOG00000032593 sblock2652 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........................................ #ENSRNOT00000054440 ENSRNOG00000036318 sblock2652 ((((...((.(((((((((.......((((.(((......((((((((..........))))).)))..))).)))).......))))).)).))))..)))) 0.860 -30.24 # #sblock2652 chromosome:10:45778256:45778358:1 Same_strand|Exonic_coding|ENSRNOT00000038803|ENSRNOG00000032593 ## Same_strand|Boundary_coding|ENSRNOT00000038803|ENSRNOG00000032593 ## Same_strand|Exonic_non-coding|ENSRNOT00000054440|ENSRNOG00000036318 ## Same_strand|Intronic_coding|ENSRNOT00000038803|ENSRNOG00000032593 ## ENSRNOG00000036318|miRNA|| ## ENSRNOG00000032593|protein_coding|| ========== sblock2992 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_5varHIGH] ========== #randfold sblock2992: 0.286 #forester #identity: 0.00 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT5S1 23 18 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT3S1 23 14 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT5S1 19 14 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT3S1 20 12 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT1S2 19 11 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT1S2 23 8 sblock2992 TAATGTCCAGTGTCCTTTGTCA #rat_gr734438_libT3S2 22 8 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT5S1 20 7 sblock2992 TAATGTCCAGTGTCCTTTGTCA #rat_gr734438_libT3S1 22 7 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT3S2 23 6 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT3S2 19 6 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT4S1 19 6 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT2S1 20 6 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT3S2 21 6 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT3S2 20 5 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT1S1 23 4 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT2S2 23 4 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT4S2 23 4 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT1S1 19 4 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT1S1 20 4 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT3S1 21 4 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT2S2 19 3 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT3S1 19 3 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT4S2 20 3 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT5S2 20 3 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT4S2 21 3 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT5S1 21 3 sblock2992 TCATAAGATTCGGTGCAAT #rat_gr822277_libT3S1 19 2 sblock2992 TGTCATAAGATTCGGTGCAA #rat_gr1078535_libT5S2 20 2 sblock2992 AGTGTCCTTTGTCATAAGA #rat_gr201595_libT1S2 19 2 sblock2992 CCAGTGTCCTTTGTCATAAGA #rat_gr335073_libT3S1 21 2 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT4S1 23 2 sblock2992 GTCCAGTGTCCTTTGTCATAAGA #rat_gr635679_libT5S2 23 2 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT2S1 19 2 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT4S2 19 2 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT4S1 21 2 sblock2992 AGATTCGGTGCAATAAGTC #rat_gr148404_libT1S2 19 1 sblock2992 TCATAAGATTCGGTGCAAT #rat_gr822277_libT2S2 19 1 sblock2992 TCATAAGATTCGGTGCAAT #rat_gr822277_libT4S1 19 1 sblock2992 TCATAAGATTCGGTGCAAT #rat_gr822277_libT5S1 19 1 sblock2992 TCATAAGATTCGGTGCAA #rat_gr822276_libT2S1 18 1 sblock2992 TCATAAGATTCGGTGCAA #rat_gr822276_libT3S1 18 1 sblock2992 TCATAAGATTCGGTGCAA #rat_gr822276_libT5S1 18 1 sblock2992 GTCATAAGATTCGGTGCAA #rat_gr634483_libT1S1 19 1 sblock2992 TGTCATAAGATTCGGTGCAA #rat_gr1078535_libT3S1 20 1 sblock2992 CCTTTGTCATAAGATTCGGTGCA #rat_gr387015_libT3S1 23 1 sblock2992 CCTTTGTCATAAGATTCGGTG #rat_gr387014_libT5S2 21 1 sblock2992 GTCCTTTGTCATAAGATTCGGTG #rat_gr639085_libT5S2 23 1 sblock2992 CAGTGTCCTTTGTCATAAGA #rat_gr305222_libT3S1 20 1 sblock2992 GTCCAGTGTCCTTTGTCAT #rat_gr635678_libT2S2 19 1 sblock2992 GTCCAGTGTCCTTTGTCAT #rat_gr635678_libT3S2 19 1 sblock2992 GTCCAGTGTCCTTTGTCA #rat_gr635677_libT1S1 18 1 sblock2992 TGTCCAGTGTCCTTTGTCA #rat_gr1079167_libT5S2 19 1 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT1S2 20 1 sblock2992 ATGTCCAGTGTCCTTTGTCA #rat_gr237112_libT2S2 20 1 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT2S1 21 1 sblock2992 AATGTCCAGTGTCCTTTGTCA #rat_gr64077_libT5S2 21 1 sblock2992 TAATGTCCAGTGTCCTTTGTCA #rat_gr734438_libT2S1 22 1 sblock2992 TAATGTCCAGTGTCCTTTGTCA #rat_gr734438_libT2S2 22 1 sblock2992 TTAATGTCCAGTGTCCTTTGTCA #rat_gr1100243_libT3S2 23 1 sblock2992 ATGTCCAGTGTCCTTTGTC #rat_gr237111_libT1S1 19 1 sblock2992 ATGTCCAGTGTCCTTTGTC #rat_gr237111_libT2S1 19 1 sblock2992 ATGTCCAGTGTCCTTTGTC #rat_gr237111_libT3S1 19 1 sblock2992 ATGTCCAGTGTCCTTTGTC #rat_gr237111_libT3S2 19 1 sblock2992 TAATGTCCAGTGTCCTTTGT #rat_gr734437_libT3S1 20 1 sblock2992 TTAATGTCCAGTGTCCTTTG #rat_gr1100242_libT3S1 20 1 sblock2992 CTGCACTGGATTCCAAAGACTG #rat_gr441486_libT3S2 22 1 sblock2992 CTGCACTGGATTCCAAAGAC #rat_gr441485_libT5S1 20 1 sblock2992 GAGTAACTGCACTGGATTCCAAA #rat_gr515733_libT4S1 23 1 sblock2992 tgctagcagagtacacacaagaagaagagtaactgcactggattccaaagactggggtggacctctttctTAATGTCCAGTGTCCTTTGTCATAAGAttcggtgcaataagtc ***************************************************************************************************************** sblock2992 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000002484 ENSRNOG00000001815 Eif4a2 sblock2992 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................................. #ENSRNOT00000063172 ENSRNOG00000041419 sblock2992 (((..((.((((........((...((((.....(((((((((....((((..((((....))))..))))...))))))))).)))).)).....)))).)))))....... 0.500 -27.32 # #sblock2992 chromosome:11:79954044:79954156:-1 Same_strand|Boundary_non-coding|ENSRNOT00000063172|ENSRNOG00000041419 ## Same_strand|Intronic_coding|ENSRNOT00000002484|ENSRNOG00000001815 ## ENSRNOG00000001815|protein_coding|Eif4a2|Eukaryotic initiation factor 4A-II (EC 3.6.1.-) (ATP-dependent RNA helicase eIF4A-2) (eIF4A-II) (eIF-4A-II). [Source:UniProtKB/Swiss-Prot;Acc:Q5RKI1] ## ENSRNOG00000041419|miRNA|| ========== sblock2993 (miRNA) [miRNAunknown_cloningHIGH_multiarm_DicerNOK_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock2993: 0.001 #forester #identity: 0.00 sblock2993 AGAGTACACACAAGAAGAAGA #rat_gr145438_libT5S2 21 1 sblock2993 CAGAGTACACACAAGAAG #rat_gr289321_libT3S1 18 1 sblock2993 ACCTTCTTGTATAAGCACTG #rat_gr109620_libT3S1 20 15 sblock2993 ACCTTCTTGTATAAGCAC #rat_gr109618_libT3S1 18 4 sblock2993 ACCTTCTTGTATAAGCACTG #rat_gr109620_libT5S1 20 3 sblock2993 ACCTTCTTGTATAAGCACTGTGC #rat_gr109622_libT3S1 23 2 sblock2993 ACCTTCTTGTATAAGCACTGTG #rat_gr109621_libT3S1 22 2 sblock2993 TACCTTCTTGTATAAGCACTGTG #rat_gr752129_libT2S2 23 2 sblock2993 TACCTTCTTGTATAAGCACTGTG #rat_gr752129_libT3S1 23 2 sblock2993 ACCTTCTTGTATAAGCACTG #rat_gr109620_libT3S2 20 2 sblock2993 ACCTTCTTGTATAAGCACT #rat_gr109619_libT4S1 19 2 sblock2993 ACCTTCTTGTATAAGCACT #rat_gr109619_libT5S2 19 2 sblock2993 ACCTTCTTGTATAAGCACTGTGC #rat_gr109622_libT1S2 23 1 sblock2993 ACCTTCTTGTATAAGCACTGTGC #rat_gr109622_libT2S1 23 1 sblock2993 ACCTTCTTGTATAAGCACTGTGC #rat_gr109622_libT3S2 23 1 sblock2993 ACCTTCTTGTATAAGCACTGTG #rat_gr109621_libT1S2 22 1 sblock2993 ACCTTCTTGTATAAGCACTGTG #rat_gr109621_libT2S1 22 1 sblock2993 ACCTTCTTGTATAAGCACTGTG #rat_gr109621_libT4S1 22 1 sblock2993 ACCTTCTTGTATAAGCACTGTG #rat_gr109621_libT5S1 22 1 sblock2993 ACCTTCTTGTATAAGCACTGTG #rat_gr109621_libT5S2 22 1 sblock2993 ACCTTCTTGTATAAGCACTG #rat_gr109620_libT5S2 20 1 sblock2993 TACCTTCTTGTATAAGCACTG #rat_gr752128_libT4S2 21 1 sblock2993 ACCTTCTTGTATAAGCACT #rat_gr109619_libT2S1 19 1 sblock2993 ACCTTCTTGTATAAGCACT #rat_gr109619_libT3S1 19 1 sblock2993 ACCTTCTTGTATAAGCAC #rat_gr109618_libT2S2 18 1 sblock2993 ACCTTCTTGTATAAGCAC #rat_gr109618_libT3S2 18 1 sblock2993 ACCTTCTTGTATAAGCAC #rat_gr109618_libT4S2 18 1 sblock2993 ACCTTCTTGTATAAGCAC #rat_gr109618_libT5S1 18 1 sblock2993 agggtttttACCTTCTTGTATAAGCACTGtgctaaaattacaggaactaggattatatcttggtttttgtaataatgctagcagagtacacacaagaagaagagtaactgcactg ******************************************************************************************************************* sblock2993 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000002484 ENSRNOG00000001815 Eif4a2 sblock2993 ...........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........ #ENSRNOT00000063172 ENSRNOG00000041419 sblock2993 .((((..((((((((((((......(((.(((((..(((((((((((((((((...))))))))))))))))).....))))).)))....))))))))....))))..)).)). 0.980 -36.30 # #sblock2993 chromosome:11:79954117:79954231:-1 Same_strand|Intronic_coding|ENSRNOT00000002484|ENSRNOG00000001815 ## Same_strand|Exonic_non-coding|ENSRNOT00000063172|ENSRNOG00000041419 ## ENSRNOG00000001815|protein_coding|Eif4a2|Eukaryotic initiation factor 4A-II (EC 3.6.1.-) (ATP-dependent RNA helicase eIF4A-2) (eIF4A-II) (eIF-4A-II). [Source:UniProtKB/Swiss-Prot;Acc:Q5RKI1] ## ENSRNOG00000041419|miRNA|| ========== sblock3172 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK] ========== #randfold sblock3172: 0.068 #forester #identity: 0.00 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT1S2 18 45 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT3S1 18 43 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT3S1 21 37 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT1S2 21 36 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT3S2 18 32 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT4S2 21 32 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT3S1 20 31 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT4S1 21 28 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT3S1 22 28 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT1S1 18 27 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT1S2 22 25 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT4S2 18 24 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT4S1 18 23 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT3S2 22 21 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT4S2 22 21 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT3S2 20 20 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT4S1 20 19 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT3S2 21 18 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT5S1 18 17 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT5S2 18 17 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT1S1 21 17 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT1S1 22 17 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT4S1 22 17 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT1S1 20 15 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT4S2 20 14 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT5S2 21 14 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT5S2 22 13 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT5S2 20 11 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT5S1 21 11 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT2S2 22 11 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT5S1 22 11 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT1S2 20 10 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT2S2 20 9 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT5S1 20 8 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT2S2 18 7 sblock3172 CCACCTCCCCTGCAAACGTC #rat_gr328588_libT2S1 20 6 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT2S2 21 6 sblock3172 CCACCTCCCCTGCAAACG #rat_gr328586_libT2S1 18 5 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT5S2 19 5 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT1S2 19 4 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT3S2 19 4 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT4S1 19 4 sblock3172 CCACCTCCCCTGCAAACGTCC #rat_gr328589_libT2S1 21 4 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT3S1 19 3 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT1S1 19 2 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT2S2 19 2 sblock3172 CCACCTCCCCTGCAAACGTCCAG #rat_gr328591_libT1S2 23 2 sblock3172 ACCTCCCCTGCAAACGTCCA #rat_gr105941_libT1S1 20 2 sblock3172 ACCACCTCCCCTGCAAACGTCC #rat_gr89944_libT5S2 22 1 sblock3172 CCACCTCCCCTGCAAACGT #rat_gr328587_libT4S2 19 1 sblock3172 CCACCTCCCCTGCAAACGTCCA #rat_gr328590_libT2S1 22 1 sblock3172 CCACCTCCCCTGCAAACGTCCAG #rat_gr328591_libT5S1 23 1 sblock3172 CACCTCCCCTGCAAACGT #rat_gr281486_libT1S1 18 1 sblock3172 CACCTCCCCTGCAAACGTC #rat_gr281487_libT4S1 19 1 sblock3172 CACCTCCCCTGCAAACGTC #rat_gr281487_libT4S2 19 1 sblock3172 ACCTCCCCTGCAAACGTCCA #rat_gr105941_libT1S2 20 1 sblock3172 ACCTCCCCTGCAAACGTCCAGT #rat_gr105942_libT4S1 22 1 sblock3172 ACCTCCCCTGCAAACGTCCAGT #rat_gr105942_libT4S2 22 1 sblock3172 GACGTTGGCTCTGGTGGTG #rat_gr498942_libT1S1 19 3 sblock3172 GACGTTGGCTCTGGTGGT #rat_gr498941_libT1S1 18 2 sblock3172 GACGTTGGCTCTGGTGGTGA #rat_gr498943_libT3S2 20 2 sblock3172 ACGTTGGCTCTGGTGGTGATG #rat_gr114193_libT3S2 21 2 sblock3172 ACGTTGGCTCTGGTGGTGATG #rat_gr114193_libT4S1 21 2 sblock3172 TGGACGTTGGCTCTGGTGGTGA #rat_gr994430_libT4S1 22 1 sblock3172 GGACGTTGGCTCTGGTGGTG #rat_gr585975_libT1S2 20 1 sblock3172 GACGTTGGCTCTGGTGGT #rat_gr498941_libT2S1 18 1 sblock3172 GACGTTGGCTCTGGTGGT #rat_gr498941_libT3S1 18 1 sblock3172 GACGTTGGCTCTGGTGGTG #rat_gr498942_libT3S2 19 1 sblock3172 GACGTTGGCTCTGGTGGTGA #rat_gr498943_libT3S1 20 1 sblock3172 GACGTTGGCTCTGGTGGTGAT #rat_gr498944_libT3S2 21 1 sblock3172 GACGTTGGCTCTGGTGGTGAT #rat_gr498944_libT4S2 21 1 sblock3172 GACGTTGGCTCTGGTGGTGATG #rat_gr498945_libT1S1 22 1 sblock3172 GACGTTGGCTCTGGTGGTGATG #rat_gr498945_libT3S1 22 1 sblock3172 GACGTTGGCTCTGGTGGTGATG #rat_gr498945_libT3S2 22 1 sblock3172 ACGTTGGCTCTGGTGGTG #rat_gr114190_libT3S1 18 1 sblock3172 ACGTTGGCTCTGGTGGTGA #rat_gr114191_libT3S2 19 1 sblock3172 ACGTTGGCTCTGGTGGTGAT #rat_gr114192_libT4S2 20 1 sblock3172 ACGTTGGCTCTGGTGGTGATG #rat_gr114193_libT4S2 21 1 sblock3172 ACGTTGGCTCTGGTGGTGATG #rat_gr114193_libT5S1 21 1 sblock3172 tgctgccccatgaacagtctccaCCACCTCCCCTGCAAACGTCCAgtgatgcagaggtaatggacgttggctctggtggtgatggacagt ****************************************************************************************** sblock3172 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000002581 ENSRNOG00000001886 NP_001099335.1 sblock3172 ............................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.............. #ENSRNOT00000063307 ENSRNOG00000041554 sblock3172 .((((..((((..........(((((((......((.((((((((....(((....))).)))))))).))...))))))))))).)))) 0.490 -32.00 # #sblock3172 chromosome:11:84703702:84703791:1 Same_strand|Boundary_non-coding|ENSRNOT00000063307|ENSRNOG00000041554 ## Same_strand|Exonic_coding|ENSRNOT00000002581|ENSRNOG00000001886 ## ENSRNOG00000041554|miRNA|| ## ENSRNOG00000001886|protein_coding|NP_001099335.1|DiGeorge syndrome critical region gene 8 [Source:RefSeq_peptide;Acc:NP_001099335] ========== sblock3535 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_shortStem_mirtron] ========== #randfold sblock3535: 0.079 #forester #identity: 0.00 sblock3535 GTGAGTGGGGTGGTTGGCATG #rat_gr645236_libT1S1 21 3 sblock3535 GTGAGTGGGGTGGTTGGCATG #rat_gr645236_libT1S2 21 2 sblock3535 GTGAGTGGGGTGGTTGGCA #rat_gr645235_libT1S2 19 1 sblock3535 GTGAGTGGGGTGGTTGGCA #rat_gr645235_libT4S2 19 1 sblock3535 GTGAGTGGGGTGGTTGGCA #rat_gr645235_libT5S2 19 1 sblock3535 GTGAGTGGGGTGGTTGGCATG #rat_gr645236_libT3S1 21 1 sblock3535 GTGAGTGGGGTGGTTGGCATG #rat_gr645236_libT3S2 21 1 sblock3535 GTGAGTGGGGTGGTTGGCATGG #rat_gr645237_libT1S2 22 1 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT1S1 19 526 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT1S1 23 483 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT1S1 24 416 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT1S2 19 353 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT1S2 23 308 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT1S2 24 248 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT1S1 21 233 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT1S1 22 212 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT1S1 18 189 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT1S2 18 149 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT1S2 21 138 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT1S2 22 118 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT1S1 20 68 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT5S2 23 59 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT5S1 23 57 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT5S2 19 43 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT1S2 20 43 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT5S1 24 37 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT4S2 19 35 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT3S2 24 33 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT4S2 23 32 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT3S2 23 31 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT5S2 24 31 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT5S1 19 30 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT3S2 19 28 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT2S1 19 25 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT3S1 19 24 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT5S1 21 24 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT4S1 19 23 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT5S2 21 23 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT3S1 24 23 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT3S1 23 22 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT3S1 21 21 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT5S1 22 20 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT5S2 22 17 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT4S1 24 17 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT4S2 21 16 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT4S2 22 16 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT4S2 24 16 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT5S1 18 15 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT2S1 23 14 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT5S2 18 13 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT4S1 23 13 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT4S1 21 11 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT4S1 22 11 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT2S1 24 11 sblock3535 CATGCCCACCCTTTACCCCAC #rat_gr312276_libT1S1 21 10 sblock3535 CATGCCCACCCTTTACCCCACTC #rat_gr312278_libT1S2 23 10 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT4S2 18 10 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT3S2 22 10 sblock3535 TGCCCACCCTTTACCCCACTCCA #rat_gr965533_libT2S2 23 10 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT3S2 18 9 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT2S1 21 9 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT3S1 22 9 sblock3535 TGCCCACCCTTTACCCCACTCCAG #rat_gr965534_libT2S2 24 9 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT5S2 20 8 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT2S2 21 8 sblock3535 TGCCCACCCTTTACCCCACTC #rat_gr965531_libT3S2 21 8 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT2S1 22 8 sblock3535 CATGCCCACCCTTTACCCCAC #rat_gr312276_libT1S2 21 7 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT4S1 18 7 sblock3535 TGCCCACCCTTTACCCCAC #rat_gr965529_libT2S2 19 7 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT3S2 20 6 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT4S1 20 6 sblock3535 CATGCCCACCCTTTACCCCACTCC #rat_gr312279_libT1S1 24 5 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT2S1 18 5 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT3S1 18 5 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT4S2 20 5 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT5S1 20 5 sblock3535 GCCCACCCTTTACCCCACTCCAG #rat_gr546012_libT1S1 23 5 sblock3535 CATGCCCACCCTTTACCC #rat_gr312272_libT1S1 18 4 sblock3535 CATGCCCACCCTTTACCCC #rat_gr312274_libT1S1 19 4 sblock3535 CATGCCCACCCTTTACCCCA #rat_gr312275_libT1S1 20 4 sblock3535 CATGCCCACCCTTTACCCCACTC #rat_gr312278_libT1S1 23 4 sblock3535 CATGCCCACCCTTTACCCCACTCC #rat_gr312279_libT1S2 24 4 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT3S1 20 4 sblock3535 TGCCCACCCTTTACCCCACTCC #rat_gr965532_libT2S2 22 4 sblock3535 GCCCACCCTTTACCCCACTCCA #rat_gr546011_libT1S1 22 4 sblock3535 CATGCCCACCCTTTACCCC #rat_gr312274_libT1S2 19 3 sblock3535 ATGCCCACCCTTTACCCCACTCCA #rat_gr230231_libT1S2 24 3 sblock3535 TGCCCACCCTTTACCCCA #rat_gr965528_libT2S2 18 3 sblock3535 GCCCACCCTTTACCCCAC #rat_gr546008_libT1S1 18 3 sblock3535 GCCCACCCTTTACCCCAC #rat_gr546008_libT1S2 18 3 sblock3535 GCCCACCCTTTACCCCACTCCAG #rat_gr546012_libT1S2 23 3 sblock3535 CATGCCCACCCTTTACCCCACT #rat_gr312277_libT1S1 22 2 sblock3535 ATGCCCACCCTTTACCCCA #rat_gr230227_libT1S1 19 2 sblock3535 ATGCCCACCCTTTACCCCACTC #rat_gr230229_libT1S1 22 2 sblock3535 ATGCCCACCCTTTACCCCACTC #rat_gr230229_libT1S2 22 2 sblock3535 ATGCCCACCCTTTACCCCACTCCAG #rat_gr230232_libT1S1 25 2 sblock3535 TGCCCACCCTTTACCCCACT #rat_gr965530_libT2S2 20 2 sblock3535 TGCCCACCCTTTACCCCACTCCAGG #rat_gr965535_libT1S1 25 2 sblock3535 CATGCCCACCCTTTACCC #rat_gr312272_libT1S2 18 1 sblock3535 CATGCCCACCCTTTACCC #rat_gr312272_libT5S2 18 1 sblock3535 CATGCCCACCCTTTACCCCA #rat_gr312275_libT4S1 20 1 sblock3535 CATGCCCACCCTTTACCCCAC #rat_gr312276_libT4S2 21 1 sblock3535 CATGCCCACCCTTTACCCCAC #rat_gr312276_libT5S1 21 1 sblock3535 CATGCCCACCCTTTACCCCACT #rat_gr312277_libT1S2 22 1 sblock3535 ATGCCCACCCTTTACCCCA #rat_gr230227_libT1S2 19 1 sblock3535 ATGCCCACCCTTTACCCCAC #rat_gr230228_libT1S1 20 1 sblock3535 ATGCCCACCCTTTACCCCAC #rat_gr230228_libT5S1 20 1 sblock3535 ATGCCCACCCTTTACCCCACTC #rat_gr230229_libT5S2 22 1 sblock3535 ATGCCCACCCTTTACCCCACTCC #rat_gr230230_libT1S2 23 1 sblock3535 ATGCCCACCCTTTACCCCACTCC #rat_gr230230_libT5S2 23 1 sblock3535 ATGCCCACCCTTTACCCCACTCCA #rat_gr230231_libT1S1 24 1 sblock3535 ATGCCCACCCTTTACCCCACTCCA #rat_gr230231_libT4S1 24 1 sblock3535 ATGCCCACCCTTTACCCCACTCCAG #rat_gr230232_libT1S2 25 1 sblock3535 TGCCCACCCTTTACCCCACTCCAGG #rat_gr965535_libT3S1 25 1 sblock3535 TGCCCACCCTTTACCCCACTCCAGG #rat_gr965535_libT3S2 25 1 sblock3535 GCCCACCCTTTACCCCAC #rat_gr546008_libT3S2 18 1 sblock3535 GCCCACCCTTTACCCCAC #rat_gr546008_libT5S1 18 1 sblock3535 GCCCACCCTTTACCCCAC #rat_gr546008_libT5S2 18 1 sblock3535 GCCCACCCTTTACCCCACTC #rat_gr546009_libT1S1 20 1 sblock3535 GCCCACCCTTTACCCCACTC #rat_gr546009_libT1S2 20 1 sblock3535 GCCCACCCTTTACCCCACTC #rat_gr546009_libT2S1 20 1 sblock3535 GCCCACCCTTTACCCCACTC #rat_gr546009_libT4S2 20 1 sblock3535 GCCCACCCTTTACCCCACTCC #rat_gr546010_libT4S2 21 1 sblock3535 GCCCACCCTTTACCCCACTCCA #rat_gr546011_libT1S2 22 1 sblock3535 GCCCACCCTTTACCCCACTCCA #rat_gr546011_libT2S2 22 1 sblock3535 GCCCACCCTTTACCCCACTCCA #rat_gr546011_libT5S2 22 1 sblock3535 GCCCACCCTTTACCCCACTCCAG #rat_gr546012_libT5S2 23 1 sblock3535 CCCACCCTTTACCCCACTCCAG #rat_gr341717_libT1S2 22 1 sblock3535 CCACCCTTTACCCCACTCCA #rat_gr328394_libT1S2 20 1 sblock3535 tgtccgggacaaggtgagtggggtggttggcatgggttgcccagtctggggactcgacgctgtgtcacagcctcctgatgtcctcctcacgcaTGCCCACCCTTTACCCCACTCCAGggc ************************************************************************************************************************ sblock3535 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000040015 ENSRNOG00000001418 Znhit1_predicted sblock3535 >>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>> #ENSRNOT00000001921 ENSRNOG00000001417 Plod3 sblock3535 >>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>> #ENSRNOT00000035117 ENSRNOG00000001417 Plod3 sblock3535 .........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......... #ENSRNOT00000054459 ENSRNOG00000036338 sblock3535 .((((.(((........(((((((((..((..((((((((...((..((((((((((.((((.....)))).))..)).)))).))..))))).)))))))..)))))))))))).)))) 0.530 -49.40 # #sblock3535 chromosome:12:20861544:20861663:1 Same_strand|Boundary_coding|ENSRNOT00000035117|ENSRNOG00000001417 ## Opposite_strand|Intronic_coding|ENSRNOT00000040015|ENSRNOG00000001418 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000001922|ENSRNOG00000001418 ## Same_strand|Exonic_non-coding|ENSRNOT00000054459|ENSRNOG00000036338 ## Same_strand|Boundary_non-coding|ENSRNOT00000054459|ENSRNOG00000036338 ## ENSRNOG00000001417|protein_coding|Plod3|Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3 precursor (EC 1.14.11.4) (Lysyl hydroxylase 3) (LH3). [Source:UniProtKB/Swiss-Prot;Acc:Q5U367] ## ENSRNOG00000036338|miRNA|| ## ENSRNOG00000001418|protein_coding|Znhit1_predicted| ========== sblock3925 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock3925: 0.540 #forester #identity: 0.00 sblock3925 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock3925 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock3925 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock3925 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock3925 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock3925 CCTCTGCTCTGCACCGACC #rat_gr376484_libT3S1 19 1 sblock3925 aggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggggctccctCCTCTGCTCTGCACCGACCacct ******************************************************************************************************* sblock3925 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................... #ENSRNOT00000044575 ENSRNOG00000031540 sblock3925 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........................................ #ENSRNOT00000054482 ENSRNOG00000036362 sblock3925 (((....((.(((((((((.......((((.(((......((((((((..........))))).)))..))).)))).......))))).)).))))...))) 0.840 -26.44 # #sblock3925 chromosome:13:86732903:86733005:1 Same_strand|Exonic_non-coding|ENSRNOT00000044575|ENSRNOG00000031540 ## Same_strand|Boundary_non-coding|ENSRNOT00000044575|ENSRNOG00000031540 ## intergenic ## ENSRNOG00000036362|miRNA|| ## ENSRNOG00000031540|pseudogene|| ========== sblock4462 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock4462: 0.003 #forester #identity: 0.00 sblock4462 ATAAGACGAACAAAAGGT #rat_gr205734_libT4S2 18 28 sblock4462 ATAAGACGAACAAAAGGT #rat_gr205734_libT4S1 18 17 sblock4462 ATAAGACGAACAAAAGGTT #rat_gr205735_libT4S2 19 11 sblock4462 ATAAGACGAACAAAAGGTT #rat_gr205735_libT4S1 19 8 sblock4462 ATAAGACGAACAAAAGGTTTG #rat_gr205737_libT4S1 21 6 sblock4462 ATAAGACGAACAAAAGGTTT #rat_gr205736_libT4S1 20 4 sblock4462 TATAAGACGAACAAAAGGTTT #rat_gr790704_libT4S2 21 4 sblock4462 ATAAGACGAACAAAAGGTTT #rat_gr205736_libT4S2 20 3 sblock4462 TAAGACGAACAAAAGGTTTG #rat_gr721918_libT4S1 20 2 sblock4462 TAAGACGAACAAAAGGTTT #rat_gr721917_libT4S1 19 2 sblock4462 TATAAGACGAACAAAAGGTTT #rat_gr790704_libT4S1 21 2 sblock4462 TAAGACGAACAAAAGGTT #rat_gr721916_libT4S2 18 2 sblock4462 TATAAGACGAACAAAAGG #rat_gr790702_libT4S2 18 2 sblock4462 TATAAGACGAACAAAAGGT #rat_gr790703_libT4S2 19 1 sblock4462 AAGCTTTTTGCTCGCGTTAT #rat_gr49030_libT4S2 20 4 sblock4462 AAGCTTTTTGCTCGCGTTATGT #rat_gr49032_libT4S1 22 2 sblock4462 AAGCTTTTTGCTCGCGTTATG #rat_gr49031_libT4S2 21 2 sblock4462 AAGCTTTTTGCTCGCGTT #rat_gr49029_libT4S1 18 2 sblock4462 AAGCTTTTTGCTCGCGTTAT #rat_gr49030_libT4S1 20 1 sblock4462 acccccacctcctgctcctctcagggaagctttttgctcgcgttatgtttctcatccgaatATAAGACGAACAAAAGGTTtgtctgagggctgagtgcacccacctggggta **************************************************************************************************************** sblock4462 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000024186 ENSRNOG00000016983 Myh7 sblock4462 .....................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........................ #ENSRNOT00000063134 ENSRNOG00000041381 sblock4462 (((((........((((((((((((.((((((((((.(((..((((((((.......))))))))..))).)))))))))).))))))))..))))..........))))). 0.930 -41.97 # #sblock4462 chromosome:15:33078016:33078127:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063134|ENSRNOG00000041381 ## Same_strand|Intronic_coding|ENSRNOT00000024186|ENSRNOG00000016983 ## ENSRNOG00000016983|protein_coding|Myh7|Myosin-7 (Myosin heavy chain 7) (Myosin heavy chain, cardiac muscle beta isoform) (MyHC-beta) (Myosin heavy chain slow isoform) (MyHC- slow). [Source:UniProtKB/Swiss-Prot;Acc:P02564] ## ENSRNOG00000041381|miRNA|| ========== sblock5147 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock5147: 0.323 #forester #identity: 0.00 sblock5147 CCTCTGCTCTGCACCGACC #rat_gr376484_libT3S1 19 1 sblock5147 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock5147 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock5147 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock5147 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock5147 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock5147 aggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggggctccctCCTCTGCTCTGCACCGACCgcct ******************************************************************************************************* sblock5147 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........................................ #ENSRNOT00000054512 ENSRNOG00000036397 sblock5147 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....................................................... #ENSRNOT00000048298 ENSRNOG00000018804 RGD1306939 sblock5147 ((((...((.(((((((((.......((((.(((......((((((((..........))))).)))..))).)))).......))))).)).))))..)))) 0.860 -30.24 # #sblock5147 chromosome:17:47394320:47394422:-1 Same_strand|Boundary_non-coding|ENSRNOT00000025440|ENSRNOG00000018804 ## Same_strand|Exonic_non-coding|ENSRNOT00000054512|ENSRNOG00000036397 ## Same_strand|Exonic_coding|ENSRNOT00000048298|ENSRNOG00000018804 ## intergenic ## ENSRNOG00000036397|miRNA|| ## ENSRNOG00000018804|protein_coding|RGD1306939|similar to mKIAA0386 protein (RGD1306939), mRNA [Source:RefSeq_dna;Acc:NM_001014009] ========== sblock583 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerOK_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock583: 0.466 #forester #identity: 0.00 sblock583 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock583 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock583 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock583 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock583 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock583 cccaggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggg **************************************************************************** sblock583 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000028315 ENSRNOG00000020843 LOC364392 sblock583 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......... #ENSRNOT00000054422 ENSRNOG00000036301 sblock583 (((((((((....((((.(((....(((((((.......))).))))....)))..))))..)))))).....))) 