other hairpins
novel_multiarm_nonpairedHIGH (4 loci)
sblock820 [novel_multiarm_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 | 0.464 | no | no | 0.50/0.90 | 19/23/0.83 | 0.7 0.0 0.0 | 1.0 0.0 0.0 | 3 2 1 | 0 0 0 | 3 1 1 | 0 0 0 | 9 33 5 | 25 5 31 | 5arm 5arm 3arm | 1 1 1 | 65 42 17 | 0.39 0.40 0.37 | 3 4 2 | 6 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | -----------CUUCCUU-------------------------------------------------------------------------------------------------- | 2 | novel | ||||
| seed | ----------------------------------CCGCCGC--------------------------------------------------------------------------- | 2 | novel | ||||
| seed | ---------------------------------------------------------------------------------------------CCUGGUG---------------- | 1 | novel | ||||
| seed | ----------ACUUCCU--------------------------------------------------------------------------------------------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S2 | T2S2 | T3S2 | T4S2 | T5S1 | |||
| ---------------------------------GCCGCCGCCGCCCCCAGCTC--------------------------------------------------------------- | 20 | - | - | 2 | - | - | |
| ----------ACTTCCTTCTTGAGCCCAGA-------------------------------------------------------------------------------------- | 20 | 1 | - | - | - | - | |
| --------------------------------------------------------------------------------------------GCCTGGTGGGCAGGGGTCC----- | 19 | - | - | - | - | 1 | |
| ----------ACTTCCTTCTTGAGCCCAGAGCC----------------------------------------------------------------------------------- | 23 | - | - | - | 1 | - | |
| ---------CACTTCCTTCTTGAGCCCAGAG------------------------------------------------------------------------------------- | 22 | - | 1 | - | - | - | |
| rat | tccagctctCACTTCCTTCTTGAGCCCAGAGCCGCCGCCGCCGCCCCCAGCTCccccgccgcggggagggcaccaggtgaggccagggtcggGCCTGGTGGGCAGGGGTCCtggga | ||||||
| ******************************************************************************************************************** | |||||||
| .......................................................>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000027641 ENSRNOG00000020393 Rhog | ||||||
| rat | (((((..(((.((.((..((...((((.((.((...(((..((((....(((((((((...))))).))))....)))).)))..)).))))))..))..)).)))))..))))). | 0.800 -55.50 | |||||
| rat | chromosome:1:159735467:159735582:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000027641|ENSRNOG00000020393 ## Same_strand|Boundary_non-coding|ENSRNOT00000027641|ENSRNOG00000020393 ## intergenic ## ENSRNOG00000020393|protein_coding|Rhog|ras homolog gene family, member G [Source:RefSeq_peptide;Acc:NP_001032272] ## {Repeats: G-rich 6 173 -1 class=Low_complexity,G-rich 27 51 -1 class=Low_complexity,G-rich 7 27 -1 class=Low_complexity} |
novel_shortStem_5varHIGH_bulgeHIGH (4 loci)
block325152 [novel_shortStem_5varHIGH_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 | 0.148 | no | no | 0.71/0.75 | 20/21/1.00 | 1.5 | 1.0 | 2 | 0 | 2 | 0 | 3 | 30 | 3arm | 1 | nd | 0.29 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ------------------------------------------------------------------------------------------------CCGUGGC--------------- | 1 | novel | |
| seed | ---------------------------------------------------------------------------------------------GGGCCGU------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S1 | |||
| -----------------------------------------------------------------------------------------------GCCGTGGCTGCCTAGGTCGC--- | 20 | - | 1 | |
| --------------------------------------------------------------------------------------------TGGGCCGTGGCTGCCTAGGTC----- | 21 | 1 | - | |
| rat | gtgcagaaaccccgcccagcccggccccaggcgctggccgcctccatcttgcctcctcctccgccaggcggagcgcggcctcttggtcagatTGGGCCGTGGCTGCCTAGGTCGCgct | |||
| ********************************************************************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000042547 ENSRNOG00000031864 RGD1563812_predicted | |||
| rat | ((((....(((.....(((((((((((..(((...((((((((((..((.((..........)).))..)))).)))))).....))).....)))))).)))))....))).)))). | 0.930 -53.40 | ||
| rat | chromosome:13:94053468:94053585:1 | Same_strand|Intronic_non-coding|ENSRNOT00000042547|ENSRNOG00000031864 ## ENSRNOG00000031864|protein_coding|RGD1563812_predicted|basic transcription factor 3 (Btf3), mRNA [Source:RefSeq_dna;Acc:NM_001008309] ## {SimpF: oe = 0.84 1 CpG} |
