Up to yakuba or erecta canonical miRNAs

Up to yakuba or erecta mirtrons

Up to simulans or sechellia canonical miRNAs

Up to simulans or sechellia mitrons

D. melanogaster only canonical miRNAs

Present to erecta or yakuba

Canonical miRNAs

dme-mir-1001 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:23468173-23468292 - AGCCCGC-----------------------------------------------------------------------------------------GATG-ATGTAAGCTGGC-CTGTCCCTGGGTAAACTCCCAAGGATCAGGTGGAGATTGAATCC---CGATCCTTGGGTTTC------------------TGCTCTCGGGCAAGGTCAGTAGTGCCCGCGAAGGGCCC
droSim1 chr3R_random:1114763-1114882 - AGCCCGC-----------------------------------------------------------------------------------------GATG-ATGTAAGCTGGC-CTGTCCCTGGGTAAACTCCCAAGGATCAGGTGGAGATTGAATCC---CGATCCTTGGGTTTC------------------TGCTCTCGGGCAAGGTCAGCAGTGCCCGCGAAGGGCCC
droSec1 super_22:111563-111682 - AGCCCGC-----------------------------------------------------------------------------------------GATG-ATGTAAGCTGGC-CTGTCCCTGGGTAAACTCCCAAGGATCAGGTGGAGATTGAATCC---CGATCCTTGGGATTC------------------TGCTCTCGGGCAAGGTCAGCAGTGCCCGCGAAGGGCCC
droYak2 chr3R:23018685-23018798 + G------------------------------------------------------------------------------------------------ATG-ATGTAAACTGGC-CTGTCCCTGGGTAAACTCCCAATGATCCGGTGTACATTGAATTC---GGATCCTTGGGTTTG------------------AGCCCAAGGACAAGGACAGTAGTGCCCGCGAAGGGCCC
droEre2 scaffold_4820:4569064-4569195 + AGCCCGCGTAAGGTGTATA-----------------------------------------------------------------------------GATG-ATGTAAACTGGC-CTGTCCCTGGGCAAACTCCCAATGATGCGGTGTACATAGAATCC---CGATCCTTGGGCTTC------------------TGCCCACGGGCAAGGACAGTAGTGCCCGCGAAGGGCCC
droAna3 scaffold_13340:19221720-19221830 + GTGTATA-----------------------------------------------------------------------------------------GATG-ATGTGAGCTGTC-CTGTCCCTGGGAGG----------ATCACCTGTAGTATTAAATTAAATGGAACAAAGGTCTC------------------CCCCTAGGGGCAAGGACAGCATTGGCCACGA--GGCTC
dp4 chr2:3822386-3822523 - AGATGAT-----------------------------------------------------------------------------------------GATACATATAAGCTGATTCTCTCCCAGTGGCGGACACACGGCAGATGGTGGCTTTACCGATC---CGATAATTGAATTTTAACCAAAAGAAAACCACCTGCATTCGGGTGCCGCCCCT-GGGTCTGAG-AGGGCTG
droPer1 super_7:528167-528304 + AGATGAT-----------------------------------------------------------------------------------------GATACATATAAGCTGATTCTCTCCCAGGGGCGGATACACGGCAGATGGTGGCTTTACCGATC---CGATAATTGAATTTTAACCAAAAGAAAACCACCTGCTTTCGGGTGCCGCCCCT-GGGTCTGAG-AGGGCTG
droWil1 scaffold_181089:3707083-3707253 - CAAATGG--AAAGTGTATGGAGGCAAGAGTGTCCAGATTGCCTTGGCCAAATATTGGGATTATGCTCAATACCGATCCCACATAATTGTTAATTCGTTTA-GTATTATCTA-----------------TTATCTATTATTATTAT---------------------------------------GATTATTATCGAATTATTATTATTATTCTT-ATGATTATT-GAGATCC
droVir3 Unknown AGCTGAA-----------------------------------------------------------------------------------------ATTT-GTTTATACC----CTTT-CCAATGTTAAGCCCCTTGGAAAATGTA-----TGAATCT---CGTAACAT-------------------------------------------TCGTAACAAGATGTTCGCCA
droMoj3 Unknown AGCTGAA-----------------------------------------------------------------------------------------ATTG-GTTTATGCTC-----------------TTTCCCAAGCGTATAATGAATAC-------------------------------------------------CAAAGAAAATACCTAACACTCGTAAGAAG---
droGri2 Unknown AGCTAGC-----------------------------------------------------------------------------------------CA--------------------------------------------------------------------------------------------------------------------------------------

dme-mir-2280 three_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:1831670-1831814 - TGGAGAAGAGTGATATCGTTTAAGATGC---------TGTGAATATCCCGTTTTCTTAGCTTGGCAATAAAAT-ATTA------------------------------TTCACAGAAACTAGTAATTTACTT-----------CCAAGCTAACTGAAGGGGAT-ATTCAGTGCAACCACG--GACTAAAAATGCGTT-TG
droSim1 chr2L:1818710-1818856 - CGGAGCAGAGTGATATCGTTTGAGATGC---------TGTGAATATCCCGTTTTCTTAGCTTGGCAATAAAAT-ATTA------------------------------TTCACAGAAACTAGTAATTTACTT-----------CCAAGCTAACTGAAGGGGATTATTCAGTGCAACATCG--GACTAAAAATGCTTTTTG
droSec1 super_14:1778365-1778510 - CGGAGCAAAGTGATATCGTTTGAAATGC---------TGTGAATATCCCGTTTTCTTTGCTTGGCAATAAAAT-ATTA------------------------------TTCACAGAAACTAGTAACTTACTT-----------CCAAGCTAACTGAAGGGGAT-ATTCAGTGCAACCACG--GACTAAAAATGCTTTTTG
droYak2 chr2L:1804987-1805119 - CGGAGCAAACTGATGTCGTTTAGGATGC---------TGTGAATATCCCATTTTGTTAGCTTGGCAATAAAAT-ATTG------------------------------TTGATTGAAACTAGTAATTTACTT-----------CCAAGCTAACTGAAGTGGAT-ATTC--TA------------CAACAAATGGGTT-TT
droEre2 scaffold_4929:1878584-1878709 - CGGTG-----TGATTCTGCTTAAGGTGC---------TGTGAATATCCCATTTTCTTAGCTTGGCAATAAAAT-ATTA------------------------------TTCATCGA-ACTAGTAATTTAATT-----------CCAAGCCAACTAAAGGGGAT-ATTCACTG---------------CAAATGCATT-TG
droAna3 scaffold_12916:15757494-15757644 + CGTAGAAGCTT-AC-----TAGTTC--------------------------------TGTTTGGTAATAAAGT-TATTCTTTTTTATCTCAAAATGACTCACGTTTTTTTTTTCGA-ATCATTAAATAACATTTATATTTTCCCTAAGC-------CCTGAAT-ACTTATTATAAAAAAGACGATTATAAAAGTATA-TG
dp4 chr4_group3:8561836-8561913 - TGTTGTGGACTTAT-----CGGAGGAACTTGGCGAATTTTGATTATATTTTGATGCCATTTTT---------------------------------------------------------------------------------------ATCTGAAT-----------------------------AAAATGTTCT-TT
droPer1 super_1:10015828-10015916 - TGTTGTGGACTTAT-----CGGAGGAACTTGGCGAATTTTGATTATATTTAGATTCCATTTTT---------------------------------------------------------------------------------------ATCTGAATAAAAT-GTTC--TT---------------TAGTTACGTT-GA
droWil1 scaffold_180708:11841716-11841868 + TGCAGATGCCACAT-----CGGAATTGTGAAGGGAAAATGGGTTATTTAGTTGCGTTAGTTTAACGAGGAATGAAGGG------------------------------TCCGTTGTATTTAATTACTTTTTT----GGTAC--ATTAGTTAATAAAAGGAAAC-AATTAATCAATTAA----CATTATAAACTCGTT-TT
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-2282 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:3412130-3412266 - TGGGGCAGTGGAGCT-----G-----------------------------------------------------CCTGCAT---AACGC---------TGTGGCTTTCCGCTTCTATTTTTCGTTCACTGCCTTGTGC----TTCGTT--------------------------------------------------------------------------GGAAAATCGGTGAGCTAAAAATAGAATTCGGTTGCCACGCTTCAAGGGAAATGAGGAAAATTA
droSim1 zdo07f06.g1:327-468 + TGGGGCAGTGGAGCT-----G-----------------------------------------------------CCTGCAT---AAGGC---------TGTGGCTTTCCGCTTCTATTTTTCGTTCACTGCCTTGTGCTTGCTTCGTT--------------------------------------------------------------------------GGAAAATCGGTGAGCTAAAAATAGATTTCGGTTGCCACGCTTCAAGGGAAATGAGGAAAATTA
droSec1 super_2:3404661-3404801 - TGGGGCAGTGGAGCT-----G-----------------------------------------------------CCTGCAT---AAGGC---------TGTGGCTTTCCGCTTCTATTTTTCGTTCACTGCCTTGTGCTTGCTTCGTT--------------------------------------------------------------------------GGAAAAGCGGTGAGCTAAAAATAGATTTCGGTTGCCACGCTTCAAGGGAAATGAGGAAAATTA
droYak2 chr3L:3959855-3959989 - TGGGGCAGTGGGGCT-----G-----------------------------------------------------CAT--AT---AAGGC---------TGTGGCTTTCCGCTTCTATTTTGTGCTCACTGTCTTGTGC----GGCGTT--------------------------------------------------------------------------GGAAAATCGGTGAGCTAAAAATAGATTTCGGTTGCCACGCTTCGTGGAAAATGAGGAAAATTA
droEre2 scaffold_4784:6102142-6102274 - TGGGGCAGTGGAGCT-----G---------------------------------------------------------CAT---AAGGC---------TGTGGCTTTCCGCTTCTATTTTGTGTTCACTGTCCTGCGT----TTCGTT--------------------------------------------------------------------------GGAAAATCGGTGAGCCAAAAATAGATTTCGGTTGCCACGCTTCGAGGAAAATGCGGAAAATTA
droAna3 scaffold_13337:10031066-10031241 + TGGGGGCAGGTGGTG-----GCAGGAGGTGGCCGGAGGTGGTGGTAGGTGGGTGGGGGTGGTGTATGTAGGGGGCCTGTA------------------TGTGGCTTTCCGCTTCTACC--------ATTTTTTTTTGT-------------------------------------------------------TG----------------GAGGGTTCAGTGGAAATTCGGCGAGCTAAAAATATAATTCGGTTGCCACGCTTC---GGAAA----GAGAATTA
dp4 chrXR_group8:5510827-5511013 - TGTGTGTGTGTGTCT-----GT-----------------------GTGTGTGTGTGTGT-GTGTGTGTGT----GTGGCAGGGTGACAGCACTCTCTCTAAGGCTTTCCGCTTTTCGT------TCTCTTTT---TGT-TG-T-TGTTGTTCTTTCTTTCGTTTTGGTGGAAATTTTC----------GTTGTATCTAAAAATAGACTTTTTGGGGTTCAAAGGAAATTT-------------------------------------------TGTGGGACAAAA
droPer1 super_7263:1394-1409 + TACGGGTGTGAGACT-----G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_180955:1135974-1136099 - TATGGCGATATTTTGTAGGTT-----------------------------------------------------TTGGC-A---ATGGT---------TGTGGCTTTCCGCTTCTATTCAGT----------------------CGCA------------------CGAAAAATTTTCTCGGTTTTTTCCCAT-----------------------------------------GTCTAAAAATAGATTT------ACACCC---AAAGTA---GAAAAACATAA
droVir3 scaffold_13049:19660195-19660299 + G------------------------------------------------------------------------------------------------------TTCTGCGCTAGCTTGTTCGGTTTGGTAACATGAGC----TTCATT--------------------------------------------------------------------------AGTGTATGCAATAATGGCAAACATTTTTTGCCTGCCAGGCCTCGGCGAGGACGATGACGACGA
droMoj3 scaffold_6496:15371578-15371721 + TGCAACATTGATGAA-----A-----------------------------------------------------TATGCATAATGAAAATGTGCCCTCA-GAGTTATCCACG------------------------------------------------------------ATTTTTCTACTTTTTTTTTATACCCTGAAC---------CCATTTTCAATGGGAAATCAGGGTATA------ATGGTTTTGTTGAAATGTATG---TAACA----GGGAGAAG
droGri2 scaffold_15203:7704730-7704834 + CAGAATAATAGAATG-----T-----------------------------------------------------ACTCACT---TCAGC---------TATGGCATACAGATTTGCTTTATT-TGCTTTTCGTTGTAC-------------------------------------------------------------------------------------------------------------TTTCTGTTTTCTCAATGTACATGAAAAAGACTGAATTT

dme-mir-2490 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2LHet:27321-27425 + ACAATCGTACGTTCTGAGCGAGTTGAAGCGATAAAGCAGGTTGCAAACTGCTCTCTCGCTTTGCTCTT---------------------------------------------------------ACTTTATCGCTTAAACTCGCA-----ACTCGCTTC----------GCTCTCA
droSim1 chr4:281112-281214 + AAAATCGTACGCTCTGAGCGAGTTGAAGCAATAAAGCAGGTTGCAAACTGCTCTTTCGCTTTGCTCTC---------------------------------------------------------GCTATATCGCTTGAGCTCGCA-----ACTCGCTTC----------GCT--CA
droSec1 super_30:85009-85111 + AAAATCGTACGCTCTGAGCGAGTTGAAGCAATAAAGCAGGTTGCAAACTGCTCTTTCGCTTTGCTCTC---------------------------------------------------------GCTATATCGCTTGAGCTCGCA-----ACTCGCTTC----------GCT--CA
droYak2 chrU:9061077-9061181 + ACAATCGTACGCTCTGAGCGAGTTGAAGCGATAAAGCAGGTTGCAAACTGCTCTCTCGCTTTGCTCTC---------------------------------------------------------GCTTTATCGCTTGAGCTCGCT-----ACTCGCCTC----------GCTCTCA
droEre2 scaffold_4784:23192819-23192904 - ACTATCAGACGCTCTGAGCGAGTTGCAGCGATAATGCAGGTTGCAAACTGTTCTCT----------------------------------------------------------------------------CGCTTGAGCTCGCA-----ACTCGTTTC----------GCTCTCA
droAna3 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp4 chr4_group4:3101286-3101457 + AGCAT---GAGC-GTCCACGAGATCAAGCGATAAGACATTTGCAAAGCTACTCTCTTGCTTCGCTTGCACTCGTTGCTGTCTTCGCTATAACTTGTTTCCCGCTCTTCACTGTAAATCGTTTTGCAC-TCTTCGCTCAAACTAGCCGCGCTGCTCTCTTCGCTTATCTTTGCTCTCA
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181143:687820-687924 + ACACACGTATAACAGCAGCTGGATGAAGCGATAAAGCGA-TTCAGAATCGCTTTCTCGCAACTCGCTT------------------------------C--------------------------AACTTGTCGCTTTGGCTCTCT-----TCTCGCTTC----------GCTTGCA
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6498:432956-433055 + AACAC---ACTTTAT-CATGCGATTAAGCGAGAAAGCGA-TTCAGGAATGCTTTCTCGCAACTCGCTT---------------------------------------------------------AACTTCTCGCTTTGGGTCTCT-----TCTCGCTTC----------GCTTGCA
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-2492 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:11441440-11441545 + ACAAAATTCACACTCGAAT-TTTTTTGGGATCTCTTTATAAAGCGTTTATTA---TTTATTTATTATGTTTTGTCGAGAGCTTTCAAAAA-ATT-CAGAAGACAACAACGCA
droSim1 chrX_random:3203326-3203430 + ACAAAATTCACACTCGAAT-TTTT-TGGGATCTCTTTATAAAGCGTTTATTATTATTTATTTATTATGTTTTGTCGAGAGCTTTCAAAAA-AGT-CAGAAG---ACAACGCA
droSec1 super_36:155641-155745 + ATAAAATTCACTCTCGAAT-TTTT-TGGGATCTCTTTATAAAGCATTTATTATTATTTATTTATTATGTTTTGTCGAGAGCTTTCAAAAA-AGC-CAGAAG---ACAACGCA
droYak2 chrX:10720999-10721105 - ACAAAATTCACACTCGAAT-TTTTTGGCAATCTGTTTATAAAGCGTTTATTA---TTTATTTATTATGTTTTGTCGAGAGCTTTCAAAAATACA-ACAAAATAGGAAAAAAA
droEre2 scaffold_4690:3720646-3720750 - ACAAAATTCACACTCGAATTTT---GGGTATCTCTTTATAAAGCGTTTATTA---TTTATTTATTATGTTTTGTCGAGAGCTTAAAAAAA-ATATGAAAAGACAACAACCAA
droAna3 scaffold_13047:188962-189053 + ACAAAATTCACACTCGCTT-TT---GGCCAAC--TCCATAAAGCGTTAATTA---TCTG---------GCATTCTGAGAGCCAAAAGCTA-AAT-CAAATTCGATCGGAGCG
dp4 chrXL_group1e:1762210-1762257 + ACAAAATTCACACTCGAAT-TT---GGGGATCGCGTAGCGAGG--------------------------------------------------------GG----GGGGCAA
droPer1 super_18:601670-601716 + ACAAAATTCACACTCGAAT-TT---GGGGATCGCGTAGCAAGGG-------------------------------------------------------------GGGGCAA
droWil1 scaffold_180777:122952-122984 + ATAAACTCAATACACGAAT-TTGGTACTGATTTC------------------------------------------------------------------------------
droVir3 Unknown ----------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6500:22511787-22511827 + TCC---------------------------------------------------------------------GTCAATCATCTCCTTAAA-ACT-CTAAAGCAAACCAAGCA
droGri2 scaffold_15203:463820-463836 - GTGAAATTCACACTCGA-----------------------------------------------------------------------------------------------

dme-mir-2493 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:10956461-10956596 - TATAA------------TGTGTGTG------------TGC-GCTATTATTAAAACCCCC----------------------------------------AAC----------GCTCACACACACACACA--GCCATGTGCATGG----AGCA-----AAAA-----A-------------CTATGGCCGTGT------------GTATTTGTGCGAGGCGTTGGCGTTCTGACC----AGCA------GAAGAGGAAGATGG
droSim1 chr3R:10501806-10501941 + TATAA------------TGTGTGTG------------TGC-GCTATTATTAAAACCCCC----------------------------------------AAC----------GCTCACACACACACACA--GCCGTGTGCATGG----GGCA-----AAAA-----A-------------CTATGGCCGTGT------------GTATTTGTGCGAGGCGTTGGCGTTCTGACC----AGCA------GAAGAGGAAGATAG
droSec1 super_0:10986595-10986730 + TATAA------------TGTGTGTG------------TGC-GCTATTATTAAAACCCCC----------------------------------------AAC----------GCTCACACACACACACA--GCCGTGTGCATGG----GGCA-----AAAA-----A-------------CTATGGCCGTGT------------GTATTTGTGCGAGGCGTTGGCGTTCTGACC----AGCA------GAAGAGGAAGATAG
droYak2 chr3R:15471091-15471226 + TATAA------------TGTGTGTG------------TGC-GCTATTATTAAAACCCCC----------------------------------------AAC----------GCTCACACACACACAGG--GCCGTGTGCATGG----GGCA-----AAAA-----A-------------CTATGGCCGTGT------------GTATGTGTGCGAGGCGTTGGCGTTCTGACC----AGAA------GAAGAGGAAGATAA
droEre2 scaffold_4770:10485021-10485154 - TATAA------------TGTGTGTG------------TGC-GCTATTATTAAAACCCCC----------------------------------------AAC----------GCTCACACAC--ACAGA--GCCGTGTGCATGG----GGCA-----AAAA-----A-------------CTATGGCCATGT------------GTATGTGTGCGAGGCGTTGGCGTTCTGACC----AGAA------GAAGAGGAAGATAA
droAna3 scaffold_13340:6023187-6023339 - TATAA------------TGTGTGTGTGTGTG--TGTTTGT-GCTATTATTAAAACCCCC----------------------------------------CTC----------GCAAGCACCC-CCCACT--GCCAC-TGCATAG----AGCAAAAAAAAAAAAAAAA-------------CTATAGTGGTGT------------GTG-GCAGGCGAGGCGTTGGCGTTTTGACC----AAAA------GCTGAAGAAGAGGA
dp4 chr2:20937547-20937682 - TATAA------------CGTGTGTGTGAGTG------TGT-GCTATTATTAAACTCCCT---------CCCTAA---------------------------------------CAC----G--CACACA--ACTATGT-TATG----------------TA-----A-------------GTGTGTGTGTGT------------GTGTGTGTGTGAGGCGTTGGCGTTTTGACC----AGAAGCTGAAGAAGAGGAAGAATA
droPer1 super_3:3688114-3688249 - TATAA------------CGTGTGTGTGAGTG------TGT-GCTATTATTAAACTCCCT---------CCCTAA---------------------------------------CAC----G--CATACA--ACTATGT-TGTG----------------TA-----A-------------GTGTGTGTGTGT------------GTGTGTGTGTGAGGCGTTGGCGTTTTGACC----AGAAGCTGAAGAAGAGGAAGAATA
droWil1 scaffold_181130:7306738-7306938 + CAAATGGTATGCGTCTATGTGTATGTGTGTGCCTGTGTGTGGCTATTATTAAAAATCCACACCTCCTACCCCAACCCCCCGTTACATATACACACAACCAATACATCCATACGCCCACACATACACATA--CATGAAAAGAAAA----GGA------AAAAAAAGAA-------------CT------------------------------ATGAGGCGTTGGCGTTCGTTCCGGGCACTA------CAAGAAGAAGAAGA
droVir3 scaffold_13047:7645546-7645687 - CATAT------------TGTACGTG------------TGT-GCTATTATTAAAATGCCA----------------------------------------CAC----------GCACGCACAC--ATAGAGACGGGGGGACACGGACACGGCA-----AAAAGAAAAACTATTCTC--------AGAGTGTGT------------GTGCGCCTACGAGGCGTTGGCGTTTTGGCT----AGAA------GAAGC--------A
droMoj3 scaffold_6540:3604660-3604829 - TATAT------------TGTATGTG------------TGT-GCTATTATTAAAATACCA----------------------------------------CAT----------GCACGCACACACAGAGA--GGCAGAGACACGGACACAGCA-----AAAAGAAAAACTATTTACAGTTGCTGCGACTGTGTGTATATACATATATGCGCCTACGAGGCGTTGGCGTTTCAGCA----AGCG------AGAGAGTGAGAGAG
droGri2 scaffold_15245:14649244-14649349 + AACAA----------------------------------------------------GC----------------------------------------AAC----------ACACACACACACACACA--CACACACGCA-------GACA-----AAGA-----A-------------ACACACACTCAC------------ATACATC-TTGATGTGTTCATATTTATGCCA---AGTC------AAACTCAAAAGCTT

dme-mir-2496 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:1904318-1904465 + AAGAGCGCAAAATGA--GT--------------------------------GCGCCG----GTGTGCGTGTGTGAGAGGCC--ATCGTAAAAGCCTTGTTTGCGTGCGGAATTTAACTGTTTTCTCGCCGTCTGCGAATTGCG-----------------GGGCACTCACACACGCATATTCAGCCGCA--------CATCT--GGGAAAATGGG
droSim1 chrX:1343126-1343273 + AAGAGCGCGAAATGA--GT--------------------------------GCGCCG----GTGTGCGTGTGTGAGAGGCC--ATCGTAAAAGCCTTGTTTGCGTGTGGAATTTAACTGTTTTCTTGCCGTCTGCGAATTGCG-----------------GGGCACACACACACGCATATTCAGCCGCA--------CATCT--GGGAAAATGGG
droSec1 super_10:1689518-1689665 + AAGAGCGCAAAATGA--TT--------------------------------GCGCCT----GTGTGCGTGTGTGAGAGGCC--ATCGTAAAAGCCTTGTTTGCGTGTGGAATTTAACTGTTTTCTTGCCGTCTGCGAATTGCG-----------------GGGCACTCACACACGCATATTCAGCCGCA--------CATCT--GGGAAAATGGG
droYak2 chrX:6422544-6422691 - AAGAGCGCAAAATGT--GT--------------------------------GCGCCG----GTGTGCGTGTGTGAGAGGCC--ATCGTAAAAGCCTTGTTTGCGTGTGGAATTTAACTGTTTTCTCGCCGTCTGCGAATCGGG-----------------GGGCACTCACACACGCACATACAGCCGCA--------CATCT--GGGAAAATGGG
droEre2 scaffold_4644:1874871-1875018 + AAGAGCGCAAAATGT--GT--------------------------------GCGCCG----GTGTGCGTGTGTGAGAGGCC--ATCGTAAAAGCCTTGTTTGCGTGTGGAATTTAACTGTTTTCTCGCCGTCTGCGAATTGGG-----------------GGGCACTTACACACGCACATACAGCCGCA--------CATCT--GGGAAAATGGG
droAna3 scaffold_12929:1897894-1898023 + AAGGGGGAGAGAGCA--GT--------------------------------TTGCAT----GTGTGCGATTTT-----GTG--GTCATAAAAGCTTTGTTTGCGTGTGGAATTTAACTGTTTTCTAGCCGTCTGCGAATTGGG-----------------GGGGGGGGG-------------GGCCATA--------CAAGC--TGGAAAATAGG
dp4 chrXL_group1a:2576130-2576311 + AAGAGGGAGAGATA-----GAGAGAGAGAATAATGGAGTGCTGGTGTATATGTACCTACATATGTACGTGTGGTTGA-GTA--CCCATAAAAGCCTTGTTTGCGTGCTAGTTTTAACTGTTTTTTCGGTGTTCTTGTGTTGGG-----------------CGGCACACACACCAGCGCCATTGGCTTTT--------CACAGGGCGAGAAGTAAG
droPer1 super_28:1013167-1013344 + AAGAGGGAGAGATA-----GAGAGAGAGAATAATGGAGTGCTGGTGTATATGTACCT----ATGTACGTGTGGTTGA-GTA--CCCATAAAAGCCTTGTTTGCGTGCTAGTTTTAACTGTTTTTTCGGTGTTCTTGTGTTGGG-----------------CGGCACACACACCAGCGCCATTGGCTTTT--------CACAGGGCGAGAAGTAAG
droWil1 scaffold_181096:6994288-6994457 - GAGGCCAAAA-GAGACAGT--------------------------------GCGATA----GAGAG--AGGTAGAGAGAACGTACAGAGAGAG-CTTGTTCTGGTTTGTAACTA-ATTTTCCCCCTCAAATGTAAGCATTTCGAATGCATGTGTGTGTACGTGTAATCACACACGCACACAAATAC-CACGTCATTACGAT---TTCCACATGGC
droVir3 scaffold_12928:6459245-6459266 + G---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGTA--------TTTCT--GTGCAAGTGTG
droMoj3 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 scaffold_15203:11679615-11679698 + -----------------------------------------------------------------------------------------------TTGTTTTCGCTTTTCATTT---TGTTTTACGATTAACTGTAAACTGCA-----------------G-----CCGGCCAACCATTTTCGAGCCCA-----------CTGGCAAAGAATGGG

dme-mir-2498 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16472199-16472340 - ATGT------------GATATTTTTTTCACATTTGCCA-----------TAATCTC---------CTTAAAATAGTA--AAGGCTGTTATGCTTATTTTTGT-GTTTTTTACAAAACTGGCATTCCCGTCT--T-AC-TTATTTTCAGAAAACTTACACCAA-AGTGCACAGATTGAAAAAA
droSim1 chr2R:15133840-15133990 - AAAAAGACAATAATGTGA--ATTTCATCAAA-TTGCCA-----------TAATCTC------------AAAATAGTAAAAAGTCTGTTATGCCTTTTTTTGT-GTGTTTTACAAAAC-CGTATAACCGACTTTT-AC-TTATTTTTAGAAAACTAACACCGA-CGTGTACAGAACGAAAAAA
droSec1 super_1:14027148-14027283 - AATT----------GTGA--ATTTCATCAAA-TTGGCA-----------TAATCTC------------AAAAT------AAGCCTGTTATGCTTTTTTTTGT-GTGTTTTACAAAATTTGCATATTCGACTTTT-AC-TTATTTTCAGAAAACTGACCACGA-TGTGCACAGATTGAAGAAA
droYak2 chr2R:12723862-12724011 + TTTG-------------ATTCTGCATTAGAAATCGCCACCCAACTTTGATT--TTT---------CTAGAAATATTT--AAGTCTGTTCTGCTTAGATTTGT-GAATTTGACAAAATCTGCACAGCCGGCT--T-AATGTATTTTTAGAAACTTAGCACCTTTTGTGTAAAGA---AAAAAC
droEre2 scaffold_4845:10617439-10617588 - TTTG-------------ATTCTGCTTCTTAAATCGCCACCCAACTTATAGT--ATT---------CCAAAAATATTT--AAGTCTGTTATGCATACTTTTGT-GAGTTTGACAAAATGTGCACAACCGGCT--T-ACTGTATTTTTAGAAAACAAACACCTTAGTTGTAAAGAA---TAAAC
droAna3 scaffold_13266:4132040-4132139 + AATA-------------AATAAACAA---AA-TT-------------------CTCAAATATTTAACGTAAAA-----------------ACTTAATTTTGTCGCGATATACAAATTTGGC------GCCA--AAAC-GTATTTTCATAAAATTTT--------------------AAGCTA
dp4 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-303 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4260197-4260296 - AAAACC-AAATTGATATCTTGGTTTAGGTTTCAC-AGGAAACTGGTTTAATAACGAAAA----------CTAGTTTCCTCTAAAATCCTAATCAAGACATCATGTGTCGTCG
droSim1 chrX:3275244-3275342 - AAAACC-AATGTGATCTCTTGCTTTGGCATT-AA-AGGAAGCTAGTTTAATTACGAAAA----------CTAGTTTCCTCTAACGTTTCAAACAATACATCATGTGTCGTCG
droSec1 super_4:2464323-2464421 + AAAACC-AATGTGATCTCTTGCTTTGGCTTT-AA-AGGAATCTAGTTTGATTACGAAAA----------CTAGTTTCCTCTAAGGTTTTAAACATTACATCATGTGTCGTCG
droYak2 chrX:4177737-4177835 + GAACTCAAATAATCTGCCTTGCTTAGAATTTTAA-GAGCAAAAAGTTTGTTTACAAAAA----------CTATTTACCCCTAAAATTCTAATCTAGTCAGCATTAT--TTCG
droEre2 scaffold_4690:1630987-1631073 - GAACCA-AAAAATGTGCTTTGTTTAGAATTTTAGCGAGGAATCATTACAAATATGGATGTGAACTTAAAGTACTCACTGCAAG------------------------AAACG
droAna3 Unknown ----------------------------------------------------------------------------------------------------------------
dp4 Unknown ----------------------------------------------------------------------------------------------------------------
droPer1 Unknown ----------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181150:2098814-2098829 + AAA------------------------------------------------------------------------------------------------TCATTCGTCAACT
droVir3 Unknown ----------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ----------------------------------------------------------------------------------------------------------------
droGri2 Unknown ----------------------------------------------------------------------------------------------------------------

dme-mir-4939 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:18872718-18872857 - ATGCACATTTATTTGGCATCATG------------------------------------------C---------------------------------------TTCTGCGATCTCTACCAATTTTCCTTGCACTCT------TTGTCCTTTCCAAAAGTGACACGGGT----GCAGGTGAAGATTCG---GAAGAGGACGACGAAAACGACT---GCAAC-CGGACGACTCTTGGT
droSim1 chr2R:17459524-17459663 - ATCCACATTTATTTGGCATCATG------------------------------------------C---------------------------------------TTCTGCGAGCTCTACCACTTCTCCTTGCACTCT------TTGTCCTTTCCAAAAGCGACACTGAT----GCAGGTGAAGATTCG---GAGGAGGACGACAGCGAAGACT---GCAAC-AGGACGACTCTTGGT
droSec1 super_9:2164747-2164886 - ATCCACATTTATTTGGCATCATG------------------------------------------C---------------------------------------TTCTGCGAGCTCTACCACTTCTCCTTGCACTCT------TTGTCCTTTCCAAAAGCGACACTGAT----GCAGGTGAAGATTCA---GAGGAGGACGACAGCGAAGACT---GCAAC-AGGACGACTCTTGGT
droYak2 chr2R:18832811-18832950 - AACCGCGTTTATTTGCCAAAATG------------------------------------------C---------------------------------------TGCTCCGAGCTCTACCACTTCTGCTCACACTCTGTGTGTTGGTCCTCTCCAACGACGACACGGAT----GCAGATGAAGAAGAG---GAAGAGGACGA------CGACT---GCAAC-AAGGCGACTCTTGGT
droEre2 scaffold_4845:20234099-20234238 - AACCACGTTTATTTGCCATAATG------------------------------------------C---------------------------------------TGCTCCGAACTCTGCTC------CTTACGCTCTTCGTGTTTGTCCTTGCCAAAAACGATACGATT----GCAGAAGTAGAGGAA---GAGTCGGACGAGGACGAAGGAT---GCAAC-AAGGCGACTCTTGGT
droAna3 scaffold_13266:15204126-15204261 - ATTTAAGA-GCTTTTCCCTTCAAAGCCT----------------------------------------------------------------------------------------------AAACAGTTGACACAAAATGTGGCTACCCTTCTTGCTAGTGGCACTGCC----TTGGGGGACTGTGGTGGG---GGGAGGTCCTCTGACATTGGCCAATCTTAGCCGAATCATTGGA
dp4 chr3:14089101-14089284 - AAGCA-ATTAGTTTGCCATTTGCCATCTTATCGGGGTAATACCCAATCCAATTTATTGACCAATTCGAGATAGTCCCAAAGCTTTTCGCTGATTGCAACGATCCATTCCAAAGAAATTTT----------------------------------------------AGTAACTCCCAGAACAACAAAATGAA---CAAAGCTCGATCCGCGTTC---GCCGC-CGCCCTTCTTTTGCT
droPer1 super_4:1228949-1229132 + AAGCA-ATTAGTTTGCCATTTGCCATCTTATCGGGGTAATACCCAATCCAATTTATTGACCAATTCAAGATAGTCCCAAAGCTTTTCGCTGATTGCAACGATCCATTCCAAAGAAATTTT----------------------------------------------AGTAGCTCCCAGAACAACAAAATGAA---CAAAGCTCGATCCGCGTTC---GCCGC-CGCCCTTCTTTTGCT
droWil1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6496:24343095-24343103 - AT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTTGGC
droGri2 scaffold_15112:3934700-3934745 - ATATTCAATATGCT-------------------------------------------GAGCACATC---------------------------------------TTCTGAAAGCATTTCAGACTTTC--------------------------------------------------------------------------------------------------------------

dme-mir-4941 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:16024273-16024406 + CACGCTCACCAATCCCATGACCGGCGAGGAGATGCGATTCCTCGAGCTGCTCACCGCCTTTGGCTTGGACATCGAGGCGGTGGCCGCCGCTCTGGGAGTCGATATGCACACGCTCAACAACATGGAGCGCACCG
droSim1 chr3L:15362441-15362574 + CACGCTCACCAATCCCATGACCGGCGAGGAGATGCGCTTCCTCGAGCTGCTCACCGCCTTTGGCTTGGACATCGAGGCGGTGGCCGCCGCTCTGGGAGTCGATATGCACACGCTCAACAACATGGAGCGCACCG
droSec1 super_0:8124906-8125039 + CACGCTCACCAATCCCATGACCGGCGAGGAGATGCGCTTCCTCGAGCTGCTCACCGCCTTTGGCTTGGACATCGAGGCGGTGGCCGCCGCTCTGGGAGTCGATATGCACACGCTCAACAATATGGAGCGCACCG
droYak2 chr3L_random:1624866-1624999 - CACGCTCACGAATCCCATGACCGGCGAGGAGATGCGCTTCCTGGAGCTGCTCACCGCCTTCGGCTTGGACATCGAGGCGGTGGCCGCCGCTCTGGGCGTCGACATGCACACGCTCAACAACATGGAGCGCACCG
droEre2 scaffold_4784:18269422-18269555 + CACGCTCACGAATCCCATGACCGGCGAGGAGATGCGCTTCCTGGAGCTGCTCACCGCCTTCGGCTTGGACATCGAGGCGGTGGCCGCTGCACTGGGCGTCGACATGCACACGCTCAACAACATGGAGCGCACCG
droAna3 scaffold_13337:16593401-16593534 - CACCCTCACGAACCCCCTGACCGGCGAGGAGATGCGCTTTCTGGAGCTGCTCACGTCCTTCGGCATGGACATCGAGACAGTGGCCACCGCCCTGGGCGTGGATATGCACACGCTGAACAACATGGAGCGGACGG
dp4 chrXR_group8:4268508-4268641 + CACACTGACCAATCCGCTGACCGGCGAGGAGATGCGCTTCCTGGAGCTGCTCACCTCGTTCGGACTGGACATCGAGGCGGTGGCGGCGGCCCTGGGCGTCGACATGCACACCCTCAACAACATGGAGCGGACGG
droPer1 super_29:501948-502081 + CACACTGACCAATCCGCTGACCGGCGAGGAGATGCGCTTCCTGGAGCTGCTCACCTCGTTCGGGCTGGACATCGAGGCGGTGGCGGCGGCCCTGGGCGTCGACATGCACACCCTCAACAACATGGAGCGGACGG
droWil1 scaffold_181024:787133-787266 + CACATTAACCAATCCACTGACAGGTGAAGAGATGCGTTTCCTTGAGCTGCTCACCTCCTTCGGTTTGGATATTGAGGCAGTGGCAGCGGCGCTTGGCGTCGATATGCATACCCTCAACAATATGGAACGTACCG
droVir3 scaffold_13049:9209848-9209981 + CACGCTAACAAATCCGCTGACCGGCGAGGAGATGCGCTTTCTCGAGCTGCTCACCTCCTTCGGCCTGGACATCGAGGCCGTCGCCGCCGCACTCGGCGTCGATATGCACACCCTGAACAACATGGAACGCACCG
droMoj3 scaffold_6680:6136665-6136798 - CACGCTCACGAATCCGCTGACCGGCGAGGAGATGCGCTTCCTCGAACTGCTCACCTCCTTCGGTCTGGACATCGAAGCCGTGGCCGCAGCACTCGGCGTCGATATGCACACGCTGAACAACATGGAACGAACGG
droGri2 scaffold_15110:4981116-4981249 + CACGCTCACGAATCCGCTAACCGGCGAGGAGATGCGCTTCCTCGAGCTGCTCACCTCATTCGGCTTGGACATTGAGGCGGTGGCAGCAGCGCTGGGTGTCGATATGCACACCCTGAATAACATGGAGCGAACGG

dme-mir-4944 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:6338711-6338870 - AGA-TG-CCCAGACAGCAAAAGT----------------------------------------------------------------------------------------------------------------------------------AACTT-TCGTAATCGAAAAAGTTTCGCTTTTTTTTCTGCTT--CT--GCCGCTGAGCAAGTTTTAAATATTACCGCTTAGTT-------ACAGCTGCAGG------------------------------AAG-AAAAGTTATAATTATGGACTACGTACATAAATATCTTGGCAAGTGT----------------------TT
droSim1 chr3R:15041591-15041748 + AGA-TG-CCCAGACAGCAAAAGT----------------------------------------------------------------------------------------------------------------------------------AACTT-TCGTAATCGAAAAAGTTTCGCTTTTTT--CTGCTC--CT--GCCGCCTAGCAAGTTTTAAATATTAACGCTTAGTT-------ACAGCTGCAGG------------------------------AAG-AAAAGTTATAATTATGGGCTAAGTACATAAATAACTTGGCAAGTGT----------------------TT
droSec1 super_0:15602732-15602889 + AGA-TA-CCCAGACAGCAAAAGC----------------------------------------------------------------------------------------------------------------------------------AACTT-TCGTAATCGAAAAAGTTTCGCTTTTTT-TCTGCTC--CT--GCCGCCGAGCAAGTTTTAAATATTAACGCTTAGTT-------ACAGCTGCAGG------------------------------AAG--AAAGTTATAATTATGGGCTAAGTACATAAATAACTTGGCAAGTGT----------------------TT
droYak2 chr3R:10367066-10367225 - AGA-TG-CCCAGACAGCAAAAGT----------------------------------------------------------------------------------------------------------------------------------AACTT-TCGTAATCGAAAAAGTTTCGCTTTTTTCGCTGCTC--CT--GCCGCCGAGCAAGTTTTAAATATTAACGCTTAGTT-------ACAGCTGCAGG------------------------------AAG-AAAAGTTATAATTATGGGCTAAGTACATAAATAACTTGGCAAGTGT----------------------TT
droEre2 scaffold_4770:15270440-15270598 + AGA-TG-CCCAGACAGCAAAAGT----------------------------------------------------------------------------------------------------------------------------------AACTT-TCGTAATCGAAAAAGTTTCGCTTTTTT-GCTGCTT--CT--GCCGCCGAGCAAGTTTTAAATATTAACGCTTAGTT-------ACAGCTGCAGG------------------------------AAG-AAAAGTTATAATTATGGGCTAAGTACATAAATAACTTGGCAAGTGT----------------------TT
droAna3 scaffold_13340:761260-761417 + AGA-TGGCCCAGACAGCAAAAGT----------------------------------------------------------------------------------------------------------------------------------AACTT-TGGTAATCGAAAAAGTTTCGCTTTCGT------TTTTTTCCATC-CCGAACAAGTTTTAAATATTAACGCTTAGTT-------ACAGCTTCGGA------------------------------GAG-GAAAGTTATAATTATGGCCTAAGTACATAAATAACTCGCCAAATGT----------------------TT
dp4 chr2:7128424-7128589 + AGA-TG-G-CAGACGGCCCAAGG----------------------------------------------------------------------------------------------------------------------------------AACTT-TGGTAATCGAAAAAGTTTCGCTTTTTTCGC---TTTTTT--CTCAGTGGCCAAGTTTTAAATATTAACGCTTAGTTACTCCGTACAGCTGCAGA------------------------------AAGAAAAAGTTATAATTATGGCCTAAGTACATAAATAACTCGGCAAATGT----------------------AC
droPer1 super_0:982713-982880 + AGA-TG-G-CAGACGGCCCAAGG----------------------------------------------------------------------------------------------------------------------------------AACTT-TGGTAATCGAAAAAGTTTCGCTTTTTT-TTTGCTTTTTT--CTCAGTGGCCAAGTTTTAAATATTAACGCTTAGTTACTCCGTACAGCTGCAGA------------------------------AATAAAAAGTTATAATTATGGCCTAAGTACATAAATAACTCGGCAAATGT----------------------AC
droWil1 scaffold_181108:125373-125548 - AGA-TG-GG------GCAAAAGTATGTCGACTGAGGAAAACC-GGA--------------------------------------------------------------GAG----------------------CA------------------AACTTGTAGTAATCGAAAAAGTTTCGGTTTGTT------------------GTAGCCAAGTTTTAAATATTAACGCTTAGTT-------ACAGCTGCAGAA--G---------------------------AGAAAAAGTTATAATTATGCCGTAAGTACATAAATAACACGGCAAATGTGAC--------TT---T-----TT
droVir3 scaffold_13047:1304900-1305088 - AGAA----TAAGAAAGAA-----ATG-----TTAGGACGGCT-GGA--------------------------------------------------------------CAG----------------------GATTCAGTTTTGTTGCTGCTTACTG-CGGTAATCGAAAAAGTTTTGTT-----------------------GTAGCCAAGTTTTAAATATTAACGCTTACTT-------ACAGCTGCAGAGCTG--------------------------GAA-AAAAGTTATAATTATGGCGTAAGTACATAAATAACGCTGCAAATGTGCC------GCTTTTCT-----TT
droMoj3 scaffold_6540:5375448-5375637 - GGAATA-ATAAGAAAGAA-----ATG--------------CT-GGA--------------------------------------------------------------GAGGCACAGGCACAGTCTGGCTTGAGATTCAGTT----TGCTGCTTACGG-CGGTAATCGAAAAAGTTTT----------CTGTT-----------GTAGCCAAGTTTTAAATATTAACGCTTACTT-------ACAGCTGCAGAGCTG--------------------------GAA-AAAAGTTATAATTGTGGCGTAAGTACATAAATAACGCTGCAAATGC------------------------
droGri2 scaffold_14906:4949937-4950239 + AGAA----TAAGAAAGAA-----ATG-----TAAGCAACGCTCGGACAGATACAGATACAGAGACAGAGCCAGAGACAGAGCCAGAGACGGACACCGAAACTGAAACTGAGGCACA-GCACAG---GACTTGAGATACAGTTTTGTTGCTG----CTG-CGGTAATCGAAAAAGTTTGGTT-----------------------GTAGCCAAGTTTTAAATATTAACGCTTACTT-------ACAGCTGCAGAGCAGAGCTAAGCAGAAAAAAAAAATAAATAAAA-GAAAGTTATAATTATGGCGTAAGTACATAAATAACGCTGCAAATGTGCCAGAGTGGGGTTGGTAGGAGTT