0.550 -21.20 # #sblock583 chromosome:1:95929384:95929459:-1 Same_strand|Exonic_coding|ENSRNOT00000028315|ENSRNOG00000020843 ## Same_strand|Exonic_non-coding|ENSRNOT00000054422|ENSRNOG00000036301 ## ENSRNOG00000036301|miRNA|| ## ENSRNOG00000020843|protein_coding|LOC364392|Ferritin light chain 1 (Ferritin L subunit 1). [Source:UniProtKB/Swiss-Prot;Acc:P02793] ========== sblock6042 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock6042: 0.323 #forester #identity: 0.00 sblock6042 CCTCTGCTCTGCACCGACC #rat_gr376484_libT3S1 19 1 sblock6042 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock6042 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock6042 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock6042 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock6042 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock6042 aggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggggctccctCCTCTGCTCTGCACCGACCgcct ******************************************************************************************************* sblock6042 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........................................ #ENSRNOT00000054544 ENSRNOG00000036432 sblock6042 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................................................................... #ENSRNOT00000049594 ENSRNOG00000039093 sblock6042 ((((...((.(((((((((.......((((.(((......((((((((..........))))).)))..))).)))).......))))).)).))))..)))) 0.860 -30.24 # #sblock6042 chromosome:2:61990027:61990129:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054544|ENSRNOG00000036432 ## Same_strand|Boundary_non-coding|ENSRNOT00000049594|ENSRNOG00000039093 ## intergenic ## ENSRNOG00000039093|pseudogene|| ## ENSRNOG00000036432|miRNA|| ========== sblock6364 (miRNA) [miRNAunknown_lenNOK_cloningOK_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock6364: 0.003 #forester #identity: 0.00 sblock6364 AGGCAGTGCATTGCTAGCTG #rat_gr178248_libT3S2 20 10 sblock6364 AGGCAGTGCATTGCTAGCT #rat_gr178247_libT3S2 19 4 sblock6364 AGGCAGTGCATTGCTAGCTG #rat_gr178248_libT3S1 20 4 sblock6364 AGGCAGTGCATTGCTAGCT #rat_gr178247_libT3S1 19 2 sblock6364 AGGCAGTGCATTGCTAGCT #rat_gr178247_libT5S1 19 2 sblock6364 AGGCAGTGCATTGCTAGCTG #rat_gr178248_libT1S1 20 2 sblock6364 AGGCAGTGCATTGCTAGCTG #rat_gr178248_libT5S1 20 2 sblock6364 AGGCAGTGCATTGCTAGC #rat_gr178246_libT1S2 18 1 sblock6364 AGGCAGTGCATTGCTAGC #rat_gr178246_libT3S1 18 1 sblock6364 AGGCAGTGCATTGCTAGC #rat_gr178246_libT3S2 18 1 sblock6364 AGGCAGTGCATTGCTAGCT #rat_gr178247_libT1S2 19 1 sblock6364 AGGCAGTGCATTGCTAGCTG #rat_gr178248_libT4S2 20 1 sblock6364 AGGCAGTGCATTGCTAGCTGG #rat_gr178249_libT3S2 21 1 sblock6364 AGGCAGTGCATTGCTAGCTGGC #rat_gr178250_libT1S1 22 1 sblock6364 AGGCAGTGCATTGCTAGCTGGCTG #rat_gr178251_libT3S1 24 1 sblock6364 CAGTGGCTAGCTGCACTACCCT #rat_gr304803_libT2S1 22 1 sblock6364 AGTGGCTAGCTGCACTACC #rat_gr200727_libT3S1 19 1 sblock6364 AGTGGCTAGCTGCACTACCCT #rat_gr200728_libT1S1 21 1 sblock6364 AGTGGCTAGCTGCACTACCCT #rat_gr200728_libT3S1 21 1 sblock6364 agcgtgggtgtgtcagacAGGCAGTGCATTGCTAGCTGgctgttagaacttcgtcccaacagtggctagctgcactaccctctgctgcacttagaagc ************************************************************************************************** sblock6364 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>. #ENSRNOT00000054547 ENSRNOG00000036435 sblock6364 .((.(((((((..((((..((.((((((..(((((((.((((((.((......))..))))))))))))))))))).)).))))..)))))))...)) 1.000 -39.60 # #sblock6364 chromosome:2:44416739:44416836:1 Same_strand|Exonic_non-coding|ENSRNOT00000054547|ENSRNOG00000036435 ## ENSRNOG00000036435|miRNA|| ========== sblock6365 (miRNA) [miRNAunknown_lenNOK_cloningOK_multiarm_DicerNOK] ========== #randfold sblock6365: 0.030 #forester #identity: 0.00 sblock6365 AGGCAGTGTGTTGTTAGC #rat_gr178384_libT3S2 18 2 sblock6365 AGGCAGTGTGTTGTTAGC #rat_gr178384_libT3S1 18 1 sblock6365 AGGCAGTGTGTTGTTAGCTG #rat_gr178385_libT3S1 20 1 sblock6365 AGGCAGTGTGTTGTTAGCTG #rat_gr178385_libT3S2 20 1 sblock6365 AGGCAGTGTGTTGTTAGCTGG #rat_gr178386_libT3S2 21 1 sblock6365 AGGCAGTGTGTTGTTAGCTGGCT #rat_gr178387_libT3S1 23 1 sblock6365 AGCCACAGCTACCCTGCCAC #rat_gr157041_libT1S1 20 3 sblock6365 CAGCCACAGCTACCCTGCC #rat_gr293374_libT5S1 19 2 sblock6365 AGCCACAGCTACCCTGCC #rat_gr157039_libT5S1 18 1 sblock6365 AGCCACAGCTACCCTGCCA #rat_gr157040_libT1S1 19 1 sblock6365 AGCCACAGCTACCCTGCCA #rat_gr157040_libT3S1 19 1 sblock6365 AGCCACAGCTACCCTGCCAC #rat_gr157041_libT1S2 20 1 sblock6365 AGCCACAGCTACCCTGCCAC #rat_gr157041_libT4S1 20 1 sblock6365 AGCCACAGCTACCCTGCCACT #rat_gr157042_libT1S1 21 1 sblock6365 AGCCACAGCTACCCTGCCACT #rat_gr157042_libT3S2 21 1 sblock6365 AGCCACAGCTACCCTGCCACT #rat_gr157042_libT5S1 21 1 sblock6365 ccgggaaaatcagcgcttgccagactcaggtAGGCAGTGTGTTGTTAGCTGGCTgcgttgggttaagtaagCAGCCACAGCTACCCTGCCACTtgcttctggacgggtcttcttg ******************************************************************************************************************* sblock6365 ........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....... #ENSRNOT00000054546 ENSRNOG00000036434 sblock6365 .(((((.....((.((((((((((..(((((.(((((.(((((((.....((((((..............))))))))))).)).))))))))))..))))).)))))))))))) 0.990 -44.64 # #sblock6365 chromosome:2:44418143:44418257:1 Same_strand|Exonic_non-coding|ENSRNOT00000054546|ENSRNOG00000036434 ## ENSRNOG00000036434|miRNA|| ========== sblock833 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock833: 0.276 #forester #identity: 0.00 sblock833 CCTCTGCTCTGCACCGACC #rat_gr376484_libT3S1 19 1 sblock833 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock833 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock833 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock833 gcccaggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTaagcctctgtgccttccaaggggctccctCCTCTGCTCTGCACCGACCgcctcagc *************************************************************************************************************** sblock833 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000047044 ENSRNOG00000029082 sblock833 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042108 ENSRNOG00000029082 sblock833 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000049964 ENSRNOG00000029082 sblock833 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............................................ #ENSRNOT00000054415 ENSRNOG00000036293 sblock833 ((..((((...((.(((((((((.......((((.(((......((((((((..........))))).)))..))).)))).......))))).)).))))..))))..)) 0.480 -32.24 # #sblock833 chromosome:1:169029811:169029921:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054415|ENSRNOG00000036293 ## Same_strand|Boundary_coding|ENSRNOT00000047044|ENSRNOG00000029082 ## Same_strand|Exonic_coding|ENSRNOT00000049964|ENSRNOG00000029082 ## Same_strand|Intronic_coding|ENSRNOT00000049964|ENSRNOG00000029082 ## ENSRNOG00000029082|protein_coding|| ## ENSRNOG00000036293|miRNA|| ========== sblock8373 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock8373: 0.001 #forester #identity: 0.00 sblock8373 TCATCACGTGGTGACGCAACATC #rat_gr822991_libT1S2 23 8 sblock8373 TCATCACGTGGTGACGCAACATC #rat_gr822991_libT1S1 23 7 sblock8373 TCATCACGTGGTGACGCAAC #rat_gr822988_libT1S2 20 4 sblock8373 TCATCACGTGGTGACGCA #rat_gr822986_libT1S1 18 3 sblock8373 TCATCACGTGGTGACGCAACAT #rat_gr822990_libT1S2 22 2 sblock8373 TCATCACGTGGTGACGCAACAT #rat_gr822990_libT3S2 22 1 sblock8373 TCATCACGTGGTGACGCAACA #rat_gr822989_libT1S2 21 1 sblock8373 TCATCACGTGGTGACGCAA #rat_gr822987_libT3S2 19 1 sblock8373 TCATCACGTGGTGACGCA #rat_gr822986_libT1S2 18 1 sblock8373 TTGTGTCAATATGCGATG #rat_gr1150696_libT1S1 18 116 sblock8373 TTGTGTCAATATGCGATG #rat_gr1150696_libT1S2 18 98 sblock8373 TTGTGTCAATATGCGATGATGT #rat_gr1150700_libT1S2 22 20 sblock8373 TTGTGTCAATATGCGATGATGTG #rat_gr1150701_libT1S2 23 8 sblock8373 TTGTGTCAATATGCGATGATG #rat_gr1150699_libT1S1 21 5 sblock8373 TTGTGTCAATATGCGATGATG #rat_gr1150699_libT1S2 21 5 sblock8373 TTGTGTCAATATGCGATGA #rat_gr1150697_libT1S2 19 5 sblock8373 TTGTGTCAATATGCGATGATGTG #rat_gr1150701_libT1S1 23 3 sblock8373 TTGTGTCAATATGCGATGATGT #rat_gr1150700_libT3S1 22 3 sblock8373 TTGTGTCAATATGCGATGA #rat_gr1150697_libT1S1 19 3 sblock8373 TTGTGTCAATATGCGATG #rat_gr1150696_libT3S1 18 3 sblock8373 TTGTGTCAATATGCGATGATGT #rat_gr1150700_libT1S1 22 2 sblock8373 TTGTGTCAATATGCGATGA #rat_gr1150697_libT5S1 19 2 sblock8373 ATTGTGTCAATATGCGATGA #rat_gr245802_libT1S1 20 2 sblock8373 TTGTGTCAATATGCGATG #rat_gr1150696_libT5S1 18 2 sblock8373 TGTGTCAATATGCGATGATGT #rat_gr1088171_libT1S2 21 1 sblock8373 TGTGTCAATATGCGATGATG #rat_gr1088170_libT1S1 20 1 sblock8373 TTGTGTCAATATGCGATGATG #rat_gr1150699_libT5S2 21 1 sblock8373 TGTGTCAATATGCGATGAT #rat_gr1088169_libT1S1 19 1 sblock8373 TTGTGTCAATATGCGATGAT #rat_gr1150698_libT1S1 20 1 sblock8373 TTGTGTCAATATGCGATGAT #rat_gr1150698_libT1S2 20 1 sblock8373 ATTGTGTCAATATGCGAT #rat_gr245801_libT1S1 18 1 sblock8373 ATTGTGTCAATATGCGAT #rat_gr245801_libT1S2 18 1 sblock8373 tgatattatgccatggcaTTGTGTCAATATGCGATGatgtgttgtgatggcacagcgtcatcacgtggtgacgcaacatcatgacgtaagacatcac ************************************************************************************************* sblock8373 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000031714 ENSRNOG00000021468 Grm8 sblock8373 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...... #ENSRNOT00000054571 ENSRNOG00000036461 sblock8373 ((((.(((((.(((((..((((((((...((((.((((((((((((....))))))).))))))))).))))))))..))))).)))))...)))). 0.910 -39.40 # #sblock8373 chromosome:4:54685582:54685678:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054571|ENSRNOG00000036461 ## Same_strand|Intronic_coding|ENSRNOT00000031714|ENSRNOG00000021468 ## ENSRNOG00000021468|protein_coding|Grm8|Metabotropic glutamate receptor 8 precursor (mGluR8). [Source:UniProtKB/Swiss-Prot;Acc:P70579] ## ENSRNOG00000036461|miRNA|| ========== sblock8918 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock8918: 0.001 #forester #identity: 0.00 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT1S1 21 31 sblock8918 CCATGGATCTCCAGGTGGGT #rat_gr337609_libT1S1 20 24 sblock8918 CCATGGATCTCCAGGTGG #rat_gr337605_libT1S1 18 22 sblock8918 CCATGGATCTCCAGGTGGG #rat_gr337608_libT1S1 19 21 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT4S2 21 17 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT1S2 21 14 sblock8918 CCATGGATCTCCAGGTGG #rat_gr337605_libT4S1 18 12 sblock8918 CCATGGATCTCCAGGTGGG #rat_gr337608_libT4S2 19 11 sblock8918 CCATGGATCTCCAGGTGG #rat_gr337605_libT1S2 18 10 sblock8918 CCATGGATCTCCAGGTGGG #rat_gr337608_libT1S2 19 9 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT4S1 21 9 sblock8918 CCATGGATCTCCAGGTGGGT #rat_gr337609_libT1S2 20 8 sblock8918 CCATGGATCTCCAGGTGG #rat_gr337605_libT4S2 18 7 sblock8918 CCATGGATCTCCAGGTGGG #rat_gr337608_libT4S1 19 4 sblock8918 CCATGGATCTCCAGGTGGG #rat_gr337608_libT2S2 19 3 sblock8918 CCATGGATCTCCAGGTGGGT #rat_gr337609_libT4S1 20 3 sblock8918 CCATGGATCTCCAGGTGGGTCA #rat_gr337611_libT1S1 22 3 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT2S1 21 2 sblock8918 CCATGGATCTCCAGGTGGGTCA #rat_gr337611_libT4S2 22 2 sblock8918 CCATGGATCTCCAGGTGGG #rat_gr337608_libT3S1 19 1 sblock8918 CCATGGATCTCCAGGTGGGT #rat_gr337609_libT2S2 20 1 sblock8918 CCATGGATCTCCAGGTGGGT #rat_gr337609_libT3S1 20 1 sblock8918 CCATGGATCTCCAGGTGGGT #rat_gr337609_libT4S2 20 1 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT2S2 21 1 sblock8918 CCATGGATCTCCAGGTGGGTC #rat_gr337610_libT3S2 21 1 sblock8918 CCATGGATCTCCAGGTGGGTCA #rat_gr337611_libT1S2 22 1 sblock8918 CCATGGATCTCCAGGTGGGTCAC #rat_gr337612_libT1S1 23 1 sblock8918 CAACCTGGAGGACTCCATGC #rat_gr265248_libT4S2 20 80 sblock8918 CAACCTGGAGGACTCCATGC #rat_gr265248_libT1S1 20 50 sblock8918 CAACCTGGAGGACTCCATG #rat_gr265247_libT1S1 19 38 sblock8918 CAACCTGGAGGACTCCATGC #rat_gr265248_libT1S2 20 33 sblock8918 CAACCTGGAGGACTCCAT #rat_gr265246_libT4S2 18 32 sblock8918 CCAACCTGGAGGACTCCA #rat_gr321101_libT4S2 18 28 sblock8918 CAACCTGGAGGACTCCATG #rat_gr265247_libT4S2 19 21 sblock8918 CAACCTGGAGGACTCCATGCTG #rat_gr265250_libT1S1 22 20 sblock8918 CAACCTGGAGGACTCCATGC #rat_gr265248_libT4S1 20 18 sblock8918 CAACCTGGAGGACTCCATGCT #rat_gr265249_libT4S2 21 18 sblock8918 CAACCTGGAGGACTCCAT #rat_gr265246_libT4S1 18 15 sblock8918 CAACCTGGAGGACTCCAT #rat_gr265246_libT1S2 18 14 sblock8918 CAACCTGGAGGACTCCATGCT #rat_gr265249_libT1S1 21 14 sblock8918 CAACCTGGAGGACTCCAT #rat_gr265246_libT1S1 18 13 sblock8918 CAACCTGGAGGACTCCATG #rat_gr265247_libT4S1 19 11 sblock8918 CAACCTGGAGGACTCCATGCT #rat_gr265249_libT1S2 21 11 sblock8918 CCAACCTGGAGGACTCCA #rat_gr321101_libT1S2 18 7 sblock8918 CAACCTGGAGGACTCCATG #rat_gr265247_libT1S2 19 7 sblock8918 CAACCTGGAGGACTCCATGCTG #rat_gr265250_libT1S2 22 7 sblock8918 CAACCTGGAGGACTCCATGCTG #rat_gr265250_libT4S2 22 7 sblock8918 CCAACCTGGAGGACTCCA #rat_gr321101_libT1S1 18 6 sblock8918 CCAACCTGGAGGACTCCA #rat_gr321101_libT4S1 18 6 sblock8918 CCAACCTGGAGGACTCCATG #rat_gr321103_libT4S2 20 6 sblock8918 CCAACCTGGAGGACTCCATGC #rat_gr321104_libT4S1 21 5 sblock8918 CCAACCTGGAGGACTCCATG #rat_gr321103_libT1S1 20 4 sblock8918 CCAACCTGGAGGACTCCATG #rat_gr321103_libT1S2 20 4 sblock8918 CCAACCTGGAGGACTCCATGC #rat_gr321104_libT4S2 21 4 sblock8918 CCAACCTGGAGGACTCCAT #rat_gr321102_libT4S2 19 3 sblock8918 CCAACCTGGAGGACTCCATGCT #rat_gr321105_libT4S2 22 3 sblock8918 CAACCTGGAGGACTCCATGCT #rat_gr265249_libT4S1 21 3 sblock8918 CCAACCTGGAGGACTCCATG #rat_gr321103_libT4S1 20 2 sblock8918 CAACCTGGAGGACTCCATGCTGT #rat_gr265251_libT4S2 23 2 sblock8918 CCAACCTGGAGGACTCCAT #rat_gr321102_libT4S1 19 1 sblock8918 CCAACCTGGAGGACTCCATG #rat_gr321103_libT3S1 20 1 sblock8918 CCAACCTGGAGGACTCCATGC #rat_gr321104_libT1S1 21 1 sblock8918 CCAACCTGGAGGACTCCATGC #rat_gr321104_libT1S2 21 1 sblock8918 CCAACCTGGAGGACTCCATGCT #rat_gr321105_libT1S1 22 1 sblock8918 CCAACCTGGAGGACTCCATGCTG #rat_gr321106_libT1S1 23 1 sblock8918 CCAACCTGGAGGACTCCATGCTG #rat_gr321106_libT1S2 23 1 sblock8918 CAACCTGGAGGACTCCATGC #rat_gr265248_libT5S2 20 1 sblock8918 CAACCTGGAGGACTCCATGCT #rat_gr265249_libT5S2 21 1 sblock8918 CAACCTGGAGGACTCCATGCTGT #rat_gr265251_libT1S1 23 1 sblock8918 CAACCTGGAGGACTCCATGCTGT #rat_gr265251_libT1S2 23 1 sblock8918 AACCTGGAGGACTCCATGC #rat_gr34851_libT4S2 19 1 sblock8918 ACCTGGAGGACTCCATGCTGTTG #rat_gr107565_libT1S2 23 1 sblock8918 gctgatttggaaagttcattgttcgacaCCATGGATCTCCAGGTGGGTCacgtttagatatacaCCAACCTGGAGGACTCCATGCtgttgagctgttcacgagcagcg ************************************************************************************************************ sblock8918 ............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...................... #ENSRNOT00000054395 ENSRNOG00000036272 sblock8918 ((((.(((((((........((((((((.(((((((((((((((.(((...((........))))).)))))))))..)))))).))))))))..))).)))))))). 0.980 -45.40 # #sblock8918 chromosome:4:63815380:63815487:1 Same_strand|Exonic_non-coding|ENSRNOT00000054395|ENSRNOG00000036272 ## ENSRNOG00000036272|miRNA|| ========== sblock9653 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_5varHIGH] ========== #randfold sblock9653: 0.293 #forester #identity: 0.00 sblock9653 ATGGCTCTCACTGAAGACC #rat_gr234045_libT3S1 19 1 sblock9653 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT2S2 20 1 sblock9653 ATGGCTCTCACTGAAGACCA #rat_gr234046_libT5S2 20 1 sblock9653 TGTCTTCCTGTGGTTTGTTG #rat_gr1082401_libT1S1 20 2 sblock9653 GTCTTCCTGTGGTTTGTT #rat_gr642276_libT1S1 18 2 sblock9653 TCTTCCTGTGGTTTGTTG #rat_gr913073_libT1S1 18 1 sblock9653 CTTCCTGTGGTTTGTTGGCTC #rat_gr462465_libT1S1 21 1 sblock9653 gttattaaataaggctactttgcATGGCTCTCACTGAAGACCAgcagtcgtactgtagctgttggtttcaagcagacgcctaaagaacTGTCTTCCTGTGGTTTGTTGGCTC **************************************************************************************************************** sblock9653 ........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................... #ENSRNOT00000063385 ENSRNOG00000041632 sblock9653 ((((.((((((((((..(((((...((((((..((..(((((((((((.........)))))))))))..)).))).))))))))....)))))......))))).)))).. 0.480 -28.60 # #sblock9653 chromosome:5:6354124:6354235:1 Same_strand|Boundary_non-coding|ENSRNOT00000063385|ENSRNOG00000041632 ## Same_strand|Exonic_non-coding|ENSRNOT00000063385|ENSRNOG00000041632 ## ENSRNOG00000041632|miRNA|| ========== sblock9732 (miRNA) [miRNAunknown_lenNOK_cloningOK_multiarm_DicerNOK_5varHIGH] ========== #randfold sblock9732: 0.258 #forester #identity: 0.00 sblock9732 TCCACAGCCGTGTCTAGAAGGGT #rat_gr829627_libT1S1 23 1 sblock9732 TACCACGTGTGACTGTGTTGAGA #rat_gr747720_libT5S1 23 1 sblock9732 TACCACGTGTGACTGTGTTGAGAGTC #rat_gr747721_libT5S1 26 1 sblock9732 TGTTGAGAGTCCTTGCTCACGGCT #rat_gr1092887_libT5S1 24 3 sblock9732 TGAGAGTCCTTGCTCACGG #rat_gr941912_libT5S1 19 3 sblock9732 TGAGAGTCCTTGCTCACGGCTAT #rat_gr941913_libT5S1 23 2 sblock9732 TGAGAGTCCTTGCTCACGG #rat_gr941912_libT3S1 19 1 sblock9732 TCCTTGCTCACGGCTATGA #rat_gr883334_libT3S2 19 1 sblock9732 TCCTTGCTCACGGCTATGA #rat_gr883334_libT5S1 19 1 sblock9732 TCCTTGCTCACGGCTATGATGTCA #rat_gr883335_libT5S1 24 1 sblock9732 CCTTGCTCACGGCTATGATGTCA #rat_gr385579_libT5S1 23 1 sblock9732 agggagtcTCCACAGCCGTGTCTAGAAGGGTacctgcaTACCACGTGTGACTGTGTTGAGAGTCCTTGCTCACGGCTATGATGTCAttactcct ********************************************************************************************** sblock9732 ................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000062199 ENSRNOG00000040446 sblock9732 .((((((...((.(((((((...((.((((.((((.((...((((......)))).)))).)))))).))))))))).))........)))))) 0.490 -26.30 # #sblock9732 chromosome:5:79245623:79245716:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000062199|ENSRNOG00000040446 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000062199|ENSRNOG00000040446 ## ENSRNOG00000040446|miRNA|| ========== sblock9838 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerOK_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock9838: 0.466 #forester #identity: 0.00 sblock9838 GGCGAGTATCTCTTTGAG #rat_gr597525_libT2S1 18 1 sblock9838 AGCGCCTCACTCTGAAGCAC #rat_gr161879_libT2S1 20 1 sblock9838 GCGCCTCACTCTGAAGCACGACT #rat_gr562812_libT2S2 23 1 sblock9838 TGAAGCACGACTAGGCCTC #rat_gr926943_libT2S2 19 1 sblock9838 GCACGACTAGGCCTCTGTG #rat_gr530423_libT3S2 19 1 sblock9838 cccaggcatctctgGGCGAGTATCTCTTTGAGCGCCTCACTCTGAAGCACGACTAGGCCTCTGTGccttccaaggg **************************************************************************** sblock9838 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000044711 ENSRNOG00000031506 Ftl1 sblock9838 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......... #ENSRNOT00000054579 ENSRNOG00000036471 sblock9838 (((((((((....((((.(((....(((((((.......))).))))....)))..))))..)))))).....))) 0.550 -21.20 # #sblock9838 chromosome:5:152846646:152846721:1 Same_strand|Exonic_non-coding|ENSRNOT00000044711|ENSRNOG00000031506 ## Same_strand|Exonic_coding|ENSRNOT00000044711|ENSRNOG00000031506 ## ENSRNOG00000036471|miRNA|| ## ENSRNOG00000031506|protein_coding|Ftl1|Ferritin light chain 1 (Ferritin L subunit 1). [Source:UniProtKB/Swiss-Prot;Acc:P02793] ========== block113902 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK_bulgeHIGH] ========== #randfold block113902: 0.001 #forester #identity: 0.00 block113902 TGTGTGTATGTTCTGTGT #rat_gr1089152_libT2S2 18 1 block113902 tatgttattattgtttcatgcacacatatgtctgtgtatgcacatgcatgTGTGTGTATGTTCTGTGTacatac ************************************************************************** block113902 .....................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063349 ENSRNOG00000041596 block113902 (((((...(((.....(((((((((((((((.((((....)))).)))))))))))))))....))).))))). 1.000 -31.00 # #block113902 chromosome:11:21533612:21533685:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063349|ENSRNOG00000041596 ## ENSRNOG00000041596|miRNA|| ## {Repeats: trf 1 11 0 class=trf,(TG)n 2 49 -1 class=Simple_repeat} ========== block140171 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block140171: 0.001 #forester #identity: 0.00 block140171 TGTGAGTGTGAGTGTGTGAGT #rat_gr1083987_libT5S2 21 1 block140171 TGTGAGTGTGAGTGTGTGAG #rat_gr1083986_libT3S1 20 1 block140171 aatgtgtgtgtgagtgtgagtgagtgtgggtgTGTGAGTGTGAGTGTGTGAGTgtgtgtatctgtgtgtgcatgctcacacacacatgcacacacacacacgcatgtgcacacacgtt ********************************************************************************************************************** block140171 .....................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................. #ENSRNOT00000062986 ENSRNOG00000041233 block140171 (((((((((((..((((......(((((.(((((((.((((..(((((((((((((..(((....)))..))))))))))))))))).))))))).)))))))))..))))))))))) 1.000 -63.50 # #block140171 chromosome:11:84902674:84902791:-1 Same_strand|Exonic_non-coding|ENSRNOT00000062986|ENSRNOG00000041233 ## ENSRNOG00000041233|miRNA|| ## {Repeats: trf 4 25 0 class=trf,(CA)n 18 39 -1 class=Simple_repeat,(CA)n 1 179 -1 class=Simple_repeat,dust 84902739 84902760 0 class=dust,trf 18 39 0 class=trf} ========== block157865 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_randfoldOK] ========== #randfold block157865: 0.001 #forester #identity: 0.00 block157865 ATGCATACACACACATAC #rat_gr229379_libT2S2 18 1 block157865 gtttgtatgtatgtatttagtgatatgtgtgtgtgatatgtgatatatatcatttagtgatgcatatATGCATACACACACATACacacacacacacacacacacaca ************************************************************************************************************ block157865 ...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..... #ENSRNOT00000063181 ENSRNOG00000041428 block157865 ((.(((.(((.(((.....(((...((((((((((.((((((((((.((((((...)))))).)))).))))))))))))))))..)))....))).))).))).)). 0.500 -33.00 # #block157865 chromosome:11:43420669:43420776:1 Same_strand|Exonic_non-coding|ENSRNOT00000063181|ENSRNOG00000041428 ## ENSRNOG00000041428|miRNA|| ## {Repeats: trf 32 43 0 class=trf,dust 43420773 43420784 0 class=dust,(CA)n 1 15 1 class=Simple_repeat,Lx9 7509 7513 1 class=LINE/L1,(CA)n 1 46 1 class=Simple_repeat,Lx9 7230 7515 1 class=LINE} ========== block181954 (miRNA) [miRNAunknown_rep_Multihit_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block181954: 0.006 #forester #identity: 0.00 block181954 CGGCTGAGCCATCTCTCCAGCCCC #rat_gr399426_libT3S2 24 1 block181954 ctgggaaccgaactcttatatttttggttgtgagcctagcctttaaCGGCTGAGCCATCTCTCCAGCCCCggagagtggttctta ************************************************************************************* block181954 .....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<... #ENSRNOT00000054460 ENSRNOG00000036339 block181954 .((((((((..((((((......((((..(((.((.(((((......))))).)))))....)))).....)))))))))))))) 0.760 -29.50 # #block181954 chromosome:12:10270919:10271003:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054460|ENSRNOG00000036339 ## ENSRNOG00000036339|miRNA|| ## {Repeats: B4A 3 27 -1 class=SINE/B4,B4A 1 80 -1 class=SINE} ========== block285550 (miRNA) [miRNAunknown_Multihit_loopOverlap_randfoldOK] ========== #randfold block285550: 0.001 #forester #identity: 0.00 block285550 AACATACATACACACACACAC #rat_gr28011_libT3S2 21 1 block285550 tgtgtgtgtgtgtttgtctatgcatgtaaggcatataAACATACATACACACACACACacacacac ****************************************************************** block285550 ---------------------------------------------------------------------------- #ENSRNOT00000041670 ENSRNOG00000031539 block285550 ---------------------------------------------------------------------------- #ENSRNOT00000047976 ENSRNOG00000031539 block285550 ..>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063388 ENSRNOG00000041635 block285550 (((((((((((((.(((.((((.((((...........)))).)))).))).))))))))))))). 1.000 -29.40 # #block285550 chromosome:13:1606870:1606935:1 Opposite_strand|Intronic_coding|ENSRNOT00000041670|ENSRNOG00000031539 ## Same_strand|Exonic_non-coding|ENSRNOT00000063388|ENSRNOG00000041635 ## ENSRNOG00000031539|protein_coding|| ## ENSRNOG00000041635|miRNA|| ## {Repeats: dust 1606954 1606965 0 class=dust,trf 39 58 0 class=trf,(CA)n 2 21 1 class=Simple_repeat,(CA)n 2 59 1 class=Simple_repeat} ========== block318012 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block318012: 0.747 #forester #identity: 0.00 block318012 GGCTGTGAATGGAAGTCCA #rat_gr600692_libT3S1 19 1 block318012 ctgtagtcaaactccccaacaatggtcagcagcGGCTGTGAATGGAAGTCCAaggatctagcagt ***************************************************************** block318012 .....................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063325 ENSRNOG00000041572 block318012 ((((((((..(((..(((...((((((......))))))...))).))).....)).))).))). 0.420 -12.30 # #block318012 chromosome:13:77185084:77185148:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063325|ENSRNOG00000041572 ## ENSRNOG00000041572|miRNA|| ## {Repeats: MT2_Rat2 -78 409 -1 class=LTR,MT2_Rat2 355 374 -1 class=LTR/ERVL} ========== block320237 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_shortStem_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block320237: 0.001 #forester #identity: 0.00 block320237 CACACACACACACACACACAGCCAC #rat_gr275835_libT1S2 25 1 block320237 gtggcatatatgtatgtatgtatgtatgtatgtatgtatgtatgtatgtatgtatgtatacacacacacacacacacacacacacacacacaCACACACACACACACACACAGCCACc ********************************************************************************************************************** block320237 ............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...................... #ENSRNOT00000063143 ENSRNOG00000041390 block320237 (((((.....(((.(((.(((.(((.(((.(((.(((.(((.(((.(((.(((.(((....))).))).))).))).))).))).))).))).))).))).))).)))....))))). 1.000 -35.80 # #block320237 chromosome:13:82820465:82820582:1 Same_strand|Boundary_non-coding|ENSRNOT00000063143|ENSRNOG00000041390 ## ENSRNOG00000041390|miRNA|| ## {Repeats: trf 1 21 0 class=trf,dust 82820524 82820544 0 class=dust,(CA)n 34 54 1 class=Simple_repeat,L1_Rat3 6095 6536 1 class=LINE,(CA)n 2 54 1 class=Simple_repeat,L1_Rat3 6101 6105 1 class=LINE/L1} ========== block350426 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block350426: 0.001 #forester #identity: 0.00 block350426 TGCATGTATGCATGTATGTATGT #rat_gr963129_libT3S1 23 1 block350426 tcaaggtttatttctgaggcaTGCATGTATGCATGTATGTATGTatgcatgtatgcatgtatgcatgcatgcatgtatgtatgcatgtatgtgtgtatttga ****************************************************************************************************** block350426 .....................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......... #ENSRNOT00000063359 ENSRNOG00000041606 block350426 (((((...(((.......(((((((((((((((((((((((((((((((((....)))))))))))))))))))))))))))))))))....)))..))))) 0.890 -50.70 # #block350426 chromosome:14:43482723:43482824:-1 Same_strand|Boundary_non-coding|ENSRNOT00000063359|ENSRNOG00000041606 ## ENSRNOG00000041606|miRNA|| ## {Repeats: trf 49 72 0 class=trf,trf 55 78 0 class=trf,(CATA)n 56 79 -1 class=Simple_repeat,(CATA)n 2 79 -1 class=Simple_repeat,dust 43482781 43482804 0 class=dust} ========== block387131 (miRNA) [miRNAunknown_lenNOK_shortStem_randfoldOK_nonpairedHIGH] ========== #randfold block387131: 0.009 #forester #identity: 0.00 block387131 GTGTGTGTGTGCTCACTC #rat_gr655045_libT3S2 18 1 block387131 catgatcccttctagcatgtacctgcacatatatgcaggtgtgtgtgtgtgtgtgtGTGTGTGTGTGCTCACTCatgc ****************************************************************************** block387131 ......................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000062930 ENSRNOG00000041177 block387131 (((((........((((..(((.((((((((((((((........)))))))))))))).)))..))))...))))). 0.780 -27.10 # #block387131 chromosome:14:18091575:18091652:1 Same_strand|Exonic_non-coding|ENSRNOT00000062930|ENSRNOG00000041177 ## ENSRNOG00000041177|miRNA|| ## {Repeats: (TG)n 18 29 1 class=Simple_repeat,(TG)n 1 29 1 class=Simple_repeat,dust 18091613 18091624 0 class=dust,trf 1 12 0 class=trf} ========== block407146 (miRNA) [miRNAunknown_rep_Multihit_shortStem_randfoldOK] ========== #randfold block407146: 0.002 #forester #identity: 0.00 block407146 GGCGCACACACACACACACAC #rat_gr597582_libT4S1 21 1 block407146 tgtgcacgtgcatgtgtgtgcgcgcgcgcacgcgGGCGCACACACACACACACACaca ********************************************************** block407146 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000062922 ENSRNOG00000041169 block407146 .(((...(((..(((((((((((.(((....))).)))))))))))..)))...))). 1.000 -34.80 # #block407146 chromosome:14:68960870:68960927:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000062922|ENSRNOG00000041169 ## ENSRNOG00000041169|miRNA|| ## {Repeats: trf 37 53 0 class=trf,dust 68960944 68960960 0 class=dust,B3A 2 178 1 class=SINE,(CG)n 64 68 1 class=Simple_repeat,(CA)n 1 53 1 class=Simple_repeat,(CA)n 1 17 1 class=Simple_repeat} ========== block519419 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block519419: 0.012 #forester #identity: 0.00 block519419 TCGGTCGGTCGGTCGGTCG #rat_gr890759_libT1S1 19 1 block519419 TCGGTCGGTCGGTCGGTCG #rat_gr890759_libT1S1 19 1 block519419 agagaggaagtgtgaagggcgtcttcagcattgtagagTCGGTCGGTCGGTCGGTCGgTCGGTCGGTCGGTCGGTCGgttttcgtttaccttttgcttttgacacttgatagatcttt ********************************************************************************************************************** block519419 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000026680 ENSRNOG00000019697 RGD1559931_predicted block519419 ..........................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................................. #ENSRNOT00000062146 ENSRNOG00000040393 block519419 (((((..((((((.(((((((..........((.(((..((..((..((..(((((....)))))..))..))..))..))))).........))))))).))))))......))))) 0.880 -40.41 # #block519419 chromosome:16:7205279:7205396:-1 Same_strand|Exonic_non-coding|ENSRNOT00000062146|ENSRNOG00000040393 ## Same_strand|Intronic_coding|ENSRNOT00000026680|ENSRNOG00000019697 ## ENSRNOG00000019697|protein_coding|RGD1559931_predicted| ## ENSRNOG00000040393|miRNA|| ## {Repeats: (ACCG)n 3 44 -1 class=Simple_repeat,dust 7205320 7205359 0 class=dust,trf 3 42 0 class=trf,(ACCG)n 5 44 -1 class=Simple_repeat} ========== block576331 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem_randfoldOK] ========== #randfold block576331: 0.001 #forester #identity: 0.00 block576331 TTTCCGTGTGTGTGTGTGT #rat_gr1162219_libT1S1 19 1 block576331 tTTTCCGTGTGTGTGTGTGTgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtttgtttgtacgcacacacatgcatgtgcacacattggaaaac ************************************************************************************************ block576331 ............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063042 ENSRNOG00000041289 block576331 (((((((.(((((((..((((((((((((((((((..........................))))))))))))))))))..)))))))))))))). 0.960 -43.87 # #block576331 chromosome:16:48755840:48755935:1 Opposite_strand|Boundary_non-coding|ENSRNOT00000063042|ENSRNOG00000041289 ## ENSRNOG00000041289|miRNA|| ## {Repeats: trf 43 56 0 class=trf,dust 48755788 48755791 0 class=dust,(TG)n 2 57 1 class=Simple_repeat,(TG)n 2 15 1 class=Simple_repeat,dust 48755880 48755893 0 class=dust} ========== block582604 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_randfoldOK_nonpairedHIGH] ========== #randfold block582604: 0.001 #forester #identity: 0.00 block582604 GTGTGTGTGTGTACACACA #rat_gr655061_libT4S1 19 1 block582604 tgtgtgtgtgtgtatgtgtgtgtgtgtgtgtgtgtgtgtgtgtGTGTGTGTGTGTACACACAcaagggcatgcgcacacacgcaa ************************************************************************************* block582604 ..