other hairpins
miRNAunknown_lenNOK_randfoldOK (3 loci)
block875914 (miRNA) [miRNAunknown_lenNOK_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 |
| Ensembl miRNA | 0.001 | no | no | 0.53/0.53 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 22 | 7 | 3arm | 6 | nd | 0.11 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------------------GAUCUGG--------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| ------------------------------------------------------------------TGATCTGGCCAAAGCCTGA---------------------- | 19 | 1 | |
| rat | ccctctggctgcagggctttttttcctgttaggcttctggctagagtccactaattttctggtaccTGATCTGGCCAAAGCCTGActataacctgctccagagagga | ||
| *********************************************************************************************************** | |||
| .......................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>................ | ENSRNOT00000063020 ENSRNOG00000041267 | ||
| rat | ((((((((..(((((............(((((((((.((((((((....((((......))))......))))))))))))))))).....))))).)))))).)). | 0.990 -47.43 |
| rat | chromosome:1:115910435:115910541:-1 | Same_strand|Exonic_non-coding|ENSRNOT00000063020|ENSRNOG00000041267 ## ENSRNOG00000041267|miRNA|| |
miRNAunknown_rep_Multihit_nonpairedHIGH_bulgeHIGH (3 loci)
block1226136 (miRNA) [miRNAunknown_rep_Multihit_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 |
| Ensembl miRNA | 0.013 | no | SINE | 0.61/0.61 | 23/23/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 7 | 5 | 3arm | 13 | nd | 0.35 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------GCCAUCU---------------------- | 2 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ------------------------------------------------AGCCATCTCTCCAGCCCAGAGAC------- | 23 | 2 | |
| rat | tagagactttcttatatttttggttgtgagcctagcctttaacggctgAGCCATCTCTCCAGCCCAGAGACtttctac | ||
| ****************************************************************************** | |||
| .................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< | ENSRNOT00000054532 ENSRNOG00000036420 | ||
| rat | ((((((.(((((.......((((..(((.((.(((((......))))).)))))....))))...))))).)))))). | 0.930 -20.60 |
| rat | chromosome:2:237431968:237432045:-1 | Opposite_strand|Exonic_non-coding|ENSRNOT00000054532|ENSRNOG00000036420 ## ENSRNOG00000036420|miRNA|| ## {Repeats: B4 2 47 -1 class=SINE} |
block2052951 (miRNA) [miRNAunknown_rep_Multihit_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 |
| Ensembl miRNA | 0.090 | no | LINE,LINE/L1 | 0.57/0.62 | 21/21/1.00 | 0.5 | 0.5 | 2 | 0 | 2 | 0 | 14 | 3 | 3arm | 252 | nd | 0.33 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------GAGCCAU---------------------------- | 1 | novel | |
| seed | ---------------------------------------------------AGCCAUC--------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T4S2 | |||
| --------------------------------------------------GAGCCATCTCTCCAGCCTGAG-------------- | 21 | - | 1 | |
| -------------------------------------------------TGAGCCATCTCTCCAGCCTGA--------------- | 21 | 1 | - | |
| rat | gaggcttgaagttcttatatttttggttgtgagcctagcctttaacggcTGAGCCATCTCTCCAGCCTGAGgcttgaagttctta | |||
| ************************************************************************************* | ||||
| ....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< | ENSRNOT00000054609 ENSRNOG00000036501 | |||
| rat | (((((((.(((.(((((.....((((..(((.((.(((((......))))).)))))....))))..)))))))).)))).))). | 0.910 -23.80 | ||
| rat | 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} |
block2254371 (miRNA) [miRNAunknown_rep_Multihit_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 |
| Ensembl miRNA | 0.112 | no | SINE | 0.57/0.62 | 21/21/1.00 | 0.5 | 0.5 | 2 | 0 | 2 | 0 | 11 | 3 | 3arm | 252 | nd | 0.38 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------AGCCAUC------------------------ | 1 | novel | |
| seed | -------------------------------------------------GAGCCAU------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T4S2 | |||
| ------------------------------------------------TGAGCCATCTCTCCAGCCTGA------------ | 21 | 1 | - | |
| -------------------------------------------------GAGCCATCTCTCCAGCCTGAG----------- | 21 | - | 1 | |
| rat | tgaaatcctgtctcttatattttggttgtgagcctagcctttaacggcTGAGCCATCTCTCCAGCCTGAGatcctgtctca | |||
| ********************************************************************************* | ||||
| ....................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< | ENSRNOT00000054625 ENSRNOG00000036518 | |||
| rat | .((.((...(((((.......((((..(((.((.(((((......))))).)))))....))))...)))))...)).)). | 0.470 -18.30 | ||
| rat | chromosome:7:119593192:119593272:1 | Opposite_strand|Exonic_non-coding|ENSRNOT00000054625|ENSRNOG00000036518 ## ENSRNOG00000036518|miRNA|| ## {Repeats: B4 -245 47 -1 class=SINE} |
novel_5varHIGH_loopOverlap_mirtron (3 loci)
