Perfect mature and star arms

Divergent mature arm

Divergent star arm

Divergent mature and star arms

Sophophoran miRNAs and mirtrons

Perfect mature and start

Divergent mature

Divergent star

Divergent mature and star

dme-mir-1004 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:3767606-3767703 + GTGGCTGGACAAAAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCACGGTGCTTGTA
droSim1 chr2L:3722744-3722841 + GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA
droSec1 super_5:1870685-1870782 + GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCTGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA
droYak2 chr2L:3769291-3769388 + GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCATTCTCTCACATCACTT---CCCTCACAGTGCGCGATGTTTGTA
droEre2 scaffold_4929:3814030-3814127 + GTGGCTGGACAAGAGGT-TGGGGG--ACATTGATCTCGGAGACG-------------G-------------------------CGGTTTAACT--------------------GATCCAATCTCTCACATCACTT---CCCTCACAGTGCGCGGTGCTTGTA
droAna3 scaffold_12916:5837615-5837739 + GTGGCTGGACAAGAGGT-GAGATAACACGTT-----CTAACCAACTGATATGAAACTA------CGAATGTTTTTATCGCTGTCGATTCGAAC--------------------GA-----TCTCTCATATAACCGTACCTATTACAGTGCGCGGTGTCTGTA
dp4 chr4_group3:4962038-4962146 - GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAAAAAAA----------A----------------------CCAT-T--AACGTGAGG--------------CTTCG-TTTCTCACATCATTT-TCCCCTCACAGTGCCCGGTGCCTGTA
droPer1 super_1:6454682-6454788 - GTGGCTGGACAAGAGGTGTGTGGG--ATACTGATTTTAGAGAAAA------------ATAA----------------------CCAT-T--AACGTGAGG--------------CTTCG-TTTCTCACATCATTT-TCCCCTCACAGTGCCCGGTGCCTGTA
droWil1 scaffold_180708:9298763-9298869 - ATGGTTGGATAAAAGGT--GGGGT--ACAACAACAACAAAAAT--------------A-------------------------CGAATATAATGGT-AAACTCTC-------TCTCTCAT---CTCTTATCATTT-TCTCCTCACAGTGCGCGTTCACTTTA
droVir3 scaffold_12963:14941260-14941364 - GTGGCTGGACAAAAGGT-TGGGGC--ACATTGATCTTCAAGAAACTCACAGCCA---G-------------------------CTCATT------------------------TACTCACTCTCTCTC-TCTTCT-CTCCCTCACAGTGCCCGCTGTCTGTA
droMoj3 scaffold_6500:17898451-17898546 - GTGGCTGGACAAGAGGT-AATTGATCACTCCTATCTCTGTCT-----------------------------------------CTCTTTCTCT--------------------TTCTGACTCTCTCCCA-CTCTT---TATTTGTAGTGCTCGCTGCCTGTA
droGri2 scaffold_15126:4437367-4437497 + GTGGCTGGACAAAAGGT-AGGAGAGCACATTGATCTTGAAGAAACTTGCAGAAA---A--CTCTCTAATACTCTCAC---------TCCATTT------------CTCTAACTCTCCCTCTCTCTTATTTAACTT---C-ATTTTAGTGCGCGCTGTTTATA

dme-mir-1014 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:27579231-27579328 - TGGCCTTTTCTCAAGGTATAATGGAAATAGATTTTAAT------CGCAGGC--------------GCGTCAGTGGT---------------TGA--ATTAAAATTCATTTTCATTTGCAGTTACTGGATACAACA
droSim1 chr3R:27196220-27196317 - TGGCCTTCTCCCAAGGTATAATGGAAATAGATTTTAAT------CGCTGGC--------------GCGTCAGTGGT---------------TGA--ATTAAAATTCATTTTCATTTGCAGTTACCGGATACAACA
droSec1 super_31:233822-233919 - TGGCCTTCTCCCAAGGTATAATGGAAATAGATTTTAAT------CGCTGGC--------------GCGTCAGTGGT---------------TGA--ATTAAAATTCATTTTCATTTGCAGTTACCGGATACAACA
droYak2 chr3R:28513868-28513965 - TGGCCTTTTCCCAAGGTATAATGGAAATAGATTTTAAT------CGCAGGC--------------GCGTCAGTGGT---------------TGA--ATTAAAATTCATTTTCATTTGCAGTCACCGGATACAACA
droEre2 scaffold_4820:396401-396498 + TGGCCTTTTCGCAAGGTATAATGGAAATAGATTTTAAT------CGCAGGC--------------GCGTCAGTGGT---------------TGA--ATTAAAATTCATTTTCATTTGCAGTCACCGGATACAACA
droAna3 scaffold_12911:3510618-3510715 + TGGCATTCTCCCAAGGTATAATGAAAATTGATTTTAAT------CACACGG--------------ATCGGAGTGGC---------------AAA--ATTAAAATTCATTTTCATTTGCAGTCACGGGATACAATG
dp4 chr2:14711225-14711322 + TGGCCTTCTCCCAAGGTACAATGGAAATAGATTTTAAT------CGGGTTT--------------CGTTTGGCGGT---------------GAA--ATTAAAATTCATTTTCATTTACAGTGACCGGCATCAACA
droPer1 super_0:5703122-5703219 - TGGCCTTCTCCCAAGGTACAATGGAAATAGATTTTAAT------CGTGTTT--------------CGTTTGGCGGT---------------GAA--ATTAAAATTCATTTTCATTTACAGTGACCGGCATCAACA
droWil1 scaffold_181130:8196915-8197021 + TGGCATTTTCTCAAGGTGAAATGAAAATAAATTTTAATTCGGATAGAAAGCTAAT--CTAAT--------TGT-AT---------------TGC--ATTAAAATTCGTTTTCATTTGCAGTATCTGGTCTAAATA
droVir3 Unknown TGGCATTCTCTCAAGGTAT---GTACATATTTTTAAAT-----------------------------------------------------TTA--ACCAGTATTTACTTTTGTTCACAGTGACCGGCATAAATA
droMoj3 scaffold_6540:30646887-30646982 + TTGCCTTCTCTCAAGGTAAG---TGC------TTTGACTTAGCA--AAAGTTATTTACTAGAAGTGTTTCTCTGC----------------------------TTTCGTTTCATCCACAGTGACCGGTGTAAATA
droGri2 scaffold_14624:997050-997159 - TGGCCTTTTCACAGGGTATGCAGAGCTTG-ATTAT--T------TGATTGC--------------TCATTT--TACACATTATAAATAAATTATATATATATATACATATGTTATTGCAGTGACTGGCGTAAATA