<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<..... #ENSRNOT00000063263 ENSRNOG00000041510 block582604 (((((((((((((((((...((((((((((..((..((........))..))..))))))))))...))))))))))))))))). 1.000 -46.60 # #block582604 chromosome:16:64478013:64478097:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063263|ENSRNOG00000041510 ## ENSRNOG00000041510|miRNA|| ## {Repeats: (TG)n 44 56 1 class=Simple_repeat,dust 64478013 64478025 0 class=dust,trf 1 13 0 class=trf,(TG)n 2 56 1 class=Simple_repeat} ========== block630396 (miRNA) [miRNAunknown_lenNOK_cloningOK_Multihit_randfoldOK] ========== #randfold block630396: 0.001 #forester #identity: 0.00 block630396 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT2S2 19 10 block630396 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT2S1 19 7 block630396 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT3S1 19 3 block630396 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT4S2 19 3 block630396 TGTGTATGTCCATGTGTGTA #rat_gr1088103_libT2S1 20 2 block630396 TGTGTATGTCCATGTGTGTAT #rat_gr1088104_libT3S1 21 1 block630396 GTGTATGTCCATGTGTGTA #rat_gr653362_libT3S1 19 1 block630396 GTGTATGTCCATGTGTGTA #rat_gr653362_libT5S2 19 1 block630396 TGTGTATGTCCATGTGTGTA #rat_gr1088103_libT2S2 20 1 block630396 TGTGTATGTCCATGTGTG #rat_gr1088099_libT2S1 18 1 block630396 TGTGTATGTCCATGTGTG #rat_gr1088099_libT3S2 18 1 block630396 tgtgatgctcctatgtatgtgcatgtgtatatatatgttTGTGTATGTCCATGTGTGTatacatatatacatacatacacacacaaacaagcacatgcacacatgaatggcaaaca ******************************************************************************************************************** block630396 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block630396 ..........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................. #ENSRNOT00000062985 ENSRNOG00000041232 block630396 .((..((((..(((((..((((((((((.......(((((((((.(((..(((((((((((....)))))))))))))).))))))))).)))))))))))))))...)))).)). 0.990 -45.30 # #block630396 chromosome:17:79252035:79252150:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000062985|ENSRNOG00000041232 ## ENSRNOG00000041232|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79252091 79252112 0 class=dust,(CA)n 2 48 -1 class=Simple_repeat,(TATG)n 25 26 -1 class=Simple_repeat,(TATG)n 2 26 -1 class=Simple_repeat,(CA)n 2 21 -1 class=Simple_repeat} ========== block630552 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block630552: 0.001 #forester #identity: 0.00 block630552 TGTGTGTGTACATGTGTAT #rat_gr1089323_libT5S2 19 1 block630552 tgtatttgcatgtgtgtatgttttgTGTGTGTGTACATGTGTATacagggagaaacatatacatacacacacacgcaaatacacacacacacacacaagcacac ******************************************************************************************************** block630552 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block630552 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...... #ENSRNOT00000063324 ENSRNOG00000041571 block630552 (((.((((..(((((((.((((((((((((((((..((((((((............))))))))..)))))))))))))...))).)))))))..)))).))). 1.000 -39.80 # #block630552 chromosome:17:79279602:79279705:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063324|ENSRNOG00000041571 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## ENSRNOG00000041571|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79279663 79279681 0 class=dust,trf 1 11 0 class=trf,trf 490 509 0 class=trf,(CATATA)n 2 20 -1 class=Simple_repeat,(CATATA)n 2 47 -1 class=Simple_repeat} ========== block630559 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block630559: 0.001 #forester #identity: 0.00 block630559 TGTGTGTGTACATGTGTAT #rat_gr1089323_libT5S2 19 1 block630559 tgtatttgcatgtgtgtatgttttgTGTGTGTGTACATGTGTATacagggagaaacatatacatacacacacacgcaaatacacacacacacacacaagcacac ******************************************************************************************************** block630559 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block630559 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...... #ENSRNOT00000063384 ENSRNOG00000041631 block630559 (((.((((..(((((((.((((((((((((((((..((((((((............))))))))..)))))))))))))...))).)))))))..)))).))). 1.000 -39.80 # #block630559 chromosome:17:79280594:79280697:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063384|ENSRNOG00000041631 ## ENSRNOG00000041631|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 1 11 0 class=trf,(CATATA)n 2 20 -1 class=Simple_repeat,(CATATA)n 2 47 -1 class=Simple_repeat,dust 79280655 79280673 0 class=dust} ========== block630609 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block630609: 0.001 #forester #identity: 0.00 block630609 AATATACATATACATACACAC #rat_gr59167_libT2S2 21 2 block630609 TGAATATACATATACATACAC #rat_gr929331_libT2S2 21 1 block630609 gttatgcccctatgtatgtgcatttgtgtatatgtgtatgtatgtctatgtgtgtataTGAATATACATATACATACACACaaacgcatacaggcaaaca **************************************************************************************************** block630609 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block630609 .................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063285 ENSRNOG00000041532 block630609 (((.((((....((((((((..(((((((.(((((((((((((((.(((((....))))).))))))))))))))).)))))))))))))))))))))). 1.000 -42.70 # #block630609 chromosome:17:79290787:79290886:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063285|ENSRNOG00000041532 ## ENSRNOG00000041532|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 27 50 0 class=trf,(CATATA)n 3 23 -1 class=Simple_repeat,dust 79290809 79290829 0 class=dust,(CATATA)n 3 70 -1 class=Simple_repeat,(TG)n 28 47 -1 class=Simple_repeat} ========== block675547 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_randfoldOK] ========== #randfold block675547: 0.001 #forester #identity: 0.00 block675547 TGCATGTGCTTGCATGTG #rat_gr963171_libT2S2 18 1 block675547 agtgtttgccattcatgtgTGCATGTGCTTGCATGTGtgtatgaatatgtatgttcataaacagacatgtacatacatacatacatattcacacatgcacatacagaggtgcatcac ********************************************************************************************************************* block675547 ------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block675547 ......<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........................... #ENSRNOT00000063160 ENSRNOG00000041407 block675547 .(((..(((..(((.((((((((((((..((.(((((((((((.((((((.((((....)))).)))))).))))))))))).))......))))))))))))..)))..))).))) 1.000 -46.20 # #block675547 chromosome:17:79292594:79292710:1 Opposite_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063160|ENSRNOG00000041407 ## ENSRNOG00000041407|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 691 709 0 class=trf,(CATA)n 3 78 1 class=Simple_repeat,(CATA)n 3 10 1 class=Simple_repeat,RMER12 728 850 1 class=LTR} ========== block697185 (miRNA) [miRNAunknown_Multihit_randfoldOK_bulgeHIGH] ========== #randfold block697185: 0.001 #forester #identity: 0.00 block697185 ACACACACACACACACACACGATC #rat_gr71211_libT2S1 24 1 block697185 gtgtttgagtgtttgaaatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtatacacatacacACACACACACACACACACACGATCcttcctcttagaaaaca ********************************************************************************************************************** block697185 ......................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<......................... #ENSRNOT00000063019 ENSRNOG00000041266 block697185 ((.((((((.....(((.....((((((((((((((((((((((((((((((((((........))))))))))))))))))))))))))))))))))....)))..))))))..)). 0.920 -64.20 # #block697185 chromosome:18:31776768:31776885:-1 Opposite_strand|Boundary_non-coding|ENSRNOT00000063019|ENSRNOG00000041266 ## ENSRNOG00000041266|miRNA|| ## {Repeats: trf 1 21 0 class=trf,(TG)n 2 22 -1 class=Simple_repeat,(TG)n 2 31 -1 class=Simple_repeat,dust 31776789 31776809 0 class=dust} ========== block737475 (miRNA) [miRNAunknown_Multihit_loopOverlap_randfoldOK] ========== #randfold block737475: 0.001 #forester #identity: 0.00 block737475 GTATACATACACACACACACAC #rat_gr630972_libT2S1 22 1 block737475 gtgtgtgtgtgtgtgtgtgtgtgtatgtGTATACATACACACACACACACacacacacac ************************************************************ block737475 ....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063019 ENSRNOG00000041266 block737475 ((((((((((((((((((((((((((((....)))))))))))))))))))))))))))) 1.000 -50.80 # #block737475 chromosome:18:31776789:31776848:1 Same_strand|Exonic_non-coding|ENSRNOT00000063019|ENSRNOG00000041266 ## ENSRNOG00000041266|miRNA|| ## {Repeats: (CA)n 2 46 1 class=Simple_repeat,(CA)n 2 19 1 class=Simple_repeat,dust 31776789 31776791 0 class=dust,(TG)n 29 31 1 class=Simple_repeat,dust 31776852 31776865 0 class=dust,trf 28 45 0 class=trf,trf 1 3 0 class=trf,(TG)n 2 31 1 class=Simple_repeat} ========== block775335 (miRNA) [miRNAunknown_rep_lenNOK_randfoldOK] ========== #randfold block775335: 0.007 #forester #identity: 0.00 block775335 AGGCAAGAGGATTTTTTT #rat_gr176101_libT2S2 18 1 block775335 ggaggcagAGGCAAGAGGATTTTTTTctatgtgtatggggtgggtgtgtgtctgtgtgcacgcatgcaccacagtattcatatggagatcagagtacaacttgaaggcgtcagttttc ********************************************************************************************************************** block775335 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000008104 ENSRNOG00000006049 NP_001099414.1 block775335 >>>>>>>>>>>>>>>>>>>>>>>>>....................................................................................................... #ENSRNOT00000054528 ENSRNOG00000036416 block775335 ((((((.((.((..(((.(((((((((((((((..((.((((.((((((((......)))))))).)))).)).....))))))))))..)))))....)))....)).)).)))))) 0.950 -41.80 # #block775335 chromosome:19:25756784:25756901:-1 Same_strand|Boundary_non-coding|ENSRNOT00000054528|ENSRNOG00000036416 ## Same_strand|Intronic_coding|ENSRNOT00000008104|ENSRNOG00000006049 ## ENSRNOG00000036416|miRNA|| ## ENSRNOG00000006049|protein_coding|NP_001099414.1|regulatory factor X, 1 (influences HLA class II expression) [Source:RefSeq_peptide;Acc:NP_001099414] ## {Repeats: B1F2 -87 62 1 class=SINE,B1F2 48 62 1 class=SINE/Alu} ========== block796109 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK_nonpairedHIGH] ========== #randfold block796109: 0.001 #forester #identity: 0.00 block796109 TTGATCGGTCGGTCGGTC #rat_gr1134464_libT1S1 18 1 block796109 TCGGTCGGTCGGTCGGTCG #rat_gr890759_libT1S1 19 1 block796109 TCGGTCGGTCGGTCGGTCG #rat_gr890759_libT1S1 19 1 block796109 ttggttggttggttggttggttggttggTTGATCGGTCGGTCGGTCGGTCGgTCGGTCGGTCGGTCGGTCGgtcggtcggtcggttggttggttggtcagttggttggtcagttggt ********************************************************************************************************************* block796109 ................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................................... #ENSRNOT00000054530 ENSRNOG00000036418 block796109 ((..((((..((..((((((..((..((..(((((..((..((..((..((..(((....)))..))..))..))..))..)))))..))..))..))))))..))..))))..)). 1.000 -52.30 # #block796109 chromosome:19:9209648:9209764:1 Same_strand|Exonic_non-coding|ENSRNOT00000054530|ENSRNOG00000036418 ## ENSRNOG00000036418|miRNA|| ## {Repeats: dust 9209792 9209847 0 class=dust,(TTGG)n 1 355 1 class=Simple_repeat,(TTGG)n 104 159 1 class=Simple_repeat,trf 221 276 0 class=trf} ========== block886370 (miRNA) [miRNAunknown_rep_Multihit] ========== #randfold block886370: 0.250 #forester #identity: 0.00 block886370 TACATAAAGACATTGGAAGA #rat_gr744781_libT5S1 20 1 block886370 gctgtagacTACATAAAGACATTGGAAGAaagaagactctctcttcttcacctgcttgccttgtgggactgagtg *************************************************************************** block886370 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063305 ENSRNOG00000041552 block886370 (((.(((.(((((..(((.((...(((((((((......))).))))))...)))))....)))))..)))))). 0.990 -17.70 # #block886370 chromosome:1:140962614:140962688:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063305|ENSRNOG00000041552 ## ENSRNOG00000041552|miRNA|| ## {Repeats: MT2_Rat2 274 294 1 class=LTR/ERVL,MT2_Rat2 0 487 1 class=LTR} ========== block895565 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block895565: 0.140 #forester #identity: 0.00 block895565 TCTTCCAATGTCCTTATAT #rat_gr912546_libT5S1 19 1 block895565 gcagttgctcagtcccacaaggcaggcaggcaaagaagagagagagagaatctttctTCTTCCAATGTCCTTATATaggtctccagcagaaggtg *********************************************************************************************** block895565 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.... #ENSRNOT00000063224 ENSRNOG00000041471 block895565 ((..(((((.((.((...((((((....((..(((((((((((.......)))))))))))))..)).)))).....)).))..)))))...)). 0.870 -26.00 # #block895565 chromosome:1:165836281:165836375:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063224|ENSRNOG00000041471 ## ENSRNOG00000041471|miRNA|| ## {Repeats: MT2_Rat2 1 487 -1 class=LTR,MT2_Rat2 272 291 -1 class=LTR/ERVL} ========== block916743 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_shortStem] ========== #randfold block916743: 0.526 #forester #identity: 0.00 block916743 GTGGATTTCTGTGAGTTCA #rat_gr650133_libT3S1 19 1 block916743 ccactataccatagcaaagaatttagtacacgcctttaaccccagcacttgggaagcagaggcagGTGGATTTCTGTGAGTTCAagg *************************************************************************************** block916743 ------------------------------------------------------------------------------------------------- #ENSRNOT00000054813 ENSRNOG00000020702 Cybasc3 block916743 ------------------------------------------------------------------------------------------------- #ENSRNOT00000028094 ENSRNOG00000020702 Cybasc3 block916743 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<... #ENSRNOT00000063559 ENSRNOG00000041806 block916743 ...((..(((((((....(((((...(((..((((((...(((((...)))))....))))))..))))))))))))).))...)). 0.810 -18.50 # #block916743 chromosome:1:213073842:213073928:-1 Opposite_strand|Intronic_coding|ENSRNOT00000028094|ENSRNOG00000020702 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063559|ENSRNOG00000041806 ## ENSRNOG00000041806|miRNA|| ## ENSRNOG00000020702|protein_coding|Cybasc3|Cytochrome b ascorbate-dependent protein 3 (EC 1.-.-.-). [Source:UniProtKB/Swiss-Prot;Acc:Q5U2W7] ## {Repeats: B1_Mur2 -57 92 1 class=SINE,B1_Mur4 55 74 1 class=SINE/Alu,MT2B -356 245 1 class=LTR} ========== block942841 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_shortStem_nonpairedHIGH] ========== #randfold block942841: 0.319 #forester #identity: 0.00 block942841 TGCCTTCTGGGTGCTGGG #rat_gr969197_libT1S2 18 1 block942841 ccctggctgttctggaacttgctctgtagaccaggttggcctcaaaattagggatccacctgcctcTGCCTTCTGGGTGCTGGG ************************************************************************************ block942841 ...........................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063382 ENSRNOG00000041629 block942841 .((..((...((..(((........(((((.(((((.(((((........))).)).)))))..))))).)))..)).))..)) 0.930 -25.60 # #block942841 chromosome:1:9157052:9157135:1 Same_strand|Exonic_non-coding|ENSRNOT00000063382|ENSRNOG00000041629 ## ENSRNOG00000041629|miRNA|| ## {Repeats: B1_Rn -9 139 -1 class=SINE,B1_Rn 31 49 -1 class=SINE/Alu} ========== block970748 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block970748: 0.006 #forester #identity: 0.00 block970748 TGGTTGGTTGGTTGGTTGGTC #rat_gr1069698_libT5S2 21 1 block970748 tggtcttgtTGGTTGGTTGGTTGGTTGGTCggttggtcggtcggttggttggtcggttggtcggtcggtcggtcgggtggtcgggtgggtgggtgggtgggtgggtgggtggctag ******************************************************************************************************************** block970748 ....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......................................... #ENSRNOT00000062962 ENSRNOG00000041209 block970748 (((((...(((.(((.(((.(((.(((.(((.(((..((.(((..((..((..(((....)))..))..))..))).))..))).))).))).))).))).))).)))..))))). 0.970 -32.90 # #block970748 chromosome:1:65685799:65685914:1 Same_strand|Exonic_non-coding|ENSRNOT00000062962|ENSRNOG00000041209 ## ENSRNOG00000041209|miRNA|| ## {Repeats: (TTGG)n 3 24 1 class=Simple_repeat,trf 102 123 0 class=trf,dust 65685881 65685902 0 class=dust,(TTGG)n 2 128 1 class=Simple_repeat} ========== block1013002 (miRNA) [miRNAunknown_rep_lenNOK_Multihit] ========== #randfold block1013002: 0.042 #forester #identity: 0.00 block1013002 CTCTCTTCTTTGCCTGCC #rat_gr430909_libT3S2 18 1 block1013002 tgctggagacctatataaggacattggaagaagaaagattctctctCTCTCTTCTTTGCCTGCCtgccttgtgggactgagcaa ************************************************************************************ block1013002 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063224 ENSRNOG00000041471 block1013002 ((((..((.((((((..(((.((...((((((((.(((.......))).))))))))...)))))....)))))).)).)))). 1.000 -24.70 # #block1013002 chromosome:1:165836288:165836371:1 Same_strand|Exonic_non-coding|ENSRNOT00000063224|ENSRNOG00000041471 ## ENSRNOG00000041471|miRNA|| ## {Repeats: MT2_Rat2 1 487 1 class=LTR,MT2_Rat2 268 286 1 class=LTR/ERVL} ========== block1015555 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block1015555: 0.838 #forester #identity: 0.00 block1015555 AGGCAGAGGCAGGAGGAC #rat_gr177634_libT3S1 18 2 block1015555 GAGGCAGAGGCAGGAGGAC #rat_gr512712_libT1S1 19 1 block1015555 ccccagcacttggGAGGCAGAGGCAGGAGGACgtaaggtgagaggccaacctatgatgcatagcaagttccaggccaccagtgacactttttctcaatctccggggattcttggg ******************************************************************************************************************* block1015555 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042088 ENSRNOG00000034303 Spon1 block1015555 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000049946 ENSRNOG00000034303 Spon1 block1015555 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000044994 ENSRNOG00000034303 Spon1 block1015555 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000055130 ENSRNOG00000034303 Spon1 block1015555 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>......................................................................................... #ENSRNOT00000054414 ENSRNOG00000036292 block1015555 .(((((..(((.(((((..((((.(((((.......(((....((((((((((((...)))))...)))...))))))).......)))))))))..))))).)))....))))) 0.950 -31.74 # #block1015555 chromosome:1:171870061:171870175:1 Same_strand|Intronic_coding|ENSRNOT00000044994|ENSRNOG00000034303 ## Same_strand|Exonic_non-coding|ENSRNOT00000054414|ENSRNOG00000036292 ## ENSRNOG00000036292|miRNA|| ## ENSRNOG00000034303|protein_coding|Spon1|Spondin-1 precursor (F-spondin). [Source:UniProtKB/Swiss-Prot;Acc:P35446] ## {Repeats: B1F2 41 60 1 class=SINE/Alu,B1F2 2 139 1 class=SINE} ========== block1050339 (miRNA) [miRNAunknown_rep_Multihit_shortStem_randfoldOK_bulgeHIGH] ========== #randfold block1050339: 0.001 #forester #identity: 0.00 block1050339 ACACACAGAAACACACACACAC #rat_gr71671_libT2S1 22 2 block1050339 acgtagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatacaatacatacacatacaacacaacacatacacagacatacACACACAGAAACACACACACACatgg ************************************************************************************************************************ block1050339 ..............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........................ #ENSRNOT00000063114 ENSRNOG00000041361 block1050339 .(((.((((((((((((((((((((((((.(((((((((((.(((((((((((.......))))))))))).....))))))))))).))))))))))))....))))))))))))))). 1.000 -73.20 # #block1050339 chromosome:1:252303030:252303149:1 Opposite_strand|Boundary_non-coding|ENSRNOT00000063114|ENSRNOG00000041361 ## ENSRNOG00000041361|miRNA|| ## {Repeats: Lx9 5708 5976 1 class=LINE,trf 1 22 0 class=trf,Lx9 5750 5772 1 class=LINE/L1,trf 2 24 0 class=trf,dust 252303087 252303109 0 class=dust} ========== block1063479 (miRNA) [miRNAunknown_lenNOK_Multihit_nonpairedHIGH] ========== #randfold block1063479: 0.025 #forester #identity: 0.00 block1063479 TGGGCTGGGCTGGGCTGGG #rat_gr1035989_libT3S1 19 1 block1063479 CTGGGCTGGGCTGGGCTGG #rat_gr450861_libT3S1 19 1 block1063479 gcagtgttctagaagtcggggccagcctgcgtgtgttgggcttctcggagggacagcaaggggctgggctgggcggggctgggcggggCTGGGCTGGGCTGGGCTGGGcggggcgaggcg ************************************************************************************************************************ block1063479 ............................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063534 ENSRNOG00000041781 block1063479 ((..((..((...((((.((.(((((((((...((((.((((((((((.....((((.....))))..)))))..))))).))))..)).))))))).)).))))....))..))..)). 0.660 -54.50 # #block1063479 chromosome:20:8145549:8145668:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063534|ENSRNOG00000041781 ## ENSRNOG00000041781|miRNA|| ## {Repeats: (CAGCC)n 4 71 -1 class=Simple_repeat,trf 21 41 0 class=trf,dust 8145561 8145581 0 class=dust,(CAGCC)n 24 44 -1 class=Simple_repeat} ========== block1140691 (miRNA) [miRNAunknown_rep_randfoldOK] ========== #randfold block1140691: 0.001 #forester #identity: 0.00 block1140691 AGTAACTGGTTGAACAACTGTA #rat_gr194581_libT2S2 22 1 block1140691 AGTAACTGGTTGAACAACTGTA #rat_gr194581_libT5S2 22 1 block1140691 gtttccaactttgcaccctttgggttcagttgttcaacaggttacaattagttagattAGTAACTGGTTGAACAACTGTAtccaaagagtacagattactagggagat ************************************************************************************************************ block1140691 ---------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000015138 ENSRNOG00000011099 NM_001113328.1 block1140691 ..............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....................... #ENSRNOT00000062187 ENSRNOG00000040434 block1140691 ((((((...((((.((.((((((((.((((((((((((.((((((((((.....)))).)))))).)))))))))))).)))))))).)).)))).......)))))) 0.970 -44.50 # #block1140691 chromosome:2:40714098:40714205:-1 Opposite_strand|Intronic_coding|ENSRNOT00000015138|ENSRNOG00000011099 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000062187|ENSRNOG00000040434 ## ENSRNOG00000040434|miRNA|| ## ENSRNOG00000011099|protein_coding|NM_001113328.1|phosphodiesterase 4D, cAMP specific (Pde4d), transcript variant 1, mRNA [Source:RefSeq_dna;Acc:NM_001113328] ## {Repeats: L3 3452 3474 1 class=LINE/CR1,L3 -901 3588 1 class=LINE} ========== block1141536 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block1141536: 0.001 #forester #identity: 0.00 block1141536 TACATACTACACACACACACACAC #rat_gr745552_libT3S2 24 1 block1141536 gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtacatatatgtatataTACATACTACACACACACACACACacacacacacacccacacacacacacaca **************************************************************************************************************** block1141536 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000017475 ENSRNOG00000013098 block1141536 .....<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....................... #ENSRNOT00000063136 ENSRNOG00000041383 block1141536 (((((((((((((((.(((((((((((((((((((((((((((((....((((((....)))))).))))))))))))))))))))))))))))).))))))))))))))). 1.000 -88.70 # #block1141536 chromosome:2:42936909:42937020:-1 Same_strand|Intronic_non-coding|ENSRNOT00000017475|ENSRNOG00000013098 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063136|ENSRNOG00000041383 ## ENSRNOG00000041383|miRNA|| ## ENSRNOG00000013098|protein_coding|| ## {Repeats: dust 42936938 42936953 0 class=dust,trf 31 46 0 class=trf,(TG)n 2 47 -1 class=Simple_repeat,(TG)n 32 47 -1 class=Simple_repeat} ========== block1224803 (miRNA) [miRNAunknown_rep_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block1224803: 0.072 #forester #identity: 0.00 block1224803 CGGCTGAGCCATCTCTCCAGCCCC #rat_gr399426_libT3S2 24 1 block1224803 tactaagtgcttttttggttgtgagcctagcctttaaCGGCTGAGCCATCTCTCCAGCCCCtactaagtgc *********************************************************************** block1224803 ...............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054533 ENSRNOG00000036421 block1224803 ((((.((((.....((((..(((.((.(((((......))))).)))))....))))....)))).)))). 0.980 -18.70 # #block1224803 chromosome:2:234714003:234714073:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054533|ENSRNOG00000036421 ## ENSRNOG00000036421|miRNA|| ## {Repeats: B4 1 47 -1 class=SINE} ========== block1226136 (miRNA) [miRNAunknown_rep_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block1226136: 0.013 #forester #identity: 0.00 block1226136 AGCCATCTCTCCAGCCCAGAGAC #rat_gr157868_libT3S2 23 2 block1226136 tagagactttcttatatttttggttgtgagcctagcctttaacggctgAGCCATCTCTCCAGCCCAGAGACtttctac ****************************************************************************** block1226136 .................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054532 ENSRNOG00000036420 block1226136 ((((((.(((((.......((((..(((.((.(((((......))))).)))))....))))...))))).)))))). 0.930 -20.60 # #block1226136 chromosome:2:237431968:237432045:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054532|ENSRNOG00000036420 ## ENSRNOG00000036420|miRNA|| ## {Repeats: B4 2 47 -1 class=SINE} ========== block1306327 (miRNA) [miRNAunknown_rep_lenNOK_randfoldOK] ========== #randfold block1306327: 0.001 #forester #identity: 0.00 block1306327 TATACACACACACATACG #rat_gr791139_libT3S1 18 1 block1306327 TATACACACACACATACGT #rat_gr791141_libT3S1 19 1 block1306327 atatgtatatatatgtgtgtgtgtatgtatatatgtatgaatgtatgtatatgtgtatgtatatgtatatgtaTATACACACACACATACGTatttctaagta ******************************************************************************************************* block1306327 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.......... #ENSRNOT00000063369 ENSRNOG00000041616 block1306327 .(((......((((((((((((((.((((((((((((((.((((((((((....)))))))))).)))))))))))))).))))))))))))))......))) 1.000 -40.70 # #block1306327 chromosome:2:171282456:171282558:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063369|ENSRNOG00000041616 ## ENSRNOG00000041616|miRNA|| ## {Repeats: RMER12 844 851 1 class=LTR/ERVK,trf 1 5 0 class=trf,Lx9 -130 7514 -1 class=LINE,dust 171282428 171282431 0 class=dust} ========== block1355657 (miRNA) [miRNAunknown_Multihit_5varHIGH_randfoldOK] ========== #randfold block1355657: 0.001 #forester #identity: 0.00 block1355657 TACACACACACATAAACACAC #rat_gr740827_libT2S2 21 2 block1355657 ACACACATAAACACACATG #rat_gr71954_libT5S2 19 1 block1355657 ACACACATAAACACACAT #rat_gr71938_libT4S1 18 1 block1355657 TACACACACACATAAACACAC #rat_gr740827_libT1S1 21 1 block1355657 TACACACACACATAAACACAC #rat_gr740827_libT2S1 21 1 block1355657 TACACACACACATAAACACAC #rat_gr740827_libT5S1 21 1 block1355657 agtgctgggattgtagacgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttatgtatatattatgtgtatataTACACACACACATAAACACACATGtaagcacatactataaacaaaca ************************************************************************************************************************ block1355657 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000007906 ENSRNOG00000022015 NP_001101306.1 block1355657 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000007776 ENSRNOG00000022015 NP_001101306.1 block1355657 ........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................. #ENSRNOT00000063061 ENSRNOG00000041308 block1355657 .((..((...((((((..((((((.((..(((((((.((((((((((((.(((((((((((...))))))))))))))))))))))).)))))))..)).)))))).)))))).)).)). 0.990 -54.60 # #block1355657 chromosome:3:14207814:14207933:-1 Opposite_strand|Intronic_non-coding|ENSRNOT00000007906|ENSRNOG00000022015 ## Opposite_strand|Intronic_coding|ENSRNOT00000007776|ENSRNOG00000022015 ## Same_strand|Exonic_non-coding|ENSRNOT00000063061|ENSRNOG00000041308 ## ENSRNOG00000022015|protein_coding|NP_001101306.1|centrosomal protein 1 [Source:RefSeq_peptide;Acc:NP_001101306] ## ENSRNOG00000041308|miRNA|| ## {Repeats: (TATG)n 2 96 -1 class=Simple_repeat,(TATG)n 68 92 -1 class=Simple_repeat,dust 14207837 14207861 0 class=dust} ========== block1484099 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_loopOverlap_randfoldOK_nonpairedHIGH] ========== #randfold block1484099: 0.001 #forester #identity: 0.00 block1484099 ATGATGGCACATGCCTTTA #rat_gr228369_libT4S1 19 1 block1484099 actttaccctcctatctttacctcttgagtgtgaagattacaggtacagccaggcaATGATGGCACATGCCTTTAattccagcactcaggaggcagaggcaggtgaagt ************************************************************************************************************* block1484099 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....... #ENSRNOT00000063199 ENSRNOG00000041446 block1484099 ((((((((..(((.......((((((((((((...(((((.(((((..((((........))))...))))).)))))...))))))))))))...)))..)))))))) 1.000 -47.40 # #block1484099 chromosome:3:108081189:108081297:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063199|ENSRNOG00000041446 ## ENSRNOG00000041446|miRNA|| ## {Repeats: B1_Rn 9 28 1 class=SINE/Alu,B1_Rn 1 148 1 class=SINE} ========== block1487614 (miRNA) [miRNAunknown_rep_Multihit_shortStem_nonpairedHIGH_bulgeHIGH] ========== #randfold block1487614: 0.120 #forester #identity: 0.00 block1487614 GCCTCGAACTCACAGAGATCTG #rat_gr556956_libT3S1 22 2 block1487614 GCCTCGAACTCACAGAGATCTGcctgcctcttcctcctgagtgcccaccatgcttggcagagggaggttcgttttaagaagtgataggca ****************************************************************************************** block1487614 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<................................................................ #ENSRNOT00000063391 ENSRNOG00000041638 block1487614 ((((...(((....(((((..((((.(((((.((......(((.....)))....)).))))).))))..)))))....)))...)))). 0.970 -28.70 # #block1487614 chromosome:3:115150678:115150767:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063391|ENSRNOG00000041638 ## ENSRNOG00000041638|miRNA|| ## {Repeats: B1_Mur3 56 78 -1 class=SINE/Alu,B1_Mur3 -8 141 -1 class=SINE} ========== block1505252 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem_loopOverlap] ========== #randfold block1505252: 0.237 #forester #identity: 0.00 block1505252 TCGGTCGGTCGGTCGGTCG #rat_gr890759_libT1S1 19 1 block1505252 ggTCGGTCGGTCGGTCGGTCGgtcggtctgtcggtctgtctgtctatc ************************************************ block1505252 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000021435 ENSRNOG00000015928 NP_001102071.1 block1505252 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........ #ENSRNOT00000062196 ENSRNOG00000040443 block1505252 ((.(((.(((((((.(((((....)).))))))).))).))).))... 0.990 -13.60 # #block1505252 chromosome:3:149586257:149586304:1 Same_strand|Exonic_non-coding|ENSRNOT00000062196|ENSRNOG00000040443 ## Same_strand|Intronic_coding|ENSRNOT00000021435|ENSRNOG00000015928 ## ENSRNOG00000040443|miRNA|| ## ENSRNOG00000015928|protein_coding|NP_001102071.1|DEAH (Asp-Glu-Ala-His) box polypeptide 35 [Source:RefSeq_peptide;Acc:NP_001102071] ## {Repeats: (CGGT)n 3 44 1 class=Simple_repeat,(CGGT)n 7 34 1 class=Simple_repeat,dust 149586263 149586290 0 class=dust,trf 20 47 0 class=trf} ========== block1611731 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block1611731: 0.711 #forester #identity: 0.00 block1611731 CTCTCTTCTTTGCCTGCC #rat_gr430909_libT3S2 18 1 block1611731 tgctggagacctatgtaaggacattggaagaaggaagaCTCTCTTCTTTGCCTGCCtgccttgtgagactgagcaa **************************************************************************** block1611731 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063268 ENSRNOG00000041515 block1611731 ((((..