dme-mir-4947 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:24834459-24834589 - TAAAGTAATAATATGAAAGCGACCCACCCAT--TC------------------------------------------------CCCTTCCGCCCATATTTATCCTT------------------------CGTCTACTGTTTCATCG----CAGGATTTAAGTGGGCGGAGCACGGAAT-----------TCGGGGGCGTGGCGC-----A--CTGGGTAGCGGGTA
droSim1 chr3R:24520998-24521128 - TAAAGTAATAATATGAAAGCGACCCACCCAT--TC------------------------------------------------GCCGCCCGCCCACTTTTATCCTT------------------------CGTCTACTGTTTCATCG----CAGGATTTAAGGGGGCGGAGCACGGAAT-----------TCGGGGGCGTGGCGC-----A--CTGGGTAGCGGGTA
droSec1 super_4:3696490-3696620 - TAAAGTAATAATATGAAAGCGACCCACCCAT--TC------------------------------------------------GCCGCCCGCCCACTTTTATCCTT------------------------CGTCTACTGTTTCATCG----CAGGATTTAAGGGGGCGGAGCACGGAAT-----------TCGGGGGCGTGGCGC-----A--CTGGGTAGCGGGTA
droYak2 chr3R:21664594-21664723 + TAAAGTAATAATATGAAAGCGACCGGCCCAC--C-------------------------------------------------CCTCGCCGCCCACTTTTATCCTT------------------------CGTCTACTGTTTCATCG----CAGGATTTAAGTGGGCGGAGCACGGAAT-----------TCGGGGGCGTGGCAC-----A--GTGGGTAGTGGGTA
droEre2 scaffold_4820:3199292-3199428 + TAAAGTAATAATATGAAAGCGACCGGCCCAC--C-------------------------------------------------CCTTTCCGCCCACTTTTATCCTT------------------------CGTCTACTGTTTCATCG----CAGGATTTAAGGGGGCGTAGCACGGAAT-----------TCGGGGGCGTGGCACAGTGGCTAGTGGATAGTGGGTA
droAna3 scaffold_13340:19733656-19733776 + TAAAGTAATAATATAAAAGCGACCAGCCCCT--AC---------------TTCTACTCCACCCAACCA-------------------GCCTCCCGATCCTGGGCAG------------------------CGTTGGTTGTTTCAGAG----G--------------CGGCTTGAGGAAC-----------TCGGGGGCGTGCCGC-----T------------CCTA
dp4 chr3:722533-722667 - TAAAGAGATAATGACAAAGCAACCCATTAAAAGCCATCCCTTGACAACACTCCTCTCTCATCCC-------------------------------------------------------------------CTTCATATTCCCATCT----CCGAA---AAATGAGCGAAGAACGGAGA-----------GCAACGTTTTAATAA-----A--TTTGTAAACAGATT
droPer1 super_26:1114277-1114391 - GACGGTGGCCTTCC-------ACTTCCTCTT--CC------------------GCCGCCACCACACCCCCTTCCCACTGCCAA---------GC------A---CG------------------------CTCTTTTTATCGCAATT----G-------TTGTCGG-------CGGA------------------TTTTCGGCTT-----A--CATGCGAGGAGCTA
droWil1 scaffold_181096:10088805-10088934 + CAAAATGTCCTTGATG-----ACTGGC-------A-------------------------TTCACACACACACA---------CACACACACACACATTTAAACACATCCATATGTACATCCATGTATACATTTATCTAATACAGAT----G--------------CAGAGCTCGGA--------------------------AC-----T--TCAAGTATAAGGCA
droVir3 scaffold_13049:15807-15938 + TATG-TGGCAGTAGAAATTTCTCCCATAAATATAT-----------------------------GTAC---------------CCTTTCCGTCTTTATGTTTGTTT------------------------GGTTGAATGGATCGAAC----TACAAATCTAGAGATTAGAAATTGGAAA-----------TCCGTATTCTAGTA-----------ATGTATCCAGAA
droMoj3 scaffold_6500:17797597-17797712 + CACACACAC--------------ACACACAG--AC------------------------------------------------TTTGGCTACAAAATGTTAACTTG------------------------AGTTTGAAATTTTCCAG-----GGAATATGAGTGAGAGGCGAGCGAAAG-----------CAGTGAACAGAGTGA-----A--CAATGTATAAAGTA
droGri2 scaffold_14853:8203259-8203387 + CAAATTAACAACAAGAATTCTTTCCAGCTCC--CT-------------------------CTCTCTCTCTCTCTCTCTCTCTA---------AC----------TC------------------------CGTCTC-----TCATTTCCGAGAGAGAGCTAGTTACATTGCTGAGAGAGAAGTGAAGAGAGCCGAGC-----------------------TTTGTTA

dme-mir-4949 five_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:27044980-27045109 - TGCGAAACG----------------TGTTTGA-T------AATGCGCCGCCATCTTGCGGCACACTCGCACA-C------ACACA-CGTGTGCC-----------ATTCTGG-------TTTTGC--AGTGGTGTGCGTGTGTGCCTC-------GAGTCGTTGCGTCACTGGAAAAGTT-----------AGAAAATC
droSim1 chr3R:26688146-26688275 - TGCGAAACG----------------TGTTTGA-T------AATGCGCCGCCATCTTGCGGCACACTCGCACA-C------ACACA-CGTGTGCC-----------AGGCTGG-------TTTTGC--AGTGGTGTGCGTGTGTGCCTC-------GAGTCGTTGCGTCACTGGAAAAGTT-----------AGAAAATC
droSec1 super_4:5862973-5863106 - TGCGAAACG----------------TGTTTGA-T------AATGCGCCGCCATCTTGCGGCACACTCGC---ACACACACACACA-CGTGTGCC-----------AGGCTGG-------TTTTGC--AGTGGTTTGCGTGTGTGCCTC-------AAGTCGTTGCGTCACTGAAAAAGTT-----------AGAAAATC
droYak2 chr3R:27981306-27981430 - TGCGAAACG----------------TGTTTGA-A------AATCCGTCGCCATCTTGCGGCACACTCAC---AC------ACACA-CGTGTGCC-----------AATATGG-------T-TTGC--AGTGGTGTGCGTGT--GCCTC-------GAGTCGTTGCGTCACTGGAAAAGTC-----------AGAAAATC
droEre2 scaffold_4820:935924-936048 + TGCAAAACG----------------TGTTGGA-A------AATTCGCCGCCATCTTGCGGCACACACA-----C------ACACA-CGTGTGCC-----------AGTCTGG-------T-TTGC--AGTGGTGTGCGTGTGGGCCTC-------GAGTCGTTGCGTCACTGGAAAAGTC-----------CGAAAATC
droAna3 scaffold_13340:14436299-14436405 - CTCAAAACG----------------TGTTCAA-TGG----A----ATCGCCATCTTGCGGCTCACAC---------------ACA-CATGTGAC---------------------------------AGTTGTTCGTGCGTGTGTCTGG------GAGTCGTTGCGTCACTGAGAAAGTC-----------GGAAAAT-
dp4 chr2:85298-85449 + TAC-------ATTTTCTCGAAAACGTGTCGAA------------TGTCGCCATCTTGCGGCACACACAC---AGACACACACACA-CATGTGAC-----------GAGAGGAATTGCCAGT--GCTCAATAGTGTGCCTGTGTG--TC-------GAGACGTTGCGTCACTGAAAAAGTCGAACAGC--AAAGTAAATT
droPer1 super_7:2877006-2877157 + TAC-------ATTTTCTCGAAAACGTGTCGAA------------TGTCGCCATCTTGCGGCACACACAC---AGACACACACACA-CATGTGAC-----------GAGAGGAATTGCCAGT--GCTCAATAGTGTGCCTGTGTG--TC-------GAGACGTTGCGTCACTGAAAAAGTCGAACAGC--AAAGTAAATT
droWil1 scaffold_181108:712012-712143 - TGAAAAATGTATTTTATC--TA--------GA-G------ATATTGTCGCCATTTTGCGGCACTCAC-------------ACACA-CGTGTCAC-----------AAGA-GAACTGTCAAATTGT--AGCTGTATGCGTGAG----AC-------CAGTCGTTGCGTCACAGCAAAAGTT-----------TTCAAATT
droVir3 scaffold_12855:1227223-1227391 + TAA------TATTTTTTC--AAACGTGTTCAG------------TGTCGCCATCTTGCGGCACATACAC---ACACATTCAGACAAGATGTCACACGGACGTACGAAGA-GAACTGTCAGT--GTGTT-TTGTGTGCCGTAGTG--TGGAGTGTAAATTTGTTGCGTCACTAGAAAAGTTCAACTGT-TGAAGGAAATC
droMoj3 scaffold_6540:26974787-26974936 + TAA------CATTTTTTC--AAACGTGTTCAA------------TGTCGCCATCTTGCGGCTCACGCAC---ACACTCA--TGCAAGATGTCACACGGGCGTATGAAGA-GAACTGTCAGT--GTT--AC------------TGTGTG-------AAGTCGTTGCGTCACTAGAAAAGTTCAACGATTTGAAGAAAATT
droGri2 scaffold_15245:5068344-5068468 + G-CGACAAG----------------TGGTTGACTGCACCTGCACCCTCC-CAA---CAGACACACTCACACA-C------ACACA-CACAACCC-----------TCTGTGT-------GTGTGC--AAGTGTGTGTGTGTGTGTGTC-------AAA-CGCAGCA--ACTGCTGAAGTT-----------T----AAC

dme-mir-4952 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:18306519-18306675 + CGCCGGCGAGTGGTTATCCGGGTGCGCTGGACGATCTGATCTTCTCGGGAGCCGGATCCGGATGTCGCGGCGACGACGAGGACGAGTGCACGCCGCCATTCGAATCGGGTAGCGGGGATGATCTCATAACACCGGTCTACGTGCCGCCCACCAAGCA
droSim1 chr3R:18115675-18115831 + CGCCGGCGAGTGGTTATCCGGGTGCGCTGGACGATCTGATCTTCTCGGGAGCCGGATCCGGATGTCGCGGCGACGACGAGGACGAGTGCACGCCGCCATTCGAATCGGGTAGCGGGGATGATCTCATAACACCGGTCTACGTGCCGCCCACCAAGCA
droSec1 super_0:18660821-18660977 + CGCCGGCGAGTGGTTATCCGGGTGCGCTGGACGATCTGATATTCTCGGGAGCCGGATCCGGATGTCGCGGCGACGACGAGGACGATTGCACGCCGCCATTCGAATCGGGTAGCGGGGATGATCTCATAACACCAGTCTACGTGCCGCCCACCAAGCA
droYak2 chr3R:19151970-19152126 + CGCCGGCGAGTGGTTATCCGGGTGCGCTGGACGATCTGATCTTCTCGGGAGCCGGATCCGGATGTCGCGGCGACGACGAGGACGAGTGCACGCCGCCATTCGAATCGGGAAGCGGAGATGATCTCATAACACCGGTCTACGTGCCGCCCACCAAGCA
droEre2 scaffold_4820:9770831-9770987 - CGCCGGCGAGTGGTTATCCGGGTGCGCTGGACGATCTGATCTTCTCGGGAGCCGGATCCGGATGTCGCGGCGACGACGAGGACGAGTGCACGCCGCCATTCGAATCGGGAAGCGGGGATGATCTCATAACACCGGTCTACGTGCCGCCCACCAAGCA
droAna3 scaffold_12911:5347592-5347748 + CTCCGGCGAGTGGCTATCCGGGTGCCCTGGACGATCTGATCTTCTCGGGAGCGGGATCCGGGTGCCGGGGCGATGACGAGGACGAGTGCACGCCACCCTTCGAGTCGGGCAGCGGGGACGACCTGATCACTCCGGTGTATGTACCGCCCACCAAGCA
dp4 chr2:13773155-13773311 - CGCCGGCCAGCGGCTATCCCGGCACCATTGACGATCTGATCTTCTCCGGGGCCGGGTCCGGGTGCCGCGGCGACGACGAGGACGAGTGCACACCGCCCTTCGAGTCGGGCAGCGGCGATGACCTCATCACGCCCGTGTATGTGCCACCCACCAAGCA
droPer1 super_0:6673715-6673871 + CGCCGGCCAGCGGCTATCCCGGCACCATTGACGATCTGATCTTCTCCGGGGCCGGGTCCGGGTGCCGCGGCGACGACGAGGACGAGTGCACACCGCCCTTCGAGTCGGGCAGCGGCGATGACCTCATCACGCCCGTGTATGTGCCACCCACCAAGCA
droWil1 scaffold_181089:2782020-2782176 + CGCCGGCCAGTGGCTATCCTGGGGCCATAGATGATCTTATATTCTCCGGTGCCGGATCCGGTTGTCGCGGCGACGATGAAGACGAATGTACGCCGCCCTTCGAGTCGGGCAGTGGAGATGATCTAATCACACCTGTCTATGTGCCTCCGACAAAACA
droVir3 scaffold_12822:645540-645696 - CGCCTGCGAGCGGCTATCCGGGCGCCATAGACGATCTGATCTTCTCCGGGGCCGGGTCCGGTTGTCGCGGCGACGACGAGGACGAATGCACGCCCCCCTTCGAGTCGGGCAGCGGGGATGACCTAATAACGCCCGTCTATGTGCCGCCCACCAAGCA
droMoj3 scaffold_6540:33300209-33300365 - CGCCGGCTAGTGGCTATCCGGGCGCCATAGACGACCTGATCTTCTCCGGAGCCGGATCTGGGTGTCGCGGCGACGACGAGGATGAATGCACGCCGCCCTTCGAGTCGGGCAGTGGGGATGACCTGATCACACCCGTCTATGTGCCGCCCACCAAACA
droGri2 scaffold_15074:3142694-3142850 + CGCCGGCGAGTGGTTATCCGGGTGCGATAGACGATCTGATCTTCTCCGGTGCGGGATCCGGGTGTCGCGGCGACGATGAGGACGAATGCACGCCGCCCTTCGAGTCGGGCAGCGGGGATGATCTAATTACGCCCGTCTATGTGCCACCCACCAAACA

dme-mir-4953 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:18599846-18599969 + CGTAAGAATA-------------TTG-------CACTAAAGTTCACAGGCGACCATGA-AT---GTTAATAAAG----A--------ATAT---------------------TTACCAATAAAGTTTTATTTTTTATTGAAGGTCATGGACATCCTTGAACCGATTTTGCAACATG-----CATGT
droSim1 chr3R:18412164-18412275 + CGTAAAAATA-------------TTG-------CACGAAAGTTCGCAGGCGACCATGA-AT---GTTAATAAAG----A--------ATAT---------------------TTACCAATAAAGTTTTGTTTTTTATTAAAGGTCATGGACATCCTTGAACG--------------------GTGT
droSec1 super_0:18960705-18960813 + CGTAAAAATA-------------TTG-------CACGAAAGTTCGCAGGCGACCATGA-AT---GTTAATAAAG----A--------ATAT---------------------TTACCAATAAAGTTTTGTTTTTTATTAAAGGTCATGGACATCCTTGAACG--------------------GTGT
droYak2 chr3R:19450585-19450700 + TGCTCAAATT-------------TTG-------CACGAAAGTTCGATGGCGACCATGA-AT---GCGAATGAAG----A--------ATAT---------------------TTACCATTAGTGTTTTGCTCATTATTGAAGGTCATGGACATCCTTGA-----TTTTGCAAAATG--------TT
droEre2 scaffold_4820:9473651-9473779 - CGCTAAAATA-------------TGG-------CACGAAAGTTCACTGGCGACCATGA-AT---GTTAATAAAG----A--------ATAT---------------------TTACCATAAAGATATGTTTTTTTATTGAAGGTCATGGACATCCTTGAACCGATTTTGCAATATGTTCTACGTGT
droAna3 scaffold_13340:12717426-12717507 - GGGGAAAAAA-------------TGA-------AAAGAA-----ACAAATGACCTTAGTAGGTCAGTGACTAAATTTTTGCCCATAA----GT-----------------------------GATTTAATCGTATATCAA----------------------------------------------
dp4 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12822:414561-414651 - TGCAAGCAAA-------------TTT-------TGCCTAAGTTCTGA------------------CTAATAACT----A--------ATGT---------------------ATGTACTTAATGTTATTGTGATAAATTAATGTTATTTGTAACCAA------------------------AATGT
droMoj3 scaffold_6540:33042485-33042630 - CGTAGTTTGACCACATAGAGACATCAAGTCTAAGAGGAAAACTCA--------TTTGG-AC---ACTGATTAAAAATCAGTCCCGAT----GAGAGCGAT------------AT---ATTAACATTAATTTTCTTATTGCATTTTACGTATATTTTTTTTTTGCTTTTAACA---------TACAT
droGri2 scaffold_15074:3394740-3394844 + GTATGATACA-------------------------TTAAAGTTCTCCATAATCAATTT-GT---GT-------------------------GTGTGTGTGTCATCGACAAATTTACCATCTTAACTACACTTATTTTCAAAAT-------------------A-TTTCACATA--------TATTT

dme-mir-4954 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:1923021-1923142 - ATATAAGTGTTCG--------ATTTGGCGCTTGGAATCGATACCCGAGCCATGATAGATTGAAGTCAA-CCCA-ATC----G----------ATC-GC-GGT-TCGAGTGCTCGAGTCTTGTGCGCCGGCATGC-TTGAGAT---GTCCACTA
droSim1 vgb65a08_5.b1:263-385 - ATATAAGTGTTCG--------ATTTGGCGCTTGGAATCGATACCCGAGCCCTGATAGATTGAAGTCAA-CCCA-ATC----G----------ATC-GC-GGT-TCGGGTGCTCGAGTCCTGTGCGCCGGCATGC-TTGAGAT---GTCCACTA
droSec1 super_10:1708076-1708197 - ATATAAGTGTTCG--------ATTTGGCGCTTGGAATCGACACCCGTGCCCTGATAGATTGAAGTCAA-CCCA-ATC----G----------ATC-GC-GGT-TCGGGTGCTCGAGTCTTGTGCGCCGGCATGC-TTGAGAT---GTCCACTA
droYak2 chrX:6403257-6403382 + ACATAAAAGTTCA--------ATTTGGCGCTTGGAATCGTAACTCGAGCCCTCAAAGATTGAAGTCAAATGCA-ATC----G----------ATCCGG-GGTGTCGAGTGCTCGATTCTGGTGCGCCGGCATGCTTTGAGAT---GTCCACTA
droEre2 scaffold_4644:1895276-1895400 - ATATAAGTGTTCG--------ATTTGGCGCTTGGAATCGAACCTCGAGCCCTGACAGATTGAAGTCAA-CCCAAAAC----G----------ATC-CCGGGG-TCGAGTGTTCGAGTCCGGTGCGCCGGCATGCTTTGAGTT---GTCCACTA
droAna3 scaffold_12929:1917028-1917098 - ATATCCTTGACTT-------------------------CATAA-GGAACAATGA---------------------------------------TC-AT--GT--------------TAAGGTTCTCAGGCATGTCTCGAGATTATATCGAATC
dp4 chrXL_group1a:2597066-2597203 - ATATAAATACATACTGCATAGTGTAGCAGAATGGACTCGGAACTCGATCCATGCATGCCACATGCCACATGCC-ACATGTCGCAGAGGGGGCAGC-GT-GGC-TCGAGTGCCAGAGTCCGGCGAG-------GC-ATGAGAC---TACTTACC
droPer1 super_28:1034311-1034357 - A--------------------------------------------------------------------------------------------GC-GT-GGC-TCGAGTGCCAGAGTCCGGCGAG-------GC-ATGAGAC---TACTTACC
droWil1 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6473:2911987-2912050 + ATATATGTGTGTG--------TGTTTGTGTATTGTATTTAGATTTGAGCTATAAAATGTTTAATAAAA-CTCA--------------------------------------------------------------------------------
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-4955 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:2438757-2438956 - T--T-GCTGATGTCAA-----ATCACCGATTTGCTTCCCCT-TTT----------------------------------TCCGTGCGCGGAGAAAAAAATCCCCAGAAACATAATATCAGGATGCTCTCTATC------------------------TCTGTCTCTGTCTAACGCTTA-----ATTGTTGCT-CAATTGCGAATTAATGTC------------------------------------------------------TGGGGCTTTTTTT---CTCCGTGCAGTGCCATAGCCGTA------------------------------------------------------------A-CCAC------------------------AACCTGCCAGCCGT-TTAAAGC
droSim1 chrX:1743323-1743545 - T--T-GCTGATGTCAA-----ATCACCGATTTGTTTCCCTT-TTT----------------------------------TCCGTGCGCGGAGAAAAAAATCCCCAGAAACATAATATCAGGATGCTCTCTATATCTATCTCAGTCTGGGCCCAAGTGTCTGTCCCTGTCTGACGCTTA-----ATTGTTGCT-CAATTGCGAATTAATGTC-------------------------------------------------------GGGGCTTTTTTT---CTCCGTGCAGTGCCATAGCCGTA------------------------------------------------------------A-CCAC------------------------AACCTGCCAGCCGT-TTAAAGC
droSec1 super_10:2212704-2212927 - T--TTGCTGATGTCAA-----ATCACCGATTTGTTTCCCCT-TTT----------------------------------TCCGTGCGCGGAGAAAAAAATCCCCAGAAACATAATATCAGGATGCTCTCTATATCTATCTCAGTCTGGGCCCAACTGTCTGTCCCTGTCTGACGCTTA-----ATTGTTGCT-CAATTGCGAATTAATGTC-------------------------------------------------------GGGGCTTTTTTT---CTCCGTGCAGTGCCATAGCCGTA------------------------------------------------------------A-CCAC------------------------AACCTGCCAGCCGT-TTAAAGC
droYak2 chrX:5905985-5906183 + T--T-GCTGATGTG-------TTCACCGATTTGTTTCCCCT-TTT----------------------------------TCCGTGCGCCGAGAAAAAAATCCCCAGAAACATAATATCAGGATGCTCTC----------------------------CCTGTCTCTGTCTTACGCTTAATTTAATTGTCGCT-CAATTGCGAATTAATGTC------------------------------------------------------GGGGGCTTTTTTT---CTCCGTGCAGTGCCATAGCCGTA------------------------------------------------------------A-CCAA------------------------AACCTGCCAGCCGT-TCAAAGC
droEre2 scaffold_4644:2389120-2389318 - T--T-GCTGATGTG-------TTCACCGATTTGTTTCCCCT-TTT----------------------------------TCCGTGCGCTGAGAAAAAAATCCCCAGAAACCTAATATCAGGATGCTCTCTGTCTC----------------------CCTGTCTCTGTCTCACGGCAA-----ATTGTTGCT-TAATTGCGAATTAATGTC-------------------------------------------------------GGGGCTTTTTTT---CTCCGTGCAGTGCCATAGCCGTA------------------------------------------------------------A-CCAC------------------------AACCTGCCGACCGT-TTAAAGC
droAna3 scaffold_12929:2354513-2354742 - G--T-GTTTCTTCCAA-----ATCTTCACTTCTCTTCTCTTTTCTTTTCTTTCCTTCTTCTGTTTTTTTTTTTTGTTGGTCCCTGCACGGAGAAGAAGTTGTTAGGACA-------TT-----------------------A----------------------------------------------------GAGTGGACCTTAG---TGTGGTTAATAGATCATATGACTCATTGTCCTTGCAATT--ATTTCACAACTCGCT-CCAC-TTTTCT---CTCTGTGCAGTGCCATAACCGTA------------------------------------------------------------A-CCAC------------------------AACCTGCCAGCCGT-TCAAAAA
dp4 chrXL_group3a:2134676-2134849 - TTTC-GCTGATTCGGGAATATATTCTCCACCCCCCCACCCT-CTACCA--TTTC-------------------------CTCTTCTGCTGACCTA----------------------CACGATTTTCCCCCTC----------------------------TCTCTT---------------------------------------------------------------------------AACGATCTTAACGCTCCACTCTTT-CTGT--CTCTCTCGATTTTTGCAGTGCCATAGCCGTA------------------------------------------------------------AAACAC------------------------TGTCTTCCTACCGT-TTACCGT
droPer1 super_13:248212-248305 - T--C-TCTGG--------------------------------------------------------------------------------------------------------------------------C------------------------TCTGTCTCTGTCTCAGGCGTA-----ACAGGTGCGTTGAGTGCATTTCAATTGT-------------------------------------------------------ATGGATA---------ATTGTGCTGTATTGTAATTGAA------------------------------------------------------------ATCCAC------------------------AA--------------------
droWil1 scaffold_181096:12164007-12164188 - T--C-GCTGATTTTGGAAAACATTTCTTATTTGCTCTCCTT-TAATTTATGTTTTT---------------------------------------------------------------------------------------------------------------------TTTTT-----GTTGTTGTT-CTTTTGTATATTTTT----------------------------------------------------------TATGT--TTATT---TTGTTTGCAGTGCCATAA-CATAATAATAGTTAATACTTATTGTGTTCACACAAAAATTTTGGGCCGCCGAATCGAAAACGAAT-------------------------------------------ATCAAAAC
droVir3 scaffold_12928:1476007-1476072 - T--T-T----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTTT---TTACTTGCAGTGCCATAAACATCGTA---------------------------------------------------------A-CCTTTTT-C--TTTCTTTATCACGTCTAAACGC---------------AT
droMoj3 scaffold_6473:13536163-13536218 + C--G-T---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTTC---TCTCTTGCAGTGCCATAAACATCGTA-------------------------------------------------------------AT-------------------------TTTTTTCATTTAT-TTACGTC
droGri2 scaffold_15203:8273975-8274075 + AATA-GCTGAA-----------------ATTTGTTTTCCTC-A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTCTTGCAGTGCCATAAACATCGTA---------------------------------------------------------A-CCTTTTTTCTTTTTTTTTCTTACGTCAAAACGCATCGATCGCATCAGAGG

dme-mir-4958 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15974940-15975104 - GTCCG------------------------------------A------ACCGTACGATCTCT--------------------------------GGCAGCTGCAGTTCCGTTT------CCGGAGCGGGATCTGGAACGGGCTCTGGTTCTAGATCAGGATCCAATCATGCACCCGGTCCAGGTACCGCTCCAGGTCCCGTTCCCGGAAACGGTGCCACCGCCAATGCAGCTGCAGCGGCATTCA
droSim1 wgm54c09.g1:392-557 + GTCCG------------------------------------A------ACCGCACGATCTCT--------------------------------GGCAGCTGCAGTTCCGTTT------CCGCAGCGGGATCTGGGACGGGCTCTGCTTCTAGATCAGGATCCAATCATGCACCCGGTCCAGGTGCCGCTCCAGGTCCCGTACCCGGAAGCGGAGCCACCGCCAATGCAGCTGCAGCGGCATTCA
droSec1 super_47:33133-33297 - GTCCG------------------------------------A------ACCGTACGATCTCT--------------------------------GGCAGCTGCAGTTCCGTTT------CCGCAGCGGGATCTGGCACGGGCTCTGCTTCTAGATCAGGATCCAATCATGCACCCGGTCCAGGTGCCGCTCCATGTCCCGTACCCGGAAACGGAGCCACCGCCAATGCAGCTGCAGCGGCATTCA
droYak2 chrX:10123735-10123899 - GTCCA------------------------------------A------ATCCCACGATCTCT--------------------------------GGCAGCTGCAGTTCCGTTT------CCGCAGCGGGTTCTGGAACGGGCTCTGGTTCTGGATCCGGATCCAATATGGCATCCGGTCCTGGTACCGCTCCAGTTCCCGTACCCGGAAACGGTGCCACCGCCAATGCAGCTGCAGCGGCCTTCA
droEre2 scaffold_4690:11103030-11103194 + GTCCA------------------------------------A------ATCCCACGATCTCT--------------------------------GGCAGCTGCAGTTCTGTTT------CCGGAACGGGTTCTGGAACGGGCTCTGGTTCGGGATCCGGATCCAATCTGGCACCCGGTCCTGGTACTGCTCCAGTTCCCGTACCCGGTAACGGTGGCACCGCCAATGCAGCTGCAGCGGCATTCA
droAna3 scaffold_13165:312527-312640 - GCATA------------------------------------A------GCCACATGGACTCT--------------------------------G---------------------------------------------------------GATCAGGCTCCGTATCTGCGTCAATTTTGGGCACCGGTCCAGGCCCTTTACATGGAAATAGTGCGACCTCGAATGTCTCTTCTGCACCCTTTA
dp4 chrXL_group1e:9575758-9575916 - GCCCC------------------------------------A------ATCCCAATGCCAGC-----------------------------AACGGCAGCTGTGGCTCCGCCTCTGCCTCCGGTTCGTCCAGTGGCTCG-GCACCGGCTCCGGCTCAGGGTCAGACTCAGGCCACGACTCAGGCACCG-----------ACTCACGGCAACACTTCGG---CCGGTGGCACAGCCTCGGCGTACT
droPer1 super_22:633193-633346 + GCCCC------------------------------------A------ATCCCAATGCCAGC-----------------------------AACGGCAGCTGTGGCTCCGCCT------CCGGTTCGTCCAGTGGCTCGGCACCGGTTCCGGGCTCAGGGTCAGACTCAGGCCACGACTCAGGCACC-----------AGCTCACGGCAACACTTCGG---CCGGTGGCACAACCTCGGCGTACT
droWil1 scaffold_181096:10624772-10624892 + CTGCATCATCGGCATCGCCAACTTATCAGAAGGGCAGTCCGAATCCAAATCCCAAT---------------------CTGAATGCAAATGCAACGGC--------------------------------------------------------------------------T------------------------------GGTGGCTCTGGAGCCAGTTCATCTGCTGCCACCGCTGCCTTTA
droVir3 scaffold_12472:523224-523310 + GCCCG------------------------------------A------ATCCCAATGGCGGT--------------------------------GGCTCCAGCGGTGCC------------------------------------------------------------------------------------AGTCTATCTGGCAGTAACAATGTGACTGCCACCGCTACAGCCGCCGCCTTTG
droMoj3 scaffold_6308:2944361-2944510 - GCCCG------------------------------------A------ATCCCAATGGCGGCGGCAGCGGCGCCGGTGG--------------------CGGTGGCGGTGCCGCTGCTGCTGGCTCCAACGGTGGC------------------------GGAAGTCT---------CTCGGGCAGCAGCAGCAGCAATGCAGCCACAGCCAATGCTACAGCCACCGCCGGTGGCGCGGGCTTTG
droGri2 scaffold_15203:4433131-4433217 - GCCCG------------------------------------A------ATCCCAATGGCTGT--------------------------------GTCTCCAGCGGTGCC------------------------------------------------------------------------------------AGTCTCTCTGGCAGCAACACTGTGACTGCCACCGCTACTGCCGCCGCCTTTG

dme-mir-4959 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19063148-19063296 - TGCTCATGGCCCTGATGTCCGGTTTGAACCTTCTGTGCCGGCTGGCCATGATTTGCAGCAGGTATCTCCGAGAGCAGATGATACGCAGCCAGTTGCGTTTCATGACCAAACGGCATGTGAAGCGTGCCCTGCGGGACCTGACCATCGGC
droSim1 chrX:14724057-14724205 - TGCTCATGGCCCTGATGTCCGGCTTGAACCTTCTGTGCCGGCTGGCCATGATCTGCAGCAGGTACCTCCGAGAGCAGATGATACGCAGCCAGCTGCGTTTCATGACCAAGCGGCATGTGAAGCGTGCCCTGCGTGACCTGACCATCGGC
droSec1 super_8:1352288-1352436 - TGCTCATGGCCCTGATGTCCGGCTTGAACCTTCTGTGCCGGCTGGCCATGATCTGCAGCAGGTATCTCCGAGAGCAGATGATACGCAGCCAGCTGCGTTTCATGACCAAGCGGCATGTGAAGCGTGCCCTGCGTGACCTGACCATCGGC
droYak2 chrX:17654811-17654959 - TACTGATGGCCCTGATGTCTGGCCTAAATCTCCTCTGCCGGCTGGCCATGATCTGCAGCGGGTATCTTCGGGAGCAGATGATACGCAGCCAGTTGCGGTTCATGACCAAGCGGCATGTGAAGCGCGCCCTGCGCGACCTCACCATCGGC
droEre2 scaffold_4690:9326382-9326530 - TGCTGATGGCCCTGATTTCCGGCCTGAACCTCCTCTGCCGGCTGGCCATGATCTGCAGCAGGTATCTACGGGAGCAGATGATCCGCAGCCAGCTGCGGTTCATGTCCAAGCGGCATGTGAAGCGCGCCCTACGGGACCTCACCATCGGC
droAna3 scaffold_12903:667658-667806 + TCCTGATGGCCCTGATGTCCGGCCTGAATTTGGTCTGTCGCGTGGCGATGATTATCAGCAAGACCCTAAGAGAGCAGATGATCCGGAGCCAGTTGAGGTTCATGAAGAAGCGGCATGTCCAGAGGGCGCTGAGGGATCTGACGATCGGG
dp4 chrXL_group1e:10756223-10756371 - TCCTGATAGCCATCATATCCGGCGTGAATATCCTCTTCCGGCTGGCCATGCTGTCCATCAAGAGTCTGCGCGAGAAGATGATCCGCAGCCAGCTGTCCTTCATGACCAAACGACATGTGCAGCGGGCCCTGCGCGACCTCACCATCGGG
droPer1 super_14:190427-190575 - TCCTGATAGCCATCATATCCGGCGTGAATATCCTCTTCCGGCTGGCCATGCTGTCCATCAAGAGTCTGCGCGAGAAGATGATCCGCAGCCAGCTGTCCTTCATGACCAAACGACATGTGCAGCGGGCCCTTCGCGACCTCACCATCGGG
droWil1 scaffold_181096:8247011-8247159 - TGCTGATGGCCATCATGTCGGGCCTCAATCTACTCTGTCGCCTGGCCATGATGCTGAGCAAGAGTGTGCGTGAGCAAATGATTCGCAGTCAATTGCGTTTTATGCCCAAACGGCATATCCAACGAGCTCTCAGGGATCTAACCATTGGC
droVir3 scaffold_12726:998444-998592 - TGCTGATGGCCTTCATGTCCGGCCTGAACCTGCTCTGCCGTCTGGCCATGATGCTCAGCCGGACGCTGCGTGAGCTGATGATACGCAGCCAATTGCGCTTCATGACCAAGCAGCATGTACAGCGCGTTTTCCGGGATCTAACCATCGGT
droMoj3 scaffold_6473:9166585-9166733 + TGCTGATGGCCTTCATGTCCGGCCTGAATCTGCTCTGTCGCCTGGCCATGATGCTCAGCCGGACGCTGCGCGAGCTGATGATACGCAGCCAATTGCGCTATATGACCAAACAGCATGTGCAGCACGTCTTCAGGGATCTGACCATCGGC
droGri2 scaffold_14853:5433396-5433544 - TCCTCATGGCGATCATCGCTGGCCTAAATCTGCTCTGTCGCCTAACCATGATGGTCAGCCGGACGCTGCGCGAACTGATGATTCGCAGCCAGTTGCGATTCATGACCAAAGAGCATGTGCAGCGCATCTTTAGCCATTTAACCATCGGC

dme-mir-4962 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:3671399-3671553 + TGTGTTTGGTTGTTTTTCCTTTCTTTTC------------TCTCCGTCTCTCTCTTTC------------CCTCTCTCTGTT-TACATTGAGCTG-------TTTTGTCCGTGCAC----------GTGCTA---G---------------------ACGATGTAGAGAGTGAGG--GAGA---------------GAGCG---------------------AATAGAATAACAGCTCATTGTGCTGAG-CGCCCAGCC-T
droSim1 chrX:2692027-2692181 + TATGTTTGGTTGTTTTTCCTTTCTTTTC------------TCTCCGTCTCTCTCTTTC------------CCTCTCTCTGTT-TACATTGAGCTG-------TTTTGTCCGTGCAC----------GTGCTA---G---------------------ACGATGTAGAGAGTGAGG--GAGA---------------GAGCG---------------------AATACAATAACAGCTCATTGTGCTGAG-CGCCCAGCC-T
droSec1 super_13710:747-901 + TATGTTTGGTTGTTTTTCCTTTCTTTTC------------TTTCCGTCTCTCTCTTTC------------CCTCTCTCTGTT-TACATTGAGCTG-------TTTTGTCCGTGCAC----------GTGCTA---G---------------------ACGATGTAGAGAGTGAGG--GAGA---------------GAGCG---------------------AATACAATAACAGCTCATTGTGCTGAG-CGTCCAGCC-T
droYak2 chrX:4740636-4740793 - TGTGCTTGGTTGTTTTTCCTTTCTTTTC------------TCTCCGCCTCTCTCTTTC------------CCTCTCTCTGTT-TACATTAAGCGG-------TTTTGCCCGTGCAC----------GTGCTA---G---------------------ACGATATAGAAAGAGAGAGGGAGA---------------GAGCG--------------AA------TAACAATAACAGCTCGTTTTGCTGAG-CGCCCAGCC-T
droEre2 scaffold_4690:1061104-1061256 + TGTGTTTGGTTGTTTTTCCTTTCTTTTC------------TCTCCGTCT--CTCATTC------------CCTCTCTCTGTT-TACATTAAGCGG-------TTTTGCCTCTGCAC----------GTGCTA---G---------------------ACGGTATAGAGAGAGAGG--GAGA---------------GAGCG---------------------ATTACAATAACAGCTCATTGTGCTGAG-CGCCCAGCC-T
droAna3 scaffold_13337:5571517-5571673 - TGTGTTTTTGTTTTTGTTGTCTCTGTTT------------TCTTCGCCTTTTTTTTC-------------TC-ATTTTTG-------TGGAGCTTTGCATGCCCGGCTGCAGGAGT----------GTTAGT---GAGTGGTTTGACTTGTTTTGCGGCAGCAGGCAGCACACGC--GCTG---------------CTGT-------------------------------------CGCCGTCGCCGC-TGTCTAGC---
dp4 Unknown_group_658:20580-20732 - TACATTTTTCCACTTGCCCACACTTTTCGCTGCGCT----GCTCTCTCGCTCTCTCTCTCTCTCATGCTCTC-------ACT-CTCAGAAAGCTG-------TGCAAT------------------GCACCATGCG---------------------ACGACTGAAAGCATGAGA--GTGA---------------G--CC--------------AG---CTTTCAGTGTGGCAGTTTTTTTCGTTG--------------
droPer1 super_23:1560592-1560751 - GTTTCTCTGCCTCTCCCTCTC-------------------------TCCCTCTCTCTCTCTCTCGCTGTCTTCCTCTTTCTC-AACTATGTGTGG-------CCATGTGTGTGTGT----------GTGTGT---G---------------------TGTGGGTTGTATCTGTGT--GTGA---------------GAGCG-------------AAGCG---CAGACAATTAGT-TTTATTATGCTTTGTTGCCGAGCTTC
droWil1 scaffold_181096:11652056-11652210 + TCTGTTTGTGAGGGTCCCTCTCTTTTAC------------TCTCTGTCGCTCTCTCTC------------TCTCTCGCGCTG-CACAAAAAAATTAG-----TCATACC-AAAAACAAAATACAGATTGCAA---A---------------------GCAATAGAGAGAGAGAGG--GAGA---------------GAGAG---------------------AGA------GTAAGTGAGTGTG-AGAG-CGCCCA-----
droVir3 scaffold_12855:8711965-8712121 + TCTCTTTCTTTATTTCTCTGCTT--TTCTCTGTCTCTCTTTATCTGTATCTCTCTCTC------------TTTCTCTCTATTTTCTATTGCTCTG-------TTATGTC-AAACATTTGCTGCATACTTTCA---G---------------------GCGATATTAAAAGCGTGC--AAGA---------------TTTTC---------------------ATTTGTATAACTGCGTATT--------------------
droMoj3 scaffold_6496:4311996-4312145 - TGTCTCTC--TATTTCTCTCTCTCTCTC------------TCTCTCTCTCTCTCTCTC------------TCTCTCTCTGCC-TGCCTTCA---C-------TTTTATACAAA---------------AATA---A---------------------TGGCCATCAAAATTAATA--AAAACGTAATCAGAGCGAATGACTACAGAGGAAAACGAAAAG--------TATAAAAG-------------------------C
droGri2 scaffold_15203:9842081-9842230 + TCCCTTCTCTCTCTC-------------------------TCTCTCTCGCTCTCTCTC------------TC------TCTC-TCTAT----TTG-------TCTCTTCCGCATA-----------GCGCAA---G---------------------TCGACGTCGGGGCTGACG--GGCA---------------GCGTTTCACAGGAGAATCGGGTGACTATCACCCTGATTGC-TGTTGTGCTG-C-TGTTCATCG-T

dme-mir-4963 three_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:5684770-5684909 + CACCCACTGCGAATTGCTGTAGGAAAT-------TTTTT-GGGGTACTTCTGGTTTCATAACGCAGAGAATCATC-----------AGCGTGAAGGAATGATTCTCTGCGGGCTGGAACCAGAAGTCCTGCAAATGTTCTTTTACGGATTTTAA---CCAGG
droSim1 chrX:4425250-4425396 + CACCCACTGCGAATTGCTATAGGAAATGATGGAGTTTTT-GGGGTACTTCTGGTTTCATACTGCAGAGAATCTTC-----------AGCGTGCAGTAATGATTTCCTGCGGGCTGCAACCAGAAGTCCTGCAGATGCTCTTTTACGGATTTTAA---CCAGG
droSec1 super_4:1079282-1079434 - CACCCACTGCGAATTGCTATAGGAAATGATGGAGTTTTT-GGGGTACTTCTGGTTTCATAACTCAGAGAATCTTCATGATTTCTTAATCA-----TAATGATTTCCTGCGGGCTGCAACCAGAAGTCCTGCAGATGCTCTTTTACGGATTTTAA---CCAGG
droYak2 chrX:2788911-2789034 - CACCCACTGCGAAATGCTATAGGACATGATGGAGCTTCTGGAGGTACTTCTGGTTTTATAATGCAGAGAATCGTA-----------ATCGTGAAGGAATGATTCTATGCGTACTGAAATCGGGAGTCCTGCAGAT---------------------------
droEre2 scaffold_4690:3033374-3033523 + CACCCACTGCGAAATGCTATAGGAAACGATGGGGTTTCT-GGGGTACTTCTGGTTTTATAACGCACGGAATCTGA-----------ATCGTGAATGAATGATTCCTTGCGGACTGGAACCAGAAGTCCTGCAGAGGCTTCTTGAATGATTTGAAGTTTCGGA
droAna3 scaffold_13117:1117754-1117783 + CACCCACTGCGACGTACTTTAGAGAGTTGT------------------------------------------------------------------------------------------------------------------------------------
dp4 chr3:13862643-13862665 + CACCAGCTGTGGGCTGCTTTAGG-------------------------------------------------------------------------------------------------------------------------------------------
droPer1 super_4:1457976-1457998 - CACCAACTGTGGGCTGCTTTAGG-------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7345062-7345085 - AACCCACTGTGATGTCCTGTAAAA------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_13324:2924689-2924720 + CACGGCCTGTGGTGTGCTATAAATTTT------------------------------------------------------------------------------ATGTG----------------------------------------------------
droMoj3 scaffold_6496:13805954-13805976 - CACCGACTGCGGCGTCCTCTGAG-------------------------------------------------------------------------------------------------------------------------------------------
droGri2 scaffold_15112:3786307-3786359 + CACCAGCTGCGGCGTGCTATAAATTC--------TTTTC-GTTGTATTTCTGGGTGTTCAAC----------------------------------------------------------------------------------------------------

dme-mir-4969 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:17624220-17624408 - TATATATATGTTTTTGTATGGATTTTTCGGCGTGGCGGTAA------------ATTGAATGATGAGTGG-GAGG--ATGTCGCTGCCATTG----------TTTGG---TTGATA--------------------------------------AGGGAGCCTGGCGCACTATTACCTGGCTCTCTGAA-------------------------------------------A-CGAGAGC--------CCACCTGTCA--------ATCAATACCACCCCG-------CCGA--TGCGACATCATCATAATAATCATCGCCTTT
droSim1 chr3R:17429869-17430050 - TGTTTTTG--------TATGGATTTTTCGGCGTGGCGGTAA------------ATTGAATGATGAGTGG-GAGG--ATGTCGCAGCCATTG----------TTTGG---TTGATA--------------------------------------AGGGAGCCTGGCGCACTATTACCTGGCTCTCTGAA-------------------------------------------A-CGAGAGC--------CCACCTGTAA--------ATCAATACCACCCCG-------CCGA--AGCGACATCATCATAATAATCATCGCCTGC
droSec1 super_0:17996591-17996767 - TATATATATGTTTTTATATGGATTTTTCGGCGTGGCGGTAA------------ATTGAATGATGAGTGG-GAGG--ATGTCGCAGCCATTG----------TTTGG---TTGATA--------------------------------------AGGAAGCCTGGCGCACTATTACCTGGCTCTCTGAA-------------------------------------------A-CGAGAGC--------CCACCTGTCA--------ATCAATACCACCCCG-------CCGA--AGCGACA------------TCATCGCCTTT
droYak2 chr3R:18444204-18444378 - G---------------TATGGATTTTTCGGCGTGGCGGTAA------------ATTGAATGATGAGTGG-GAGG--ATGTCGCAGCCATTG----------TTTGG---CTGATA--------------------------------------AGGGAGCCTGGCGCACTATTACCTGGCCCTCTGAA-------------------------------------------A-CGAGAGC--------CCACCTGTCA--------ATCAATACCACCCCG-------CCGA--ACCGACATCATCATAATAATCATCGCCAGC
droEre2 scaffold_4820:10462895-10463063 + TGTAT--------------GAATTTTTCGGCGTGGCGGTAA------------ATTGAATGATGAGTGG-GAGG--ATGTCGCAGCCATTG----------TTTGG---CTGATA--------------------------------------AGGGAGCCTGGCGCACTATTACCTGGCCCTGTGAA-------------------------------------------A-CGAGAGC--------CCACCTGTCA--------ATCAATACCACCCCG-------CCGA--ACCGACATCATCATAGTAATCAT-------
droAna3 scaffold_13417:705028-705198 + TGTATATGTGTGGGTGTAGAGGTGTGT--------AGGTGT------------GCAGGTGTACGGTTGT-GTGT--GTGTGGCATTCGTTGCT-ACTTATGTTTAA-GCTTCGTA--------------------------------------TTTAAGCTTTTTGCACGATTTCCT----CTAACAA-------------------------------------------A-TGGATTT--------TCACTTGTT------------------GCCCAGCCAG---ACG---AACGAAGCCATCACAAAAAT----------
dp4 chr4_group3:1192892-1193069 - TATATGGCCTATCCAGCAGGAATTTATCCAGCGGATGGTAG------------CTAGAGATGC-AGTTG-GAGG--GGG---GCACCATAG----------TTTGG---AGTAGC--------------------------------------CAAA---------------TGCCAGGCGATAAGGC-------------------------------ATGAAAAATACAA-CTAATAA--------ACATAAACCAGTCTTCTTTTAAAA--------G-------CTGC------TCATCATCATCATCATCATGATCATC
droPer1 super_7:2291330-2291534 - CATAAAAGGGTCTGAGTATCTGAGCGT----C------------------------------TGGGTGG-AACC--TCTGTGCTGCTAATG----------TT-AG---CTGATCCCTCTCCTCCCTCCCACTCGGTCCCTGCCCCCGCTCCCTTGGTGGCTGTTGCACTTTCCCCCGGGGCTCTGGA------------GTGTGCACACTTTTGGCA---------TAATA-CAACAAAATTGATTTG----------------------------------------------CAGCATGCATCATTATCAACATCGTCGTT
droWil1 scaffold_181089:335812-335995 + TTTTTTGAAATGTTTGTAAATGTGTGT----G----TGTTT------------GTGTGTGAAGAAGAA-TGTGTGTATGTGCTGACTAG--TTCAATAATG----C---C--------------------------------------------CAGAGAATGTTACAAGTTTAATGGAAGTTTTCAA-------------------------------------------ATAGAAAAG--------CTAAAAGGAA--------TTTAATTTTAGACAT-------CAGTTTCGAAGCATCGGCATCACAATCATCCCCATT
droVir3 scaffold_12963:15197471-15197651 + TATATATATAGATATATATATATATATATGCTGGGT----------------------TATATGA--------------------CTTTTG----------GG-TG---CTGATAAGAGGCG----TTCAGCTCAGTGC---------------CAGAGCCCAGCGGCTAATTGACAGCCCCACGGG-----------------CCATGCGGTTA---------AATTAAAA-CGAAAAA--------TCATTTGCCA--------GCA-GCAACAGC-AG----CAGCAGC--AGCGGCAGCAGC-----------------A
droMoj3 scaffold_6496:7093711-7093898 - TAGCAACTCGTTTCTGTTGCTGTATGT----GTAGCTGTAGCTGTATCTGTAGCTGTATCTGTGGCTG-TATCTGTATCTGGCAGCTGG----CAGCAGTA----G---C--------------------------------------------TGGTAGCTGCTGCTGGCTC--------TGTTGCT------GCCAGAGTATCTGTATCTGTGGCGCGTCAT-----------------------------TGT------------------------T-------GTGC--GTTGCCGTTGCCATCGTAACCAACGCCGTC
droGri2 scaffold_15126:1496468-1496644 - TACATCCACATCGCTGCTTCGGCTTAT----GTTGTGGTAA------------GTCATTAGAT--GCAG-ATGA--TTGGCGTCATCATCG----------CCTGCT--TCCACA--------------------------------------TCATAGTCAAGGGTATTCTTTTCTGCCGTCTC--AATGAGCGCTAGCG--------CCGATGAGATATCAA-----------------------------CGA------------------------G-------GTGC------TCTTCATCATCATCATCATCGTCATC

