other hairpins
novel_loopOverlap_nonpairedHIGH_bulgeHIGH (20 loci)
block2185 [novel_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 | 0.659 | no | no | 0.43/0.43 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 30 | -3 | 3arm_loop | 1 | nd | 0.33 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------UCGGCCA------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ----------------------------------------------TTCGGCCAAGGAATCAATATG------------------------------ | 21 | 1 | |
| cbriggsae | cagtttccagaagtccttatcttgtgatcatatttcttgtcagtgtTTCGGCCAAGGAATCAATATGattaaaaatattttttaacgtttgcatact | ||
| ************************************************************************************************* | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_066961 | ||
| cbriggsae | .(((...((((.((..........(((((((((((((((((........))).)))))....))))))))).............)).))))...))) | 0.790 -12.80 |
| cbriggsae | chromosome:chrIV:8522779:8522875:-1 | Same_strand|Intronic_non-coding|NM_066961|W09D10.4 ## {Repeats: no} |
block2430 [novel_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 | 0.206 | no | no | 0.25/0.25 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 38 | -1 | 5arm_loop | 1 | nd | 0.45 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------AUUGAUU------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| --------------------------------------TATTGATTGTAATGAAGTTC------------------------------------------------------------ | 20 | 1 | |
| cbriggsae | aaattttgatttaagatttttatttaatttttaggcgaTATTGATTGTAATGAAGTTCaaaggacatcaaaagagatatatggaaaaaaattgaacggtgaaaagaaattatagattt | ||
| ********************************************************************************************************************** | |||
| -------------------------------------------------------------------------------------------------------------------------------- | NM_070351 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001090906 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_182271 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001102902 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_113688 | ||
| cbriggsae | ((((((((((((....((((((((((((((((.....(((((..((....(((.(((.....))).))).))..)))))......)))))))))...))))))).)))))).)))))) | 0.500 -15.40 |
| cbriggsae | chromosome:chrIV:2018125:2018242:1 | Opposite_strand|Intronic_non-coding|NM_070351|LLC1.2 ## Same_strand|Intronic_non-coding|NM_001090906|EEF1D ## Same_strand|Intronic_coding|NM_182271|K02E7.4 ## {Repeats: no} |
block2927 [novel_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 | 0.317 | no | no | 0.38/0.38 | 24/24/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 30 | -4 | 5arm_loop_3arm | 2 | nd | 0.38 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------AAGAAAG--------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ------------------------------TAAGAAAGGAGAAGGCTTAGTAGT----------------------------------------------------------- | 24 | 1 | |
| cbriggsae | gttttacatcgatgttgtattcagataatcTAAGAAAGGAGAAGGCTTAGTAGTttagactgttcttctattaaataatctgacgtgatattagtttaattcattgtgagata | ||
| ***************************************************************************************************************** | |||
| cbriggsae | ((((((((..(((((((...((((((.((.(((...(((((((((..(((....)))..)).))))))).))).)).))))))..)))))))............)))))))). | 0.510 -18.84 |
| cbriggsae | chromosome:chrM:2607:2719:-1 | {Repeats: no} |
block3001 [novel_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 | 0.498 | no | no | 0.50/0.50 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 10 | -4 | 5arm_loop_3arm | 1 | nd | 0.40 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------CUCCAAC------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ----------TCTCCAACGGCAAGGATCTT------------------------------ | 20 | 1 | |
| cbriggsae | gtgagaaaggTCTCCAACGGCAAGGATCTTttcgtgttcaatgaggaggcaagaaggaac | ||
| ************************************************************ | |||
| cbriggsae | .........((((((...((((.(((....))).))))......)))))).......... | 0.540 -11.20 |
| cbriggsae | chromosome:chrUn:1308262:1308321:-1 | {Repeats: no} |
block3043 [novel_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 | 0.775 | no | no | 0.45/0.45 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 20 | -2 | 5arm_loop | 5 | nd | 0.45 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------AAUAUCG------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| --------------------GAATATCGAAACAACTGCCTCG----------------------------------------------- | 22 | 1 | |
| cbriggsae | gatgccgtcccccgaagtccGAATATCGAAACAACTGCCTCGatgggcctggtcttctcgaagcactcggttcttctctggcgagaatc | ||
| ***************************************************************************************** | |||
