other hairpins
novel_lenNOK_multiarm_loopOverlap_nonpairedHIGH_bulgeHIGH (194 loci)
sblock9041 [novel_lenNOK_multiarm_loopOverlap_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 | 0.359 | no | no | 0.39/0.50 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 4 28 | 21 -2 | 5arm 3arm_loop | 1 1 | nd nd | 0.50 0.44 | 4 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----CUGAGUA-------------------------------------------------------------------------------------- | 1 | novel | |
| seed | -----------------------------------------------------UGACUGA-------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T3S2 | |||
| ----GCTGAGTACCTCACTGAT---------------------------------------------------------------------------- | 18 | - | 1 | |
| ----------------------------------------------------ATGACTGAGCTAGCAATA---------------------------- | 18 | 1 | - | |
| rat | tggcGCTGAGTACCTCACTGATgagtgccccgcaggcctggtctttacagggATGACTGAGCTAGCAATAggcaccctggggaggaagacagatcgct | |||
| ************************************************************************************************** | ||||
| rat | .(((((((....((((.((.....(((((..((.(((..((((...........))))..))).))....)))))....))))))....)))..)))) | 0.530 -30.00 | ||
| rat | chromosome:4:154787060:154787157:1 | intergenic |
sblock9791 [novel_lenNOK_multiarm_loopOverlap_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 | 0.449 | no | no | 0.62/0.72 | 18/21/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 0 13 | 17 -2 | 5arm 3arm_loop | 1 1 | nd nd | 0.71 0.44 | 12 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -GCGCUCA---------------------------------------------------------------- | 1 | novel | |
| seed | ------------------------------------------CGCUGCA----------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T5S1 | T5S2 | |||
| CGCGCTCAACCTACTCCTCTG--------------------------------------------------- | 21 | 1 | - | |
| -----------------------------------------GCGCTGCAACCAGTCCCC------------- | 18 | - | 1 | |
| rat | CGCGCTCAACCTACTCCTCTGcgaatttctgggccagcccaGCGCTGCAACCAGTCCCCgctccctccggag | |||
| ************************************************************************ | ||||
| rat | .............((((...(((.....((((..((((.....))))...))))....))).......)))) | 0.520 -17.30 | ||
| rat | chromosome:5:135430354:135430425:1 | intergenic ## {SimpF: oe = 0.86 1 CpG} |
sblock9897 [novel_lenNOK_multiarm_loopOverlap_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 | 0.059 | no | no | 0.50/0.50 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 10 19 | 3 -6 | 5arm 3arm_loop | 1 1 | nd nd | 0.44 0.67 | 4 5 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------AGACUGC----------------------------- | 1 | novel | |
| seed | -----------UGUGGAU-------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S1 | T3S1 | |||
| -------------------------------CAGACTGCTGAATTGAGG------------------- | 18 | - | 1 | |
| ----------CTGTGGATGTTTACACCC---------------------------------------- | 18 | 1 | - | |
| rat | atgtgtcccaCTGTGGATGTTTACACCCtgcCAGACTGCTGAATTGAGGacatttttggtggcccaca | |||
| ******************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000041789 ENSRNOG00000016638 Gnb1 | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000022649 ENSRNOG00000016638 Gnb1 | |||
| rat | .((((..((((((..((((((..((....((......)).....))..))))))..))))))..)))) | 1.000 -20.60 | ||
| rat | chromosome:5:172384986:172385053:1 | Same_strand|Intronic_coding|ENSRNOT00000022649|ENSRNOG00000016638 ## ENSRNOG00000016638|protein_coding|Gnb1|Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (Transducin beta chain 1). [Source:UniProtKB/Swiss-Prot;Acc:P54311] |
novel_Multihit_shortStem_nonpairedHIGH (190 loci)
block68184 [novel_Multihit_shortStem_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 | 0.408 | no | no | 0.75/0.75 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 4 | 3 | 3arm | 13 | nd | 0.35 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------------CCGGCAG---------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| ----------------------------------------------------CCCGGCAGAATGGCTCCCGC---- | 20 | 1 | |
| rat | ttttcggactttccatcccacaatccctcgcgccctttctttccaacttgggCCCGGCAGAATGGCTCCCGCaaag | ||
| **************************************************************************** | |||
| -------------------------------------------------------------------------------------- | ENSRNOT00000002886 ENSRNOG00000002114 | ||
| ..................................................................>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000042660 ENSRNOG00000031313 | ||
| rat | (((.(((.....((((.......((..(((.((((..............)))).)))..))))))...))).))). | 0.550 -13.65 |
| rat | chromosome:10:34275303:34275378:1 | Same_strand|Boundary_non-coding|ENSRNOT00000042660|ENSRNOG00000031313 ## Opposite_strand|Intronic_coding|ENSRNOT00000002886|ENSRNOG00000002114 ## ENSRNOG00000031313|protein_coding|| ## ENSRNOG00000002114|protein_coding|| |
block69733 [novel_Multihit_shortStem_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 | 0.667 | no | no | 0.50/0.50 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 25 | 5arm | 35 | nd | 0.40 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -GUAACAC-------------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| TGTAACACAGAGTGTCCCAG-------------------------------------------------------------------------------- | 20 | 1 | |
| rat | TGTAACACAGAGTGTCCCAGtgtcaaaatgtaacagagtgtcccagtgtaaatatgtaacacagagtcccagtgtcaatgtgttacacagagtgtcccag | ||
| **************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000007131 ENSRNOG00000005097 Cdkl3 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000059040 ENSRNOG00000005097 Cdkl3 | ||
