other hairpins
novel_lenNOK_multiarm_DicerNOK_shortStem (73 loci)
sblock9600 [novel_lenNOK_multiarm_DicerNOK_shortStem]
| 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 | 0.173 | no | no | 0.61/0.67 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 3 | 0 0 | 1 1 | 0 0 | 1 4 | 19 24 | 5arm 3arm | 1 1 | 78 12 | 0.17 0.33 | 2 3 | 4 | 2 | 1 | -2 |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------------------------UGCCCUU-------------- | 3 | novel | |
| seed | --UGUGGAC-------------------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S2 | |||
| -------------------------------------------------------------------GTGCCCTTTCCCGGTAAC---- | 18 | - | 3 | |
| -GTGTGGACTGGAAGCGCC---------------------------------------------------------------------- | 18 | 1 | - | |
| rat | gGTGTGGACTGGAAGCGCCggccccggcggattcactggagcacggactctgcggccggttgggccgGTGCCCTTTCCCGGTAACtcct | |||
| ***************************************************************************************** | ||||
| .................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++ | ENSRNOT00000017247 ENSRNOG00000012503 LOC362652 | |||
| rat | ((.((..((((((((((((((((((((((((....(((.....)))..)))...)))))...)))))))))...)))).))).)).)). | 0.860 -39.50 | ||
| rat | chromosome:5:160700713:160700801:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000017247|ENSRNOG00000012503 ## intergenic ## ENSRNOG00000012503|protein_coding|LOC362652|DnaJ homolog subfamily C member 16 precursor. [Source:UniProtKB/Swiss-Prot;Acc:Q5FVM7] |
sblock9699 [novel_lenNOK_multiarm_DicerNOK_shortStem]
| 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 | 0.55/0.58 | 19/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 0 0 | 45 27 | 5arm 3arm | 1 1 | nd nd | 0.55 0.28 | 9 2 | 2 | 2 | 0 | -9 |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------------------------------------------------------UAGCCUC----------- | 1 | novel | |
| seed | -UUCUCUU------------------------------------------------------------------------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T4S1 | |||
| GTTCTCTTGCCGGATACCCT------------------------------------------------------------------------------------------------ | 20 | - | 1 | |
| -------------------------------------------------------------------------------------------------ATAGCCTCCCAGGGTCTGA | 19 | 1 | - | |
| rat | GTTCTCTTGCCGGATACCCTggtcgaaaagtggtcgtagcagctagttgtttcccgtgaagataactcctttgccttctctgaggcatctagctgtcATAGCCTCCCAGGGTCTGA | |||
| ******************************************************************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000060735 ENSRNOG00000039613 | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000060734 ENSRNOG00000039613 | |||
| rat | ..........((((..((((((.........((..((..(((((((.((((((....((((.(((.....))).))))...)))))).)))))))..))..))..)))))))))). | 0.920 -38.90 | ||
| rat | chromosome:5:58081314:58081429:1 | Same_strand|Intronic_coding|ENSRNOT00000060734|ENSRNOG00000039613 ## ENSRNOG00000039613|protein_coding|| |
sblock9811 [novel_lenNOK_multiarm_DicerNOK_shortStem]
| 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 | 0.586 | no | no | 0.41/0.42 | 19/22/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 4 1 | 37 28 | 5arm 3arm | 2 2 | nd nd | 0.58 0.23 | 8 2 | 2 | 2 | -9 | 3 |
| reads | miRBase family seed | |||
| seed | -----UGAAUGA--------------------------------------------------------------------------------------------------------- | 1 | novel | |
| seed | -----------------------------------------------------------------------------------------------UCUAAGA--------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T2S1 | |||
| ----CTGAATGAAATGCCCCTAT---------------------------------------------------------------------------------------------- | 19 | 1 | - | |
| ----------------------------------------------------------------------------------------------TTCTAAGAAACAGAGCCAACTC- | 22 | - | 1 | |
| rat | gagtCTGAATGAAATGCCCCTATttctgatgatgtccatattgtaaagcgacagattcataaagtaatgatcaaatcttcacttctgtgtgtacTTCTAAGAAACAGAGCCAACTCt | |||
| ********************************************************************************************************************* | ||||