dme-mir-4970 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:10741869-10742002 + CATGTTTAGATCGGA--CCCAAAGGTGGGCGAC--AAG---GGCTGGGAGCAGC-----AGTTGCTGGCGGTATTCTGAAGCTGCTCTTCCG----------------TGG---GTTGCTCTTGCTCC-------------------TGACCCTCCTCTTCCT------------------------CCGCTTCATCCT----------C-C---TCCGCAT
droSim1 chr2L:10541288-10541421 + CATGTTTAGATCGGA--CCCAAAGGTGGGCGAC--AAG---GGATGGGAGCAGC-----AGTTGCTGGCGGTATTCTGAAGTTTCTTTTTCG----------------TGG---GCAGCTCTCGCTCC-------------------TGACCCTCCTCTTCCT------------------------CCGCTTCGTCTT----------C-C---CCCGCAT
droSec1 super_3:6159513-6159646 + CATGTTTAGATCGGA--CCCAAAGGTGGGCGAC--AAG---GGATGGGAGCAGC-----AGTTGCTGGCGGTATTCTGAAGTTGCTTTTTCG----------------TGG---GCAGCTCTCGCTCC-------------------TGACCCTCCTCTTCCT------------------------CCGCTTCGTCTT----------C-C---CCCGCAT
droYak2 chr2L:7146365-7146495 + CATGTTCAAATCGGA--GCCAAAGGTGGGCGAG--AGG---GGCTGTGAGCAGC-----CGTTGCTGGCGGTGTTCTGTCTCTGCTCCTCCG----------------CCG---GCTGCTGTTGCTCC-------------------TGACCCTCCTCGTCCT------------------------CCGCGTCTTCC-----------------TCGCCGT
droEre2 scaffold_4929:14689286-14689416 - CATGTTCAAATCGGA--CCCAAAGGTAGGTGAG--AGG---GGCTGGGAGCAGC-----CGTTGCTGGCGGTATTCTGCCTCTGCTCCTCCA----------------CCG---GCTGCTGTTGTTCC-------------------TGAACCACCTCGTCCT------------------------CTGGTTCGTCAT----------C-G---C---CTT
droAna3 scaffold_13117:2651271-2651404 - CAGCATTAGGGCGATCCTCCGCCAGTGGTTGATCGAAG---GCATGGGATCCAC-----CCC----AGCGTCTATCTGAAAACGATGTTTAT----------------CCA---CCTGCTCCTGCTCC-------------------TGCTCCTCATCCTCCT------------------------TCCCTTCGTCTT----------C-G---TCATCAT
dp4 chr3:14693225-14693346 - CATGTTCAGATCCGA--TCCAAATGTGGGGGAC--AAG---GGCTGGGAACAGC-----CATTGCTCTGAGTGATGTGCTGCTCC-------TCCCG---CTCTCCCGTTGGCA-------------------------------------------------GTTCCTCATCCTCCTCGTCCGGGTCT-----------------------------AGTT
droPer1 super_4:2921871-2921992 + CATGTTCAGATCCGA--TCCAAATGTGGGGGAC--AAG---GGCTGGGAACAGC-----CATTGCTCTGAGTGATGTGCTGCTCC-------TCCCG---CTCTCCCGTTGGCA-------------------------------------------------GTTCCTCATCCTCCTCGTCCGGGTCT-----------------------------AGTT
droWil1 scaffold_180708:9012130-9012236 - CATGTTTAAATCTGA--ACCAAATGTGGCCGAC--AAT---GGTTGAGAGCAGC-----CATTTGTTA-----------------------------------------------------------------------------------------------GTTGTTCATCCTCTTCA-CAGGCTCC---AGCAGCTTGCTCACCCCC-C---TCAGCGT
droVir3 scaffold_12963:15905405-15905563 - CATGTTTAAATCGGA--GCCATAGGTAGCCGAC--AATGCCGGCTGCGAGCAGC-----CATTGCTTAGGGTTATCTGCGGCTTC-------TGTGGTGCCTGTTCCGTT----------------GCGTTAATCGGCTGGGAGTAGAGCTCACCGGCGGCC------------------------------TCCAGATCGCTGTCGCCT-CCTGTCGCGAT
droMoj3 scaffold_6500:3051871-3052002 + CGTGCGTAGCT---G--CTCGTGGCTGGGTGGC--GTG---GCATTGTAGAGTCTCAGCTGCTG-----------CTGCTGCTGCTGCTCAG----------------ACT---CCTGCTCTTGCTCA-------------------TGCCCCTCCAGCTCCT------------------------CCTCTTCAGCCTCGCTGT----CGC---TCAGCGG
droGri2 scaffold_15252:8305990-8306138 - CATGTTCAAATCGGA--GCCATAGGTGGCCGAC--ATG---GGTTGTGACCACT-----CATTGGCCGATGCTTGCGGTTCCTTC----TCG----------------GGT---TCCGGTTCCGCTTCGGTCGCTGGCTGGGAATAGGGTTCCTCAGCTGCAT------------------------TCGCTTCCTGAT----------C-G---CTGTCCT

dme-mir-4971 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:3463274-3463415 - GGAAG-GGCCAACTTCT---CGGCCCT--------CGACACGGTGGATGAGCTTGTCAGTGGCGGATC------CAGGAGCAATTCTGCCGC-------TGGCGACAG--ATCATCGGCCA--CTGACAATGC----------------------CCATTCACTGTTCGAGGAGATCATGTCGG--------GCTCGGATG
droSim1 wop21h10.b1:281-423 + GGAAG-GGCCAATTTCT---CGGCTCT--------CGACACGGTTGATGAGCTTGTCAGTGGCGGATC------CAGGAGCAATTCTGCCGC-------TGGCGACAG--ATCATCGGCCA--CTGACAATGC----------------------CCAGTCACTGTTCGAGGAGATTATGTCGG--------GCTCGGATG
droSec1 super_129:25371-25512 - GGAAG-GGCCAACTTCT---CGGCCCT--------CGACACGGTTGATGAGCTTGTCAGTGGCGGATC------CAGGAGCAATTCTGCCGC-------TGGCGACAG--ATCATCGGCCA--CTGACAATGC----------------------CCAGTCACTGTTCGAGGAGATCATGTCGG--------GCTCGGATG
droYak2 chrU:14964015-14964156 + GGAAG-GGCCAACTTCT---CGGGCCT--------CGACACGGTGGATGAGCTTGTCAGTGGCGGATC------CAGGAGCAATTCTGCCGC-------TGGCGACAG--ATCATCGGCCA--CTGACAATGC----------------------CCACTCACTGTTCGAGGAGATCATGTCGG--------GCTCGGATG
droEre2 scaffold_4929:3498112-3498253 - GGAAG-GGCCAACTTCA---CGGGCCT--------CGACACGGTGGATGAGCTTGTCAGTGGTGGATC------CAGGAGCAATTCTGCCGC-------TGGCGACAG--ATCATCGGCCA--CTGACAATGC----------------------CCACTCGCTGTTCGAGGAGATCATGTCGG--------GCTCGGATG
droAna3 scaffold_12943:2497935-2498076 + GGCAG-AGCCAACTTCG---GAGCCCT--------TGAAACGGTCGACGAGCTTGTCAGTGGCGGCTC------CATAAAGAATCCTGCCGC-------TGGCGACAG--ACAGTCGGCCA--CTGACAACGC----------------------GCACTCGCTGTTCGAGGAAATAATGTCTG--------GCTCCGACG
dp4 chr4_group3:936699-936854 - GGAGT-GCTCGTCTACG---TGGTTTTGCCCCACGCAATACCATTGATGAGCTGGTCAGTGGTGGCTCCTCCGCCATTAGCAATTCTGCCGC-------TGGCGACAG--ATTGTCGGCCA--CTGACAATGC----------------------CCATTCACTGTTCGAGGAGATCATGTCGG--------GCTCTGATG
droPer1 super_1:2415168-2415323 - GGAGT-GCTCGTCTACG---TGGTTTTGCCCCACGCAATACCATTGATGAGCTGGTCAGTGGTGGCTCCTCCGCCATTAGCAATTCTGCCGC-------TGGCGACAG--ATTGTCGGCCA--CTGACAATGC----------------------CCATTCACTGTTCGAGGAGATCATGTCGG--------GCTCTGATG
droWil1 scaffold_189765:461-602 - GTAAC-GATAGACGGAG---ATACCTT--------CGAGGTGGTGGACGAGTTCGTCTACCTCGGATC------CTTGTTGATGGCTGACAA-------CAATG----------TTAGTCG--GGAAATACGA----------------------AGGCGCATTATCAGCGGAAGTCGTGCCTACTATTGGCTCCAGAAGA
droVir3 scaffold_12963:15952027-15952160 - ATTAGATGCCGATTGCGGTTCGTCCAT--------CAAGTCTGCGGCTGAGCTTGTCAGCGCCGT---------------CAATGCTGCCGC-------TGGCGACAG----CCTCGGC-G--CTGACAAGGA----------------------GCATGCCATGTTTGAGTATTTCCTCAACG--------AAGATGACG
droMoj3 scaffold_6473:12510219-12510341 + GGTTT-G----------------------------------------TGTGTGTGTGTGTGGTGGAACTTC---AATGCGAACCT------CTTGCCACAATCGAGTGCAATTAACTGCCA--TGATATATGGCCAATCCCA-------------------TATGCAGACGGCGACCGAGTCGAA-------GTTCGGCTG
droGri2 scaffold_14853:4216060-4216150 - ------------------------------------------------------------------------------------TCGACCGC-------TGGCCACAA--ATGGCCGGACAGACAGACA-------GACAGACAGACAGACAGACAGACTCACTGACATAATTGATCATATC----------GCTTATACG

dme-mir-4973 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:20562282-20562463 + GGTCCTTGGGCCA-TCGCTCGT-TCAGTCGTCGTTGCGTGTTGTAGGTGGCCTGGTCTACTGAG-CTCCGTT--------TGGACTGCTCC--------------------------------------------------------------------------------TCCTCCAACTACTACTGCGGCC-----------------------------------GCTGCTGCTGCTGCTG---CGG-----------------------CTGCTGCATCCGC---CTGCAACCT--------------------------GCAACACTCACACCACGGCAA----------------------------------------------------CAGAAGTAGACGCGTCGC
droSim1 chr2L:20133895-20134076 + GGTCCTTGGGCCA-TCGCTCGT-TCAGTCGTCGTTGCGTGTTGTAGGTGGCCTGGTCTACTGAG-CTCCGTT--------TGGACTGCTCC--------------------------------------------------------------------------------TCCTCCAGCTACTACTGCGGCC-----------------------------------GCTGCTGCTGCTGCTG---CGG-----------------------CTGCTGCATGCGC---CTGCAACCT--------------------------GCAACACTCACACCACGGCAA----------------------------------------------------CAGAAGTAGACGCGTCGC
droSec1 super_18:446156-446334 + GGTCCTTGGGCCA-TCGCTGGT-TCAGTCGTCGTTGCGTGTTGTAGGTGGCCTGGTCTACTGAG-CTCCGTT--------TGGACTGCTCC--------------------------------------------------------------------------------TCCTCCAGCTACTACTGCGGCC-----------------------------------GCTGCCGCTGCTGCTG---CG--------------------------GCTGCATCCGC---CTGCAACCT--------------------------GCAACACTCACACCACGGCAA----------------------------------------------------CAGAAGTAGACGCGTCGC
droYak2 chr2R:6918558-6918738 + GGTCCTTGGGCCA-TCGCTCGT-TCAGTCGTCGTTGCGTGTTGTAGGTGGCCTGGTCTACTGAG-CTCCGTT--------TGGACTGCTCC--------------------------------------------------------------------------------TGCTCCAACTACTACTGCGGCC-----------------------------------GCTGCT---GCTGCTG---CGG-----------------------CTGCTGCATCTGC-ATCTGCAACCT--------------------------GCAACACTCACACCACGGCAA----------------------------------------------------CAGAAATAGACGCGTCGC
droEre2 scaffold_4845:3882318-3882503 - GGTCCTTGGGCCA-TCGCTCGT-TCAGTCGTCGTTGCGTGTTGTAGGTGGCCTGGTCTACTGAG-CTCCGTTTGGACGTTTGGACTGCGCC--------------------------------------------------------------------------------TCCTCCAACTACTACTGCGGCC-----------------------------------GCCGCTGCTGCTGCTG---CGG-----------------------CTGCTGCATCT-------GCAACCT--------------------------GCAACACTCACACCACGGCAA----------------------------------------------------CAGAAGTAGACGCGTCGC
droAna3 scaffold_13117:435722-435893 + GGCC-TTGGTC---TCCATCTT-GGGGTAGCCGTAGGGAGC----GATGGCCTTGT-TGGTGAG-TTCCA----------GGGGCTTCTCT--------------------------------------------------------------------------------GGGGCCATTTGCTGCAGCTGCT-----------------------------------GCTGCTGCTGCTGCTGGTGTTG-----------------------CTGCTGCTTCT-C---C-TCGGCGT-------------------------CGCGTCGCTCGCGCAGCTGCT------------------------------------------------------CGTAGTAGGGACGATGC
dp4 chr4_group3:7758140-7758314 - GGTCCTTTCGCCAGGCGCTCGTTTCAGTCGTCGTTGCGTGTTGTAGGTGGActggtctgctctg-ctccgct------------ctgc---------------------------tctgc---cc-------------------------------------------------------------------------------------------------------agcactgctGTTGCTC---C---------------------------ACTGCATCTCTCTC-------CTacacacacacacacgcacgcacacacacg-caagca---cacaACAG----------------------------------------------------CAAAAAT-CTCGCGACGC
droPer1 super_1:9204247-9204421 - GGTCCTTTCGCCAGGCGCTCGTTTCAGTCGTCGTTGCGTGTCGTAGGTGGACTGGTGCGGTCTG-ATCCGCT------------TTGC---------------------------TCTGC---CC-------------------------------------------------------------------------------------------------------AGCACTGCTGTTGATC---C---------------------------ACTGCATCTCTCTC-------CTacacacacacacacgcacgcacacacacg-caagca---cacaACAG----------------------------------------------------CAAAAAT-CTCGCGACGC
droWil1 scaffold_180708:1965385-1965667 + GGTCCTTTCGCAA-TCGCTCGT-TCAGTCGTCGTTGCGTGTTGTAGGtggcctggtctggtctggcttggac--------tggactggtctgAAGTTTTTGGCAAGTTTTTTTGCTCTGC---C--------------------ACTGCCACAACCAG----TG-------TTCTTCAACTAAtgctgcttct-----------------------------------actgctaaagctgctg---ctg-----------------------ctgctgcATCT-TCAC-------CTGCACACATAGCCACGT-CG-----ACTCGTCGGGGT---CACCAAGGA-AAAAATCAACGAAAAATAAT------AA---TAACTGCTAAAAATGAAAGAAAAAAGAGTCTCGTCGC
droVir3 scaffold_12963:13534067-13534330 - GGTCCTTTCGCAA-TCGCTCGT-TCAGTCGTCGTTGCGTGTTGTAGGTGGTCTGGTCTGCTCTG-TGCT------------GGTCTGC---------------------------GCTGCTGCCC----AGATTTTTGCTGCC-ACTGGCACACACTGATTGGGATGCCTc------tgccgctgctgccgttgctgtcgagccgacgttgctgctgattttgctgttgctgttgctgttgctg---ttg-----------------------ctgctACATCT-TCC---------------------------------------------------------GCAATG----ACGACGACCAACCC---AAA---CTTCTGTTTCAATTG----CCGTACGCGACGCGACGC
droMoj3 scaffold_6500:24644505-24644771 + GGTCCTTTCGCAA-TCGCTCGT-TCAGTCGTCgttgcgtgttgtaggtggtctggtctgctctg-gtct------------ggcctgc---------------------------gctgctgttcagcctactttttgatgcc-actgccacacactgatggtgatgcctt------cgctgctgctgctgctgctgct-----tctgttgctgct---gccgtcgttgctgtcgtcgctgcta---ttg-----------------------ctgcCACATCT-TCT---------------------------------------------------------ACAACGACCGACGACGACCAACCC---AAACTGCTTCTGTTTCAATTG----CCGTACGCGACGCGACGC
droGri2 scaffold_15126:6330398-6330651 + GGTCCTTTCGCAA-TCGTTCGT-TCAGTCGTCGTTGCGTGTTGTAGGtggtctggtctgctctg-gtct------------ggtctAC---------------------------GCAGCTGCTCC-CCAAACTTTTGCTGTCTGCTGA-----ACTGAATGTAATGGCTc------tgctgatgctgatgcc-----------------------------------gccgatgccgctgatg---ccgctgctgcCCATCGCTGCCCAATGCAGCCACATCT-TCG---------------------------------------------------------ACAATG----ACGACGACTAACCCACCAAA---CTTCTGTTTCAATTG----CTATACGCGACGCGACGC

dme-mir-4976 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:2723022-2723155 - ACATCATCGATTATTGTCGATGCCGGCGTT---TCCCG---CTC------------------------------------------------------------------------------CAGGCTGTCGTCCATGGAGTTTGTGTTGTCAGCATTCAGCTCGGTGGATGTCAGCCAGCGGTGGAAGGCGTCGTCTCGCTC---CGCG---TCTGGTCCACG
droSim1 chr2R:1535693-1535826 - ACATCATCGATTATTGTCGATGCCGGCGTT---TCCCG---CTC------------------------------------------------------------------------------CAGGCTGTCGTCCATGGAGTTTGTGTTGTCAGCATTCAGCTCGGTGGATGTCAGCCAGCGGTGGAAGGCGTCGTCTCGCTC---CGCG---TCTGGTCCACG
droSec1 super_1:401443-401575 - ACATCATCGATTATTGTCGATGCCGGCGTT---TCCCG---CTC------------------------------------------------------------------------------CAGGCTGTCGTCCATGGAGTTTGTGTTGTCAGCATTCAGCTCGGTGGATGTCAGCCAGCGGTGGAA-GCGTCGTCTCGCTT---CGCG---TCTGGTCCACG
droYak2 chr2L:15457678-15457811 - ACATCATCGATTATTGTCGATGCCGGCGTT---TCCCG---CTC------------------------------------------------------------------------------CAGGCTGTCGTCCATTGAGTTTGTGTTGTCTGCATTCAGCTCGGTGGATGTCAGCCATCGGTGGAAGGCGTCGTCGCGCTC---CGCG---TCTGGTCCACG
droEre2 scaffold_4929:19824507-19824640 + ACATCATCGATTATGGTCGATGGCGGCGTC---TCCCG---CTC------------------------------------------------------------------------------CAGGCTGTCGTCCACGGAGTTCGTGTTGTCGGCATTCAGCTCGGTGGATGTCAGCCAGCGGTGGAAGGCGTCGTCGCGCTC---CGCG---TCCGGTCCACG
droAna3 scaffold_13266:9050244-9050380 - ACATCATCGATTATTGTCGATGTTGGCGTT---TCCTG---CTC------------------------------------------------------------------------------CAAGTTATCGTCAAGCGGGTTTGTGTTGTCGCCATTTAGCTCCGTAGATGTCAGCCACCGGTGGAAGGCGTCATCCAGCTC---CTCGGGGTCATGTCCACT
dp4 chr3:994566-994696 - ACATCATCGATTATTGTCGATGCTGCTGTT---TCCTG---CTC------------------------------------------------------------------------------CGAGGCATCGTCCGGCGTGTTTGTGCTGTCAGCATTCAGCTCCGTCGATGTCAGCCACCGATGGAACGCATCATCCAGGTC---CTTG---CC---ACCGCT
droPer1 super_2:1175582-1175712 - ACATCATCGATTATTGTCGATGCTGCTGTT---TCCTG---CTC------------------------------------------------------------------------------CGAGGCATCGTCCGGCGTGTTTGTGCTGTCAGCATTCAGCTCCGTCGATGTCAGCCACCGATGGAACGCATCATCCAGGTC---CTTG---CC---ACCGCT
droWil1 scaffold_180745:52392-52526 + ACATCATCGATTATCGTTGATGCTGATGTTTTTTCCTG---CTC------------------------------------------------------------------------------CAAGCTAACGTCCAGTGTATTGGTATTTTCAACATTCAGCTCTGTGGATGTTAGCCAACGATGAAATGCATCATCATCTTGTTCCA-----TC---ATCTTC
droVir3 scaffold_12875:15675057-15675224 - ACATCATCGATTATTGTTGATGCTGGCGTT---TCCTG---TTCGACAGCAACTGCTGCTGCTGCTGC---------------------------------------TGCCGCAGCTGCTGCCAAGCTATCGTCGAGCGTGTTTGTGCTGTCAACATTCAGTTCCGTCGATGTCAGCCAGCGATGAAATGCATCGTCAGCTTC---CTCA--------ATTTCC
droMoj3 scaffold_6496:8124753-8124946 + ACATCATCGATTATTGTTGATGCTGGTGTT---TCCTGCTGCTGAACGGCAAgTGtTGgTGgTGgTggGtgGGgTggGGgTGtTGgTGgTGgTGgTTgTGgTTgTGgTTgTGgTGgTGgTGTCAAGCTATCGTCGAGCGTGTTTGTGCTGTCAACATTGAGTTCCGTCGATGTCAGCCAGCGATGAAATGCATCGTC---------------------------
droGri2 scaffold_15245:12478490-12478641 - ACATCATCGATTATTGTTGATGCTGATGTT---TCCTG---CTCAATTGTAGCTTCTGCTGCAGCTGC---------------------------------------AGCTGCTGCTGCTGCCAAGTTATCGTCAAACATATTTGTACTGTCAATATTGAGTTCCGTCGATGTCAGCCAGCGATGAAATGCATCATC---------------------------

dme-mir-4978 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:9893349-9893526 - CGGAAAAG-------------CCAA-GGCGGAC---------------------------------------TTTCCAC------------------------------------TTTT----------CGTTTGG------------C-----TGGCCTGGAAAAGCTCTCTT---------TCTCTAT-TG------------CCTCTATGGCTCGGCAGCGCTGGGCGCCTAATCCGAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAAC----CATCGAAAAGCCTGGCAAG----------------------------------------CACACAGCTCGCACAAATTTTC
droSim1 chr2R:8329883-8330063 - CGGAAAAT-------------CCAA-GGCGCAC---------------------------------------TTTCCAC------------------------------------CTTTCCA-------CGTCTGG------------C-----TGGCCTGGAAAAGCTCTCTT---------TCTCTAT-TG------------CCTCTATGGCTCGGCCGCGCTGGGCGCCTAATCCGAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAAC----CATCGAAAAGCCTGGCAAG----------------------------------------CGCACAGCTCGCACAAATTTTC
droSec1 super_1:7418494-7418674 - CGGAAAAG-------------CCAA-GGCGCAC---------------------------------------TTTCCAC------------------------------------CTTTCCA-------CGTCTGG------------C-----TGGCCTGGAAAAGCTATCTT---------TCTCTAT-TA------------CCTCTATGGCTCGGCAGCGCTGGGCGCCTAATCCGAATTGCGAGAAAGATCCGCTTTCCG---AGCCAAAAAC----CATCGAAATGCCTGGCAAG----------------------------------------CACACAGCTCGCACAAATTTTC
droYak2 chr2R:7060227-7060403 + CGGAAAAG-------------CCAA-GGTGGAC---------------------------------------TTTCCAC------------------------------------TTTT----------CGTTTGT------------C-----TGGCCTGGAAAAGCTCTCTT---------TCTCTATT--------------CCTCTATGGCTCGCCAGCGCTGGGCGCCTAATCCGAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAAC----CATCGAATAGCCCGGCAAG----------------------------------------CACACAGCTCGCACAAATTTTC
droEre2 scaffold_4845:15928216-15928392 + CTGAAAAG-------------CCAA-GGCGGAC---------------------------------------TTTCCAC------------------------------------TTTT----------CGTCTGG------------C-----TGGCCTGGAAAAGCTCTCTT---------TCTCTATG--------------CCTCTATGGCTCGGCAGCGCTGGGCGCCTAATCCGAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAAC----CATCGAATAGCCGTGCAAG----------------------------------------CACACAGCTCGCACAAATTTTC
droAna3 scaffold_13266:6006643-6006792 + -------------------------------AC---------------------------------------TTTCCAC------------------------------------TC---------------------------------------GCTGGAAAAAGCTTTCAT------------CCATTCCGGTTGCAACTTGCCACT------C---GACTCTGGGCTCCTAATCCAAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAACCGAGCCACCGAAA-CTGGTCAAG----------------------------------------T----AGTACGCACAAATTCAA
dp4 chr3:11241780-11242024 + CGAATGAG-------------AGAAAGGTGGAGATACAAAGAGAGAAACAATGTTGCCTGCCTTTTCCCCAGTTTC--------------------------------------------CCCAGTGTTTGTGTGT------------GTGGGGCGAACTGGAAAACCTCTGTT---------TT-CCATCCC------------CCTTTTTGG------CGCGCTGAGCGCCTATTCCAAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAAG----CCACCAAAAGCC---CAAGGAGTTGTCGCA-CTCCGGACTACGCATAAAATCCCCCAAAAGCAGAACTCGC----------
droPer1 super_4:6644552-6644788 + CGAATGAG-------------AGAAAGGTGGAGATACAAAGAGAGAAACAATGTTGCCTGCCTTTTCCCCAGTTTC--------------------------------------------CCCAGTGTTTGTGTGTGTGTGTGTGTGTGTGTGACGGACTGGAAAACCTCTGTT---------TT-CCATCCC------------CCTTTTTGG------CGCGCTGAGCGCCTATTCCAAATTGCGAGAAAGATCCGCTTTTCG---AGCCAAAAAG----CCACCAAAAGCC---CAAGGAGTTGTCGCA-CTC-------------------------CGG--ACTACGCATAAAAT---
droWil1 scaffold_180745:1743803-1743968 + CGGAAAAG-------------CCAA-AGCATAT---------------------------------------AC----------------------------------------------------------TAGA------------T-----TGTACTGGAAAAGCTCTGCAACCAAAAAATT-GCGTCGG------------TCATCTCTG------AGGTCTGTGCGCCTAATCCAAATTGCGAGAAAGATCCGCTTTTTGGAGAGCC----------CACCACGTTGA-----AAG---------GA-GTA-------------------------CGTACAATGAAAAAAATTGGCC
droVir3 scaffold_12875:2042187-2042370 + CAGGAAAAGCATGCGGAAAAGTGCG-TGTATGGAAAAGCAGCAAT---------------------------CGC--AAACGCCTGGAAAAGCGACCGACTG----------------------------------------------------------------CCGCCGTT---------TG-CCA------CAGCA---C-GCTTTTTCG------ATATCTGTGCGCCTAATCCAAATTGCGAGAAAGATCCGCTTTTAG---AGCTAG----------TTCAAGGCA----CACGCAGTTCGC--AGC---------------------------TC-------------CACTGTG
droMoj3 scaffold_6496:23220919-23221095 - TGGAAAAG-------------CGCG-TGTGGAGACAAGCAGCGAC---------------------------CGTACGCCCGCCTGGAAAGCCGACTGCCCGCCAGCATTTGTAGCTC---------------------------------------------------------------------------TGTAGCA-----GCTTGTTGG------ATAGCTGAGCGCCTAATCCAAATTGCGAGAAAGATCCGCTTTTAG---AGCTAG----------TTCAAGGCACACGCAGC----------------------------------------TCCACAGCGGGCACAA------
droGri2 scaffold_15112:4157535-4157620 + CGGAAAAG-------------C-----GCAAAA---------------------------------------TTTGCGA------------------------------------CACT----------CGCTCAA------------C-----TGGC----------------------------------------------------------------AGCTGGGCGCCTAATCCAAACTGCGAGAAAGATCCGCTTTTAG---AGCTA------------------------------------------------------------------------------------------

dme-mir-4979 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:19621540-19621679 - GG-AT----GGGAA--A-------TTATACATAGGTG------TTATATCT-AGGCCAAATATATATACTTG--TTCTATGTA---TTAGTTATTTGCAAAGGAATACATGTG-CCTGTATATATATTCGGTAAAATCACATCTTTGAAT--TG-CCACAGCTCGCTAGT
droSim1 chr2R:18187644-18187778 - GG-AT----GGGAA--A-------CT----ATAGGTA------TTATATCT-AGGCCAAATATATATACTTG--T-CTATGTA---TTAGTTATTTGCAAAGGAATACATGTG-CGTGTATATATATTCGGTAAAATCACATCTTTGAAT--TG-CCACAGCTCGCTAGT
droSec1 super_9:2901906-2902041 - GG-AT----GGGAA--A-------CT----ATAGGTA------TTATATCT-AGGCCAAATATATATACTTG--TTCTATGTA---TTAGTTATTTGCAAAGGAATACATGTG-CGTGTATATATATTCGGTAAAATCACATCTTTGAAT--TG-CCACAGCTCGCTAGT
droYak2 chr2R:19599592-19599718 - TA-AG----GGGAA--A--------------------------TTATACCT-AGGCCAAATATATATACTTG--TTCTGTGTA---TCAATTATTTGCAAAGGAATACATGTG-CCTGTATATATATTCGGTAAAATCACATCTTTGAAT--TG-CCACAGCTCGCTAGT
droEre2 scaffold_4845:20984379-20984510 - CT-GTAGAAGGAAA--A------------------------G-TTACACCT-AGGCCAAATATATATACTTG--TTCTATGTA---TTAATTATTTGCAAAGGAATACATGTG-CCTGTATATATATTCGGTAAAATCACATCTTTGAAT--TG-CCACAGCTCGCTAGT
droAna3 scaffold_13266:8260384-8260523 - GG-TT----CAATG--A-------TTAT---TAGA------GCTAACAACTAATGCCAAATATATATACTCA--ATCGATGTA--CTTGGTTATTTGCAAAGGAATACACTGCGTATGTATATATATTCGGTAAAATCACATCTTTGAAT--TG-CCAAAGCTTGTTAGT
dp4 chr3:9376521-9376668 + AC-------GAGAA--A-------TGCCATATAGGCAATAAACTATTAGCT-ATCGCAAATATATATACTCA--TTTCATGTA--CTTGTTTATGTGCAAAGGAATACATTTTTGTTCTATATATATTTGCTTTAATCACATCTTTGAATCTTT-CCATAGCTCGTTAGA
droPer1 super_4:4699742-4699885 + GAGAT----GCCA----------------TATAGGCAATAAGCTATTAGCT-ATCGCAAATATATATACTCA--TTTCATGTA--CTTGTTTATGTGCAAAGGAATACATTTTTGTTCTATATATATTTGCTTTGATCACATCTTTGAATCTCT-CCATAGCTCGTTAGA
droWil1 scaffold_181141:2403442-2403586 + GT-GT----AGGTATAAGTGTTGCCT----TTTTGTG------TTATTTCT-AGTTCAAATATATATACGCA--TTTTCTGTA--TATGACTATATGCAAAGGTATACATTTA---TGTATATATATTTGGTAAAATCACATCTTTGAAT--AATCCATAGCTCGTCAGA
droVir3 scaffold_12823:519093-519222 + GT-AT----TAT------------CT----AC-----------ATATATCT-ATGTCAAATATATATATCCCCATTTTGTATA--ACTATTTATATGCAAGGGTATACGTTTA---CGTATATATATTTGTTAAAATCACATCTTTGAAT--GCTATATAGCTCGTTAGC
droMoj3 scaffold_6496:318093-318227 + AG-TT----GCAGA--A-------GTATTCATATGTA------CAAAATCTTATATCAAATATATATATATG--TCCCA----------TTTGTATGCAAGGGTATGCGTTTC-TCTATATATATATTTGTTAAAATCACATCTTTGAAT--GGTATTTAGCTCGTTAGC
droGri2 scaffold_15245:6158007-6158151 - TT-GC----CAGGA--G-------TC-T-TACAACTAACTAC-TTATATCT-ATATCAAATATATATACTCA--CTTTGTGTATAGCTACGTATAAGCAAAGGTATACGCTTG---CGTATATATATTTGTTAAAATCACATCTTTGAAT--GGTATATAGCTCGTCAGC

dme-mir-4980 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:3673811-3673963 + CAAAAACGA--------AAGAGGGGAAGAGGCTGAGAGCGGGAAAGTGAGAAGTAGAGAGCGCAGATAGGGAGTGGG-AGCTTAT----------------------------A-----------------CCGTTATAAAGCCAACTTCCGTT--CT----GCGTTTCGTTCCAAC-C-----CCCCACCTCTCT-------TTCCC---TCTTTTGGCATTGCAAAA
droSim1 chr2R_random:948112-948272 + CAAAAGCGGATGAGGTGAAGAGGGGAAGAGGCGGAGAGCGGGAAAGGGCGAAGAAGAGAGCGCAGACAGGGAGTGGG-AGCTTGT----------------------------A-----------------CCGTTATAAAGCCAACTTCCGTT--CT----GCGTTTCATTCCCCC-GCA---CCCCACCT--CT-------TTCCC---TCTTTTGGCATTGCAAAA
droSec1 super_1:1330268-1330428 + CAAAAGCGGATGAGGTGAAGAGGGGAAGAGGCGGAGAGCGGGAAAGGGCGAAGAAGAGAGCGCAGACAGGGAGTGGG-AGCTTGT----------------------------A-----------------CCGTTATAAAGCCAACTTCCGTT--CT----GCGTTTCATTCCCCC-GCA---CCCGACCT--CT-------TTCCC---TCTTTTGGCATTGCAAAA
droYak2 chr2L:16346698-16346837 + CAAAAGGGG--------AAGA--------CGCGGACAACGGGAAAGGGCAAACACGAGAGCGCAGGAAGGCAGTGGG-AGCTTGT----------------------------A-----------------CCGTTATAAAGTCAAATTCCGTT--CT----GTGTTTCTTTTCACC-------CCCCACCT--CT-------T--CC---TCTCTTGGCATTGCAAAA
droEre2 scaffold_4929:18933782-18933931 - CCAGAGGGG--------AAGGAGGGAAGAGGCGGACAGCGGAAAAGGGCGAA-CAGTGAGCGCAGGAAGGGAGTGGG-AGCCTGT----------------------------A-----------------CCGTTATAAAGTCAATTTGCGTT--CC----GCGTTTCTTTCCACC-C-----CCCCACCT--CT-------TCATC---TCTTTTGGCATTGCAAAA
droAna3 scaffold_13266:10179298-10179443 + AGCAGACGA----GGTGCAGGGGGAGAATAAAAATAACCAAAAAAAATAATAAGATAAAGTGAACTAAGAGAGTTGG-AATTT------------------------------------------------CCATATCAGCACCCATTTTCGAT--TT----ACATTCTCCTCCACCCT-----CCCCACCC--------------CACCTGCTG---CTGGTGCA--A
dp4 chrXL_group1e:1273472-1273542 - AGAGAGAGA--------GAGAGAGAGAGAGAGAGAGAGAGGGAGAGGGAGAGGGAGAGGGTGATGGTTGGGTGTGGG-AG-----------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 super_4:2253896-2254021 + CAAGAGAGA--------GAGAGAGAGAGAGAAAGAGAGCGAGAAAGATAGAAGCAGAGCGAGAGCGAAAGTGATAGA-TAT--------------------------------A-------------TAGTTTATACCAAACTTTTTTAATAAT--CC----ATGTTCTTTTCGATGTT-----T---------------------------------ATTTTC-----
droWil1 scaffold_181096:5834838-5834931 + AGAGACAGA--------GAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAAGAGTGGTGAGTGGTGGAAGGGGGTGGG-GGCCAAT----------------------------A-----------------TTGTGCTAGTGCTGAAT---------------------------------------------------------------------------------
droVir3 scaffold_12963:19208738-19208883 + TTAGTAAGA--------GAGAGAGAGAGAGAGAGGGAGAGCCAGCGAGTA--ATAGAGAGCAC---------ATGCG-AGCATAA----------------------------A-----------------CCGGTTTGAGCGC--TCTCCGCTGGCTATGCGCGCT----CCCAGG-C-CAGCGCTCACCT--GTGTACAAGTTCAC---TTTGTTGTTGTTG-----
droMoj3 scaffold_6496:13778911-13779004 + CAACAGAGA--------CAGAGAGAGAGAGAGAGAGAGCGGGAGAGAGAGAAAGAGAGAGAGA-----GAGAGAGGGAGGCCATG----------------------------G-----------------CTGTAGCTGAGCTGCTT-----------------------------------------------------------------------------ACGT
droGri2 scaffold_15110:15752678-15752830 - AGTGAGAGA--------GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA----------------GAGAGCTGGG-CACTTGTGTCTGGGGCTGTGCTCATGCAAAAATAAATGCGAACTGTGTGCAGATCGTAA---------------AT--TA----AAGTTTCTCTCGCTC-C-----CCCTATTT-------------CTC---TGTTC--CTGTT------

dme-mir-4981 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:3902738-3902863 + GGTTATC-------------------------------------CCTGC-CACATGGCCACGTGCCCG-CAAGACGCCTTCGGCCGGCG-------------------------------------------------------------------------------------------------------CAAAGTTTCAATTTGATATTCCTTGGC-CG-----GTCGAG--CAGCGTCTTGGGG-TTGTTCG--------TGGATTAAGTTCGATTC--------------------------CTAT
droSim1 chr2R_random:1106077-1106202 + GGATATC-------------------------------------CCTGC-CACATGGCCACGTGCCTG-CAAGACGCCTTCGGCCGGCG-------------------------------------------------------------------------------------------------------CAAAGTTTCAATTTGATATTCCTTGGC-CG-----GTCGAG--CAGCGTCTTGGGG-TTGTTCC--------TGGATTAAGTTCGATTC--------------------------CTAT
droSec1 super_1:1540674-1540799 + GGATATC-------------------------------------CCTGC-CACATGGCCACGTGCCCG-CAAGACGCCTTCGGCCGGCG-------------------------------------------------------------------------------------------------------CAAAGTTTCAATTTGATATTCCTTGGC-CG-----GTCGAG--CAGCGTCTTGGGG-TTGTTCC--------TGGATTAAGTTCGATTC--------------------------CTAT
droYak2 chr2L:16559915-16560042 + GGATATC-------------------------------------CCTGC-CACATGGCCACGTGCCTG-CAAGACGCCTTCGACCGGCG-------------------------------------------------------------------------------------------------------CAAAGTTTCAATTTGATATTCCTTGGC-CG-----AACGAACGGAGCGTCTTGGGG-TTGTTTC--------GGGATTACGTTCGATTC--------------------------CGAT
droEre2 scaffold_4929:18723379-18723500 - GGATA-C-------------------------------------CCAGC-CACATGGCCACGTGCCTG-CAAGACGCCTTCGGCCGGCG-------------------------------------------------------------------------------------------------------CAAAGTTTCAATTTGATATTCCTTGGC-CG-----GTC-----GAGCGTCTTGGGG-TTGTTTC--------GGGATTGAGTTCGATTC--------------------------CGAT
droAna3 scaffold_13266:16222514-16222662 + GGAGATC-------------------------------------CTTG--CGTGTGGCCACGTGCCGGGTGAGACGCCTTCGGCCGGTA-------------------------------------------------------------------------------------------------------CAAAGTTTCAATTTGATATTCCTTTGGAGTTGCCTTCGGAGTTGAGCGTCTTGGGG-TTGTTCC--GGGCCATGGATTAAGTTG-----AGAAA-ATG------CAG----A-CTATGT
dp4 chr3:5536552-5536721 + GGTTG-C---------G------------CTGCTGCTTATGGTG----CTGGTGTTGCCACGTGCC-A-CAAGACGCCTTCATCTGGCGGTT------------------------------------------------------------------------------------------GGT-CTGGACAAAAGTTTCAATTTGATATTCCTTTGC-CT-----T--GCC--GAGCGTCTTGGGG-TTGTTTC--AGGGCATGGATTAAGTTT---TCAGGCAACTGGAGCAGCA------TCCGTGC
droPer1 super_2:5730715-5730884 + GGTTG-C---------G------------CTGCTGCTTATGGTG----CTGGTGTTGCCACGTGCC-A-CAAGACGCCTTCATCTGGCGGTT------------------------------------------------------------------------------------------GGT-CTGGACAAAAGTTTCAATTTGATATTCCTTTGC-CT-----T--GCC--GAGCGTCTTGGGG-TTGTTTC--AGGGCATGGATTAAGTTT---TCAGGCAACTGGAGCAGCA------TCCGTGC
droWil1 scaffold_181141:2380508-2380690 - ACCCATTTCTGGTCTCG------------GTCTCAATTTTTTTA----CTGGTGTGGCCACGTGCCA--TACGAG-----------------------------------------------------------------------------------TA-GTAAGGTCTTGCA-ACAGGGCGGT-GCGAACAAAAGTTTCAATTTGATATTCCCTTGC-CTTGACTTGGCCG--TAGCGTCTTAGGG-ATGTTTCC-GAAGCAAGGATTAAGTTT---TCAAA----G------GCAG------CTGTGC
droVir3 scaffold_12875:14800808-14801017 + GCTTCTTTG------------------------TGTCCATGGCCCTTGC-CGTGTGGCCACGTGCCA--TCAGACGCCTTCGCGCAGT---TTGACTC--------------------------------------------TGGAATGGCTGAGGGCTG-GTGGGG---CGGA-ACGGGGCAGCGGGGATTGACAGTTTCAATTTGCAAGCATGTTGC-CT-----TTTGTA--GAACGTCTTGGGGGTTGTTCGCCAGCTGACGGATTAAGTTT---TGAGGGC-A----------GCCAGATGCTGCT
droMoj3 scaffold_6496:7113415-7113501 - -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACAGTTTCAATTTGCAAGCTTGTTGC-CT-----TTTACG--GAACGTCTTGGGG-TGTCTGA--------GGGATTAAGTTTAAGTCTGGGC-AT---------GCCAG--C--TGC
droGri2 scaffold_15245:14811478-14811742 + GTTTCTTTGTG-TCCAGACCCTTGCCGCCTTGCCGC--------CTTGC-CGTGTGGCCACGTGCCAGCAGAGACGCCTTCGCGCTCA---CTGACTCGTCCCGGCCCGGCAATTGTCAGAGACGCAGATGACTGTTGCGAATAGGTTGGCAGGGGGGGGAGT-CGG---CGGACAGGGGGAAGGGGTGGTTGACAGTTTCAATTTGCAAGCTTGTTGC-CT-----TTTGCA--GAACGTCTTGGGG-TTGTTTC--AGCTGGCGGATTAAGGTT---TCAGACAG-T-------CAGCC-------AGC

