other hairpins
novel_lenNOK_cloningOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH (2 loci)
block997819 [novel_lenNOK_cloningOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.571 | no | no | 0.42/0.48 | 19/23/0.40 | 3.3 | 1.7 | 10 | 0 | 5 | 0 | 4 | -8 | 3arm | 2 | nd | 0.32 | 3 | 10 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | ------------------------------------------CAGCAGC------------------------- | 4 | novel | ||||
| seed | ----------------------------------------------AGCAACA--------------------- | 2 | novel | ||||
| seed | -------------------------------------------------AACAGUU------------------ | 2 | novel | ||||
| seed | -----------------------------------------UCAGCAG-------------------------- | 1 | novel | ||||
| seed | ----------------------------------------------------AGUUUCU--------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T2S2 | T3S1 | T3S2 | T5S1 | T5S2 | |||
| -----------------------------------------TCAGCAGCAACAGTTTCTCACAG---------- | 23 | - | - | 1 | 3 | - | |
| ------------------------------------------------CAACAGTTTCTCACAGGCT------- | 19 | - | 1 | - | 1 | - | |
| ---------------------------------------------CAGCAACAGTTTCTCACAG---------- | 19 | - | - | - | 1 | 1 | |
| ---------------------------------------------------CAGTTTCTCACAGGCTATC---- | 19 | 1 | - | - | - | - | |
| ----------------------------------------TTCAGCAGCAACAGTTTCT--------------- | 19 | - | - | - | 1 | - | |
| rat | cgtcatttcctgtgtgaagtatttgatccaaacagtattaTTCAGCAGCAACAGTTTCTCACAGGCTATCggac | ||||||
| ************************************************************************** | |||||||
| rat | .(((....((((((.((((...(((.......................)))...)))).))))))......))) | 0.410 -12.00 | |||||
| rat | chromosome:1:128271159:128271232:1 | intergenic |
novel_lenNOK_cloningOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH (2 loci)
block2390001 [novel_lenNOK_cloningOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.008 | no | no | 0.72/0.72 | 18/18/0.00 | 0.0 | 0.0 | 14 | 0 | 2 | 0 | 1 | -3 | 5arm_loop | 1 | nd | 0.39 | 4 | 14 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --GGGACAC---------------------------------- | 14 | novel | |
| len | cloning frequencies | |||
| T2S1 | T2S2 | |||
| -TGGGACACAGGGGCCCAC------------------------ | 18 | 9 | 5 | |
| rat | cTGGGACACAGGGGCCCACctaagaccttggccccttcttagc | |||
| ******************************************* | ||||
| rat | ((((((...(((((((.............))))))))))))). | 1.000 -17.02 | ||
| rat | chromosome:8:31566114:31566156:1 | intergenic |
block2575650 [novel_lenNOK_cloningOK_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.005 | no | no | 0.26/0.28 | 18/19/0.00 | 0.0 | 0.1 | 11 | 0 | 7 | 0 | 3 | -3 | 3arm_loop | 1 | nd | 0.37 | 4 | 11 | 7 | na | na |
| reads | miRBase family seed | ||||||||
| seed | -------------------------AACUUAC-------------- | 11 | novel | ||||||
| len | cloning frequencies | ||||||||
| T1S1 | T2S2 | T3S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| ------------------------TAACTTACTGTGATAACT---- | 18 | 1 | 1 | 2 | 1 | 1 | 1 | 3 | |
| ------------------------TAACTTACTGTGATAACTA--- | 19 | 1 | - | - | - | - | - | - | |
| rat | atcatggttttcaccatttggaaaTAACTTACTGTGATAACTAtga | ||||||||
| ********************************************** | |||||||||
| -------------------------------------------------------- | ENSRNOT00000018552 ENSRNOG00000013781 Kcnq5 | ||||||||
| -------------------------------------------------------- | ENSRNOT00000040034 ENSRNOG00000013781 Kcnq5 | ||||||||
| rat | .((((((((.((((.....((......))....)))).)))))))) | 0.990 -11.70 | |||||||