| cbriggsae | (((..((((....((((.((((...((((....(((((((....))))..)))....)))).....))))..))))...))))...))) | 0.690 -20.60 |
| cbriggsae | chromosome:chrUn:2458642:2458730:-1 | {Repeats: no} |
block3494 [novel_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 | 0.317 | no | no | 0.38/0.38 | 24/24/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 30 | -4 | 5arm_loop_3arm | 2 | nd | 0.38 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------AAGAAAG--------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ------------------------------TAAGAAAGGAGAAGGCTTAGTAGT----------------------------------------------------------- | 24 | 1 | |
| cbriggsae | gttttacatcgatgttgtattcagataatcTAAGAAAGGAGAAGGCTTAGTAGTttagactgttcttctattaaataatctgacgtgatattagtttaattcattgtgagata | ||
| ***************************************************************************************************************** | |||
| cbriggsae | ((((((((..(((((((...((((((.((.(((...(((((((((..(((....)))..)).))))))).))).)).))))))..)))))))............)))))))). | 0.510 -18.84 |
| cbriggsae | chromosome:chrUn:4252453:4252565:1 | {Repeats: no} |
Additional hairpins
block3588 [novel_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 | 0.881 | no | no | 0.54/0.54 | 24/24/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 10 | -2 | 5arm_loop | 1 | 34 | 0.50 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------GCGAUGA------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ----------CGCGATGATGCGGCCATGACAATT-------------------------------------------- | 24 | 1 | |
| cbriggsae | ttgtttcttgCGCGATGATGCGGCCATGACAATTataattttttcaggaactcgccgccaagcacccagctgacccaa | ||
| ****************************************************************************** | |||
| ---------------------------------------------------------------------------------------- | NM_202770 | ||
| ---------------------------------------------------------------------------------------- | NM_033150 | ||
| ---------------------------------------------------------------------------------------- | NM_080681 | ||
| ---------------------------------------------------------------------------------------- | NM_012929 | ||
| ---------------------------------------------------------------------------------------- | NM_001855 | ||
| ---------------------------------------------------------------------------------------- | NM_007736 | ||
| ---------------------------------------------------------------------------------------- | NM_009928 | ||
| ---------------------------------------------------------------------------------------- | NM_031362 | ||
| ---------------------------------------------------------------------------------------- | NM_001113224 | ||
| ---------------------------------------------------------------------------------------- | NM_031366 | ||
| ---------------------------------------------------------------------------------------- | NM_001081764 | ||
| ---------------------------------------------------------------------------------------- | NM_001002980 | ||
| ---------------------------------------------------------------------------------------- | NM_001046199 | ||
| ---------------------------------------------------------------------------------------- | NM_204426 | ||
| ---------------------------------------------------------------------------------------- | NM_001006951 | ||
| ---------------------------------------------------------------------------------------- | NM_001083388 | ||
| ---------------------------------------------------------------------------------------- | NM_001006951 | ||
| ---------------------------------------------------------------------------------------- | NM_204164 | ||
| ---------------------------------------------------------------------------------------- | NM_031365 | ||
| ---------------------------------------------------------------------------------------- | NM_001844 | ||
| ---------------------------------------------------------------------------------------- | NM_080680 | ||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>> | NM_069021 | ||
| ---------------------------------------------------------------------------------------- | NM_000092 | ||
| ---------------------------------------------------------------------------------------- | NM_000091 | ||
| ---------------------------------------------------------------------------------------- | NM_001001135 | ||
| cbriggsae | .((..((..((....((..(((((..(((.((........)).))).......)))))....))....)).))..)). | 0.830 -12.10 |
| cbriggsae | chromosome:chrUn:6407300:6407377:1 | Opposite_strand|Intronic_coding|NM_202770|AT4G01985 ## Same_strand|Intronic_coding|NM_069021|D2096.8 ## {Repeats: no} |