dme-mir-4982 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:14607658-14607807 + TTTT-GAGTCGAAAGGACC--A----------------ACT-TTGCTGGCATTCGGTGGCCAA--------------TAATGCAATTGCATGTC-------------------------------------------------------CTTGTTGCTGTTGCAAT----GTTG-------CAGCTGGAATTGCAATTGCATTTCTAGTTGC------------------CGCTGCTG---------CTGCTCGAGTGGCAATTA--GCTGGGTGTCTC
droSim1 chr2R:13317686-13317836 + TTTTCGAGTCGAAAGGACC--A----------------ACT-TTGCTGGCATTCGCTGGCCAA--------------TAATGCAATTGCGTGTC-------------------------------------------------------CTTGTTGCTGTTGCAAT----GTTG-------CAGCTGGAATTGCAATTGCATTTCTAGTTGC------------------CGCTGCTG---------CTGCTCGAGTGGCAATTA--GCTGGGTGTCTC
droSec1 super_1:12115359-12115508 + TTTC-GAATCGAAAGGACC--A----------------ACT-TTGCTGGCATTCGCTGGCCAA--------------TAATGCAATTGCATGTC-------------------------------------------------------CTTGTTGCAGTTGCAAT----GTTG-------CAGCTGGAATTGCAATTGCATTTCTAGTTGC------------------CGCTGCTG---------CTGCTCGAGTGGCAATTA--GCTGGGTGTCTC
droYak2 chr2R:14591968-14592144 - TTTTCGGGTCGAAAGGACC--A----------------ACTTTTGTTGGCATTCGCTGGCCAA--------------TAATGCAATTGCGTGTC-------------------------------------------------------CTTGTTGCTGTTGCAAT----GTTGCAACTTGCAACTGGAATTGCAATTGCATTTCTAGTTGCTTCTCCTCTTTTTCCTGCTGCTCCTA---------CTCCTCGAGTGGCAATTA--GCTGGGTGTCTC
droEre2 scaffold_4845:8798992-8799150 + TTTC-GCGTCGAAAGGACC--A----------------ACT-TTGCTGGCACTCGCTGGCCAA--------------TAATGCAATTGCGTGTC-------------------------------------------------------ATTGTTGCTGTTGCAAT----GTTG-------CAACTGGAATTGCAATTGCATTTCTAGTTGCTCCTCA---------TGCTGCTGCTG---------CTCCTCGAGTGGCAATTA--GCTGGGTGTCTC
droAna3 scaffold_13334:1368045-1368196 + TTTT-GAGCTGCAG-----------------------------------------------------------------------------------------------TTGCAGATAAAGTTACAGTTGTTGTTGCTACTTTCACGTTGTTGTTGTTGTTGT--T----GCGG-------CAGCTGCAGTTGCAGTTGCAGTTGCAATTGT------------------TGCTGCAGCTGTTGGCCTAATGAGAGTGGCCAGCAATGCGGCACGAATC
dp4 chrXL_group3a:862470-862596 - ---------------------A----------------ACT-CTGCTGCCAGTAGTTGGCCAT--------------TGAGAAAATTGTGTGCCCTGGAATTTAATTCATTGCAAACAAA-------TTGCT-----------------GCTGCTGCTGCTGC----------------------------------TGCTGCTGTTGTTGC------------------TGCTGCTG---------CCGTTGCAGTGGCAATT---------------
droPer1 super_15:2034074-2034206 + ---------------------A----------------ACT-CTGCTGCCAGTAGTTGGCCAT--------------TGAGAAAATTGTGTGCCCTGGAATTTAATTCATTGCAAACAAA-------T-----------------------TGCTGCTG----------------------CTGCCGCTGCTGCTGTTGTTGTTGTGGTTGC------------------TGCTGCTG---------CCGTTGCAGTGGCAATT---------------
droWil1 scaffold_181096:6674642-6674780 + CTTG-GTGCCGTAT----CAAAGCTGGCATATAGTTCAACT-TCT------T-CATCGG----TGGCATCA------CGTTGCAGTTGT-TGTT-------------------------------------------------------GTTGTTGTTGTTGC-------------------------------TGTTGCAGCTGTTGTTGTTGCTGTTGTTGTTGCTGCAGCTGCTG---------CTGCTCAAGTG---------------------
droVir3 scaffold_12822:1548557-1548661 - TGTT-------------------------------------------------------------------------------------------------------------------------------------------------GCTGCTGCTGTTGCAATTGTTGCTG-------CAGCTGTTGTTGCTGTTGCAGCTGCAGCTGTAACTGT---------TGCTGC---TG------CTGGGCATAGAGCTGCTCCTG--GT--AGTGCTTG
droMoj3 scaffold_6540:8945968-8946087 + AGCC------AGCATCGAC--A----------------ACT-TGGCTGCAATTCAGGT-------------TGCAGCTACTGCTGTTGCCTGTT------------------------------------------------G------CCTGTTGCCGTTGCC------GTTG-------CTGCTGCAGTTGCAGTTGCAGTTGTAGTTAC------------------CGTTGCAA---------TTGC----------------------------
droGri2 scaffold_15245:16288597-16288735 + TGTT-G-----------TC--A----------------GCG-TTGTCGTTG--TGCTTGTTGA--------------TTTTCCAGTTGCT-----------------------------------------------------------GCTGTTGCTGTTGCAGTTGCAGTTG-------CAGCTGTTGCTGCTGTTGCAGTTGCAGTTGTTGCTGC---------TGCTGC---TG------TTGTTGTTGGTGTT---------GTCGGTGGTGTC

dme-mir-4984 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:8141524-8141677 - TTAAAATAGT-------------------------------------------CTCAACTTCG---------------C--TCGAGGTGTGAAAACCT--------------TTTGG----CCA--GCGA----A----TAC--GCCTCGGAT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----GGCCAAATGACACGTTCGCCATGT----T-------------------------------------TTGCGGCCAA-------------------------------------------------------GTGCTTTC----------ATT
droSim1 chr2L:7922185-7922338 - TTAAAATAGT-------------------------------------------CTCCACTCCG---------------C--TCGAGGTGTGAAAACCT--------------TTTGG----CCA--GCGA----A----TGC--GCCTCGGAT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----GGCCAAATGACACGTTCGCCATGT----T-------------------------------------TTGCGGCCAA-------------------------------------------------------GTGCTTTC----------ATT
droSec1 super_3:3638638-3638791 - TTAAAATAGT-------------------------------------------CTCCACTCCG---------------C--TCGAGGTGTGAAAACCT--------------TTTGG----CCA--GCGA----A----TAC--GCCTCGGAT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----GGCCAAATGACACGTTCGCCATGT----T-------------------------------------TTGCGGCCAA-------------------------------------------------------GTGCTTTC----------ATT
droYak2 chr2L:10772572-10772720 - TTAAAATAGT-------------------------------------------CTCGAG----------------------ACGAGGTGTGAAAACCT--------------TTTGG----CCG--GCAA----A----TAC--GCCTCGGAT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----GGCCAAATGACACGTTTGCCATGT----T-------------------------------------TTGCGGCCAT-------------------------------------------------------GTGCTTTC----------ATT
droEre2 scaffold_4929:17047208-17047355 - TTAAAATAGT-------------------------------------------CTCTAC----------------------TCGAGGTGTGAAAACCT--------------T-TGG----CCA--GCAA----A----TAC--GCCTCGGAT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----GGCCAAATGACACGTTTGCCATGT----T-------------------------------------TTGCTGCCAT-------------------------------------------------------GTGCTTTC----------ATT
droAna3 scaffold_12916:9486383-9486598 - TTTAAATAGT-------------------------------------------CTCTCG---------AGGGTC----T--TCGGGGTGTGAAAACCT--------------TTCGGTTAGCCA--GCCA---GCGA--GAC---ACTTAACTCACTTCGTGGCTTCCAAATCACGTTTCAAGATCGAGGTAAATTCTTTGACGTATTCGCT-----GGCGAAATGGCACGTCTGACATGG----AATGGCATGGCATGAGATGGGCATGGTATGGTTGGTTGGTGCGACTAA---------------------------------------------------ATA-ATGGTTTC----------ATT
dp4 chr4_group3:2877715-2877892 + TTAAAATAGTTGCAGCCCACAA-------GTCACATGCCGCCGCCGGCGCATT--GGACAT--------------------TGGAGGTGTGAAAACCA--------------AT--------------------A----TTC--GCTTCAGGT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----TGGCAAATGACACGTTTTGG---------------------------------------------------------------------------------ACCTGCAATTTCCAGCAT------------TTACTTTC----------ATT
droPer1 gnl|ti|733036400:69-254 + TTAAAATAGTTGCAGCCCACAAGTCACAAGTCACATGCCGCCGCCGGCGCATT--GGACAT--------------------TGGAGGTGTGAAAACCA--------------AT--------------------A----TTC--GCTTCAGGT--------------CCAATCACGTTTCAAGATCGAGGTGAATTCTTTGACGTATTCGCT-----TGGCAAATGACACGTTTTGG---------------------------------------------------------------------------------ACCTGCAATTTCCAGCAT------------TTACTTTC----------ATT
droWil1 scaffold_180703:2787401-2787579 - TCT-----------------------------------CTCCACCAACATAATATGGA------------------------CAAGGTGTTAAGGTCT------------CTTTTGG----ATG--GTAGTCAGT----TGC--TAGTTAACT--------------CAAATCACGTTTCAAGATCGAGGTGAATTCTTTGA-ATACTGTCA-----AGCGAAATGACACGTTTT----GT----C-------------------------------------TTA--------------------------------ACCCGCACCGGCCGGCCCCCACTTACATAGATATTTTT----------AGT
droVir3 scaffold_12963:13862249-13862454 + TTAAAGCGGC-------------------------------------------TTCAA------------------------CAAGGTGTTAAAATCG------------C-AAAGG----CCGTCACAG----CCA--CAG--TCCACAGTC--------------CGAATCACGTTTTAAGATCGAGGTGAATTCTT-AACACCGCCGCTTGCCCAGCCAAATGGCACGTTTTCAATGG----GCTGG----------------------------------------CAGCAGCCCCAAGCCCTCAGCCAGCTTCATCTGCAATTGCGACGAC------------TTTCTTTCTGGCCCAACGAAC
droMoj3 scaffold_6500:5788118-5788309 - TTGGAATACTTG--------------------------------------------AACACTGGTTACAGCGGCTAC---AACAAGGTGTTAAAAACAGAAAAAAGCGAACCAAAGG----CCG--GCACACAGCCACACAG--TCCACAGTT--------------CGAATCACGTTTTAAGATCGAGGTGAATTCTTA-CTACCGACGCTCAGCCAGCCAAATGGCACGTTTGCCATGG----C-------------------------------------AT-CGCTCAA-------------------------------------------------------CAGCTTTA----------AGC
droGri2 scaffold_15126:6028218-6028422 - TTTGAATACTTG--------------------------------------------AACACTGGTTACACCGACTTCAGCAACTAGGTGTTAAAGCCA------------CCAAAGG----CCT-TGCAG----A----CACAGTTCACAGTC--------------CGAATCACGTTTTATGATCGAGGTGAATTCTTTGGTAGAGCCGCTTACCCAGCCAAATGGCACGTTTGCTAAGCATGGACAG----------------------------------AT-C-CCCAAGAGCCCCAAGCTCTAAGCCA-----------------------------------GTTCCATC----------ATC

dme-mir-4986 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:9726743-9726895 - AGACTGCCAACTGGGTTC------TGCCGCTT---TTGCTGTGGCTTCTCTGCATGGGATTCCCCATTCTGCATGGCGCCGATCTCTGCCAGCCCATCGGATGGCGGAACTTCCAGTGCAGCGAGGTCGCTTCTCTGCAGGATCTGGTGGACTTGGGCG---------CCG
droSim1 chr3L:9107366-9107518 - CAACTGCCAACTGGGTTC------TGCCGCTT---TTGCTGTGGCTTCTCTGCGTGGGATTCCCCATCCTGCATGGCGCCGATCTCTGCCAGCCCATCGGCTGGCGGAACTTCCAGTGCAACGAAGTCGCCTCGCTGCAGGATCTGGTGGATTTGGGCG---------CCG
droSec1 super_0:1960228-1960380 - CAACTGCCAACTGGGTTC------TGTCGCTT---TTGCTGTGCCTTCTCTGCGTGGGATTCCCCATCCTGCATGGCGCCGATCTCTGCCAGCCCATCGGCTGGCGCAACTTCCAGTGCAACGAAGTCGCCTCGCTGCAGGATCTGGTGGACCTGGGCG---------CCG
droYak2 chr3L:9698225-9698377 - CAACTGCCAATTGGGTTC------TGCCGCTT---TTTCTGTGGCTTCTCTGCGCGGGATTCCCCAGCCTGCATGGTGCCGATCTCTGCCAGCCCATCGGCTGGCGGAACTTCCAGTGCAACGAGGTCGCTTCTCTGCAGGATCTGGTCGAATTGGGCG---------CCG
droEre2 scaffold_4784:9713780-9713932 - CAACTGCCAATTGGGTTC------TGCCGCTC---TTTCTGTGCCTTCTCTGCGCGGGATTCCCCAGCCTGCATGGAGCTGATCTCTGCCAGCCCGTCGGGTGGCGGAACTTCCAGTGCAACGAGGTCGCTTCTCTGCAGGATCTGGTCGACCTGGGCG---------CCG
droAna3 scaffold_13337:3652327-3652482 + TGCCAGTCAAATGGACTC------TGTTGCCTTGCTTTTTGTGGCTCTTCTCGAAGGGGCTTCCCTCCACAAGAGCTCAAGATCTTTGCCAGCCCCGAGGTTGGCGCAACTTCGAGTGCCTTGAAGTGGCTTCTCTGCAGGATCTAGTGGATTTGGGGG---------CCG
dp4 chrXR_group6:9932877-9933023 + TGAATGCCAATTGGGTTT------TGTCC------GCTCTGTGGCTCTGCTGCAGGGGCTTCCCCC---AGGTCGGGGCTCTTCCCTGCCGGACTCTGGCCTGGCGCAGCTTCGAGTGTCGTGAATTAGCCAGTCTGCAGGATCTGTCTGATGTGGGGG---------CCG
droPer1 super_61:212952-213098 + TGAATGCCAATTGGGTTT------TGTCC------GCTCTGTGGCTCTGCTGCAGGGGCTTCCCCC---AGGTCGGGGCTCTTCCCTGCCGGACTCTGGCCTGGCGCAGCTTCGAGTGTCGTGAATTAGCCAGTCTGCAGGATCTGTCTGATGTGGGGG---------CCG
droWil1 scaffold_180949:1195301-1195459 + CGAATTTCCAGTGGTTTT------GGCCGTTG---GCTTTATGGCTTGTATGTCGGTGCTTCCCGC---GGTGCACAGCTCAAGTCTGTAATCCCCGCGGCTGGCGTAACTACGAATGCAGCGAATTGGCTAGTCTAGAGGATTTAATAAATTCTGAAGGCTTGTCCACTG
droVir3 scaffold_13049:8736379-8736540 + CGAATGCCAAACAGTTCTGGACTTGG---TCA---GTTCTCTGGCTGCTCTGCTGGGCTGTGCCCC---GTGCGTTGGCGCAGTTGTGCGAGGCGCAGGGCTGGCGCAGCTTTGAGTGCCGCGAGCTGGGCAGCCTGCAGGAGCTGATCAATGAGAAGGCCTTGCCCACTG
droMoj3 scaffold_6680:6608267-6608428 - TGAATGCGCAACCTTTGCGCCTAGGT---CCA---GTCCTCTGGCTGCTGTGCTGCGGCCTTTCCC---AGGTGCTGAGTCAGATATGCGAGGCTCAAGGCTGGCGCAGCTTCGAGTGTCGTGAGCTGAGCAGCCTGAAGGAGCTGAAGAACGTTAGGAACTTTCCCAAAG
droGri2 scaffold_15110:4482444-4482593 + TGTTCTACACTTGG---------------CCA---ATTCTTTGCCTGCTCTGCTTTGGGTTTTGC--CCTGGAT-TGGCTGTGGTCTGTGAGGCTCAAGGCTGGCGTAGTTTTGAGTGCCGCGAATTGAGCAGCCTGCAGGAGCTGATCGATGTGAAGGCATTTCCCACCG

dme-mir-966 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:6045612-6045728 - ATT------T---CGC-TCGGCTGTAACCTGATCCG-----------------CTGCT--GTGGGTTGTGGGCTGTG-------TGGCTGTGG-----TATAGGTGCCGCCAGTTGATAACCCCC-AG-----------------------CGTGGGCA-CGGACCCACTGGTCGTCAACCGC
droSim1 chr2L:5834370-5834493 - ATT------T---CGT-TCGGCTGTAACCTGATCCG-----------------CTGCT--GTGGGCTGTGGGCTGTGGGCTGTAAGGCTGTGG-----TATAGGTGCCGCCAGTTGATAACCCCC-AG-----------------------CGTGGGCA-CGGCCCCACTGGTCGTCAACCGC
droSec1 super_5:4116543-4116659 - ATT------T---CGT-TCGGCTGTAACCTGATCCG-----------------CTGCT--GCGGGTTGTGGGCTGTG-------AGGCTGTGG-----TATAGGTGCCGCCAGTTGATAACCCCC-AG-----------------------CGTGGGCA-CGGCCCCACTGGTCGTCAACCGC
droYak2 chr2L:13146709-13146824 + ATT------C---CGC-TCGGCTGTAACCTGATCCG-----------------CTGCT--GTGGGATGTGGGATGTG--------GGCTGTGG-----TATAGGTGCCGCCAGTTGATAACCCCC-AG-----------------------CGTGGGCA-CGGCCCCACTGGTCGTCAACCGC
droEre2 scaffold_4929:11075516-11075624 + ATT--CC-AT---CAT-TCGGCTGTAACCTGATCCC-----------------CTGCT--GTGG----------------------GCTGTGG-----TATAGGTGCCGCCAGTTGATAACCCCC-AG---------C----ACAG-----CGTGGGCA-CGGC-CCACTGGTCGTCAACCGC
droAna3 scaffold_12916:8156171-8156273 + CAT--CCGATC--TGA-TTGGCAGTAACCTGATCCG-----------------CGGTT--GTG-----------------------GTTGTGG-----TGGAGGTGC---TACTTGATAACCCAC-TG-----------------------CGTGGGCA-CTGGCCTTTCGGTTGTCAACGGC
dp4 chr4_group1:223208-223319 + GGA------T---CGG-GTGGCTGTAACCTGATCTGGGAGCGGTGCAGCAGGGCTGCG--GTGG--------------------------AGT-----TGGAGGTGTCGGCTGTTGATAACCCCC-AG-----------------------CGTAGGCA-CTGGT---ATGGTTGTGAACGGC
droPer1 super_1:219437-219548 + GGA------T---CGG-GTGGCTGTAACCTGATCTGGGAGCGGTGCAGCAGGGCTGCT--GTGG--------------------------AGT-----TGGAGGTGTCGGCTGTTGATAACCCCC-AG-----------------------CGTAGGCA-CTGGT---ATGGTTGTCAACGGC
droWil1 scaffold_180708:7887454-7887585 + GGATTGC-AATTGGTTGTGGGCTGTAACCTGATCTGGA----------------AGCT--ATAG-----------------------ATGTGATGATGCGGAGGTGTCGTCAGATGATAACCCCCCAGGGTAGACAGCTTAGACAT-----CGTAGGCA-TTGGC---CTGGTTGTCAACGGC
droVir3 scaffold_12963:3941701-3941794 - ATT------G---GGCGTCTGCTGTAACTTGAAGCG-----------------CTGATCTG-------------------------------------------------TGGTTGATAACCCCC-TG---------C----CAAGGTGCTCGTAGGCAGCTACCGCTCCGGTTGTCAACGGC
droMoj3 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 scaffold_15252:1454932-1454939 + -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCAACTAG

dme-mir-967 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:12459989-12460115 - GAGAACTGCAGGA------GACTTGGAGAGCAGAGATA-----------------------------CCT--------CTGGAGAAGCG--CGTGACCTGACCCCAGCAGGA-----------GAACCCAACCCGCTT----TTCCACCTA----------------G--------------GTGTCTC--T-----------CTCTCTCTTT--ATCTGTTCCTC------AGCTCG
droSim1 chr2L:12267908-12268042 - GAGAACTGCAGGA------GACTTGGAGAGCAGAGATA-----------------------------CCT--------CCGGAGAAGCG--CGTGACCTGACCCCAGCAGGA-----------GAACCCAACCCGCTT----TTCCGCCTA----------------G--------------GTGTCTC--TCTCTCTC---TCTCACTC--TATCTCAGTTCCTC------AGCTCG
droSec1 super_16:651020-651150 - GAGAACTGCAGGA------GACTTGGAGAGCAGAGATA-----------------------------CCT--------CCGGAGAAGCG--CGTGACCTGACCCCAGCAGGA-----------GAACCCAACCCGCTT----TTCCGCCTA----------------G--------------GTGTCTC--T----CTC---TCTCTCTC--TATCTCAGTTCCTC------AGCTCG
droYak2 chr2L:8897071-8897221 - GAGAACTGCAGGAGACGGAGACTTGGAGAGCAGAGAC---------AGAGATGA-----------TACCT--------CTGGAGAAGCG--CGTGACCTGACCCCAGCA--------------GAACCCAACCCGCTT----TTCCGCCTA----------------G--------------ATGTCTC--TATCTCGC---TCTCCCTC--T--CTCTGTTCCTCTTGCACAGCTCG
droEre2 scaffold_4929:12958952-12959089 + GAGAACTGCAGGA------GACTTGGAGAGCAGAGAT---------------GA-----------TACCT--------CTGGAGAAGCG--CGTGACCTGACCCCAGCAGGA-----------GAACCCAGCCCGCTT----TTCCGCCTA----------------G--------------GTGTCTC--TCACTCTC---TCTCTCTC--TCTCTCTTCTCCTC------AGCCCG
droAna3 scaffold_12916:12931176-12931307 + GAGAAATGCATGA------GATTTTGAGAGGAGAGATA-----------------------------CCT--------C---AGAAGCG--CGTGACCTGACCCCGTCCGTCTGTCCATCTATGAACCCAACCCGCTT----TTC---TCCAAACACCAGAGAGGAG-----------------------------GTCGAGAGTG----------------ACGG------TGTGTG
dp4 chr4_group3:3150562-3150729 - GAGAACTGCATGA------GACTTGGAGAGAAGAGATACCCACAA--GAGGCAGGCAGTGAAGTGGAGTGGAGGGAGC---GAGAAGCG--CGTGACCTGACCCCAAGACC------------GAACCCAACCCGGTT----CTGTTCTCCAGTGTACAGACAGGCA-----------------------------CTC---TGTATGAGTA--TGTACCCTCCTT------CGCTC-
droPer1 super_1:4633245-4633407 - GAGAACTGCATGA------GATTTGGAGAGAAGAGATACCCACAA--GAGACGGT---CCG--TGGAGTGGAGGGAGC---GAGAAGCG--CGTGACCTGACCCCAAGACC------------GAACCCAACCCGGTT----CTGTTCTCCAGTGTACAGACAGGCA-----------------------------CTC---TGTATGAGTA--TGTACCCTCCTT------CGCTC-
droWil1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_13246:1657163-1657301 - AGAGCGAGCAAGC------AGC------------------------------GTT---TTGTGTCTACCTCAGAAAGC---G--AGACG--CG-----TGAACCCAAATGCG-----------AACCTCGACCCGACTCGAATTCCGACTC----------------AACGCAAACGCTCAACTGTCTG--T------C---TGTCTGTC--T--GTCTGTCTGTC------TGCCTG
droMoj3 scaffold_6500:4266220-4266364 + AAGTAGTAGAAGA------AAAAGAAGAAGCAGCGGC------AACAGAAACGTT---TGGTGTCTACCTCAGAAAGC---G--ACACG--CA----TGAACCCCAAAAACG-----------AACCTCGACCCGACC----GACTACC----------------------------------AATTTCTAT------T---TGTCTGACTCT--GTCTCT-GCTG------TGTGTG
droGri2 scaffold_15252:15585528-15585616 + GCAGA--AGAGTA-AAA--GG---AAGAAGCAGAC----------------------------------------------AAAAGACACGCG--TGTTGAACCCGAAAACGAACCCAACTTCAAATTCAACGCAC---------------------------------------------------------------------------------------TTG------CCTCT-

dme-mir-982 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4259824-4259946 - TATCAAGTTAAAAAA------CGAAATCATGTTAGATCCTGGACAAATATGAAGTAAATTGTTTTTA----TGCAT--C-----------AA-TTACTTGATATT-CATCCTTG-AACTAAATG----------GTTT-TAGAGCTGCAAGA----AAAATTGT
droSim1 chrX:3274541-3274667 - TATCAAGTTAAAAAA------CGAAATCATGCTAGATCATTAACAAGTATCATGTAAATTGAATTTTTGTATATAT--C-----------AA-TTACATGTTATT-CGTTCTTG-AACTTAATG----------GTTT-TAGAGCTGCAAGA----AAAATTGT
droSec1 super_4:2464986-2465108 + TATGAAGTTAAAAAA------CGAAATCATGCTAGATCAAGAACAAATATCATGTAAATTGCTTTTT----TACAT--A-----------AA-ATACAGGATATT-CGTTCTTG-AGCTTAATG----------GTTA-TAGAGCTGCAAGA----AAAATTGT
droYak2 chrX:4178368-4178492 + TATCAAGTTCAGAAA----TATAAAATCATGCTAGATCTTGGAAAAATATCTAATAGATGGTTTTTA----TACAT--C-----------AA-TCAATTGATATT-TTTCCTTG-AACTAAATG----------GGTT-TAGTGCTGCAGCA----AAAATGGT
droEre2 scaffold_4690:1630508-1630651 - TATCAAGTTAAAAAA----TATAAAAGCAGTCCAGATCATGGAAAAATATCAAATAGATTGTTTTAT----TTCAGTCCAAACAATACATAA-TCACGCGAGTCA-TAGTATCGAAATTTAGCA----------ATTTATGAAGTTAAAAAAATATAAAGCCAT
droAna3 scaffold_13335:212413-212477 + TTTGTGGATC--------------------------------------------------------------------------------GA-TTTCCAGTAATT-CTGCATCA-AAATCCGG-ACAAAAAATATTTT-T----------TG----AAAATTTT
dp4 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6496:5428540-5428655 - TTG-TTGTTGGCTGTTAACAACTTGTTCGATTTGGCCTCTGGGTAGACTCTATATA-----------------TGT--A-----------AATATATAT-ATATCTAATCTCTA-ATATCTCAC----------GTTT-TACACCTGCAAAA----AAAACTTC
droGri2 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-983-1 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4262327-4262447 - ATATGCATATGCTATTATATTGCAATAATTAAATAAT-ACGTTTCGAACTAATGATTTTCAGTTCATTCATTAGGTAGTTACGCATTATCTAGTTGTTGTAAACATTCAACTCGCTGGC-GTA
droSim1 chrX:3277334-3277447 - ---TGCAT---ATGATATCTTGCAGTAATTTAGTAAT-ACCTTTCGAACACATGATTTTCAG-TCATTCATGAGTTCGTCAGGTATTATCTAGTTATTGTAAACATTCAACTCGCTGGC-GGA
droSec1 super_4:2462215-2462328 + ---TGCAT---ATGATATGTTGCAGTAATTTAGTAAT-ACCTTTCGAACATATGATTTTCAG-TCATTCATGAGTTCGTTAGGTATTATCTAGTTATTGTAAACATTCAACTCGCTGGC-GGA
droYak2 Unknown ---------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4690:1633112-1633231 - GGAATTGTGTGATATTATGTTACAGTGATTTAATAAT-TCGATTCGAAGTTATGTGCTTTAA-TCATTCATAAATGCGAAACGGATTATTAAGTTATTGTTAACATTCAACTCGTTGGC-GTG
droAna3 Unknown ---------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ---------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6540:31109889-31110001 - AACAACGTATGTTACTATATTAAAATAACTAAATAATTAAAACCAAAACCTATCAATTTAAT-CAATAAACG------AAATTTGTTATCTAGCT---TTAAGTACTTGAAAAGCTCATGATA
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------

dme-mir-985 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:16085272-16085387 - TTTATAATTATATTATATATAATAGCACTGCTGGCTCATTGGTACATTTCATAAGTACCTTATCAAATGTTCCAATGGTCGGGCAGAGCTATTATTTGTCCATGTTTTGGACTAGA
droSim1 chrX:12424811-12424913 - TTGATAATTA------------TAGCACTGCTGGCTCATTGGTACATTTCATAAGTACCTTATGAAATGTTCCAATGGTCGGGCAAAGCTATTACTGGTCCATGTTTTGGA-TAGA
droSec1 super_47:142584-142687 - TTGATAATTT------------TTGCACTGCTGGCACATTGGTACATTTCATAAGTACCTTATGAAATGTTCCAATGGTCGGGCAGAGCTATTACTTGTCCATGTCTTGGAATAGA
droYak2 chrX:10233193-10233294 - TTGATTACTG------------CAGCACTGCGGGCTCATTGGTACCTTTCATAAGTGCCTTATCCA-GGTTCCAATGGTCCGGCAGAGCTGTC-TTAGTCCTTGTTTTGGAATAGG
droEre2 scaffold_4690:10993681-10993783 + TCGACTACTG------------TAGCACTGCGGGCCCATTGGTACCTTTCATAAGTACCTTATCAAAGGTTCCAATGGTCTGGCAGAGCTGCT-TTAGTTCATGTTCTGGAGATGG
droAna3 Unknown --------------------------------------------------------------------------------------------------------------------
dp4 Unknown --------------------------------------------------------------------------------------------------------------------
droPer1 Unknown --------------------------------------------------------------------------------------------------------------------
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown --------------------------------------------------------------------------------------------------------------------
droGri2 Unknown --------------------------------------------------------------------------------------------------------------------

dme-mir-990 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:12782713-12782828 - TGGGAAAC-----------TGGCGA----ATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG--------------CTTTCAGCTTCGGTGCC-ATTT-----------------------------------------CACCC------------CGAGCACCAAGAGCATCAGACT
droSim1 chr2R:11518341-11518456 - TGGGAAAC-----------TGGCGA----ATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG--------------CTTTCAGCTTCGGTGCC-ATTT-----------------------------------------CACCC------------CGAGCACCAAGAGCATCAGACT
droSec1 super_1:10286785-10286900 - TGGGAAAC-----------TGGCGA----ATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG--------------CTTTCAGCTTCGGTGCC-ATTT-----------------------------------------CACCC------------CGAGCACCAAGAGTATCAGACT
droYak2 chr2R:16191830-16191945 + TGGGAAAC-----------TGGCGA----ATCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG--------------CTTTCAGTTTCGGTGCC-ATTT-----------------------------------------CACCC------------CGAACAGCAAGACCATCAGACT
droEre2 scaffold_4845:13064860-13064974 + TGGGTAAC-----------TGGCGA----GTCTG------------CTCTGC-GACATTCACCGTTCTGAGTTGGCCCCAAGTGCACGTGGGCCAG--------------CTTTCAGTTTCGGTGCC-ATTT-----------------------------------------CACCC------------CCAGCACCAAGAGCACC-GACT
droAna3 scaffold_13266:13815719-13815830 + TGGGAAAT-----------TGTCGA----AGCCA------------CTTTGC-GACATTCCCCGTTCTGCGTTGGCCCAAGGTGCACGTGGGGCCGACGA----------CTCTCCGCTTCCGGACCCATTG--------------------------------------------------------------CCGAAAATACATTCTTCA
dp4 chr3:6727705-6727891 - TGGGAAAC-----------TGGCGA----GGCG-AGGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGGTTAC--GCCTGAAGCTCCAATTCGGTTACGGT------TTCGGCTACGGCTACGGCTACGGGTACGGCTACGGCTACGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGACA
droPer1 super_2:6950668-6950854 - TGGGAAAC-----------TGGCGA----GGCG-AGGCGAGGACTCCTCTGC-GACATTCACCGTTCAGCGTTCGGCCAGCGAGCACGTGGGTTAC--GCCTGAAGCTCCAATTCGGTTACGGT------TTCGGCTACGGCTACGGCTACGGGTACGGCTACGGCTACGGTACATCCTCCACACTAGACGGCGGGTTGAGGGGGTCGGACA
droWil1 scaffold_180700:6478759-6478837 - TGGGAAATACATCTTCGTTTGGCTTTAGTTTCTC------------TTCTGCGGACATTCAATGTTCTGCGTTTGCCCCAAGCGCACGTGG-------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12875:2573949-2574010 + TGGGAAAC-----------TG-CGA----AGCTG------------CTTTGC-GACATTCGACTTGCTGCGTTCGTCGCCGACGCACGTGG-------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6496:22657688-22657749 - TGGGAAAC------------GGCGA----AGCTT------------CTGTGC-GACATTCAACGTTCTGCGTTCGTCGCCGACGCACGTGG-------------------------------------------------------------------------------------------------------------------------
droGri2 scaffold_15112:4702153-4702224 + TGGGAATT-----------TTGCGA----AGCTGCTGCTGTGGCT--GCTGC-GACATTCAACGTTCTGCGTTGGCCGCCGACGCACGTG--------------------------------------------------------------------------------------------------------------------------

dme-mir-991 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16472690-16472815 - GTAGGATATCAAAACTATCA-------CTGCAGTTTCAGG-----CTTTTCCCAACTACACCTATTAAT----ACATATTTTA------------------ACGTCCTATTAAAGTTGTAGTTTGGAAAGTTTTGGTTTTGCATTAGAAATC-GCCACTCA
droSim1 chr2R:15134383-15134509 - GGGGTATATCAAAAATATCA-------CTGCAGTTTCAGG-----CTTTTCCCAACTACATCTATTAAT----ATTTATTTTA------------------ACGTCGTATTAAAGTTGAAGTTTGGAAAATTTTGGTTTTGCATTTGAAATCCGCCACTCA
droSec1 super_1:14027408-14027534 - GGGGTATATCAAAAATATCA-------GTGCAGTTTCAGT-----CTTTTCCCAACTACATCTATTAAT----ACTTATTTTA------------------ACGTCGTATTAAAGTTGAAGTTTGGAAAATTTTGGTTTTGCATTTGAAATCCGCCACTCA
droYak2 chr2R:12723766-12723891 + GGAGGATACAAAAAAATCGC-------CTGCAGTTTCAAG-----CTTTTCCCCACTCCTTGCTTTAAT----ACTTATTTTA------------------ACGTCGTATTAAAGCCAGAGTTTGGAAAGTTTTGATTCTGCATTAGAAATC-GCCACCCA
droEre2 scaffold_4845:10619033-10619157 - GGAGAATACCAAA-CTAGCA-------CTGCAGCTTCAAG-----CTTTTCCCCACTCCTTGCTTTAGT----ACTTATTTTA------------------ATGTCGTATTAAAGCCAGAGTTTGGAAAGTTTTGATTCTGCTTTTTAAATC-GCCACCCA
droAna3 scaffold_13266:4131534-4131677 + TATTACTATTACAAACATTGTGCAACACTGCCGAATTGGAGACAACTTGGCTGGAATCAATCCATTCATTCTTTTCAATTTTGGCAGCCGACGGGGTAAGACCTCCCTATT-------TAAGTGGTAAAGTGATTTCTTGGAATTAAAGAA----------
dp4 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-992 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16472804-16472925 - ACAAAT--------CT-----AGACATGATTTTCCCAAGTGCCTGGTATCAGCAAAGTGT-----TATTTTTTATGTTT-------------------------------------------------ATGTAAAGTACACGTTTCTGGTACTAAGTACTTCGAGAAAGTT---------------ACCTGCGTAGGATATCAA
droSim1 chr2R:15134498-15134613 - AGGAAT--------CT-----AGACATGATTTTCGCAAGTGCCTGGTTTCAGAGAGGTGT-----AATTTTT---G----------------------------------------------------TTGTATAGTACCCTTTTTTGGAACCAAGCCCTTTGAGAAACTT---------------ACCTGCGGGGTATATCAA
droSec1 super_1:14027523-14027641 - AGGAAT--------CT-----AGACATGATTTTCGGAAGTGCCTGGTATCAGATAGGTGT-----AATTTTT---GTGT-------------------------------------------------TTGTATAGTACACGTTTCTGGAACCAAGCCCTTTGAGAAACTT---------------ACCTGCGGGGTATATCAA
droYak2 chr2R:12723658-12723777 + AGGACT--------CT--T--GGATCTGATTTTCCCAAGTGCTTAGTATCAGCAAGGTGT-----AATTTTT---GTTT-------------------------------------------------GGTTAAAGTACACGTTACTGGTACTACGTACTTCGAGAAACCT---------------AACTACGGAGGATACAAA
droEre2 scaffold_4845:10619147-10619257 - AGAAC--------------------CTGATTTTCCCAAGTGCATAGTATCAGCAAGGTGT-----AATTTTT---ATTT-------------------------------------------------GGGTAAAGTACACGTTACTGGTACTAGGTACTTTGAGAAACAT---------------GACTACGGAGAATACCA-
droAna3 scaffold_13266:4131420-4131545 + TAAAAT--------TCATTGTAAACCATACTTTTTAAG--GAGCAGTATCCACAATTTAA---------------GTTT-------------------------------------------------TTTCGTGGT----ATTTGCGGCATTGCCAACTTTAAGAAAAGTTCAAAGGGCGCTGTTACAAGCTATTACTATTAC
dp4 chr3:8679002-8679138 + GTCGTT--------CT-----CCATCTCTTTCTCGCGTC-GCGTCGCTTAAACTATGTATGTATGCATTTTGTACATACGGTTAAATTCAAATGTA-------------ATCGGTTCCCAAACGCTCGTTTCATGTTTTCATTTTCTCGAATTTTCACG----------------------------------------TTTAG
droPer1 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:3840730-3840836 + GCATT---------AT-----AGAAAACA--------AACGATTGTT----------------------------------------TACTGGCCATTTTGCTAATCTTTT-----------------TGGTAATCTAATC-TTTACGGTATCAAAATTAGTTAGAAAA-T---------------ACTTAATAATTATATTA-
droVir3 scaffold_13042:3503607-3503688 - ATAAAAGGCAATTCCT--T--AGAATT--TTTCTTCAATTAATTAATTCT--------GT-----TATGTTTTATATT-------------------------------------------------------------TAATTTCCAATAATAAGTTCTTC------------------------------------------
droMoj3 scaffold_6680:4944926-4945004 - GTTTAT--------AT---------ATG-------AAAATATTTGATATATGCAA------------TTTAT--------------ACAAAGAACTTTTTGCTA-------------------------------------------------------TTCTAAAAAATA---------------AA------CGAACATCCA
droGri2 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-997 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:15152661-15152905 - CAATTAA-TATGTAGTTTA---------------TGGAT-----CCTCTTTCAATGAATTTAGT----ATGCCCAAACTCGAAGGAGTTTCACC------------------------------------------------TCCATAAGAGCGACAGTC-CTGGAGAAGTTATCAGAGCCAAAAAAATTCATA-TGATGATGCATTTTCC--------GTCTCTGAAAACGTCTTCAG-CAGAAGTTGTTTTTAGCGAAGTGAAACTCATT-CGATTTTGATCATACTA-ACGA---CATTGGAT------G-CTTG-----GATCGGCA----GTTTGGTGGAATATA
droSim1 chr3R:6329088-6329350 + CAATAAA-TATGTAGTTTTGGATACTCGCCAGTCAGGAT-----GCTCTGTCAATGAATTTAGT----ATGCCCAAACTCGAAGGAGTTTCACC------------------------------------------------TCCATAGGAGCGGCAGAC-CTGGAGAAGTTTTCAGAGCCAAAAAAATTCATA-TGATGATGCATTTTCA--------GTCTCTGAAAACTTCTTCAG-CAGAAGTTGATTTTAGCGAAGTGAAGCTCATT-CGATTTTGATCATACTA-ACGACATTTGTGGAT------G-CTTG-----GATCGGCA----GTTTGGTGGAATATT
droSec1 super_25:615309-615568 + CAATAAA-TATGTAGTTTTAGATACTCGCCAGTCAGGAT-----GCTCTGTCAATGAATTTAGT----ATGCCCAAACTCGAAGGAGTTTCACC------------------------------------------------TCCATAGGAGCGGCAGAC-CTGGAGAAGTTTTCAGAGCCAACAAAATTCATA-TGATGATGCATTTTCA--------GTCTCTGAAAATTTCTTCAG-CAGAAGTTGATTTTAGCGAAGTGAAGCTCATT-CGATTTTGATCATACTA-A---CATTTGTGGAT------G-CTTG-----GATCGTCA----GTTTGGTGGAATATT
droYak2 chrU:8935876-8936155 - AAAATAAAAGTTGAATTTTGAAAAATAAA--ATTTCCAA-----TTTTTGACCATGATTTTTGAACGTTTGCCGAAAATCGT----GTTTCTGCGACTATAAATATCCGTATTTTGATCATAACTTTCGAAATATTGGTCCAATCA-TGGAATGCCACAC-CTCGTTGAGTTC-----------------------GTAATTAAATTTCCAATCGAACTGTGTTTA---------AAAA-TAAAAGTTGAATTTTGAAAAATAAAATTT--CCAATTTTTGACCATG---------ATTTTTGAAC------G-TTTGCCGAAAATCG--T----GTTTCTGCGACTATA
droEre2 scaffold_4784:21223629-21223900 - CAAGACG--------CCTTAAA-----GCGAGTTCAGCTTTACTGTTCTA-GAATGCAGTTTAT----ATACCCAAACTCGAAGGAGTTCCACA------------------------------------------------TTAAGAAGAGCAGCAGAAGCAGAAAAAAATGTCTGGACCCTTGAAATTCATTTTGCAAATGCATTTCCATT------GGCTCGGAAATCTTTCTCTGTCAGGTGTTGATTTTTTAAAAGTGGAGCTCATT-CGATTTTGAATATATAAAATAACAGTTCTTGATATGTATGAGTTG-----GATTTGCACCTTGTCTGACAGAAAAAC
droAna3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp4 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Mirtrons

dme-mir-1005 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:4343681-4343771 + CCACCATTCTGACCTGTGAGTTGAT-CGA----TTTCGAGGTTTTG--------------------------------GCACAC------GAATA-------------TAATCTGGAATC-TTTAATTCGCAGTTCCCACCGAAATGT
droSim1 chr2L:4265544-4265633 + CTACCATTCTGACCTGTGAGTTGAT-CGA----TTTCGAGTTTTTG--------------------------------GC-CAC------AAATA-------------TAATCTGGAATC-TTTAATTCGCAGTTCCCACCGAAATGT
droSec1 super_5:2441095-2441185 + CCACCATTCTGACCTGTGAGTTGAT-CGA----TTTCGAGGTTTTG--------------------------------GCACAC------AAATG-------------TAATCTGGAATC-TTTAATTCGCAGTTCCCACCGAAATGT
droYak2 chr2L:4375638-4375728 + CCACCATTCTGACCTGTGAGTTGAT-CGA----TTTCGAGGTTTTG--------------------------------GCAGCC------AAAAA-------------TAATCTGGAATC-TTTAATTCGCAGTTCCCACCGAAATGT
droEre2 scaffold_4929:4420541-4420630 + CCACCATTCTGACCTGTGAGTTCAT-CGA----TTTCGAGGTTT-G--------------------------------CCAGCC------AAAAA-------------TAATCTGGAATC-TTTAATTCGCAGTTCCCACCGAAATGT
droAna3 scaffold_12916:13781299-13781395 - TAACGGTTTTGACTTGTAAGAACCA-AAACTACTTTCT--GTAT-C--------------------------------AAAGCC------AGAAA---CTAATCG---TAA--TTGAAAT-TATCTTAACCAGTCCCCATTGAGCTGT
dp4 chr4_group2:339129-339252 + CCACCATTTTGACATGTAAGTGTCC-ATA---TCCTCGAGGCTCCTGCAATGCACTGCAATGCACTGCAATGACCGCAATGCTG------ACGTA-------------TTATTTATGTTC-TCCGATCCCCAGTTCCCACTGAAATGT
droPer1 super_8:3550415-3550538 - CCACCATTTTGACATGTAAGTGTCC-ATA---TCCTCGAGGCTCCTGCAATGCACTGCAATGCACTGCAATGACCGCAATGCTG------ACGTA-------------TTATTTATGTTC-TCCGATCCCCAGTTCCCACTGAAATGT
droWil1 scaffold_180772:1844874-1844969 - TTACAATTCTATCATGTAAGTTAAAACGA----TTAAGTAATTTC---------------------------------ACACTT------ACATATATT---------TATTTAACTTTCTCTTGTCTCCTAGTCCCACTTGAAATGC
droVir3 Unknown CAGTGGTATTGACCTGTAAGTATG-----------------------------------------------------------------------------------------TTGAATT-TTCTTACTGCAGTTCCGCTGGAGATCG
droMoj3 scaffold_6500:22625692-22625724 + CCTCCATATTGCTCTGCGTGCAAGA-TGC----GCCCG--------------------------------------------------------------------------------------------------------------
droGri2 scaffold_15252:16827853-16827948 - CCACCATTCTGACATGTAACC--AC-TGA----TCCTGATCCTT-G--------------------------------ATTG-CACTGCCCATTT---TGAATGCGTTTTC-------TT-TCTGCTTTGCAGTTCCCACGGAAATGG