((..((...(((((.....((...(((((((.....))))))).))......)))))..)).)).)))). 0.780 -16.10 # #block1611731 chromosome:4:183448611:183448686:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063268|ENSRNOG00000041515 ## ENSRNOG00000041515|miRNA|| ## {Repeats: MT2_Rat2 306 324 1 class=LTR/ERVL,MT2_Rat2 -3 484 1 class=LTR} ========== block1677488 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_loopOverlap_randfoldOK_bulgeHIGH] ========== #randfold block1677488: 0.001 #forester #identity: 0.00 block1677488 GTGTGTGTGTGTGTGCATC #rat_gr655140_libT2S2 19 1 block1677488 aatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtGTGTGTGTGTGTGTGCATCtatacacatacatgcatgcatacatgcatacatacatgcatacattatacacacatat ************************************************************************************************************************ block1677488 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000007552 ENSRNOG00000005686 Suclg2 block1677488 ..................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<................... #ENSRNOT00000063158 ENSRNOG00000041405 block1677488 .(((((((((((((((((((((((((((((((((((((((((((((((((((((((((....))))))))))))))))))))))))))))))))))))))))))))).)))))))))))) 1.000 -80.10 # #block1677488 chromosome:4:130200893:130201012:1 Opposite_strand|Intronic_coding|ENSRNOT00000007552|ENSRNOG00000005686 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063158|ENSRNOG00000041405 ## ENSRNOG00000041405|miRNA|| ## ENSRNOG00000005686|protein_coding|Suclg2|Suclg2 protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q68FT4] ## {Repeats: (TG)n 41 56 1 class=Simple_repeat,dust 130200895 130200910 0 class=dust,(TG)n 1 56 1 class=Simple_repeat,B3 166 169 1 class=SINE/B2,trf 1 16 0 class=trf,B3 173 203 1 class=SINE} ========== block1707893 (miRNA) [miRNAunknown_rep_Multihit_loopOverlap_randfoldOK] ========== #randfold block1707893: 0.001 #forester #identity: 0.00 block1707893 TGTGTGTATATATGTATGTG #rat_gr1089023_libT2S1 20 1 block1707893 atgtgtatatctgtgtgtatgtgtgtgtgcatgtgtatatatatgtatatatgtgcaaTGTGTGTATATATGTATGTGtacatgtgcatatgtgtatatgtatgcatgtatatat ******************************************************************************************************************* block1707893 .......................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063381 ENSRNOG00000041628 block1707893 ((((((((((.((((..((((..((((((((((((((((((((((((((((..(((...)))..))))))))))))))))))))))))))))..))))..)))).)))))))))) 1.000 -51.80 # #block1707893 chromosome:4:183611903:183612017:1 Same_strand|Boundary_non-coding|ENSRNOT00000063381|ENSRNOG00000041628 ## ENSRNOG00000041628|miRNA|| ## {Repeats: (TATG)n 3 8 1 class=Simple_repeat,RLTR21 1237 1254 1 class=LTR/ERVK,trf 184 204 0 class=trf,dust 183612053 183612073 0 class=dust,(TG)n 2 180 1 class=Simple_repeat} ========== block1851673 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem_randfoldOK] ========== #randfold block1851673: 0.001 #forester #identity: 0.00 block1851673 ACAGTGTGTGTGTGTGTGC #rat_gr82264_libT2S2 19 1 block1851673 tgccACAGTGTGTGTGTGTGTGCgtgtgtgtgtgtgtgtgtgtgtgtgcgtgcatgtatgcacttgcacacacncaggca ******************************************************************************** block1851673 ............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063104 ENSRNOG00000041351 block1851673 .(((...(((((((((((((((((((..((((..((......))..))))..)))))))))))..))))))))...))). 0.990 -38.70 # #block1851673 chromosome:5:86515018:86515097:1 Opposite_strand|Boundary_non-coding|ENSRNOT00000063104|ENSRNOG00000041351 ## ENSRNOG00000041351|miRNA|| ## {Repeats: dust 86515050 86515065 0 class=dust,(TG)n 1 53 1 class=Simple_repeat,(TG)n 1 16 1 class=Simple_repeat,trf 30 45 0 class=trf} ========== block1880983 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_randfoldOK] ========== #randfold block1880983: 0.001 #forester #identity: 0.00 block1880983 CGTGCGTGTGTGCGTGTGT #rat_gr405081_libT3S2 19 1 block1880983 CGTGCGTGTGTGCGTGTGTG #rat_gr405084_libT2S1 20 1 block1880983 CGTGCGTGTGTGCGTGTGTG #rat_gr405084_libT3S1 20 1 block1880983 gaagagcagcctgtgcgcgcgcgcgcgcgcgtgcgtgcgtgcgtgcgcgcgtgcgtgcgtgCGTGCGTGTGTGCGTGTGTGcgtgcgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtcc ************************************************************************************************************************ block1880983 ............................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063225 ENSRNOG00000041472 block1880983 ((...(((((.((..((((((((((((((((..((..((..((..((((((..(((((....)))))..))))))..))..))..))..))))))))))))))))..)).)).))).)). 1.000 -77.10 # #block1880983 chromosome:5:143898597:143898716:1 Same_strand|Boundary_non-coding|ENSRNOT00000063225|ENSRNOG00000041472 ## ENSRNOG00000041472|miRNA|| ## {Repeats: dust 143898646 143898666 0 class=dust,(CGTG)n 1 106 1 class=Simple_repeat,(CGTG)n 50 70 1 class=Simple_repeat,trf 37 57 0 class=trf} ========== block1913946 (miRNA) [miRNAunknown_rep_Multihit_randfoldOK] ========== #randfold block1913946: 0.001 #forester #identity: 0.00 block1913946 ATATGTATGTGTGTGTGTGTG #rat_gr212394_libT2S2 21 1 block1913946 TATATGTATGTGTGTGTGTGTG #rat_gr792762_libT2S1 22 1 block1913946 TATATGTATGTGTGTGTGTG #rat_gr792761_libT2S1 20 1 block1913946 catttagattttatttggtgtttacacacacacacacacacacatacatatatatgTATATGTATGTGTGTGTGTGTGtacatgtgtacaataacaagatcactagggtgtacatg ******************************************************************************************************************** block1913946 ............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063355 ENSRNOG00000041602 block1913946 (((.((.((((((((((.((((((((((.(((((((((((((((((((((((....)))))))))))))))))))))))...)))))).)))).)))).....)))))).)).))) 0.900 -47.80 # #block1913946 chromosome:6:15565406:15565521:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063355|ENSRNOG00000041602 ## ENSRNOG00000041602|miRNA|| ## {Repeats: RSINE1 2 165 -1 class=SINE,dust 15565444 15565466 0 class=dust,RSINE1 152 165 -1 class=SINE/B4} ========== block1932479 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block1932479: 0.001 #forester #identity: 0.00 block1932479 CGTGTGTGTGTGCGTGTGTG #rat_gr405712_libT3S1 20 1 block1932479 gtatctgtctgtgtgCGTGTGTGTGTGCGTGTGTGtgtgtgtgtgtgtgtgtgtgtgtgtatgcgtgcgcgcccaggcacgcatgctcaggcacatgtggaagccaaaagagggcc ******************************************************************************************************************** block1932479 ..................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......................... #ENSRNOT00000063145 ENSRNOG00000041392 block1932479 ((.(((....((.(((((((((.((.((((((((((.((.(((((..((((((......))))))..))))).)).)))))))))).)).)))))))))...))....)))..)). 0.500 -53.50 # #block1932479 chromosome:6:50556625:50556740:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063145|ENSRNOG00000041392 ## ENSRNOG00000041392|miRNA|| ## {Repeats: dust 50556706 50556726 0 class=dust,trf 26 46 0 class=trf,(CA)n 1 62 -1 class=Simple_repeat,(CA)n 33 53 -1 class=Simple_repeat} ========== block1945336 (miRNA) [miRNAunknown_rep_Multihit_randfoldOK] ========== #randfold block1945336: 0.001 #forester #identity: 0.00 block1945336 TCCAGGACAGCCAGAGCTAC #rat_gr832920_libT2S1 20 2 block1945336 gaggcaggcagatctctgtgagttcaaggccagcctggtcaacagagtgagtTCCAGGACAGCCAGAGCTACacagagaaaccctgtctc ****************************************************************************************** block1945336 ....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063213 ENSRNOG00000041460 block1945336 ((((((((....(((((((((((((..(((...((((((((......)))...)))))...))).))))).))))))))...)))))))) 1.000 -44.10 # #block1945336 chromosome:6:75747096:75747185:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063213|ENSRNOG00000041460 ## ENSRNOG00000041460|miRNA|| ## {Repeats: B1_Mur4 83 103 1 class=SINE/Alu,B1_Mur4 -5 145 1 class=SINE} ========== block1974990 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_randfoldOK] ========== #randfold block1974990: 0.001 #forester #identity: 0.00 block1974990 TCTCTGTGAGTTCGAGGCC #rat_gr903113_libT1S2 19 1 block1974990 cacttgggaggcagaggaaggtggaTCTCTGTGAGTTCGAGGCCagcctggtctacagagagagttcaaggacagccaggactacacagagaaaccctgtctcaaaaaagt *************************************************************************************************************** block1974990 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000057540 ENSRNOG00000027300 NP_001102189.1 block1974990 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000057539 ENSRNOG00000027300 NP_001102189.1 block1974990 .................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063298 ENSRNOG00000041545 block1974990 .((((..(((((((.....(((...(((((((((((((..(((...((((..((........))..)).))...))).))))).)))))))).))))))))))....)))) 0.890 -41.90 # #block1974990 chromosome:6:124745143:124745253:-1 Same_strand|Boundary_non-coding|ENSRNOT00000037892|ENSRNOG00000027300 ## Same_strand|Intronic_coding|ENSRNOT00000057539|ENSRNOG00000027300 ## Same_strand|Exonic_non-coding|ENSRNOT00000063298|ENSRNOG00000041545 ## ENSRNOG00000041545|miRNA|| ## ENSRNOG00000027300|protein_coding|NP_001102189.1|tetratricopeptide repeat domain 7B [Source:RefSeq_peptide;Acc:NP_001102189] ## {Repeats: B1_Mur4 0 150 1 class=SINE,trf 49 60 0 class=trf,B1_Mur4 60 79 1 class=SINE/Alu} ========== block1999274 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block1999274: 0.001 #forester #identity: 0.00 block1999274 TATATGTATGTGTGTGTGTG #rat_gr792761_libT2S1 20 1 block1999274 TATATGTATGTGTGTGTGTGTG #rat_gr792762_libT2S1 22 1 block1999274 ATATGTATGTGTGTGTGTGTG #rat_gr212394_libT2S2 21 1 block1999274 cctagtgatcttgttattgtacacatgtacacacacacacacatacatatacataTATATGTATGTGTGTGTGTGTGtgtgtgtaaacaccaaataaaatctaaatgg ************************************************************************************************************ block1999274 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............. #ENSRNOT00000063355 ENSRNOG00000041602 block1999274 ((....(((.(((((..(((..(((..((((((((((((((((((((((((....))))))))))))))))))))))))..)))..)))...))))).))).....)) 0.980 -49.10 # #block1999274 chromosome:6:15565415:15565522:1 Same_strand|Exonic_non-coding|ENSRNOT00000063355|ENSRNOG00000041602 ## ENSRNOG00000041602|miRNA|| ## {Repeats: (TG)n 2 26 1 class=Simple_repeat,dust 15565485 15565498 0 class=dust,dust 15565434 15565438 0 class=dust,(TG)n 2 19 1 class=Simple_repeat,trf 8 25 0 class=trf} ========== block2017718 (miRNA) [miRNAunknown_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH] ========== #randfold block2017718: 0.836 #forester #identity: 0.00 block2017718 TGTGTGTGTGTGTGTGTTGTC #rat_gr1089774_libT2S1 21 1 block2017718 gtgtgtgtgtgtgtgtgtgtctgtgtgtctgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTGTGTTGTCgccccagtacaagttctacacaatcaccctcac *********************************************************************************************************** block2017718 .................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000062991 ENSRNOG00000041238 block2017718 (((...(((..((((((...((.((((.(((.(((..((..((..((..((....))..))..))..))....)))..)))))))))...))))))..)))...))) 0.870 -19.20 # #block2017718 chromosome:6:50703845:50703951:1 Same_strand|Exonic_non-coding|ENSRNOT00000062991|ENSRNOG00000041238 ## ENSRNOG00000041238|miRNA|| ## {Repeats: dust 50703844 50703861 0 class=dust,(TG)n 55 72 1 class=Simple_repeat,(TG)n 2 72 1 class=Simple_repeat,trf 1 18 0 class=trf} ========== block2030670 (miRNA) [miRNAunknown_rep_Multihit_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block2030670: 0.001 #forester #identity: 0.00 block2030670 GCCTTGAACTCACAGAGATCTG #rat_gr560462_libT5S1 22 1 block2030670 tcattaggtttcttttgagacagggtttctctgtgtagctctggctgtcctggaactcactctgttgaccaggctgGCCTTGAACTCACAGAGATCTGcctgcctctgccttcttagtgt ************************************************************************************************************************ block2030670 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.................. #ENSRNOT00000063213 ENSRNOG00000041460 block2030670 .(((((((........(((.((((...((((((((.((.((.((((..((((((((.......)))..)))))..))))..)).))))))))))....)))).)))......))))))). 0.990 -45.54 # #block2030670 chromosome:6:75747080:75747199:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063213|ENSRNOG00000041460 ## ENSRNOG00000041460|miRNA|| ## {Repeats: B1_Mur4 57 79 -1 class=SINE/Alu,B1_Mur4 -5 145 -1 class=SINE} ========== block2048700 (miRNA) [miRNAunknown_rep_lenNOK_cloningOK_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block2048700: 0.161 #forester #identity: 0.00 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT5S1 19 5 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT2S1 19 4 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT4S1 19 4 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT4S2 19 3 block2048700 CTAGGCTCACAACCAAATA #rat_gr413392_libT5S1 19 2 block2048700 GGCTCACAACCAAATATAT #rat_gr598798_libT5S1 19 2 block2048700 GCTAGGCTCACAACCAAAT #rat_gr567313_libT1S1 19 1 block2048700 GCTAGGCTCACAACCAAAT #rat_gr567313_libT4S1 19 1 block2048700 CTAGGCTCACAACCAAATA #rat_gr413392_libT4S1 19 1 block2048700 CTAGGCTCACAACCAAATA #rat_gr413392_libT5S2 19 1 block2048700 TAGGCTCACAACCAAATAT #rat_gr779142_libT1S1 19 1 block2048700 TAGGCTCACAACCAAATAT #rat_gr779142_libT2S2 19 1 block2048700 TAGGCTCACAACCAAATAT #rat_gr779142_libT3S1 19 1 block2048700 TAGGCTCACAACCAAATAT #rat_gr779142_libT5S1 19 1 block2048700 TAGGCTCACAACCAAATAT #rat_gr779142_libT5S2 19 1 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT1S1 19 1 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT1S2 19 1 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT2S2 19 1 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT3S1 19 1 block2048700 AGGCTCACAACCAAATATA #rat_gr181863_libT3S2 19 1 block2048700 GGCTCACAACCAAATATAT #rat_gr598798_libT1S1 19 1 block2048700 ctgagtaagatatactgtacacatgggctggagagatggctcagccgttaaaggCTAGGCTCACAACCAAATATATaagatatactgtacacagt *********************************************************************************************** block2048700 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000058195 ENSRNOG00000007646 Sipa1l1 block2048700 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000010626 ENSRNOG00000007646 Sipa1l1 block2048700 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....................... #ENSRNOT00000054610 ENSRNOG00000036502 block2048700 (((.(((..((((..((((....(((..((.......(((..((((......))))..)))..)).)))....))))..))))....))).))). 0.720 -21.00 # #block2048700 chromosome:6:106263518:106263612:1 Same_strand|Intronic_coding|ENSRNOT00000010626|ENSRNOG00000007646 ## Same_strand|Exonic_non-coding|ENSRNOT00000054610|ENSRNOG00000036502 ## ENSRNOG00000007646|protein_coding|Sipa1l1|Signal-induced proliferation-associated 1-like protein 1 (SPA-1-like protein p1294). [Source:UniProtKB/Swiss-Prot;Acc:O35412] ## ENSRNOG00000036502|miRNA|| ## {Repeats: B4 2 47 1 class=SINE} ========== block2051571 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block2051571: 0.001 #forester #identity: 0.00 block2051571 GTGTGTGTGTGTGTACGCA #rat_gr655118_libT4S1 19 2 block2051571 GTGTGTGTGTGTGTACGCA #rat_gr655118_libT1S2 19 1 block2051571 gtgtgtGTGTGTGTGTGTGTACGCAcactagtgcacgcgcgcgtgcactca *************************************************** block2051571 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000011599 ENSRNOG00000008754 Flvcr2 block2051571 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..... #ENSRNOT00000063386 ENSRNOG00000041633 block2051571 .((.(((..(((((((((((((........)))))))))))))..))).)) 1.000 -29.60 # #block2051571 chromosome:6:109871307:109871357:1 Same_strand|Intronic_coding|ENSRNOT00000011599|ENSRNOG00000008754 ## Same_strand|Exonic_non-coding|ENSRNOT00000063386|ENSRNOG00000041633 ## ENSRNOG00000008754|protein_coding|Flvcr2|major facilitator superfamily domain containing 7C Gene [Source:MGI Symbol;Acc:MGI:2384974] ## ENSRNOG00000041633|miRNA|| ## {Repeats: (TG)n 17 31 1 class=Simple_repeat,dust 109871297 109871311 0 class=dust,trf 1 15 0 class=trf,(TG)n 2 31 1 class=Simple_repeat} ========== block2051938 (miRNA) [miRNAunknown_rep_Multihit_randfoldOK] ========== #randfold block2051938: 0.001 #forester #identity: 0.00 block2051938 TGTGTGTGTGTGTGCATGCAC #rat_gr1089560_libT3S1 21 1 block2051938 tgcatgtgcgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTGCATGCACatgcacacatgtacatgcacatgcac ************************************************************************************************* block2051938 .....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063109 ENSRNOG00000041356 block2051938 ((((((((((((((..((((((((((((((((((..((..((..((....))..))..))..))))))))))))))))))..)))))))))))))). 0.700 -57.50 # #block2051938 chromosome:6:110509526:110509622:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063109|ENSRNOG00000041356 ## ENSRNOG00000041356|miRNA|| ## {Repeats: (TG)n 1 60 1 class=Simple_repeat,trf 30 40 0 class=trf,trf 28 34 0 class=trf,dust 110509530 110509544 0 class=dust,(TG)n 46 60 1 class=Simple_repeat,trf 1 15 0 class=trf,B4 275 281 1 class=SINE/B4,B4 277 292 1 class=SINE} ========== block2052951 (miRNA) [miRNAunknown_rep_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block2052951: 0.090 #forester #identity: 0.00 block2052951 TGAGCCATCTCTCCAGCCTGA #rat_gr943942_libT3S1 21 1 block2052951 GAGCCATCTCTCCAGCCTGAG #rat_gr508672_libT4S2 21 1 block2052951 gaggcttgaagttcttatatttttggttgtgagcctagcctttaacggcTGAGCCATCTCTCCAGCCTGAGgcttgaagttctta ************************************************************************************* block2052951 ....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054609 ENSRNOG00000036501 block2052951 (((((((.(((.(((((.....((((..(((.((.(((((......))))).)))))....))))..)))))))).)))).))). 0.910 -23.80 # #block2052951 chromosome:6:112107314:112107398:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054609|ENSRNOG00000036501 ## ENSRNOG00000036501|miRNA|| ## {Repeats: L1_Rn 4542 4564 -1 class=LINE/L1,L1_Rn -1291 4757 -1 class=LINE} ========== block2105813 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block2105813: 0.001 #forester #identity: 0.00 block2105813 GCACAAGCACACACACAC #rat_gr528543_libT3S2 18 2 block2105813 tgctttcacacgtgtgcgcgtgtgtgcgtgcgcgtgcgcgcGCACAAGCACACACACACacacacacacacacacacacacacacacacacacaccagaaggca ******************************************************************************************************** block2105813 ................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<............... #ENSRNOT00000063107 ENSRNOG00000041354 block2105813 .((((((....(((((...(((((((.((((..((((....))))..)))).)))))))...)))))..............................)))))). 0.420 -35.38 # #block2105813 chromosome:7:40202923:40203026:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063107|ENSRNOG00000041354 ## ENSRNOG00000041354|miRNA|| ## {Repeats: (TG)n 1 47 -1 class=Simple_repeat,(CG)n 2 6 -1 class=Simple_repeat,dust 40202968 40202986 0 class=dust,(CG)n 2 40 -1 class=Simple_repeat,(TG)n 37 47 -1 class=Simple_repeat,trf 37 47 0 class=trf} ========== block2137421 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_shortStem] ========== #randfold block2137421: 0.162 #forester #identity: 0.00 block2137421 GTGGATCTCTGTGAGTTCA #rat_gr650002_libT4S2 19 1 block2137421 GGTGGATCTCTGTGAGTTCA #rat_gr622015_libT5S2 20 1 block2137421 gagctgggtacggtggtgcatgcctttaatcccagcacttgggaggaagagacaGGTGGATCTCTGTGAGTTCA ************************************************************************** block2137421 ------------------------------------------------------------------------------------ #ENSRNOT00000005722 ENSRNOG00000004328 RGD1561030_predicted block2137421 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<................... #ENSRNOT00000063338 ENSRNOG00000041585 block2137421 (((((...(((((.(((.((((.((((..((((((...))))))...)))).))..)).))).)))))))))). 0.960 -22.90 # #block2137421 chromosome:7:91688578:91688651:-1 Opposite_strand|Boundary_non-coding|ENSRNOT00000063338|ENSRNOG00000041585 ## Opposite_strand|Intronic_coding|ENSRNOT00000005722|ENSRNOG00000004328 ## ENSRNOG00000041585|miRNA|| ## ENSRNOG00000004328|protein_coding|RGD1561030_predicted| ## {Repeats: B1_Mur3 53 73 1 class=SINE/Alu,B1_Mur3 -1 148 1 class=SINE} ========== block2138776 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block2138776: 0.015 #forester #identity: 0.00 block2138776 AGCCATCTCTCCAGCCCGA #rat_gr157899_libT1S1 19 1 block2138776 GAGCCATCTCTCCAGCCCGA #rat_gr508613_libT1S1 20 1 block2138776 ttgagttaattttatattcttatatttttggttgtgagcctagcctttaacggctGAGCCATCTCTCCAGCCCGAgttaattttatactcaat ********************************************************************************************* block2138776 .........................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054629 ENSRNOG00000036522 block2138776 (((((((((..(((.((((........((((..(((.((.(((((......))))).)))))....))))...)))))))..))).)))))). 0.490 -20.50 # #block2138776 chromosome:7:94029460:94029552:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054629|ENSRNOG00000036522 ## ENSRNOG00000036522|miRNA|| ## {Repeats: B4 2 47 -1 class=SINE,L1_Rat3 4231 4251 -1 class=LINE/L1,L1_Rat3 3940 4281 -1 class=LINE} ========== block2151289 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block2151289: 0.001 #forester #identity: 0.00 block2151289 CACACACACACACACACATGA #rat_gr275876_libT2S1 21 1 block2151289 aagtttgaagacagcatgtgtgtgtgtgtgtgcgtgtgtgtgtgtgcatgtacacacacacacacacacacacacacacacaCACACACACACACACACATGAgcttttagatt ****************************************************************************************************************** block2151289 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000022350 ENSRNOG00000016566 LOC500901 block2151289 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000052227 ENSRNOG00000016566 LOC500901 block2151289 ....................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..................... #ENSRNOT00000063125 ENSRNOG00000041372 block2151289 .(((((((((....((((((((((((((((((.(((((((((((((..(((..............)))..))))))))))))).))))))))))))))))))...))))))))) 0.980 -62.94 # #block2151289 chromosome:7:114813556:114813669:-1 Same_strand|Boundary_non-coding|ENSRNOT00000063125|ENSRNOG00000041372 ## Same_strand|Intronic_coding|ENSRNOT00000022350|ENSRNOG00000016566 ## ENSRNOG00000041372|miRNA|| ## ENSRNOG00000016566|protein_coding|LOC500901|Protein KIAA1688 homolog (Preoptic regulatory factor 2) (PORF-2) (Fragment). [Source:UniProtKB/Swiss-Prot;Acc:P18890] ## {Repeats: dust 114813570 114813588 0 class=dust,trf 1 19 0 class=trf,(TG)n 2 20 -1 class=Simple_repeat,(TG)n 2 50 -1 class=Simple_repeat} ========== block2159208 (miRNA) [miRNAunknown_rep_lenNOK_cloningHIGH_randfoldOK] ========== #randfold block2159208: 0.001 #forester #identity: 0.00 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT1S1 23 1231 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT1S2 23 921 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT1S1 21 735 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT1S2 21 619 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT1S1 18 564 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT1S1 19 545 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT1S2 18 473 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT1S2 19 424 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT3S1 23 185 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT2S1 23 146 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT5S1 23 142 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT3S1 21 134 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT2S2 23 126 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT5S2 23 101 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT2S1 21 91 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT2S1 18 79 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT1S1 20 77 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT4S1 23 75 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT4S2 23 74 block2159208 ACGCCCTTCCCCCCCTTCTTCAC #rat_gr112010_libT3S2 23 72 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT5S1 19 65 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT2S2 21 64 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT1S1 22 60 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT1S2 22 60 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT5S1 21 58 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT1S2 20 57 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT2S1 19 57 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT3S1 19 57 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT2S2 19 55 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT4S2 21 53 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT2S2 18 52 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT5S1 18 47 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT3S1 18 44 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT3S2 21 42 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT4S1 21 38 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT5S2 18 37 block2159208 ACGCCCTTCCCCCCCTTCTTC #rat_gr112008_libT5S2 21 33 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT3S2 19 33 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT4S2 19 33 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT5S2 19 33 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT3S2 18 29 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT1S1 24 26 block2159208 ACGCCCTTCCCCCCCTTCT #rat_gr112006_libT4S1 19 25 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT4S1 18 24 block2159208 ACGCCCTTCCCCCCCTTC #rat_gr112005_libT4S2 18 24 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT3S1 22 18 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT2S1 20 17 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT2S1 22 15 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT3S1 20 14 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT2S2 22 13 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT5S1 20 12 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT4S2 22 11 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT1S2 24 10 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT4S1 22 10 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT3S2 22 9 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT4S2 20 8 block2159208 AACGCCCTTCCCCCCCTTC #rat_gr36334_libT1S1 19 7 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT5S1 22 6 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT2S2 20 6 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT2S2 24 5 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT1S1 22 5 block2159208 AACGCCCTTCCCCCCCTTC #rat_gr36334_libT1S2 19 5 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT3S1 24 4 block2159208 AACGCCCTTCCCCCCCTTCTTCAC #rat_gr36337_libT1S1 24 4 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT1S2 22 4 block2159208 AACGCCCTTCCCCCCCTTCT #rat_gr36335_libT1S1 20 4 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT5S1 24 3 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT3S1 22 3 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT2S1 24 2 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT4S2 24 2 block2159208 AACGCCCTTCCCCCCCTTCTTCAC #rat_gr36337_libT3S1 24 2 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT3S2 20 2 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT4S1 20 2 block2159208 ACGCCCTTCCCCCCCTTCTT #rat_gr112007_libT5S2 20 2 block2159208 AACGCCCTTCCCCCCCTTCT #rat_gr36335_libT2S1 20 2 block2159208 ACGCCCTTCCCCCCCTTCTTCACC #rat_gr112011_libT3S2 24 1 block2159208 CTTCCCCCCCTTCTTCAC #rat_gr461469_libT1S1 18 1 block2159208 CTTCCCCCCCTTCTTCAC #rat_gr461469_libT1S2 18 1 block2159208 GCCCTTCCCCCCCTTCTTCAC #rat_gr551198_libT1S2 21 1 block2159208 CGCCCTTCCCCCCCTTCTTCAC #rat_gr393145_libT4S2 22 1 block2159208 ACGCCCTTCCCCCCCTTCTTCA #rat_gr112009_libT5S2 22 1 block2159208 GCCCTTCCCCCCCTTCTTC #rat_gr551197_libT1S1 19 1 block2159208 CGCCCTTCCCCCCCTTCTTC #rat_gr393144_libT1S1 20 1 block2159208 CGCCCTTCCCCCCCTTCTTC #rat_gr393144_libT1S2 20 1 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT2S1 22 1 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT4S2 22 1 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT5S1 22 1 block2159208 AACGCCCTTCCCCCCCTTCTTC #rat_gr36336_libT5S2 22 1 block2159208 AACGCCCTTCCCCCCCTTCT #rat_gr36335_libT2S2 20 1 block2159208 AACGCCCTTCCCCCCCTTCT #rat_gr36335_libT5S1 20 1 block2159208 AACGCCCTTCCCCCCCTTC #rat_gr36334_libT5S1 19 1 block2159208 AACGCCCTTCCCCCCCTT #rat_gr36333_libT1S1 18 1 block2159208 tcttgctgctccgattcttgtttgcatggggaggagggaggggatgggccaagttccctatgcctggaACGCCCTTCCCCCCCTTCTTCACctggcgaactcctactcgtccttcaagac ************************************************************************************************************************ block2159208 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042070 ENSRNOG00000031269 RGD1304694 block2159208 .................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............................... #ENSRNOT00000063245 ENSRNOG00000041492 block2159208 (((((......(((.....((((((..(((((((((((.(((((.((((...(((((........))))))))).)))))))))))))).))..))))))......))).....))))). 0.990 -54.70 # #block2159208 chromosome:7:122973514:122973633:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063245|ENSRNOG00000041492 ## Same_strand|Intronic_coding|ENSRNOT00000042070|ENSRNOG00000031269 ## ENSRNOG00000041492|miRNA|| ## ENSRNOG00000031269|protein_coding|RGD1304694|Uncharacterized protein C22orf9 homolog. [Source:UniProtKB/Swiss-Prot;Acc:Q4G008] ## {Repeats: L2 2961 2986 1 class=LINE/L2,L2 -86 3292 1 class=LINE} ========== block2205178 (miRNA) [miRNAunknown_lenNOK_Multihit_loopOverlap_randfoldOK_bulgeHIGH] ========== #randfold block2205178: 0.001 #forester #identity: 0.00 block2205178 TGTGTGTGTGTGTGCTTGT #rat_gr1089576_libT1S1 19 1 block2205178 gccttctggtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTGCTTGTgcgcgcgcacgcgcacgcacacacgcgcacacgtgtgaaagcactgaaatctgaagca ********************************************************************************************************************** block2205178 ..............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>............................... #ENSRNOT00000063107 ENSRNOG00000041354 block2205178 ((.(((.(((....((((.((..(((((((((((((((((((((((((((((((((....)))))))))))))))))))))))))))))))))..))...))))....))).))))). 