other hairpins
novel_lenNOK_gcHIGH_multiarm_DicerNOK_loopOverlap_nonpairedHIGH (4 loci)
sblock1213 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_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 | 0.433 | no | no | 0.78/1.00 | 18/19/0.00 | 0.0 0.7 | 0.0 1.2 | 1 6 | 0 0 | 1 5 | 0 0 | 22 14 | 4 -18 | 5arm 3arm_loop | 1 2 | nd nd | 0.44 0.33 | 7 3 | 7 | 5 | 0 | 6 |
| reads | miRBase family seed | ||||||
| seed | --------------------------------------------GGGGGGC--------------------------- | 4 | novel | ||||
| seed | -----------------------CUGCGGC------------------------------------------------ | 1 | novel | ||||
| seed | ---------------------------------------------GGGGGCC-------------------------- | 1 | novel | ||||
| seed | -----------------------------------------------GGGCCGG------------------------ | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T5S1 | |||
| -------------------------------------------GGGGGGGCCGGCGGCGGCG---------------- | 19 | 1 | - | 1 | - | 1 | |
| -------------------------------------------GGGGGGGCCGGCGGCGGC----------------- | 18 | - | - | - | 1 | - | |
| ----------------------GCTGCGGCGGGAGGAGTG-------------------------------------- | 18 | - | - | - | - | 1 | |
| --------------------------------------------GGGGGGCCGGCGGCGGCG---------------- | 18 | - | 1 | - | - | - | |
| ----------------------------------------------GGGGCCGGCGGCGGCGCG-------------- | 18 | - | - | 1 | - | - | |
| rat | gcaaataaaggctatctccgggGCTGCGGCGGGAGGAGTGcggGGGGGGGCCGGCGGCGGCGCGgcctcggcctgtgt | ||||||
| ****************************************************************************** | |||||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000025936 ENSRNOG00000019091 RGD1563824_predicted | ||||||
| rat | (((.....((((......((((((((((.((.......(((.((......)).))).)).)))))))))))))).))) | 0.440 -31.30 | |||||
| rat | chromosome:1:41891743:41891820:1 | Same_strand|Intronic_non-coding|ENSRNOT00000025936|ENSRNOG00000019091 ## ENSRNOG00000019091|protein_coding|RGD1563824_predicted| ## {Repeats: dust 41891784 41891791 0 class=dust,GC_rich 1 28 1 class=Low_complexity,GC_rich 1 1 1 class=Low_complexity,GC_rich 4 25 1 class=Low_complexity} ## {SimpF: 1 Eponine,oe = 0.90 1 CpG} |
sblock1765 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_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 | 0.428 | no | no | 0.63/0.94 | 18/21/0.33 | 0.0 0.0 | 1.0 0.0 | 2 1 | 0 0 | 2 1 | 0 0 | 14 20 | 0 -2 | 5arm 3arm_loop | 1 1 | nd nd | 0.32 0.33 | 3 3 | 3 | 3 | -2 | -4 |
| reads | miRBase family seed | ||||
| seed | ---------------GGGGUGG------------------------------------------------------------ | 2 | novel | ||
| seed | ---------------------------------------------CCCUCGC------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S1 | T2S2 | T3S2 | |||
| --------------------------------------------CCCCTCGCGCCCCCCCCC-------------------- | 18 | - | 1 | - | |
| --------------TGGGGTGGGAGTGGTCTGTGG----------------------------------------------- | 21 | - | - | 1 | |
| --------------TGGGGTGGGAGTGGTCTGT------------------------------------------------- | 19 | 1 | - | - | |
| rat | cctactctggtctcTGGGGTGGGAGTGGTCTGTGGatagcctccCCCCTCGCGCCCCCCCCCcccgttagttccccagatgg | ||||
| ********************************************************************************** | |||||
| rat | .(((.(((((.((.(((((.(((...(((.((.((...........)).)).)))...))))))))..))....)))))))) | 0.980 -25.80 | |||
| rat | chromosome:1:79247624:79247705:1 | intergenic ## {Repeats: dust 79247669 79247687 0 class=dust} |
sblock3254 [novel_lenNOK_gcHIGH_multiarm_DicerNOK_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 | 0.356 | no | no | 0.58/0.94 | 18/19/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 13 21 | 8 -2 | 5arm 3arm_loop | 1 1 | nd nd | 0.39 0.32 | 4 3 | 2 | 2 | -11 | -7 |
| reads | miRBase family seed | |||
| seed | -------------------------------------------UAGCCCU-------------------------------- | 1 | novel | |
| seed | --------------GGGCGGG------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S1 | |||
| ------------------------------------------CTAGCCCTGTAAACCCGAC--------------------- | 19 | - | 1 | |
| -------------CGGGCGGGCCTGCGGGCG--------------------------------------------------- | 18 | 1 | - | |
| rat | cctgtagccaatgCGGGCGGGCCTGCGGGCGgcatggcttccCTAGCCCTGTAAACCCGACcttcctgatctcagtcccggg | |||
| ********************************************************************************** | ||||