dme-mir-1008 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:6773023-6773109 + AAGTTCCTCATCTATGTAAATA-TCTAAA-------------------GTTGAACTTGGCCAATG-------------------------------GCAAGTCACAGCTTTTTGTGTTTACAGGAGAACGAGTACTTC
droSim1 chr2R:5362602-5362688 + AAGTTCCTCATCTATGTAAATA-TCTAAA-------------------GTTGAACTTGGCCAACG-------------------------------GCAAGTCACAGCTTTTTGTGTTTACAGGAGAACGAGTACTTC
droSec1 super_1:4360092-4360178 + AAGTTCCTCATCTATGTAAATA-TCTAAA-------------------GTTGAACTTGGCCAACG-------------------------------GCAAGTCACAGCTTTTTGTGTTTACAGGAGAACGAGTACTTC
droYak2 chr2R:2355901-2355987 - AAGTTCCTGATATACGTAAATA-TCTAAA-------------------GTTGAACTTGGCCAACG-------------------------------GCAAGTCACAGCTTTTTGTGTTTACAGGAGAACGAATACTTC
droEre2 scaffold_4845:19001852-19001938 - AAGTTCCTCATATACGTAAATA-TCTAAA-------------------GTTGAACTTGGCCAACG-------------------------------GCAAGTCACAGCTTTTTGTGTTTACAGGAGAACGAGTACTTC
droAna3 scaffold_13266:18269903-18269989 + AAGTTTCTTATCTACGTAAGGA-ACTCAA-------------------TTTT------------------------------TACATTAAACCGAAGCAATTTAACACGTTTCTTATT-TCAGGAGAACGAGTACTTC
dp4 chr3:12187375-12187468 + AAGTTTCTCATTTATGTAAGGG-ATCGGC-------------------G-AGAGTTTTTCCCACG-GA----ATA---TCATTATATT---------------ATATTGTTATGTGCCTGCAGGAAAACGAGTACTTT
droPer1 super_44:370822-370915 + AAGTTTCTCATTTATGTAAGGG-ATCGGC-------------------G-AGAGTTTTTCCCACG-GA----ATA---TCATTATATT---------------ATATTGTTATGTGCCTGCAGGAAAACGAGTACTTT
droWil1 scaffold_180697:3635906-3636001 - AAGTTTCTTATCTATGTAAGACAATCCAC-------------------G-AGGTGGTT------GGGAAGACAAATTTTGAATA-ATT---------------GGATTTTGATTTTTCTACAGGAAAACGAATATTTT
droVir3 scaffold_12875:11727599-11727677 + AAATTTCTCATCTATGTAAGTG-ATGA---------------------------TGCGTCCATTGGGA----ATA---TCATTT------------------------AATTTGTGTTGGTAGGAAAACGAATATTTT
droMoj3 scaffold_6496:15129877-15129967 - AAGTTTCTCATCTATGTAAGTA-GTAATA-------------------GGTGTTTGTAGACAT-----------AT--TCAG--------------TTAATTTTCGCATTTGTGTATTGGCAGGAAAACGAATATTTT
droGri2 scaffold_15245:6497403-6497490 - AAATTTCTCATCTATGTAAGTG-ATGCAAATGAATAAATATTAATCATATTGCCTTTAATCAATG-------------------------------GT------------------CTTGCAGGAGAATGAGTATTTC

dme-mir-1009 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:19880562-19880652 - CTGTCCATTCAAGACGTAAGTGTAAGACTTTCTTGAGTTA---------CCCGCGATGAGTATCTCAAAA--ATTG-----TTACATTTCAGAGCGATAGCTATCCA
droSim1 chr2R:18425639-18425729 - CTGTCCATTCAAGACGTAAGTGTAAGACTTTCTTGAGTTA---------CCCGCGATGAGTATCTCAAAA--ATTG-----TTACATTTCAGAGCGATAGCTATCCA
droSec1 super_9:3164536-3164626 - CTCTCCATTCAAGACGTAAGTGTAAGACTTTCTTGAGTTA---------CCCGCGATGAGTATCTCAAAA--ATTG-----TTACATTTCAGAGCGATAGCTATCCA
droYak2 chr2R:19858946-19859036 - CTGTCCATTCAAGACGTAAGTGTAAGACTTTCTTGAGTTA---------CCCGCGAGGAGTATCTCAAAA--ATTA-----TTACATTTCAGGGCGATAGTTACCCG
droEre2 scaffold_4845:21253645-21253735 - CTGTCCATTCAAGACGTAAGTGTAAGACTTTGTTGAGTTA---------CCCACGTAGAGTATCTCAAAA--TTTG-----TTACATTTCAGAGCGATAGCTACCCA
droAna3 scaffold_13266:5750531-5750620 - CTATCGATTCAAGATGTAAGTTTTGAATACTTCTACTCTA---------TCTTGGA-ATGTCTCTCATAA--TTGT-----CCATCTTCTAGAACGATAGCTATCCA
dp4 chr3:7562600-7562686 - ATGTCCATACAAGATGTAAGTTCGAGAATC--------------CCAAACACATAAGTTCTTTTTTAACA------TCCAAATATTTTGTAGAGCGACAACATTCCA
droPer1 super_2:7758003-7758089 - ATGTCCATACAAGATGTAAGTTCGAGAATC--------------CCAAAAACATAAGTTCTTTTTTAACA------TCCAAATATTTTGTAGAGCGACAACATTCCA
droWil1 scaffold_180700:5103983-5104075 + TTATCTATCCAGGATGTAAGTATTTAAA--------GTTATTTTCAT----AATGACGGGAAATCAATGATTTGCATTC--ACTCATTGCAGAGTGATAACCTCCCA
droVir3 Unknown -----------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6496:14788216-14788309 + TTATCTCTACAGGAGGTAAGGACCAATTGGTA--AAGT------GAGAAATTGGAAGAAATTTATTGAAA--TTTA---TACTCGTGTTTAGGACAAGGAGTTCACA
droGri2 Unknown -----------------------------------------------------------------------------------------------------------

dme-mir-1012 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:22687056-22687144 - A--AATCCAAAAGAACGGTGGGTAGAACTTT-GATTAATATTGCTTGAAAA-ATATTAGTC-----------AAAGA----------------------------------------TTT-------------TCCCCATAGATTTATCAATTTCGG
droSim1 chr3R:22517515-22517602 - T--AATCCAAAAGAACGGTGGGTAGAACTTT-GATTAATATTGCTTGA-GA-ATATTAGTC-----------AAAGA----------------------------------------TTT-------------TCCCCATAGATTTATCAATTTCGG
droSec1 super_13:1460550-1460637 - T--AATCCAAAGGAACGGTGGGTAGAACTTT-GATTAATATTGCTTGA-GA-ATATTAGTC-----------AAAGA----------------------------------------TTT-------------TCCCCATAGATTTATCAATTTCGG
droYak2 chr3R:23804845-23804934 + C--AATCCAAAAGAACGGTGGGTAGAACTTT-GATTAATATTGCTTGCAAG-ATATTAGTC-----------AAAGG----------------------------------------T------------TTTTCCCCATAGATTTATCAATTTCGG
droEre2 scaffold_4820:5353889-5353978 + A--AATCCAAAAGAACGGTGGGTAAATCTTT-GATTAGTATTGGTTTCAAT-ATATTAGTC-----------AAATG----------------------------------------T------------TTTTCCCACTAGATTTATCAATCTTGG
droAna3 scaffold_13340:16646757-16646843 + C--GATATAAAAAAGCGGTAGGT-----TTC-AACCAA-ATTTCCTTTGAGAGT-TCAGTT-----------AA------CTTTATATA------------------------------T-------------TCTTTTTAGCTTCACTAACTTCGG
dp4 chr2:4781321-4781418 + A--AATAATTCAGAGCGGTGGGTAGTCTCTC-ATATATAGTTATAAAA-GA-AC-----------GAACACCAGTGGTTAAGCAATGCA------------------------------T-------------TTCTTGTAGATTCATCAATTTCGG
droPer1 super_19:478308-478405 + A--AATAATTCAGAGCGGTGGGTAGTCTCTC-ATATATAGTTATAAAA-GA-AC-----------GAACACCAGTGGTAAAGCAATGCA------------------------------T-------------TTCTTGTAGATTCATCAATTTCGG
droWil1 scaffold_181130:2629008-2629094 + C--AATTTGTCAGAACGGTATGG---------------TAGTGCAAGAAAG-CCGAAATTC-----------AAAA-----------------------------------------ACACCCTAATTGTAACAATTTGCAGATTTGTCAACTTTGG
droVir3 scaffold_13047:12018101-12018191 - C--GATCTAAAGAAACGGTACGGATT--GTT-TATTTAAA-TGCTTTA-------------------------------------TATA----------------TTTATCTATAA-GCTATCT------TTTTGTTTGCAGTTTCATTAACTTTGG
droMoj3 scaffold_6540:29763927-29764041 + C--GATTTAAAAAAACGGTGTGTAAATATGG-ATTATTATTTATAAAT-TA-TC-----------GAAAACTTAACTTCTAA---TGTT----------------TTTATATTTAT-ATTTTCA------ACATACTCTCAGTTTCATCAACTTCGG
droGri2 scaffold_14624:2192647-2192787 - ATTGATATCAAGAAGCGGTACGTTCTACATTTGGT-TGAACTATTCTT-GA-ACTTGAGCCGAAAAAACTTTAGCTGTA-TTTTAAACATTCTTTTTCAATCTCTTTTGTGTGTGTGT------------TTTTATTTGCAGTTTCATTAACTTTGG

dme-mir-1013 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:26617343-26617433 - CACCGTGCTGGAGAGGTGAGTTTCGTACACTTAATTAATAGGATCGGCCGTTAAT------------AAAAGTA-----T-GCCGAACTCGC-------AGGCGACGGATGCGCGA
droSim1 chr3R:26257486-26257576 - CACCGTGCTGGAGAGGTGAGTTTCGTACACTTAATTAATAGGATCGGCCGTTAAT------------AAAAGTA-----T-GCCGAACTCGC-------AGGCGACGGATGCGCGA
droSec1 super_4:5435200-5435290 - CACCGTGCTGGAGAGGTGAGTTTCGTACACTTAATTAATAGGATCGGCCGTTAAT------------AAAAGTT-----T-GCCGAACTCGC-------AGGCGACGGATGCGCGA
droYak2 chr3R:27538983-27539073 - CACCGTGCTGGAGAGGTGAGTTTCGTACACTTAATTAATTGGGACGGCCGTTAAT------------AAAAGTA-----T-GCCGAACTCGC-------AGGCGACGGATGCGCGA
droEre2 scaffold_4820:1381504-1381594 + CACCGTGCTGGAGAGGTGAGTTTCGTACACTTAATTAATTGGAGCGGCCGTTAAT------------AAAAGTA-----T-GCCGAACTCGC-------AGGCGACGGATGCGCGA
droAna3 scaffold_12911:4366271-4366356 + CACTGTGCTGGAGAGGTAATCTTTGAATAATTATCTGTGAGTTGTGGCATCTAAT------------GATTGT-----------TATCTTCC-------AGACGTCGCATGCGTGA
dp4 chr2:577090-577184 + CACTGTGCTGGAGCGGTAAGT----------CCATGAATTGCATCCCCCTTTGATTATTCTTTAATCTGG---AAATCCC-TGTGATCCCAT-------AGACGACGGATGCGCGA
droPer1 super_7:3361274-3361368 + CACTGTGCTGGAGCGGTAAGT----------CCATGAATTGCATCCCCCTTTGATTATTCTTTAATCTGG---AAATCCC-TGTGATCCCAT-------AGACGACGGATGCGCGA
droWil1 scaffold_181130:10168431-10168520 - AACTGTATTAGAAAGGTATAATGAATAAACCAATTTGAATAG-CAAACCATTAAA------------TCAATTT-----C-CTTTTTTGTCT-------AGACGACGTATGCGTGA
droVir3 scaffold_13047:11434928-11435028 - CACAGTGCTGGAGAGGTGGGT-GCATCCAC---------ATCAGCTGCT--TGATAACCATTTGT--AAATGTAAATCCTCCTTTAACTCG-TTTGAACAGGCGACGCATGCGCGA
droMoj3 scaffold_6540:30312688-30312787 + CACAGTGCTGGAGAGGTGGGA----------GCATTGATTTCACCACCCATAAG--ACACATTCT--CACAGTTTTTCTTGCT-TAATTCC-TTTGTACAGGCGGCGCATGCGCGA
droGri2 scaffold_14624:1473562-1473665 - CACAGTGCTGGAAAGGTGATTCAAAT-----CCATAAGCCACAATCTTCTT-AAATATTATTTTCGCTAA---TGCT--A-TTTGTACTCGCTTTGATTAGGCGTCGCATGCGGGA

dme-mir-1016 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:10120620-10120707 - CTCCAAGCTTTTCCAGTAAGTATAGAGAGGATGTGATTGGTAAAT------TCCAAA----------GTT-----------------CACCTCTCTCCATAC-TTAGTCGTCGAGGGGTTAT
droSim1 chr2R:8883298-8883385 - CTCCAAGCTTTTCCAGTAAGTACAGAGATGATGTAATGCGTAAAT------TCCAAA----------GTT-----------------CACCTCTCTCCATAC-TTAGTCGTCGAGGGGTTAT
droSec1 super_1:7628246-7628333 - CTCCAAGCTTTTCCAGTAAGTATAGAGAGGATGTAATGCGTATAT------TCCAAT----------GTT-----------------CACCTCTCTCCATAC-TTAGTCGTCGAGGGGTTAT
droYak2 chr2R:10057668-10057755 - CTCCAAGCTGTTCCAGTAAGTATAGAGGGGATGTGATGGGTAAAT------TCCAAA----------GTT-----------------CACCTCTCTCCATAC-TTAGTCGTCGAGGGGTTAT
droEre2 scaffold_4845:15723071-15723158 + CTCCAAGCTGTTTCAGTAAGTATAGAGAGGATGTGATGGGCAAAA------TCCAAA----------GTT-----------------CACCTCTCTCCATAC-TTAGTCGTCGAGGGGTTAT
droAna3 scaffold_13266:5804278-5804360 + CTCTAAACTTTTTCAGTGAGTACTTGTAATATA-AATCCATAAA--------TCAAA----------ACT-----------------CACTT-TTTCCA-AC-TTAGTCGCCGTGGTGTGAT
dp4 chr3:17369366-17369470 - CTCAAAGCTCTTCCAGTGAGTACACAATTCAATTCCTCGGCAAGGCTATCGTCTGAAACTAATTTCCCTT-----------------CACTTATCCCTGCCCTGCAGTCGTCGCGGCGTCAT
droPer1 super_31:422912-423016 + TTCAAAGCTCTTCCAGTGAGTACACAATTCAATTCCTCGGCAAGGCTATTGTCTGAAACTAATGTCCCTT-----------------CACTTATCCCTGCCCTGCAGTCGGCGCGGCGTCAT
droWil1 scaffold_180700:1839743-1839828 + TTCCAAATTGTTCCAGTAAGTTAAAA-----TGATCTAAAATCAT------TTCAAA----------T-T----------GATT---CAATAATCTCTTCCA-TTAGTCGACGCGGTGTCAT
droVir3 scaffold_12875:17586457-17586541 + TTCCAAACTATTTCAGTAAGTAGCA------GGTGCTGAGTGCAT------G----A----TTGTCTCTA----TATCTT--------GATT-----ATCTTTGCAGTCGACGCGGGGTTAT
droMoj3 scaffold_6496:11208550-11208642 + TTCCAAGCTGTTTCAGTAAGTAGAGCACGCATTTCCAGTACCCAACTA----------------TTCGTTACTATATCTG--------TACA-----ATTTTTGTAGTCGACGCGGGGTTAT
droGri2 scaffold_15245:14096515-14096602 - TTCCAAACTGTTTCAGTAAGTGGTAACACA-ACTACTATGTTTGT------GC-AAC----------ATT----------TAATGGACAG-T-----ATCTTTGCAGTCGACGGGGAGTTAT

dme-mir-2494 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:12444473-12444619 + GGC--AACCTGCCACTGTCCATCTTCCGACCGGCGATCAGTAAGTGCACCAGATT------------G-GGAAT-----------------AACCTTCAAAAGCTGCAACTT-AAATATTCCCAGTAATGTCCACTTACAAGGAGCCCCTGGTTGGATGGGTGGACAA--CCTATTCGGACC
droSim1 chr3R:9022585-9022731 - GGC--AACCTGCCATTGTGCATCTTCCGACCGGCGATCAGTAAGTGCACCAGATT------------G-GGAAT-----------------AACCTTCAAAAGCTGCAACTT-AAATATTCCCAGTAATGTCCACTTACAAGGAGCCCCTGGTTGGATGGGTGGACAA--CCTATTCGGACC
droSec1 super_12:1702814-1702963 - GGC--ATCCTGCCATTGTGCATCTTCCGACCGGCGATCAGTAAGTGCACCATAGT-----A---A--ATGGAAT-----------------AACCTTCAAAATCTGCAACTT-AAATATTCCCAGTAATGTCCGCTTACAAGGAGCCCCTGGTTGGATGGGTGGACAA--CCTATTCGGACC
droYak2 chr3R:11948210-11948356 - GGC--GACCTGCCACTGTGCATCTTCCGCCCGGCGATCAGTAAGTGCACCAGATT------------G-GGATT-----------------AACCTTCAAAAGCTGCAGCTT-AACTATTCCCAGTAATGTCCACTTACAAGGAGCCCCTGGATGGCTGGGTGGACAA--CCTATTCGGACC
droEre2 scaffold_4770:9192977-9193123 - GGC--AACCTGCCCCTGTGCATCTTCCGCCCGGCGATCAGTAAGTGCAACAGATT------------G-GGAGT-----------------AACCGTCAAAAGCTACAACTT-CAATATTCCCAGTAATGTCCACTTACAAGGAGCCCCTGGTTGGCTGGATAGACAA--CCTATTCGGACC
droAna3 scaffold_13340:7435217-7435360 - GGC--AGCCTGCCAGTCAGCATTTATCGGCCTTCCATAAGTAAGTACTATATACG------------T-CCTGC-----------------TGTCTTATAAAATTGTTATTT----TTTTTCTAGTAATTGCCACATATAAGGAGCCATTAGTTGGATGGGTGGATAA--CCTTTATGGACC
dp4 chr2:5294042-5294203 - GGC--GACCTGCCCGTGTGCATTTTTCGGCCGGCCATTAGTAAGTTTTTCC----TTAGAT---G--AT-GCAAGGCCTTGGATGGAACTG-----AAACATTGTGTAACAT-GACTCTCCACAGTCGTGCCCACCTACCAGGAGCCCGTCGTTGGTTGGACTGACAA--TCTGTACGGGCC
droPer1 super_19:1006170-1006331 - GGC--GACCTGCCCGTGTGCATTTTTCGGCCGGCCATTAGTAAGTTTTTCC----TTAGAT---G--AT-GCAAGGCCTTGGATGGAACTG-----AAACATTGTGTAACAT-GACTCTCCACAGTCGTGCCCACCTACAAGGAGCCCGTCGTTGGTTGGACTGACAA--TCTGTACGGGCC
droWil1 scaffold_181108:4575766-4575914 - GGC--AATCTACCAATCTGTATTTTTCGCCCTGGTGTCAGTAAGTCCTCAAAATT------------C------------AACTTGTAACT-----ATAGCTGTTAAATTTTCTCCTTATTATAGTTATTGCCACCGCCAAGGAGCCAGTTTCGGGTTGGATTGACAA--TTTATATGGACC
droVir3 scaffold_13047:18500357-18500519 - ACAAAAAGCTGCCCATTATCGTCACAAGGCCTTCCATCGGTATGTAGGTCC----CGCT-A---A--CT-GGTTGGGCTTGACAAGTAACC-----ATATTTATTTTTTTTT-TTGTTCGCCCAGTGACGGCGGCCATACACGAGCCCATGCCCGGATGGATTGAGGG--CGTGAACGGACC
droMoj3 scaffold_6496:22335084-22335230 - GCC--GGTCTGCCGGCAGCCATAGTTAGGCCATCCATAGGTGAGTC----GAAGTATAAATCTAATTG-AG-AA-----------------GGCCCTAACTGACTGCTATT----------ACAGTATACGGTACACTGGAGCACCCCATGAAGGGCTGGGTGGGCAATGCCAACTCGGGTC
droGri2 scaffold_15074:333824-333971 - AGC--GGTTTGCCCATAAGCATCTTTCGCCCGGGTGTCAGTAAGTTCGTCGAATCATTAAGATCA----------------GTAAGAA---GATGTTCTCAGTCT-----------CCATTTCAGTTATTGGCAGCTACAAGGACCCCCTCCCGGGCTGGGTTGACAA--TCTATATGGTCC

dme-mir-2500 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:16991543-16991639 - AAGAACTTTCTGCAGGTAAGGA----------------ACACACATATACAATACCG-------TTTGA-------------ATTTCAAATAATCAGGA------TTTTGTGTGTGGACCTCAGATCATGTTCCAGGCC
droSim1 chr3L:16333274-16333368 - AAGAACTTTCTGCAGGTAAGGA----------------ACACACAT--ACAGTCCCT-------GTTGA-------------ATTTCAAATAATCAGGA------TTTTGTGTGTGGACCTCAGATCATGTTCCAGGCC
droSec1 super_0:9052557-9052651 - AAGAACTTTCTGCAGGTAAGGA----------------ACACACAT--ACAATCCCT-------GTTGA-------------ATATTAAATAATCAGGA------TTTTGTGTGTGGACCTCAGATCATGTTCCAGGCC
droYak2 chr3L:17082640-17082734 + AAGAACTTTCTACAGGTCAGGA----------------TCACACAT--ACATTCCCT-------GTAGA-------------ATTTAATTTAATCAGGA------ATTTATGTGTGAACTTTAGATCATGTTCCAGGCC
droEre2 scaffold_4784:16851458-16851552 + AAGAATTTTCTGCAGGTAAGGA----------------TCGCACAT--ACAATCCCT-------GTCGC-------------ATTTTATGTAATCAGGA------TTTTGCGTGTGAACTTTAGATCATGTTCCAGGCC
droAna3 scaffold_13337:13625775-13625865 + AAAAACTTTCTGCAGGTGAGCA----------------GTTCA----------------AGCTTAGCGAGGTCTGTTCCAGTT-TCCTAACATTC----------TTCCGCTC-----CTTTAGATCATGTTCCAGGCC
dp4 chrXR_group8:4827167-4827262 - AAGAACTTTTTGCAGGTAAGCC----ATCACC------------AGCA-------TTGAAAGCCATTGA-------------AATGCGTCTAAATAGCAGTCT--CTCTCCTC-----CCACAGATCATGTTCCAGGCC
droPer1 gnl|ti|780630171:515-611 - AAGAACTTTTTGCAGGTAAGCC----ATCACC------------AGCA-------TTGAAAGCCATTGA-------------AATGCGTCTAAATAGCAGTCT--CTCTCCTC-----CCACAGATCATGTTCCAGGCC
droWil1 scaffold_180955:197087-197182 - AAAAACTTTTTACAGGTAAGCC----------------ACAACGAT--GAATGGCTCGAGGGAGATTGA-------------ACTCTATGTAATC-------TCTTCACTTTC-----TTGCAGATAATGTTTCAGGCT
droVir3 scaffold_13049:10166522-10166615 + AAGAACTTTCTGCAGGTGCGTT----CCCCCTGGCTGATCACATAT--GTCGTTT---------------------------ATACTATATTTT-CGCC------TTTTGCTC-----CTGCAGATCATGTTCCAGGCC
droMoj3 scaffold_6680:10629193-10629280 - AAGAACTTTCTCCAGGTGAGTT----ACGG-------TTCAC------ATAATTC----------TCGT-------------ATTCCAAATAACGAAAT------CTTTGTCC-----TTGCAGATCATGTTCCAGGCC
droGri2 scaffold_15110:9071735-9071831 - AAGAACTTGCTGCAGGTGAGATTTTGATCG-------ATTAA------TTAAGTC----------TGG--------CTCTCTTTGCTAAATATGCC--A--CT--TTTTGTGT-----TGGCAGATCATGTTCCAGGCC

dme-mir-4910 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:4817801-4817896 - GGGTGAAACAGGCAGGTTTGTATGGAAT---TCCATGAGCTT--------------------------CAAAGTAATGCTTCTAACTCTGTGGTTTTTC-ATA-----TTTCCCAGTGGCAAGAGCACCCA
droSim1 chr2L:4687585-4687681 - GGGTGAAACAGGCAGGTTTGTATGGAAT---TCCAGAAGCTC--------------------------CAAAGTAATCTTTCTAACTCTGCGGGTTTTCTATC-----TTTCCCAGTGGCAAGAGCACCCA
droSec1 super_5:2913658-2913754 - GGGTGAAACAGGCAGGTTTGTATGGAAT---TCCAGGTGTTC--------------------------CAAAGTAATCTTTCTAGCTCTGTGGTTTTTTCATA-----TTTCCCAGTGGCAAGAGCACCCA
droYak2 chr2L:4827662-4827759 - GGGTGAAACAGGCAGGTTTGTTTGGAAC---TCCACAAGAT-------------------------TTCAAGGTATTCCTTCTAACTCTGTGGTTTTTCCACA-----TTTTCCAGTGGGAAAAGCACCCA
droEre2 scaffold_4929:4898740-4898837 - GGGTGAAACAGGCAGGTGTGTATGCAAT---TCCAAAAGGT-------------------------CTCAATGTATTCCTTCTAACTCTGTGGTTTTTCTATA-----TTTCCCAGTGGCAAGAGCACCCA
droAna3 scaffold_12916:9386286-9386375 - GGGCGAGACCGGCAGGTGAGAATACAAT---TCTACAACCCA--------------------------TACCCTTGTTTTCA------TATCATTTTTT-CAA-----TTTTTCAGTGGCAAGAGCACCCA
dp4 chr4_group3:3567830-3567920 - GGGCGAAACAGGAAGGTGAGTGAGAAGCAAAT----------------ATGTATGCCCCAAGAAATCCTAACGA----------------TC--------ATATTTTCCCCTTCAGCGGCAAGAGCACACA
droPer1 super_1:5048029-5048119 - GGGCGAAACAGGAAGGTGAGTGAGAAGCAAAT----------------ATGTATGCCCCAAGAAATCCTAACGA----------------TC--------ATATTTTCCCCTTCAGCGGCAAGAGCACACA
droWil1 scaffold_180772:7924021-7924113 + CGGAGAGACGGGCAGGTAATT----AAA---ACCATAAGGTTACCTTAATGTATATTTAAAGTATTTAT-----------------------G---TACGATA-----TTTTGCAGTGGAAAGAGCACTCA
droVir3 scaffold_13246:521378-521407 + GGGCGAGACGGGC-----------------------------------------------------------------------------------------------------AGCGGGAAGAGCACGCA
droMoj3 scaffold_6500:7585086-7585115 - GGGCGAGACGGGG-----------------------------------------------------------------------------------------------------TCTGGCAAAACGACGCA
droGri2 scaffold_15252:16729554-16729583 - GGGTGAAACTGGC-----------------------------------------------------------------------------------------------------AGTGGGAAGAGCACACA

dme-mir-4914 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:2737553-2737676 + AGACGAGCCCACAACGTGAGTGA-GAGCGAGT------TCCAAT-----------------------GTGGTCC----------------------TCGAAACCAGTTGTGCTTCGATCAGATTCCAAAATTGACACATT--CCG---------------------------------ACCTTGAATCA-CCCACAGCGGATTGGACAGCTC
droSim1 chr2L:2697912-2698035 + AGACGAGCCCACAACGTGAGTGA-GAGCGAGT------TTCATT-----------------------GTGGTCC----------------------TCGAAACCAGTTGCGCTCCGATCAGATTCCAAAATTGACACATT--CCG---------------------------------ACCTTGAATCA-CCCACAGCGGCTTGGACAGCTC
droSec1 super_5:903635-903758 + AGACGAGCCCACAACGTGAGTGA-GAGCGAGT------TCCATT-----------------------GTGGTCC----------------------TCGAAACCAGTTGCGCTCCGATCAGATTCCAAAATTGACACATT--CCG---------------------------------ACCTTGAATCA-CCCACAGCGGCTTGGACAGCTC
droYak2 chr2L:2732711-2732833 + AGACGAGCCCACAACGTGAGTGA-GA----------GGTCCATT-----G-----------T-----GTGATCC----------------------CCAAAACCAGTTCTACTCAGATCTGATTCC-AAATTGACACATTCTCTG---------------------------------ACCTTGAATCA-CCCACAGCGGATTGGATAGCTC
droEre2 scaffold_4929:2790150-2790269 + AGACGAGCCCACAACGTGAGTGA-GA----------GGTCCATT-----------------------GTGGTCC----------------------TTGAAACCAGTTCCGCTCGGTTCATGATGCCAGATTGACACATT--CCG---------------------------------ACCTTTAATCA-CCCACAGCGGATTGGACAGCTC
droAna3 scaffold_12916:13439490-13439581 + GGACGAGCCAACAACGTAAGT--------------------------------------------------TCT----------------------CTGAAACCATTC----------CAATTTTCAAACTTATCAAGTT--G-----------------------------------TTAATGTCTTT-CACACAGGGGCTTGGATAGTTC
dp4 chr4_group4:2073904-2074060 + AGACGAGCCCACAACGTAAGTATCGAACGAGTGAGAGGACCA-GACCAG--AGGCAGCATCTGCGATGCGGTCGAAAAGAGAAGAGAAACCAGAGAGCTAAACCAGTTGCTGACT-----------------GACATTCC--ACA---------------------------------ACCTTGAACCATCCCACAGAGGCCTGGATAGTTC
droPer1 super_10:1078988-1079144 + AGACGAGCCCACAACGTAAGTATCGAACGAGTGAGAGGACCA-GACCAG--AGGCAGCATCTGCGATGCGGTCGAAAAGAGAAGAGAAACCAGAGAGCTAAACCAGTTGCTGACT-----------------GACATTCC--ACA---------------------------------ACCTTGAACCATCCCACAGAGGCCTGGATAGTTC
droWil1 scaffold_180772:1508923-1509021 + AGACGAGCCCACAACGTAAGTAA-TAACAAA------------------------------------------------------------------AAAGACCGGTTATTTCCT-----------------G---------TTAGCCTTGAACTTAACCAACATCTC-------------------AA-CCAACAGAGGCCTGGACAGCTC
droVir3 scaffold_12963:11356884-11356997 + AGACGAGCCCACAACGTAAGCAA-GAATAGAG------A------ATGCAATCAAT-----------G----------------------------CGGAAACCAGTTGCTGACT-----------------AACATGTG--CTTACCTTGAAATTG-----T---------------------AACCA-TTCGCAGGGGCCTGGATAGTTC
droMoj3 scaffold_6308:1548466-1548588 - CGACGAGCCCACGTCGGGCCTGG-------A-----C-TCCTTTACCGC--CCACAGC---------------------------------------GTC---------------GTCCAGGTGCTGAAGAAGCTA----------TCGCAAAAGGG-----CAAGACCGTCATACTGACCATACATCA-GCCATCG----TCGGAGCTCTT
droGri2 scaffold_15252:5474360-5474483 + GGACGAGCCCACAACGTAAGTGA-AA----------CA-CCGAAACACCA-----------C-----ACAATC------------------------GAGAACCAGTTACTGACT----AA------GCATTATTATTTT--TTAACCTTGAAATTG-----CATCGC------------------ATC-CATACAGGGGCCTGGACAGTTC

dme-mir-4916 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:9130478-9130566 - AAGTACTCAAGATAAG--TGGGT-GTTCTTG--GAAATTCGCC-TCGATCGGTAGCTAAA---------------------------------TTTCTGATTACTCCTAAAAGCCT-TTTGGATTGAGC
droSim1 chrX:7292594-7292672 - A---------GATAAG--TGGGT-GTTCTTG--GAAATTCGCC-TCGATCGGTA-CTAAA---------------------------------TTTCTGATTACTCCTAAAAGCCT-TTTGGATTGAGC
droSec1 super_68:18213-18301 - AAGTACTCAAGATAAG--TGGGT-GTTCTTG--GAAATTCGCC-TCGATCGGTAGCTAAA---------------------------------TTTCTGATTACTCCTAAAAGCCT-TTTGGATTGAGC
droYak2 chrX:17726636-17726725 - AAGTTCTCAAGATAAG--TGGGT-GTTCTTG--GAAATTCGCCTTCGATCGGTTGCTAAA---------------------------------TTTCTGATTACCCCTAAAAGCCT-TTTGGATTGAGC
droEre2 scaffold_4690:5984818-5984906 + AAGTTCTCAAGATAAG--TGGGT-GTTCTTG--GAAATTCGCC-TCGTTCGGTAGCTAAA---------------------------------TTTCTAATTACTCCCAAAAGCCT-TTTGGATTGAGC
droAna3 scaffold_13047:993021-993104 - AAAACCTGAGAATAAG--TGGGTAGTTCCGAGCGAAAGACTCC-TCCATCTTAA---------------------------------------CATCCATTT--CCCGTTCAGCCT-TTTGGATTGAGC
dp4 chrXL_group1e:1170761-1170857 + AGCTGCTCAAGATAAG--TGGGT----TCCG--CAGATACGTTTTTCCTCTGCAG-----------------------ACTCGAGAGTCTCTTTTTTTGGCTTTCGCCCACAGCCT-TTTGGATAGAGC
droPer1 super_30:24276-24372 - AGCTGCTCAAGATAAG--TGGGT----TCCG--CAGATTCGTGTTTCCCCTACAG-----------------------ACTCGTGAGTCTCTTTTTTTGGCTTTCGCCCACAGCCT-TTTGGATAGAGC
droWil1 scaffold_181096:7487008-7487059 + TTGATTACTACAT--------------------------------------------TGATTTCAACTTTCA---------------------T-----------TTGATAAGCCT-TTTGGATTGAGC
droVir3 scaffold_13052:1731753-1731829 + AAAATTTAAATAAATA--TATGT-GTAATTT--GAATACTGCC-TCGATGGTTAGCTACG---------------------------------TTTTTTA------------TTCT-TATGTACCTCTT
droMoj3 scaffold_6498:2397368-2397459 + TAATATTTGAAATTAGGCTTATT-GTTATTAA-TAAAGCCTCA-TTTTTCTGCA-CTTGG---------------------------------CTTTAAATTATTTTTCAAAATTTGGAGATATTGAGC
droGri2 scaffold_15203:7061820-7061918 + AAGAGCTTAAGATAAG--TATGT-GTTCCGT--GTGATAAAAG--GAATCTTCAG----A------------CAGCGAACT-GA---TCGCC-TTACTGAATCCG-CTTGCAGTCT-TTTGGATTGAGC

dme-mir-4919 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:11833377-11833466 + TGGACATACTAAATGGTGAGTCTC-----T--------------------AGGGGATTAGCAAGCTATAATT---------------------------------TCTCACTTAATCCCTGAACGACTTGCAGAGGCCGTTTTGGGTG
droSim1 chr2R:10571957-10572046 + TGGACATACTAAATGGTGAGTCTC-----T--------------------AGGGGATTAGCAAGCTATAATT---------------------------------CCTCAATTAATCCCTGAACGACTTGCAGAGGCCGTTTTGGGTG
droSec1 super_1:9333409-9333498 + TGGACATACTAAATGGTGAGTCTT-----T--------------------AGGGGATTAGCAAGCCATAATT---------------------------------CCTCACTTAATCCCTGAACGACTTGCAGAGGCCGTTTTGGGTG
droYak2 chr2R:17148711-17148800 - TGGACATACTGAATGGTGAGTCTC-----T--------------------AGGGGATTAGCAAGCCATGATT---------------------------------CCTCCCTTAATCCCTGAACGACTTGCAGAGGCCGTTTTGGGTG
droEre2 scaffold_4845:14024563-14024652 - TGGACATACTAAATGGTGAGTCTC-----T--------------------AGGGGATTAGCAAGCCATATTT---------------------------------CCACACTTAATCCCTGAACGACTTGCAGAGGCCGTTTTGGGAG
droAna3 scaffold_13266:11891001-11891093 - TGGACATACTGAATGGTGAGTTTACAAGTCG-------------------------GCACTAAT--------TTTTGAAGCGGGAATGTGAATATGA----------------------GCCGTAAATTGCAGAAGCGGTGCTGGGCG
dp4 chr3:18992460-18992549 - TGGACATCTTAAATGGTGAGTCTTCCATTCCAGTTCCTTTGCGTTTTGTC----------------------------------------------------------CACTGATTCACTCAAACTTATACAGAGGCCGTTTTGGGTG
droPer1 super_242:24174-24263 - TGGACATCTTAAATGGTGAGTCTTCCATTCCAGTTCCTTTGCGTTTTGTC----------------------------------------------------------CACTGATTCACTCAAACTTATACAGAGGCCGTTTTGGGTG
droWil1 scaffold_181150:1332685-1332769 - TGGACATAATAGCGGGTGAGTGAA---------------------------AGAGAT-ACGAGATTACAATT---------------------------------TG-GATTACATTTT-TGGTTGGTCGCAGAAACGTCAATGGGTA
droVir3 scaffold_12875:17265801-17265883 + TCGATGTGCTGAATGGTGAGCTTT--GCCTG-------------------AGTGGGTC--------------CACACC-----------AAATCCTAATC-----C--------------CATTTATTTGCAGAGGCTGTGCTGGGCG
droMoj3 scaffold_6496:10745157-10745258 - TCGATGTGCTAAATGGTAAGTCCC--ACTTC--------------------AGGCACTTCTAATCT-----------------------GAATATTAATACTCTTTCTTTCTCTCTCTC-TCCTGTCTTGCAGAGGCTGTACTTGGCG
droGri2 scaffold_15245:16779329-16779419 + TCGATGTTTTAAATGGTGCGTGCTTAACTTG-------------------------AAAGAGAT--------CTCACAAAT------------------------CCAATCTTAATTAAGTGATTCATTGCAGAGGCTGTTCTGGGTG

Present to simulans or sechellia

Canonical miRNAs

dme-mir-2281 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:10222106-10222238 - TCCAGTG-------------------------------------------------------------------------CATCCTACGGATGTCGAGCAGTACACGTA---TTATCTGCAG------CTGCAGATGCAAATGTATATGTATCTGTATCTG------TATCT--GCAGTAT-TGC-----AGTA-------TCGCTGCTTTATTCATATCCATG-------AGACGCGTCGCG
droSim1 chr3R:11233896-11234028 + GCCAGTG-------------------------------------------------------------------------CATCCTACGGATGTCGAGCAGTACTCGTA---TTATCTGCAG------CTGCAGATGCAAATGTATATGTATCTGTATCTG------TATCT--GCAGTAT-TGC-----AGTA-------TCGCTGCTTTATTCGTATCCATG-------TGACGCGTCGCG
droSec1 super_0:11818438-11818570 + GCCAGTG-------------------------------------------------------------------------CATCCTACGGATGTCGAGCAGTACTCGTA---TTATCTGCAG------CTGCAGATGCAAATGTATATGTATCTGTATCTG------TATCT--GCAGTAT-TGC-----AGTA-------TCGTTGCTTTATTCGTATCCATG-------TGACGCGTCGCG
droYak2 chr3R:16218838-16218961 + TCCAGTG-------------------------------------------------------------------------CATCCTACGGATGCCGAGCTGC------G---TTATCTGCAG------CTGCAGATGCAAATGTATCTGTATCTT--TCAG------TAT-T--GCAATGT-TGC-----AGTA-------TCTTTGCTTTATTCGTATCCGTG-------TGACGCGTCGCG
droEre2 scaffold_4770:9756449-9756546 - TCCAGTG-------------------------------------------------------------------------CATCCTACGGATGCCGAGCAT----C--G---TTATCTGCAG------CTGCAGATGCAAATGTA------------TCTG------TATCT--GCAGTAC-GGC-----------------------------TGTATCCGTG-------TGACGCGGCGCG
droAna3 scaffold_13117:2846333-2846460 - GTA----------------------------------------------------------------------------------------TCTCGAGATGCATCTGTAAGAGTATCTGCAT------CTGCAAATGTATCTGTATCTGTATCTGTATCTG------TATCT--GTATCTG-TGC-----AAGACTTGCCACCTCTCCTTTTCTCCTTTTCCTG-------AGCAAATGTCGC
dp4 chrXR_group8:8158458-8158593 + GCTAGTG-------------------------------------------------------------------------CCCACTACTGCCTTTGGCATGTATCTGTATCTGTACCCGTATCCGTATCCGTATCCGTTACTGTATCTGTATCTGTATCTG------TAGCT--GCTCTGAATGC-----AGTA-------TATA---TTTCATCAAATTTTTG-------TA----CTCGCA
droPer1 super_0:4124990-4125137 + GTAGGGGATCAGGCATGGCCAGGGGCAGCGGCAACGGCAGGGGCAGGGGCAGGGGCAGCTTTTCCAGGCT-------GTGCATCCTACGGATGGCAGGCTGTAC----------------------------------AACCGTATCGGCAGCCGTATCGG------TATCG--G---------------------------------------TGTATCTGTG-------TGACGCGTCGCG
droWil1 scaffold_181089:10073219-10073346 + CCTGGTAGAGAACGT-----------------------TGGGG--GAGGGGGGGGTTAGTTTTCCAGGCTCGCTGCAAAACATCCTACGATGTGAAAATTGT------G---A---------------------------AGG------------CTACTGAAA--GCG-GT--GCAATGC-GAG-----------------------------GAGAGCGACG-------CAATGCGACGCG
droVir3 scaffold_12928:2113057-2113188 + GTATCTATATCTGTA----------------------------------------------------------------------TATG------TATCTGT------ATCTGTATCTGTATCTGTATCTGTATCTGTATCTGTATCTGTATCTGTATCTG------TATCT--GTAT------C-----TATAT------TTGCTT----CTTTAAATCCGCCTCTTTCGAGACATTTATCC
droMoj3 scaffold_6654:2537235-2537365 + TTCAGTGAATCTGTATCTGTATCTGTATCTGTATCTG----------------------------------------------------------------------------TATCTGTAT------CTGTATCTGTATCTGTATCTGTATCTGTATCTGTATCTGTATCG--TATCTGT-ATC-----------------TGTATCTGTATCTGTATCTG----------TATTTGTATCT
droGri2 scaffold_14830:2155779-2155908 - GCGA-TG-------------------------------------------------------------------------TATCT--CGTATCTCGGCGAGTACGTCGC---------GCAT------CCGTATCTGCAAATGTATCTCTATCTATAGCTG------TATCTGAGCAATGTATGTAGTATAGTA-------TCTGTTGTT--GGGGTTTTCATA-------TTGCTTGTGCTG

dme-mir-3645 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:5516298-5516464 - AAACAAATCGATATGGTGAGTGC---AG-GC----------------TGTTTAT----------TGCGGCGCTGTTTACTGTTTACGATC------GCACTGGAAGTGCGCTTTCCGGCGCCTTTGGAAGCCAG-----------------------------------------CACTCAAGTTTCCTTCATTGTTTTCCTTTCTTTCCCCTCTCTCTCTC------C---CCGCAGGCAGCTTATACCGAG
droSim1 chrX:4275639-4275796 - AAACAAATAGAAATGGTGAGTGC---AG-GC----------------TGTTTAT----------TGCGGCGCTGTTTACTGTTTACGATC------G---------TGCGCTATTCGGCGCCTTTGGAAGCCAG-----------------------------------------CACTCAAGTTTCCCTCATTGTTTTCCTTTCTTCCCCCCCTCTCTCTC------C---CCGCAGGCAGCTTACACCGAG
droSec1 super_4:1240682-1240837 + AAACAAATAGAAATGGTGAGTGC---AG-GC----------------TGTTTAT----------TGCGGCGCTGTTTACTGTTTACGATC------G---------TGCGCTATTCGGCGCCTTTGGAAGCCAG-----------------------------------------CACTCAAGTTTCCCTCATTGTTTTCCTTTCTTTCC-CCCTCTCTCA-------C---CCGCAGGCAGCATACACCGAG
droYak2 chrX:2953226-2953406 + AAACAAATCGATATGGTGAGTGC---AG-GC----------------TGTTTAT----------TGCGATGCTGTTTACTGTTTACAACCGCTTTCGCACTGGAAGT-CGGTTTTCGGCGCCTTGGAAAACCAA-----------------------------------------CACTCAAGTTTCCTTCTTTGTTTTCCTTTTCTCTCCCTCTCTCTCTTTCTCTCTCTGTCGCAGGCCGCTTACACCGAG
droEre2 scaffold_4690:2867616-2867787 - AAACAAATCGATATGGTGAGTGC---AG-GC----------------TGTTTAT----------TGCGGCGCTGTTTACTGTTTACGGTC------GCACCGCAAGT-CGCTTTTCGGCGCCTTGGAAAACCAA-----------------------------------------CACTCAAGTTTCCCTCTTTGTTTTCCTTTCTTCTCCCTCTCTCTCTCACTCTCT---TCGCAGGCAGCTTACACCGAG
droAna3 scaffold_13117:2022234-2022400 + AAACAAATCGATATGGTAAGTGCGTGAA-GTAGGCAACATGACACTTTGTATAT----------TTGACAACAATTGAATGTTTACGGG--------------ACCTC--CTATTTCCCGC-TTCGGCAGCAACGA-TG-----------ACGACGAC-----------------GACTCATGTTTTCCT--TTGTTTTGTTGTT---------------------------TTTCAGGCAGCTTACACCGAG
dp4 chrXL_group1a:8129365-8129509 - CAACAAATCGATATGGTAAGTGGGCTGA-AC----------------AGTA-AT------------TGATATCGTGGCCAATATATAGCCGCT-ACGTATCGTATG---------------------------------------------GCTTTTCCACTGAGTTTTGCTGGGAGCTAATGTGTTCTT--TTGTT--TGG-T------------------------T---TTACAGGCAGCTTACACCGAG
droPer1 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12928:4987995-4988105 + T---CAATCAATATGGTAAGTTGGCCAAAAT----------------TGTT-GTTGCT------TTT------------ACGACACGTACATT-GTTTAT--------------------------AGTGTGTTTATTCTTGCTACTTT--------------------------------------------------TGC-A------------------------T---TTACAGGCAGCTTACACCGAG
droMoj3 scaffold_6359:3485302-3485418 + -------TCAATATGGTAAGTTGGC-ACAGC----------------TGTT----------------------------------------------------------GCTATT-----TTTTAGAGAGCAAATA-ATATGTTTCGTTTGTTTTTACAATTG----------------------------------------TTGTCTTTTTCTCTTGTTA------T---TTACAGGCAGCATACACCGAG
droGri2 scaffold_14853:9687493-9687620 + CATTAAATCAACATGGTAAGTTGTATAA-AT----------------CTATTTTTGCAGCTATCTGCAGCATTGTGTGCACTATATACACATT-AAT----------------------------GAGTGTAATAA-TTTTGTTGTTTT--------------------------------------------------TGT-T------------------------T---TTACAGGCAGCTTACACCGAG