block1767282 [novel_shortStem_5varHIGH_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 | 0.777 | no | no | 0.33/0.42 | 21/24/1.00 | 1.3 | 2.3 | 3 | 0 | 1 | 0 | 2 | 9 | 3arm | 1 | nd | 0.29 | 4 | 3 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------------GAACAGG---------------------- | 2 | novel |
| seed | -----------------------------------------------------------------AGGAUUA------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ------------------------------------------------------------TGAACAGGATTACTTGAAAGA--------- | 21 | 2 | |
| ----------------------------------------------------------------CAGGATTACTTGAAAGATGGCAGA-- | 24 | 1 | |
| rat | gtttgaaacccataaccccaaaggtccacggctttgatgtggccaactgatgtcacgcaaTGAACAGGATTACTTGAAAGATGGCAGAtt | ||
| ****************************************************************************************** | |||
| rat | (((((....((((.....(((.(((((......(((.((((((........)))))))))......)))))..)))....))))))))). | 0.500 -16.20 |
| rat | chromosome:5:114565524:114565613:-1 | intergenic |
block2311571 [novel_shortStem_5varHIGH_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 | 0.031 | no | no | 0.35/0.44 | 20/25/0.80 | 1.8 | 0.6 | 5 | 0 | 2 | 0 | 2 | 8 | 5arm | 1 | nd | 0.25 | 4 | 5 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------AUGAGAU----------------------------------------------------------------- | 3 | novel | |
| seed | ---GGUGUAU---------------------------------------------------------------------- | 1 | novel | |
| seed | ----GUGUAUG--------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| -------TATGAGATCCAGTTTTGTTC----------------------------------------------------- | 20 | - | 3 | |
| ---GGTGTATGAGATCCAGTTTTGTTCC---------------------------------------------------- | 25 | 1 | - | |
| --TGGTGTATGAGATCCAGTTTTGT------------------------------------------------------- | 23 | - | 1 | |
| rat | gtTGGTGTATGAGATCCAGTTTTGTTCCgaagactgcttgcagtcaattgggatgtaaaagttaaaaatttcaaaaccaa | |||
| ******************************************************************************** | ||||
| rat | .(((((...((((((....(((((((((((.(((((....)))))..)))))))).)))........))))))..))))) | 0.970 -19.70 | ||
| rat | chromosome:8:57721976:57722055:-1 | intergenic |
block618481 [novel_shortStem_5varHIGH_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 | 0.691 | no | no | 0.39/0.40 | 20/23/1.00 | 1.5 | 0.0 | 2 | 0 | 1 | 0 | 1 | 22 | 3arm | 1 | nd | 0.26 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------------------GAACUAG------------- | 1 | novel |
| seed | -----------------------------------------------------------------------------ACAGAAC---------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ----------------------------------------------------------------------------AACAGAACTAGTCACAGTACTGA- | 23 | 1 | |
| -------------------------------------------------------------------------------AGAACTAGTCACAGTACTGA- | 20 | 1 | |
| rat | ttcagggccactacatgttttgtgaaggaggtaacgcttgttcagattttactcatcagaatgtacatttaactttAACAGAACTAGTCACAGTACTGAt | ||
| **************************************************************************************************** | |||
| rat | .((((.((.((((...(((((((....(((((......(((((.(((.......))).)))))........))))).)))))))))))....)).)))). | 0.680 -15.64 |
| rat | chromosome:17:50339005:50339104:-1 | intergenic |
novel_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (4 loci)
block712888 [novel_shortStem_5varHIGH_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 | 0.543 | no | no | 0.41/0.43 | 21/22/1.00 | 2.0 | 1.5 | 2 | 0 | 2 | 0 | 0 | -1 | 3arm | 1 | nd | 0.35 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -------------------------------------GGAAACC----------------- | 1 | novel | |
| seed | -----------------------------------------ACCACAC------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| ------------------------------------TGGAAACCACACACTGTCATTT--- | 22 | 1 | - | |
| ----------------------------------------AACCACACACTGTCATTTCTG | 21 | - | 1 | |
| rat | cagaggtgatttgatttgtatgacctgaacttgaccTGGAAACCACACACTGTCATTTCTG | |||
| ************************************************************* | ||||
| rat | ((((((((((......(((....((............)).....)))....)))))))))) | 0.840 -10.10 | ||
| rat | chromosome:18:63564292:63564352:-1 | intergenic |
block713078 [novel_shortStem_5varHIGH_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 | 0.255 | no | no | 0.29/0.52 | 20/26/0.80 | 2.8 | 4.4 | 5 | 0 | 1 | 0 | 2 | -4 | 3arm | 1 | nd | 0.45 | 5 | 5 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------ACAAAGU-------------------------- | 3 | novel |