| rat | chromosome:9:20294802:20294847:1 | Opposite_strand|Intronic_coding|ENSRNOT00000018552|ENSRNOG00000013781 ## ENSRNOG00000013781|protein_coding|Kcnq5|Potassium voltage-gated channel KQT-like subfamily member 5 (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q8K3W7] |
novel_lenNOK_gcHIGH_5varHIGH (2 loci)
block53003 [novel_lenNOK_gcHIGH_5varHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.109 | no | no | 0.83/0.94 | 18/22/0.14 | 3.9 | 5.0 | 7 | 0 | 7 | 0 | 5 | 0 | 5arm | 1 | nd | 0.18 | 2 | 7 | 7 | na | na |
| reads | miRBase family seed | ||||||||
| seed | -----------CCCCUCC----------------------------------------------------- | 4 | novel | ||||||
| seed | ------------CCCUCCC---------------------------------------------------- | 1 | novel | ||||||
| seed | ------CCGCCCC---------------------------------------------------------- | 1 | novel | ||||||
| seed | -------CGCCCCC--------------------------------------------------------- | 1 | novel | ||||||
| len | cloning frequencies | ||||||||
| T1S2 | T2S1 | T2S2 | T3S1 | T4S2 | T5S1 | T5S2 | |||
| ----------CCCCCTCCCCCGGGAACCG------------------------------------------ | 19 | 1 | 1 | - | - | - | 1 | 1 | |
| ------CCGCCCCCCTCCCCCGGGAACC------------------------------------------- | 22 | - | - | 1 | - | - | - | - | |
| -----GCCGCCCCCCTCCCCCGG------------------------------------------------ | 18 | - | - | - | 1 | - | - | - | |
| -----------CCCCTCCCCCGGGAACCG------------------------------------------ | 18 | - | - | - | - | 1 | - | - | |
| rat | gccggGCCGCCCCCCTCCCCCGGGAACCGacgcccgcggtcctggggcagcccttgagggcgctccctgct | ||||||||
| *********************************************************************** | |||||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000054970 ENSRNOG00000036697 Mafg | ||||||||
| rat | ((.(((.(((((..((.(((((((.((((.......))))))))))).)).......)))))..))).)). | 0.720 -35.70 | |||||||
| rat | chromosome:10:109940704:109940774:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000054970|ENSRNOG00000036697 ## Same_strand|Boundary_non-coding|ENSRNOT00000051462|ENSRNOG00000036697 ## ENSRNOG00000036697|protein_coding|Mafg|v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G [Source:RefSeq_peptide;Acc:NP_071781] |
block2122575 [novel_lenNOK_gcHIGH_5varHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.687 | no | no | 0.89/0.95 | 18/20/0.50 | 2.0 | 1.0 | 2 | 0 | 2 | 0 | 16 | 17 | 3arm | 1 | nd | 0.11 | 1 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------------------------------------------------------------------------CCGGCGG------------------------------ | 1 | novel | |
| seed | -------------------------------------------------------------------------------------CGGCGGC-------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T3S2 | |||
| --------------------------------------------------------------------------------GCCGGCGGCGGCGGCGCGCT------------------ | 20 | 1 | - | |
| ------------------------------------------------------------------------------------GCGGCGGCGGCGCGCTTC---------------- | 18 | - | 1 | |
| rat | gggggccagcgcggggagggtgcccggtgtccgcccgccgcccgggcccacggccgctcggctgcggctcggccccgacgGCCGGCGGCGGCGGCGCGCTTCtgggggcgggctctcc | |||
| ********************************************************************************************************************** | ||||
| rat | (((((((.((...(((((.(((.(((.((.(((((.((((...(((((...((((((......)))))).)))))...)))).))))))).)))))).)))))....)).))))))). | 0.990 -74.40 | ||
| rat | chromosome:7:67345136:67345253:-1 | intergenic ## {Repeats: GC_rich 1 69 -1 class=Low_complexity,GC_rich 1 20 -1 class=Low_complexity,dust 67345153 67345174 0 class=dust} ## {SimpF: oe = 0.89 0 CpG} |
novel_lenNOK_gcHIGH_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH (2 loci)