dme-mir-4940 three_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:9137677-9137812 + CCAGACTCAGACGGACTTA----TCGCAA----CTTATCGAT------CGGGTGGCGGATATA----------GATCA-----------------TTGGTT---------------------------------------------------------------------------------------------------------------ATCCCTTAATTAAAGC--------AAACAAGATTTGTTTCGGCCGCCC--GATTTTACATACAACGAC-----------------ACGAATAGCAGG-----------------------------ATAT-AG
droSim1 chr3L:8545595-8545743 + CCTGACTCAGACGGACTTA----TCGCAG----CTTATCGAT------CGGGTGGCGGATATA----------GATCATAGCAAGCCCTATCGAATTGGTT---------------------------------------------------------------------------------------------------------------ATACCT--ATTAAAGC---------AACTAGGTTTGTTTCGGCCGCCC--GATTTTACATACAACGAC-----------------ACAA-TAGCAGG-----------------------------ATAT-AG
droSec1 super_0:1396669-1396817 + CCTGACTCAGACGGACTTA----TCGCAG----CTTATCGAT------CGGGTGGCGGATATA----------GATCATAGCAACCCCTATCGAATCGGTT---------------------------------------------------------------------------------------------------------------ATACCT--ATTAATGC---------AACTAGGTTTGTTTCGGCCGCCC--GATTTAACATACAACGAC-----------------ACAA-TAGCAGG-----------------------------ATAT-AG
droYak2 chr3L:2783249-2783373 - CCAGACTCAGACGGACTA-------GCAA----CTTCGCGAT------CGGGTGGCGGCTGTA----------GATT-------------------------------------------------------------------------------------------------------------GT-----------------CCTTGT---------ATCAAAGG--------AAAAGAGATTTCTTTTGGCCACCC--GATTCAAAATACAACGAC-----------------ACAA-TAGCAGG-----------------------------ATAT-AG
droEre2 scaffold_4784:4908876-4909031 - CCTGACTCAGACGGACTA-------GCAA----CTTATCGAT------CGGGTGGCGGATATACCCGTGCACAGATTGTAGCACACCCTATCGAATTGGAA---------------------------------------------------------------------------------------------------------------TTCCCC--ATTAAAAC--------TGAGTGGGCTTATATCGGCCGCCC--GATT-CACATACAACGAC-----------------ACAA-TAGCAGG-----------------------------ATAT-AG
droAna3 scaffold_13337:19535893-19536018 + CACTGCGATCTCGAGTACT----TT-GATCTCTCTTCTCAGGGCCCC-AAAAAGTATGCTAT-------------------------------------------------------------------------------------------------------------GA-------AAT-ATTTCGTTTGC--------------------------TAAAGTG--------TTTCAAGGATTCTTTTGCGAGCCC--ACCT------------CA-----------------AGGA-TGTCAAA-----------------------------CTCT-AG
dp4 chrXR_group5:393309-393508 - C-AGACTTAGACGGACTTCAATCTAGCAG----TTTAACGAT------CGGGAAACGGGAATA----------AACCAAAGT---------------------------------------------------CGGCAGCCTATCCATCAAAATTCCAATATAATCACAACAGAAA-----TC-CAATTTGTTGC----------------------------------------------TGGTTTATTTACGTTTCTC--GAGC-CACATACAACGAC-----------------ACAA-CAGCAGGTCTTCAGATAACTCATATGAAATATACTTATGC-GG
droPer1 super_9:3484001-3484112 - GCATACATAGGCATCGCA----------T----CC---------------------------------------------------------------------------------------------------------------ATCGGGGTCAC---------CCGGTGGAGGATAAA-TTTTGC-----------------GGTGGTAACCCCGCAACACAAGC--------A--------------------------CTCACACACACAGCGAC-----------------CCAA-ACACGTG-----------------------------CAATAAC
droWil1 scaffold_181096:6035694-6035827 - TCAGGCCTAAAATTAGTTG----CCATAA----CT-CTCATT------TATATAGTAGATTTG----------ATGCTTTTT-----------------------------------------------TGTT----------------------------------------------------------TTTT---------------------------TAATAT---------ATTAAAATTTTTATTA-------------ATGCATTTCA--GTGTAAAAATTAAAATGACACATTTTTCCTT-----------------------------ACGT-AA
droVir3 scaffold_13246:101577-101715 - CAGG---CAGACGAAAGTA----TCTC-----------CGAC--CC--CATGAAGTGTATATA------------TTC-----------------TTGATCAGCATCAATAGCTGAGTCGATGTAGCCATGTCCGTCTGCC----------------------------------------------------------------------------------------------------------TGTCCGTCCGTCC--GTCCGTATGTATGA--ACGCA--------------AGGA-TCTCAGA-----------------------------ACCT-TT
droMoj3 scaffold_6540:2381798-2381917 - GTAGATTCAGTTGTACTTT----ATAGAA----TT--TCGAT-----TTA---------------------------------------------------------------------------------------------------------------------TGTTAA-------AAT-TCATCCCTTAC---------------------------CAATAT---------ATATGTGTT-TTTTCAAATGCATGCATTT-TAATGGTATCAAC-----------------ACAATTTGAAAG-----------------------------TCTC-AT
droGri2 scaffold_15074:3698733-3698860 + CTGAACATAACTGAATAAA----TT--------------------------------------------------------------------------------------------------------------------------------------------CACAACAT-------ATT-TAGTCAGTTACTTATGTATATACT----------TGATACAATTGTGCAAACATGCAAAATTCCAATTAAATGTCA--CAATATATAAAAACTG----------------------A-TGCGAGA-----------------------------AGAT-TG

dme-mir-4946 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:18867030-18867176 - TAAAAATAAAA----AAATG-------------CTC-----------------GATTGCTGCAA-----------------------------------------CTAAGAAACA--AATATTTTCAGTTGTTCAT----TGCAAATTAATTTA---TGTACATTGCTAT---------------GAAATCAATTGAAAATATAAT---TGTA--------------------TCCTAGGCTTATCAGCT-GCAATGCCTCTATGAAGGG
droSim1 chr2L:18557325-18557471 - TAAAAATAACA----AAACG-------------CTC-----------------ATTTGCTGCAA-----------------------------------------ATAAGAAACA--AATATTTTCAGTTGTTCAT----TGCAAGTTAATTTA---TGTACATTGCTAT---------------GAAATCAATTGAAAATATAAT---TGTA--------------------TCCCAGGCTTATCAGCT-GCAATCCCCCCAAGAAGGG
droSec1 super_7:2494148-2494294 - TAAAAATAACA----AAACG-------------TTC-----------------ATTTGCTGATA-----------------------------------------ATAAGAAACA--AATATCTTAAGATGTTCAT----TGCAAATTAATTTA---TGTACATTGCTAT---------------GAAATCAATTGAAAATATAAT---TGTA--------------------TCCTAGGCTTATCAGCT-GCAATCCCCCCAAGAAGGG
droYak2 chr2R:5382904-5383074 - TAAAAATAACA----AAGCA-------------TAT-------------TAGCATATGCTGCAA-----------------------------------------ACAATAAATA--AATATTTTCAGCTGTGCAT----TGCAAATTAATGTA---TTTACATAGCTAT---------------GAAAGCAATTGAAACGACAAT---TGCAGGTCATTTTTATTGCACACATCCTAGGCTTATCAGTG-GCAATGCCCCTACGAAGAG
droEre2 scaffold_4845:5409251-5409398 + TACAAGTAACA----AAGTG-------------CTA-----------------ATTCGCTGCAA-----------------------------------------ATAGGAAATA--AATATTTTCAT------------------------TATTAT-CACATTGCCA----------------GAAACCAATTGAAAAGATAAT---TGTAGGCCACTTTTGTTGCACGCATCCTAGGCTTATCAGCT-GATATGCCCCCACGAAGGG
droAna3 scaffold_13334:1096999-1097137 - TAAATATTTTT----AAGTA-------------ATT-----------------AATTG-----------GGCTACTG----------------------------GCTTTAAAAAATAATATTTTCAAATGTTATT----GGTAATTTAATTTT---TTTATAATTTT-TAAA------------TACATTTTTTTAAACTAAAATCCTTGTT--------------------TTCT----------------GCTTCCTTT--TCAGCT
dp4 chrXR_group6:8932576-8932713 + TTAAAATAAAA----ACATT--------------TC-----------------ATATTTAAATT-ACAAGGTTTTAT----------------------------ATTTTAAATA--AATAT------------ATTTCCCACAAATTAAAGAT---AATATATTTATTT---------------TAAAGTAATTTATAATTAAAT---TGAA--------------------TATGGGCCCTA----C---------TACAAAGACTTT
droPer1 super_1:5889084-5889218 + GATAGGTT---------------------------T-----------------TTGCAACACAA-----------------------------------------AAAATAAACA--AAGATTAGTTTCCAGTTAT----TAAATATTAATATA---TATATTTGAAGCA---------------GAAATATGTATATTTTAGAAT---CGTT--------------------TCTGTGGGGTTTTCATT-GCAATACCTTT--TATGAA
droWil1 scaffold_180698:8557325-8557469 - ACCAAAGAGAA----ATATCTCAAACTCAAACTCACAAACAAGACACATCAGCGC--------------------------------GCAAGAGCAACAACGCAAAGAACAAT--------------------------------------------TAAACAATTCTAT---------------TAAATTGATCGAAAATATAAA---CATT--------------------TCA-CAGCATAACAACA-ACAAA-----AGAAAAGGA
droVir3 scaffold_12855:7203873-7204022 + TGAAAATGAAT----AAATA-------------TAT-------------------ATGCTCCAATTAAAATTGAAACTACTATCCGAT--------------------------------------CGAAGGTCTT-TG-TTCAAATTCATTTG---A--GGGGTTTTTC---------------GCACTTTTTGGAAAATCCATC---ACTC--------------------CCCGATGGAAATGGGCT-TCAATGACTTAGTGGGTGG
droMoj3 scaffold_6500:29247639-29247782 - GGCCAATTAAC----AAACG-------------CAC-------------------GTGCAGCAG-----------------------------------------CTACAACAGC--ATCGTGTGCACACATACAT----TCAAACT-TCTTCT---GGAACATTCTTTTAATCACATCAGCTGTTAGTTTGGTTTAGTTTTGGTA---GATG--------------------G---------CGCTGCA-G------CACTGAATCTAT
droGri2 scaffold_14853:9426729-9426870 + TCCACAAAGATATCAAAATC--------------TC-----------------AGATACTGCTT-GAAAGTTGACAT---------------------------------------------TT-----CCCTCAT----AGAATA-TCCTTTA---TGTACAGTAATAT---------------GAGT--GTTTGTATTTGAAGTCT-TCTT--------------------TTTCATCGTCATTTATCTCCATCCTCTCTTTGACTGC

dme-mir-4950 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:3277158-3277280 + TTTATACATTTG--TTTAT-----------------------AATGCACATAATAAATGCCAACC------ATTCATCATGA-AATTATAAATAGTAT--CATTTCAAGATGCATGG-TAAG-GCTT------TATTTT---------------------------------------------G--------TTTTGCA---ATCAAAGACATCTTTCTT
droSim1 chr3R:3321450-3321569 + TTTATATATATT-ATTTAT-----------------------TATGCTCAGCATAAATGCCAAGC------ATTCGTCGTGA-AATTATAAATTATATATTA--TATAAATTCATGG-TAAG-GCTT------CATTTT---------------------------------------------T--------TAACGCA---GTCTAAGACATC----TT
droSec1 super_6:3368064-3368189 + TTTATATATATT-ATTTAT-----------------------TATGCTCAGCATAAATGCCAAGC------ATTCGTCGTGA-AATTATAAATTATATATTATTTCTAGATTCATGG-TAAA-GTTT------CATTTT---------------------------------------------G--------TAACGCA---GTCTAAGACATCTTTCTC
droYak2 chr2L_random:3663454-3663574 - TTTAGCCAAGTT-A-ATT--------------------------TGGTAAAAACAAAAACCAGAA------ACCGGCTACAC-GATGAAACGCTAAATGCCATTTTAGCAGTC--AG-GTAATTATA------TATT--------------------------------------------------T--AT-TTTTAAA---TTTAAACCCATTTTTTAT
droEre2 scaffold_4784:2237866-2237984 - TTTCCAAATTTG-A-ATGC---AGA-TTTTT------------------AGACAATTGCTCCAGA------AACATT------------TAGAGGTATGCCACTTCAAAATACGA----TAATTGAAGGTTGAATTATG---------------------------------------------G-----AC--TTTAG----AACTTCAGCCTTCTTTTT
droAna3 scaffold_13340:2198726-2198841 + TTAATAATTTTA--TTTAT-----------------------CGAAC------TAATT-AGGCTT------TTCATACAGATTTAAGCTTAATATTAAATTA--TAG-------------------------------------------------------AGCACTGGCTGCGGTGGTATATA--T--AT--TTTTC----AATAAACACATTTTTATG
dp4 chrXR_group6:912830-912970 - TTTATACCACGC--ACTAGATTGGGTTCTCCAGATAACGAATGTTGTCCAGTAAAATCCCAATCCATTCAAATGGATTATGT-GACCA-------------GTGTTAAGATGCGTCG-AGGG-CAGT------CAGCTT---------------------------------------------G--------TGTTGCT---ATCTCGCTCCCCTCCGCC
droPer1 super_3:249021-249147 + TTTTAAATCTGTTCCCTAAAATATACTTTTTGAAC------------------GAG-------------------------A---------------------------------------G-AGTA------TATATGTATGTATGCCGAGCAACTTCTAGTACCCCCTACTCAAT-A----TGTTTTTTTTTGGCTTAGTAAAATAATACATCTATATC
droWil1 scaffold_180708:152570-152690 - TTTATATATATA-T-ATAT---GAT-GTAGA---TATA---TATTTTTTAT----ATTTAAATTTTT----------------------TTAAAGTGA--TTTTTGTCAA-GGCTAG-AAAA-GCTT------TATTTT-------------------------------------------TTGTTT-----TGTTTTA---GTTTATGCGATATTTCTT
droVir3 scaffold_135:841-956 - TATATATATGTG-A-ACAT---AAC-TTATA-------------------TAATA------------------------------------CATATGA--CATACTGCCAGAC--AAATAAA-CGTA------ACTATTTATGTTTGAA-------ATCAAGATCACCAAAATAAATGATGATTT--T--AT--TT--------------------TACAA
droMoj3 scaffold_6308:1934837-1934961 - TTTATATATTAT-A-AAAA---AAA-T-----------------TACTTAAATTAAAGCTTAGGA------AATATTTGTAT-CCATAAAAAATATGA--TATATTTTTATGCATGG-TAAA-TTTA------ATTTTT---------------------------------------------A--------ATTTCTA---ATAAAAAAAATTATATAT
droGri2 scaffold_14906:7885716-7885837 + ATTATTATTTTT--TTTTT-----------------------A--TTTCAAGTTAATTTACAATT------ATCGAACCGGT-TAAACTAAATTTTAGCTTA--TAGATATTTATTG--------------------------------------------------------CTTAATTAACTGTTTTT---TTTTGTT----GTTAAAACATTTTTTTT

dme-mir-4960 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:463920-464051 + TGGAGTGACCAGCACAACACAAGGCCTGCCGCCCAAGAA----------------------------------------------------------------------------------------------------------------------ACGCAAGCCCAGAAGTCCGGCAGTC----------------GAGAA----------------------TCACGAGGGACTGG-G------ACCTTGGGCTTACGGTTCTCAGTTTGGCTTGACATGCATCAGCATCAT
droSim1 chrX_random:776904-777034 + CGGAGTGACCAGCACATCACAAGGCCTGGTGCCCAAGAA----------------------------------------------------------------------------------------------------------------------ACGCAAGCCCAGGAGTCCGGCAGTC----------------GAGAA----------------------TCACGAGGGACTGGGG------CCT-T-GGCTTACGGTTTTCATTTTGGCTTGACATGCATCAGCATCAT
droSec1 super_10:310837-310968 + CGGAGTGACCAGCACATCACAAGGCCTGGTGCCCAAGAA----------------------------------------------------------------------------------------------------------------------ACGCAAGCCCAGGAGTCCGGCAGTC----------------GAGAA----------------------TCACGAGGGACTGGG-------GCCTTGGGCTTACGGTTTTCATTTTGGCTTGACATGCATCAGCATCAT
droYak2 chrX:383437-383616 + TGCAATGCCCACCACAACACAAGGCCTGATGCCCGAGAAT-CGGTTTATTTCCTCCTCT------------------T-------------------------------------------------------------------------------CCGCAGGCCCAGGAGTCCGGCAGTC----------------GAGCAGTCGAGCTGTTCACCCGGTCAGTCCTT-GGTCCTTGGTCCTTGGGCCTTGGGCTTTCGGTTTTCAGTTTGGCTTGACATGCATCAGCATCAT
droEre2 scaffold_4644:409107-409303 + TGCAATGACCCTCACCACACAAGGCCCGATGCCCGGGAAT-CGGTTTATTTCCTCTTCT------------------T-------------------------------------------------------------------------------CCGCAGGCCCAGGAGTCCGGCAGTCCGACAGTCCAGCAGTCCGGCAGTCGAGTTGTCGAGTAGTCCAGTCATGAGGGGCTGGGGCCTTGGGCCTTGGGCTTACGGTTTTCAGTTTGGCTTGACATGCATCAGCATCAT
droAna3 scaffold_12929:357992-358198 + TGGAATGACC---ACAGCAGAAGGCCTTCTGCCAA-GACTTGGGTGTAGATATGAGTGTGTGTGGGTGTGGGTGTGTTTT--GGCCAGAATATGGTGGGTGATTGTGCAGGGAGGCGTGGCAGATGGGGG-GGCG-------GAGGATGAAGAAGAAGCAGTAGCAGAGGAG--------------------------------------------------------------------G------CCTTTGGGGTTTCGGTTTTCAGTTTGACTTGACATGCATCAGCATCAT
dp4 chrXL_group1e:196231-196421 + TGGAATGACC---ACGGCACAAGGCCT--TG-CCAAGACT-TGTTTTATTTTTTGCTGA------------------TTTGGGGGCAGGAACT-GTAGGTGCCT--GCCGCGCGGGGAAGTAGAAGGGAAAGGCGTGGCTGCGAG---GACGCAGGAGGCTT-------------CGCAGGA----------------GAG--------------------------------------AA------CTTTTGGGGTTTCGGTTTTGAGTTTGACTTGACATGCATCAGCATCAT
droPer1 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_180777:2769923-2769983 + CAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGGATTGACG------CCTTTGGGGTTTCGGTTTTCAGTTTGACTTGACATGCATCAGCATCAT
droVir3 scaffold_12970:10710181-10710231 + G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TG------CCTTTGGGGTTTCGGTTTTCAGTTTGACTTGACATGCATCAGCATCAT
droMoj3 scaffold_6473:10704148-10704209 - GGGG--------------------------------GGCTTGGG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TG------CCTTTGGGGTTTCGGTTTTCAGTTTGACTTGACATGCATCAGCATCAT
droGri2 scaffold_14853:6069294-6069344 - G----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TG------CCTTTGGGGTTTCGGTTTTCAGTTTGACTTGACATGCATCAGCATCAT

dme-mir-4965 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:16500125-16500242 + GTATTCGCAGTAC-AAGCACAAGGTGATCGATGGGAGATGA----GCGCCTGA--TGTGATGATGAAGTAGATCGATCACACCAC--ACACTCACTCA--------------------------CCCAGGTTTCATCCATACAAATGTGTTTG
droSim1 chrX_random:4339044-4339160 + GTATTCGCAATAC-AAGCACAAGGTGATCGATGGGAGCTGA----GCGCCTGA--TGTGATGATGAAGTAGATCGATCACACCAC--ACACTCACTCA--------------------------CCCA-GTTTCATCCATGCAAATGTGTTTG
droSec1 super_17:323461-323577 + GTATTCGCAATAC-AAGCACAAGGTGATCGATGGGAGCTGA----GCGCCTGA--TGTGATGATGAAGTAGATCGATCACACCAC--ACACTCACTCA--------------------------CCCA-GTTTCATCCATGCAAATGTGTTTG
droYak2 chrX:10606276-10606397 + GAATTTAGAATAA-AAACAAAAGGTGATCGATGGGAGCTGACCTTGAGCCTGAGCTGAGATGATGAAGTAGATCGATCACAC-AC--TCACTCACTCA--------------------------CTCA-GTTTCATCCATGCAAATTTGTTTG
droEre2 scaffold_4690:6858711-6858812 + CCC-----AATAA-AACCAAAAGGTGATCGATGGGAGCTGA----G--CCTGA--AGTGATGATGAAGTAAATCGATCACA-------CACTCACT------------------------------CA-GATTCATCCATGCAAATTTGTTTG
droAna3 scaffold_13337:17013621-17013746 + GAAATCTCAGCAGCAAGCTCAG-CGGATCG---GGTGTTGG----A--GGTGG--TCTGCCATTGACGAAGAGCAACAGCACCAA--TTCCTTCC---AGGAGCATAGCGCTCCCAAGC----------GTCGTCCCAGTATGGGTGCCTTGG
dp4 chrXL_group1a:8134511-8134553 - ACT------------------------------------------------------------------------------CCAC--ACACACACACA--------------------------CACA---GACAGACATATAAAGGA-CATG
droPer1 super_5:779941-779973 + ACACTCGCACTCC-C---ACAAGAAGAGCAGCAGTAG--------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_180698:6476640-6476654 + ATTT------------------------------------------------------------------------------------------------------------------------------------------GAATGTGTGTG
droVir3 scaffold_13042:4246856-4246902 - CAC-----------------------------------------------------------------------------AC-ACACACACACACATG--------------------------TACAGCTTTCACTCATGCATATTTGTT--
droMoj3 scaffold_6500:26586811-26586907 + GCATTTGCACTG------------------CTCGAAAATGA----GCAATTGC--AAAGATCATTG-----------CACA---A--TACATTGC---AGAGAAATACTGCACAAAATAATTTAGTTA-ATTT------------TAAGTTGA
droGri2 scaffold_15245:5234538-5234618 - GCAAAATGAACAC-----AAAAACTGTTG------------------------------------------------CATACCAC--ACACTAACTG--T--AAATATCA--------------CATTTTTATTATTCTTATAATTATTAATA

dme-mir-4966 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19452387-19452544 + GTTTCCAGGACATTGAGCTGTGTGACAACAAACTTGTCGGCACTGGAGTACTAAATA--TATTGCACATGTTCATGC----------ATGTTCAACATATTTAGCACTCAAGTACCGAA--------------------------AAATGAACAACGAAACGAAAAATAACACG-AA---CATCATGCTGCCCATTATAT
droSim1 chrX:15018266-15018398 + ACTTTGTCGG------------------------------CACTGGAGTGCTAAATA--TATTGCTCATGTTC--------TCATACATGTACAACGTATTTAGCACACGAGTACTGAA--------------------------AAATTAACAACGAAACGGTTG--AACTCGGAAGTGCAATATTGAGTTTTTGATTT
droSec1 super_8:1734644-1734797 + GTTTCCAGGACATCGAGCTGTGTGACGG------------CACTAGAGTACTAAATA--TATTGCACATGTTCATACATGTTCATACATGTAAAACATATTTAGCACTCAAGTACCGAA--------------------------AAATGAACATCGAAACGGGAG--AACACG-AG---CATCTTGCTACCCATTATAT
droYak2 chrX:11886103-11886223 - GTTTCCGGGACTTCGTACTGTATGACAGA---------------------CTATATATACAA-------------------TACGAAGCCTCTGAAATTTTCTGCGCTCAAGTACCAAAAACTACCAGCA-------------------AACCAACGAAACTGGAG--AACTACGGA---CGGCA---------------
droEre2 scaffold_4690:9688657-9688714 + GTTTCAGGGACTTCGCACTGTATGACAA-------------------------------------------------------------ACTATAAATTTTGTGCACTCAAGTACCAAA---------------------------------------------------------------------------------
droAna3 scaffold_13417:2468043-2468174 - GTTTCCGGGATCTCGTACTGTATGAAGTT---------------------TTCTATATACAA-------------------TTCGAAAACTCAGAAACTTCCTGCCGTGAGCTACCATTGATCAACGGCTGAGTATGCGACCGGAAAGGGGACGCGAATGCGAGGACTAA----------------------------AG
dp4 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-4967 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:5899582-5899719 - CATAGATATGGC--TAACTATAGCGTTGTCTCTTGCGCAAATTGCATTTTC---------TCTCTGTTAACATGTACACATAATTCCTGTAACAAAGGGCATTT-----GCAA--TGTGTGAGTCAGCAAA--CCGCATCCGCTTCCCGGC-CCCTCCT
droSim1 chr2R:4528976-4529111 - CGAGGAAATAGC--TAACTATAGCGTTCTCTCTTGCGCAAATTGCATTTTC---------TCTCTGTAAACATGTACACATAATTCCTGTAACAAAGGGCATTT-----GCAA--TGTGTGAGTCAGCAAA--CCGCATCCGCCCC-C--CGCCCTCCC
droSec1 super_1:3512309-3512447 - CGAGGAAATATCTTTAACTATAGCGTTCTCTCTTGCGCAAATTGCATTTCC---------TCTCTGTAAACATGTACACATAATTCCTGTAACAAAGGGCATTT-----GCAA--TGTGTGAGTCAGCAAA--CCGCATCCGCCCCTC--TGCCCTCCT
droYak2 chr2L:18527608-18527740 - CGGGAAACTCG-----ACTATAGCGTTCTCTCTTGTTTAAATTGTATTTTC---------TCTCTGTTAAAATGTACACATAATTCCTATTTCAAAGGGCTTTG-----GAAA--AGTGTGAGTCAGCAAA--CCGCATCCGCCCG-A--TTTCTTCCT
droEre2 scaffold_4929:8470755-8470887 + CGGTAAATTCG-----ACTAAAGCGTTCTCTCTTGCTTAAATTGTATTTTC---------TCTCTGTTAACATGTATACATATTTCCTGTAACAAAGGCCATTG-----GAAA--TGTGTGAGTCAGCAAA--CCGCATCCGCCCC-C--TTTCTTCCT
droAna3 scaffold_13266:17255662-17255760 + TGCTATA-TATCTGTACCTATA----------------------------------------------TGTATGTACGGGTG-TTTATGTAACAAAAGGCATTTTGGTGGAAA--TGCGTGAGTCAGCGGA--CCGCATTAT-------GC-CCTTTGT
dp4 chr3:6114287-6114365 - C-------------------------------------------------------------TCCATCCATATGTAC--------TTTATAACAAAGGGCATTT-----GGAATATGTGTGAGTCAGCACATGCCGCATCCGTG-----GC-CCCTTCC
droPer1 super_2:6317550-6317666 - TTTTGACA--GC-----TTTAAGCGTTCC----------------ATTTCCATTCACGAACCTCCATCCATATGTAC--------TTTATAACAAAGGGCATTT-----GGAATATGTGTGAGTCAGCACATGCCGCATCCGTG-----GC-CCCTTCC
droWil1 scaffold_180700:5327370-5327375 - CCC---------------------------------------------------------------------------------------------------------------------------------------------------------TTT
droVir3 scaffold_12875:417241-417243 - CCT------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6496:5073155-5073192 + GAGACACTTA-------------------------------------------------------------------------------------ACTCCGTTC-----ACCT--TGTGCGA----------------------------C-TCCCTAA
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-4972 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:3636951-3637088 - CACTTGCATGGCATAAATCAAAAGCGCCGTAGGCCT-CCACCTCG--------------GC---------------------------------------------------------------------------------------TTTACAGATATATATATATATATCGTGTATATATCTGTGCGATCGGG-A-TTGAGACTGAGGTTGGT-----CCGAG-TACTTTTGTGGCCA--TTTACACC
droSim1 chr2L:3596396-3596533 - CACTTGCATGGCATAAATCAAAAGCGCCGTAGGCCT-CCAACTCG--------------GC---------------------------------------------------------------------------------------TTTATATATATGTATATATATCGTGTATATATATCTGAGAGATCGGG-A-TTGAGACTGAGGTTGGT-----CCGAG-TACTTTTGTGGCCA--TTTACACC
droSec1 super_5:1737908-1738045 - CACTTGCATGGCATAAATCAAAAGCGCCGTAGGCCT-CCACCTCG--------------GC---------------------------------------------------------------------------------------TTTATATATATGTATATATATCGTGTATATATATCTGAGAGATCGGG-A-TTGAGACTGAGGTTGGT-----CCGAG-TACTTTTGTGGCCA--TTTACACC
droYak2 chr2L:3630931-3631061 - CACTTGCATGGCATAAATCAAAAGCGCCGTAGGCCT-CCAACTCG--------------AC---------------------------------------------------------------------------------------TATATATGTATATATATA-------TATATATATCTGTGAGATCGGG-A-TTGAGACTGAGGTTGGT-----CTCAG-TACTTTTGTGGCCA--TTTACACC
droEre2 scaffold_4929:3675838-3675960 - CACTTGCATGGCATAAATCAAAAGCGCCGTAGGCCT-CCACCTCA--------------GC---------------------------------------------------------------------------------------TATATATATATGT---------------GTGTATCTGTGGGATCGGG-A-TTGAGACTGAGGTTGGT-----CTTAG-TACTTTTGTGGCCA--TTTGCACC
droAna3 scaffold_12916:5691742-5691836 - CACTTGCAAGGCATAAATCAAAAGCGCCGTAGGCCT-CCGCCACT------------------------------------------------------------------------------------------------------------------------------------------------ATGAGT-C-TGGAGTCTGGTGATGGT-----GGAGT-GCCTTTTGTGGCCA--TTGGCACC
dp4 chr4_group3:5095808-5095886 + CACTTGCGTGGCATAAATCACAAGCGCCGCAGGCCT-GAGACTT-TGGAGTTTTTTGTGGCACAG-------------------------------------------------------------------------------------TGTGTGT--GTG----------------------------------------------------------------------------------TGTGTG
droPer1 super_1:6587322-6587402 + CACTTGCGTGGCATAAATCACAAGCGCCGCAGGCCT-GAGACTT-TGGAGTTTTTTGTGGCACAG-------------------------------------------------------------------------------------TGTGTGTATGTG----------------------------------------------------------------------------------TGTGTG
droWil1 scaffold_180708:9512363-9512488 + CACTTGCATGGCATAAATCAAAAGCGCCGTAGGCCTTCCACCTCT---------ATAT-------AGTATAATGTGTTCCACATACTCGAC---------------------------------------------------------------------------------------------------TTGGG-AGTTGAATTCGAAGTTG-T-----CCATG-T-CTTTTGTGGCCAATTTTACACC
droVir3 scaffold_12963:15108661-15108745 + CACTCGCGTGGCATAAATCAAATGCGTTGCAGGCCG-CCGGCGCT-------CCACGTT-----------------------GCACTCGACTC--------------------------------------------------------------CT-------------------------------------------------------------------C-TA--CTTGCGGCTA--GCAGCTCC
droMoj3 scaffold_6500:18077427-18077576 + CACTTGTGTGGCATAAATCAAATGCGCAGCAGGCCG-CCAGCTGA--------------------CGCTGACCGTGTT----GCACTCGAGTCGAG------------------------TTGAGTGGA---GTCAACTCGCCGCAGCTTTTCATTCGCATATACCCA-----------------------------------------GCCAAGCCAAG-----TGGTCTTTGGGGCCA--TTTACACG
droGri2 scaffold_15126:4287105-4287265 - CACTTGCATGGCATAAATCAAATGCGCCGCGGGCCT-TTGCTACG-----------------------------TGCCACATGCACTCGACTCTCGCCTCTCAACACGACTGACCGAACATTGGCTGGACAAGCCAAGCTGCAG------------------------------------------CAGATCGGGGCATTCCACTCCAAG---------------TGGTCTTTGAGGCCA--TTTGCACG

dme-mir-4974 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:21263917-21264049 + GCATTGACTTCTTTTGTTCTT---TGTTTTTATTCCCTGTCAG--AGAGTATATT--GATTTTAGGTGG-----------------------AC-------ATTTGCGACCATATAAAATAT-ATATATTCCTGATAAAGAATATTTA--------ATATATCTTCTTTTTCGGTATAC
droSim1 chr2L:20861453-20861585 + GCACTGACTTCTTTTGTTCTT---TGTTTTTATTCCCTAGCAG--AGAGTATATT--GATTTTAGGCGG-----------------------TC-------ATTTGCGACCATATAAAGTAT-ACATATTCCTGATCAGAACTATTTA--------ATATATCTTTTTTTTCGGTACAC
droSec1 super_18:1195266-1195398 + GCACTGACTTCTTTTGTTCTT---TGTTTTTATTCCCTAGCAG--AGAGTATATT--GATTTTAGGCGG-----------------------TC-------ATTTGCGACCATATAAAGTAT-ACATATTCCTGATCAGAACTATTTA--------ATATATCTTTTTTTTCGGTATAC
droYak2 chrU:19793626-19793766 + GAACTTAATTATATCGTTCTC---T-CTCTTACACCCTTAAAG--AGGGTGTATT--GATTTTAACCGGAAAAAC-----GCAAAAAAGGAGAC-------ATTTGCGGCCATATAAAGTAA-ATATATTCTTAATCAGTATCAA-----------------CGTCAGTTTTAAGATCC
droEre2 scaffold_4784:24793627-24793751 + TAATTGAATTTCTTTGGTTTT---T-TTACCATTTACTTTTAG--AGAATATACTAGAATTTC--TGAGAAGTGTGTAACAGGCAGAAGGAAAC-------GTTTTCGACCATATAAATTAT-ATATATTCTTGATCAGGA--------------------------------------
droAna3 scaffold_13499:388035-388162 - TTATT----TCCTTTGTTCTT---CGTTTTTATACCCTTGCAG--AGGGTATTAT--AATTTTGGTCAAAAGTGTGCAACGCAGAGAAGGAGAC-------ATCTCCGACCCTATAAAGTAT-ATATATTCTTGATCAGGATCACCT--------------------------------
dp4 chr2:13223937-13224089 - CCGTTCGCCTTTTTGGTTCTTTATTGTTTTTATACCCTTCTAG--AGAGTATTAC--GATTTTGGGCTAATGTCTGCAAGACTGGAAC--------CTGCAACATAGAATCCCATAGGGTATTATATAT-----ATGAGGATCGGTAG--------CCATCTCT-CTTTTTCTATACAC
droPer1 super_0:7229185-7229317 + CCGTTCGCCTTTTTGGTTCTTTATTGTTTTTATACCCTTCTAG--AGAGTATTAT--GATTTTGGGCTGCTGTCTGCAAGGCTGAAAT--------CTATTGCATAGAATCCTATAGGGTATTATATAT-----GTCAGGA-----------------------------TCGGTAGCC
droWil1 scaffold_181150:776667-776791 - T--------TTTTTTGATTTT---CTTTTTTATAACCTTGCAAAAAGGGTATATT--CATTTTGGTCAAAGGAAT-----------------GC-------ATCTCCGACCATGTAAATTAT-ATATATTCTTGATTAGCACGACGAGACGAGTTCATATAG----------------C
droVir3 scaffold_12963:16876342-16876466 - GAACTCGTTTCTGGTGTACGT-CGTGTTTTTATACCCTTGTAG--AGAGTATTTT--AATTTTGTCGTGGAATGTGCAACGCATGGATGGAGAC-------ATTTGGGACCCCATAAAGTAT-ATGTATTCTAGATAA-----------------------------------------
droMoj3 Unknown GGTTTCAGTTCTTTTGTTTTT---TTTTG--ATATCCCAAA-------------------------------TGTGAAGTGCTAAAGAGTTGAAATTCGGAATGTAGATTGGCAT-----------------TGAGTTCAATAAGATA--------TGGCGGATATATTGTATAC---A
droGri2 scaffold_3049:4191-4318 - ATTGACAAAT---TTATTTTT---AATTCTTCTTTTGTTCGAG--TGGGTATAAC--AGGTAGAAGGAA-----------------------GC-------ATCTCCGACGCCATAAAGTAT-ATATGTTTCTGAGAAGGATCAATTG--------AGGAGTCGATGTAGTTCGT---C

dme-mir-4983 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15524903-15525041 + AA--CACATCTGCCCGCTGG-CTGGCTG------T---------CTTGACCCACTTGCT---CG---TTTGCA------TT-TCT--GAAAAATGT--ATACGCAA-----AAACCAAAATCAGAAATTCTTTTGA-GCAAG----TGTGTCATGAAATTGCC-ATTCGTTTCTGCTCTATAT-------------AC
droSim1 chr2R:14228631-14228769 + AA--CACATCTGCCCGCTGG-CTGGCTG------T---------CTTGACCCACTTGCT---CG---TTTGCA------TT-TCT--GAAAAATGT--ATACGCAA-----AAACCAAAATCAGAAATTCTTTTGA-GCAAG----TGTGTCATGAAATTGCC-ATTCGTTTCTGCTCTATAT-------------AC
droSec1 super_1:13039564-13039702 + AA--CACATCTGCCCGCTGG-CTGGCTG------T---------CTTGACCCACTTGCT---TG---TTTGCA------TT-TCT--GAAAAATGT--ATACGCAA-----AAACCAAAATCAGAAATTCTTTTGA-GCAAG----TGTGTCATGAAATTGCC-ATTCGTTTCTGCTCTATAT-------------AC
droYak2 chr2R:13649050-13649195 - AA--CACATCTGCCCGCTGG-CTGGCTG------T---------CTTGACCCACTTGCT---CG---TTTGCATTTGTATTTTCT--GAAAAATGT--ATACGCAA-----AAACCAAAATCAGAAATTCTTTTGA-GCAAG----TGTGTCATGAAATTGCC-ATTCGTTTCTGCTCTATAT-------------AC
droEre2 scaffold_4845:9723500-9723642 + AA--CACATCTGCCCGCTGG-CTGGCTGGCTG--T---------CTTGACCCACTTGCT---CG---CTTGCA------TT-GCT--GAAAAATGT--ATACGCAA-----AAACCAAAATCAGAAATTCCTTTGA-GCAAG----TGTGTCATGAAATTGCC-ATTCGTTTCTGCTCTATAT-------------AC
droAna3 scaffold_13266:9754397-9754555 - AAAACACAAACGCCCGCTGG-----CTG------T---------CTTGACCCACTTGCT---TG---TTTGCA------TT-TCTCGCAAAAATATTCATATGCAAGACCAAAATCAGAATCAGAAATTCTTTTGG-GCAAG----TGTGTCATGAAATTGCC-ATTCGTTTCTGCTCTCTATATGTACATCTAGTAC
dp4 chr3:12652733-12652881 + AA--CACGTCTCTCCGTTTGTCAGTCTTTCAGTCTGTCAGCATGCTTGACCCACTTGATGTGCT---TTTGAA------TT-TTA--GAAATATGT---------------AAATCAAATTCTGAAACATTTCGGGGACAAGTTTATGTGTCATTAAATTCCCCA----ATTTTATACTAAA----------------
droPer1 super_2:8929657-8929759 - AA--CACTTCTCTCCGTTTGTCAGTCTTTCAGTCTGTCAGCATGCTTGACCCACTTGATGTGCT---TTTGAA------TT-TTA--GAAATATGT---------------AAATCAAATTCTGAAACATTT------------------------------------------------------------------
droWil1 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12875:4153222-4153295 - AA--CACTTTTGAGTGCCAG-CTTTCTG------A---------GCATATC-AAACGCT---CGACATTTGTC------TT-TTT--GAGGGGGGT--TCTCGCAC-----A--------------------------------------------------------------------------------------
droMoj3 scaffold_6496:20896701-20896727 + AA--CACTTTTGACTGCTGC-CAGCCTG------C---------C---------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-972 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19445170-19445290 + TGCAAATAGCTAAAGAGAATGATAGGGAA----ATTGCT--AAATATTTTTTTTGTATAAATAACTTTT---AACTTTTGTACAATA------CG-AATATTTAGGCATTTCTCAAATCA------------------------------AA------------------------GATTTGCAAGCC-----------------AAA
droSim1 chrX:15010925-15011057 + ATAAAAAAGCTGAAGAGAATGATAGTG-----AATTGCT--AAATATTTTCTTTGTATAAATGACTTTT---AACATTTGTACAATA------TT-AATATTTAAACATTTCTCGAATCA------------------------------AAGTA-----------TGCCACATCAGCTTTGCAAGCC-----------------AAA
droSec1 super_8:1727594-1727726 + ATAAAAAAGCTGAAAAGAATGATAGTG-----AATTGCT--AAATATTTTCTTTGTATAAATAACTTTT---AATATTTGTACAATA------TT-AATATTTAAACATTTCTCGAATCA------------------------------AAGTA-----------TGCGACATCAGCTTTGCAAGCC-----------------AAA
droYak2 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4690:9681872-9682038 + -TGAAATAGCTGAATATAATGCTAGTGAA----ATTGTT--AAATATTTACTTTGTATAAATGACCTTCATAAACATTTATACAATT------TCAAATATTTTGCCATTTCTCAATCCAATTCAATTTTGCCACACAGAAGTGTCCAAAAAGTA-----------TGCTACATCATATTTGCAATCC-----------------AGA
droAna3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7946002-7946145 + CTTAAATATTCGAAACGTGTACTAAGA-----TTCTACT--TCTTGCT------------------------AGCTTATTTTG--TAAACTAATG-AATAATTAAATGACAATGAAAACG------------------------------AAGTAAATTAGTTAATTAAGACAGCTGCTTAACATATAAAATAATTGAAAATATTCAA
droVir3 scaffold_13042:918660-918775 - CTGAAAGAACTATAGATATTATTAATAATAGGAACTGCTTCAGATATTTTGTTTGCAGT-----GTCTT---AGCTTTTGTTT--TA------TG-ATGTTTTATATATTCCGAATATTA------------------------------AA------------------------GCTTCAAA---------------------AAA
droMoj3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Mirtrons

dme-mir-2489 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:13609973-13610070 + AGCAATAAGTTAGACGTGAGTATG------GCTATACAAAT---------CATCT-------GGAACGT-------AAGTTCTAATG-----TATGTATTG---TATG-----TTGTATTTGCAGTTTTATGATAGCAAA
droSim1 chr2L:13379253-13379350 + AGCAATAAGTTAGACGTGAGTATG------GCTATACAAAT---------CATCT-------GGAACAT-------ACGTTCTAATG-----CATGTATTG---TATG-----TTGTATTTGCAGTTTTATGATAGCAAA
droSec1 super_16:1746050-1746147 + AGCAATAAGTTAGACGTGAGTATG------GCTATACAAAT---------CATCT-------GGAACAT-------ACGTTCTAATG-----CATGTATTG---TATG-----TTGTATTTGCAGTTTTATGATAGCAAA
droYak2 chr2L:10029706-10029801 + AGCAATAAGTTAGATGTGAGTATG------GCTATTTAAAT---------CAACC-GAAC--GT-ATGT-------ATGTTATATAG-----T-----TTG---CATT-----TTGTATTTGCAGTTTTATGATAGCAAA
droEre2 scaffold_4929:11847836-11847927 - AGCAATAAGTTAGACGTGAGTATG------GCTATCTAAAT---------CAGCC--------GAACGT-------GTATTCTAATG-----TTTG--------CACT-----TTGTATTTGCAGTTTTATGATAGCAAA
droAna3 scaffold_12943:1669999-1670103 + AGCGATAAGTTAGACGTGAGTATT-----GTCTCTGTCAAG---------TGTAT-------GGTACTAATATTTA----ACTAATT-----CTTGTATTAACTTGTT-----TTTAATTTCCAGTTTTATGATAGCAAT
dp4 chr4_group1:1879331-1879430 - AGCGATAAGTTAGACGTGAGTATA------TCTTTGCCATC---------TCTTT-----TTAAAACAA-------TCATTTTCATA-----TACATATAT---ATTT-----TTGTGTGTTTAGTTTTATGATAGCAAC
droPer1 super_5:3326174-3326277 + AGCGATAAGTTAGACGTGAGTATA------TCTTTGCCATC---------TCTTT-----TTAAAATAT----TTTATATTTTTATATATTACATATATTT------------TTTGGTGTTTAGTTTTATGATAGCAAC
droWil1 scaffold_180772:852551-852648 - AGCGATAAGTTAGATGTGAGTATA------T-TATATCTTTTGTCCCATT----------TTGGAATAT-------GTTTTTGAATA-----CCTT--------TTCT-----TTGGGATTTCAGTTTTATGATAGCAAC
droVir3 scaffold_12723:5236355-5236448 - AGTGATAAGTTAGACGTGAGTATT------ATCAACATATATGAATTATT----------T-TAAAATA-------ATAATC-------------GAAT-T---TAAT-----TTGTTATCCCAGTTTTATGATAGCAAC
droMoj3 scaffold_6500:16444108-16444197 + AGTGATAAGTTAGACGTGAGTATTACAGAGGCCCTATCAA------------------------AAT-A-------TC------ATT-----CGTGTATCT---AATATAATAT----TTTTCAGTTTTATGATAACAAC
droGri2 scaffold_15126:8263493-8263587 - AGTGATAAGTTAGACGTGAGTATTT-----ATTAAC--------------TTCATTCAAC--GTAATAT-------ACATACTAAAA-----TATGAA--------TACATCAT----TTTGCAGTCTTATGATAGCAAC