dme-mir-1015 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:20164939-20165032 + TCATGGGCTACGACGGTGAGTG-----ATGCTCCAGTTAGCTTGGCTGAGTG-------AGGATTTA------------AGTCCTGGGAC-----ATCTCTCTTGCAGTCAAGATCCTGAAAG
droSim1 chr3R:19998542-19998635 + TCATGGGCTACGACGGTGAGTG-----ATGCTCCAGTTAGCTTGGCTGAGTG-------AGGATTTA------------AGTCCTGGGAC-----ATCTCTCTTGCAGTCAAGATCCTAAAAG
droSec1 super_0:20503496-20503589 + TCATGGGCTACGACGGTGAGTG-----ATGCTCCAGTTAGCTTGTCTGAGTG-------AGACTTTA------------AGTCCTGGGAC-----ATCTCTCTTGCAGTCAAGATCCTAAAAG
droYak2 chr3R:26340571-26340664 - TCATGGGCTACGACGGTGAGTG-----ATGCTCCAGATAGCTTGACTGGGTG-------AGGATTTA------------AGTCCTGGGAC-----ATCTCTCTTGCAGTCAAGATCCTGAAAC
droEre2 scaffold_4820:7895693-7895786 - TCATGGGCTACGACGGTGAGTG-----ATGCTCCAGATAGCTTGGCTGAGTG-------AGGACTTA------------AGTCCTGGGAC-----ATCTCTCTTGCAGTCAAAATCCTAAAAC
droAna3 scaffold_13088:204245-204339 + TCATGGGCTACGACAGTGAGTG-----ATGCTCCAGATAGGTTGGCTTAGGAAGTC------ATTAA------------AGCCCTGGGAT-----GTCTCTCTTGCAGTTAAGATCCTGAAAC
dp4 chr2:18646206-18646298 - TGATGGGCTACGATGGTAAGAG--C---TAGC---------C-----ACACAAATTATTAGTATT----------TCTATTTCTCAAAATATTT-CTTTCTTTTGCAGTCAAGATACTAAAGC
droPer1 super_3:1376406-1376498 - TGATGGGCTACGATGGTAAGAG--C---TAGC---------C-----ACACAAATTATTAGTATT----------TCTATTTCTCAAAATATTC-CTTTCTTTTGCAGTCAAGATCCTAAAGC
droWil1 scaffold_181108:4541725-4541808 - TAATGGGTTATGACAGTAAGTTAGC---TGGTAAAGTTGATTTCT------------------TTTA------------ACTAATGT-GT-----ATATTTACTGTAGTAAGAATTTTAAAGC
droVir3 scaffold_13047:3497490-3497590 + TTGTGGGCTACGAAAGTAAGTA------TTTACTTGATAACTCG------TT-------AAACCTAAAG--TCTGTTAACCACTCTTATAACTATG-CATCTAAACAGTTAAGGTACTAAAGA
droMoj3 scaffold_6540:20508341-20508431 + TAATGGGCTACGATGGTAAATG--CTGATGTTCATGAATATTTATCCAAGTA-------ATTT------------------CTTTACGTT-----GTCTTCTTAACAGTTAAGGTTTTGAAAA
droGri2 scaffold_14906:156637-156731 + TGGTGGGCTATGATAGTGAGTT--G--ATTCTATT---------------GTAATAATCA------AATCGTTTTTGTTATTTTATAAACA---TGCCATTTTAACAGTCAAGATACTCAAGA

dme-mir-2495 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5068555-5068699 + CGTATGTAT---------------------TATACATGTATGATCACATTGGCTTGTGGGCGTGG--CAC-TTCAATTGGGCTGACTTTGCCTGGCTGGAAAAGCGGCA-CCTAATTGAAATGC-CCGC---CGATCAGT-GCTCGATTACGAT------CGACACAAGCGACATT---TTCGT-----------------
droSim1 zds89d09.b1:77-211 + CATACGTACAT----------------------ACATGTATGATC-CATTGGCTTGTGGGCGCGG--CAC-TTCAATTGGGCTGACTTTGCCTGGCTGGAAAAGCGGCA-CCTAATTGAAATGC-CCGC---CAATC---------------------------------GACATT---TTCGTTTAATTTCGTTTCTAGC
droSec1 super_5:3155468-3155580 + CGTACAT--------------------------ACATGTATGATC-CATTGGCTTGTGGGCGTGG--CAC-TTCGATTGGGCTGACTTTGCCTGGCTGGAAAAGCGGCA-CCTAATTGAAATGC-CCGC---CAATC---------------------------------GACATT---TTCGT-----------------
droYak2 chr2L:10456243-10456376 - TATAC---------------------------------TATAAT--CATTGGCTTGTGGGCGTGG--CAC-TTCAATTGGTCTGACTTTGCCCGACTGGAAAAGCGGCA-CCTAATTGAAATGC-CCGCCA-CAATCAGT-GCTCGATCGTGAT------CGACACAAGCGACATT---TTCGT-----------------
droEre2 scaffold_4929:5148425-5148554 + TTTATG------------------------------------ATC-CATTGGCTTGTGGGCGTGG--CAC-TTCAATTGGTCTGACTTTGCCCGGCTGGAAAAGCGGCA-CCTAATTGAAATGC-CCGC---CAAACAGT-GCTCGACCATGAT------CGGCACAAGCGACATT---TTCGT-----------------
droAna3 scaffold_12916:13706207-13706309 + CATATG-----------------------------------------------TTGTGGGCGTGG--CAC-TTCAATTGGTCTAACTTTCCCGGAATGGTAAAGCAGTCACTTAATTGAAATGC-CCGC---CAATC---------------------------ACGAGCAACATTTTTTTCGT-----------------
dp4 chr4_group4:1588263-1588389 + TGTCTGTGTGCG----------------------------------CATTGGGTTG-GGGCGTGG--CAC-TTCAATTTGGC--GCTTTGCCTGGCTGTAAAAGCTGCA-ACTAATTGAAATGT-CCGC---CAATCAATTAAGCAA---TAAA------CAACATAAGCAACACT---TTCGA-----------------
droPer1 super_10:591769-591895 + TGTCTGTGTGCG----------------------------------CATTGGGTTG-GGGCGTGG--CAC-TTCAATTTGGC--GCTTTGCCTGGCTGTAAAAGCTGCA-ACTAATTGAAATGT-CCGC---CAATCAATTAAGCAA---TAAA------CAACATAAGCAACAAT---TTCAA-----------------
droWil1 scaffold_180703:1359544-1359639 + TTCACAC----------------------------------------ATTCGTTTTTGTCTATGG--TATTTTCAATTTGGCTC-CTTTATCTGGCTGAAAAAGCTGCA-ACTAATTGAAATGC-CCAT---TTAAC-------------------------------------TT---TATAT-----------------
droVir3 scaffold_12963:10059299-10059444 - CGTATGTGTGTGTGTGTGTGTGTCTGTGTCTGTGTTTGTGTGTGTGCTTTTGATTGAGAACGTTT--CAT-TTCAATTTGGC--GCTTTGCCTGGCTGGAAAAGCTGCA-TTTAATTGAAATGC-GCGTCGCTAAT-AA---TTC-------------------------AATAATT--TATTA-----------------
droMoj3 scaffold_6500:1220428-1220559 + TTTGAGT----------------------------------------ATCA-TTTTAGGGCGTGTTCCAT-TTCAATTTGGC--GCTTTGCCTGGCTGGAAAAGCTGCA-TTTAATTGAGATGC-GCGT---CGACATTTTATTCGATTACATTTAGTTTAATTACAAGAAATATT---TAAGC-----------------
droGri2 scaffold_15252:11801593-11801729 + TGTGTGTGTGTG--------CTTCTCTCTCTATCTCTGTATCTCTCTCTCTGGTTGAGGGCGTTC--CAT-TTCAATTTGGCGCTTTTTGTCTGGCTGGAAAAGCTGCACATTAATTGAAATGTCGCGTCGTTAATCAACT--------------------------------AAT---TT-TG-----------------