block3596 [novel_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 | 0.661 | no | no | 0.39/0.39 | 23/23/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 31 | -4 | 3arm_loop | 1 | nd | 0.57 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ----------------------------------------UGAUGAC---------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| ---------------------------------------GTGATGACATGTTCGAGTTTGTT------------------------------- | 23 | 1 | |
| cbriggsae | atatataatgcgaacttcagagagtgaacctaccaaccaGTGATGACATGTTCGAGTTTGTTctgtaaagtagaatttttgtattgatgtgtg | ||
| ********************************************************************************************* | |||
| ------------------------------------------------------------------------------------------------------- | NM_202770 | ||
| cbriggsae | (((((((((((((((((...((((..(((..((....((....))....))....)))..))))...)))).......)))))))).))))). | 0.400 -14.71 |
| cbriggsae | chromosome:chrUn:6571213:6571305:1 | Opposite_strand|Intronic_coding|NM_202770|AT4G01985 ## {Repeats: no} |
block4116 [novel_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 | 0.137 | no | no | 0.52/0.52 | 21/21/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 32 | -3 | 5arm_loop | 1 | nd | 0.43 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------ACAGCAU---------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| --------------------------------AACAGCATGGGTTTCTGGACG--------------------------------------------- | 21 | 1 | |
| cbriggsae | attgcgaagaggacgcctggaggacccttaacAACAGCATGGGTTTCTGGACGagctatagccagtgcttcctccggtgttaagaacacttttgtgat | ||
| ************************************************************************************************** | |||
| ------------------------------------------------------------------------------------------------------------ | NM_017182 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_011821 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_134696 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_001040230 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_134696 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_134696 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001041377 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001042144 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_072974 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_001079844 | ||
| ------------------------------------------------------------------------------------------------------------ | NM_182305 | ||
| <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<------------------------------------------<<<<<<<<<<<<<<<<< | NM_073060 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_180608 | ||
| cbriggsae | ((..(((((..((((((.((((((...........(((((.((((..(((.....))).)))).)))))))))))))))))........)))))..)) | 0.770 -29.60 |
| cbriggsae | chromosome:chrV:11085025:11085122:1 | Opposite_strand|Intronic_non-coding|NM_017182|H2afy ## Opposite_strand|Intronic_coding|NM_134696|CG2839 ## Same_strand|Intronic_coding|NM_001041377|ECU05_1680 ## Opposite_strand|Boundary_coding|NM_073060|C50F4.16 ## Same_strand|Intronic_non-coding|NM_180608|AT1G07820 ## {Repeats: no} |
block1458 [novel_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 | 0.734 | no | no | 0.52/0.52 | 21/21/1.00 | 0.0 | 0.0 | 2 | 0 | 1 | 0 | 29 | -4 | 3arm_loop | 8 | nd | 0.52 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------UCCGAUC------------------------------------------ | 2 | novel |
| len | cloning frequencies | ||
| AF16 | |||
| --------------------------------------------GTCCGATCTGGCAAGTTAAGC----------------------------- | 21 | 2 | |
| cbriggsae | gatgtgatgcttacgaccatatcacgttgaatgcacgccatcccGTCCGATCTGGCAAGTTAAGCaacgttgagtccagttagtacttggatcg | ||
| ********************************************************************************************** | |||
| -------------------------------------------------------------------------------------------------------- | NM_001092591 | ||
| -------------------------------------------------------------------------------------------------------- | NM_177186 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001030661 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001027534 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_001027535 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | NM_066897 | ||
| cbriggsae | (((.(((((((.(((((((....((((((...((..((((((......))..))))..))....)))))))).)))..)).)))).))).))). | 0.500 -20.70 |
| cbriggsae | chromosome:chrIII:8638808:8638901:-1 | Opposite_strand|Intronic_non-coding|NM_001092591|MGC81879 ## Same_strand|Intronic_non-coding|NM_001030661|SETD1B ## {Repeats: no} |
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