1.000 -77.20 # #block2205178 chromosome:7:40202924:40203041:1 Same_strand|Exonic_non-coding|ENSRNOT00000063107|ENSRNOG00000041354 ## ENSRNOG00000041354|miRNA|| ## {Repeats: (CG)n 2 3 1 class=Simple_repeat,(TG)n 33 47 1 class=Simple_repeat,dust 40202969 40202988 0 class=dust,trf 1 15 0 class=trf,(CG)n 2 40 1 class=Simple_repeat,(TG)n 1 47 1 class=Simple_repeat} ========== block2266514 (miRNA) [miRNAunknown_rep_cloningOK_Multihit_loopOverlap] ========== #randfold block2266514: 0.049 #forester #identity: 0.00 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT3S2 20 8 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT5S2 20 7 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT3S1 20 6 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT5S1 20 6 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT1S1 20 4 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT2S1 20 4 block2266514 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT2S1 19 2 block2266514 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT3S2 19 2 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT1S2 20 2 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT4S1 20 2 block2266514 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT1S2 19 1 block2266514 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT3S1 19 1 block2266514 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT2S2 20 1 block2266514 GGAGAGATGGCTCAGCCGT #rat_gr587348_libT1S2 19 1 block2266514 GGAGAGATGGCTCAGCCGT #rat_gr587348_libT3S1 19 1 block2266514 GGAGAGATGGCTCAGCCGT #rat_gr587348_libT5S1 19 1 block2266514 ttgggcTGGAGAGATGGCTCAGCCGTtaaaggctaggctcacaaccaaatatataagaaagcatcctcctttctag **************************************************************************** block2266514 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......................... #ENSRNOT00000054622 ENSRNOG00000036515 block2266514 .((((..((((.((((((..((((......))))..)).......................))))))))..)))). 0.570 -21.00 # #block2266514 chromosome:7:135934912:135934987:1 Same_strand|Exonic_non-coding|ENSRNOT00000054622|ENSRNOG00000036515 ## ENSRNOG00000036515|miRNA|| ## {Repeats: B4 2 47 1 class=SINE} ========== block2345248 (miRNA) [miRNAunknown_Multihit_randfoldOK_nonpairedHIGH] ========== #randfold block2345248: 0.001 #forester #identity: 0.00 block2345248 GTATGTGTGTGTGTGTGTGC #rat_gr631508_libT1S1 20 1 block2345248 tgcttgtgtgtaagtgtgtgtgcatgtgcatttgtgtgtatatgaatatatgtgtgtgtacacatgtgtatgtgcatgtatacatatatgtGTATGTGTGTGTGTGTGTGCatgtgta ********************************************************************************************************************** block2345248 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........ #ENSRNOT00000063292 ENSRNOG00000041539 block2345248 (((.((((..((..((..((..((((..(((.((((((((((((.(((((((((((....)))))))))))...)))))))))))).)))..))))..))..))..))..)))).))) 0.900 -47.90 # #block2345248 chromosome:8:100484554:100484671:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063292|ENSRNOG00000041539 ## ENSRNOG00000041539|miRNA|| ## {Repeats: dust 100484561 100484581 0 class=dust,trf 1 10 0 class=trf,(CA)n 16 36 -1 class=Simple_repeat,(CA)n 1 162 -1 class=Simple_repeat} ========== block2346185 (miRNA) [miRNAunknown_rep_cloningHIGH_Multihit_shortStem] ========== #randfold block2346185: 0.339 #forester #identity: 0.00 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT5S2 22 236 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT3S2 22 35 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT5S1 22 23 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT3S2 20 8 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT1S1 22 8 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT1S2 22 8 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT5S2 20 7 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT3S1 20 6 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT5S1 20 6 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT2S2 22 6 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT1S1 20 4 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT2S1 20 4 block2346185 TGGAGAGATGGCTCAGCC #rat_gr997251_libT2S2 18 4 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT3S1 22 4 block2346185 GCTGGAGAGATGGCTCAGCC #rat_gr573643_libT5S2 20 3 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT1S2 20 2 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT4S1 20 2 block2346185 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT2S1 19 2 block2346185 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT3S2 19 2 block2346185 TGGAGAGATGGCTCAGCC #rat_gr997251_libT1S2 18 2 block2346185 TGGAGAGATGGCTCAGCC #rat_gr997251_libT3S2 18 2 block2346185 TGGAGAGATGGCTCAGCC #rat_gr997251_libT4S1 18 2 block2346185 TGGAGAGATGGCTCAGCC #rat_gr997251_libT4S2 18 2 block2346185 GGAGAGATGGCTCAGCCGT #rat_gr587348_libT1S2 19 1 block2346185 GGAGAGATGGCTCAGCCGT #rat_gr587348_libT3S1 19 1 block2346185 GGAGAGATGGCTCAGCCGT #rat_gr587348_libT5S1 19 1 block2346185 TGGAGAGATGGCTCAGCCGT #rat_gr997261_libT2S2 20 1 block2346185 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT1S2 19 1 block2346185 TGGAGAGATGGCTCAGCCG #rat_gr997258_libT3S1 19 1 block2346185 TGGAGAGATGGCTCAGCC #rat_gr997251_libT5S2 18 1 block2346185 CTGGAGAGATGGCTCAGCC #rat_gr447443_libT2S2 19 1 block2346185 GGCTGGAGAGATGGCTCAGCC #rat_gr600255_libT5S2 21 1 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT2S1 22 1 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT4S1 22 1 block2346185 GGGCTGGAGAGATGGCTCAGCC #rat_gr608610_libT4S2 22 1 block2346185 ctgatgaaatctgagcttcgttgagacccagtaagagaaagccacatcGGGCTGGAGAGATGGCTCAGCCgtta ************************************************************************** block2346185 ............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000054639 ENSRNOG00000036532 block2346185 .(((((....((((((..((((.....(((((..((..........))..)))))...)))))))))).))))) 0.880 -18.90 # #block2346185 chromosome:8:101498572:101498645:-1 Same_strand|Exonic_non-coding|ENSRNOT00000054639|ENSRNOG00000036532 ## ENSRNOG00000036532|miRNA|| ## {Repeats: B4 -245 47 1 class=SINE} ========== block2367496 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_loopOverlap] ========== #randfold block2367496: 0.095 #forester #identity: 0.00 block2367496 TCCTGAGTGCTGGGATTC #rat_gr876605_libT1S2 18 1 block2367496 gctggccttgagtttgttgagatccacctgcctctgccTCCTGAGTGCTGGGATTCaaggcatgca ****************************************************************** block2367496 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000026073 ENSRNOG00000019271 RGD1565726_predicted block2367496 ...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063230 ENSRNOG00000041477 block2367496 ((..((((((((((............((.(((((........))).)).))))))))))))..)). 0.730 -22.40 # #block2367496 chromosome:8:126153350:126153415:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063230|ENSRNOG00000041477 ## Same_strand|Intronic_coding|ENSRNOT00000026073|ENSRNOG00000019271 ## Same_strand|Boundary_non-coding|ENSRNOT00000055871|ENSRNOG00000019271 ## ENSRNOG00000019271|protein_coding|RGD1565726_predicted| ## ENSRNOG00000041477|miRNA|| ## {Repeats: B1_Mur1 3 147 -1 class=SINE,B1_Mur1 30 48 -1 class=SINE/Alu} ========== block2398358 (miRNA) [miRNAunknown_cloningHIGH_Multihit_shortStem_randfoldOK] ========== #randfold block2398358: 0.001 #forester #identity: 0.00 block2398358 ATATACATACACACACACACAC #rat_gr211222_libT2S1 22 12 block2398358 ATATACATACACACACACACAC #rat_gr211222_libT2S2 22 6 block2398358 TATACATACACACACACACAC #rat_gr791372_libT2S2 21 6 block2398358 ATATACATACACACACACAC #rat_gr211219_libT2S1 20 5 block2398358 ATATACATACACACACACACA #rat_gr211220_libT2S2 21 4 block2398358 TATACATACACACACACACAC #rat_gr791372_libT2S1 21 4 block2398358 ATATACATACACACACACA #rat_gr211217_libT2S1 19 2 block2398358 ATATACATACACACACACAC #rat_gr211219_libT2S2 20 2 block2398358 ATATACATACACACACACACA #rat_gr211220_libT2S1 21 2 block2398358 ATATACATACACACACACACAC #rat_gr211222_libT1S1 22 2 block2398358 ATATACATACACACACACACAC #rat_gr211222_libT1S2 22 2 block2398358 ATATACATACACACACAC #rat_gr211216_libT2S1 18 1 block2398358 ATATACATACACACACACA #rat_gr211217_libT2S2 19 1 block2398358 ATATACATACACACACACAC #rat_gr211219_libT1S2 20 1 block2398358 ATATACATACACACACACAC #rat_gr211219_libT3S1 20 1 block2398358 ATATACATACACACACACAC #rat_gr211219_libT5S1 20 1 block2398358 ATATACATACACACACACACAC #rat_gr211222_libT5S1 22 1 block2398358 ATATACATACACACACACACACA #rat_gr211223_libT2S2 23 1 block2398358 TATACATACACACACACA #rat_gr791369_libT2S2 18 1 block2398358 TATACATACACACACACAC #rat_gr791370_libT2S1 19 1 block2398358 TATACATACACACACACAC #rat_gr791370_libT3S1 19 1 block2398358 TATACATACACACACACACA #rat_gr791371_libT3S1 20 1 block2398358 TATACATACACACACACACAC #rat_gr791372_libT1S1 21 1 block2398358 tggatgtctatgtgtatgtatatgatgtatgtgtatcttATATACATACACACACACACACac *************************************************************** block2398358 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063083 ENSRNOG00000041330 block2398358 ((..(((...(((((((((((((((.(((....))).)))))))))))))))...)))..)). 1.000 -21.50 # #block2398358 chromosome:8:44515566:44515628:1 Same_strand|Exonic_non-coding|ENSRNOT00000063083|ENSRNOG00000041330 ## ENSRNOG00000041330|miRNA|| ## {Repeats: dust 44515639 44515653 0 class=dust,(CA)n 2 62 1 class=Simple_repeat,trf 27 45 0 class=trf,(CA)n 2 20 1 class=Simple_repeat} ========== block2411833 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block2411833: 0.001 #forester #identity: 0.00 block2411833 GTGTGTGTGTGTGTGTATAG #rat_gr655159_libT3S1 20 2 block2411833 gtgtgtgtgtGTGTGTGTGTGTGTGTATAGttcacatgtgcatacatggaaggtgcacacatgtatgcacacatgtgtag ******************************************************************************** block2411833 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.......... #ENSRNOT00000063049 ENSRNOG00000041296 block2411833 .((..((((((((((((..(((((((((..(((.(((((....)))))))).)))))))))..))))))))))))..)). 1.000 -40.30 # #block2411833 chromosome:8:62220763:62220842:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063049|ENSRNOG00000041296 ## ENSRNOG00000041296|miRNA|| ## {Repeats: dust 62220744 62220760 0 class=dust,(TG)n 2 46 1 class=Simple_repeat,(TG)n 30 46 1 class=Simple_repeat,trf 1 17 0 class=trf} ========== block2429515 (miRNA) [miRNAunknown_rep_cloningOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block2429515: 0.118 #forester #identity: 0.00 block2429515 TCCCTCTGTAGACCAGGCTG #rat_gr855739_libT5S1 20 5 block2429515 TCCCTCTGTAGACCAGGC #rat_gr855732_libT1S2 18 1 block2429515 TCCCTCTGTAGACCAGGCTG #rat_gr855739_libT1S1 20 1 block2429515 TCCCTCTGTAGACCAGGCTG #rat_gr855739_libT3S2 20 1 block2429515 GTAGACCAGGCTGGCCTCG #rat_gr629494_libT5S1 19 1 block2429515 CAGGCTGGCCTCGAACTC #rat_gr299150_libT3S1 18 1 block2429515 gctttttgagacagggtttctctatgtagtcctggctgtcctggaatTCCCTCTGTAGACCAGGCTGgcctcgaactcacagggatctgtctgccttctaagt ******************************************************************************************************* block2429515 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000037650 ENSRNOG00000025332 Cd109 block2429515 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000037665 ENSRNOG00000025332 Cd109 block2429515 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000037657 ENSRNOG00000025332 Cd109 block2429515 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000057088 ENSRNOG00000025332 Cd109 block2429515 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000057087 ENSRNOG00000025332 Cd109 block2429515 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........ #ENSRNOT00000063257 ENSRNOG00000041504 block2429515 ........(((((((...(((((.((...((..((((..(((((...............)))))..))))..))...)).))))))))))))........... 0.990 -30.56 # #block2429515 chromosome:8:83612171:83612273:1 Same_strand|Intronic_coding|ENSRNOT00000037650|ENSRNOG00000025332 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063257|ENSRNOG00000041504 ## ENSRNOG00000041504|miRNA|| ## ENSRNOG00000025332|protein_coding|Cd109|CD109 antigen Gene [Source:MGI Symbol;Acc:MGI:2445221] ## {Repeats: B1_Mur4 -7 143 -1 class=SINE,B1_Mur4 68 99 -1 class=SINE/Alu} ========== block2441699 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_shortStem_bulgeHIGH] ========== #randfold block2441699: 0.061 #forester #identity: 0.00 block2441699 GTGAGCCTAGCCTTTAACG #rat_gr644840_libT3S2 19 1 block2441699 ttGTGAGCCTAGCCTTTAACGgctgagccatctctccagcccgatgtggctttctcttactgggtctcaacga ************************************************************************* block2441699 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054639 ENSRNOG00000036532 block2441699 ((((((((((((....(((.((..(((((((.((........)).))))))).)).)))))))).)))).))) 0.400 -21.80 # #block2441699 chromosome:8:101498556:101498628:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054639|ENSRNOG00000036532 ## ENSRNOG00000036532|miRNA|| ## {Repeats: B4 -245 47 -1 class=SINE} ========== block2447266 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_randfoldOK] ========== #randfold block2447266: 0.001 #forester #identity: 0.00 block2447266 TATATACATATACACACACA #rat_gr792406_libT1S1 20 1 block2447266 ATATACATATACACACACA #rat_gr211558_libT3S1 19 1 block2447266 tggtatactcatgtatgagtgtatgtatgtgtgcatgtgtatatatataTATATACATATACACACACAcataatcatgtaaaaaaagaccac ********************************************************************************************* block2447266 ------------------------------------------------------------------------------------------------------- #ENSRNOT00000014519 ENSRNOG00000010911 RGD1311530_predicted block2447266 ..................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063206 ENSRNOG00000041453 block2447266 ((((.........(((((...(((((.((((((.(((((((((((....))))))))))).)))))).))))).))))).........)))). 0.730 -32.07 # #block2447266 chromosome:8:108565661:108565753:1 Same_strand|Exonic_non-coding|ENSRNOT00000063206|ENSRNOG00000041453 ## Opposite_strand|Intronic_coding|ENSRNOT00000014519|ENSRNOG00000010911 ## ENSRNOG00000010911|protein_coding|RGD1311530_predicted| ## ENSRNOG00000041453|miRNA|| ## {Repeats: dust 108565700 108565712 0 class=dust,RMER12 775 795 -1 class=LTR/ERVK,(TATATG)n 2 51 1 class=Simple_repeat} ========== block2462794 (miRNA) [miRNAunknown_rep_Multihit_nonpairedHIGH] ========== #randfold block2462794: 0.464 #forester #identity: 0.00 block2462794 CCCAGCACTCAGGAGGCAGAG #rat_gr343400_libT5S1 21 1 block2462794 ccttgaatCCCAGCACTCAGGAGGCAGAGgcaggtggatctcaacaaactcaaggccagcctggctacatagcaag **************************************************************************** block2462794 -------------------------------------------------------------------------------------- #ENSRNOT00000026073 ENSRNOG00000019271 RGD1565726_predicted block2462794 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........................................... #ENSRNOT00000063230 ENSRNOG00000041477 block2462794 .((((......(((...((((.(((.(((....((........))...)))...)))..)))))))......)))) 0.740 -17.90 # #block2462794 chromosome:8:126153356:126153431:1 Opposite_strand|Boundary_non-coding|ENSRNOT00000055871|ENSRNOG00000019271 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063230|ENSRNOG00000041477 ## Opposite_strand|Intronic_coding|ENSRNOT00000026073|ENSRNOG00000019271 ## ENSRNOG00000019271|protein_coding|RGD1565726_predicted| ## ENSRNOG00000041477|miRNA|| ## {Repeats: B1_Mur1 3 147 1 class=SINE,B1_Mur1 29 50 1 class=SINE/Alu} ========== block2472842 (miRNA) [miRNAunknown_Multihit_loopOverlap_randfoldOK_nonpairedHIGH] ========== #randfold block2472842: 0.001 #forester #identity: 0.00 block2472842 GTATGTGTGTGTGTGTGTGC #rat_gr631508_libT1S1 20 1 block2472842 atgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtGTATGTGTGTGTGTGTGTGCatacatatattcacatacacacacatatat **************************************************************************************************** block2472842 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000061506 ENSRNOG00000033159 Rds block2472842 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000061505 ENSRNOG00000033159 Rds block2472842 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000061503 ENSRNOG00000033159 Rds block2472842 ...............................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063198 ENSRNOG00000041445 block2472842 (((((((((((((((((((.(((((((((((..((..((..((..(((....)))..))..))..))..))))))))))).))))))))))))))))))) 1.000 -49.90 # #block2472842 chromosome:9:9426907:9427006:-1 Same_strand|Boundary_non-coding|ENSRNOT00000044640|ENSRNOG00000033159 ## Same_strand|Intronic_coding|ENSRNOT00000061503|ENSRNOG00000033159 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063198|ENSRNOG00000041445 ## ENSRNOG00000033159|protein_coding|Rds|Peripherin-2 (Retinal degeneration slow protein). [Source:UniProtKB/Swiss-Prot;Acc:P17438] ## ENSRNOG00000041445|miRNA|| ## {Repeats: (CA)n 1 68 -1 class=Simple_repeat,(TA)n 2 47 -1 class=Simple_repeat,trf 1 20 0 class=trf,dust 9426937 9426957 0 class=dust,(CA)n 1 20 -1 class=Simple_repeat} ========== block2495533 (miRNA) [miRNAunknown_rep_lenNOK_Multihit] ========== #randfold block2495533: 0.107 #forester #identity: 0.00 block2495533 GTGAGCCTAGCCTTTAACG #rat_gr644840_libT3S2 19 1 block2495533 ggtttctcgaggaggggtagattatacttaatgatatagccactggtaagttgttcttatatttttggttGTGAGCCTAGCCTTTAACGgctgagcca ************************************************************************************************** block2495533 ..............................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054653 ENSRNOG00000036547 block2495533 (((((.(((..(((((.(((.(((((.((((.((((((((.(((....))).))...)))))).)))).)))))..))).)))))..)))..))))). 0.710 -25.90 # #block2495533 chromosome:9:38199838:38199935:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054653|ENSRNOG00000036547 ## ENSRNOG00000036547|miRNA|| ## {Repeats: B4 2 47 -1 class=SINE} ========== block2509424 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem_randfoldOK_nonpairedHIGH] ========== #randfold block2509424: 0.004 #forester #identity: 0.00 block2509424 CATACATACATGCATGCAT #rat_gr307239_libT3S1 19 1 block2509424 CATACATACATGCATGCATgcatacatacatacatacatacatgcatacacatatgaatatg ************************************************************** block2509424 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........................ #ENSRNOT00000063394 ENSRNOG00000041641 block2509424 ....((((..((.(((((((....................))))))).))..))))...... 0.980 -10.55 # #block2509424 chromosome:9:56063050:56063111:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063394|ENSRNOG00000041641 ## ENSRNOG00000041641|miRNA|| ## {Repeats: (TATG)n 4 83 -1 class=Simple_repeat,trf 32 51 0 class=trf,dust 56063093 56063112 0 class=dust,(TATG)n 40 59 -1 class=Simple_repeat} ========== block2692866 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_loopOverlap_nonpairedHIGH] ========== #randfold block2692866: 0.123 #forester #identity: 0.00 block2692866 TGCCTTCTGGGTGCTGGG #rat_gr969197_libT1S2 18 1 block2692866 tccacctgcctcTGCCTTCTGGGTGCTGGGattaaaggcatgcaccaccactgcccagctggtactggtaattttgaagga ********************************************************************************* block2692866 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063236 ENSRNOG00000041483 block2692866 ......((((..((((..((((((..(((..................)))..))))))..))))..))))........... 0.990 -24.87 # #block2692866 chromosome:X:40838610:40838690:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063236|ENSRNOG00000041483 ## ENSRNOG00000041483|miRNA|| ## {Repeats: B1_Rn 31 49 -1 class=SINE/Alu,B1_Rn 1 139 -1 class=SINE} ========== block2704646 (miRNA) [miRNAunknown_lenNOK_Multihit] ========== #randfold block2704646: 0.292 #forester #identity: 0.00 block2704646 ATGATGATGATGATGATGATGATGA #rat_gr228345_libT3S2 25 1 block2704646 ATGATGATGATGATGATGATGATGA #rat_gr228345_libT3S2 25 1 block2704646 gataataATGATGATGATGATGATGATGATGAtgATGATGATGATGATGATGATGATGAtgatttcaaggatcatttctct ********************************************************************************* block2704646 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........................ #ENSRNOT00000062198 ENSRNOG00000040445 block2704646 ((....((((((..(((.(((.((.((.((.((.((.((....)).)).)).)).)).)).))))))...))))))..)). 0.680 -11.60 # #block2704646 chromosome:X:52322968:52323048:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000062198|ENSRNOG00000040445 ## ENSRNOG00000040445|miRNA|| ## {Repeats: trf 2 57 0 class=trf,dust 52322987 52323041 0 class=dust,(CAT)n 2 65 -1 class=Simple_repeat,(CAT)n 3 58 -1 class=Simple_repeat} ========== block2815640 (miRNA) [miRNAunknown_cloningHIGH_multiarm_Multihit_loopOverlap_randfoldOK] ========== #randfold block2815640: 0.001 #forester #identity: 0.00 block2815640 TACACACACACATACACACA #rat_gr740846_libT2S2 20 39 block2815640 TACACACACACATACACACA #rat_gr740846_libT2S1 20 20 block2815640 TACACACACACATACACACAC #rat_gr740853_libT2S2 21 11 block2815640 TACACACACACATACACAC #rat_gr740845_libT2S2 19 11 block2815640 TACACACACACATACACACAC #rat_gr740853_libT2S1 21 10 block2815640 TACACACACACATACACACA #rat_gr740846_libT3S2 20 10 block2815640 TACACACACACATACACACA #rat_gr740846_libT3S1 20 5 block2815640 TACACACACACATACACAC #rat_gr740845_libT2S1 19 5 block2815640 TACACACACACATACACACACA #rat_gr740854_libT2S2 22 4 block2815640 TACACACACACATACACACA #rat_gr740846_libT1S1 20 4 block2815640 TACACACACACATACACACA #rat_gr740846_libT4S2 20 4 block2815640 TACACACACACATACACACA #rat_gr740846_libT5S2 20 4 block2815640 TACACACACACATACACAC #rat_gr740845_libT3S2 19 4 block2815640 ACACACACACATACACACACAC #rat_gr71414_libT3S1 22 3 block2815640 TACACACACACATACACACACAC #rat_gr740856_libT2S1 23 3 block2815640 TACACACACACATACACACACAC #rat_gr740856_libT2S2 23 3 block2815640 TACACACACACATACACACAC #rat_gr740853_libT1S1 21 3 block2815640 TACACACACACATACACACAC #rat_gr740853_libT1S2 21 3 block2815640 TACACACACACATACACACA #rat_gr740846_libT1S2 20 3 block2815640 ACACACACAAACACACAC #rat_gr71127_libT2S1 18 2 block2815640 CACACACACATACACACACAC #rat_gr276153_libT3S2 21 2 block2815640 TACACACACACATACACACACAC #rat_gr740856_libT1S1 23 2 block2815640 TACACACACACATACACACACAC #rat_gr740856_libT3S1 23 2 block2815640 CACACACACATACACACAC #rat_gr276152_libT3S1 19 2 block2815640 TACACACACACATACACACAC #rat_gr740853_libT3S1 21 2 block2815640 TACACACACACATACACACAC #rat_gr740853_libT5S1 21 2 block2815640 ACACACACACATACACACA #rat_gr71411_libT2S1 19 2 block2815640 TACACACACACATACACAC #rat_gr740845_libT3S1 19 2 block2815640 ACACACACAAACACACACA #rat_gr71128_libT2S1 19 1 block2815640 ACACACACAAACACACACA #rat_gr71128_libT3S1 19 1 block2815640 ACACACACACAAACACACAC #rat_gr71161_libT2S2 20 1 block2815640 ACACACACACAAACACACA #rat_gr71160_libT3S1 19 1 block2815640 TACACACACACAAACACAC #rat_gr740582_libT1S2 19 1 block2815640 ACATACACACACACAAAC #rat_gr82695_libT2S1 18 1 block2815640 CACACATACACACACACAA #rat_gr276787_libT5S1 19 1 block2815640 TACACACACACATACACACACACA #rat_gr740857_libT2S1 24 1 block2815640 CACACACATACACACACAC #rat_gr276319_libT3S1 19 1 block2815640 CACACACACATACACACACAC #rat_gr276153_libT2S2 21 1 block2815640 ACACACACACATACACACACAC #rat_gr71414_libT2S2 22 1 block2815640 TACACACACACATACACACACAC #rat_gr740856_libT1S2 23 1 block2815640 TACACACACACATACACACACAC #rat_gr740856_libT5S2 23 1 block2815640 ACACACACATACACACACA #rat_gr71525_libT2S2 19 1 block2815640 ACACACACACATACACACAC #rat_gr71413_libT2S1 20 1 block2815640 TACACACACACATACACACAC #rat_gr740853_libT3S2 21 1 block2815640 TACACACACACATACACACAC #rat_gr740853_libT4S1 21 1 block2815640 TACACACACACATACACACAC #rat_gr740853_libT4S2 21 1 block2815640 ACACACACACATACACACA #rat_gr71411_libT2S2 19 1 block2815640 TACACACACACATACACACA #rat_gr740846_libT5S1 20 1 block2815640 GTACACACACACATACACACA #rat_gr628064_libT3S2 21 1 block2815640 ACACACACACATACACAC #rat_gr71410_libT2S1 18 1 block2815640 ACACACACACATACACAC #rat_gr71410_libT2S2 18 1 block2815640 ACACACACACATACACAC #rat_gr71410_libT3S2 18 1 block2815640 TACACACACACATACACAC #rat_gr740845_libT1S2 19 1 block2815640 TATGTGTACACACACACAT #rat_gr798422_libT2S1 19 1 block2815640 tattcatttttgtttatttgtgtgtattttgtgtatgcttgtgtatgtgTACACACACACATACACACAcacaaacacacacatatgcacacacacacaaaggccatgagtg **************************************************************************************************************** block2815640 .........>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................ #ENSRNOT00000063002 ENSRNOG00000041249 block2815640 (((((((((((((.....(((((((((..(((((.((.((((((.((((((..........)))))).)))))).)).))))).)))))))))...))))))...))))))) 1.000 -37.70 # #block2815640 chromosome:X:134100251:134100362:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063002|ENSRNOG00000041249 ## ENSRNOG00000041249|miRNA|| ## {Repeats: dust 134100280 134100312 0 class=dust,(TG)n 18 50 -1 class=Simple_repeat,trf 15 48 0 class=trf,dust 134100318 134100320 0 class=dust,trf 17 49 0 class=trf,(TG)n 2 50 -1 class=Simple_repeat} ========== block2937843 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK_nonpairedHIGH] ========== #randfold block2937843: 0.001 #forester #identity: 0.00 block2937843 TGTGTGTGTGTGTGCGTGC #rat_gr1089568_libT1S2 19 1 block2937843 tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTGCGTGCatgctcacgcacacatgcc ******************************************************************************** block2937843 ..>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000062968 ENSRNOG00000041215 block2937843 .(((((((((((((.(((((..((((..((..((..((....))..))..))..))))..))))).))))))))))))). 1.000 -36.60 # #block2937843 chromosome:X:13226906:13226985:1 Same_strand|Exonic_non-coding|ENSRNOT00000062968|ENSRNOG00000041215 ## ENSRNOG00000041215|miRNA|| ## {Repeats: (TG)n 1 60 1 class=Simple_repeat,trf 1 19 0 class=trf,(TG)n 42 60 1 class=Simple_repeat,dust 13226906 13226920 0 class=dust} ========== block2937844 (miRNA) [miRNAunknown_rep_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH] ========== #randfold block2937844: 0.096 #forester #identity: 0.00 block2937844 CCAGAAAAGGTGTTGGATT #rat_gr330376_libT3S2 19 1 block2937844 gCCAGAAAAGGTGTTGGATTctccagagctggaattacaggcagttttaagccaaatggttgctgtgagtagaactttggtcctcccaacactgttaagc **************************************************************************************************** block2937844 >>>>>>>>>>.................................................................................................... #ENSRNOT00000062968 ENSRNOG00000041215 block2937844 ((..((...((((((((.....((((((......((((..(((((....((((....)))))))))..))))..)))))).....)))))))).))..)) 0.800 -28.30 # #block2937844 chromosome:X:13226990:13227089:1 Same_strand|Boundary_non-coding|ENSRNOT00000062968|ENSRNOG00000041215 ## ENSRNOG00000041215|miRNA|| ## {Repeats: B3A -48 150 -1 class=SINE,B3A 123 142 -1 class=SINE/B2} ========== block3087626 (miRNA) [miRNAunknown_multiarm_Multihit_loopOverlap_randfoldOK] ========== #randfold block3087626: 0.001 #forester #identity: 0.00 block3087626 GTGTGTGTTTGTGTGTGTG #rat_gr655304_libT2S1 19 1 block3087626 GTGTGTGTTTGTGTGTGTGT #rat_gr655305_libT2S1 20 1 block3087626 TTGTGTGTGTGTATGTGTGT #rat_gr1150866_libT3S1 20 1 block3087626 TGTGTGTGTGTATGTGTGTGT #rat_gr1089482_libT2S1 21 1 block3087626 tcatggcctttgtgtgtgtgtgcatatGTGTGTGTTTGTGTGTGTGTATGTGTGTGTgtacacatacacaagcatacacaaaatacacacaaataaacaaaaatgaa *********************************************************************************************************** block3087626 .............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....... #ENSRNOT00000063002 ENSRNOG00000041249 block3087626 ((((....(((((.((((((((....(((((((((((((((((((((((........)))))))))))))))))))))))...)))))))).....))))).)))). 1.000 -49.50 # #block3087626 chromosome:X:134100254:134100360:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063002|ENSRNOG00000041249 ## ENSRNOG00000041249|miRNA|| ## {Repeats: dust 134100266 134100296 0 class=dust,trf 3 33 0 class=trf,(TG)n 18 48 1 class=Simple_repeat,trf 4 34 0 class=trf,(TG)n 2 50 1 class=Simple_repeat} ========== block3196885 (miRNA) [miRNAunknown_rep_lenNOK_nonpairedHIGH_bulgeHIGH] ========== #randfold block3196885: 0.461 #forester #identity: 0.00 block3196885 TGGTCTGAAAGTCAGAGA #rat_gr1064808_libT4S2 18 2 block3196885 TGGTCTGAAAGTCAGAGA #rat_gr1064808_libT4S1 18 1 block3196885 TGGTCTGAAAGTCAGAGATC #rat_gr1064809_libT1S1 20 1 block3196885 gtagattatgcTGGTCTGAAAGTCAGAGATCctcctgcctctgcctcccgagtgctgggattaaaggcttgcaccaccactgc *********************************************************************************** block3196885 ..................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063396 ENSRNOG00000041643 block3196885 ((((....((.((((....(((((...((((((...(((((........))).)).))))))...)))))..)))).)))))) 0.850 -21.80 # #block3196885 chromosome:X:160347494:160347576:1 Same_strand|Boundary_non-coding|ENSRNOT00000063396|ENSRNOG00000041643 ## ENSRNOG00000041643|miRNA|| ## {Repeats: B1_Rn 60 80 -1 class=SINE/Alu,B1_Rn -5 143 -1 class=SINE} ========== block2250024 (miRNA) [miRNAunknown_Multihit_loopOverlap_randfoldOK_nonpairedHIGH] ========== #randfold block2250024: 0.001 #forester #identity: 0.00 block2250024 TGTGTGTGTGTGTACATGCAC #rat_gr1089528_libT2S2 21 1 block2250024 tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTACATGCACacacacacacgcacacaca **************************************************************************** block2250024 -------------------------------------------------------------------------------------- #ENSRNOT00000022350 ENSRNOG00000016566 LOC500901 block2250024 -------------------------------------------------------------------------------------- #ENSRNOT00000052227 ENSRNOG00000016566 LOC500901 block2250024 .......<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000063125 ENSRNOG00000041372 block2250024 .(((((((((((((((((((((((((((..((..((....))..))..))))))))))))))))))))))))))). 1.000 -51.60 # #block2250024 chromosome:7:114813570:114813645:1 Opposite_strand|Intronic_coding|ENSRNOT00000022350|ENSRNOG00000016566 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063125|ENSRNOG00000041372 ## ENSRNOG00000041372|miRNA|| ## ENSRNOG00000016566|protein_coding|LOC500901|Protein KIAA1688 homolog (Preoptic regulatory factor 2) (PORF-2) (Fragment). [Source:UniProtKB/Swiss-Prot;Acc:P18890] ## {Repeats: dust 114813651 114813653 0 class=dust,trf 1 14 0 class=trf,(CA)n 2 36 1 class=Simple_repeat,dust 114813570 114813583 0 class=dust,(TG)n 37 50 1 class=Simple_repeat,(CA)n 2 9 1 class=Simple_repeat,trf 28 30 0 class=trf,(TG)n 2 50 1 class=Simple_repeat} ========== block2250025 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block2250025: 0.001 #forester #identity: 0.00 block2250025 GCACACACACACACGCACACA #rat_gr528669_libT2S1 21 1 block2250025 gctcatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtacatGCACACACACACACGCACACAcacacacacatgctgtc ************************************************************************************************ block2250025 ---------------------------------------------------------------------------------------------------------- #ENSRNOT00000022350 ENSRNOG00000016566 LOC500901 block2250025 ---------------------------------------------------------------------------------------------------------- #ENSRNOT00000052227 ENSRNOG00000016566 LOC500901 block2250025 ............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<........... #ENSRNOT00000063125 ENSRNOG00000041372 block2250025 ((.((((((((((((((((((((((((((((((((((((((..((....))..))))))))))))))))))))))))))))))))))))))..)). 