dme-mir-2499 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19451026-19451151 + CTTTGGGCGTTCGCCTCCTTGCTGT------GGGTGTGGT--------TGCGTGCGTAGACGTCAGCGCAATGCCTTTGTTTGGCGGCATGCG-G---ATGACAT-----------------TCACGTCCGTATCCGCACACACATCCGCATCCATATA-----------------------------TC------
droSim1 chrX:15016847-15016968 + CTTTGGGCGTTCGCCTCCTTGCTGT------GGG--TGGG--------TGCAGGCGTGGACGTCAGCACAATGCCTTTGTTTGGCGGCATGTG-G---ATGACGT-----------------TCATGTCCACATCCGCACACACATCCGCATCCATA-------------------------------TC------
droSec1 super_8:1733318-1733439 + CTTTGGGCGTTCGCCTCCGTGCTGT------GGG--TGGG--------TGCAGGCGTGGACGTCAGCACAATGCCTTTGTTTGGCGGCATGTG-G---ATGACGT-----------------TCATGTCCACATCCGCACACACATCCGCATCCATA-------------------------------TC------
droYak2 chrX:11887438-11887559 - CTTTGGGCGCTCTCCTCCTTGCTGT------GAG--CGGG--------TGCGTGCGTTGACGTCAGCGCAATGCCTTTGTTTGTCGGCATGCG-G---ATGGCGT-----------------ACACGTCCACATCCGCACACACACACGCATCTGTA-------------------------------TC------
droEre2 scaffold_4690:9687367-9687488 + CTTTGGGCGCTCCTTTCCTGGCTGT------GAG--TGGG--------TGCGTGCGTTTATGTCAGCGCAATGCTTTTGTTTGGCGGCATGCG-G---ATGGCAT-----------------ACACGTCCACATCCGCACACACATCCGCATCCGTA-------------------------------TC------
droAna3 scaffold_13417:2469661-2469798 - CGA-----------CTT----CTGTGTGT--GTGTGCGTG--------TGTTGGCGTTGGCGTCAGCGCAATGCCATTGTTTGCCGGCATGCG-G---CTGGCGT-----------------GCACGTCTACATCCGCACCTGCATCCACAT------AGCAGCTGCAACAACAAACACGGCACTCCGTC------
dp4 chrXL_group1e:12520639-12520746 - TTTTTGA-------------GT-----GTGTGTT--TGTATTTATTTATTTTTGTGTGGACTTCACTGCATTGTCATTGATTGGCGGC-----------TGTCGT-----------------GCAGGACAATGT--GAAACATCATTCGACA-CAAA-------------------------------TC------
droPer1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_13042:909712-909778 - A----------------------------------------------------------------------GGCCATTGTT--ATGGCAGGTGGGCAGGTGTCAT-----------------CAATAGCCGCATCC--AGGCACATCCGCATCCACA-------------------------------T-------
droMoj3 scaffold_6328:2902676-2902778 - CTGTGGGCTTTAGGCCAATTGATAT------GGT--CGTG--------T------------------------------------GGCATGAG-G---CAGGTGTCAGCAGGTGGCAGCAATTCGGAACCAT-TGTGTGCCCACATCCGCATTTGCA-A-----------------------------GC------
droGri2 scaffold_15081:2046312-2046418 - TGTTGCA-------------GTTGC------ATT--TGAA--------TGTAGGTGTTGTCATTA-------------TTTTGAGGGCATGCG-G---CAGGTGTCAACG------------CCACGTCCTCATTTGCATCCGCTTCCGCATCCGCA-------------------------------TCCGCTGT

dme-mir-2535b mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:21169287-21169387 - ACGTACATCACTAAGGTAAGTGACTATGCCG-----GGATTGTGGTTAT---TGAACTTAGCG----TCTCCACT--CACGGC-ATTT--CAT------------TCACTTGCAGTACATCACCGCCGAG
droSim1 chrX:12918307-12918407 + ACGTACATCACCAAGGTAAGTGACTATGCCG-----GGATTGTGGTTAT---TATACTTAGCG----TCTCCACT--CACGGC-ATTT--CAT------------TCACTTGCAGTACATCACCGCCGAG
droSec1 super_8:3476294-3476394 - ACGTACATCACCAAGGTAAGTGACTATGCCG-----GGATTGTGGTTAT---TATACTTAGAG----TCTCCACT--CACGGC-ATTT--CAT------------TCACTTGCAGTACATCACCGCCGAG
droYak2 chrX:20345010-20345110 - ACGTACATCACCAAGGTAAGTGACAATGCCG-----GGATTGTGGTTAT---TGAAAATACCT----TCTCCACT--CACGGC-ATTA--TAT------------TCACTTGCAGTACATCACCGCCGAG
droEre2 scaffold_4690:17698644-17698744 - ACGTACATCACCAAGGTAAGTGACAGTGCCG-----GGATTGTGGTTAT---TAAAAATACCT----TCTCCACT--CACGGC-ATTT--CAT------------TCACTTGCAGTACATCACCGCCGAG
droAna3 scaffold_13334:1053972-1054064 + TCTGGCTACCGATTGGTGAGTTATCG----A-----CATTATCGATTTCTATCGATTT----------------------------CTATCGAGTTAAAAAAATCCCCTTTCCAGATCTGTGTCAAACGC
dp4 chrXL_group1a:9058690-9058790 + ACGTACATCACAAAGGTAAGTGGCTATGCCGCGACGGGATTG------------AACCTCTCATCTCTCACCTCT--CACGGC-ATAT--CAA------------TCACTTGCAGTACATCACCGCCGAG
droPer1 super_15:1452144-1452244 + ACGTACATCACAAAGGTAAGTGGCTATGCCGCGACGGGATTG------------AACCTCTCATCTCTCACCTCT--CACGGC-ATAT--CAA------------TCACTTGCAGTACATCACCGCCGAG
droWil1 Unknown ACTTACATTACCAAGGTGAGT----------------------------------------------------------------TTT--GTT------------TTTCTTACAGTACATTACATCGGAG
droVir3 Unknown ACGTGCATTACCAAGGTAAGC-----------------------------------------------CTCTTCT--CACGAC-ATCCCTTAA------------TCCCTTGCAGTACGTTGCCAACGAA
droMoj3 Unknown ACATGCATAACCAGGGTAAGTGCTCA-GCTG-----CTtTTtTttTttT---tgttTTTTttT-------------------T-tTTT--CGT------------CGCCTTACAGTACATCTCCAAGGAG
droGri2 scaffold_15203:11132616-11132716 + ACCTACATTACTAAGGTATGT------TCGA-----TGATTTTGGTTTTTTTTGGCTTTACTT----TCACCGTTTACACGACAATTT--CAT------------CCTTTTGCAGTACGTGACCAGTGAG