| rat | ((((.((........((..((.(((((...((.((.(((((....(((.((.((((((((......))))....)))))).)))..))))).)).))..))))).)).)))))))). | 0.580 -18.80 | ||
| rat | chromosome:5:145854237:145854353:1 | intergenic |
novel_lenNOK_shortStem_5varHIGH_nonpairedHIGH_bulgeHIGH (73 loci)
block3229 [novel_lenNOK_shortStem_5varHIGH_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 | 0.130 | no | no | 0.78/0.90 | 18/23/0.57 | 8.4 | 7.7 | 7 | 0 | 5 | 0 | 3 | 10 | 5arm | 1 | nd | 0.44 | 5 | 7 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | ------CGGCGCA------------------------------------------------------------------------------------------------- | 1 | novel | ||||
| seed | ------------------GGCAGGG------------------------------------------------------------------------------------- | 1 | novel | ||||
| seed | ----------GCAGGCC--------------------------------------------------------------------------------------------- | 1 | novel | ||||
| seed | -------------------------AGCGCCG------------------------------------------------------------------------------ | 1 | novel | ||||
| seed | ----GGCGGCG--------------------------------------------------------------------------------------------------- | 1 | novel | ||||
| seed | -----------CAGGCCG-------------------------------------------------------------------------------------------- | 1 | novel | ||||
| seed | -------------GGCCGGG------------------------------------------------------------------------------------------ | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T1S2 | T3S1 | T3S2 | T5S1 | |||
| ---CGGCGGCGCAGGCCGGGCAGG-------------------------------------------------------------------------------------- | 21 | - | - | 1 | - | - | |
| -----------------GGGCAGGGAGCGCCGGTCGGAGA---------------------------------------------------------------------- | 23 | - | - | - | 1 | - | |
| ----------GCAGGCCGGGCAGGGAGC---------------------------------------------------------------------------------- | 18 | 1 | - | - | - | - | |
| ---------CGCAGGCCGGGCAGGGAGC---------------------------------------------------------------------------------- | 19 | - | - | - | - | 1 | |
| ------------AGGCCGGGCAGGGAGCGCCGGT---------------------------------------------------------------------------- | 22 | - | 1 | - | - | - | |
| -----GCGGCGCAGGCCGGGCAGGGA------------------------------------------------------------------------------------ | 21 | - | - | - | 1 | - | |
| ------------------------GAGCGCCGGTCGGAGAGC-------------------------------------------------------------------- | 18 | - | - | - | - | 1 | |
| rat | gctCGGCGGCGCAGGCCGGGCAGGGAGCGCCGGTCGGAGAGCggcggcggtcggagcgaggccgcggggccgtgggcgggcggtaaaagggtgcgggcgaggccagggca | ||||||
| ************************************************************************************************************** | |||||||
| rat | (((((((..(((...(((.((......((((.(((.....(((((.((((((.......))))))...))))).))).))))........)).))))))..))).)))). | 0.720 -52.44 | |||||
| rat | chromosome:10:6809961:6810070:-1 | intergenic ## {Repeats: C-rich 75 114 -1 class=Low_complexity,trf 26 41 0 class=trf} ## {SimpF: oe = 0.86 -1 CpG} |
block17792 [novel_lenNOK_shortStem_5varHIGH_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 | 0.202 | no | no | 0.39/0.43 | 18/21/0.67 | 1.7 | 0.7 | 3 | 0 | 2 | 0 | 1 | 32 | 5arm | 1 | nd | 0.43 | 4 | 3 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --GUACAUG--------------------------------------------------------------------------------------------------------- | 2 | novel | |
| seed | -------UGGUCUC---------------------------------------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T4S1 | |||
| -AGTACATGGTCTCACAACACA-------------------------------------------------------------------------------------------- | 21 | - | 2 | |
| ------ATGGTCTCACAACACAAA------------------------------------------------------------------------------------------ | 18 | 1 | - | |
| rat | aAGTACATGGTCTCACAACACAAAaacaagtagaatcaggacatgtatgtatgttcatcgattataaaaatacactgaacttgtgcacatggtaacaaaggggacaatggggct | |||
| ****************************************************************************************************************** | ||||