block646023 [novel_5varHIGH_loopOverlap_mirtron]
| 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 | 0.012 | no | no | 0.68/0.70 | 22/23/1.00 | 2.0 | 2.5 | 2 | 0 | 2 | 0 | 32 | -2 | 3arm | 1 | 0 | 0.09 | 1 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ------------------------------------------------------------UGGCUGA--------------------------------------------------- | 1 | novel | |
| seed | ----------------------------------------------------------------UGACCAG----------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T3S1 | |||
| -----------------------------------------------------------CTGGCTGACCAGCCCTTCCGTG------------------------------------- | 22 | - | 1 | |
| ---------------------------------------------------------------CTGACCAGCCCTTCCGTGCCCAG-------------------------------- | 23 | 1 | - | |
| rat | ggtaagtctgggggccggagagggtgcagggtgggaagactaggactggttatggccagCTGGCTGACCAGCCCTTCCGTGCCCAGcccctgcagcggctggacaatgagatggacct | |||
| ********************************************************************************************************************** | ||||
| >>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000060823 ENSRNOG00000017641 Rnf44 | |||
| >>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000060822 ENSRNOG00000017641 Rnf44 | |||
| >>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000024081 ENSRNOG00000017641 Rnf44 | |||
| rat | (((..(((((..(((((...((((.((.((((((((((....((.((((((..((((....))))))))))))))))).))))).))))))....)))))...))....)))..))). | 0.880 -51.50 | ||
| rat | chromosome:17:15992650:15992767:1 | Same_strand|Intronic_coding|ENSRNOT00000060822|ENSRNOG00000017641 ## ENSRNOG00000017641|protein_coding|Rnf44|RING finger protein 44. [Source:UniProtKB/Swiss-Prot;Acc:Q4V7B8] |
block856985 [novel_5varHIGH_loopOverlap_mirtron]
| 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 | 0.051 | no | no | 0.39/0.48 | 20/24/1.00 | 1.7 | 1.3 | 7 | 0 | 3 | 0 | 14 | -1 | 3arm | 2 | 0 | 0.04 | 1 | 7 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -------------------------------------------------------------CUUAAUG----------------------------- | 4 | novel | ||
| seed | ----------------------------------------------------------CCUCUUA-------------------------------- | 3 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T4S2 | T5S2 | |||
| ---------------------------------------------------------CCCTCTTAATGCCTTCTTTCCTC----------------- | 23 | 2 | - | - | |
| ------------------------------------------------------------TCTTAATGCCTTCTTTCCTCAGT-------------- | 23 | 1 | 1 | - | |
| ------------------------------------------------------------TCTTAATGCCTTCTTTCCTCAG--------------- | 22 | - | - | 1 | |
| ---------------------------------------------------------CCCTCTTAATGCCTTCTTTCCTCA---------------- | 24 | 1 | - | - | |
| ------------------------------------------------------------TCTTAATGCCTTCTTTCCTC----------------- | 20 | 1 | - | - | |
| rat | gttcttgactccctgggatgtgatggagaaggtattcctaagaggtcatcttaacccCCCTCTTAATGCCTTCTTTCCTCAGTgtggcgaggggact | ||||
| ************************************************************************************************* | |||||
| ----------------------------------------------------------------------------------------------------------- | ENSRNOT00000036365 ENSRNOG00000021800 NP_001100928.1 | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000017353 ENSRNOG00000011346 Ehd2 | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000052231 ENSRNOG00000011346 Ehd2 | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000018559 ENSRNOG00000013548 Sepw1 | ||||
| rat | ((((((....((((((((.......((((((((((...(((((((.............)))))))))))))))))))).)))...))...)))))). | 0.970 -29.23 | |||
| rat | chromosome:1:76252554:76252650:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000036365|ENSRNOG00000021800 ## Same_strand|Boundary_coding|ENSRNOT00000018559|ENSRNOG00000013548 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000058240|ENSRNOG00000021800 ## Same_strand|Intronic_non-coding|ENSRNOT00000052231|ENSRNOG00000011346 ## ENSRNOG00000011346|protein_coding|Ehd2|60S ribosomal protein L9. [Source:UniProtKB/Swiss-Prot;Acc:P17077] ## ENSRNOG00000013548|protein_coding|Sepw1|Selenoprotein W. [Source:UniProtKB/Swiss-Prot;Acc:P63301] ## ENSRNOG00000021800|protein_coding|NP_001100928.1|zinc finger protein 541 [Source:RefSeq_peptide;Acc:NP_001100928] |
block1508275 [novel_5varHIGH_loopOverlap_mirtron]
| 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 | 0.134 | no | no | 0.50/0.52 | 20/21/1.00 | 2.0 | 1.5 | 2 | 0 | 1 | 0 | 27 | -7 | 3arm_loop | 1 | 1 | 0.30 | 2 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------CACUGUC--------------------------------------- | 1 | novel |
| seed | -----------------------------------------------------GUCUCAC------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ----------------------------------------------------TGTCTCACTGTCCTTCCATCC------------------------------ | 21 | 1 | |