0.940 -71.20 # #block2250025 chromosome:7:114813565:114813660:1 Opposite_strand|Intronic_coding|ENSRNOT00000022350|ENSRNOG00000016566 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063125|ENSRNOG00000041372 ## ENSRNOG00000041372|miRNA|| ## ENSRNOG00000016566|protein_coding|LOC500901|Protein KIAA1688 homolog (Preoptic regulatory factor 2) (PORF-2) (Fragment). [Source:UniProtKB/Swiss-Prot;Acc:P18890] ## {Repeats: (CA)n 5 26 1 class=Simple_repeat,trf 11 30 0 class=trf,(CA)n 2 36 1 class=Simple_repeat,dust 114813634 114813653 0 class=dust} ========== block2254370 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_shortStem_nonpairedHIGH] ========== #randfold block2254370: 0.547 #forester #identity: 0.00 block2254370 GTGAGCCTAGCCTTTAACG #rat_gr644840_libT3S2 19 1 block2254370 ggcctacagagtgagttccgggtcagctagtactacagagatgaaatcctgtctcttatattttggttGTGAGCCTAGCCTTTAACGgct ****************************************************************************************** block2254370 .............................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054625 ENSRNOG00000036518 block2254370 ((((...((((...(((..(((((((((((......((((((........))))))......)))))))...)))))))))))...)))) 0.460 -20.90 # #block2254370 chromosome:7:119593151:119593240:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054625|ENSRNOG00000036518 ## ENSRNOG00000036518|miRNA|| ## {Repeats: B4 -245 47 -1 class=SINE} ========== block2254371 (miRNA) [miRNAunknown_rep_Multihit_nonpairedHIGH_bulgeHIGH] ========== #randfold block2254371: 0.112 #forester #identity: 0.00 block2254371 TGAGCCATCTCTCCAGCCTGA #rat_gr943942_libT3S1 21 1 block2254371 GAGCCATCTCTCCAGCCTGAG #rat_gr508672_libT4S2 21 1 block2254371 tgaaatcctgtctcttatattttggttgtgagcctagcctttaacggcTGAGCCATCTCTCCAGCCTGAGatcctgtctca ********************************************************************************* block2254371 ....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< #ENSRNOT00000054625 ENSRNOG00000036518 block2254371 .((.((...(((((.......((((..(((.((.(((((......))))).)))))....))))...)))))...)).)). 0.470 -18.30 # #block2254371 chromosome:7:119593192:119593272:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054625|ENSRNOG00000036518 ## ENSRNOG00000036518|miRNA|| ## {Repeats: B4 -245 47 -1 class=SINE} ========== block192481 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block192481: 0.001 #forester #identity: 0.00 block192481 TGTGTGTATATATATATATGTGT #rat_gr1089013_libT3S1 23 1 block192481 tgtatatatatatatgtgtgtgtgtgtatatatgTGTGTGTATATATATATATGTGTgtgtgtatatatatgtatatatatatatatatatatatacacacacacatatatatatatgct ************************************************************************************************************************ block192481 .............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<...... #ENSRNOT00000063358 ENSRNOG00000041605 block192481 .(((((((((((((((((((((((((((((((((((((((((((((((((((((((((....))))))))))))))))))))))))))))))))))))))))))))))))))))))))). 1.000 -73.50 # #block192481 chromosome:12:25099625:25099744:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063358|ENSRNOG00000041605 ## ENSRNOG00000041605|miRNA|| ## {Repeats: dust 25099688 25099711 0 class=dust,trf 61 84 0 class=trf,(TA)n 1 180 -1 class=Simple_repeat,trf 33 56 0 class=trf,(TA)n 56 79 -1 class=Simple_repeat} ========== block192482 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block192482: 0.001 #forester #identity: 0.00 block192482 TGTGTGTATATATATATATGTGT #rat_gr1089013_libT3S1 23 1 block192482 tatatatatatatgtgtgtgtgtgtatatatgTGTGTGTATATATATATATGTGTgtgtgtatatatatgtatatatatatatatatatatatacacacacacatatatatatatg ******************************************************************************************************************** block192482 ...........<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.... #ENSRNOT00000063358 ENSRNOG00000041605 block192482 ((((((((((((((((((((((((((((((((((((((((((((((((((((((((....)))))))))))))))))))))))))))))))))))))))))))))))))))))))) 1.000 -69.30 # #block192482 chromosome:12:25099627:25099742:-1 Opposite_strand|Boundary_non-coding|ENSRNOT00000063358|ENSRNOG00000041605 ## ENSRNOG00000041605|miRNA|| ## {Repeats: dust 25099726 25099749 0 class=dust,trf 99 122 0 class=trf,(TA)n 1 180 -1 class=Simple_repeat,(TA)n 94 117 -1 class=Simple_repeat,trf 71 94 0 class=trf} ========== block675540 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block675540: 0.001 #forester #identity: 0.00 block675540 GCATATGTGTGTATGTGTGT #rat_gr537032_libT3S2 20 1 block675540 tgtgtctgtgtgtgtgtttGCATATGTGTGTATGTGTGTgtgtgtgtgtgtgtatatcttcatatacacacatgtacatactcacagacatatacacacatgcacatatataggggtacc ************************************************************************************************************************ block675540 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block675540 ...........<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....................... #ENSRNOT00000063076 ENSRNOG00000041323 block675540 .((..((.(((((((((..((((.(((((((((((.((((((((..(((((((((((....)))))))))))..))))....)))).))))))))))).))))))))))))).))..)). 1.000 -60.80 # #block675540 chromosome:17:79285754:79285873:1 Opposite_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063076|ENSRNOG00000041323 ## ENSRNOG00000041323|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 203 223 0 class=trf,trf 15 35 0 class=trf,(TG)n 20 40 1 class=Simple_repeat,dust 79285768 79285788 0 class=dust,(TG)n 2 54 1 class=Simple_repeat} ========== block675541 (miRNA) [miRNAunknown_Multihit_loopOverlap_randfoldOK] ========== #randfold block675541: 0.001 #forester #identity: 0.00 block675541 TGTGTGTGTGTGTGTGTGTATATC #rat_gr1089714_libT4S2 24 1 block675541 tgtgtctgtgtgtgtgtttgcatatgtgtgtatgTGTGTGTGTGTGTGTGTGTATATCttcatatacacacatgtacatactcacagacatatacacacatgcacatatataggggtacc ************************************************************************************************************************ block675541 ---------------------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 block675541 ...........<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....................... #ENSRNOT00000063076 ENSRNOG00000041323 block675541 .((..((.(((((((((..((((.(((((((((((.((((((((..(((((((((((....)))))))))))..))))....)))).))))))))))).))))))))))))).))..)). 1.000 -60.80 # #block675541 chromosome:17:79285754:79285873:1 Opposite_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063076|ENSRNOG00000041323 ## ENSRNOG00000041323|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79285754 79285773 0 class=dust,(TG)n 35 54 1 class=Simple_repeat,trf 1 20 0 class=trf,trf 184 208 0 class=trf,(TG)n 2 54 1 class=Simple_repeat} ========== block1082416 (miRNA) [miRNAunknown_rep_lenNOK_Multihit_loopOverlap_randfoldOK] ========== #randfold block1082416: 0.001 #forester #identity: 0.00 block1082416 TGTGTGTATATATATGTAT #rat_gr1089019_libT3S1 19 1 block1082416 tgtatatatctctctctaatatatatatgtatatatgtatgtgTGTGTGTATATATATGTATatacatatatatatatatacacatacatatatacatatacatacacatacatatatat ************************************************************************************************************************ block1082416 ...............................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063255 ENSRNOG00000041502 block1082416 .((((((((..........(((.(((((((((((((((((((((((((((((((((((((....))))))))))))))))))))))))))))))))))))).))).......)))))))) 0.950 -50.63 # #block1082416 chromosome:20:40980425:40980544:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063255|ENSRNOG00000041502 ## ENSRNOG00000041502|miRNA|| ## {Repeats: dust 40980483 40980502 0 class=dust,trf 90 109 0 class=trf,RMER12 782 801 1 class=LTR/ERVK,RMER12 1232 1251 -1 class=LTR/ERVK,(TA)n 2 153 -1 class=Simple_repeat} ========== block1082417 (miRNA) [miRNAunknown_rep_Multihit_randfoldOK] ========== #randfold block1082417: 0.001 #forester #identity: 0.00 block1082417 TATGTATGTGTGTGTGTATAT #rat_gr797949_libT1S2 21 1 block1082417 tatatatctctctctaatatatatatgtataTATGTATGTGTGTGTGTATATatatgtatatacatatatatatatatacacatacatatatacatatacatacacatacatatatatat ************************************************************************************************************************ block1082417 .............................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063255 ENSRNOG00000041502 block1082417 (((((((..........(((.(((((((((((((((((((((((((((((((((((((....))))))))))))))))))))))))))))))))))))).))).........))))))). 0.990 -50.51 # #block1082417 chromosome:20:40980423:40980542:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063255|ENSRNOG00000041502 ## ENSRNOG00000041502|miRNA|| ## {Repeats: RMER12 772 793 1 class=LTR/ERVK,trf 98 119 0 class=trf,RMER12 1240 1253 -1 class=LTR/ERVK,dust 40980491 40980512 0 class=dust,(TA)n 2 153 -1 class=Simple_repeat} ========== block1117823 (miRNA) [miRNAunknown_Multihit_randfoldOK] ========== #randfold block1117823: 0.001 #forester #identity: 0.00 block1117823 GCATACATACATACATACAC #rat_gr536811_libT5S1 20 1 block1117823 gatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtacatGCATACATACATACATACACacacacaaatacacacacacatca ***************************************************************************************************** block1117823 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000000330 ENSRNOG00000000302 Sesn1 block1117823 ......<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.......... #ENSRNOT00000063044 ENSRNOG00000041291 block1117823 (((((((((((((((.((((((((((((((((((((((((((((((((....)))))))))))))))))))))))))))))))).))))))))))))))). 1.000 -77.20 # #block1117823 chromosome:20:45836938:45837038:1 Same_strand|Intronic_coding|ENSRNOT00000000330|ENSRNOG00000000302 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063044|ENSRNOG00000041291 ## Same_strand|Boundary_non-coding|ENSRNOT00000057129|ENSRNOG00000000302 ## ENSRNOG00000041291|miRNA|| ## ENSRNOG00000000302|protein_coding|Sesn1|sestrin 1 Gene [Source:MGI (curated);Acc:Sesn1-001] ## {Repeats: trf 23 43 0 class=trf,dust 45836961 45836981 0 class=dust,(CATA)n 7 27 1 class=Simple_repeat,(CATA)n 4 47 1 class=Simple_repeat} ========== block1117824 (miRNA) [miRNAunknown_lenNOK_Multihit_randfoldOK] ========== #randfold block1117824: 0.001 #forester #identity: 0.00 block1117824 ATACATACACACACACAAA #rat_gr207550_libT2S1 19 1 block1117824 gatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtacatgcatacatacATACATACACACACACAAAtacacacacacatc **************************************************************************************************** block1117824 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000000330 ENSRNOG00000000302 Sesn1 block1117824 ......<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<......... #ENSRNOT00000063044 ENSRNOG00000041291 block1117824 (((((((((((((((.((((((((((((((((((((((((((((((((....)))))))))))))))))))))))))))))))).))))))))))))))) 1.000 -75.50 # #block1117824 chromosome:20:45836938:45837037:1 Same_strand|Intronic_coding|ENSRNOT00000000330|ENSRNOG00000000302 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063044|ENSRNOG00000041291 ## Same_strand|Boundary_non-coding|ENSRNOT00000057129|ENSRNOG00000000302 ## ENSRNOG00000041291|miRNA|| ## ENSRNOG00000000302|protein_coding|Sesn1|sestrin 1 Gene [Source:MGI (curated);Acc:Sesn1-001] ## {Repeats: (CATA)n 17 36 1 class=Simple_repeat,trf 14 33 0 class=trf,dust 45836952 45836971 0 class=dust,(CATA)n 4 47 1 class=Simple_repeat} ========== sblock10447 (miRNA) [miRNAunknown_rep_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock10447: 0.009 #forester #identity: 0.00 sblock10447 TGGTGTGAGGTTGGGCCAG #rat_gr1067390_libT1S1 19 40 sblock10447 TGGTGTGAGGTTGGGCCAGGA #rat_gr1067392_libT1S1 21 31 sblock10447 TGGTGTGAGGTTGGGCCAG #rat_gr1067390_libT1S2 19 27 sblock10447 TGGTGTGAGGTTGGGCCAGGA #rat_gr1067392_libT1S2 21 26 sblock10447 TGGTGTGAGGTTGGGCCAGG #rat_gr1067391_libT1S1 20 12 sblock10447 TGGTGTGAGGTTGGGCCA #rat_gr1067389_libT1S1 18 7 sblock10447 TGGTGTGAGGTTGGGCCAGG #rat_gr1067391_libT1S2 20 7 sblock10447 TGGTGTGAGGTTGGGCCAGGAT #rat_gr1067393_libT1S1 22 3 sblock10447 TGGTGTGAGGTTGGGCCA #rat_gr1067389_libT1S2 18 2 sblock10447 TGGTGTGAGGTTGGGCCAGGAT #rat_gr1067393_libT1S2 22 2 sblock10447 TGGTGTGAGGTTGGGCCAGGATG #rat_gr1067394_libT1S2 23 1 sblock10447 TCCGAGGCTCCCCACCACACCCT #rat_gr866938_libT1S1 23 5 sblock10447 CGAGGCTCCCCACCACAC #rat_gr390328_libT1S1 18 5 sblock10447 CGAGGCTCCCCACCACACCCT #rat_gr390331_libT1S2 21 5 sblock10447 TCCGAGGCTCCCCACCAC #rat_gr866933_libT1S1 18 4 sblock10447 TCCGAGGCTCCCCACCACACCC #rat_gr866937_libT1S1 22 4 sblock10447 CGAGGCTCCCCACCACACCCTG #rat_gr390332_libT1S1 22 4 sblock10447 CGAGGCTCCCCACCACACC #rat_gr390329_libT1S2 19 3 sblock10447 CGAGGCTCCCCACCACACCC #rat_gr390330_libT1S1 20 3 sblock10447 TCCGAGGCTCCCCACCACACCCT #rat_gr866938_libT1S2 23 2 sblock10447 CGAGGCTCCCCACCACACCC #rat_gr390330_libT1S2 20 2 sblock10447 CGAGGCTCCCCACCACACCCT #rat_gr390331_libT1S1 21 2 sblock10447 TCCGAGGCTCCCCACCACA #rat_gr866934_libT1S1 19 1 sblock10447 TCCGAGGCTCCCCACCACAC #rat_gr866935_libT1S2 20 1 sblock10447 TCCGAGGCTCCCCACCACACC #rat_gr866936_libT1S1 21 1 sblock10447 TCCGAGGCTCCCCACCACACC #rat_gr866936_libT1S2 21 1 sblock10447 TCCGAGGCTCCCCACCACACCCTG #rat_gr866939_libT1S1 24 1 sblock10447 CCGAGGCTCCCCACCACACCCT #rat_gr366219_libT1S2 22 1 sblock10447 CGAGGCTCCCCACCACAC #rat_gr390328_libT1S2 18 1 sblock10447 CGAGGCTCCCCACCACACCCTG #rat_gr390332_libT1S2 22 1 sblock10447 CGAGGCTCCCCACCACACCCTGC #rat_gr390333_libT1S1 23 1 sblock10447 gtctctcagcTGGTGTGAGGTTGGGCCAGGAtgaaacccaaggctctccgaggctccccaccacaccctgctgctgaagact ********************************************************************************** sblock10447 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063221 ENSRNOG00000041468 sblock10447 ((((.(((((.((((((.((..(((((.(((.((..((...)).)))))..))))).))..)))))).....))))))))). 0.920 -32.70 # #sblock10447 chromosome:6:134203856:134203937:1 Same_strand|Exonic_non-coding|ENSRNOT00000063221|ENSRNOG00000041468 ## ENSRNOG00000041468|miRNA|| ## {Repeats: MIRb 23 48 -1 class=SINE/MIR,MIRb -113 155 -1 class=SINE,MIRb 61 84 -1 class=SINE/MIR} ========== sblock11060 (miRNA) [miRNAunknown_rep_lenNOK_multiarm_DicerNOK] ========== #randfold sblock11060: 0.475 #forester #identity: 0.00 sblock11060 GCTTTCTGGTTTGGAAGG #rat_gr579043_libT4S2 18 1 sblock11060 CTCTCCAGCCCAAGGAGGA #rat_gr429881_libT3S1 19 1 sblock11060 gctgagccatCTCTCCAGCCCAAGGAGGAtgctttcttaaatacgcaaatgatgaggactGCTTTCTGGTTTGGAAGGtgtaatggaaaggc ******************************************************************************************** sblock11060 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.................................................. #ENSRNOT00000054622 ENSRNOG00000036515 sblock11060 (((...((((((.((((..((.((((((.....((((((.((......))..))))))...))))))))..)))).))....))))...))) 0.920 -22.30 # #sblock11060 chromosome:7:135934843:135934934:-1 Opposite_strand|Exonic_non-coding|ENSRNOT00000054622|ENSRNOG00000036515 ## intergenic ## ENSRNOG00000036515|miRNA|| ## {Repeats: B4 2 47 -1 class=SINE} ========== sblock11286 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_randfoldOK] ========== #randfold sblock11286: 0.001 #forester #identity: 0.00 sblock11286 TGTGTGTATATATATGTAT #rat_gr1089019_libT3S1 19 1 sblock11286 TATATATACACACACACAT #rat_gr792456_libT5S2 19 1 sblock11286 TGTGTGTATATATATGTATgtatgtatgtatgtatatatatatatatatatatatatatatatatatataTATATATACACACACACATatatatatatatatatatatt ************************************************************************************************************** sblock11286 ------------------------------------------------------------------------------------------------------------------------ #ENSRNOT00000039475 ENSRNOG00000026634 Glipr1l1 sblock11286 ------------------------------------------------------------------------------------------------------------------------ #ENSRNOT00000048015 ENSRNOG00000026634 Glipr1l1 sblock11286 ....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063393 ENSRNOG00000041640 sblock11286 .((((((((((((((((((((((((.(((.(((((((((((((((((((((((....))))))))))))))))))))))).))).)))))))))))))))))))))))). 0.920 -53.60 # #sblock11286 chromosome:7:51153914:51154023:1 Opposite_strand|Intronic_coding|ENSRNOT00000039475|ENSRNOG00000026634 ## Same_strand|Exonic_non-coding|ENSRNOT00000063393|ENSRNOG00000041640 ## ENSRNOG00000041640|miRNA|| ## ENSRNOG00000026634|protein_coding|Glipr1l1|GLI pathogenesis-related 1 like 1 Gene [Source:MGI Symbol;Acc:MGI:1916536] ## {Repeats: dust 51153937 51153956 0 class=dust,(TA)n 129 148 1 class=Simple_repeat,(TA)n 1 180 1 class=Simple_repeat,trf 105 124 0 class=trf,trf 35 54 0 class=trf,dust 51153867 51153886 0 class=dust,(TA)n 59 78 1 class=Simple_repeat} ========== sblock11473 (miRNA) [miRNAunknown_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock11473: 0.001 #forester #identity: 0.00 sblock11473 CGTGCGTGCGTGCGTGCGTGT #rat_gr405050_libT2S2 21 1 sblock11473 TACACACACACATGTGCGTG #rat_gr741061_libT1S1 20 1 sblock11473 gcgtgcgtgcgtgCGTGCGTGCGTGCGTGCGTGTgtgtgtgtgtgtgtgtgtatacatgcatgcgcatgtacatgTACACACACACATGTGCGTGcacacatgtacgc ************************************************************************************************************ sblock11473 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000055906 ENSRNOG00000015916 RGD1306041_predicted sblock11473 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000021582 ENSRNOG00000015916 RGD1306041_predicted sblock11473 ......<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.......................... #ENSRNOT00000063375 ENSRNOG00000041622 sblock11473 (((((((((.((((..(((..((((.(((.(((((..((((..((((((((((....))))))))))..))))..))))).))).))))..))))))).))))))))) 0.820 -67.90 # #sblock11473 chromosome:7:123853644:123853751:1 Same_strand|Intronic_coding|ENSRNOT00000021582|ENSRNOG00000015916 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063375|ENSRNOG00000041622 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000063375|ENSRNOG00000041622 ## Same_strand|Boundary_non-coding|ENSRNOT00000055905|ENSRNOG00000015916 ## ENSRNOG00000015916|protein_coding|RGD1306041_predicted| ## ENSRNOG00000041622|miRNA|| ## {Repeats: (CGTG)n 32 53 1 class=Simple_repeat,dust 123853640 123853661 0 class=dust,trf 16 37 0 class=trf,(CGTG)n 2 71 1 class=Simple_repeat} ========== sblock11852 (miRNA) [miRNAunknown_rep_lenNOK_multiarm_DicerNOK_Multihit] ========== #randfold sblock11852: 0.014 #forester #identity: 0.00 sblock11852 CTACATAGAGAAACCCTGTC #rat_gr410239_libT5S2 20 1 sblock11852 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT2S1 19 2 sblock11852 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT3S1 19 2 sblock11852 AGTTCGAGGCCAGCCTGGTC #rat_gr203254_libT3S2 20 1 sblock11852 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT1S2 19 1 sblock11852 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT2S2 19 1 sblock11852 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT5S1 19 1 sblock11852 gaaggcagacagatccctgtGAGTTCGAGGCCAGCCTGGTCtacagagggaattccaggacagccaggaCTACATAGAGAAACCCTGTCtca ******************************************************************************************** sblock11852 ------------------------------------------------------------------------------------------------------ #ENSRNOT00000037650 ENSRNOG00000025332 Cd109 sblock11852 ------------------------------------------------------------------------------------------------------ #ENSRNOT00000037665 ENSRNOG00000025332 Cd109 sblock11852 ------------------------------------------------------------------------------------------------------ #ENSRNOT00000037657 ENSRNOG00000025332 Cd109 sblock11852 ------------------------------------------------------------------------------------------------------ #ENSRNOT00000057088 ENSRNOG00000025332 Cd109 sblock11852 ------------------------------------------------------------------------------------------------------ #ENSRNOT00000057087 ENSRNOG00000025332 Cd109 sblock11852 ...>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063257 ENSRNOG00000041504 sblock11852 ((.(((((.....((.((((((((((..(((...((((((((......)))...)))))...))).))))).))))).))....))))))). 1.000 -33.00 # #sblock11852 chromosome:8:83612177:83612268:-1 Opposite_strand|Intronic_coding|ENSRNOT00000037657|ENSRNOG00000025332 ## Same_strand|Exonic_non-coding|ENSRNOT00000063257|ENSRNOG00000041504 ## ENSRNOG00000041504|miRNA|| ## ENSRNOG00000025332|protein_coding|Cd109|CD109 antigen Gene [Source:MGI Symbol;Acc:MGI:2445221] ## {Repeats: B1_Mur4 61 82 1 class=SINE/Alu,B1_Mur4 -7 143 1 class=SINE,B1_Mur4 110 130 1 class=SINE/Alu} ========== sblock11890 (miRNA) [miRNAunknown_rep_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock11890: 0.001 #forester #identity: 0.00 sblock11890 ATACACATGCACACATAC #rat_gr207123_libT2S1 18 1 sblock11890 ATGTGTGTGTGTATATGTA #rat_gr238312_libT4S2 19 1 sblock11890 atgattATGTGTGTGTGTATATGTAtatatatatatATACACATGCACACATACatacactcat **************************************************************** sblock11890 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000014519 ENSRNOG00000010911 RGD1311530_predicted sblock11890 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.... #ENSRNOT00000063206 ENSRNOG00000041453 sblock11890 ((((.(((((((((((((((.((((((((....)))))))).)))))))))))))))...)))) 1.000 -28.80 # #sblock11890 chromosome:8:108565675:108565738:-1 Same_strand|Intronic_coding|ENSRNOT00000014519|ENSRNOG00000010911 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000063206|ENSRNOG00000041453 ## ENSRNOG00000010911|protein_coding|RGD1311530_predicted| ## ENSRNOG00000041453|miRNA|| ## {Repeats: RMER12 805 823 1 class=LTR/ERVK,RMER12 775 794 1 class=LTR/ERVK,dust 108565700 108565703 0 class=dust,(TATATG)n 2 51 -1 class=Simple_repeat,dust 108565714 108565721 0 class=dust} ========== sblock11968 (miRNA) [miRNAunknown_lenNOK_multiarm_Multihit_loopOverlap_randfoldOK] ========== #randfold sblock11968: 0.001 #forester #identity: 0.00 sblock11968 TGTGTGTGTATACATATAT #rat_gr1089336_libT5S1 19 1 sblock11968 GCATACATACATACATACAC #rat_gr536811_libT5S1 20 1 sblock11968 tgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTATACATATATgtgcgtgcatGCATACATACATACATACACacacat ***************************************************************************** sblock11968 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000012846 ENSRNOG00000009772 Kirrel3_predicted sblock11968 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000013036 ENSRNOG00000009772 Kirrel3_predicted sblock11968 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.... #ENSRNOT00000062974 ENSRNOG00000041221 sblock11968 .(((((((((((((((((((((((((((((((..(((....)))..))))))))))))))))))))))))))))))) 1.000 -51.00 # #sblock11968 chromosome:8:34735036:34735112:1 Same_strand|Intronic_coding|ENSRNOT00000013036|ENSRNOG00000009772 ## Opposite_strand|Exonic_non-coding|ENSRNOT00000062974|ENSRNOG00000041221 ## ENSRNOG00000041221|miRNA|| ## ENSRNOG00000009772|protein_coding|Kirrel3_predicted|kin of IRRE like 3 [Source:RefSeq_peptide;Acc:NP_001041680] ## {Repeats: (TG)n 45 64 1 class=Simple_repeat,dust 34734960 34734969 0 class=dust,trf 1 10 0 class=trf,(CATA)n 3 23 1 class=Simple_repeat,(TG)n 1 72 1 class=Simple_repeat,(CATA)n 1 26 1 class=Simple_repeat} ========== sblock11982 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock11982: 0.001 #forester #identity: 0.00 sblock11982 CGCGTGTGCATGTGTGTGTG #rat_gr394879_libT2S1 20 1 sblock11982 TGTGTGTGCGTGTGTGTGC #rat_gr1089272_libT1S2 19 1 sblock11982 ccacaatgtgtgtgcgCGCGTGTGCATGTGTGTGTGcacgtgtgtgtgcatgtgcatgagtgtgtgcatgtgcgtgcatgtgtgcatgcgTGTGTGTGCGTGTGTGTGCatgtgtgtg ********************************************************************************************************************** sblock11982 .......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063209 ENSRNOG00000041456 sblock11982 .(((((((((..((((((((..((((..((((((..((((((..((..((((..(((....)))..))))..))..))))))..))))))..))))..))))))))..))))).)))) 1.000 -74.00 # #sblock11982 chromosome:8:46391197:46391314:1 Same_strand|Exonic_non-coding|ENSRNOT00000063209|ENSRNOG00000041456 ## Same_strand|Boundary_non-coding|ENSRNOT00000063209|ENSRNOG00000041456 ## ENSRNOG00000041456|miRNA|| ## {Repeats: (TG)n 84 103 1 class=Simple_repeat,(TG)n 10 30 1 class=Simple_repeat,(TG)n 1 262 1 class=Simple_repeat,dust 46391365 46391384 0 class=dust,dust 46391438 46391458 0 class=dust} ========== sblock12020 (miRNA) [miRNAunknown_rep_lenNOK_multiarm_Multihit_5varHIGH_loopOverlap_randfoldOK_nonpairedHIGH] ========== #randfold sblock12020: 0.001 #forester #identity: 0.00 sblock12020 TTGTATGTGTGTATGTGTGTG #rat_gr1148475_libT2S1 21 1 sblock12020 ATGTGTGTGTATGTGTATGTATGT #rat_gr238293_libT5S2 24 1 sblock12020 TGTGTATGTGTGTGTGTGC #rat_gr1088129_libT1S2 19 2 sblock12020 GTATGTGTGTATGTGTGTGTGT #rat_gr631502_libT2S1 22 1 sblock12020 gtgtgtgtgcatgtgtgtgtgtgcatgtgtgtatatTTGTATGTGTGTATGTGTGTGTATGTGTATGTATGTgtgtgtgcatgtGTATGTGTGTATGTGTGTGTGTGC ************************************************************************************************************ sblock12020 ---------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000010964 ENSRNOG00000008219 LOC315712 sblock12020 ---------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000058490 ENSRNOG00000008219 LOC315712 sblock12020 ---------------------------------------------------------------------------------------------------------------------- #ENSRNOT00000058489 ENSRNOG00000008219 LOC315712 sblock12020 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....... #ENSRNOT00000063362 ENSRNOG00000041609 sblock12020 (((..((..((((((..((..((((((((..(((((.((((((((..((((......))))..)))))))).)))))..))))))))..))..))))))..))..))) 1.000 -39.90 # #sblock12020 chromosome:8:61849376:61849483:1 Opposite_strand|Intronic_coding|ENSRNOT00000010964|ENSRNOG00000008219 ## Same_strand|Exonic_non-coding|ENSRNOT00000063362|ENSRNOG00000041609 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000058488|ENSRNOG00000008219 ## Same_strand|Boundary_non-coding|ENSRNOT00000063362|ENSRNOG00000041609 ## ENSRNOG00000041609|miRNA|| ## ENSRNOG00000008219|protein_coding|LOC315712|Coiled-coil domain-containing protein 33. [Source:UniProtKB/Swiss-Prot;Acc:Q5XIR4] ## {Repeats: trf 18 42 0 class=trf,dust 61849382 61849403 0 class=dust,(TG)n 1 178 1 class=Simple_repeat,dust 61849367 61849391 0 class=dust,(TG)n 155 178 1 class=Simple_repeat,trf 54 78 0 class=trf,trf 69 90 0 class=trf,dust 61849331 61849355 0 class=dust,MIRm -100 162 -1 class=SINE,(TG)n 107 128 1 class=Simple_repeat,MIRm 161 161 -1 class=SINE/MIR,(TG)n 119 143 1 class=Simple_repeat} ========== sblock12613 (miRNA) [miRNAunknown_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock12613: 0.001 #forester #identity: 0.00 sblock12613 TGTGCCTGCTTGTGCGTGCT #rat_gr1085681_libT5S1 20 1 sblock12613 CACACACACACACACACACATGT #rat_gr275841_libT1S1 23 2 sblock12613 ACACACACACACACACACACATGT #rat_gr71208_libT3S2 24 1 sblock12613 ACACACACACACACACACATGT #rat_gr71222_libT5S1 22 1 sblock12613 tgtgcatgcttgtgcatgtgtgtctctgtgtgTGTGCCTGCTTGTGCGTGCTtgtgcatatgtgtatgtctgcacacacacacaaACACACACACACACACACACATGTattgcacac ********************************************************************************************************************** sblock12613 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000022878 ENSRNOG00000016724 Epb4.1l3 sblock12613 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000022849 ENSRNOG00000016724 Epb4.1l3 sblock12613 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000045148 ENSRNOG00000016724 Epb4.1l3 sblock12613 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000046148 ENSRNOG00000016724 Epb4.1l3 sblock12613 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000049426 ENSRNOG00000016724 Epb4.1l3 sblock12613 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000047159 ENSRNOG00000016724 Epb4.1l3 sblock12613 ...................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..... #ENSRNOT00000063553 ENSRNOG00000041800 sblock12613 ((((((.....((((((((((((...((((((((((..((..((((.((((.((((((....))))))...)))).))))..))..))))))))))...)))))))))))))))))). 1.000 -56.80 # #sblock12613 chromosome:9:108390476:108390593:1 Same_strand|Boundary_non-coding|ENSRNOT00000029010|ENSRNOG00000016724 ## Same_strand|Intronic_coding|ENSRNOT00000049426|ENSRNOG00000016724 ## Same_strand|Exonic_non-coding|ENSRNOT00000063553|ENSRNOG00000041800 ## ENSRNOG00000016724|protein_coding|Epb4.1l3|erythrocyte protein band 4.1-like 3 [Source:RefSeq_peptide;Acc:NP_446379] ## ENSRNOG00000041800|miRNA|| ## {Repeats: (CA)n 13 34 1 class=Simple_repeat,dust 108390379 108390399 0 class=dust,trf 1 22 0 class=trf,(TG)n 2 172 1 class=Simple_repeat,trf 14 34 0 class=trf,dust 108390548 108390569 0 class=dust,(CA)n 1 34 1 class=Simple_repeat,(TG)n 134 154 1 class=Simple_repeat} ========== sblock12676 (miRNA) [miRNAunknown_rep_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_randfoldOK] ========== #randfold sblock12676: 0.001 #forester #identity: 0.00 sblock12676 AGTTCCAGGACAGCCAGGGCTACA #rat_gr202999_libT5S1 24 1 sblock12676 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT2S1 19 2 sblock12676 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT3S1 19 2 sblock12676 TCTACAGAGTGAGTTCCAGGAC #rat_gr892996_libT4S2 22 1 sblock12676 CCTGGTCTACAGAGTGAGT #rat_gr380959_libT5S2 19 1 sblock12676 CCAGCCTGGTCTACAGAGTGA #rat_gr332594_libT2S1 21 1 sblock12676 GAGGCCAGCCTGGTCTACAGAGT #rat_gr513023_libT4S2 23 1 sblock12676 GAGGCCAGCCTGGTCTAC #rat_gr513021_libT5S2 18 1 sblock12676 AGTTCGAGGCCAGCCTGGTC #rat_gr203254_libT3S2 20 1 sblock12676 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT1S2 19 1 sblock12676 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT2S2 19 1 sblock12676 GAGTTCGAGGCCAGCCTGG #rat_gr517977_libT5S1 19 1 sblock12676 gaggcaagcagtttctgtGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACAcagaaaaaccctgtctca ****************************************************************************************** sblock12676 .....>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063188 ENSRNOG00000041435 sblock12676 ((((((.....(((((((((((((..(((...(((((.((........))..)))))...))).))))).)))))))).....)))))). 