| rat | ((..((((...((((..((.((.((...((..((...((((..((.........))..))))...))..)).)).))...))..))))...))))..)). | 0.700 -19.30 |
| rat | chromosome:10:37562908:37563007:1 | Same_strand|Intronic_coding|ENSRNOT00000007131|ENSRNOG00000005097 ## ENSRNOG00000005097|protein_coding|Cdkl3|Cyclin-dependent kinase-like 3 (EC 2.7.11.22) (Serine/threonine protein kinase NKIATRE). [Source:UniProtKB/Swiss-Prot;Acc:Q9JM01] ## {Repeats: trf 102 122 0 class=trf} |
block123194 [novel_Multihit_shortStem_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 | 0.100 | no | no | 0.59/0.59 | 22/22/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 0 | 14 | 5arm | 100 | nd | 0.32 | 3 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -CACCAGC------------------------------------------------------------------ | 2 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| CCACCAGCTCAATGGGGTCTAC---------------------------------------------------- | 22 | 2 | |
| rat | CCACCAGCTCAATGGGGTCTACatcatgggaaatcaccaccagctgagccttcttgttctcctccaaggtggtg | ||
| ************************************************************************** | |||
| rat | .(((((.((...(((((...(((....(((...(((........))).)))...)))...)).))))).))))) | 0.460 -20.70 |
| rat | chromosome:11:45639034:45639107:-1 | intergenic |
block131953 [novel_Multihit_shortStem_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 | 0.016 | no | no | 0.59/0.59 | 22/22/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 0 | 10 | 5arm | 100 | nd | 0.32 | 3 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -CACCAGC------------------------------------------------------------------ | 2 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| CCACCAGCTCAATGGGGTCTAC---------------------------------------------------- | 22 | 2 | |
| rat | CCACCAGCTCAATGGGGTCTACatcatggccaatcaccaccaactgagccttcttgttctccaccaaggtggtg | ||
| ************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000002439 ENSRNOG00000001792 Slc12a8 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000002440 ENSRNOG00000001792 Slc12a8 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000040167 ENSRNOG00000001792 Slc12a8 | ||
| rat | .(((((.((...(((((...(((....(((((............)).)))....))).)))))...)).))))) | 0.960 -21.50 |
| rat | chromosome:11:69023473:69023546:-1 | Same_strand|Intronic_coding|ENSRNOT00000040167|ENSRNOG00000001792 ## ENSRNOG00000001792|protein_coding|Slc12a8|Solute carrier family 12 member 8 (Cation-chloride cotransporter 9). [Source:UniProtKB/Swiss-Prot;Acc:Q8CJI3] |
block155263 [novel_Multihit_shortStem_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 | 0.107 | no | no | 0.59/0.59 | 22/22/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 0 | 14 | 5arm | 100 | nd | 0.32 | 3 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -CACCAGC------------------------------------------------------------------ | 2 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| CCACCAGCTCAATGGGGTCTAC---------------------------------------------------- | 22 | 2 | |
| rat | CCACCAGCTCAATGGGGTCTACatcatgggcaatcaccaccagctgagccttcttgttctccgccaaggtggtg | ||
| ************************************************************************** | |||
| ------------------------------------------------------------------------------------ | ENSRNOT00000033486 ENSRNOG00000028248 LOC498065 | ||
| rat | .(((((.((...(((((...(((....((((..(((........)))))))...))).)))))...)).))))) | 0.400 -22.20 |
| rat | chromosome:11:36471973:36472046:1 | Opposite_strand|Intronic_coding|ENSRNOT00000033486|ENSRNOG00000028248 ## ENSRNOG00000028248|protein_coding|LOC498065| |
block162492 [novel_Multihit_shortStem_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 | 0.158 | no | no | 0.50/0.50 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 3 | 4 | 5arm | 19 | nd | 0.40 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----CUUCACA---------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| ---GCTTCACAAGTTCCTGAGGA---------------------------------------------- | 20 | 1 | |
| rat | ctgGCTTCACAAGTTCCTGAGGAatggtggctttttatccaacctccagacattgagttaaaggccaga | ||
| ********************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000045521 ENSRNOG00000002145 NP_001099352.1 | ||
| rat | (((((((..(((..((..((((..(((...........))).))))..))..)))......))))))). | 0.780 -16.60 |
| rat | chromosome:11:56633115:56633183:1 | Same_strand|Intronic_coding|ENSRNOT00000045521|ENSRNOG00000002145 ## ENSRNOG00000002145|protein_coding|NP_001099352.1|transmembrane serine protease 7 [Source:RefSeq_peptide;Acc:NP_001099352] |
block185225 [novel_Multihit_shortStem_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 | 0.022 | no | no | 0.50/0.50 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 0 | 16 | 5arm | 22 | nd | 0.40 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -AGUUACU------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| AAGTTACTGCAGCAAAGCCC------------------------------------------------------------ | 20 | 1 | |
| rat | AAGTTACTGCAGCAAAGCCCcggcacacaagctacaaagttactgtagcaaagccccggcacacaagctacaaagttact | ||
| ******************************************************************************** | |||
| ------------------------------------------------------------------------------------------ | ENSRNOT00000001696 ENSRNOG00000001258 NP_001099382.1 | ||
| rat | .(((.(((..(((...(((..(((......((((((.......))))))...)))..)))......)))....))).))) | 0.450 -18.40 |
| rat | chromosome:12:14762913:14762992:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000001696|ENSRNOG00000001258 ## ENSRNOG00000001258|protein_coding|NP_001099382.1|sorting nexin 8 [Source:RefSeq_peptide;Acc:NP_001099382] ## {Repeats: trf 756 776 0 class=trf} |
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