dme-mir-2b-1 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:8258601-8258707 - CAAAATAACT-------AAAAACTTCAACTGTCTTCA-----------------------------------------AAGTGGCAGTGACATGTTGTC----------------------------AACAATATTCATATCACAGCC-A-GCTTTGAGGAGCGTTGCGGTTTTTCT---------CGTCCGGC-----
droSim1 chr2L:8042700-8042806 - CAAAAGAACT-------GAAAACTTCAACTGTCTTCA-----------------------------------------AAGTGGCGGTGACATGTTGTC----------------------------AACAATATTCATATCACAGCC-A-GCTTTGAGGAGCGTTGCGGTTTTTCA---------CGCCCGAC-----
droSec1 super_3:3755253-3755359 - CAAAAGAACT-------GAAAACTTCAACTGTCTTCA-----------------------------------------AAGTGGCGGTGACATGTTGTC----------------------------AACAATATTCATATCACAGCC-A-GCTTTGAGGAGCGTTGTGGTTTTTCT---------CGCCCGCC-----
droYak2 chr2L:10894231-10894336 - GGAAAAAG-T-------GAAAACTTCAACTGTCTTCA-----------------------------------------AAGTGGCGGTGACATGTTGTC----------------------------AACAATATTCATATCACAGCC-A-GCTTTGAGGAGCGTTGCGGTTTTTCT---------CGCCAACC-----
droEre2 scaffold_4929:17167539-17167644 - CGCAATAG-T-------GAAAACTTCAACTGTCTTCA-----------------------------------------AAGTGGCGGTGACATGTTGTC----------------------------AGCAATATTCATATCACAGCC-A-GCTTTGAGGAGCGTTGCGGTTTTTCT---------CGCCCGCC-----
droAna3 scaffold_12916:6006043-6006142 + CAGATTTTTT----TA-GGGAACTGCGACCCTCCTTA-----------------------------------------AAGTGGCGGTGACATGTAGCT----------------------------TTC-ATATTCATATCACAGCTTT-GCTTTCAGGAGCGTTGAGGTTTCTC-----------------------
dp4 chr4_group3:3919027-3919154 + CCCATGGGATACTATAGGAAAGCTGCGACGCTCTTTA-----------------------------------------AAGTGGCGGTGACGTGTTGGT----------------------------AATAATATTCATATCACAGCC-A-GCTTTGAGGAGCGTTGCGGCCCTTCTGAAAATATGCGCCTCATTGGGG
droPer1 super_1:5401823-5401939 + CCCATGGGATACTATAGGAATGCTGCGACGCTCTTTA-----------------------------------------AAGTGGCGGTGACGTGTTGGT----------------------------AATAATATTCATATCACAGCC-A-GCTTTGA-GAGCGTTGCGGCCCTTCTGAA-A----TATGCGCC-----
droWil1 scaffold_180703:495398-495497 + TGTAAATTAT-------AGAATTTATGATAGATTTTT-----------------------------------------AATCATGGT-----------------------TTGAGTCAAAATTAAACAAAAATAGTTTAAATAAAAGC-AAA-TATA-GTAATATTTTTGTTT--------------------T-----
droVir3 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6500:5445901-5446049 - TTAACTCCCG----AA-AGTAGGCTCTATT--ATCTAAAGTCGTACATTAAATTTTGTTTAGTATACCTAAATGAATTATATGAAAGTGAAATATTTCCTCAATATTGGCTCGAATC----------AATAGT----GTGTTGCGGTA-A-ACCTTAAAGAAAAATCTG----------------------GAA-----
droGri2 scaffold_15252:13434449-13434542 - TTCAATAGCA----AG-GAAATTCTTGGTTTTCTTTT-----------------------------------------GTTTATCGGGAAAATGTTATA----------------------------TAA-ACCTATATATCTTT----A-TCTC-----------TAGATCTCTCA---------CTATTTGC-----

dme-mir-4945 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:7267898-7268043 - TTGGTGATGGTGATGGTGATGGTGCTGGTGGTGGTGCC------TTCATTG-------------------------TTTT---------TCTCTTCTT--TTTGTTGTTTGACTTTTACACTTTTG---------------AAC--------------------------------------AA------CAAGCCGAAAGGAA----------------------------------------------AAAG--CAT---GAA-GGAATGCAAAGTATTCGATAAAAAAT-TATGAAA
droSim1 chr3R:14102257-14102390 + TTGGTGATGG------------TGCTGGTGGTGGTGCC------TTCATTG-------------------------TTTC---------CCTCTTCTT--TTTGTTGTTTGACTTTTACACTTTTG---------------AAC--------------------------------------AA------CAAGCCGAAAGGAA----------------------------------------------AAAG--CAT---GAA-GGAATGCAAAGTATTCGATAAAAAAT-TATGAAA
droSec1 super_0:14695532-14695664 + TTGGTGATGG------------TGCTGGTGGTGGTGCC------TTCATTG-------------------------TTTC---------CCTCTTCTT--TTTGTTGTTTGACTTTTACACTTGTG---------------AAA--------------------------------------AA------CAAGCCGAAAGGAA----------------------------------------------AAAG--CAT---GAA-GGAATGCA-AGTATTCGATAAAAAAT-TATGAAA
droYak2 chr3R:11301709-11301828 - TTGGTGG---------------------------TGCC------TTCATTG-------------------------TTTT---------CCTCTTCTT--TTTGTTGTTTGACTTTTACACTTTTG---------------AAC--------------------------------------AA------CAGGCCGAAAGGAA-------------------------A--------------------AAAG--CAT---GAA-GGAATGCAAAGCATTCGATAAAAAAT-TATGAAA
droEre2 scaffold_4770:14352366-14352483 + TTGGTGG---------------------------TGCC------TTCATTG-------------------------TTTT---------CCTCATCTT--TTTGTTGTTTGACTTTTACACTTTTG---------------AAC--------------------------------------AA------CAAGCCGAAAGGA-----------------------------------------------AAAG--CAT---GAA-GGAATGCAAAGCATTTGATAAAAAAT-TATGAAA
droAna3 scaffold_13340:13702429-13702549 - TCGGCAG---------------------------TGCC------CCCATTG-------------------------TTTT---------CTTCTCATTT-TTTCTTGTTTGACTTTTACACTTTTTT--------------AAC--------------------------------------AA------CAA--CAAAAGCAA----------------------------------------------AGAGACAAT---GGACGGAATGCAAAGTATTCGATATAAAAC-CG-AAAA
dp4 chr3:2000510-2000593 + CTGGTGGTGGTGGTGGTGGTGGTCTTGGTGCTGCTGCT------------------------GCAATTCAATTTCGTTTC---------GCTTTTGTTTCTTTTTTGTTTGCCTTTT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 super_6:893248-893436 - TTGGCGGCGACGGCG-------------------TCTC------TTCTCTGTCTCTCTCCCTCCCGTTCTCGTTCGCTCCCACAGGACGG------CC--TCTGTTGTTTGACTTTTGCACTTCTTT---------TTTTAAACAGGGAGTGGGAGTGGGAGTGTGAGCGAGACAAACAGACAGCA---GC-----------------------------------------------------------AAAA--CAT---AAA--GAATGCAAAGTATTCGATAAAACACACACAAAA
droWil1 scaffold_181089:4216454-4216565 + TTGGCAGCAGC--------------------------A------GCCATTG-------------------------TCTT---------AAG---------CAGTTGTTTGACTTTTACACTTCTCC--------------CGC--------------------------------------AGCAACAACAAAGCATAAAAAG----------------------------------------------A-------------A-AACATGCAAAGTATTGGAAAAACACT-GAAAAAT
droVir3 scaffold_12855:9719552-9719632 - TTGGTTCGCG------------------------CGCGCGCACGGCCATTG-------------------------TCTT---------AAG---------CAGTTGTTTGACTTTTGCACTTTTTT--------------AAC--------------------------------------AACA---ACAAAGAA-----------------------------------------------------A------------------------------------------AGTCA--
droMoj3 scaffold_6540:24748319-24748394 - TTCGCGCAGG----------------------------------GCCATTG-------------------------TCTT---------A------CG--ACAGTTGTTTGACTTTTGCACTTTTTT--------------AAG------------------------------A-------AA------C------------------------------------------------------------------------------------------AAACAAAAAAC-AATGAGC
droGri2 scaffold_14830:2094020-2094205 - TTTGGCG-----------------------------CC----C-AGTATTG-------------------------TTTT---------AAG---------CAGTTGTTTGACTCTTGCACTTTTTTCTTCTTTTTTTTT-AAT------------------------------AAGCAAACAACA---ACAAAGCCAAGTCAGCAACCTGTACACAGTCTGAAGGGGGAAGGGCTGGAGTTTGCTTGAAAAAG--TATCTGCAA-AGAATGCAAAGTATTGTATACAAAGTGTGTAGAA