1.000 -38.90 # #sblock12676 chromosome:X:81947104:81947193:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063188|ENSRNOG00000041435 ## ENSRNOG00000041435|miRNA|| ## {Repeats: B1_Mur4 87 128 1 class=SINE/Alu,B1_Mur3 0 149 1 class=SINE,B1_Mur4 117 141 1 class=SINE/Alu} ========== sblock12705 (miRNA) [miRNAunknown_rep_cloningOK_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_randfoldOK] ========== #randfold sblock12705: 0.001 #forester #identity: 0.00 sblock12705 GCGCACACACACACACACACAC #rat_gr562253_libT1S1 22 2 sblock12705 GCACACACACACACACACACAG #rat_gr528664_libT4S2 22 1 sblock12705 GCACACACACACACACACAC #rat_gr528662_libT3S1 20 1 sblock12705 GCACACACACACACACACAC #rat_gr528662_libT5S1 20 1 sblock12705 CGCACACACACACACACACA #rat_gr391611_libT3S1 20 1 sblock12705 GCGCACACACACACACACACA #rat_gr562252_libT1S1 21 1 sblock12705 GCGCACACACACACACACAC #rat_gr562251_libT1S2 20 1 sblock12705 CGCGCACACACACACACACAC #rat_gr394129_libT1S1 21 1 sblock12705 CGCGCACACACACACACACA #rat_gr394128_libT1S1 20 1 sblock12705 CGCGCACACACACACACAC #rat_gr394127_libT2S2 19 1 sblock12705 CGCGCGCACACACACACACAC #rat_gr394282_libT2S1 21 1 sblock12705 CGCGCGCACACACACACACAC #rat_gr394282_libT3S1 21 1 sblock12705 TGTGTGTGTGTGTGTGCAC #rat_gr1089634_libT1S1 19 1 sblock12705 GTGTGTGTGTGTGTGTGCA #rat_gr655178_libT2S2 19 1 sblock12705 GTGTGTGTGTGTGTGTGCA #rat_gr655178_libT4S1 19 1 sblock12705 TGTGTGTGTGTGTGTGTGCA #rat_gr1089698_libT3S1 20 1 sblock12705 GTGTGTGTGTGTGTGTGTGC #rat_gr655216_libT3S1 20 1 sblock12705 TGTGTGTGTGTGTGTGTGTGC #rat_gr1089731_libT4S1 21 1 sblock12705 GTGTGTGTGTGTGTGTGTGTGC #rat_gr655231_libT3S1 22 1 sblock12705 GTGTGTGTGTGTGTGTGTGTGTGC #rat_gr655237_libT5S1 24 1 sblock12705 GGTGTGTGTGTGTGTGTGTGT #rat_gr623209_libT5S1 21 1 sblock12705 tttctttatatttaGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCACgCGCGCGCACACACACACACACACACAGgctcaggtcaggaaac ******************************************************************************************************* sblock12705 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000034925 ENSRNOG00000012194 Morc4_predicted sblock12705 ...................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.............. #ENSRNOT00000063027 ENSRNOG00000041274 sblock12705 ((((((...((((..((.(((((((((((((((((((((((((((((((......))))))))))))))))))))))))))))))).))..)))).)))))). 1.000 -67.40 # #sblock12705 chromosome:X:127581819:127581921:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063027|ENSRNOG00000041274 ## Same_strand|Intronic_coding|ENSRNOT00000034925|ENSRNOG00000012194 ## ENSRNOG00000041274|miRNA|| ## ENSRNOG00000012194|protein_coding|Morc4_predicted| ## {Repeats: (CA)n 1 24 -1 class=Simple_repeat,(CA)n 22 41 -1 class=Simple_repeat,(TG)n 28 30 -1 class=Simple_repeat,(CA)n 1 41 -1 class=Simple_repeat,dust 127581866 127581889 0 class=dust,trf 1 24 0 class=trf,trf 1 20 0 class=trf,dust 127581887 127581906 0 class=dust,AT_rich 1 32 -1 class=Low_complexity,dust 127581836 127581855 0 class=dust,RSINE1 1 50 -1 class=SINE,(TG)n 1 27 -1 class=Simple_repeat,trf 22 41 0 class=trf} ========== sblock12804 (miRNA) [miRNAunknown_rep_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH] ========== #randfold sblock12804: 0.019 #forester #identity: 0.00 sblock12804 GAACTCACTCTGTAGACC #rat_gr484011_libT3S2 18 2 sblock12804 TGTAGCCCTGGCTGTCCTG #rat_gr1076198_libT1S2 19 1 sblock12804 CTGGCTGTCCTGGAACTC #rat_gr449821_libT2S1 18 1 sblock12804 GGCTGTCCTGGAACTCAC #rat_gr600664_libT5S2 18 1 sblock12804 CTGTCCTGGAACTCACTCT #rat_gr454590_libT5S1 19 1 sblock12804 TGTCCTGGAACTCACTCTG #rat_gr1080237_libT5S1 19 1 sblock12804 TGTCCTGGAACTCACTCTGTAGAC #rat_gr1080238_libT1S2 24 1 sblock12804 CCTGGAACTCACTCTGTAGAC #rat_gr379733_libT2S1 21 1 sblock12804 TGGAACTCACTCTGTAGACC #rat_gr982757_libT5S2 20 1 sblock12804 AACTCACTCTGTAGACCAG #rat_gr37722_libT3S2 19 1 sblock12804 GTAGACCAGGCTGGCCTCG #rat_gr629494_libT5S1 19 1 sblock12804 CAGGCTGGCCTCGAACTC #rat_gr299150_libT3S1 18 1 sblock12804 ttgagacagggtttttctgTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCacagaaactgcttgcctcag ********************************************************************************************* sblock12804 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....... #ENSRNOT00000063188 ENSRNOG00000041435 sblock12804 .((((.((((...((((((((.......((((..(((((.((.......))...)))))..)))).......))))))))...)))).)))). 1.000 -33.14 # #sblock12804 chromosome:X:81947103:81947195:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063188|ENSRNOG00000041435 ## ENSRNOG00000041435|miRNA|| ## {Repeats: B1_Mur4 68 92 -1 class=SINE/Alu,B1_Mur4 83 122 -1 class=SINE/Alu,B1_Mur3 0 149 -1 class=SINE} ========== sblock12820 (miRNA) [miRNAunknown_rep_cloningOK_multiarm_DicerNOK_Multihit_5varHIGH_loopOverlap_randfoldOK] ========== #randfold sblock12820: 0.001 #forester #identity: 0.00 sblock12820 TGTGTGTGTGTGTGCGCGC #rat_gr1089566_libT2S2 19 2 sblock12820 TGTGTGTGTGTGTGTGTGTGC #rat_gr1089731_libT4S1 21 1 sblock12820 GTGTGTGTGTGTGTGTGTGC #rat_gr655216_libT3S1 20 1 sblock12820 GTGTGTGTGTGTGTGTGCG #rat_gr655185_libT3S1 19 1 sblock12820 TGTGTGTGTGTGTGTGCGC #rat_gr1089641_libT4S1 19 1 sblock12820 TGCACACACACACACACACA #rat_gr959803_libT5S1 20 3 sblock12820 TGCACACACACACACACACA #rat_gr959803_libT3S1 20 2 sblock12820 GTGCACACACACACACACA #rat_gr646019_libT1S2 19 1 sblock12820 TGCACACACACACACACACACA #rat_gr959805_libT5S1 22 1 sblock12820 GCACACACACACACACACAC #rat_gr528662_libT3S1 20 1 sblock12820 GCACACACACACACACACAC #rat_gr528662_libT5S1 20 1 sblock12820 GCACACACACACACACACACAC #rat_gr528663_libT2S1 22 1 sblock12820 CACACACACACACACACACACC #rat_gr275824_libT2S1 22 2 sblock12820 ACACACACACACACACACACC #rat_gr71209_libT4S2 21 2 sblock12820 CACACACACACACACACACC #rat_gr275844_libT4S1 20 2 sblock12820 ACACACACACACACACACACACC #rat_gr71206_libT1S2 23 1 sblock12820 CACACACACACACACACACACC #rat_gr275824_libT2S2 22 1 sblock12820 CACACACACACACACACACACC #rat_gr275824_libT4S2 22 1 sblock12820 ACACACACACACACACACACC #rat_gr71209_libT1S2 21 1 sblock12820 ACACACACACACACACACACC #rat_gr71209_libT3S2 21 1 sblock12820 CACACACACACACACACACC #rat_gr275844_libT1S2 20 1 sblock12820 CACACACACACACACACACC #rat_gr275844_libT2S1 20 1 sblock12820 CACACACACACACACACACC #rat_gr275844_libT2S2 20 1 sblock12820 tgggtgaaggtgtttcctgacctgagccTGTGTGTGTGTGTGTGTGTGCGCGCgcGTGCACACACACACACACACACACACACACACACACACACACACCta ****************************************************************************************************** sblock12820 ---------------------------------------------------------------------------------------------------------------- #ENSRNOT00000034925 ENSRNOG00000012194 Morc4_predicted sblock12820 .........................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<....... #ENSRNOT00000063027 ENSRNOG00000041274 sblock12820 ((((((...((((....((...((....(((((((((((((((((((((((....)))))))))))))))))))))))....))..)).))))...)))))) 0.510 -53.80 # #sblock12820 chromosome:X:127581808:127581909:1 Opposite_strand|Exonic_non-coding|ENSRNOT00000063027|ENSRNOG00000041274 ## Opposite_strand|Intronic_coding|ENSRNOT00000034925|ENSRNOG00000012194 ## ENSRNOG00000041274|miRNA|| ## ENSRNOG00000012194|protein_coding|Morc4_predicted| ## {Repeats: AT_rich 1 32 1 class=Low_complexity,dust 127581866 127581888 0 class=dust,(CA)n 1 21 1 class=Simple_repeat,(CA)n 19 41 1 class=Simple_repeat,trf 21 41 0 class=trf,(TG)n 1 25 1 class=Simple_repeat,RSINE1 1 50 1 class=SINE,trf 1 20 0 class=trf,(CA)n 1 41 1 class=Simple_repeat,dust 127581836 127581855 0 class=dust,(TG)n 27 30 1 class=Simple_repeat,dust 127581886 127581906 0 class=dust,trf 1 23 0 class=trf} ========== sblock3506 (miRNA) [miRNAunknown_lenNOK_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH] ========== #randfold sblock3506: 0.004 #forester #identity: 0.00 sblock3506 CGGTCGGTCGGTCGGTCAG #rat_gr402667_libT1S2 19 1 sblock3506 CGGTCGGTCGGTCGGTCAGTC #rat_gr402668_libT1S2 21 1 sblock3506 TCGGTCAGTCGGTCGGTC #rat_gr890720_libT1S1 18 1 sblock3506 TCGGTCGGTCGGTCGGTCG #rat_gr890759_libT1S1 19 1 sblock3506 gtttttgttttgttttgtttgttagtttggttggtCGGTCGGTCGGTCGGTCAGTCGGTCGGTCGGTCGGTCGgtcggtcggttggttggttttggtttgcagtagc *********************************************************************************************************** sblock3506 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000001709 ENSRNOG00000001265 LOC686419 sblock3506 ....................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................... #ENSRNOT00000063089 ENSRNOG00000041336 sblock3506 (((.((((..................(((..((..((..((..((..(((((....)))))..))..))..))..))..))).................)))).))) 0.840 -31.25 # #sblock3506 chromosome:12:15047402:15047508:1 Same_strand|Exonic_non-coding|ENSRNOT00000063089|ENSRNOG00000041336 ## Same_strand|Intronic_coding|ENSRNOT00000001709|ENSRNOG00000001265 ## ENSRNOG00000041336|miRNA|| ## ENSRNOG00000001265|protein_coding|LOC686419| ## {Repeats: (CGGT)n 2 64 1 class=Simple_repeat,(CGGT)n 19 37 1 class=Simple_repeat,dust 15047421 15047439 0 class=dust,dust 15047429 15047450 0 class=dust,(CGGT)n 8 29 1 class=Simple_repeat,(CGGT)n 27 54 1 class=Simple_repeat,dust 15047404 15047431 0 class=dust,trf 11 38 0 class=trf,trf 28 46 0 class=trf,trf 36 57 0 class=trf} ========== sblock5001 (miRNA) [miRNAunknown_rep_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK] ========== #randfold sblock5001: 0.001 #forester #identity: 0.00 sblock5001 AGTGCCTGCTGTGTGCCAA #rat_gr199938_libT3S1 19 2 sblock5001 AGTGCCTGCTGTGTGCCAAG #rat_gr199939_libT1S2 20 1 sblock5001 AGTGCCTGCTGTGTGCCAAG #rat_gr199939_libT5S2 20 1 sblock5001 AGTGCCTGCTGTGTGCCAA #rat_gr199938_libT5S1 19 1 sblock5001 AGTGCCTGCTGTGTGCCAA #rat_gr199938_libT5S2 19 1 sblock5001 AGTGCCTGCTGTGTGCCA #rat_gr199937_libT1S2 18 1 sblock5001 AGTGCCTGCTGTGTGCCA #rat_gr199937_libT2S1 18 1 sblock5001 AGTGCCTGCTGTGTGCCA #rat_gr199937_libT2S2 18 1 sblock5001 AGTGCCTGCTGTGTGCCA #rat_gr199937_libT3S1 18 1 sblock5001 AGTGCCTGCTGTGTGCCA #rat_gr199937_libT3S2 18 1 sblock5001 CAGTAACTACTTAGTGAG #rat_gr301517_libT1S2 18 1 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT1S2 21 15 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT3S1 19 13 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT3S1 22 12 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT1S2 22 11 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT1S2 19 10 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT5S2 22 9 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT3S1 21 9 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT4S2 21 9 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT3S2 19 9 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT4S1 19 8 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT3S2 22 7 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT5S2 19 7 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT2S2 22 6 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT4S1 22 6 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT5S2 21 6 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT1S1 21 5 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT4S1 21 4 sblock5001 CTTGGCACCTGGTAAGCA #rat_gr466214_libT3S1 18 4 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT1S1 22 3 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT4S2 22 3 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT2S1 21 3 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT4S2 19 3 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT2S1 22 2 sblock5001 CTTGGCACCTGGTAAGCACTCA #rat_gr466218_libT5S1 22 2 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT2S2 21 2 sblock5001 CTTGGCACCTGGTAAGCACTC #rat_gr466217_libT3S2 21 2 sblock5001 CTTGGCACCTGGTAAGCACT #rat_gr466216_libT4S2 20 2 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT2S1 19 2 sblock5001 CTTGGCACCTGGTAAGCA #rat_gr466214_libT1S2 18 2 sblock5001 CTTGGCACCTGGTAAGCA #rat_gr466214_libT3S2 18 2 sblock5001 CTTGGCACCTGGTAAGCACT #rat_gr466216_libT3S1 20 1 sblock5001 CTTGGCACCTGGTAAGCACT #rat_gr466216_libT4S1 20 1 sblock5001 CTTGGCACCTGGTAAGCAC #rat_gr466215_libT1S1 19 1 sblock5001 CTTGGCACCTGGTAAGCA #rat_gr466214_libT2S1 18 1 sblock5001 CTTGGCACCTGGTAAGCA #rat_gr466214_libT4S1 18 1 sblock5001 CTTGGCACCTGGTAAGCA #rat_gr466214_libT4S2 18 1 sblock5001 catttccctatccccagctcccacatcagtgCTTGGCACCTGGTAAGCACTCAgtaactacttagtgagtgcctgctgtgtgccaaggcattgtgctgaggctttggggggat ***************************************************************************************************************** sblock5001 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000023200 ENSRNOG00000017229 Arl10 sblock5001 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000047738 ENSRNOG00000017229 Arl10 sblock5001 ........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.............. #ENSRNOT00000063186 ENSRNOG00000041433 sblock5001 .((..(((((..((((((........(((((((((((((.(((((.(((((((.(((....))).))))))).))))).)))))))).))))).)))).))...)))))..)) 1.000 -54.70 # #sblock5001 chromosome:17:16097392:16097504:-1 Same_strand|Intronic_coding|ENSRNOT00000047738|ENSRNOG00000017229 ## Same_strand|Exonic_non-coding|ENSRNOT00000063186|ENSRNOG00000041433 ## ENSRNOG00000017229|protein_coding|Arl10|ADP-ribosylation factor-like 10 [Source:RefSeq_peptide;Acc:NP_997048] ## ENSRNOG00000041433|miRNA|| ## {Repeats: L2 3260 3265 -1 class=LINE/L2,L2 3266 3286 1 class=LINE/L2,L2 3250 3268 1 class=LINE/L2,L2 3312 3371 -1 class=LINE,L2 3244 3262 -1 class=LINE/L2,L2 3230 3252 1 class=LINE/L2,L2 3226 3246 -1 class=LINE/L2,L2 -7 3412 1 class=LINE} ========== sblock5198 (miRNA) [miRNAunknown_rep_cloningHIGH_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock5198: 0.001 #forester #identity: 0.00 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT2S2 20 37 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT2S1 21 36 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT2S1 20 29 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT2S2 21 20 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT2S2 24 11 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT3S1 21 10 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT3S2 21 10 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT3S1 24 6 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT3S1 20 6 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT1S1 20 5 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT2S1 24 4 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT1S1 21 4 sblock5198 TATACATACACACATACAC #rat_gr791405_libT2S1 19 4 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT1S2 21 3 sblock5198 CATATACATACACACATACACA #rat_gr308147_libT2S1 22 3 sblock5198 TATACATACACACATACAC #rat_gr791405_libT3S2 19 3 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT3S2 20 3 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT3S2 24 2 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT5S2 24 2 sblock5198 TATACATACACACATACACA #rat_gr791406_libT2S1 20 2 sblock5198 TATACATACACACATACAC #rat_gr791405_libT2S2 19 2 sblock5198 CATATACATACACACATACAC #rat_gr308146_libT1S2 21 2 sblock5198 CATATACATACACACATACAC #rat_gr308146_libT2S1 21 2 sblock5198 CATATACATACACACATACAC #rat_gr308146_libT2S2 21 2 sblock5198 AATATACATATACATACACAC #rat_gr59167_libT2S2 21 2 sblock5198 ACACATACACATACACACAAGC #rat_gr73164_libT3S1 22 1 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT1S1 24 1 sblock5198 ATATACATACACACATACACATAC #rat_gr211320_libT1S2 24 1 sblock5198 TACATACACACATACACAT #rat_gr745065_libT1S1 19 1 sblock5198 TACATACACACATACACAT #rat_gr745065_libT2S1 19 1 sblock5198 TACATACACACATACACAT #rat_gr745065_libT2S2 19 1 sblock5198 ATATACATACACACATACACAT #rat_gr211319_libT1S1 22 1 sblock5198 ATATACATACACACATACACAT #rat_gr211319_libT1S2 22 1 sblock5198 TATACATACACACATACACA #rat_gr791406_libT2S2 20 1 sblock5198 TATACATACACACATACACA #rat_gr791406_libT3S1 20 1 sblock5198 ATATACATACACACATACACA #rat_gr211297_libT5S2 21 1 sblock5198 CATATACATACACACATACACA #rat_gr308147_libT2S2 22 1 sblock5198 CATATACATACACACATACACA #rat_gr308147_libT3S1 22 1 sblock5198 TATACATACACACATACAC #rat_gr791405_libT1S1 19 1 sblock5198 TATACATACACACATACAC #rat_gr791405_libT3S1 19 1 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT1S2 20 1 sblock5198 ATATACATACACACATACAC #rat_gr211296_libT5S2 20 1 sblock5198 CATATACATACACACATACAC #rat_gr308146_libT1S1 21 1 sblock5198 CATATACATACACACATACAC #rat_gr308146_libT3S2 21 1 sblock5198 CATATACATACACACATACAC #rat_gr308146_libT4S2 21 1 sblock5198 ACATATACATACACACATACAC #rat_gr83157_libT3S1 22 1 sblock5198 CATATACATACACACATAC #rat_gr308144_libT2S2 19 1 sblock5198 CATATACATACACACATAC #rat_gr308144_libT3S2 19 1 sblock5198 TGAATATACATATACATACAC #rat_gr929331_libT2S2 21 1 sblock5198 TGTGTATATGTCCATGTGTGT #rat_gr1088058_libT2S1 21 3 sblock5198 TGTGTATATGTCCATGTGTGT #rat_gr1088058_libT5S2 21 3 sblock5198 TGTATATGTCCATGTGTGTAT #rat_gr1076771_libT2S1 21 2 sblock5198 TGTGTATATGTCCATGTGTGT #rat_gr1088058_libT2S2 21 2 sblock5198 GTGTATATGTCCATGTGTGTAT #rat_gr653329_libT2S1 22 1 sblock5198 GTGTATATGTCCATGTGTGTA #rat_gr653328_libT2S2 21 1 sblock5198 TGTGTATATGTCCATGTGTGTA #rat_gr1088059_libT2S1 22 1 sblock5198 TGTGTATATGTCCATGTGTGTA #rat_gr1088059_libT3S1 22 1 sblock5198 GTGTATATGTCCATGTGTGT #rat_gr653327_libT2S2 20 1 sblock5198 GTGTATATGTCCATGTGTGT #rat_gr653327_libT3S1 20 1 sblock5198 TGTGTATATGTCCATGTGTGT #rat_gr1088058_libT1S2 21 1 sblock5198 TGTGTATATGTCCATGTGTGT #rat_gr1088058_libT3S2 21 1 sblock5198 TGTGTATATGTCCATGTGTG #rat_gr1088057_libT2S2 20 1 sblock5198 TGTGTATATGTCCATGTGT #rat_gr1088055_libT2S2 19 1 sblock5198 tgtgatgccccgtctatgtgcatatgtgtgtatgtctgtgtatatgtccatgtgtgtatatgaatatacATATACATACACACATACACAtacacacaagcacacac *********************************************************************************************************** sblock5198 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5198 ...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063055 ENSRNOG00000041302 sblock5198 ((((.(((...((.((((((..(((((((((((((.(((((((((...(((((....))))).))))))))).))))))))))))))))))).))....))))))). 0.980 -43.30 # #sblock5198 chromosome:17:79251055:79251161:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063055|ENSRNOG00000041302 ## ENSRNOG00000041302|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 10 37 0 class=trf,dust 79251103 79251126 0 class=dust,RMER12 836 850 -1 class=LTR/ERVK,trf 1 31 0 class=trf,trf 192 215 0 class=trf,dust 79251061 79251102 0 class=dust,(CA)n 1 46 -1 class=Simple_repeat,trf 12 49 0 class=trf,RMER12 785 808 1 class=LTR/ERVK,(TG)n 2 47 -1 class=Simple_repeat,RMER12 794 835 -1 class=LTR/ERVK,RMER12 809 850 1 class=LTR/ERVK,trf 150 191 0 class=trf} ========== sblock5199 (miRNA) [miRNAunknown_rep_cloningHIGH_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock5199: 0.001 #forester #identity: 0.00 sblock5199 ACAAGCACACATACACAC #rat_gr69518_libT3S2 18 1 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT2S1 22 104 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT2S2 22 87 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT2S1 24 51 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT2S2 24 43 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT2S2 20 37 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT2S1 21 36 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT3S1 22 31 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT2S1 20 29 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT3S1 24 27 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT2S2 21 20 sblock5199 TATACATACACACATACACAC #rat_gr791410_libT2S1 21 18 sblock5199 TATACATACACACATACACAC #rat_gr791410_libT2S2 21 18 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT3S2 22 16 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT1S1 22 14 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT3S2 24 12 sblock5199 ATATACATACACACATACACACA #rat_gr211303_libT2S2 23 10 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT3S1 21 10 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT3S2 21 10 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT1S2 22 9 sblock5199 ATATACATACACACATACACACA #rat_gr211303_libT2S1 23 8 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT5S2 22 7 sblock5199 TATACATACACACATACACACAC #rat_gr791412_libT2S1 23 6 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT5S1 22 6 sblock5199 CATATACATACACACATACACAC #rat_gr308149_libT2S1 23 6 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT3S1 20 6 sblock5199 CATATACATACACACATACACAC #rat_gr308149_libT2S2 23 5 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT1S1 20 5 sblock5199 TACATACACACATACACACACAC #rat_gr744957_libT2S1 23 4 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT5S1 24 4 sblock5199 ATATACATACACACATACACACA #rat_gr211303_libT3S1 23 4 sblock5199 TATACATACACACATACACAC #rat_gr791410_libT1S1 21 4 sblock5199 TATACATACACACATACACAC #rat_gr791410_libT3S2 21 4 sblock5199 CATATACATACACACATACACAC #rat_gr308149_libT3S1 23 4 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT1S1 21 4 sblock5199 TATACATACACACATACAC #rat_gr791405_libT2S1 19 4 sblock5199 TACATACACACATACACACACAC #rat_gr744957_libT2S2 23 3 sblock5199 TACATACACACATACACACACAC #rat_gr744957_libT3S1 23 3 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT1S1 24 3 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT1S2 24 3 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT4S2 24 3 sblock5199 TATACATACACACATACACAC #rat_gr791410_libT3S1 21 3 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT1S2 21 3 sblock5199 CATATACATACACACATACACA #rat_gr308147_libT2S1 22 3 sblock5199 TATACATACACACATACAC #rat_gr791405_libT3S2 19 3 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT3S2 20 3 sblock5199 TATACATACACACATACACACAC #rat_gr791412_libT2S2 23 2 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT4S2 22 2 sblock5199 CATATACATACACACATACACAC #rat_gr308149_libT1S1 23 2 sblock5199 CATATACATACACACATACACAC #rat_gr308149_libT5S2 23 2 sblock5199 TATACATACACACATACACA #rat_gr791406_libT2S1 20 2 sblock5199 TATACATACACACATACAC #rat_gr791405_libT2S2 19 2 sblock5199 CATATACATACACACATACAC #rat_gr308146_libT1S2 21 2 sblock5199 CATATACATACACACATACAC #rat_gr308146_libT2S1 21 2 sblock5199 CATATACATACACACATACAC #rat_gr308146_libT2S2 21 2 sblock5199 ATATACATACACACATACACACACA #rat_gr211306_libT2S1 25 1 sblock5199 ATATACATACACACATACACACACA #rat_gr211306_libT3S1 25 1 sblock5199 TATACATACACACATACACACAC #rat_gr791412_libT3S1 23 1 sblock5199 ATATACATACACACATACACACAC #rat_gr211305_libT5S2 24 1 sblock5199 TATACATACACACATACACACA #rat_gr791411_libT4S1 22 1 sblock5199 ATATACATACACACATACACACA #rat_gr211303_libT1S1 23 1 sblock5199 ATATACATACACACATACACACA #rat_gr211303_libT5S1 23 1 sblock5199 TATACATACACACATACACAC #rat_gr791410_libT1S2 21 1 sblock5199 ATATACATACACACATACACAC #rat_gr211302_libT4S1 22 1 sblock5199 CATATACATACACACATACACAC #rat_gr308149_libT5S1 23 1 sblock5199 TATACATACACACATACACA #rat_gr791406_libT2S2 20 1 sblock5199 TATACATACACACATACACA #rat_gr791406_libT3S1 20 1 sblock5199 ATATACATACACACATACACA #rat_gr211297_libT5S2 21 1 sblock5199 CATATACATACACACATACACA #rat_gr308147_libT2S2 22 1 sblock5199 CATATACATACACACATACACA #rat_gr308147_libT3S1 22 1 sblock5199 TATACATACACACATACAC #rat_gr791405_libT1S1 19 1 sblock5199 TATACATACACACATACAC #rat_gr791405_libT3S1 19 1 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT1S2 20 1 sblock5199 ATATACATACACACATACAC #rat_gr211296_libT5S2 20 1 sblock5199 CATATACATACACACATACAC #rat_gr308146_libT1S1 21 1 sblock5199 CATATACATACACACATACAC #rat_gr308146_libT3S2 21 1 sblock5199 CATATACATACACACATACAC #rat_gr308146_libT4S2 21 1 sblock5199 ACATATACATACACACATACAC #rat_gr83157_libT3S1 22 1 sblock5199 CATATACATACACACATAC #rat_gr308144_libT2S2 19 1 sblock5199 CATATACATACACACATAC #rat_gr308144_libT3S2 19 1 sblock5199 ATGTATGTCTGTATGTACA #rat_gr236533_libT1S1 19 1 sblock5199 ttcctgtgatgcacctatatatgtgcttgtgtgtatgtatgtctgtatgtacatgtaagtatatgaataaacATATACATACACACATACACACACacaagcacacatacacacgga ********************************************************************************************************************* sblock5199 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5199 ......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..... #ENSRNOT00000063115 ENSRNOG00000041362 sblock5199 .((((((((((..........(((((((((((((.(((((((.((((((((.((((...(((....))).)))).)))))))).))))))).)))))))))))))))).)))).))) 0.980 -50.10 # #sblock5199 chromosome:17:79251448:79251564:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063115|ENSRNOG00000041362 ## ENSRNOG00000041362|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: RMER12 827 851 1 class=LTR/ERVK,RMER12 791 810 1 class=LTR/ERVK,dust 79251467 79251494 0 class=dust,RMER12 -471 851 1 class=LTR,dust 79251451 79251469 0 class=dust,trf 540 558 0 class=trf,trf 601 620 0 class=trf,trf 556 584 0 class=trf} ========== sblock5200 (miRNA) [miRNAunknown_cloningHIGH_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock5200: 0.001 #forester #identity: 0.00 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT2S1 24 10 sblock5200 ATATACATACACACATAAACAC #rat_gr211274_libT3S2 22 6 sblock5200 TACATACACACATAAACACAC #rat_gr744904_libT3S1 21 5 sblock5200 TACATACACACATAAACACAC #rat_gr744904_libT2S1 21 3 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT2S2 24 3 sblock5200 ATATACATACACACATAAACAC #rat_gr211274_libT2S1 22 3 sblock5200 ATATACATACACACATAAACAC #rat_gr211274_libT2S2 22 3 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT5S1 24 2 sblock5200 TATACATACACACATAAACAC #rat_gr791394_libT2S1 21 2 sblock5200 TATACATACACACATAAACAC #rat_gr791394_libT2S2 21 2 sblock5200 ATATACATACACACATAAACAC #rat_gr211274_libT3S1 22 2 sblock5200 ATATACATACACACATAAAC #rat_gr211272_libT2S2 20 2 sblock5200 ACACACATAAACACACATG #rat_gr71954_libT5S2 19 1 sblock5200 ACACACATAAACACACAT #rat_gr71938_libT4S1 18 1 sblock5200 ATACACACATAAACACAC #rat_gr206725_libT2S1 18 1 sblock5200 ACATACACACATAAACACAC #rat_gr82732_libT2S2 20 1 sblock5200 TACATACACACATAAACACAC #rat_gr744904_libT4S2 21 1 sblock5200 ATACATACACACATAAACACAC #rat_gr207845_libT2S2 22 1 sblock5200 TATACATACACACATAAACACAC #rat_gr791395_libT2S2 23 1 sblock5200 TATACATACACACATAAACACAC #rat_gr791395_libT3S2 23 1 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT1S1 24 1 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT3S1 24 1 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT3S2 24 1 sblock5200 ATATACATACACACATAAACACAC #rat_gr211275_libT4S2 24 1 sblock5200 TACATACACACATAAACAC #rat_gr744903_libT2S1 19 1 sblock5200 TACATACACACATAAACAC #rat_gr744903_libT5S2 19 1 sblock5200 ATATACATACACACATAAACAC #rat_gr211274_libT1S1 22 1 sblock5200 ATATACATACACACATAAACAC #rat_gr211274_libT1S2 22 1 sblock5200 CATATACATACACACATAAACAC #rat_gr308140_libT3S1 23 1 sblock5200 ATATACATACACACATAAACA #rat_gr211273_libT1S1 21 1 sblock5200 ATATACATACACACATAAACA #rat_gr211273_libT3S2 21 1 sblock5200 ATGTATGTGTGTATGTACATGT #rat_gr236571_libT2S1 22 1 sblock5200 ATGTATGTGTGTATGTACATGT #rat_gr236571_libT2S2 22 1 sblock5200 atgcccctattcatgtgcatgcgtgtatatgtatgtgtgtatgtacatgtgtgtatatgcataaacATATACATACACACATAAACACACatgctgcacacacacacgaatggtaagcat ************************************************************************************************************************ sblock5200 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5200 ........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................. #ENSRNOT00000062215 ENSRNOG00000040462 sblock5200 ((((..((((((.((((..((.(((((...((((((((((((((...((((((((((((......)))))))))))).))))..))))))))))))))).)))))).))))))...)))) 1.000 -48.50 # #sblock5200 chromosome:17:79259043:79259162:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000062215|ENSRNOG00000040462 ## ENSRNOG00000040462|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79259070 79259098 0 class=dust,trf 13 35 0 class=trf,trf 313 341 0 class=trf,(CATATA)n 18 40 -1 class=Simple_repeat,dust 79259113 79259135 0 class=dust,trf 356 378 0 class=trf,(TG)n 2 79 -1 class=Simple_repeat,(CATATA)n 3 44 -1 class=Simple_repeat,(TG)n 51 79 -1 class=Simple_repeat} ========== sblock5201 (miRNA) [miRNAunknown_lenNOK_cloningHIGH_multiarm_DicerNOK_loopOverlap_randfoldOK] ========== #randfold sblock5201: 0.001 #forester #identity: 0.00 sblock5201 TACACACACACAGGCACG #rat_gr740821_libT2S2 18 1 sblock5201 TACATACACACATACACACACAC #rat_gr744957_libT2S1 23 4 sblock5201 TACATACACACATACACACACAC #rat_gr744957_libT2S2 23 3 sblock5201 TACATACACACATACACACACAC #rat_gr744957_libT3S1 23 3 sblock5201 ATTTACATACACACATACACAC #rat_gr246357_libT2S2 22 3 sblock5201 ATTTACATACACACATACACAC #rat_gr246357_libT4S1 22 1 sblock5201 ATTTACATACACACATACACAC #rat_gr246357_libT5S2 22 1 sblock5201 TTTACATACACACATACAC #rat_gr1155141_libT1S2 19 1 sblock5201 ATTTACATACACACATACAC #rat_gr246356_libT3S1 20 1 sblock5201 CATTTACATACACACATAC #rat_gr317829_libT2S2 19 1 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT3S1 19 8 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT2S2 24 7 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT2S2 19 6 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT4S2 19 6 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT2S1 24 5 sblock5201 TGTGATGTGTTTATGTACATGTG #rat_gr1084431_libT2S1 23 5 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT2S1 19 5 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT3S2 24 4 sblock5201 TGTGATGTGTTTATGTACATG #rat_gr1084429_libT3S2 21 4 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT4S2 24 3 sblock5201 TGTGATGTGTTTATGTACATGTG #rat_gr1084431_libT4S1 23 3 sblock5201 TGTGATGTGTTTATGTACATGT #rat_gr1084430_libT1S2 22 3 sblock5201 TGTGATGTGTTTATGTAC #rat_gr1084426_libT2S2 18 3 sblock5201 TGTGATGTGTTTATGTAC #rat_gr1084426_libT3S2 18 3 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT1S2 24 2 sblock5201 TGTGATGTGTTTATGTACATGTG #rat_gr1084431_libT2S2 23 2 sblock5201 TGTGATGTGTTTATGTACATGTG #rat_gr1084431_libT3S1 23 2 sblock5201 TGTGATGTGTTTATGTACATGT #rat_gr1084430_libT3S1 22 2 sblock5201 TGTGATGTGTTTATGTACATG #rat_gr1084429_libT3S1 21 2 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT1S2 19 2 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT3S2 19 2 sblock5201 TGTGATGTGTTTATGTAC #rat_gr1084426_libT3S1 18 2 sblock5201 TGTGATGTGTTTATGTAC #rat_gr1084426_libT5S1 18 2 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT1S1 24 1 sblock5201 TGTGATGTGTTTATGTACATGTGT #rat_gr1084432_libT3S1 24 1 sblock5201 TGTGATGTGTTTATGTACATGTG #rat_gr1084431_libT3S2 23 1 sblock5201 TGTGATGTGTTTATGTACATGT #rat_gr1084430_libT3S2 22 1 sblock5201 TGTGATGTGTTTATGTACATG #rat_gr1084429_libT2S1 21 1 sblock5201 TGTGATGTGTTTATGTACAT #rat_gr1084428_libT3S1 20 1 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT1S1 19 1 sblock5201 TGTGATGTGTTTATGTACA #rat_gr1084427_libT5S2 19 1 sblock5201 ATGTGATGTGTTTATGTACA #rat_gr237645_libT4S1 20 1 sblock5201 TGTGATGTGTTTATGTAC #rat_gr1084426_libT2S1 18 1 sblock5201 TGTGATGTGTTTATGTAC #rat_gr1084426_libT4S2 18 1 sblock5201 ATGTGCATGTGTGTATGTGAT #rat_gr237723_libT2S2 21 2 sblock5201 ggttcatgtgatgcccctgtatatgtgcatgtgtgtaTGTGATGTGTTTATGTACATGTGTgtatatgaagaaacATTTACATACACACATACACACACACaggcacgcacgcacacaca ************************************************************************************************************************ sblock5201 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5201 ................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................... #ENSRNOT00000062935 ENSRNOG00000041182 sblock5201 .((...((((.(((.(((((...((((.(((((((((((((((((.((((((((((....))))))))))...))))).)))))))))))).))))...)))))...)))))))...)). 