| rat | .(((.(((.(((((...((......((((((....((((....(((((.((((.((...)).))))...))))))))))))))).......)).......))))).)))..))) | 0.410 -20.42 | ||
| rat | chromosome:10:40205201:40205314:-1 | intergenic |
block25074 [novel_lenNOK_shortStem_5varHIGH_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 | 0.339 | no | no | 0.44/0.53 | 18/20/0.25 | 2.5 | 3.2 | 4 | 0 | 3 | 0 | 2 | 26 | 3arm | 1 | nd | 0.44 | 4 | 4 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ---------------------------------------------------------------------------------------UGUACUG-------------- | 2 | novel | ||
| seed | -----------------------------------------------------------------------------------UGCCUGU------------------ | 1 | novel | ||
| seed | -------------------------------------------------------------------------------------CCUGUAC---------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S1 | T3S1 | T3S2 | |||
| --------------------------------------------------------------------------------------CTGTACTGAAAGAGACCTGC-- | 20 | - | - | 1 | |
| --------------------------------------------------------------------------------------CTGTACTGAAAGAGACCT---- | 18 | - | - | 1 | |
| ----------------------------------------------------------------------------------CTGCCTGTACTGAAAGAG-------- | 18 | 1 | - | - | |
| ------------------------------------------------------------------------------------GCCTGTACTGAAAGAGACC----- | 19 | - | 1 | - | |
| rat | ggctggaagattgcgtaaagtgggcgtgcttcgtgtaggtggagaaggacttccggaagttcactgttaccctctaagaggcCTGCCTGTACTGAAAGAGACCTGCct | ||||
| ************************************************************************************************************ | |||||
| rat | (((.((....((..(((....(((((.(((((...((((.((.((.((((((....))))))....)).)).)))).))))).))))).)))...))....)).))). | 0.860 -32.20 | |||
| rat | chromosome:10:56431426:56431533:-1 | intergenic |
block33423 [novel_lenNOK_shortStem_5varHIGH_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 | 0.420 | no | no | 0.60/0.75 | 18/23/0.62 | 3.8 | 6.5 | 8 | 0 | 4 | 0 | 2 | 11 | 3arm | 1 | nd | 0.43 | 4 | 8 | 4 | na | na |
| reads | miRBase family seed | |||||
| seed | -------------------------------------------------------------------------CAGCAGU-------------------- | 2 | novel | |||
| seed | ----------------------------------------------------------------------------CAGUGAC----------------- | 2 | novel | |||
| seed | -------------------------------------------------------------------CCGCCCC-------------------------- | 1 | novel | |||
| seed | --------------------------------------------------------------------CGCCCCA------------------------- | 1 | novel | |||
| seed | ---------------------------------------------------------------------------GCAGUGA------------------ | 1 | novel | |||
| seed | ----------------------------------------------------------------------CCCCAGC----------------------- | 1 | novel | |||
| len | cloning frequencies | |||||
| T1S2 | T2S1 | T3S2 | T5S2 | |||
| ---------------------------------------------------------------------------GCAGTGACCAGGGAGCTACCGAG-- | 23 | - | - | 2 | - | |
| -------------------------------------------------------------------CCGCCCCAGCAGTGACCA--------------- | 18 | - | - | - | 1 | |
| ------------------------------------------------------------------CCCGCCCCAGCAGTGACCAG-------------- | 20 | - | - | 1 | - | |
| ------------------------------------------------------------------------CCAGCAGTGACCAGGGAG---------- | 18 | - | - | - | 1 | |
| ---------------------------------------------------------------------GCCCCAGCAGTGACCAGGGAG---------- | 21 | - | 1 | - | - | |
| ------------------------------------------------------------------------CCAGCAGTGACCAGGGAGC--------- | 19 | 1 | - | - | - | |
| --------------------------------------------------------------------------AGCAGTGACCAGGGAGCTAC------ | 20 | - | 1 | - | - | |
| rat | cggccggaggccggcccgcaaggggttgggtctaggcgcagctccaacatttccaagttgcccgcgCCCGCCCCAGCAGTGACCAGGGAGCTACCGAGct | |||||
| **************************************************************************************************** | ||||||