dme-mir-4948 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:26876804-26876940 - GCACTCCCAGTCCCGGTCGTAGATGTGGGCGTAGGTGGCGGCGGGCGTGGCGTGCGTGATCCTGGTTGTGGTGACCACGCCGGTGCGCTTGCCCTCCTTCTGGGCCCACTCCATGACGCTCTGGACCCTGCCTTGCT----------------
droSim1 chr3R:26523820-26523956 - GCACTCCCAGTCGCGGTCGTAGATGTGGGCGTAGGTGGCGGCGGGCGTGGCGTGGGTGATCCTGGTTGTGGTGACCACGCCCGTGCGCTTGCCCTCCTTCTGGGCCCACTCCATGACGCTCTGGACCCTGCCTTGTT----------------
droSec1 super_4:5701489-5701625 - GCACTCCCAGTCGCGGTCGTAGATGTGGGCGTAGGTGGCGGCGGGCGTGGCGTGTGTGATCCTGGTTGTGGTGACCACGCCGGTGCGCTTGCCCTCCTTCTGGGCCCACTCCATGACGCTCTGGACCCTGCCTTGCT----------------
droYak2 chr3R:27815996-27816132 - GCACTCCCAATCCCGGTCGTAGATGTGGGCGTACGTGGCGGCAGGCGTGGCATGGGTGATCCTGGTGGTGGTGACCACTCCAGTGCGCTTGCCCTCCTTCTGGGCCCACTCCATGACGCTTTGGACCCTACCTTGCT----------------
droEre2 scaffold_4820:1105506-1105642 + GCACTCCCAATCCCGGTCGTAGATGTGGGCGTACGTGGCGGCAGGCGTGGCATGGGTGATCCTGGTTGTGGTGACCACTCCAGTACGCTTGCCCTCCTTCTGGGCCCACTCCATGACGCTTTGGACCCTGCCCTGCT----------------
droAna3 scaffold_12911:4046748-4046884 + GCACTCCCAATCCCGATCGTAGATGTGGGCGTAGGTTGCAGCTGGCGTGGCGTGGGTAATCCGAGTGGTGGTCACTATTCCAGTTCGCTTCTTCTCCTTTTGGGCCCACTCCATGACGCTCTGAACGCGTCCTTGCT----------------
dp4 chr2:271882-272018 + GCACTCCCAGTCGCGATCGTAGATGTGGGCGTAGGTGGCCGCAGGCGTGGCATGCGTAATCCTCGTTGTGGTCACGATTCCCGTGCGCTTGCCTTCCTTCTGGGCCCACTCCATGATAGTCTCAATCCGGCCCAGCT----------------
droPer1 super_7:3056347-3056483 + GCACTCCCAGTCGCGATCGTAGATGTGGGCGTAGGTGGCCGCAGGCGTGGCATGCGTAATCCTCGTTGTGGTCACGATTCCCGTGCGCTTGCCTTCCTTCTGGGCCCACTCCATGATAGTCTCAATCCGGCCCAGCT----------------
droWil1 scaffold_181108:531799-531935 - GCATTCCCAGTCCCGATCATATATATGCGCATAGGTTGAGGCAGGCGTGGCATGTGTAATTCTGGTAGTGGTAACAATTCCCGTTCGTTTACCCGCACGCTGGGCCCAATCCATAATGGATTCCACCCGACCCTGTT----------------
droVir3 scaffold_12855:1470098-1470234 + GCACTCCCAGTCCCGATGATAGACACGCGCAAAGGTGGCTGCGGGCGTGGCGTGCGTAATGCGTGTGGTGGTCACCACGCCAGTGCGTTTGCCTTCACGCTGTGCCCAGTCCATGATGGAGTCGAGTCGACCCTGGC----------------
droMoj3 scaffold_6540:27213622-27213758 + GCACTCCCAGTCCCGATGATAGATCCTTGCATAGGTGGCCGCAGGTGTGGCGTGTGTTATACGCGTGGTAGTCACGACGCCGGTCCGCTTGCCCTCACGCTGTGCCCAGTCCATGATGGAGTCGAGTCGACCCTGGC----------------
droGri2 scaffold_15203:6653367-6653519 - GCACTCCCACCGCCGATCGGCGACATGGGCGTAGAGGGCAGCGGGTGTGGCATGGGTTACCCGCGTTGTGGTCACAAATCCAGTGCGCATGCCATCCACCTGCGCCCAGTTGAATATGTTCTGGACGTGATGTTCCTCCTTGAGAGAGGCACT