0.980 -48.20 # #sblock5201 chromosome:17:79262987:79263106:-1 Same_strand|Exonic_non-coding|ENSRNOT00000062935|ENSRNOG00000041182 ## Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## ENSRNOG00000041182|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 224 245 0 class=trf,trf 159 177 0 class=trf,trf 206 231 0 class=trf,(TG)n 37 58 -1 class=Simple_repeat,(CA)n 1 46 -1 class=Simple_repeat,dust 79262999 79263017 0 class=dust,(CATA)n 25 46 -1 class=Simple_repeat,dust 79263046 79263071 0 class=dust,(TG)n 2 58 -1 class=Simple_repeat,dust 79263064 79263085 0 class=dust,trf 29 47 0 class=trf,trf 166 193 0 class=trf,trf 5 30 0 class=trf,dust 79263006 79263023 0 class=dust,(CATA)n 7 32 -1 class=Simple_repeat,(TG)n 30 48 -1 class=Simple_repeat,trf 23 44 0 class=trf,trf 36 57 0 class=trf} ========== sblock5202 (miRNA) [miRNAunknown_cloningHIGH_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK] ========== #randfold sblock5202: 0.001 #forester #identity: 0.00 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT2S1 22 104 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT2S2 22 87 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT2S1 24 51 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT2S2 24 43 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT2S2 20 37 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT2S1 21 36 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT3S1 22 31 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT2S1 20 29 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT3S1 24 27 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT2S2 21 20 sblock5202 TATACATACACACATACACAC #rat_gr791410_libT2S1 21 18 sblock5202 TATACATACACACATACACAC #rat_gr791410_libT2S2 21 18 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT3S2 22 16 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT1S1 22 14 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT3S2 24 12 sblock5202 ATATACATACACACATACACACA #rat_gr211303_libT2S2 23 10 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT3S1 21 10 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT3S2 21 10 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT1S2 22 9 sblock5202 ATATACATACACACATACACACA #rat_gr211303_libT2S1 23 8 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT5S2 22 7 sblock5202 TATACATACACACATACACACAC #rat_gr791412_libT2S1 23 6 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT5S1 22 6 sblock5202 CATATACATACACACATACACAC #rat_gr308149_libT2S1 23 6 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT3S1 20 6 sblock5202 CATATACATACACACATACACAC #rat_gr308149_libT2S2 23 5 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT1S1 20 5 sblock5202 TACATACACACATACACACACAC #rat_gr744957_libT2S1 23 4 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT5S1 24 4 sblock5202 ATATACATACACACATACACACA #rat_gr211303_libT3S1 23 4 sblock5202 TATACATACACACATACACAC #rat_gr791410_libT1S1 21 4 sblock5202 TATACATACACACATACACAC #rat_gr791410_libT3S2 21 4 sblock5202 CATATACATACACACATACACAC #rat_gr308149_libT3S1 23 4 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT1S1 21 4 sblock5202 TATACATACACACATACAC #rat_gr791405_libT2S1 19 4 sblock5202 TACATACACACATACACACACAC #rat_gr744957_libT2S2 23 3 sblock5202 TACATACACACATACACACACAC #rat_gr744957_libT3S1 23 3 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT1S1 24 3 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT1S2 24 3 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT4S2 24 3 sblock5202 TATACATACACACATACACAC #rat_gr791410_libT3S1 21 3 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT1S2 21 3 sblock5202 CATATACATACACACATACACA #rat_gr308147_libT2S1 22 3 sblock5202 TATACATACACACATACAC #rat_gr791405_libT3S2 19 3 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT3S2 20 3 sblock5202 TATACATACACACATACACACAC #rat_gr791412_libT2S2 23 2 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT4S2 22 2 sblock5202 CATATACATACACACATACACAC #rat_gr308149_libT1S1 23 2 sblock5202 CATATACATACACACATACACAC #rat_gr308149_libT5S2 23 2 sblock5202 TATACATACACACATACACA #rat_gr791406_libT2S1 20 2 sblock5202 TATACATACACACATACAC #rat_gr791405_libT2S2 19 2 sblock5202 CATATACATACACACATACAC #rat_gr308146_libT1S2 21 2 sblock5202 CATATACATACACACATACAC #rat_gr308146_libT2S1 21 2 sblock5202 CATATACATACACACATACAC #rat_gr308146_libT2S2 21 2 sblock5202 TACATACACACATACACACACACAC #rat_gr744958_libT2S1 25 1 sblock5202 ATATACATACACACATACACACACA #rat_gr211306_libT2S1 25 1 sblock5202 ATATACATACACACATACACACACA #rat_gr211306_libT3S1 25 1 sblock5202 TATACATACACACATACACACAC #rat_gr791412_libT3S1 23 1 sblock5202 ATATACATACACACATACACACAC #rat_gr211305_libT5S2 24 1 sblock5202 TATACATACACACATACACACA #rat_gr791411_libT4S1 22 1 sblock5202 ATATACATACACACATACACACA #rat_gr211303_libT1S1 23 1 sblock5202 ATATACATACACACATACACACA #rat_gr211303_libT5S1 23 1 sblock5202 TATACATACACACATACACAC #rat_gr791410_libT1S2 21 1 sblock5202 ATATACATACACACATACACAC #rat_gr211302_libT4S1 22 1 sblock5202 CATATACATACACACATACACAC #rat_gr308149_libT5S1 23 1 sblock5202 TATACATACACACATACACA #rat_gr791406_libT2S2 20 1 sblock5202 TATACATACACACATACACA #rat_gr791406_libT3S1 20 1 sblock5202 ATATACATACACACATACACA #rat_gr211297_libT5S2 21 1 sblock5202 CATATACATACACACATACACA #rat_gr308147_libT2S2 22 1 sblock5202 CATATACATACACACATACACA #rat_gr308147_libT3S1 22 1 sblock5202 TATACATACACACATACAC #rat_gr791405_libT1S1 19 1 sblock5202 TATACATACACACATACAC #rat_gr791405_libT3S1 19 1 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT1S2 20 1 sblock5202 ATATACATACACACATACAC #rat_gr211296_libT5S2 20 1 sblock5202 CATATACATACACACATACAC #rat_gr308146_libT1S1 21 1 sblock5202 CATATACATACACACATACAC #rat_gr308146_libT3S2 21 1 sblock5202 CATATACATACACACATACAC #rat_gr308146_libT4S2 21 1 sblock5202 CATATACATACACACATAC #rat_gr308144_libT2S2 19 1 sblock5202 CATATACATACACACATAC #rat_gr308144_libT3S2 19 1 sblock5202 AAGCATATACATACACACATAC #rat_gr45411_libT2S1 22 1 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT2S1 24 124 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT2S2 22 89 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT2S1 22 86 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT3S1 22 75 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT2S1 18 75 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT2S2 24 68 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT2S2 18 65 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT3S2 22 55 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT3S1 18 49 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT3S1 24 46 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT2S1 23 33 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT2S1 23 31 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT3S2 24 29 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT2S1 21 24 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT2S2 23 22 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT2S2 23 21 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT3S1 21 21 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT3S1 23 19 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT4S2 24 17 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT3S2 23 17 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT4S2 22 17 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT2S1 19 17 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT1S1 24 16 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT3S2 18 16 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT3S1 23 15 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT2S2 21 15 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT5S2 22 14 sblock5202 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT2S1 20 13 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT3S2 23 12 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT3S2 21 12 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT4S1 24 10 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT4S1 22 10 sblock5202 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT2S2 20 10 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT2S2 19 10 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT1S1 22 9 sblock5202 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT3S1 20 9 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT5S1 24 8 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT5S1 22 8 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT4S2 23 7 sblock5202 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT3S2 20 7 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT3S1 19 7 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT4S1 18 7 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT5S1 18 7 sblock5202 ATGTGATGTGTGTATGTAC #rat_gr237625_libT2S2 19 7 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT1S2 23 6 sblock5202 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT1S2 22 6 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT5S1 21 6 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT1S2 18 6 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT1S2 24 5 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT1S1 21 5 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT4S2 21 5 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT3S2 19 5 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT4S1 19 5 sblock5202 ATGTGATGTGTGTATGTACA #rat_gr237626_libT2S2 20 5 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT4S2 18 5 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT5S2 18 5 sblock5202 ATGTGATGTGTGTATGTAC #rat_gr237625_libT2S1 19 5 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT1S1 23 4 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT4S2 23 4 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT5S2 21 4 sblock5202 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT3S2 22 4 sblock5202 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT2S1 21 4 sblock5202 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT2S2 21 4 sblock5202 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT5S2 24 3 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT5S1 23 3 sblock5202 ATGTGATGTGTGTATGTACATGTG #rat_gr237632_libT2S1 24 3 sblock5202 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT1S1 20 3 sblock5202 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT5S1 20 3 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT1S1 19 3 sblock5202 ATGTGATGTGTGTATGTACA #rat_gr237626_libT3S1 20 3 sblock5202 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT2S2 23 2 sblock5202 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT3S1 23 2 sblock5202 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT4S1 23 2 sblock5202 GTGATGTGTGTATGTACATGT #rat_gr645652_libT2S2 21 2 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT1S2 23 2 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT4S1 23 2 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT5S1 23 2 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT1S2 21 2 sblock5202 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT4S1 21 2 sblock5202 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT2S1 22 2 sblock5202 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT3S1 22 2 sblock5202 ATGTGATGTGTGTATGTACA #rat_gr237626_libT2S1 20 2 sblock5202 ATGTGATGTGTGTATGTA #rat_gr237624_libT3S1 18 2 sblock5202 ATGTGCATGTGTGTATGTGAT #rat_gr237723_libT2S2 21 2 sblock5202 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT2S1 25 1 sblock5202 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT2S2 25 1 sblock5202 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT3S1 25 1 sblock5202 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT4S1 25 1 sblock5202 GATGTGTGTATGTACATGTGT #rat_gr523537_libT3S1 21 1 sblock5202 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT2S1 23 1 sblock5202 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT5S1 23 1 sblock5202 ATGTGATGTGTGTATGTACATGTGT #rat_gr237633_libT3S1 25 1 sblock5202 ATGTGATGTGTGTATGTACATGTG #rat_gr237632_libT3S1 24 1 sblock5202 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT1S1 23 1 sblock5202 GTGATGTGTGTATGTACATG #rat_gr645651_libT2S2 20 1 sblock5202 GTGATGTGTGTATGTACATG #rat_gr645651_libT3S2 20 1 sblock5202 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT2S2 22 1 sblock5202 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT4S1 22 1 sblock5202 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT4S2 22 1 sblock5202 GTGATGTGTGTATGTACAT #rat_gr645650_libT2S1 19 1 sblock5202 GTGATGTGTGTATGTACAT #rat_gr645650_libT3S1 19 1 sblock5202 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT1S2 21 1 sblock5202 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT3S2 21 1 sblock5202 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT5S1 21 1 sblock5202 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT5S2 21 1 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT1S2 19 1 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT5S1 19 1 sblock5202 TGTGATGTGTGTATGTACA #rat_gr1084335_libT5S2 19 1 sblock5202 TATGTGATGTGTGTATGTACA #rat_gr798183_libT3S1 21 1 sblock5202 TGTGATGTGTGTATGTAC #rat_gr1084334_libT1S1 18 1 sblock5202 ATGTGATGTGTGTATGTAC #rat_gr237625_libT3S2 19 1 sblock5202 TATGTGATGTGTGTATGTAC #rat_gr798182_libT3S2 20 1 sblock5202 ATGTGATGTGTGTATGTA #rat_gr237624_libT4S1 18 1 sblock5202 TGTGTATGTGATGTGTGTATGT #rat_gr1088116_libT2S2 22 1 sblock5202 tgtgtgatgcccctgtgtatgtgcatgtgtgtaTGTGATGTGTGTATGTACATGTGTgtatatgaagaagcATATACATACACACATACACACACacacaggcatacacacac ***************************************************************************************************************** sblock5202 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5202 ..............................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> #ENSRNOT00000063011 ENSRNOG00000041258 sblock5202 (((((((((((..(((((.((((.((((((((((((.((((((.((((((((....)))))))).....)))))))))))))))))).)))).)))))..))))).)))))). 1.000 -58.00 # #sblock5202 chromosome:17:79268723:79268835:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000063011|ENSRNOG00000041258 ## ENSRNOG00000041258|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79268737 79268760 0 class=dust,trf 32 55 0 class=trf,trf 218 250 0 class=trf,(TG)n 1 60 -1 class=Simple_repeat,trf 4 44 0 class=trf,(CA)n 6 46 -1 class=Simple_repeat,dust 79268778 79268818 0 class=dust,(TG)n 32 60 -1 class=Simple_repeat,(CA)n 1 50 -1 class=Simple_repeat,trf 259 299 0 class=trf} ========== sblock5206 (miRNA) [miRNAunknown_cloningHIGH_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK] ========== #randfold sblock5206: 0.001 #forester #identity: 0.00 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT2S1 22 104 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT2S2 22 87 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT2S1 24 51 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT2S2 24 43 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT2S2 20 37 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT2S1 21 36 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT3S1 22 31 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT2S1 20 29 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT3S1 24 27 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT2S2 21 20 sblock5206 TATACATACACACATACACAC #rat_gr791410_libT2S1 21 18 sblock5206 TATACATACACACATACACAC #rat_gr791410_libT2S2 21 18 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT3S2 22 16 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT1S1 22 14 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT3S2 24 12 sblock5206 ATATACATACACACATACACACA #rat_gr211303_libT2S2 23 10 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT3S1 21 10 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT3S2 21 10 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT1S2 22 9 sblock5206 ATATACATACACACATACACACA #rat_gr211303_libT2S1 23 8 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT5S2 22 7 sblock5206 TATACATACACACATACACACAC #rat_gr791412_libT2S1 23 6 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT5S1 22 6 sblock5206 CATATACATACACACATACACAC #rat_gr308149_libT2S1 23 6 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT3S1 20 6 sblock5206 CATATACATACACACATACACAC #rat_gr308149_libT2S2 23 5 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT1S1 20 5 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT5S1 24 4 sblock5206 ATATACATACACACATACACACA #rat_gr211303_libT3S1 23 4 sblock5206 TATACATACACACATACACAC #rat_gr791410_libT1S1 21 4 sblock5206 TATACATACACACATACACAC #rat_gr791410_libT3S2 21 4 sblock5206 CATATACATACACACATACACAC #rat_gr308149_libT3S1 23 4 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT1S1 21 4 sblock5206 TATACATACACACATACAC #rat_gr791405_libT2S1 19 4 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT1S1 24 3 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT1S2 24 3 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT4S2 24 3 sblock5206 TATACATACACACATACACAC #rat_gr791410_libT3S1 21 3 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT1S2 21 3 sblock5206 CATATACATACACACATACACA #rat_gr308147_libT2S1 22 3 sblock5206 TATACATACACACATACAC #rat_gr791405_libT3S2 19 3 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT3S2 20 3 sblock5206 TATACATACACACATACACACAC #rat_gr791412_libT2S2 23 2 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT4S2 22 2 sblock5206 CATATACATACACACATACACAC #rat_gr308149_libT1S1 23 2 sblock5206 CATATACATACACACATACACAC #rat_gr308149_libT5S2 23 2 sblock5206 TATACATACACACATACACA #rat_gr791406_libT2S1 20 2 sblock5206 TATACATACACACATACAC #rat_gr791405_libT2S2 19 2 sblock5206 CATATACATACACACATACAC #rat_gr308146_libT1S2 21 2 sblock5206 CATATACATACACACATACAC #rat_gr308146_libT2S1 21 2 sblock5206 CATATACATACACACATACAC #rat_gr308146_libT2S2 21 2 sblock5206 ATATACATACACACATACACACACA #rat_gr211306_libT2S1 25 1 sblock5206 ATATACATACACACATACACACACA #rat_gr211306_libT3S1 25 1 sblock5206 TATACATACACACATACACACAC #rat_gr791412_libT3S1 23 1 sblock5206 ATATACATACACACATACACACAC #rat_gr211305_libT5S2 24 1 sblock5206 TATACATACACACATACACACA #rat_gr791411_libT4S1 22 1 sblock5206 ATATACATACACACATACACACA #rat_gr211303_libT1S1 23 1 sblock5206 ATATACATACACACATACACACA #rat_gr211303_libT5S1 23 1 sblock5206 TATACATACACACATACACAC #rat_gr791410_libT1S2 21 1 sblock5206 ATATACATACACACATACACAC #rat_gr211302_libT4S1 22 1 sblock5206 CATATACATACACACATACACAC #rat_gr308149_libT5S1 23 1 sblock5206 TATACATACACACATACACA #rat_gr791406_libT2S2 20 1 sblock5206 TATACATACACACATACACA #rat_gr791406_libT3S1 20 1 sblock5206 ATATACATACACACATACACA #rat_gr211297_libT5S2 21 1 sblock5206 CATATACATACACACATACACA #rat_gr308147_libT2S2 22 1 sblock5206 CATATACATACACACATACACA #rat_gr308147_libT3S1 22 1 sblock5206 TATACATACACACATACAC #rat_gr791405_libT1S1 19 1 sblock5206 TATACATACACACATACAC #rat_gr791405_libT3S1 19 1 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT1S2 20 1 sblock5206 ATATACATACACACATACAC #rat_gr211296_libT5S2 20 1 sblock5206 CATATACATACACACATACAC #rat_gr308146_libT1S1 21 1 sblock5206 CATATACATACACACATACAC #rat_gr308146_libT3S2 21 1 sblock5206 CATATACATACACACATACAC #rat_gr308146_libT4S2 21 1 sblock5206 ACATATACATACACACATACAC #rat_gr83157_libT3S1 22 1 sblock5206 CATATACATACACACATAC #rat_gr308144_libT2S2 19 1 sblock5206 CATATACATACACACATAC #rat_gr308144_libT3S2 19 1 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT2S1 24 124 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT2S2 22 89 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT2S1 22 86 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT3S1 22 75 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT2S1 18 75 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT2S2 24 68 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT2S2 18 65 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT3S2 22 55 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT3S1 18 49 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT3S1 24 46 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT2S1 23 33 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT2S1 23 31 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT3S2 24 29 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT2S1 21 24 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT2S2 23 22 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT2S2 23 21 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT3S1 21 21 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT3S1 23 19 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT4S2 24 17 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT3S2 23 17 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT4S2 22 17 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT2S1 19 17 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT1S1 24 16 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT3S2 18 16 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT3S1 23 15 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT2S2 21 15 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT5S2 22 14 sblock5206 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT2S1 20 13 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT3S2 23 12 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT3S2 21 12 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT4S1 24 10 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT4S1 22 10 sblock5206 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT2S2 20 10 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT2S2 19 10 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT1S1 22 9 sblock5206 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT3S1 20 9 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT5S1 24 8 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT5S1 22 8 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT4S2 23 7 sblock5206 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT3S2 20 7 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT3S1 19 7 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT4S1 18 7 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT5S1 18 7 sblock5206 ATGTGATGTGTGTATGTAC #rat_gr237625_libT2S2 19 7 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT1S2 23 6 sblock5206 TGTGATGTGTGTATGTACATGT #rat_gr1084345_libT1S2 22 6 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT5S1 21 6 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT1S2 18 6 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT1S2 24 5 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT1S1 21 5 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT4S2 21 5 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT3S2 19 5 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT4S1 19 5 sblock5206 ATGTGATGTGTGTATGTACA #rat_gr237626_libT2S2 20 5 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT4S2 18 5 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT5S2 18 5 sblock5206 ATGTGATGTGTGTATGTAC #rat_gr237625_libT2S1 19 5 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT1S1 23 4 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT4S2 23 4 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT5S2 21 4 sblock5206 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT3S2 22 4 sblock5206 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT2S1 21 4 sblock5206 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT2S2 21 4 sblock5206 TGTGATGTGTGTATGTACATGTGT #rat_gr1084347_libT5S2 24 3 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT5S1 23 3 sblock5206 ATGTGATGTGTGTATGTACATGTG #rat_gr237632_libT2S1 24 3 sblock5206 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT1S1 20 3 sblock5206 TGTGATGTGTGTATGTACAT #rat_gr1084343_libT5S1 20 3 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT1S1 19 3 sblock5206 ATGTGATGTGTGTATGTACA #rat_gr237626_libT3S1 20 3 sblock5206 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT2S2 23 2 sblock5206 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT3S1 23 2 sblock5206 TGTGATGTGTGTATGTACATGTG #rat_gr1084346_libT4S1 23 2 sblock5206 GTGATGTGTGTATGTACATGT #rat_gr645652_libT2S2 21 2 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT1S2 23 2 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT4S1 23 2 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT5S1 23 2 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT1S2 21 2 sblock5206 TGTGATGTGTGTATGTACATG #rat_gr1084344_libT4S1 21 2 sblock5206 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT2S1 22 2 sblock5206 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT3S1 22 2 sblock5206 ATGTGATGTGTGTATGTACA #rat_gr237626_libT2S1 20 2 sblock5206 ATGTGATGTGTGTATGTA #rat_gr237624_libT3S1 18 2 sblock5206 ATGTGCATGTGTGTATGTGAT #rat_gr237723_libT2S2 21 2 sblock5206 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT2S1 25 1 sblock5206 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT2S2 25 1 sblock5206 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT3S1 25 1 sblock5206 TGTGATGTGTGTATGTACATGTGTG #rat_gr1084348_libT4S1 25 1 sblock5206 GATGTGTGTATGTACATGTGT #rat_gr523537_libT3S1 21 1 sblock5206 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT2S1 23 1 sblock5206 GTGATGTGTGTATGTACATGTGT #rat_gr645653_libT5S1 23 1 sblock5206 ATGTGATGTGTGTATGTACATGTGT #rat_gr237633_libT3S1 25 1 sblock5206 ATGTGATGTGTGTATGTACATGTG #rat_gr237632_libT3S1 24 1 sblock5206 ATGTGATGTGTGTATGTACATGT #rat_gr237631_libT1S1 23 1 sblock5206 GTGATGTGTGTATGTACATG #rat_gr645651_libT2S2 20 1 sblock5206 GTGATGTGTGTATGTACATG #rat_gr645651_libT3S2 20 1 sblock5206 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT2S2 22 1 sblock5206 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT4S1 22 1 sblock5206 ATGTGATGTGTGTATGTACATG #rat_gr237630_libT4S2 22 1 sblock5206 GTGATGTGTGTATGTACAT #rat_gr645650_libT2S1 19 1 sblock5206 GTGATGTGTGTATGTACAT #rat_gr645650_libT3S1 19 1 sblock5206 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT1S2 21 1 sblock5206 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT3S2 21 1 sblock5206 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT5S1 21 1 sblock5206 ATGTGATGTGTGTATGTACAT #rat_gr237629_libT5S2 21 1 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT1S2 19 1 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT5S1 19 1 sblock5206 TGTGATGTGTGTATGTACA #rat_gr1084335_libT5S2 19 1 sblock5206 TATGTGATGTGTGTATGTACA #rat_gr798183_libT3S1 21 1 sblock5206 TGTGATGTGTGTATGTAC #rat_gr1084334_libT1S1 18 1 sblock5206 ATGTGATGTGTGTATGTAC #rat_gr237625_libT3S2 19 1 sblock5206 TATGTGATGTGTGTATGTAC #rat_gr798182_libT3S2 20 1 sblock5206 ATGTGATGTGTGTATGTA #rat_gr237624_libT4S1 18 1 sblock5206 TGTGTATGTGATGTGTGTATGT #rat_gr1088116_libT2S2 22 1 sblock5206 tggggttcatgtgatgaccttatgtatgtgcatgtgtgtaTGTGATGTGTGTATGTACATGTGTgtatatgaagaaacATATACATACACACATACACACACataggctctctctctctc ************************************************************************************************************************ sblock5206 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5206 ...................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................. #ENSRNOT00000062921 ENSRNOG00000041168 sblock5206 .((((.......((.((.(((((((.((((.((((((((((((.((((((.((((((((....)))))))).....)))))))))))))))))).)))).))))))).))))...)))). 0.700 -45.30 # #sblock5206 chromosome:17:79283713:79283832:-1 Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000062921|ENSRNOG00000041168 ## ENSRNOG00000041168|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: trf 4 44 0 class=trf,(CATATA)n 4 52 -1 class=Simple_repeat,(CATATA)n 8 48 -1 class=Simple_repeat,dust 79283768 79283808 0 class=dust} ========== sblock5207 (miRNA) [miRNAunknown_rep_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock5207: 0.001 #forester #identity: 0.00 sblock5207 ACACACACACGGACACACACAC #rat_gr71471_libT4S1 22 1 sblock5207 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT2S2 19 10 sblock5207 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT2S1 19 7 sblock5207 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT3S1 19 3 sblock5207 TGTGTATGTCCATGTGTGT #rat_gr1088102_libT4S2 19 3 sblock5207 TGTGTATGTCCATGTGTGTA #rat_gr1088103_libT2S1 20 2 sblock5207 TGTGTATGTCCATGTGTGTATAT #rat_gr1088105_libT2S1 23 1 sblock5207 TGTGTATGTCCATGTGTGTAT #rat_gr1088104_libT3S1 21 1 sblock5207 GTGTATGTCCATGTGTGTA #rat_gr653362_libT3S1 19 1 sblock5207 GTGTATGTCCATGTGTGTA #rat_gr653362_libT5S2 19 1 sblock5207 TGTGTATGTCCATGTGTGTA #rat_gr1088103_libT2S2 20 1 sblock5207 TGTGTATGTCCATGTGTG #rat_gr1088099_libT2S1 18 1 sblock5207 TGTGTATGTCCATGTGTG #rat_gr1088099_libT3S2 18 1 sblock5207 TGTGTTTGTGTATGTCCATGT #rat_gr1090307_libT2S1 21 1 sblock5207 tatgtgtgtttgtgtatatttgtgttTGTGTATGTCCATGTGTGTatatgagcatacacacacacacagacacacacacacggacacacacacacacata **************************************************************************************************** sblock5207 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5207 ...............>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>........... #ENSRNOT00000063037 ENSRNOG00000041284 sblock5207 (((((((((.(((((.....(((((.(((((.(((...(((((((((......)))))))))...))).))))).))))).....))))).))))))))) 1.000 -42.70 # #sblock5207 chromosome:17:79287182:79287281:-1 Same_strand|Exonic_non-coding|ENSRNOT00000063037|ENSRNOG00000041284 ## Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## ENSRNOG00000041284|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: (TG)n 38 60 -1 class=Simple_repeat,trf 38 60 0 class=trf,trf 1 14 0 class=trf,(TG)n 2 66 -1 class=Simple_repeat,RMER12 -471 851 1 class=LTR,dust 79287189 79287211 0 class=dust,(CA)n 2 31 -1 class=Simple_repeat} ========== sblock5210 (miRNA) [miRNAunknown_rep_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_randfoldOK] ========== #randfold sblock5210: 0.001 #forester #identity: 0.00 sblock5210 TACATACACACATATACACAC #rat_gr745221_libT2S1 21 6 sblock5210 TACATACACACATATACACAC #rat_gr745221_libT2S2 21 4 sblock5210 TACATACACACATATACACACAC #rat_gr745222_libT5S1 23 3 sblock5210 TACATACACACATATACAC #rat_gr745216_libT2S1 19 3 sblock5210 TACATACACACATATACACACAC #rat_gr745222_libT2S1 23 2 sblock5210 TACATACACACATATACAC #rat_gr745216_libT2S2 19 2 sblock5210 TACATACACACATATACAC #rat_gr745216_libT3S1 19 2 sblock5210 ATACATACACACATATACAC #rat_gr207864_libT2S2 20 2 sblock5210 ATACACACATATACACACACC #rat_gr206818_libT3S2 21 1 sblock5210 TACATACACACATATACACACAC #rat_gr745222_libT2S2 23 1 sblock5210 TACATACACACATATACACAC #rat_gr745221_libT1S2 21 1 sblock5210 TACATACACACATATACACAC #rat_gr745221_libT3S1 21 1 sblock5210 TACATACACACATATACACA #rat_gr745217_libT1S1 20 1 sblock5210 TACATACACACATATACACA #rat_gr745217_libT2S1 20 1 sblock5210 TACATACACACATATACACA #rat_gr745217_libT2S2 20 1 sblock5210 TACATACACACATATACAC #rat_gr745216_libT3S2 19 1 sblock5210 TACATACACACATATACAC #rat_gr745216_libT5S2 19 1 sblock5210 TGTCTGTGTGTATGTCCAT #rat_gr1082046_libT2S1 19 2 sblock5210 TGTCTGTGTGTATGTCCATGT #rat_gr1082052_libT2S1 21 1 sblock5210 TGTCTGTGTGTATGTCCATG #rat_gr1082048_libT2S1 20 1 sblock5210 TGTCTGTGTGTATGTCCA #rat_gr1082044_libT2S2 18 1 sblock5210 TGTCTGTGTGTATGTCCA #rat_gr1082044_libT3S1 18 1 sblock5210 ctatgtatgcgcatgtatgtataTGTCTGTGTGTATGTCCATgtttgtatatgaatacacATACATACACACATATACACACACcgaagaataga *********************************************************************************************** sblock5210 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ #ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2 sblock5210 ................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>... #ENSRNOT00000062931 ENSRNOG00000041178 sblock5210 ((((.....((..(((.(((((((((.