dme-mir-3644 tailed_mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:11018004-11018094 - TTATTGCTGCAGGAGGTGAGTGATTAT----G-GTTTA----AGT-------AATACGAATTACATAAACTATATTTA-------ACCACTATTCTTAGATACAAAACACTGCT
droSim1 chr3R:10448012-10448102 + TTACTGCTGCAGGAGGTGAGTGTTTAT----G-GTTTA----AAT-------TATACGATTTACATAAACTATATTTA-------ACCACTACTCTTAGATCCAAAACACCGCT
droSec1 super_0:10933739-10933828 + TTACTGCTGCAGGAGGTGAGGTTTTAT----G-GT-TA----AGT-------TATACGATTTGCATAAACTATATTTA-------ACCACTACTCTTAGATCCAAAACACCGCT
droYak2 chr3R:15416636-15416724 + TTACTGCTTCAGGAGGTAAGTTTTT------G-GTTCA----GGT-------TTCATGAATTACATAAACTATATTTA-------ACCACATTCCTTAGATCCAAAATACCGCT
droEre2 scaffold_4770:10539530-10539618 - TTACTGCTTCAGGAGGTCAGTTTTT------G-GTTCG----ATT-------TCAACGATTTACATAAACTGTATTTA-------ACCATATTTCGTAGATCCAAAACACCGCT
droAna3 scaffold_13340:6107797-6107878 - TTGTTGCTGCAGGAGGTGGGTAGTG---------------AA---C------TTTTCAAATTACTATACC--------TTCATGAATGTTCTTTTGTAGATTCAAAATACTGCG
dp4 chr2:21002920-21003004 - CTGTTGCTGCAGGAGGTAGGCTACA------GAG------AA---C----ATTTAG---------TAAATAATAGTCGCTCATTC-TTTTCCCTAATAGATCCAAAACACTGCC
droPer1 super_3:3754054-3754138 - CTGTTGCTGCAGGAGGTAGGCTACA------GAG------AA---C----TTTAAG---------TAAATAATAGTCGCTCATTC-TCTTCCCTAATAGATCCAAAACACTGCC
droWil1 scaffold_181130:7245340-7245433 + TTGCTATTGCAAGAGGTCAGTTAGAAT----A-GCAAA----AGACACTCTTGGGATGGTTAATAATA----------TTCATAT-TTGGTTTTTGCAGATTCAAAATACTGCC
droVir3 scaffold_13047:7744104-7744193 - CTGCTGCTTCAAGAGGTGAGCAACTGCTTTTG-GCTTA----TGT----------TCGATTTTCAATGAT--------CTCTCG-AATACTTTTTATAGATACAAAACACAGCG
droMoj3 scaffold_6540:3682572-3682661 - TTGCTGCTGCAAGAGGTAAAATGTT------GAGCTCATAAAAGT----------TTCCTTT---TCAATTACA----TTCACAT-TCATTCGTTTTAGATACAAAATACGGCC
droGri2 scaffold_14830:3558248-3558343 - CTGCTGCTGCAGGAGGTGAGTTGCACCAACTG-ACACA----G-----TGTTTCCATAATTTACATTTTCTCTTTAT--------ATCTTTGTTCTCAGATACAAAACACGGCT

dme-mir-4917 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:14093563-14093669 + GAGAGCCCCAGCAGAGTGAGTA-------GCGA---------------------------------------------------------------------------------TGGGG-GTCAGATGG-----------------------------------------------------------CCGTGGAA----GATATGTGACGATTGCC--------------------------------------------------------------------------------------------------CCCTTAC----------T---------------------ACTATCGTC---TGCTCAACAGGAAAGCAAACTACAT
droSim1 chrX_random:3764305-3764407 + GAGAGCCCC---AGAGTGAGTA-------GCGA---------------------------------------------------------------------------------TGGGG-GTCAGATG-------------------------------------------------------GATGGCCGTGGAT----GATATGTGACGATTGCC----------------------------------------------------------------------------------------------------CTTAC----------T------------------------ACGCTC---TGCCCAACAGGAAAGCAAGCTACAT
droSec1 super_20:697977-698075 + GAGAGCCCC---AGAGTGAGTA-------GCGA---------------------------------------------------------------------------------TGGGG-GTCAGATGG-----------------------------------------------------------CCGTGGAT----GATATGTGACGATTGCC----------------------------------------------------------------------------------------------------CTTAC----------T------------------------ACGCTC---TGCCCAACAGGAAAGCAAGCTACAT
droYak2 chrX:8347469-8347564 + GAGAGCCCC---AGAGTAAGTA-------GCCA---------------------------------------------------------------------------------GGGGG-ATCAGGAGG-----------------------------------------------------------CCGCGGAA----GGTATGTGATGATTCCC-----------------------------------------------------------------------------------------------------------------------------------------ATTACCCTC---CGATCCACAGGAAAGCAACCTACAT
droEre2 scaffold_4690:12836867-12836962 - GAGAGCCCC---AGAGTGAGTA-------CGCA---------------------------------------------------------------------------------GTCGG-GTCAGAAGG-----------------------------------------------------------CCGCGGAA----GATATGTGATGATTCCC-----------------------------------------------------------------------------------------------------------------------------------------ATTCCCCTC---CGATCAACAGGAAAGCAACCTACAC
droAna3 scaffold_13047:1616598-1616749 + GATACCCCG---AGAGTGAGTTAAATA-----GGTAGACTGGGTTTTACGGGTTTTGGGGATTAGGGTTAAGGGGTTTAAGGATCAGGGACTTGGCTA----------------GAAGG-ACCAA------------------------------------------------------------------AGGA-CTTA-----------------AGAA------------------------------------------------------------------------------------------------CTAAC----------A---------------------AAAATTCAC---CATTCCACAGGCAAGCACGGTACAC
dp4 chrXL_group1e:6144259-6144391 - GAAAACTCC---AGAGTGAGTTGAGTGAGGTT-----------------------------------------------------------------------------------GAGAGCCGGGGTG-------------------------------------------------------------CTCGGAA----GA----------CCATCCTC-------------------------------------------------------------------------ACTGATCCTATTCTAATCTT-------CCCCTCTTTCGTCTATATCTCTC--------------TCTCTC---TCGTCCGCAGGCAAGCGAACTATAC
droPer1 super_21:1109353-1109492 - GAAAACTCC---AGAGTGAGTG-------GTTG-----------------------------------------------------------------------------------AGAGCCGGGGTGC-----------------------------------------------------------TCGCAA------GA----------CCTTCCTC-------------------------------------------------------------------------ACTGATCCTATTCTAATCTT-------CCCCTCTTTCGTCTATATCTCTCTCTCTCTCTCTCTCTCGCTC---TCGTCCGCAGGCAAGCGAACTATAC
droWil1 scaffold_180702:2428501-2428590 + GAGAACACA---AGGGTGAGTG-------GGAG---------------------------------------------------------------------------------GAGAG-ATGAGAGGA-----------------------------------------------------------GAATGGA------------------------------------------------------------------------------------------------------------------------CTTTAAC-CGCCATTATT------------------------T--CTT---TCTTCCACAGGGAAGTGAACTACAA
droVir3 scaffold_12970:1543996-1544230 - GAAAACACA---CGAGTAAGTG-------GACAACTATC---------------------------ACTATACCCC-----------------------------------------------AG-TAACCCTGGAGACACCTTCGACCC-ATGCTAACTTGCTGATTTTCGAGGGCTATGTTTGTAG-----CC-ATAT-----------------GCTATGTTACGGCAGTTTTAAGCTAGGTTCAGG------GTA-TCCTCCCAGCCGGGCCCTCTCGACCAGCGCAATCCTGCTCTAATAAATTTC------TTCAA----------C------------------------ATTTTCTATCCAACAGCAGTCAAGCGAAATACAG
droMoj3 scaffold_6359:2739408-2739517 - GAAAACACA---AGAGTGAGTG-------ACAA---------------------------------------------------------------------------------GATTT-ATATATATT-----------------------------------------------------------TATAGGA-ATAT-----------------AATA------------------------------------------------------------------------------------------CTAATTCTTAT-CTACGTTATT------CCC------------GTCTCACTC---AATCAATTAGTCGAGCCGAATACAT
droGri2 scaffold_15081:1312788-1313066 - GAAAACAGA---GGAGTAAGTACGATC-----AGCTCGC---------------------------ATTATACCCCGTAAGAGAAGGTTCCCTAATGAAATGGACAAACAGAAATAGAA-ATCAATTT-----GAAAATCGGTGCAAGGTAAAATTAACTTGAT---CTCTCCAGCATAAATATATAT-----AT-ATAC-----------------GCTG------GACAG-ATTAAGTTCATTTTAGATGGTCGATAACACTTTCAACA--CCTTTTTAAATCAATTTCAAACTGCTTTTATTCAATTATT-------AACGTTTATCGTT------------------------T--TAT---CTGTCAACAGTCGAGCGAAATACAG

dme-mir-4918 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:4134138-4134222 - TCGCACATGTCTAAGGTGAG------CAC----GATGGCCACATTTA-----TTGGGCAA----------CCAATGAA-------TT--CCCGCCTGCC---CACAGGTTCACTCG--GTCTGC
droSim1 chr3R:17124439-17124521 + TCGCACATGTCCAAGGTGAG------CAC----GATGGCCACATTTA-----TTGGGCAA----------CCCATGAA-------TC--C--TCCTGCC---CACAGGTTCACTCG--GTCTGC
droSec1 super_0:17695137-17695219 + TCGCACATGTCCAAGGTGAG------CAC----GATGGCCACATTTA-----TTGGGCAA----------CCCATGAA-------TC--C--TCCTGCC---CACAGGTTCACTCG--GTCTGC
droYak2 chr3R:8209596-8209678 - GCGCACATGTCCAAGGTGAG------CAC----GGCGGCCCCA------AA--------ATCAAAGTTCTCTGACCAA-------A-----ATCCCGCC---CACAGGTTCACTCC--GTCTGC
droEre2 scaffold_4770:17439359-17439448 + GCGCACATGTCCAAGGTGAG------CAC----GATGGCCCCG------AC--------ATCGAAATT--C---TAAATCCCCAATCCAAAATCCCGCC---CACAGGTTCACTCA--GTCTGC
droAna3 scaffold_13340:13231716-13231803 - GCCCATCTGAACAAGGTAAT------TTG-AAT--TTGTGTTTT-TG-GCC-AGGAGCAA----------TTGATGTA-------TT--TGTTTATGTT---CGAAGGTACACTCT--GTTTGC
dp4 chr2:14657774-14657858 - GCCCACACGTCCAAGGTAAG------AA-----GCTAGTCGAA------AA--------ATTGAGGCATTTTCACGAA-------AC--A---ATTGTCTGAGGCAGGTTCACTCC--GTCTGC
droPer1 super_0:5758126-5758210 + GCCCACACGTCCAAGGTAAG------AA-----GCTGGTCGAA------AA--------ATTGAGGCATTTTCACGAA-------AC--A---AATGTCTGAGGCAGGTTCACTCC--GTCTGC
droWil1 scaffold_181089:2794443-2794538 + GCACATATGTCCAAGGTAAT------CAA-ATT--TAATGTAATTTA-----CCAGACAAGCGTTCCCTTTTTACAAA-------TT--TTCTTTCCCT---GGCAGGTTCACTCG--GTTTGC
droVir3 scaffold_12822:435887-435972 + CCACACATGTCAAAGGTGGG------TATAAAA--CCATTTAGT-CT-GTC-----------GGTGGCATTTAATTGG-------TT-----TTCTTTT---CGTAGGTGCATTCG--GTGTGC
droMoj3 scaffold_6540:27855886-27855971 - CAGCAA-TAGCAACAGCAAC------AGC----AATAGCAACAGCAACAGC----AGCAA----------CACCTGCAA------GC--CGCGGCAGCC---CAAAGTCTCGTTCG--CACCGC
droGri2 scaffold_15245:11304334-11304423 - ATGCACAGCTCCTTAAGCAATATGAACAG----CAGAGCCTGG------GTAGTGATGTA----------CC--TGGAT------CC--C-GGCCCATC---TACACGTTCAGTGGACATCAGC

Present within D. melanogaster only

Canonical miRNAs

dme-mir-2279 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2RHet:1322818-1322960 - TCCGATGACCCATGGCG----G--GAGAGGATTATGAAAGACAATTTGAAATTAAATATCTGTGT-GTGAAATTATT--------------TAAAAGATTAATTTCACGCGAAGATATTTAT----TTTTACATTTGTCCCTATAATAACCGGGGT----------------------------------------G---------------CCA---ACATACAT
droSim1 chr2R:265657-265782 + AGGC------------------A--------------------ATTTTCAATTAAATATCTGTGT-GTGGAATTATTAAAAACAATGAGTTCAAAGGTTTAGTTTCACGTAAAGATATTTATTTTG-TTTAAATTT-TCCCTAGAATAACCAGTAT----------------------------------------G---------------CCG---ACATAAA-
droSec1 super_55:122657-122779 + AAGT------------------A-------------------AACTTAAAATTATAAATATGTGT-GTGAAATTAATAAA--CGGTAAGTTCGAAAGTTTAGTTTCACGCGAAAGTATTTAT----TTTTACATTTGTCCATAGAATAACCGGGGG----------------------------------------G---------------CCA---ACATAAA-
droYak2 chr2h_random:1837227-1837349 - AAGA------------------C-------------------AACTTAAATTTTTATATCTGTGT-GGGAAATTAAGAAA--CAGTGAGTTCGAAAATTTAGTTTCGTGTAAAGTTATTTAT----TTCTGCATTTGTCCCTAGAATAACCGAGGT----------------------------------------C---------------CCA---ACATAAA-
droEre2 scaffold_4845:21278391-21278511 + CTCCATAACTCAACTT-ATCTT--AATCGGATTTTGAAGTGGCA---TACCT-CTAAATGTTTGTGGTGCAATTATC--------------TAAAAAACTGCATTCAAATTTAAAAATTTATTTTT-TTTACATTTTTTTGTA-----------------------------------------------------------------------------------
droAna3 scaffold_13334:5190-5293 + AAAA------------------AA-------TTAGTAAAAAAAATAATAAATAAAAAAAAATATG-GTGGGATTTTT--------------TAAAAGATATTTTTTATATGGCAATTGGT----------------------------------------------------------------AGTTAAATATTAG---------------TCT---TTTTAAGA
dp4 Unknown_group_37:8363-8450 + GGCAATGAGG--------------------------------------------------------------------------------TAGGAGGGACAATTTTGTAT-----------------------------TCTATAATTATCGTTAGACCTACGCAAAGGATACATTTTACTGCGGG----------T---------------TGT---ATATTTT-
droPer1 super_5473:1216-1318 + TATA------------------C----------------------------------GTGTGTAA-GTGGAACTATG--------------CAGGGGAATGATTTCACATGAAGAAAGTCGATTCG-CCTGTACC------TATTGCATTCC-TA-----------------------------AGCTGAGGTTT-A---------------AGC---TTTAACAT
droWil1 scaffold_180772:5217896-5218034 + GCCGTTGACCAGTGGCG----G--CG----------------CCAAAGTGC--ACATATTCTTGT-CAGAGTTAGCTGGATAGTATGTTCCTGAAAATTCAATTA-AAATTGAA-----------------------------AGAGGACTTG--------------------------------TTGCAATGAATTTTTTTTTAATATTTGTCTAGATTTCGACC
droVir3 scaffold_291:1622-1745 - AAAG------------------AA-------TCATTAGATAAATCTTTAAAATATAGATTTTTTT-TTACCATATTT--------------GTAATGATTTTTGGATTGCGAAATTTTTTAT----TTAAATTGTTAATTATATAATATATTAAAT----------------------------------------A---------------TTT---ATATATAT
droMoj3 scaffold_6473:7010400-7010528 + AAAGACAAAAAAAAAT-AAAAT--AA----------------AAAAAATAAACAAACAAAAGTGT-GTAA---------------AGAGTGCAATGCCAACAAATCATACGTAGATTTCTAT----ATTTACATATGTACATAAATATATATATGT----------------------------------------A---------------TGC---ACATACAT
droGri2 scaffold_14906:12727535-12727642 + TGCC------------------GAGAAGGG------------AAAACGAGAATACAATTTTGTTA-TATTATTTAATTTA--TCTTA-TCTTG------------------------------------TCCTTTTATTTGAAAGATAATTTGA------------------------------ATTTGAATAAATT---------------TAT---ATTTGTAT

dme-mir-2283 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:5343231-5343336 + GAAAACTCACTCCTGAGCTGCTCCGAAAATATCATGAATA-CG----------ACAATTATGTGCACATCATTTAGTATACGTGATATTTTAGGAGCAGCTAAATTATATTTAAAGT
droSim1 wcy63a10.b1:18-120 - A---------------GTTGTTCCGAAAAAATCAATTTTAATGACAGGATGGGCAGATAATTGGGACATCATGTTGTATACGTAATATTTTAGGAGCAGCTCAATTATATTTAAAGT
droSec1 super_0:16553595-16553710 - GACAACTCACTCTTGAGCTGCTCCTAAAATATCACGTATA-CGACATGATGTCCCAATTACATGCACATCCTGTCGTATACGTGATATTTTAGGAGCAGCTCAATTATATTTAAAGT
droYak2 chr3R:9394463-9394539 + GGCAACCCAC--------------------------TCTAAT--------------GTAATTGACACATCATGTCGTATACGTGATATTTTGGGAGCAACGCAATTATATTTAAAGT
droEre2 scaffold_4770:16257712-16257788 - GGCAACTCAC--------------------------TCTAAT--------------ATAATTGTCACATAATGTCGTATACGTGATATTTGAGGAGCAAGTCAATTATATTTAAAGT
droAna3 Unknown ---------------------------------------------------------------------------------------------------------------------
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ---------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ---------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------

dme-mir-2491 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:22235261-22235434 - ACTAAATGAC---A--CCACCGCGAACCACT---T--TGTGCC-----------------------------------------------------GCTGTTGCCTTTG----CA--------GTTGCTGTTTTCCATGTT---GCTAC-------------------------------------------------------------------------------TG-----------CGGCCAATTGTTGCGCATCAGCAACATCAACAAC------------------ATCAA--CA---ACAGCAGCAGCAACTGC---AGTAGCAG------C-ACTCGT-------------GATTCACTTTCGA-CT-CAATTCGTCGCTA-
droSim1 chrX:16981360-16981475 - ACTAAATGAC---A--CCACCGCGAACCACT---T--TGTGCC-----------------------------------------------------GC---------------------------------------------TGCTAC-------------------------------------------------------------------------------TG-----------CGGCCACTTGTGGCGCATCAGCAACATCAGCAAC------------------ATCGT-GCA---ACATC---------------------G------------------------------TTCAC-TTCGA-CT-CAGTTCGTCGTTA-
droSec1 super_39:188007-188112 - ACTAAATAAC---T--CCACCGCGAACCACT---T--TGTGCC-----------------------------------------------------GC---------------------------------------------TGCTAC-------------------------------------------------------------------------------TG-----------CGGCCACTTGTGGCGCATCAGCAACATCAGCAAC------------------ATCG-----------------------------------------------------------------TTCAC-TTCGA-CT-CAATTCGTCGTTA-
droYak2 chrX:21599490-21599638 - ACTAAATGGC---A--CCACCGCGAACCACT---T--TGTGTC-----------------------------------------------------GCTGTTGCCTCTG----CT--------GTTGCTGCTTTGCATGTT---GCTAC-------------------------------------------------------------------------------TG-----------TGACCACTTGTTGCGCATCAGCAACAGCAACGAC------------------A--------------------------GC---AACAGCAG------C-ACTTGT-------------GCTTCAC-TTCGA-CT-CGATT---CGTTA-
droEre2 scaffold_4690:18518767-18518923 - ACTAAATGAC---A--CCACCGCGAACCACT---T--TGTGTC-----------------------------------------------------GCTGTTGCC--TT----CT--------GTTGCTGCTTTGT-TGTT---GCTAC-------------------------------------------------------------------------------TG-----------CGACCACTTGTTGCGCATCAGCAACATCGACGAC------------------AGCAAAGCA---------------ACAGC---AGCAGCAG------C-ACTTGT-------------GCTTCAC-TTCTA-CT-CGATT---CGTTA-
droAna3 scaffold_13417:1531274-1531445 - ATCATT-----------------------CT---G--GATGAT-----------------------------------------------------GCTGTTGCAGCTT----CT--------CTTGCTTTTCTG----------C---------------CACATGGAGACGACA-----------------CCAAAAACAATAAC---------------------AACAACAATGGTACAAC---------AACAGTAGCAACAACAGCAAC------------------A-----------GCAACAGCAACAGTAGC---AGTAGCAGCAACGGT------G-------------GCAACACTTTCAAATT-CATTT--TCGAAAT
dp4 chrXL_group1e:3403111-3403272 - ACAGAGTGGC---ATGCAACTGCCAGCCACG---C--CCTCGA-----------------------------------------------------GC------------------------------AGCTCCG----------C---------------CTCAGGGAACT--CGCCGGATCTGTTATCCTTCCAAATGGAGCAAC---------------------TG-----------CAGCAGCAGC---AACAGCAGCAGCAGCAGCAACATCACTT---------------G--CAACAGCAGCAGCAGCAACACC---AGCAGCAG------C-A-------------------------------------------------
droPer1 super_20:731421-731582 - ATCGC------------------CAA----T---C--TG-------------------------------------------------------------TTGCGGCAGCAGTCCCAGTCCCAGTCGC---------------AGT---CGCAGT---------------------------------------------------------------------------------------CACAGCCCCTGCAGCAGCAGCAGCAGCAGCAACATCCTCAGCAACAGCAGCA-----------GCAGCAGCAACATCCTC---AGCAGCAGCAGCGGC-GCGACA-------------G------CTCCGA-CAGCAATTGCTCGCTG-
droWil1 scaffold_181096:4169006-4169179 - ACAACA--GCAACA--ACAAAGAGAGCAACAAAGTTGTATG-----------------------------------------------------------TTGCCTTTGCCTTCT-----------------TCGTGTGCTGCTGCTGCTGCTGT-------------------------------------------------------------------------CG-----------ATCGGGCTTTTTGGGCAGCAGAAACATCAGCAAC------------------ATTGC--CA---GCGACAGCAACAACAGC---AGCAGCAG------CAGCTTGC-------------AATTTTCTTTTTG-CT-C------TTGCTAT
droVir3 scaffold_13324:2891413-2891591 + ACAAAGCAAC---A--ACAACCACAATCACA---G--C-------------------------------------AGCAGCGCCAGCAGCAACA-----------------------------ATTGCAGTT-------------------------------------------GCCG-----------------------GCAAC---------------------TG-----------CAGCAACGGAAGCAGCAGCAGCAACAACAACAAC------------------AACAA--CAACAACAACAGCAACAACTGC---AGCAGCAG------C-ATTCGCATTGGATTAAACAG------CTTCGA-CTGCTATGCATTGGTA-
droMoj3 scaffold_6680:19782481-19782647 + GTAACT---------------------CAAT---T--TGTTTGGCGTTTGCATCTTAAATTCTCGTAAGCATGCCATGTGTGCCATCCTGCACAAAGC---------------------------TGCTGCTTTGC-TT-------------------------------------------------------------------------------------------------------------CGATTCAGCACCAGCAACAACAACAAC------------------AACAA--CA---ACAACAGCAGCAGCAGCAGCAACAGCAG------C--------------------AGTGGACATCCAA-CT-GAAT----------
droGri2 scaffold_15245:7434254-7434426 - ACCAGATGAT---A--CCCACAAGCGTCACG--------------------------------------------------------------------------------------AACTCACCGCC---------------AGC---CGCTGGCTTGGCC-------------------------------CAAAATGGAGCAGCTGCTGTTGTTGTTGTTGTTGGTG-----------GTGGCAGTTCTGCTGCAGCAGCAGCAGCAGCAGC------------------ATCAA--CA---GCAGCAGTGGCAGCA-C---AGCAGCAG-----------------------------AGCAATTACAA-TT-CAATT---------

dme-mir-280 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:4185596-4185720 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTATGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCTCCA-----------CACT-------GCACTCGC-CGC-CTCGA
droSim1 zee54c10.b1:599-724 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCTGCA-----------CACT-------GCACTCGC-CGC-CTCGA
droSec1 super_1:1832273-1832397 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCTGCA-----------CACT-------GCACTCGC-CGC-CTCGA
droYak2 chr2L:16840791-16840915 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------CTTGA------GGTCCTGCA-----------CACT-------GCACTCTC-CCG-CTCGA
droEre2 scaffold_4929:18446687-18446817 - CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCAGCA-----------CACTGCACACTGCACTTGC-C-C-CTCGA
droAna3 scaffold_13266:1806990-1807233 - TTGAAAT-------------------G-----TGTGTATGTGGG--------TG----------GGTG----GGTGTGTGTGCACTTTCTGCCATCCAGACTGCCAGCCAGCCATCTAGCCAGCCTGCCTGACTGCTTTCCTTGCCACTT-----GTGTGTATGTGTGTGTG-----------------TGTATGAGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------G-------------CCTGAACAACTTTGGAACACT-------GCAATCGC-CTT-CTGGA
dp4 chr3:2170016-2170201 + TTGATGC-------------------C-----tgtgtgtgtgtg--------------------------tgtgtgtgtgtCCAGTCGGTGTCATGA-GG-------------------------------------------------CGTATGCC----GTGTGTGTGTG-----------------TGTGTGAGACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATG--TGCAG-------------------------------------CTGAA------GAGCCTGTC-----------CATT-------GCACAATC-C-C-CACCC
droPer1 super_2:2339680-2339867 + TTGATGC-------------------C-----TGTGTGTGTGTG----------------------------TGTGTGCGTCCAGTCGGTGTCATGA-GG-------------------------------------------------CGTATGCCgtgtgtgtgtgtgtg-----------------tgtgtgAGACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATG--TGCAG-------------------------------------CTGAA------GAGCCTGTC-----------CATT-------GCACAATC-C-C-CTCCC
droWil1 scaffold_180701:589914-590141 + TTGATGCCCCAACACACACCCACCTCC-----TATCTATCTATCTATCTCTGTCTCACCATAACTGAg------------------------------------------------------------------------------------------tgtgtgtgtgtgtg-----------------tgtgtatgtTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATG--TGCAACCGAAGCAGCAGAAGCCAGGCC--CAA----------GTAGAAGCAAAAGGCCTGAA-----------CATT-------GCACTTGGGC-CATACGC
droVir3 scaffold_12875:9206154-9206327 + TTGATGT-------------------CGTCTTTGTGTG-----CCAT------------------GTGTGTGTGTGTGTGTCCATT-------------------------------------------------------------------------------------T-----------------TGTGTGTGTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATACATGCCA------------------GA----GCAGTGCATGCAACTG------------C-CCA-----------CAAT-------GCACATTT-C-TATCCGC
droMoj3 scaffold_6496:17934933-17935113 - TTGATGT-------------------CGTCGTTGTGTA-----CCATGCATTCG----------TGTG------------------------------------------------------------------------------------------TGCCTGTGTGTGTG-----------------CGTGTGTGTTAGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATACATGCCA------------------GGCCGGCCAGTGCATGCAACTT------------C-TCT-----------CAAT-------GCATATTC-C-AATCCAC
droGri2 scaffold_15245:2520625-2520797 + TTGATGT-------------------TGTCGTTGAGT------CTAtgtctgtg----------tgtg------------------------------------------------------------------------------------------tgtgtgtgtgtgtgtgtgcgagtgtCCAGTTCGTGTGTGTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATACATGCAA-------------------------------------CTC------------CTTCT-----------CAAT-------GGATCCCC--------AC

dme-mir-287 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:17574595-17574717 + AAGCC--------CACTC-A--CA-----------------GAGGACGCCGGGGATGTATGGGTGTGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAA--AACAC---G-TCGGA
droSim1 chr2L:17277816-17277938 + AAGCT--------CACTC-A--CA-----------------GAGGACGCCGTGGATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAA--AACAC---G-TCGGA
droSec1 super_7:1215433-1215555 + AAGCT--------CACTC-A--CA-----------------GAGGACGCCGTGGATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAA--AACAC---G-TCGGA
droYak2 chr2R:3525115-3525236 - ACATA--------TATA-CACACA-----------------GAGCAAGCCGTGGATGTATGGG--TGT-GGGTCTGAAATTTTGCACACATTTACAGTAATTGTAAATGTGTTGAAAATCGTTTGCATG-ACTGTGAGCAA--AACAC---T-TCGGA
droEre2 scaffold_4845:6676077-6676186 - GTGTG--------GACG-------------------------------C--TGGATGTATGGGTGTGTGGGCTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGCGAGCAA--AACAC---G-TCGGA
droAna3 scaffold_12916:3302442-3302546 - ATA----------------------------------------GGG--C--TGTGTGTATTGG--TAGTGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--AGCAC---G-TCGGA
dp4 chr4_group3:10858860-10858990 - ACACA--------CACA-CA--TA-----AATATATTCACGGAGACAGTCT--TATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--AACAC---G-TCGGA
droPer1 super_8:2069946-2070076 - ACACA--------CACA-CA--TA-----AATATATTCACGGAGACCTGCT--TATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--AACAC---G-TCGGA
droWil1 scaffold_180764:928810-928950 - ACTCC--------CACAT-A--CATTGGAAAGAGCTTCTCCGTAATATGTA--TATGTATTGC--TGTAAAGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGTTTGCACAAACTGTGAGCAA--AATCCTGTAGCTGGG
droVir3 scaffold_12963:16502531-16502646 + AGATT--------GACTC-C--CA-----------------CGCTTTCGCACACACACAAACGTGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA-------------CCGA
droMoj3 scaffold_6500:21428983-21429089 + ACTCC--------CACGC-A--CA-------------------------------CACACACGCGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--CCAAC---A---GCA
droGri2 scaffold_15252:13917089-13917209 + CAGTTTTCACTCCCACAC-A-------------------------------CTCACACACACATGCATAATGCTTGAAATTTTGCACACATTTACAATATTTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAGCAACAC---A-CATGT

dme-mir-288 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:20618351-20618477 - TGGAATTCCGGGT-------------------GCC------GGCCATGTCGTAATTAGCGGAGCACGGCATC-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-ACCTCCCAAT
droSim1 chr2L:20181621-20181747 - TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCACGGCATT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-ACCTCCCAGT
droSec1 super_18:498537-498663 - TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCACGGCATT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-ACCTCCCAGT
droYak2 chr2R:6966481-6966606 - TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCACGGCGTT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCACAGGC-ACCTCCA-GT
droEre2 scaffold_4845:3835093-3835218 + TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCTCGGCGTT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCAGGACACGGCCGCAGGC-GCCTCCA-CT
droAna3 scaffold_12916:7118734-7118858 - AAAAGTCCGGGGT-------------------CCA------GGTCATGTCGTAATTAGCAGGGCACAGAATT-GCCGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-TCCACCCA--
dp4 chr4_group3:7696584-7696728 + GGGAGGTCAGAGAGCTAGAGGGGGGGCCAGGCGCC-----TGGCCATGTCGTAATTAGCAGGGTACAGCGTT-GCCGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGG--CAGAC
droPer1 super_1:9142351-9142488 + CAGAAAGCTA-------GAGGGGGGGCCAGGCGCC-----TGGCCATGTCGTAATTAGCAGGGTACAGCGTT-GCCGGCGAAAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGG--CAGAC
droWil1 scaffold_180708:2031441-2031569 - TGGCCGGCTGACT-------------------CCC------CCTCAGGTCGTAATTAGCAGCGCACAACATTCGTCGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGCCAGCTCTGATG
droVir3 scaffold_12963:13472850-13472962 + C----------------------------------------AGCCGCGTCGTAATTAGCTGTGCACAACGTT-GCTGGCGATAATTAATGACTTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGTTCCTGTG
droMoj3 scaffold_6500:24709786-24709910 - G-----TCCAG---------------------GCAGGACATGGACGCGTCGTAATTAGCTGTGCACAGCGTT-GCTGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGTTCCT-GT
droGri2 scaffold_15126:6391659-6391788 - TTGTGTCCTGG----------------------CAGGACATGGCCGTGTCGTAATTAGCTGTGCAGAACGTA-GCTGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGTTCCTGTG

dme-mir-289 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:13613907-13614035 + TAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTT----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droSim1 chr3L:12997848-12997976 + TAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droSec1 super_0:5775586-5775714 + TAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droYak2 chr3L:13706954-13707082 + TAC------------------------GGTTCTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCTCTCGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droEre2 scaffold_4784:13614855-13614983 + AAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACGGACTGGGGTAACTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droAna3 scaffold_13337:21827571-21827739 - TTC-CGGCACTCCGGCATTCCAGCTC-GGGTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGACTCTG----CTACTGCC---ACTGCCACTGCCACTGCCACTGCCGCTC------------------------GGGGAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
dp4 chrXR_group8:6818889-6819024 - TATCCG------------------TCGGGTTTTTAGGTTGA-GTTTACAGTGAAATAAATATTTAAGTGGAGCCTGCGACTGG---GACTC----------------------------------------CAG-----CTCTCCGACTGGGCTAACTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droPer1 super_36:488140-488275 + TATCCG------------------TCGGGTTTTTAGGTTGA-GTTTACAGTGAAATAAATATTTAAGTGGAGCCTGCGACTGG---GACTC----------------------------------------CAG-----CTCTCCGACTGGGCTAACTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droWil1 scaffold_180698:607141-607313 - TTT------------------------TTTTTTTAGGTTGAAGTTTACAGTAAAATAAATATTTAAGTGGAGTC---GACTGTGTCGACTACAGCCCGGACTACC---CGGACTGCTAGAACGACTCGGTTCCGACTCTTTTTCTGTCGGGGTAAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droVir3 scaffold_13049:19817984-19818083 - ---------------------------GTTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTGAAGTGG---------------------------------------------------------------------------GCCT-GGGGAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCCGT
droMoj3 scaffold_6680:7513468-7513568 - G--------------------------GCTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTGAAGTGGGCCC----------------------------------------------------------------------------GGGGAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCCGT
droGri2 scaffold_15110:17555344-17555443 + ---------------------------AGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTGAAGTGG---------------------------------------------------------------------------GCCT-GGGGAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCCGT

dme-mir-4942 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:23332312-23332452 + TATGACATCTGCCTGTT-----------ATGAA-------TACATATATT-TTTATGTTTG--AG-TCAACATC--GA------------------------------------------GTTGCCGATGTTTGG---AAAACATCGATGACATCGCT----------GTTGGCATCGA----AATATGTCCATATCTAATATATAGTTCCATTCTGTTTTATT
droSim1 chr3L:22456065-22456207 + AATGACAGCTGCCTGTT-----------ATAAG-------TAATTGTATT-TTTATGTTTG--AGCTAAACATC--GA-----------------------------------------TTATGCCGATGTTTGG---AAAACATCGATGACATCGCT----------GTTGCCATCAA----AGTATGTCCATATCTAATATATAGTTCCATTCTGTTATATT
droSec1 super_41:217199-217341 + AATGACATCTGCCTGTT-----------GTAAG-------TAATTGTATT-TTTATGTTTG--AGCTAAACATC--GA-----------------------------------------TTATGCCGATGTTTGG---AAAACATCGATGACATCGCT----------GTTGCCATCAA----AGTATGTCCATATCTAATATATAGTTCCATTCTGTTATATT
droYak2 chr3L:23917805-23917956 + TATGATATCTGAATATTTAGTTTTTCTTTTGC---------ATATTTATT-TTTAATATTG--AGCTTCACATA--TA-----------------------------------------TATTGCCGATGTTTAC---AAAACATCGATGACATTGTT----------TTTGGCATCGT----CATATGCCCATCACTAATATATAGTCCCCTTCTGTTTCATT
droEre2 scaffold_4784:22817455-22817604 - GGC---ATCTGTATAGG-----------ATGAA-------TAAATTAATT-TTTAAGTTTG--ACCACAACTTT--CA-----------------------------------------TTTTGCCGATGTTTAG---AAAACATCGATGACACCGCA-----TCATCGTTGTCATCGACTTACATATGTACATCTCTAATATATAGTATCATTCTGTTTTATT
droAna3 scaffold_12916:14167403-14167537 + TGCT---------CGTT-----------AGAGA-------TGAT-AAACA-TCGATGTTGGCTTGCCAAACATC--GA-----------------------------------------TGTCAACGATGTTTTC---AAAACATCGATGACATCGAT----------GTTAACATCGA----TGTTTCTCCACCTCTGACCACTGGAGTGAATTATTTTTAGT
dp4 chrXL_group1e:10317112-10317245 + TCAAACATATTATTTTT--------ATTGTAAATATCCTA----------------GTTAT--GGTGTAAATCT--GA-----------------------------------------AAATATCGATGTTTGAGAAAAAACATCGATGACATCCAT----------GTTAACATCGA----TGTTTGTCCAGCTTTAGCTTGCATCCCTAGCTTG-------
droPer1 super_69:203478-203603 - CATATT-----ATTATT-----------GTAAATATCCTA----------------TTTAT--AGTGTAAATCT--GA-----------------------------------------AAATATCGATGTTTGAGAAAAAACATCGATGACATCCAT----------GTTAACATCGA----TGTTTGTCCAGCTTTAGCTTGCATCCCTAGCTTG-------
droWil1 scaffold_181155:90645-90784 - TATTGTTTCCGCCTCTT-----------CTGAT-------CAATCTATTT-CTAATTTATT--TGCT-AACTT---CTTCTCGACTACGTACATATCTACTACGTACAACTCTAGTCAGATATATCCATATCCTATAACG-----------------------------------------------------------AAATCCAACTGCATTCTTAATCGTG
droVir3 scaffold_13036:829247-829384 - TTTATCGTTTATATTTGAAATT------ATTAA-------TTAAATTATT-ATTATTTTTA--AGTAATACAAA-----------------------------------------------------------------ATAAATTAAGGAAATAAAAGTGCAAATTTGTTGTTTTCAA----AG-ATACATTTAATTAATTTTTATTTTTTTTTTATTTTATT
droMoj3 scaffold_6500:19787300-19787437 - TATTATG---AGCTGAA-----------ATAAA-------TATAAAAATA-TTTA--ATTA--AATTCAACAAAATGATGTC------------------------------------------TAGATATTAAA---AAAAAAAAAAAAAATAAAAT----------ATATATATATA----TATATATATATATAT-ATATATATATATATTTTTTTTTTTT
droGri2 scaffold_14853:4224791-4224937 - TATATC-TATGCGTCTGTAGATACT----TGCA-------TAAGTGTATCATCTATGTACG--GTTTACATATA--GT-----------------------------------------GT---ATGGTTTATAA---AAAATATTTCTCAATACGCC----------GTTAGTACAAA----AAAAAAGTAGTGTATAAAAAATGCTTGCACTTTGTTTTAGT

dme-mir-4943 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16528359-16528506 - ATTTTAAACAACTA-TTTCGG-------ATCGTTTG---------------AATGACCAATTTTGT-------------CTTTTATTTTCTCT--G--------------T-G-----TTTT-----CAGTTAATG-AAAGAT-AG-TGAACACAGTGCTAAATGAAAGATAATGAGACCCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droSim1 chr2L_random:601476-601603 - ATTT------------------------ATTT-TTG---------------AATGACCAATTTTGT-------------CTT---TCTTCTCT--G--------------T-C-----GTTT-----CAGTTAATG-AAAAGT-AG-TAAACACAGTGCTAAATGAAAGAGAATGAGACCCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droSec1 super_7:174891-175018 - ATTT------------------------ATTT-TTG---------------AATGACCAATTTTGT-------------CTT---TCTTCTCT--T--------------T-C-----TTTT-----CAGTTAATG-AAAAGT-AG-TAAACACAGTGCTAAATGAAAGAGAATGAGACCCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droYak2 chr2R:4574442-4574584 + ATTTTATAAAACTA-TGGGGG-------ATAC-TTA---------------GATAATTAATTTTGT-------------CAT---TGTTCTTT--G--------------T-C------TTT-----CAGTTAATG-AAAAGT-AG-TAAACACAGTGCTAAATGAAAGAGAATGAGACGCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droEre2 scaffold_4845:19592406-19592554 - ATTTTATGCAACTA-TTGTGT-----GTATCT-TTA---------------AATGACTAATTTTGT-------------CAT---TCTTCTCT--G------TTT-----T-T-----TTTT-----CAGTTAATG-AATAGT-AG-CAAACACAGTGCTAAATGAAAGAGAATGAGACGCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droAna3 scaffold_12916:16031637-16031788 + ATGTT------------------------TAA-ATG---------------ATTAAAAAATTATGTTCAACTAATTATTAA-------TTTAT--A------TTTT-ATTGTCTTCCCATTA-----CAGTTAATGAAAAAGT-AATTTAAAAAATCGCTAAATGAAAGAGAATGAGACCCAGTCGACATTTCCC---------AAGAAGACCATGTTGATTG
dp4 chr4_group3:8251613-8251715 - TT-----------------------------------------------------------------------------------TGTTCCTTTTC--------------T-C-----TTTA-----CAGTTATTTGCCAAGC-AG--AAGAAAAGTGCTAAATGAAAGAGAATGAGACACAGTCGACAGACGAA---------CAGAAGACGATGTTGATTG
droPer1 super_1:9700572-9700674 - TT-----------------------------------------------------------------------------------TGTTCCTTTTC--------------T-C-----TTCA-----CAGTTATTTGCCAAGC-AG--AAGAAAAGTGCTAAATGAAAGAGAATGAGACACAGTCGACAGACGAA---------CAGAAGACGATGTTGATTG
droWil1 scaffold_180772:4810613-4810759 - AAGTTTACCAATTAATAGCAA-------ATTG-TTGGTATTTCCATTTTAAAATTGCTAACATTTA---------CCTTAA-------TTTCT--C------TTCT-TTTC-T-----TTTT-----CAAT---------TCC-AG-CTTACGTTGCTATAAATGAGAAAGGATCAA------------GATCAA---------ACGAAAAGGATGTTGATTG
droVir3 scaffold_13052:1601321-1601473 - ATATTGCGCAACCA-TTCTGGTCCGAATTTCA-TTG---------------AGTCAGTCATTTTGG----GTAACTCTT------------GA--GTTTATTTCTTAATTGTC------TTTCGCTGAAATTGTGCAATAAAT-AA-CA---ATTT---------------TACCATCAGCATTAGCCAGCACAC---------ACACGCACGCTATCGGTTT
droMoj3 scaffold_6500:21042727-21042874 - AATTA------------------------TAA-TTG---------------AACACTTGA-TGCGATTGCCAAATTTTTGAT---TTTTGGTTCTA--------------T-T-----TTTA-----GAGTTACAG-CTAAAT-GA-AA---ACTATACCAATTATAAAATCAAAAGGGCTACACAAGAACATTTATGATTTCAAAGAAAAGTGTTTCATTTG
droGri2 scaffold_14822:853797-853916 - GCATG-----------------------------------------------ATGACTTGTGGTCT-------------CTA---TTCTATAT--G--------------C-T-----GGTT-----GAGTTTGTG-AATGGTCAG-TTGCCGTGGCGAAAGATAAAAGACAAG--GAACAGGTTGGATTGACCA---------AAGAGAAATATGATCATAG

dme-mir-4957 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15213971-15214085 - CTTTTTTTT--------------CTCTGCTC----GT-----------------------T--GTA--------TTTTACGCA--CTCTGCTGGCAGCG---CTGTCGGC---GTCGCTGCCAGCTGCCAGCAGCGAGCGGTACACTT--------GCAACTATC-----CTGT-GCACCCTACAATT
droSim1 chrX:11736931-11737042 - CTTTTTTTTTTTT----------CTCTGCTC----GT-----------------------T--GCA--------TTTTACGCA--CTCTGCTGGCAGCG---ACGCCGAC---AGCGCTGCCA-------GCAGCGAGCGGTACACTT--------GCAACTATC-----CTGC-GCACCCTACAATT
droSec1 super_56:101687-101796 - CTTTTTTTTT--T----------CTCTGCTC----GT-----------------------T--GCA--------TTTTACGCA--CTCTGCTGGCAGCG---ACGCCGAC---AGCGGTGCCA-------GCAGCGAGCGGTACACTT--------GCAACTATC-----CTGC-ACACCCTACAATT
droYak2 chrX:9414156-9414285 - TTTTTTT----------------CTCTGCTC----GTTTTTCTCTCTTTTTCTTCTCGCCT--GCA--------TTTTACGCA--CTCTGCTAGCAGCG---ACGCCGAC---TGCGCTGCCA-------ACAGCAAGCGGTACACTT--------GCAACTATT-----CTAT-GCACCCTACAATT
droEre2 scaffold_4690:11807313-11807440 + TTTTTT-----------------CTCCGCTC----GTTTTTCTCTCCTTTTCTGCTCGCCT--GCA--------TTTTACGCA--CTCTGCTGGCAGCG---ACGCCGAC---TGCGCTGCAA-------ACAGCGAGCGGTACACTT--------GCAACTATT-----CTGT-GCACCCTACAATT
droAna3 scaffold_13117:1427273-1427395 - ATTTTTCTTC---CCATGCAACC-TGTGTCC----AT-----------------------TGTACG--------TTTTACGCA--CTCTCC--CCAGCA---ACACCGCC---GCCGATAGCG-------ACTGCGACGAGTACGTTG--------GCAGCGGCACTTGACTCT-TTTTGCGGCAATT
dp4 chrXL_group1e:12152468-12152588 - CTTTAGCTTT---TTG--------------CGTTTGCGTTTGCCCCGATTTCAATGCA-AT--GTG--------TTGTACGCA--CACGGGTT---TTT---ATCTCAGC---TGTGGGATGA-------ACGGC--CCGAGACACTT--------GC--CGATG-----CGGC-GA-CCC--CAGGC
droPer1 super_14:1456573-1456693 + CTTTAGCTTT---TTG--------------CGTTTGCGTTTGCCCCGATTTCAATGCA-AT--GTG--------TTGTACGCA--CACGGGTT---TTT---ATCTCAGC---TGTGGGATGA-------ACGGC--CCGAGACACTT--------GC--CGATG-----CGGC-GA-CCC--CAGGC
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12928:4095173-4095244 - CTCTTTATTG---CAA--------------------------------TGCGAC-----------------------TACGCATGATTTAGGCGCAGGT---TGGTCG----------------------------------ACACTT--------GCATTGGTT-----GC--------AAGTACTT
droMoj3 scaffold_6680:3750941-3751063 - TTTGTTTTTG---TTT-----------TCTT----TT-----------------------T--GTAGCCTAGGAATTTACC-----TCTTGTGGCATATCAGCTGTTGGC---TTTGGTTGCA-------AACACACG--TTGACTTTTCACACACAGAATTCTG-----TTGAAATGTTTAACACTT
droGri2 scaffold_14853:566008-566117 + CTCTTTTATT----------------------------------GCAATGAGACTGCG-AC--GCA--------TGATTTGGG--CGCAGG-------T---CTATCACCACTTGCACTGACG-------ACTGCTTTTGCTTTTGCT--------ACTACTTTT-----ACTT-GCCAGCGGAACTT