dme-mir-4951 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:17142422-17142602 + TTTGAA-AATCC-CTTCCTTTTCG----TACGT---ACAA-AAAAGCATCAGGT-TTTCGGGTGAGGTTTC--TGATGCTTTG---TCTCTTAAGTTTTTCCTAACAATT--------------------------------------AAA--C-----CCTATGTCGGTATTA-CGAATACCA-T------CAAAAAACCTCACCCACCAAATGTATGACCAGAGAGATAAAAA-T-TTCAATAAACAA-C------G-
droSim1 chr3R:4327111-4327287 - TTTCAAAAATCC-CTTCCTTTTCG----TACGT---ACAA-AAAAGCATCAGGT-TTTCGGGTGAGGTTTC--TGATGCTTTG---TCTCTTAAGTTTTCCCTAAAAATA--------------------------------------AGA--C-----CCTATGTCGGTATTT-CGAATACCA-T------CAAAAAACCTCACCCACCAAATGTATGACCAGAGAGATAAAAA-T-TTCAATAAA-------------
droSec1 super_6:4348795-4348971 - TTTCAAAAATCC-CTTCCTTTTCG----TACGT---ACAA-AAAAGCATCAGGT-TTTCGGGTGAGGTTTC--TGATGCTTTG---TCTCTTAAGTTTTCCCTAACAATT--------------------------------------AGA--C-----CCTATGTCGGTATTT-CGAATACCA-T------CAAAAAACCTCACCCACCAAATGTATGACCAGAGAGATAAAAA-T-TTCAATAAA-------------
droYak2 chr3R:5943432-5943618 + TTAAAAAAATTCATTTACTTTACG----TGCGT---ACAAAAAAAGCATCAGGT-TTTCGGGTGAGGTTTC--TGATGCTTTG---TCTCTTAAGTTTTTCCTAACAACT--------------------------------------AGT--C-----CCTATGTTGGTACTA-CGAATACCA-AAT----CAAAAAACCTCACCCACCAAAAGTATGAACAGAGAGATAAAAA-T-TTCAATATAAAAAC------A-
droEre2 scaffold_4770:4529493-4529670 - T---------AT----------TGTACGTAAGC---ATTA-TTAAGCATCAGGT-TTTCGGGTGAGGTTTC--TGATGCTTCG---TCTCTTAAGTTTTCCATAACAATT--------------------------------------GGT--C-----CCTATGTTGGTATTA-CAAATACCA-TAC----CAAAAAACCTCACCCACCAAATGTATGAACAGAGAGATAAAAA-T-TTCAATAAAAAAATGTTGTCGA
droAna3 scaffold_13340:3794779-3794949 + T---------CT-CTACATTAATA----TTATC---ATGG-AAAAGCATCAGTTTTTTCGGGTGAGGTTATACTGATGCTTAG---TCATTTCAATTGCCCAAAATAATT--------------------------------------GAA--T-----TTT-AATTGGTATTTTTCAATACCC-A------AGACTAACCTCACCCACCAAATATATGAACAAAGAGATATAAA-T-TTCAATAAA-------------
dp4 chr2:5640393-5640558 + C---------CC-CGTCAATATTG----TAATT---AAAATAAAAGCATCCGAG-CTTCGGGTGAGGTTAT--GGATGCATTTTGATCTCTGCACTTATCTCCAA--------------------------AA-------------------CC-----CC--CTTTTGTATGGAAACATACCA-C-C----CAAATAACCTCACCCACCAAAT-TATGAACAAAGAGAAAAAAA-T-TTCAATAAA-------------
droPer1 super_19:1368761-1368939 + C---------CC-CGTCAATATTG----TAATT---AAAATAAAAGCATCCGAG-CTTCGGGTGAGGTTAT--GGATGCATTTTGATCTCTGCACTTATCTCCAA--------------------------AA-------------------CC-----CC--TTTTTGTATGGAAACATACCA-C-C----CAAATAACCTCACCCACCAAAT-TATGAACAAAGAGAAAAAAA-T-TTCAATAAACACAAAACCACG-
droWil1 scaffold_181130:16134997-16135163 + T---------AA-AT--CTTACTG----TTATC-----CA-AAAATCATCACGG-TTTCGGGTGAGGTTAG--TGATGACTTTTCCTTTTT----------CAAACAACTAA--AATTTTAATTCCAA---AA-------------------AC-----CC--TTTCGGTATAG-ACAATACCA-A------AAAAAAACCTCACCCACCAAATATATGAACAAAGAGAAACAAA-TTTTCA------------------
droVir3 scaffold_12822:1191963-1192168 - CTT--------------AATGTCG----TACGACTTA-TG-AGAAGCATCTAG--TTTCGGGTGAGGTTTTA-TGATGCAATTCTCGCTCT---ATCC-------CATCTTG--AACATACGTTCCAAAAT--AAATACATAATAAAAAAATCC-----CCTGCTTTGGTATTT-AAGCTACCA-ACCA---AAAAAAACCTCACCCACCAAATGTATGAACAAAGAGATAAAAAATTTTCAATACACCA-T------G-
droMoj3 scaffold_6540:33813435-33813629 - C---------CTCCTCCCAAGTTG----TACAGCTTG-TG-AGATGCATCAGAT-TTTCGGGTGAGGTTTTA-TGATGCAGTACTC--CAT---GTCCC-------ACTCCGAATACTAAAAT----------AA----------AAAGAATCCTTCTCCC--ATTTGGTATTA-AAGCCACCCAC-C----AAAAAAACCTCACCCACCAAACATATGAACAAAGAGATACAAAATATTCAATACAACAAC--------
droGri2 scaffold_15074:2653282-2653451 + T---------G----------TCG----TACGACT-AATG-AAATGCATCTAGT-TTTCGGGTGAGGTTTT--AGATGCGTT---------------TCCCCCAGAAAAT-----------------------A--------------AAA--C-ACT-CC-TTTTTGGTATTT-AAACTACAA-AAAAAAAAAAAAAACCTCACCCACCAAATATATGAACAAAGAGATAAAAT-A-TTCAATAAACCAACAAACCCG-

dme-mir-4956 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:6979754-6979901 - GAGTGCCAACAATTTAGGGG---------GCGGCAACATGTGCCACCTGCCGCCGATGGCCAGCAACAACTCGCTGAATAATCTCTGCGGATTGTCGCTGGGCAGCGGTGGTAGTGATGATCTCATG------AACGATCCTCGGGCAAGCAACACCAACCTG
droSim1 chrX:5492772-5492919 - GAGTGCCAACAATCTAGGGG---------GCGGCAACATGTGCCACCTGCCGCCGATGGCCAGCAACAACTCGCTGAATAACCTCTGCGGATTGTCGCTGGGCAGCGGTGGTAGTGATGATCTCATG------AACGATCCTCGGGCAAGCAACACCAACTTG
droSec1 super_24:199934-200081 - GAGTGCCAACAATCTAGGGG---------GCGGCAACATGTGCCACCTGCCGCCGATGGCCAGCAACAACTCGCTGAATAATCTCTGCGGATTGTCGCTGGGCAGCGGTGGTAGCGATGATCTCATG------AACGATCCTCGGGCAAGCAACACCAACTTG
droYak2 chrX:14374793-14374940 + GAGTGCCAACAATCTGGGGG---------GCGGCAACATGTGCCACCTGCCGCCGATGGCCAGCAACAATTCGCTGAATAACCTCTGCGGACTGTCGCTGGGCAGCGGCGGTAGCGATGATCTCATG------AACGATCCCCGGGCAAGCAACACCAACCTG
droEre2 scaffold_4690:15890244-15890391 - GAGTGCCAATAATCTTGGGG---------GCGGCAACATGTGCCACCTGCCGCCGATGGCCAGCAACAATTCGCTGAATAACCTCTGCGGACTGTCGCTGGGCAGCGGCGGTAGCGATGATCTCATG------AACGATCCCCGGGCAAGCAACACCAACCTG
droAna3 scaffold_13117:2326296-2326455 - CAGTGCCAATTCCCTTGGCGGCGGCGGTGGCGGCAACATGTGCAACCTGCCGCCCATGACCAGCAACAATTCGCTTAACAATCTGTGCGGCCTGTCGCTGGGCAGCGGCGGCAGCGACGATCACATGCTT---AATGACCAGCGGCCGAGCAACACCAACCTG
dp4 chrXL_group1a:6391512-6391662 - CAGTGCCAATAATCTTG------------GCGGCAACATGTGCAACCTGCTGCCAATGACCAGCAACAATTCGCTTAGCAATCTATGCGGACTGTCGCTGGGCAGCGGCGGCAGCGATGATCACATGATGATGCACGATCAGCGATCGAGCAACACCAATCTG
droPer1 super_25:931278-931428 + CAGTGCCAATAATCTTG------------GCGGCAACATGTGCAACCTGCTGCCAATGACCAGCAACAATTCGCTTAGCAATCTATGCGGACTGTCGCTGGGCAGCGGCGGCAGCGATGATCACATGATGATGCACGATCAGCGATCCAGCAACACCAATCTG
droWil1 scaffold_180777:2984533-2984680 + CAGTGCCAATTCCCTTGGCG---------GTGGCAATATGTGCAATATGCCACCGATGGCCAGTAACAATTCATTGAACAACCTGTGCGGTCTATCATTGGGCAGCGGCGGCAGCGATGATCTTATG------AACGATCATCGTCCGAGTAATACCAATTTG
droVir3 scaffold_12928:60655-60799 - CAGCGCCAATTCCCTTG------------GCGGCAACATCTGCAATATGCCGCCAATGGCCAGCAACAATTCGCTGAACAATCTGTGCGGCCTATCGATTGGCAGCGGCGGCAGCGATGATCACATG------AACGATCAGCGCAACAGCAACACCAATTTG
droMoj3 scaffold_6359:1380681-1380818 - C-----CAATTCCCTCG------------GCGGCAACATCTGCAACATG---CCAATGGCCAGCAACAATTCGCTGAACAATCTGTGCGGCCTATCGATCGGCAGCGGCGGCAGCGATGATCTGATG------AACGATCAGCGCACAAGCAACACCAATTTG
droGri2 scaffold_14853:6692716-6692854 - CAGCGCCAATTCACTCGGCG---------G---A---CTCTGCAACATG---CCGATGGCCAGCAACAATTCGCTGAACAATCTGTGCGGCCTATCGATAGGCAGCGGGGGCAGCGATGATCTTATG------AACGATCCACGCAACAGCAACACCAATTTG