| seed | --------------------------------------UCUUUGA----------------- | 1 | novel |
| seed | ----------------------------------GUUGUCU--------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ----------------------------TACAAAGTTGTCTTTGATAGA------------- | 21 | 2 | |
| ---------------------------------AGTTGTCTTTGATAGATCAGGCACCC--- | 26 | 1 | |
| -------------------------------------GTCTTTGATAGATCAGGCACCCC-- | 23 | 1 | |
| ----------------------------TACAAAGTTGTCTTTGATAG-------------- | 20 | 1 | |
| rat | ggaaacagccctgccacgaggaagacttTACAAAGTTGTCTTTGATAGATCAGGCACCCCcc | ||
| ************************************************************** | |||
| rat | .......((.(((...((((((.(((((....))))).))))))......)))))....... | 0.940 -12.40 |
| rat | chromosome:18:63573872:63573933:-1 | intergenic |
block2247863 [novel_shortStem_5varHIGH_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 | 0.048 | no | no | 0.50/0.50 | 20/24/1.00 | 3.0 | 1.0 | 2 | 0 | 2 | 0 | 0 | -1 | 5arm_loop | 1 | nd | 0.38 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -------CCCAAUC-------------------------------------- | 1 | novel | |
| seed | -GGUAAUC-------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| TGGTAATCCCAATCTGTGTCCTGG---------------------------- | 24 | - | 1 | |
| ------TCCCAATCTGTGTCCTGGAT-------------------------- | 20 | 1 | - | |
| rat | TGGTAATCCCAATCTGTGTCCTGGATgtaattcctggtgagggttggcacca | |||
| **************************************************** | ||||
| rat | .(((....(((((((....((.(((......))).))...))))))).))). | 1.000 -17.20 | ||
| rat | chromosome:7:112749976:112750027:1 | intergenic |
block2324756 [novel_shortStem_5varHIGH_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 | 0.386 | no | no | 0.35/0.45 | 20/26/0.80 | 4.4 | 6.0 | 5 | 0 | 1 | 0 | 4 | -2 | 3arm | 1 | nd | 0.38 | 4 | 5 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------CCAAUUU---------------------------- | 3 | novel |
| seed | -----------------------------------------------GAGAAUC---------------- | 1 | novel |
| seed | ---------------------------------------------AAGAGAA------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| ----------------------------------ACCAATTTCCTAAGAGAATC---------------- | 20 | 2 | |
| ----------------------------------ACCAATTTCCTAAGAGAATCAGGGTC---------- | 26 | 1 | |
| --------------------------------------------TAAGAGAATCAGGGTCCTTTCT---- | 22 | 1 | |
| ----------------------------------------------AGAGAATCAGGGTCCTTTCT---- | 20 | 1 | |
| rat | ccaggactcttgtttcctggctggtaagtgtgtgACCAATTTCCTAAGAGAATCAGGGTCCTTTCTaggg | ||
| ********************************************************************** | |||
| rat | ((((((((((.(((..((....((....((......))....))..))..))).)))))))).....)). | 0.890 -17.40 |
| rat | chromosome:8:72057425:72057494:-1 | intergenic |
miRNAunknown_Multihit_loopOverlap_randfoldOK (3 loci)
block285550 (miRNA) [miRNAunknown_Multihit_loopOverlap_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 | 0.38/0.38 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 8 | -1 | 3arm | 130 | nd | 0.14 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------ACAUACA--------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| -------------------------------------AACATACATACACACACACAC-------- | 21 | 1 | |
| rat | tgtgtgtgtgtgtttgtctatgcatgtaaggcatataAACATACATACACACACACACacacacac | ||
| ****************************************************************** | |||
| ---------------------------------------------------------------------------- | ENSRNOT00000041670 ENSRNOG00000031539 | ||
| ---------------------------------------------------------------------------- | ENSRNOT00000047976 ENSRNOG00000031539 | ||
| ..>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000063388 ENSRNOG00000041635 | ||
| rat | (((((((((((((.(((.((((.((((...........)))).)))).))).))))))))))))). | 1.000 -29.40 |
| rat | chromosome:13:1606870:1606935:1 | Opposite_strand|Intronic_coding|ENSRNOT00000041670|ENSRNOG00000031539 ## Same_strand|Exonic_non-coding|ENSRNOT00000063388|ENSRNOG00000041635 ## ENSRNOG00000031539|protein_coding|| ## ENSRNOG00000041635|miRNA|| ## {Repeats: dust 1606954 1606965 0 class=dust,trf 39 58 0 class=trf,(CA)n 2 21 1 class=Simple_repeat,(CA)n 2 59 1 class=Simple_repeat} |
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