block925190 [novel_lenNOK_gcHIGH_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.001 | no | no | 0.95/0.95 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 38 | -3 | 5arm_loop | 1 | nd | 0.32 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------GCCGGGG--------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| --------------------------------------GGCCGGGGCCAGGGCCGCC---------------------------------------------------------- | 19 | 1 | |
| rat | caacatgacgttaggtcctgggcagaggccaggggcagGGCCGGGGCCAGGGCCGCCagggccaccagggccaccaggcccaccagggccaggcccagagacaggctgtgatttg | ||
| ******************************************************************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000042753 ENSRNOG00000033641 Prkg1 | ||
| <<<<<<<<<<<<<<<<<<<<<<------------------------------------------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< | ENSRNOT00000030667 ENSRNOG00000022436 Cstf2t | ||
| rat | (((.((.(((....(((((((((...((((..((...(((((((((((..((((.....)))).....)))).)).))))).))..))))..)))))).)))....))).))))) | 0.980 -62.00 |
| rat | chromosome:1:235061166:235061280:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000030667|ENSRNOG00000022436 ## Same_strand|Boundary_non-coding|ENSRNOT00000047149|ENSRNOG00000033641 ## Same_strand|Intronic_coding|ENSRNOT00000042753|ENSRNOG00000033641 ## ENSRNOG00000022436|protein_coding|Cstf2t|cleavage stimulation factor, 3' pre-RNA subunit 2, tau Gene [Source:MGI Symbol;Acc:MGI:1932622] ## ENSRNOG00000033641|protein_coding|Prkg1|protein kinase, cGMP-dependent, type I Gene [Source:MGI Symbol;Acc:MGI:108174] ## {Repeats: dust 235061224 235061243 0 class=dust,trf 35 45 0 class=trf,trf 41 43 0 class=trf,trf 1 17 0 class=trf} |
block2391881 [novel_lenNOK_gcHIGH_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.005 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 24 | -3 | 5arm_loop | 2 | nd | 0.33 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------CCCCCGC------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| ------------------------GCCCCCGCCCGGCCCCCA-------------------------- | 18 | 1 | |
| rat | ctaggcccactctcccacccctcaGCCCCCGCCCGGCCCCCAcagaacgggctgggtgggtgcctgga | ||
| ******************************************************************** | |||
| rat | ((((((.....................((((((((((((.........)))))))))))).)))))). | 0.470 -31.75 |
| rat | chromosome:8:34844615:34844682:1 | intergenic |
novel_lenNOK_gcHIGH_multiarm_DicerNOK_nonpairedHIGH_bulgeHIGH (2 loci)
sblock10534 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.457 | no | no | 0.58/0.91 | 19/23/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 10 17 | 24 11 | 5arm 3arm | 1 1 | nd nd | 0.47 0.35 | 4 6 | 2 | 2 | -12 | -8 |
| reads | miRBase family seed | |||
| seed | -----------CGCACAG--------------------------------------------------------------------------------------------- | 1 | novel | |
| seed | ------------------------------------------------------------------------CGGCCCG-------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S1 | |||
| ----------ACGCACAGTGACGAGAGAC---------------------------------------------------------------------------------- | 19 | 1 | - | |
| -----------------------------------------------------------------------GCGGCCCGGCCGCGGGCTCGGTG----------------- | 23 | - | 1 | |
| rat | ccgcgtctcgACGCACAGTGACGAGAGACgccggcgccgcagcaaagggtacgggcgggacggcgccccctGCGGCCCGGCCGCGGGCTCGGTGcggggtgtggggtgcgg | |||
| *************************************************************************************************************** | ||||
| ------------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000019689 ENSRNOG00000014595 Brf1 | |||
| rat | (((((.(((.((((...((..((((....(((((.(((((((....((((.((.......))..)))).))))))))))))......))))..))...)))).)))))))) | 0.960 -58.60 | ||