| ......................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000038092 ENSRNOG00000024352 NP_001100607.1 | |||
| rat | ((((..((.....((((.(((....((((..(((.((((.....)))).)))...)))).))).))))......))..)))) | 0.740 -30.40 | ||
| rat | chromosome:12:27455024:27455105:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000038092|ENSRNOG00000024352 ## intergenic ## ENSRNOG00000024352|protein_coding|NP_001100607.1|radical S-adenosyl methionine and flavodoxin domains 1 [Source:RefSeq_peptide;Acc:NP_001100607] |
novel_lenNOK_gcHIGH_shortStem_bulgeHIGH (4 loci)
block96924 [novel_lenNOK_gcHIGH_shortStem_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 | 0.328 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 27 | 3arm | 3 | nd | 0.28 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----------------------------------------------------------------------------------------GGGGACG------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ---------------------------------------------------------------------------------------GGGGGACGGGGGGCGGGG-- | 18 | 1 | |
| rat | tctcagatattccagttcatctcgattttgaacgtccccccagcctccacttcttgattgcggggaggggtgggggggcagaggggcGGGGGACGGGGGGCGGGGgg | ||
| *********************************************************************************************************** | |||
| rat | .(((.....((((.((((..((((.((((....(((((((((.((....(((((((....))))))))).))))))))).))))..)))))))).))))....))). | 0.980 -42.90 |
| rat | chromosome:10:91845417:91845523:1 | intergenic ## {Repeats: G-rich 1 54 1 class=Low_complexity,dust 91845488 91845506 0 class=dust,trf 10 28 0 class=trf,G-rich 26 44 1 class=Low_complexity} |
block1403383 [novel_lenNOK_gcHIGH_shortStem_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 | 0.013 | no | no | 1.00/1.00 | 18/19/0.00 | 0.0 | 0.5 | 2 | 0 | 2 | 0 | 3 | 20 | 3arm | 1 | nd | 0.26 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -------------------------------------------------------------------------CCCGCCC-------------- | 2 | novel | |
| len | cloning frequencies | |||
| T2S2 | T4S2 | |||
| ------------------------------------------------------------------------CCCCGCCCCCCCCCGGGGG--- | 19 | 1 | - | |
| ------------------------------------------------------------------------CCCCGCCCCCCCCCGGGG---- | 18 | - | 1 | |
| rat | ggcgcagggggtgggggggaggtggcggccggagggggtgcggcccggattatgtcacctcttctctctgcaCCCCGCCCCCCCCCGGGGGcca | |||
| ********************************************************************************************** | ||||
| rat | (((...(((((.((((.((.(((.((((..((((((((((((..........)).))))))))))..))))))))).)))))))))....))). | 1.000 -56.50 | ||
| rat | chromosome:3:118273008:118273101:-1 | intergenic ## {Repeats: GC_rich 3 21 -1 class=Low_complexity,dust 118273016 118273029 0 class=dust,GC_rich 1 21 -1 class=Low_complexity} |
block2119762 [novel_lenNOK_gcHIGH_shortStem_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 | 0.067 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 2 | 14 | 3arm | 1 | nd | 0.28 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------CCGGCGG------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| ----------------------------------------------------TCCGGCGGCGGCCGCCCG-- | 18 | 1 | |
| rat | ctgggcgggaacggcgggctgctgtcgctcgctggtgacaggtgcggacaggTCCGGCGGCGGCCGCCCGgg | ||
| ************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000048838 ENSRNOG00000023202 Usp15 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000031191 ENSRNOG00000023202 Usp15 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000031178 ENSRNOG00000023202 Usp15 | ||
| rat | ((((((((...((.(((((..(((((((...(((....)))..))).))))))))).))....)))))))). | 1.000 -43.50 |
| rat | chromosome:7:62961161:62961232:-1 | Same_strand|Intronic_coding|ENSRNOT00000031191|ENSRNOG00000023202 ## ENSRNOG00000023202|protein_coding|Usp15|ubiquitin specific peptidase 15 Gene [Source:MGI Symbol;Acc:MGI:101857] |
block1426513 [novel_lenNOK_gcHIGH_shortStem_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 | 0.183 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 3 | 32 | 3arm | 3 | nd | 0.28 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------------------------CCGGGGA------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| -------------------------------------------------------------------------------------------------GCCGGGGAGGGGCCGGGG--- | 18 | 1 | |