| .........................................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000030841 ENSRNOG00000027891 RGD1307935 | |||||
| rat | .((((((.(((...(((.((.((((.(((((...((.((((((............))))))))..))))))))).....))....))).))).))).))) | 0.430 -41.50 | ||||
| rat | chromosome:10:73111447:73111546:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000030841|ENSRNOG00000027891 ## ENSRNOG00000027891|protein_coding|RGD1307935|Putative uncharacterized protein RGD1307935. [Source:UniProtKB/TrEMBL;Acc:Q5M7U4] |
block96026 [novel_lenNOK_shortStem_5varHIGH_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 | 0.040 | no | no | 0.53/0.55 | 19/20/0.50 | 1.5 | 1.0 | 2 | 0 | 1 | 0 | 2 | 11 | 3arm | 1 | nd | 0.32 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------GCUGCAA---------------- | 1 | novel |
| seed | ------------------------------------------------------GCAAAAC------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| --------------------------------------------------AGCTGCAAAACCAGGACCCT---- | 20 | 1 | |
| -----------------------------------------------------TGCAAAACCAGGACCCTTC-- | 19 | 1 | |
| rat | gggaggtgctggggcctcttaatgctaacaaaagaaaaatgtgacccagaAGCTGCAAAACCAGGACCCTTCca | ||
| ************************************************************************** | |||
| rat | (((((((.((((.((..(((.......(((.........))).......)))..))....)))).))).)))). | 0.960 -20.34 |
| rat | chromosome:10:90645261:90645334:1 | intergenic |
block99352 [novel_lenNOK_shortStem_5varHIGH_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 | 0.483 | no | no | 0.58/0.67 | 18/22/0.17 | 1.3 | 1.7 | 6 | 0 | 5 | 0 | 4 | 1 | 5arm | 1 | nd | 0.39 | 4 | 6 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | -----UCGACCC---------------------------------------------- | 2 | novel | ||||
| seed | ------CGACCCU--------------------------------------------- | 2 | novel | ||||
| seed | -------GACCCUU-------------------------------------------- | 1 | novel | ||||
| seed | ---------CCCUUCC------------------------------------------ | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T2S1 | T3S2 | T4S2 | T5S1 | |||
| ----TTCGACCCTTCCAGGACAC----------------------------------- | 19 | - | 1 | - | - | 1 | |
| ------CGACCCTTCCAGGACACC---------------------------------- | 18 | 1 | - | - | - | - | |
| --------ACCCTTCCAGGACACCGTC------------------------------- | 19 | - | - | 1 | - | - | |
| -----TCGACCCTTCCAGGACACC---------------------------------- | 19 | - | - | 1 | - | - | |
| -----TCGACCCTTCCAGGACACCGTC------------------------------- | 22 | - | - | - | 1 | - | |
| rat | cgggTTCGACCCTTCCAGGACACCGTCgcccgcgctctcgtcttggagtctggccgcg | ||||||
| ********************************************************** | |||||||
| rat | (((((..(((...((((((((.....((....)).....)))))))))))..))).)) | 0.990 -20.10 | |||||
| rat | chromosome:10:96139606:96139663:1 | intergenic ## {SimpF: oe = 0.93 1 CpG} |
block104779 [novel_lenNOK_shortStem_5varHIGH_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 | 0.465 | no | no | 0.50/0.55 | 18/20/0.50 | 1.5 | 0.5 | 2 | 0 | 2 | 0 | 4 | 24 | 5arm | 1 | nd | 0.40 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------CUUCGUA----------------------------------------------------------------------------------------- | 1 | novel | |
| seed | -----GUGCUUC-------------------------------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S2 | |||
| ----CGTGCTTCGTACAGAGTGGA-------------------------------------------------------------------------------- | 20 | 1 | - | |
| -------GCTTCGTACAGAGTGGAA------------------------------------------------------------------------------- | 18 | - | 1 | |
| rat | ctcgCGTGCTTCGTACAGAGTGGAAtgtagactgtgagagggccgtggatacttcagaaggcgctcgtgggatttggaagccactcccggggctcccacgggag | |||
| ******************************************************************************************************** | ||||
| rat | (((.(((((..((....((((((....((((((....(((.(((...((....))....))).)))...)).))))....)))))).))..))....))).))) | 0.440 -34.90 | ||
| rat | chromosome:10:107175817:107175920:1 | intergenic |
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