dme-mir-4961 three_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:1267640-1267803 + AGATATTACC--CAGAAGCGA-----------------------TATC------------------------CAATAGTAGCCAA-CTCTCTCG--CTCTC--T----------A----TGT--GTATGTATGTATCTTG---------------CTATCC---------------ATATA--TGTATATCCATATCAGAGAGCCAGGATTGGTTGAGACCATACG------ATATAACCCGAAACCACACTGG-CC-AGGAATA---------------------------------------------GCAAATCCA
droSim1 wjj76b12.b1:303-467 + AGATATTACC--CAGAAGCGA-----------------------TATC------------------------CAATAGTAGCCAA-CTCTCTCG--CTCTC--T----------A----TGT--GAATGTATGTATCTTG---------------CTATCC---------------ATATA--TGTATATCCATATCAGAGAGCCAGGATTGGTTGAGACCATACG------ATATAACCCGAAACCATACTGG-CC-AGGAATA---------------------------------------------GCAAATCCA
droSec1 super_10:1091085-1091248 + AGATATTACC--CAGAAGCAA-----------------------TATC------------------------CAATAGTAGCCAA-CTCTCTCG--CTCTC--T----------A----TGT--GAATGTATGTATCTTG---------------CTATCC---------------ATTTA--TGTATATCCATATCAGAGAGCCAGGATTGGTTGAGACCATACG------ATATAACCCGAAACCATACTGG-CC-AGGAATA---------------------------------------------GCAAATCCA
droYak2 chrX:1175521-1175702 + AGATATAACC--GAGAAGCAA-----------------------TACC------------------------CAATAGTAGCCAA-CTCTCTCGCTCTCTC--TGCGTCTCTCTA----TGT--GTATGTATGTATTTCG---------------CTATCC---------------ATATA--TGTATATCCATGTCAGAGAGCCAGGATCGGTTGAGACCATACTATATCTATATAACCCGAAACCATACTGG-CC-AGGAATA---------------------------------------------GCAAATCCA
droEre2 scaffold_4644:1251466-1251631 + AGATATAACC--CAAAAGAAA-----------------------TACC------------------------GAATAGTAGCCAA-CTCTCTCG--CTCTCTCT----------A----TGT--GTATGTATGTATTTCG---------------TTATCC---------------ATATA--TGTATATCCATGTCAGAGAGCCAGGATCGGTTGAGACCATACT------ATATAACCCAAAACCATACTGG-CC-AGGAATA---------------------------------------------GCAAGTCCA
droAna3 scaffold_13117:1856374-1856503 - --------------------------------------------------------------------------------------CTCTCTCT--CTCTC--TGTGTCTCTCTAAATGCAT--GTATGTATGTGTTGTA---------------TTATCC---------------GTATATATGTATATCCATGTTAGAGAGCCAGGACGGGTTGAGATT----------------GCCCAAGA----ACTGG-CCTAGGAATA---------------------------------------------GCAAAT-CA
dp4 chr2:10126391-10126530 + GAATAAT--CCATA-AACAAA-----------------------TATC------TA----------------T-GTAGTCA-CAT-CTATCTCT--CTCTC--T----------A----TAT--ATCTCTCTCTCTCTTT---------------CTTTAT---------------TTGTA--CATGTATTTATTTCATGGGTTTAGTTTTGC---AAATGGTATA------AAACATCTCCAAAATACATT-------------------------------------------------------------------
droPer1 super_2:4840479-4840636 - TAATATATTG--GAGTAGCAA-----------------------TATC------------------------TATTTGTATTCAG-ATTTGTAT--TTATT--T----------A----TGT--GTTTGTGGTGATACAG---------------ATATATA--------------GTATA--TATAGAAATATATTTTAAAATCA---TAGGTACATACAGTATA------TTGTATCCCTATCCAATGCATA-T-----GTGA---------------------------------------------ACGTACTTA
droWil1 scaffold_180700:3267577-3267741 + AAATATCATA--CCCA-AAAA-----------------------TATA------------------------TACTACTACACAACCTCTCTCT--CTCTC--T----------C----TAT--CTATCTATCTATCTTTGAACATAAAATGTACCTAT--ACTAAAACAAAAACTCTATA--TCTAAATCGTTGTGCT-TACCATTCATTTTCTACTACTATACT------ATATAGGGCGAAAC-------------------------------------------------------------------------
droVir3 scaffold_12855:2148540-2148695 + ATA----ACC--CAAAAGATA-----------------------CCTC------------------------AATTTGCATATAT-ATCTATGT--CTATA--T----------A----GAT--ATATACATACATATAT---------------ATATAC---------------ATATA--TATATATAAATATATGTGTGCGTGCATTA----TCGTCTTGTG------ACTAGGTCCAGAACTTTACAGG-TG-CGCAGTG---------------------------------------------TCGAAATCA
droMoj3 scaffold_6496:26031347-26031515 + TGATGCCACC--CAGC------------------------------CC------------------------CCACCGCCTCCTG-CTCCCTCC--CTCTC--TATGTTTATATG----TGT--ATATGTGTGT---------------------GTGTCT---------------GTGTG--TTTGTGTCCCTTC--------------------GATTGGCG------------------------TGCCTGAAT-GGCTGTGAAAACACAGCCAGTTGCAGCTGTATCCACAATCATTATCACAAAAGCAAACTAC
droGri2 scaffold_14853:6570585-6570746 + AAAAACAAAA--AACAAACGAAGTAACAGCCCAAGCCGACAATGGCTGAATATATATGTTATGTATTTGTATT-ATTGTC------------GT--GTATA--T----------A----TATCTATATATGTATATTACA---------------CTAT---------------------------------------------------------ATACTATATG-----TATATATATATAGACAATGTCTG-AT-GGCTATG---------------------------------------------CCAAAGCCA