| rat | accttcacactcctcccaggtcagaagtcagatcttcagtgggaaacggagtgtgggtcagaatgtgagcgcgccatggctctgatggaggggagggGCCGGGGAGGGGCCGGGGagg | ||
| ********************************************************************************************************************** | |||
| rat | .(((((...((((((((.((((.....((...((((((...(((..((..(((((..(((.....))).)))))..))..)))..)))))).))..)))).))))))))....))))) | 0.420 -44.90 |
| rat | chromosome:3:161377594:161377711:-1 | intergenic ## {Repeats: C-rich 2 73 -1 class=Low_complexity,C-rich 46 64 -1 class=Low_complexity,dust 161377597 161377615 0 class=dust,trf 34 52 0 class=trf} |
novel_lenNOK_loopOverlap_mirtron_randfoldOK_nonpairedHIGH_bulgeHIGH (4 loci)
block50676 [novel_lenNOK_loopOverlap_mirtron_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 | 0.010 | no | no | 0.32/0.32 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 17 | -3 | 5arm_loop | 1 | 2 | 0.32 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------AUGUUCU---------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| -----------------CATGTTCTTTTTTCCCTAA----------------------------------- | 19 | 1 | |
| rat | gaaggttcttaagcataCATGTTCTTTTTTCCCTAAagggagtttgaggatataactaacgcaagctttca | ||
| *********************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000010466 ENSRNOG00000007439 Unc13d | ||
| rat | (((((((...........((((((((..(((((....)))))...))))))))..........))))))). | 0.990 -18.70 |
| rat | chromosome:10:106182241:106182311:-1 | Same_strand|Intronic_coding|ENSRNOT00000010466|ENSRNOG00000007439 ## ENSRNOG00000007439|protein_coding|Unc13d|Protein unc-13 homolog D (Munc13-4). [Source:UniProtKB/Swiss-Prot;Acc:Q9R189] |
block1357451 [novel_lenNOK_loopOverlap_mirtron_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 | 0.010 | no | no | 0.44/0.44 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 8 | -4 | 3arm_loop | 2 | 4 | 0.44 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------UCUUCAU------------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| --------------------------------TTCTTCATTCCCAGGAAG-------- | 18 | 1 | |
| rat | gaagggggcttcctgctctgacctcatgtcccTTCTTCATTCCCAGGAAGaacccatc | ||
| ********************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>> | ENSRNOT00000025443 ENSRNOG00000010526 RGD1307927_predicted | ||
| rat | ...(((..(((((((...(((...............)))....)))))))..)))... | 0.990 -17.66 |
| rat | chromosome:3:17621930:17621987:-1 | Same_strand|Boundary_coding|ENSRNOT00000025443|ENSRNOG00000010526 ## ENSRNOG00000010526|protein_coding|RGD1307927_predicted| |
block1751244 [novel_lenNOK_loopOverlap_mirtron_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 | 0.003 | no | no | 0.61/0.68 | 18/21/0.33 | 0.0 0.0 | 0.0 1.0 | 1 2 | 0 0 | 1 2 | 0 0 | 12 4 | -1 4 | 3arm 3arm | 1 1 | 10 2 | 0.44 0.48 | 4 4 | 3 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | --------------------------------------UCCCUAA----------------- | 2 | novel | ||
| seed | ---------------------------------GCACUUC---------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S2 | T3S1 | T3S2 | |||
| --------------------------------TGCACTTCCCTAACCCCC------------ | 18 | - | 1 | - | |
| -------------------------------------TTCCCTAACCCCCTCCCCC------ | 19 | - | - | 1 | |
| -------------------------------------TTCCCTAACCCCCTCCCCCTC---- | 21 | 1 | - | - | |
| rat | gcctgggcaaggaacctgttaccttagtgcttTGCACTTCCCTAACCCCCTCCCCCTCaggt | ||||
| ************************************************************** | |||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>> | ENSRNOT00000020625 ENSRNOG00000015206 Alad | ||||
| ------------------------------------------------------------------------ | ENSRNOT00000034978 ENSRNOG00000024506 LOC500475 | ||||
| rat | (((((((...(((....((((....(((((...)))))....))))....)))..))))))) | 1.000 -19.00 | |||
| rat | chromosome:5:79509461:79509522:-1 | Same_strand|Intronic_coding|ENSRNOT00000020625|ENSRNOG00000015206 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000034978|ENSRNOG00000024506 ## ENSRNOG00000024506|protein_coding|LOC500475|Putative uncharacterized protein LOC500475. [Source:UniProtKB/TrEMBL;Acc:Q6AYG4] ## ENSRNOG00000015206|protein_coding|Alad|Delta-aminolevulinic acid dehydratase (EC 4.2.1.24) (Porphobilinogen synthase) (ALADH). [Source:UniProtKB/Swiss-Prot;Acc:P06214] |
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