| rat | chromosome:6:137983920:137984030:1 | Opposite_strand|Intronic_coding|ENSRNOT00000019689|ENSRNOG00000014595 ## ENSRNOG00000014595|protein_coding|Brf1|BRF1 homolog, subunit of RNA polymerase III transcription initiation factor IIIB (S. cerevisiae) Gene [Source:MGI Symbol;Acc:MGI:1919558] ## {Repeats: dust 137984041 137984057 0 class=dust,GC_rich 20 37 1 class=Low_complexity,GC_rich 1 37 1 class=Low_complexity} ## {SimpF: 1 Eponine} |
sblock9818 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.890 | no | no | 0.83/0.95 | 18/19/0.00 | 0.0 0.0 | 0.2 0.0 | 4 1 | 0 0 | 4 1 | 0 0 | 26 33 | 9 3 | 5arm 3arm | 1 1 | nd nd | 0.37 0.32 | 5 4 | 5 | 4 | -3 | -3 |
| reads | miRBase family seed | |||||
| seed | ---------------------------CCCCUGG------------------------------------------------------------------------------ | 4 | miR-331 | |||
| seed | -------------------------------------------------------------CGCCCCC-------------------------------------------- | 1 | novel | |||
| len | cloning frequencies | |||||
| T1S1 | T1S2 | T2S1 | T3S2 | |||
| --------------------------TCCCCTGGGGGGGTCCCC-------------------------------------------------------------------- | 18 | 1 | 1 | 1 | - | |
| ------------------------------------------------------------CCGCCCCCGCCCCCTCCCG--------------------------------- | 19 | 1 | - | - | - | |
| --------------------------TCCCCTGGGGGGGTCCCCC------------------------------------------------------------------- | 19 | - | - | - | 1 | |
| rat | gccccgcagcgttggcccggagccccTCCCCTGGGGGGGTCCCCCgccggcagctaggctCCGCCCCCGCCCCCTCCCGggagagagaacggaacgccctcgatgccccggc | |||||
| **************************************************************************************************************** | ||||||
| rat | (((..(((.((..((((((......(((((..((((((((.....((.((.(((...)))))))....))))))))..)))))......)))...)))..)).)))...))) | 0.470 -47.60 | ||||
| rat | chromosome:5:148278477:148278588:1 | intergenic ## {SimpF: -1 Eponine} |
novel_lenNOK_gcHIGH_multiarm_DicerNOK_randfoldOK (2 loci)
sblock10226 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_randfoldOK]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.006 | no | no | 0.94/1.00 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 2 3 | 0 0 | 1 2 | 0 0 | 16 18 | 19 19 | 5arm 3arm | 1 2 | nd nd | 0.11 0.17 | 1 1 | 5 | 3 | 0 | -1 |
| reads | miRBase family seed | ||||
| seed | -------------------------------------------------------------------------------------GGGCGCG---------------------------- | 3 | novel | ||
| seed | -----------------CCGCCGC------------------------------------------------------------------------------------------------ | 2 | novel | ||
| len | cloning frequencies | ||||
| T2S1 | T2S2 | T5S2 | |||
| ------------------------------------------------------------------------------------GGGGCGCGCGGGCGGGGG------------------ | 18 | 1 | 2 | - | |
| ----------------CCCGCCGCCCGCGCCCCT-------------------------------------------------------------------------------------- | 18 | - | - | 2 | |
| rat | gcctcgcacgaacccgCCCGCCGCCCGCGCCCCTtcctcctgccctccctcccgtcccgtctccaggccggagggcggggggccGGGGCGCGCGGGCGGGGGcgcgcggcccgcgcgggg | ||||
| ************************************************************************************************************************ | |||||
| rat | .((((((.((..(((((((.((((((((((((((.(((((((((((((...((............))..)))))))))))))..)))).)))))))))).)).))).))..)).)))))) | 1.000 -88.40 | |||
| rat | chromosome:6:1803552:1803671:1 | intergenic ## {Repeats: GC_rich 4 21 1 class=Low_complexity,dust 1803642 1803660 0 class=dust,trf 18 36 0 class=trf,GC_rich 12 30 1 class=Low_complexity,GC_rich 1 50 1 class=Low_complexity,trf 12 30 0 class=trf,GC_rich 1 21 1 class=Low_complexity} |
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