dme-mir-959 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5640925-5641052 + CGAATTAA-ATTGATTTTAACTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGATAAAGACCTTTTCT---TCAG--GGAGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGTTTAAAGAAACTGCAATGATT------------ATCG----------------------------------
droSim1 chr2L:5434012-5434138 + A--ATTAA-ATAGATTTTAACTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGATAAAGACCTTTTCT---TTGC--GGAGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGTTTAAAGAAGCTGCAAGGATC------------ATCG----------------------------------
droSec1 super_5:3718667-3718793 + A--ATTAA-ATAGATTTTAACTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGATAAAGACCTTTTCT---TTGC--GGAGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGTTTAAAGAAGCTGCAAGGATC------------ATCG----------------------------------
droYak2 chr2L:13552255-13552381 - CGAGTTAA-ATTGATTTTAACTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGACAAAGACCTTTCCT----TGC--GGCGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGCTCAAAGAAACTGCAAGGATC------------ATCG----------------------------------
droEre2 scaffold_4929:5729400-5729526 + CGAGTTAA-ATTGATTTTAACTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGACAAAGAGCTTTCCT----TGC--GGCGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGCTCAAAGAAACTGCAAGGAGC------------AACG----------------------------------
droAna3 scaffold_12916:11084702-11084849 + GAAGTTAA-ATTTATTTCAATTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGATAAAGACCTTTCCT----GGA--GCCGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGCTCAAAAAACCAGCACAATGT------------ATCGGCCAATAGGCCAATTAACCCG-------------
dp4 chr4_group4:3182582-3182745 - TGGTTTTC-GTTTA------------------------CGTTTTTT-TTTT--------GTTTTGGTTCTATGTTCTTAGTACTTGGGTTGATAAAGACCACTCGTAGTGTGA--GAAGCCTTTGTCATCGCGGGTATTATGCAACA---------TAGCTCAAAAGCGCAACAAAATACACA-------------AAA--------AATATACACGTAAATGTGTGTGG
droPer1 super_10:2201518-2201669 - TGGTTTTC-GTTCA------------------------CGTTTTTTTTTTT--------GTTTTGGTTCTATGTTCTTAGTACTTGGGTTGATAAAGACCACTCGTAGTGTGA--GAAGCCTTTGTCATCGCGGGTATTATGCAACA---------TAGCTCAAAAGCGCAACAAAATACACA-------------AAA--------AATATACACG-------------
droWil1 scaffold_180708:8626283-8626424 - AGTGAAAA-AGTGACTTAAGTTTT-----------------------------------------GTTCTATATTCTTAGTACTCGGGTTGATAAAGACAAAATGT---TTACCAATCGCCTTTGTCATCGGGGGTATTATGAAATA---------TAGCTCAAAAGTTCAACATAATAATTAAGAATTAACTTTG----------------------------------
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6500:14018136-14018207 + TGATGTAATAAGTGTTTTAGCTTT-----------------------------------------AAGTTGTGCCATT-------------------------------------------------------------TTAAATTG---------AAAAAAGTG-AAGATTGAAAATTG------------ACTA----------------------------------
droGri2 scaffold_15252:3146904-3147001 + CAAAGAGT-AGCAGGAGTAGTTAAGTTGTAGTTTCTTACGGTTTTTTTTTTAATAACATGCT--------------TTAGTGCT--------------------------------------------------------------TCAATGTAGGTGGCTCAA---------GATATTT------------GTTG----------------------------------

dme-mir-961 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5641176-5641294 + GTAGTGAGCTC--GT-------T------ATCAAG-----GGCCGAGTTACCTTTGATCACCAGTAACTGAGATT-GT--TTCTGATA---CGGTTTCGTTTTCTGGCAATCAA-AAGAACTTGGACTCGA-CTTGAA----------------------------------------------------------TTCAACTAC
droSim1 chr2L:5434262-5434381 + GTAATGTGCTC--GT-------T------ATCATG-----GGCCGAGTTACCTTTGATCATCAGTAAGTGAGATT-GT--TTCTGATA---CGATTTCGTTTTCTGGCAATCAA-AGGAACTCGA-CTCGA-CTTGAA-TC-------------------------------------------------------TACAACTAC
droSec1 super_5:3718917-3719036 + GTAATGTACTC--TT-------T------ATCAAG-----GCCCGAGTTACCTTTGATCACCAGTAAGTGAGATT-GT--TTCTGATA---CGATTTCGTTTTCTGGCAATCAA-AGGAACTCGA-CTCGA-CTTGAA-TC-------------------------------------------------------TACAACTAC
droYak2 chr2L:13552021-13552135 - GAAAA----TCTAAT---------------TCATG-----GGTCGAGTTACCATTGATCACCGGTTACTGAGGTT-GT--TCCTTCTT---TGGCTTCGTTTTCTGGCGATCAA-AAGAACTCGA-CTCGA-CTCGAA----------------------------------------------------------TCCAACCAA
droEre2 scaffold_4929:5729649-5729755 + TG-----------AT---------------TCATG-----GGTCGAGTTACCATTGATCACCGGTTACTGAGGTT-GT--GCCACATT---CGGCTTCGTTTCCTGGCGATCAA-AAGAACTCGA-CTCGG-CTCGAA----------------------------------------------------------TCCCAGTAC
droAna3 scaffold_12916:11084979-11085099 + ACAAAGGACTA--CAGGAAAGCG------ACT-TA----AGTCCGAGCACTATTTGATCACTGGTTACTGAGGTT-GT--TTTGTCAT---AAGCTTCGTTTTCTGGCGATCAA-ATACGCTCGA-CTT-----TGGG----------------------------------------------------------CCCAACCAC
dp4 chr4_group4:3182338-3182458 - GAGGAGAGCTG--TT---------------TCGCCGGACAGTCAGAGTTTGATTTGATCTCTAGTTACTGGGCTTTGA--TTCGAAATAAGTAGCTTATTATTCTAGTGATTGAAATGAACTCGA-CTCG------AG----------------------------------------------------------TGCCACAAA
droPer1 super_10:2201269-2201389 - GAGGAGAGCTG--TT---------------TCGCCGGACAGTCAGAGTTTGAGTTGATCTCTAGTTACTGGGCTTTGA--TTCGAAATAAGTAGCTTATTATTCTAGTGATTGAAATGAACTCGA-CTCG------AG----------------------------------------------------------TGCCACAAA
droWil1 scaffold_180708:8625990-8626125 - GTGTGAAACT-----------------------TG----AGTTTGAGTTTACATTGATCACTGGTTAGTGAGGTT-CAAAGTCAGACC---CAACTTCGTTATCTGGCGATCAA-ATAAACCTGG-CTTACA----AAAGCTATAATTGCTGAAATGGATACACGT-----------------------T------T---TCTAT
droVir3 scaffold_12963:3615378-3615429 + G---------------------------------------------------------------------------------------------TTTCATTTTTCAGTGAATTA-AACAACTCAA-TTTACACACACA----------------------------------------------------------CACACACAT
droMoj3 scaffold_6500:14018312-14018360 + ATTTAAATGTA--TT---------------CCGGTCTATGGCG--------------------TTTACGG--------------------------TCGTTTTGTCGTA---------------------------------------------------------------------------------------------CTC
droGri2 scaffold_15252:3147112-3147237 + GTTGTTAGCAG--CCACATCTCTGAATTGAAT-TG----GATTCGTT-----------------TTACT--------------------------TTCTTTTATTACTGAAATG-AGTTGTTCAG-TTC-T-TTTAAA-TT-------------------------TCAGTCTACAAACTAAGAGCAGGTTACTTTCATAACACA