| --------------------------------------------------------TCACTGTCCTTCCATCCCTA--------------------------- | 20 | 1 | |
| rat | agcacacgctatggaggagagcagggagatggggagggaggggtagcagcccTGTCTCACTGTCCTTCCATCCCTAggttcccggtgtctgatggctccagct | ||
| ******************************************************************************************************* | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000019761 ENSRNOG00000014690 NP_001100010.2 | ||
| rat | (((....(((((...(((..((.(((((.((((((.((((((..((.............))..)))))).))))))..))))).)).))).)))))....))) | 0.780 -40.62 |
| rat | chromosome:3:155527473:155527575:1 | Same_strand|Intronic_coding|ENSRNOT00000019761|ENSRNOG00000014690 ## ENSRNOG00000014690|protein_coding|NP_001100010.2|phosphatidylinositol glycan, class T [Source:RefSeq_peptide;Acc:NP_001100010] |
novel_5varHIGH_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH (3 loci)
block234897 [novel_5varHIGH_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 | 0.009 | no | no | 0.46/0.46 | 24/24/1.00 | 3.0 | 3.0 | 2 | 0 | 1 | 0 | 19 | -1 | 5arm_loop | 1 | nd | 0.33 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------AGUUCAC---------------------------------------------------------------- | 1 | novel |
| seed | --------------------AGGCAAA---------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -------------------------AAGTTCACTGAGACTTGATGGGTG------------------------------------------------ | 24 | 1 | |
| -------------------GAGGCAAAGTTCACTGAGACTTGA------------------------------------------------------ | 24 | 1 | |
| rat | ggcgggtgggaatggagagGAGGCAAAGTTCACTGAGACTTGATGGGTGccacaaacccagcaagagtgaggtgtctgggcttcgcaacagctgcca | ||
| ************************************************************************************************* | |||
| rat | (((((.((....(((((...(((((...((((((....((((.(((((.......))))).)))))))))).)))))...)))))...)).))))). | 1.000 -38.30 |
| rat | chromosome:12:44306332:44306428:1 | intergenic |
block437540 [novel_5varHIGH_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 | 0.45/0.52 | 21/22/1.00 | 2.0 | 2.5 | 2 | 0 | 2 | 0 | 12 | -19 | 3arm_loop | 1 | nd | 0.38 | 5 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -------------------------------UGGGUAC-------------------------- | 1 | novel | |
| seed | ---------------------------CUCUUGG------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T2S1 | |||
| ------------------------------TTGGGTACTAGGGAGAAGGAAA------------ | 22 | - | 1 | |
| --------------------------CCTCTTGGGTACTAGGGAGAA----------------- | 21 | 1 | - | |
| rat | ctctcagggaggaatttctccacggtCCTCTTGGGTACTAGGGAGAAGGAAAtagtcctggaga | |||
| **************************************************************** | ||||
| rat | (((.(((((.....(((((((..(((((.....)).)))..))))))).......)))))))). | 1.000 -24.30 | ||
| rat | chromosome:15:26886029:26886092:-1 | intergenic |
block1067386 [novel_5varHIGH_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 | 0.004 | no | no | 0.45/0.55 | 20/22/1.00 | 0.3 0.0 3.0 | 0.3 0.0 2.0 | 3 1 2 | 0 0 0 | 1 1 2 | 0 0 0 | 2 10 19 | 11 2 -11 | 5arm 5arm 5arm_loop | 1 1 1 | nd nd nd | 0.40 0.36 0.64 | 5 6 8 | 6 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ----CUGCAUC------------------------------------------------------------------------------- | 2 | novel | |
| seed | --------------------UGUUUUC--------------------------------------------------------------- | 1 | novel | |
| seed | ---UCUGCAU-------------------------------------------------------------------------------- | 1 | novel | |
| seed | --------------------------CCACUGC--------------------------------------------------------- | 1 | novel | |
| seed | -----------CCUUCUU------------------------------------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| ---TCTGCATCCCTTCTTGTTGT------------------------------------------------------------------- | 20 | - | 2 | |
| -------------------------TCCACTGCCTTCACTCTCAG--------------------------------------------- | 20 | 1 | - | |
| --TTCTGCATCCCTTCTTGTTG-------------------------------------------------------------------- | 20 | - | 1 | |
| -------------------TTGTTTTCCACTGCCTTCACTC------------------------------------------------- | 22 | - | 1 | |
| ----------CCCTTCTTGTTGTTTTCCACTG---------------------------------------------------------- | 22 | 1 | - | |
| rat | tcTTCTGCATCCCTTCTTGTTGTTTTCCACTGCCTTCACTCTCAGcgtattcttcttcttccggcatggacaggagtggatgctctagaa | |||
| ****************************************************************************************** | ||||
| rat | (((...((((((.((((((......((((.((((............................)))))))))))))).))))))...))). | 1.000 -25.29 | ||
| rat | chromosome:20:13210174:13210263:-1 | intergenic |
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