dme-mir-4964 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:8859818-8859960 + TCGCCATGCTTCGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTATATTTTTTTATATGGTACGTATTTATTTGTCTGCAAATGGCTGCCAAG-----------------------------------GAGT---------------------GCTACATAATCAATTTGTTTG-TT
droSim1 chrX:7057967-7058102 + TCGCCATGCTTCGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTATATATATTTATA-------TACGCATTTGTCTGCAAATGGCTGCCATG-----------------------------------GAGT---------------------GCTACATAATCAATTTGTTTG-TT
droSec1 super_34:222375-222488 + TCGCCATGCTTCGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTTTATATATT-----------------------------TGGCTGCCATG-----------------------------------GAGT---------------------GCTACATAATCAATTTGTTTG-TT
droYak2 chrX:12451967-12452096 - TTGCCATGCTTGGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTGTAGATA-------------TATGTATTTGTCTGAAAATGGCTGCCAAG-----------------------------------GAGT---------------------GCTACATAATCAATTTGCTTA-TT
droEre2 scaffold_4690:6251913-6252052 - TTGCCATGCTTGGACAATT----------------------------TT---------------------------TGAATGGTCCTTTC----------CATCCCCAAGG---------------------CGAATAAATATGTTTGTGTGTACGAGTATATATTTATA---------------TATGTATCGGTCTGCAAATGGCTGCCAAT-----------------------------------GAGT---------------------GCTTCAAAATCAAATTGTTTG-TT
droAna3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp4 chrXL_group1e:8134181-8134346 + TTTCCATGCTTGGACAATT---------------------------CTT---------------------------TGAACGGTCGTCCCT----TTTTGCCAGCCCAAGGGGGGAGGGATGGGGGGGGGGGGGAATAAATAT--------------ATCAACAA----AAA-------------TAC--------------------------TCGTAAGGCGAATAATGGCAACGTCTGGGGTGAGC----GATTGAGAGTTGTATCTGGAAGCTATATAATC-------------
droPer1 super_13:433852-434017 - TTTCCATGCTTGGACAATT---------------------------CCT---------------------------TGAACGGTCGTCCCGCCCGGTTTGCCAGCCCAAGGGGC----GGCGGGGGGAGGGGGGAATAAGTAT--------------ATCAACAA----AAA-------------TAC--------------------------TCGTAAGGCGAATAATGGCAACGCCTGGGGTGAGC----GATTGAGAGTTGTATCTGGAAGCTATATAATC-------------
droWil1 scaffold_181150:832777-832852 + ATGTCTTCCATTCCCTATT----------------------------TG---------------------------CGTATTTTCTT------------------TCAGTA---------------------TAAATGAATAT------------GTATGAGTCG----AAA-------------TAC--------------------------CTATA------------------------------------------------------------------------AATG-AT
droVir3 scaffold_12726:2732407-2732514 + TGGA------TCAACAAAT----------------------------GCCGCACATTTCTTTCTTGCTTTCGTTCACAATTTCTCTT------------------GTAATA---------------------TAATCAAT-TT------TT----ATTCAATTC-------------------------------------------------------------------------------------ATAC---------------------GATTCACATTCAATTCGTTTGACT
droMoj3 scaffold_6500:9117978-9118115 - CA----AGCTGCGACTATGTAATTAAAATTGTATGTATCAGCGGGTC-T-----------------------AT----------------------------TGCTATGTG---------------------TGTATAGGTGT------------GTGTGTGTGTGTATG---------------TGTGTGTATGTGTGCATATACAAAGCCAT-----------------------------------AATA---------------------GCATAAAACTCGATAAGCCTG-GC
droGri2 scaffold_15110:597989-598133 + TCGCCATATTTCGTTGAAT---------------------------T-C-----------------------TT----CGCCATATATCG----------TATGATTT---------------------------ATATATAT------ATATATAAATATATATATATATTTCGGCTCCAAATATTTTTTATATTTTGCAAAGACTTGCTGTG-----------------------------------G--TTTTTCATAAGTGAGTTTGAAT-----------------ATTG-TA

dme-mir-4968 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:11545623-11545808 - AAACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAACAGCAGCA---------------GCAGC------A------------------------------------------------------------------GAAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droSim1 chr3L:10929570-10929746 - AAACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAG------------------------------------------------------------------------------------------------AAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droSec1 super_0:3745423-3745605 - AAACTGCATTCGAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAGCA---------------GCA---------------------------------------------------------------------------GAAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droYak2 chr3L:11579958-11580167 - AAACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAGAA---------------GCAGC---AGCAGCAGC----------------------------------AGTAGAAA------TAGCAGCA-----GTAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droEre2 scaffold_4784:11545792-11545968 - A-ACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAG------------------------------------------------------------------------------------------------AAGCAACAGCAACTGAACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droAna3 scaffold_13337:5830221-5830437 - AAACTGCATTCAAGTTTTGTTTTTGTTATTTTTT-----------------------CTTTGC--TTCT-GCAACTATT-GCTGGTTAGCTGCTAGTTG------------------CTGC----TGCTGCTGCT-GCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGTAGCAGTA---------------GCAGT---GGCA----------------------------------------------------GAG---GAGACAGAGGAGCCACTGCAAC--AACTGCAACAA---AACAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
dp4 chrXR_group6:10126891-10127089 + AAACGGCATACAAGT-----------TTTTCC-TCGCCAAACACAAAGCGTTTTAGCCAGAGCTCTTCT-GCAACTATT-GCTGG-------TTG-TAG------------------TTGT----AGTT-------GCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCGGTGGCA---------------GCGGT---GGCA----------------------------------------------------GCG---GTGGCAGCGG-----TGGCA------------------GACGGCAGCCCCCGAGTTCAGTTGCAAAAC-CGGCG
droPer1 super_4:4953737-4953917 + TTTC-GTTTTC--GT-----------TTTCATTT--------------------------CGC-----T-GT--AA----ACAAG---C--GATT-TTG------------------TTGC----TCTTTCTGCTCGTAATTGAG-A-------TAAATGCATTTT---AAATGCGCAAC--CGCAGCTGCA------------------GCAGCAGCAGCA----------------------------------------------------GAGGCAGCA-----GTTGCAACAGCAGCT-AGCTTCAACT----GGTTGCAGTT-GCGTATGCAGATGCGATGCAAGGCG
droWil1 scaffold_180698:2057599-2057768 - ACACTGCAGACAAGTTTTAAATGCCTTTTTTT-T-----------------------CGTAGC-------------------TCT---CTTGTTG-TTGTTGTTGCTAA-GT--------C----TTCTGCAACTA-TTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAGCG---------------GCAG---------------------------------------------------------------------------------CAGCA------------------AGCGGCAGCT-TCGAGTTCAGTTGCAAAAC-CGGCG
droVir3 scaffold_12855:885802-885977 - AGGATATGGGCGATT-----------GTCTTA-T-----------------------CAGTGG-----TGGTGCCG----GACCA---GCTGTTA-GTG------------------CCGT----TGCTGATGCCAGCGGCAACCTT-------TTGCTCGATCAT-CATCACCATCATC---------ATCAT--CAACAACAGCAGCAGCAGC------A----------------------------------------------------G--------------CAGCAGCAGCAACA-ACAACAACAGCAGCAACAGCAGCA-GCTACTGCAG---------------
droMoj3 scaffold_6496:11355914-11356095 - AAACGAAATGAAACT-----------TTGTGC-G-----------------------CATAG--------GCAACCAACAGC-GG-------CGG-CAG------------------CAGC----AGCAGCAG------------------------------------------------------------------------------CAGC---AGCAGCAGCGCCAGCATCGCTGAGACTTTGACGCGTTGGCAAAAGAAGCAGCAGCAG------CA-----GCAGCAACAGCAAC--AACAGCC--GCAGCAGCAGCAGCA-GCGACGGCAGCAGCAGAAA-CGTCG
droGri2 scaffold_15110:4649694-4649883 + CAAT----------T-----------TTCTCA-T-----------------------CAGTTT-----C-T-------------------TGCCG-ATGATGAAGCAAATGTCATCGCTGCAGAATGTTGCATTTCGC-GCCAAGATGGGTGAGCTGCTGCTGC---------ACACAATGCAACAATCACAAATGCAACAACAGCAGCAACAGC------A----------------------------------------------------GCAGCAGCA-----GCAACAACAACA--------GC--AACAACAACAGGAGCC-G---ATGCAGCAGCA------ACCG

dme-mir-4975 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:2594652-2594793 - TAGAACTGGAAATCTGGGCAAATAA--AGCACGTTGCTCCCTGTTTACTTGGGTTTTCTG----------------------------TTCATTTCGCCTATCGAACGTTGAACTTAAAAAGCCACGATCAGTTGTTTAACATACAGATATCTCTGTACACAAGAAGATTCA
droSim1 chr2R:1414726-1414867 - TAGAACTGAAAGTCTCGGCAAATAG--AGCACGTTGCTCCCTGTTTACTCAGGTTCCCTG----------------------------TTCATTTCGCCTATCGAACGTTGAACTTCAAGAGCCACGATCAGTTGGTAAAGATACAGATATCTCTGTATACTAGAAGATACA
droSec1 super_1:259050-259190 - TAGAACTGGAAGTCTCGGCAAATAA--AGCACGTTGCTCCCTGTTTACTCAGGTTCCCTG----------------------------TTCAGTTCGCCTATCGAACGTTGAACTTCAAGAGCCACGATCAGTTGGT-AGGATACAGATATCTCTGTATACTAGAAGATACA
droYak2 chr2L:15337545-15337682 - TAGAAATGAAAATCTCGGCAAGTAA--AGCACGTTGCTCCATGTTTACTCAGGTTTGCTG----------------------------TTTATATCGCCTATCAAACGTTGAACTTGA---ATCACGATCAGTTGGTCAACATACATATATTTGT-CACACTAGGTGATCCA
droEre2 scaffold_4929:19950710-19950840 + TAGGACTGCAGATCCCGGCAACTAA--AGCACGTTGCTCCCAGTTTACTCAGGTTCGCTG----------------------------TTTATATCGCCTATCGAGCGTTGAACTTGAGGAGCCACGATCAGTTGGTCAGCATACATATA-----------AAGATGATCCA
droAna3 scaffold_13266:18414789-18414883 + AAGTCTA----ATTTCGGT------------------GCCTTGTTTACTTCGCTCTCCGGCGGAGAGCTGCAGTGCACGAGGTGTCTAATCGGCCAGCCCATAGAGCAATGAACTT--------------------------------------------------------
dp4 chr3:859167-859237 - TAGCACAGAAAATCTCGGCAATCAAAAAACACGCCGTT-TCTGTTTACGTTACTTCTCGT----------------------------CCCGTCCCGTCT------------------------------------------------------------------------
droPer1 super_2:1035040-1035110 - TAGCACAGAAAATCTCGGCAATCAAAAAACACGCCGTT-TCTGTTTACGTTACTTCTCGT----------------------------CCCGTCCCGTCT------------------------------------------------------------------------
droWil1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-4985 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:20181738-20181869 + ATAAAAAGTATGTCACT------------------T-GGGG-GCGCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGAATGGAAAATGTCGCCG-----------------------------------------------------------------------------------------------------------------------------------------------AGCCATGTAAATCGTTTGGCCTACCCGTCTACCA-GCCAACC----AACCA
droSim1 chr2R:18643325-18643449 + ATAAAAAGTATGTCACT---------------TGGTG-GGG-GCGCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGGAAAATGCCGCCG-----------------------------------------------------------------------------------------------------------------------------------------------AGCCATGTAAATCGATTG---------AAGGCC-C-GTGGCC----AACCA
droSec1 super_23:61187-61303 + ATAAAAAGTATGTCACT---------------TGGTG-GGG-GCGCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGGAAAATGTCGCCG-----------------------------------------------------------------------------------------------------------------------------------------------AGCCATGTAAATCGATTG---------AAGGCC-C-GTG------------
droYak2 chr2R:20147877-20148015 + ATAAAAAGTATGTCACT------------------G-GGGG-GCGCTGCACT---------GGCACTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGCGAAATGTCGCCAAACGAAAAA----ATAAATCA----------------------------------------------------TAG------------------------------------------------------------------------TGTAACTCGTTTG---------AAGGCCACACCAACT----AGTAA
droEre2 scaffold_4845:21546843-21546980 + ATAAAAAGTATGTCACT---------------A----GGGGGCTTCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGGAAAATGTCGCCGCACAAAAAA--------AGTG----------------------------------------------------TAG------------------------------------------------------------------------TGTAAATCGTTTG---------AAGGCC-C-ATGGCCAACCAACCG
droAna3 scaffold_13266:14229911-14230049 - AAAAAAAGTATGTCACA---------------C--TG-GGG-GAACTGCACT---------GACATTGAAAAACTGAA------TTACATTGGACGGTGGATGGG-------------------------------------------TGGACTGATGGACTGATGGACTGACAGCCA-------------------------------------------------------CGATCATC--------ACTAGCGTCGCAGTTAAGTTATGTAA-------------------------------------ACCG
dp4 chr3:18492568-18492741 - GTAAAAAGTATGTCAGAGAAGAGAAGAGAACACAGTGGGCG-CTGCTGCACT---------GACATTGAAA-AGTGAA------TTGCATTGATCATGACGGGGGGTTGA-------CGCTG-------------------------------------------------ACTGCCACGAACCGCTCAGAACAATAGTGTAAATGTGGAATAATGCTCG--------------------------------------------------TAGAAC-CCATTC---------G----CA-GTCCATG----GGCTG
droPer1 super_45:328754-328870 - GTGAAATGTATTTGAAA---------------------------------CG---------AGTAACGGAA-ATTGCA------TTATTTCAATTACAAA-----------------------------------TCCAATGAGAGGGAGAGGG-------ACAGGGA----C---------------------------------------------AGGG-------------------------------------------ACCCAGCACAA-----------CCCTAGGAGCCA-GCCAGCC----AGCCA
droWil1 scaffold_180949:4063354-4063494 - ATTGAGGGCGTGATTTA------------------TG-CCC-GATCTACCCC---------ATCATTTAAT-GTTAAAGACAATGCTAATTGGCCATTAAAATAGGCCG-----------CA------------------------ACAGACAC-------AAATAGT----T---------------------------------------------TGGGACCTA------AAATCAAA-------------------------------------------GCCAACCGACCACCA-GCCAACC----AGCCA
droVir3 scaffold_12875:7276052-7276211 + GG----------------------------------------GCGCTGCATTTGCCAGGCCAGAGTTAAAA-AGTGAA------TTGAATTGGCCGCTTGATTGA-------------------------------------------CAG-CCGACGGGCTGA-------------------------------------ATATGTGCAGCAATGCCAACAAATCGATGCCAAAGTCAGTGTCAGTCCCACGTAATCGACAATCAGTTATTTAC-----------------------A-TACGAGC----CACAA
droMoj3 scaffold_6473:1699609-1699741 - ATAATCTATTAGTTATT---------------TAATA-TAT-GT------------------------------CAATCATTCAGCCACTCAATCATTAA-----------------------------------GTTAATCAACGAGTAACTC-------AATCAGT----C---------------------------------------------AGTCATTCAGTGCCTCAATCGTT----------------------------------------AAGTCTTCCAATAAGTCA-CTCAATC----AGTCA
droGri2 scaffold_15203:4626832-4626941 - GCCCATGCCA--------------------------------------------------------TAAAA-AGAGTT------TTGAACTAATCTTAAGCAGGCAGCGCAAATCGCTATAAATCAG-CTTTCTATTCTT--------------------------------------------------------TG------------------------------------------------------------------------TT---------TTGCCCCACTGTGCACCA-GCCAGCC----AGCCA

dme-mir-954 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr4:646737-646853 + GACTCATGCA--------------------CGTCT-TACAAACACAAGATTTTCTGGGTGTTGCGTTGTG------------TG--------TACCTGTGTACAGGCGTATTCACATGCA--------ACATCCCTTACATCTTGCTTGATTATACTCCGCCCG---------------------------------------------------------------CC
droSim1 chrU:391095-391211 + GACGCATGCA--------------------CGTCT-TACAAACACAAGAATTTCTGCGCGTAGAGTTTTG------------TG--------TACATGTGTACGTGCGTATTCACATCCA--------ACATCCCTGACGTCTTGCTTGATTATACTCCGCCCG---------------------------------------------------------------CC
droSec1 super_30:369242-369358 + GACGCATGCA--------------------CGTCT-TACAAACACAAGAATTTCTGCGCGTAGAGTTTTG------------TG--------TACATGTGTACGTGCGTATTTACATCCA--------ACATCCCTGACGTCTTGCTTGATTATACTCCGCCCG---------------------------------------------------------------CC
droYak2 chr4:700584-700681 + GACTCATGCA--------------------CGTCTTTACAAACACAAGATATTCTACGCGTTGTGTTTTG------------TG--------TACAT--------------------GCA--------ACATCCCTGACGTCTTGCGCGATTATACTCTGCCCG---------------------------------------------------------------TC
droEre2 scaffold_4512:633126-633238 - GAGACATGCA--------------------CGTCTTTACAAACACAAGATATTCTGCGCGTTGTGTTTTG-------------ACATGTATGTACAT--------------------GCAACCGTTATGCGTTCCAAGGACCCTATTAGATCGGAACACGGTCA---------------------------------------------------------------GT
droAna3 scaffold_13337:22987804-22987813 + TCCGCCCGC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T
dp4 chrXR_group8:8504771-8504835 + CT----------------------------------TACAAATTCTAGAATTTCTGTCTGTCTGTCTGTCTGTTTTTGTGTGTG--------TATGT----GTGTGTGTGC----------------------------------------------------------------------------------------------------------------------
droPer1 super_150:7787-7872 - AATGCATACA--------------------CGATA-TACATACATATGTGTGTGTGTGTGTGTGTGTGTG------------TG--------TGTGTGTGTGTGTGTG----------TA--------GACGTATGTGTAT-----GTGA-------------------------------------------------------------------------------
droWil1 scaffold_181130:1758155-1758267 + CACTTTTGTG--------------------CTGCG-TGTGAGT----GTGTGTGTGTGAGTTTAAGTGTG------------TG--------TATGTGCGAACATACGAATTTAGATAAA--------GATTCGTATACACATGACATTCGCATACTCACACCT---------------------------------------------------------------AC
droVir3 scaffold_13049:11239836-11239930 - TACATACGCA--------------------CA----TACATACATAGGTGTTCGTATG----------TA------------TG--------TACGTATGTAGGTGTG--CT---ATACACCCGTCAAAAGAGCTAATTTCCTTTCTTGGTTAT---------------------------------------------------------------------------
droMoj3 scaffold_6500:15364731-15364841 + GGGTCAGGCAAATTCGAATGTGAATTCAAAATACA-TACATACATATGTACAT---------GTATTGTG------------TG--------TGCAAGTGTACATGTGTGCTCACATGCA--------AACTCACTTACATAATGTATG--------------------------------------------------------------------------------
droGri2 scaffold_14822:646607-646724 + AACAAATGCA--------------------GCGCA-TGT----------------TT------------------------------------------TGATTCACAAGCCTGAACATA--------TCCTAGCATAT------------C------------GTTGGTAACGGGGCTCTGCAGAATACACACACAAACATATTGATGCTCGCGTTGATTATCATGCC

dme-mir-979 antisense_to_3pUTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19455855-19455979 + TTAATCAC---TGGAA-----------------------CATACATGTGAG-----------GATGTCACAAATACA--------------CTGA---ATTTGGGGGGAATTCT--------TATGTATATAC-AAATTCTTCCCGAACTCAGGCTAATTTTGTG---------------GCA---------------------------TCCGTATACACAAAA----------------------------------GT------ATA
droSim1 chrX_random:5079602-5079664 + TTAATATA---C--------------------------------------------------------------------------------------------------------------------------AAATTCTTCACGAATTCAGGCTAATTTTGTA---------------GGA---------------------------GCCGTATATACAAAA----------------------------------GT------ATA
droSec1 super_8:1738459-1738521 + TTAATATA---C--------------------------------------------------------------------------------------------------------------------------AAAATCTTCACGAATTCAGGCTACTTTTGTA---------------GGA---------------------------ACCGTATATACAAAA----------------------------------GT------ATA
droYak2 chrX:11883259-11883281 - TTAATGGC---TGGGA-----------------------AATAC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GT------AAA
droEre2 scaffold_4690:9691773-9691867 + TTAATCGT---TGGCA-----------------------AATACGTATGG------------GGTGCCACA------CAAATCGATTAGCTCTGA---ATTCGGGCGGAATTCTGAAGCACGCAT-----------------------------CCACTTTTGTA---------------GCA---------------------------TCC---------------------------------------------------------
droAna3 scaffold_13417:2459297-2459411 - TAAGTTAC---TTATA-----------------------ATTAAATTTAAA-----------TATTTCGAAATAAAA--------------CTATAAAATAATTGTCTTATTTCAG------------------AAAATATGTACATATTTATACCAATCTT--------------------------------------------------------------------------------TACATATTTCAATAAAAAT------ATA
dp4 chrXL_group1e:12509670-12509797 - TTAAGCAT---TTTAATTTTTGTATTTTTCAAGATCGAAAATATTTATGC-GCGTAAATTTAAGAGTAAGTCCTTA-GTAAGTAAGGAAG-------------------AAC------------------------------------TACGCTCTGGATTTGAT---------------ATA---------------------------CTCGTGAAGTTAAAA----------------------------------CA------ATA
droPer1 super_14:1989251-1989367 - CTAAGTCA---TCGTG-----------------------CGCATCTGTTGG-----------GGAGTAAAAACTAAA--------------A-------TTAGAGTGGAAACTC--------TATTTTGAGTTGAATTTTTCCATGAAAATCTGCTACATTTTGG---------------G-T-----------------------------------------------------------------TTTAAATTTGTAT------TTT
droWil1 scaffold_181096:7961895-7962008 + TAGATTATGATTAGAATAAGCACACACAACACACGCACA-----------------------------------------------------------------------CACACACACACACATCTATATAT-AAATCAACCAAGAAAACA---CAATATCGAA---------------GAAA--------------------------TTAGAAAGTATATAT----------------------------------AT------ATA
droVir3 scaffold_13042:902091-902097 - TCAATCA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6328:2896306-2896380 - ATGAGAAA---GGG----------------------------------------------------CTATA------GAAATTGATGACG---------------------------------------------ATATAATCCAAAACTAAGATTACAATAATA---------------ATA---------------------------ATaataaac-----------------------------------------a------aaa
droGri2 scaffold_15081:2040284-2040418 - TTGTAATT---TAAGA--------------------------------------------------------------------------------------------------------------------------TGAAGATGAAGACA----------ATAATAATAATAGTGATAGGAGTTGAAGAGCTTAAATGTAAACTGATAATTGTATATACAAAGTTGAAAATGTCATTCTCTGGTTATTGGATTAAAATGAGGACACTT

dme-mir-983-2 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4262501-4262629 - ATTATATGCATATGCTATTATATTGCAATAATTAAATAATACGTTTCGAACTAATGATTTTCAGTTCATTCATTAGGTAGTTACGCATTATCTAGTTGTTGTAAACATTCAACTCGATGGCGGATGAGA
droSim1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droSec1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droYak2 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droEre2 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droAna3 Unknown ---------------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------------

dme-mir-984 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4262664-4262783 - TGGCTTCTATTGCGTAGAAACAAATTTCATTGAGGTAAATACGGTTGGAATTTTGTCTTTTAACTATAAATCCAACCGAATTTGGCTCGGCGAAATTTTTCAGTTTACTGGCGTCGAAAA
droSim1 chrX:3277428-3277474 - TGGCTTCTACTCTCT--------ACTTCATTGCTTTGCATATGAT---------------------------ATCTTGCAGT--------------------------------------
droSec1 super_4:2462188-2462234 + TGGCTTCTACTATCT--------ACTTCATTGCTTTGCATATGAT---------------------------ATGTTGCAGT--------------------------------------
droYak2 Unknown ------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4690:1633226-1633277 - C---TTGTAA-ATGTACAAACAAATCTCAGTGTATAGCTTAAATC---------------------------CACCGGAATT--------------------------------------
droAna3 Unknown ------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6359:3791288-3791288 - T-----------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ------------------------------------------------------------------------------------------------------------------------

Mirtrons

dme-mir-2279 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2RHet:1322818-1322960 - TCCGATGACCCATGGCG----G--GAGAGGATTATGAAAGACAATTTGAAATTAAATATCTGTGT-GTGAAATTATT--------------TAAAAGATTAATTTCACGCGAAGATATTTAT----TTTTACATTTGTCCCTATAATAACCGGGGT----------------------------------------G---------------CCA---ACATACAT
droSim1 chr2R:265657-265782 + AGGC------------------A--------------------ATTTTCAATTAAATATCTGTGT-GTGGAATTATTAAAAACAATGAGTTCAAAGGTTTAGTTTCACGTAAAGATATTTATTTTG-TTTAAATTT-TCCCTAGAATAACCAGTAT----------------------------------------G---------------CCG---ACATAAA-
droSec1 super_55:122657-122779 + AAGT------------------A-------------------AACTTAAAATTATAAATATGTGT-GTGAAATTAATAAA--CGGTAAGTTCGAAAGTTTAGTTTCACGCGAAAGTATTTAT----TTTTACATTTGTCCATAGAATAACCGGGGG----------------------------------------G---------------CCA---ACATAAA-
droYak2 chr2h_random:1837227-1837349 - AAGA------------------C-------------------AACTTAAATTTTTATATCTGTGT-GGGAAATTAAGAAA--CAGTGAGTTCGAAAATTTAGTTTCGTGTAAAGTTATTTAT----TTCTGCATTTGTCCCTAGAATAACCGAGGT----------------------------------------C---------------CCA---ACATAAA-
droEre2 scaffold_4845:21278391-21278511 + CTCCATAACTCAACTT-ATCTT--AATCGGATTTTGAAGTGGCA---TACCT-CTAAATGTTTGTGGTGCAATTATC--------------TAAAAAACTGCATTCAAATTTAAAAATTTATTTTT-TTTACATTTTTTTGTA-----------------------------------------------------------------------------------
droAna3 scaffold_13334:5190-5293 + AAAA------------------AA-------TTAGTAAAAAAAATAATAAATAAAAAAAAATATG-GTGGGATTTTT--------------TAAAAGATATTTTTTATATGGCAATTGGT----------------------------------------------------------------AGTTAAATATTAG---------------TCT---TTTTAAGA
dp4 Unknown_group_37:8363-8450 + GGCAATGAGG--------------------------------------------------------------------------------TAGGAGGGACAATTTTGTAT-----------------------------TCTATAATTATCGTTAGACCTACGCAAAGGATACATTTTACTGCGGG----------T---------------TGT---ATATTTT-
droPer1 super_5473:1216-1318 + TATA------------------C----------------------------------GTGTGTAA-GTGGAACTATG--------------CAGGGGAATGATTTCACATGAAGAAAGTCGATTCG-CCTGTACC------TATTGCATTCC-TA-----------------------------AGCTGAGGTTT-A---------------AGC---TTTAACAT
droWil1 scaffold_180772:5217896-5218034 + GCCGTTGACCAGTGGCG----G--CG----------------CCAAAGTGC--ACATATTCTTGT-CAGAGTTAGCTGGATAGTATGTTCCTGAAAATTCAATTA-AAATTGAA-----------------------------AGAGGACTTG--------------------------------TTGCAATGAATTTTTTTTTAATATTTGTCTAGATTTCGACC
droVir3 scaffold_291:1622-1745 - AAAG------------------AA-------TCATTAGATAAATCTTTAAAATATAGATTTTTTT-TTACCATATTT--------------GTAATGATTTTTGGATTGCGAAATTTTTTAT----TTAAATTGTTAATTATATAATATATTAAAT----------------------------------------A---------------TTT---ATATATAT
droMoj3 scaffold_6473:7010400-7010528 + AAAGACAAAAAAAAAT-AAAAT--AA----------------AAAAAATAAACAAACAAAAGTGT-GTAA---------------AGAGTGCAATGCCAACAAATCATACGTAGATTTCTAT----ATTTACATATGTACATAAATATATATATGT----------------------------------------A---------------TGC---ACATACAT
droGri2 scaffold_14906:12727535-12727642 + TGCC------------------GAGAAGGG------------AAAACGAGAATACAATTTTGTTA-TATTATTTAATTTA--TCTTA-TCTTG------------------------------------TCCTTTTATTTGAAAGATAATTTGA------------------------------ATTTGAATAAATT---------------TAT---ATTTGTAT

dme-mir-2283 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:5343231-5343336 + GAAAACTCACTCCTGAGCTGCTCCGAAAATATCATGAATA-CG----------ACAATTATGTGCACATCATTTAGTATACGTGATATTTTAGGAGCAGCTAAATTATATTTAAAGT
droSim1 wcy63a10.b1:18-120 - A---------------GTTGTTCCGAAAAAATCAATTTTAATGACAGGATGGGCAGATAATTGGGACATCATGTTGTATACGTAATATTTTAGGAGCAGCTCAATTATATTTAAAGT
droSec1 super_0:16553595-16553710 - GACAACTCACTCTTGAGCTGCTCCTAAAATATCACGTATA-CGACATGATGTCCCAATTACATGCACATCCTGTCGTATACGTGATATTTTAGGAGCAGCTCAATTATATTTAAAGT
droYak2 chr3R:9394463-9394539 + GGCAACCCAC--------------------------TCTAAT--------------GTAATTGACACATCATGTCGTATACGTGATATTTTGGGAGCAACGCAATTATATTTAAAGT
droEre2 scaffold_4770:16257712-16257788 - GGCAACTCAC--------------------------TCTAAT--------------ATAATTGTCACATAATGTCGTATACGTGATATTTGAGGAGCAAGTCAATTATATTTAAAGT
droAna3 Unknown ---------------------------------------------------------------------------------------------------------------------
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ---------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ---------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------

dme-mir-2491 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:22235261-22235434 - ACTAAATGAC---A--CCACCGCGAACCACT---T--TGTGCC-----------------------------------------------------GCTGTTGCCTTTG----CA--------GTTGCTGTTTTCCATGTT---GCTAC-------------------------------------------------------------------------------TG-----------CGGCCAATTGTTGCGCATCAGCAACATCAACAAC------------------ATCAA--CA---ACAGCAGCAGCAACTGC---AGTAGCAG------C-ACTCGT-------------GATTCACTTTCGA-CT-CAATTCGTCGCTA-
droSim1 chrX:16981360-16981475 - ACTAAATGAC---A--CCACCGCGAACCACT---T--TGTGCC-----------------------------------------------------GC---------------------------------------------TGCTAC-------------------------------------------------------------------------------TG-----------CGGCCACTTGTGGCGCATCAGCAACATCAGCAAC------------------ATCGT-GCA---ACATC---------------------G------------------------------TTCAC-TTCGA-CT-CAGTTCGTCGTTA-
droSec1 super_39:188007-188112 - ACTAAATAAC---T--CCACCGCGAACCACT---T--TGTGCC-----------------------------------------------------GC---------------------------------------------TGCTAC-------------------------------------------------------------------------------TG-----------CGGCCACTTGTGGCGCATCAGCAACATCAGCAAC------------------ATCG-----------------------------------------------------------------TTCAC-TTCGA-CT-CAATTCGTCGTTA-
droYak2 chrX:21599490-21599638 - ACTAAATGGC---A--CCACCGCGAACCACT---T--TGTGTC-----------------------------------------------------GCTGTTGCCTCTG----CT--------GTTGCTGCTTTGCATGTT---GCTAC-------------------------------------------------------------------------------TG-----------TGACCACTTGTTGCGCATCAGCAACAGCAACGAC------------------A--------------------------GC---AACAGCAG------C-ACTTGT-------------GCTTCAC-TTCGA-CT-CGATT---CGTTA-
droEre2 scaffold_4690:18518767-18518923 - ACTAAATGAC---A--CCACCGCGAACCACT---T--TGTGTC-----------------------------------------------------GCTGTTGCC--TT----CT--------GTTGCTGCTTTGT-TGTT---GCTAC-------------------------------------------------------------------------------TG-----------CGACCACTTGTTGCGCATCAGCAACATCGACGAC------------------AGCAAAGCA---------------ACAGC---AGCAGCAG------C-ACTTGT-------------GCTTCAC-TTCTA-CT-CGATT---CGTTA-
droAna3 scaffold_13417:1531274-1531445 - ATCATT-----------------------CT---G--GATGAT-----------------------------------------------------GCTGTTGCAGCTT----CT--------CTTGCTTTTCTG----------C---------------CACATGGAGACGACA-----------------CCAAAAACAATAAC---------------------AACAACAATGGTACAAC---------AACAGTAGCAACAACAGCAAC------------------A-----------GCAACAGCAACAGTAGC---AGTAGCAGCAACGGT------G-------------GCAACACTTTCAAATT-CATTT--TCGAAAT
dp4 chrXL_group1e:3403111-3403272 - ACAGAGTGGC---ATGCAACTGCCAGCCACG---C--CCTCGA-----------------------------------------------------GC------------------------------AGCTCCG----------C---------------CTCAGGGAACT--CGCCGGATCTGTTATCCTTCCAAATGGAGCAAC---------------------TG-----------CAGCAGCAGC---AACAGCAGCAGCAGCAGCAACATCACTT---------------G--CAACAGCAGCAGCAGCAACACC---AGCAGCAG------C-A-------------------------------------------------
droPer1 super_20:731421-731582 - ATCGC------------------CAA----T---C--TG-------------------------------------------------------------TTGCGGCAGCAGTCCCAGTCCCAGTCGC---------------AGT---CGCAGT---------------------------------------------------------------------------------------CACAGCCCCTGCAGCAGCAGCAGCAGCAGCAACATCCTCAGCAACAGCAGCA-----------GCAGCAGCAACATCCTC---AGCAGCAGCAGCGGC-GCGACA-------------G------CTCCGA-CAGCAATTGCTCGCTG-
droWil1 scaffold_181096:4169006-4169179 - ACAACA--GCAACA--ACAAAGAGAGCAACAAAGTTGTATG-----------------------------------------------------------TTGCCTTTGCCTTCT-----------------TCGTGTGCTGCTGCTGCTGCTGT-------------------------------------------------------------------------CG-----------ATCGGGCTTTTTGGGCAGCAGAAACATCAGCAAC------------------ATTGC--CA---GCGACAGCAACAACAGC---AGCAGCAG------CAGCTTGC-------------AATTTTCTTTTTG-CT-C------TTGCTAT
droVir3 scaffold_13324:2891413-2891591 + ACAAAGCAAC---A--ACAACCACAATCACA---G--C-------------------------------------AGCAGCGCCAGCAGCAACA-----------------------------ATTGCAGTT-------------------------------------------GCCG-----------------------GCAAC---------------------TG-----------CAGCAACGGAAGCAGCAGCAGCAACAACAACAAC------------------AACAA--CAACAACAACAGCAACAACTGC---AGCAGCAG------C-ATTCGCATTGGATTAAACAG------CTTCGA-CTGCTATGCATTGGTA-
droMoj3 scaffold_6680:19782481-19782647 + GTAACT---------------------CAAT---T--TGTTTGGCGTTTGCATCTTAAATTCTCGTAAGCATGCCATGTGTGCCATCCTGCACAAAGC---------------------------TGCTGCTTTGC-TT-------------------------------------------------------------------------------------------------------------CGATTCAGCACCAGCAACAACAACAAC------------------AACAA--CA---ACAACAGCAGCAGCAGCAGCAACAGCAG------C--------------------AGTGGACATCCAA-CT-GAAT----------
droGri2 scaffold_15245:7434254-7434426 - ACCAGATGAT---A--CCCACAAGCGTCACG--------------------------------------------------------------------------------------AACTCACCGCC---------------AGC---CGCTGGCTTGGCC-------------------------------CAAAATGGAGCAGCTGCTGTTGTTGTTGTTGTTGGTG-----------GTGGCAGTTCTGCTGCAGCAGCAGCAGCAGCAGC------------------ATCAA--CA---GCAGCAGTGGCAGCA-C---AGCAGCAG-----------------------------AGCAATTACAA-TT-CAATT---------

dme-mir-280 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:4185596-4185720 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTATGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCTCCA-----------CACT-------GCACTCGC-CGC-CTCGA
droSim1 zee54c10.b1:599-724 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCTGCA-----------CACT-------GCACTCGC-CGC-CTCGA
droSec1 super_1:1832273-1832397 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCTGCA-----------CACT-------GCACTCGC-CGC-CTCGA
droYak2 chr2L:16840791-16840915 + CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------CTTGA------GGTCCTGCA-----------CACT-------GCACTCTC-CCG-CTCGA
droEre2 scaffold_4929:18446687-18446817 - CTGACGT-------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGTGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------GTCGA------GGTCCAGCA-----------CACTGCACACTGCACTTGC-C-C-CTCGA
droAna3 scaffold_13266:1806990-1807233 - TTGAAAT-------------------G-----TGTGTATGTGGG--------TG----------GGTG----GGTGTGTGTGCACTTTCTGCCATCCAGACTGCCAGCCAGCCATCTAGCCAGCCTGCCTGACTGCTTTCCTTGCCACTT-----GTGTGTATGTGTGTGTG-----------------TGTATGAGCTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATA--TGCAA-------------------------------------G-------------CCTGAACAACTTTGGAACACT-------GCAATCGC-CTT-CTGGA
dp4 chr3:2170016-2170201 + TTGATGC-------------------C-----tgtgtgtgtgtg--------------------------tgtgtgtgtgtCCAGTCGGTGTCATGA-GG-------------------------------------------------CGTATGCC----GTGTGTGTGTG-----------------TGTGTGAGACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATG--TGCAG-------------------------------------CTGAA------GAGCCTGTC-----------CATT-------GCACAATC-C-C-CACCC
droPer1 super_2:2339680-2339867 + TTGATGC-------------------C-----TGTGTGTGTGTG----------------------------TGTGTGCGTCCAGTCGGTGTCATGA-GG-------------------------------------------------CGTATGCCgtgtgtgtgtgtgtg-----------------tgtgtgAGACGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATG--TGCAG-------------------------------------CTGAA------GAGCCTGTC-----------CATT-------GCACAATC-C-C-CTCCC
droWil1 scaffold_180701:589914-590141 + TTGATGCCCCAACACACACCCACCTCC-----TATCTATCTATCTATCTCTGTCTCACCATAACTGAg------------------------------------------------------------------------------------------tgtgtgtgtgtgtg-----------------tgtgtatgtTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATG--TGCAACCGAAGCAGCAGAAGCCAGGCC--CAA----------GTAGAAGCAAAAGGCCTGAA-----------CATT-------GCACTTGGGC-CATACGC
droVir3 scaffold_12875:9206154-9206327 + TTGATGT-------------------CGTCTTTGTGTG-----CCAT------------------GTGTGTGTGTGTGTGTCCATT-------------------------------------------------------------------------------------T-----------------TGTGTGTGTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATACATGCCA------------------GA----GCAGTGCATGCAACTG------------C-CCA-----------CAAT-------GCACATTT-C-TATCCGC
droMoj3 scaffold_6496:17934933-17935113 - TTGATGT-------------------CGTCGTTGTGTA-----CCATGCATTCG----------TGTG------------------------------------------------------------------------------------------TGCCTGTGTGTGTG-----------------CGTGTGTGTTAGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATACATGCCA------------------GGCCGGCCAGTGCATGCAACTT------------C-TCT-----------CAAT-------GCATATTC-C-AATCCAC
droGri2 scaffold_15245:2520625-2520797 + TTGATGT-------------------TGTCGTTGAGT------CTAtgtctgtg----------tgtg------------------------------------------------------------------------------------------tgtgtgtgtgtgtgtgtgcgagtgtCCAGTTCGTGTGTGTTGGCTTTTATGTATTTACGTTGCATATGAAATGATATTTATAGTAAACAGATTATTTTATATGCAGGTATACATGCAA-------------------------------------CTC------------CTTCT-----------CAAT-------GGATCCCC--------AC

dme-mir-287 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:17574595-17574717 + AAGCC--------CACTC-A--CA-----------------GAGGACGCCGGGGATGTATGGGTGTGTAGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAA--AACAC---G-TCGGA
droSim1 chr2L:17277816-17277938 + AAGCT--------CACTC-A--CA-----------------GAGGACGCCGTGGATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAA--AACAC---G-TCGGA
droSec1 super_7:1215433-1215555 + AAGCT--------CACTC-A--CA-----------------GAGGACGCCGTGGATGTATGGGTGTGTAGGGTCGGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGTGAGCAA--AACAC---G-TCGGA
droYak2 chr2R:3525115-3525236 - ACATA--------TATA-CACACA-----------------GAGCAAGCCGTGGATGTATGGG--TGT-GGGTCTGAAATTTTGCACACATTTACAGTAATTGTAAATGTGTTGAAAATCGTTTGCATG-ACTGTGAGCAA--AACAC---T-TCGGA
droEre2 scaffold_4845:6676077-6676186 - GTGTG--------GACG-------------------------------C--TGGATGTATGGGTGTGTGGGCTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACG-ACTGCGAGCAA--AACAC---G-TCGGA
droAna3 scaffold_12916:3302442-3302546 - ATA----------------------------------------GGG--C--TGTGTGTATTGG--TAGTGGGTCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--AGCAC---G-TCGGA
dp4 chr4_group3:10858860-10858990 - ACACA--------CACA-CA--TA-----AATATATTCACGGAGACAGTCT--TATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--AACAC---G-TCGGA
droPer1 super_8:2069946-2070076 - ACACA--------CACA-CA--TA-----AATATATTCACGGAGACCTGCT--TATGTGTGAG--TGTGGGGCCTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--AACAC---G-TCGGA
droWil1 scaffold_180764:928810-928950 - ACTCC--------CACAT-A--CATTGGAAAGAGCTTCTCCGTAATATGTA--TATGTATTGC--TGTAAAGTCTGAAATTTTGCACACATTTACAATTATTGTAAATGTGTTGAAAATCGTTTGCACAAACTGTGAGCAA--AATCCTGTAGCTGGG
droVir3 scaffold_12963:16502531-16502646 + AGATT--------GACTC-C--CA-----------------CGCTTTCGCACACACACAAACGTGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA-------------CCGA
droMoj3 scaffold_6500:21428983-21429089 + ACTCC--------CACGC-A--CA-------------------------------CACACACGCGCATAATGTTTGAAATTTTGCACACATTTACAATAATTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAA--CCAAC---A---GCA
droGri2 scaffold_15252:13917089-13917209 + CAGTTTTCACTCCCACAC-A-------------------------------CTCACACACACATGCATAATGCTTGAAATTTTGCACACATTTACAATATTTGTAAATGTGTTGAAAATCGTTTGCACA-ACTGTGAGCAAGCAACAC---A-CATGT

dme-mir-288 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:20618351-20618477 - TGGAATTCCGGGT-------------------GCC------GGCCATGTCGTAATTAGCGGAGCACGGCATC-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-ACCTCCCAAT
droSim1 chr2L:20181621-20181747 - TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCACGGCATT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-ACCTCCCAGT
droSec1 super_18:498537-498663 - TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCACGGCATT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-ACCTCCCAGT
droYak2 chr2R:6966481-6966606 - TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCACGGCGTT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCACAGGC-ACCTCCA-GT
droEre2 scaffold_4845:3835093-3835218 + TGGAATTCCGGGT-------------------GCC------GGTCATGTCGTAATTAGCGGAGCTCGGCGTT-GCCGGCGATAATTAATGACGGTGGTCACGTTGGTTTCATGTCGATTTCATTTCAGGACACGGCCGCAGGC-GCCTCCA-CT
droAna3 scaffold_12916:7118734-7118858 - AAAAGTCCGGGGT-------------------CCA------GGTCATGTCGTAATTAGCAGGGCACAGAATT-GCCGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-TCCACCCA--
dp4 chr4_group3:7696584-7696728 + GGGAGGTCAGAGAGCTAGAGGGGGGGCCAGGCGCC-----TGGCCATGTCGTAATTAGCAGGGTACAGCGTT-GCCGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGG--CAGAC
droPer1 super_1:9142351-9142488 + CAGAAAGCTA-------GAGGGGGGGCCAGGCGCC-----TGGCCATGTCGTAATTAGCAGGGTACAGCGTT-GCCGGCGAAAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGG--CAGAC
droWil1 scaffold_180708:2031441-2031569 - TGGCCGGCTGACT-------------------CCC------CCTCAGGTCGTAATTAGCAGCGCACAACATTCGTCGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGCCAGCTCTGATG
droVir3 scaffold_12963:13472850-13472962 + C----------------------------------------AGCCGCGTCGTAATTAGCTGTGCACAACGTT-GCTGGCGATAATTAATGACTTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGTTCCTGTG
droMoj3 scaffold_6500:24709786-24709910 - G-----TCCAG---------------------GCAGGACATGGACGCGTCGTAATTAGCTGTGCACAGCGTT-GCTGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGTTCCT-GT
droGri2 scaffold_15126:6391659-6391788 - TTGTGTCCTGG----------------------CAGGACATGGCCGTGTCGTAATTAGCTGTGCAGAACGTA-GCTGGCGATAATTAATGACGTTGGTCACGTTGGTTTCATGTCGATTTCATTTCATGACACGGCCGCAGGC-AGTTCCTGTG

dme-mir-289 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:13613907-13614035 + TAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTT----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droSim1 chr3L:12997848-12997976 + TAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droSec1 super_0:5775586-5775714 + TAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droYak2 chr3L:13706954-13707082 + TAC------------------------GGTTCTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACTGACTGGGGTAAGTCTCTCGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droEre2 scaffold_4784:13614855-13614983 + AAC------------------------GGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGA---------CTC----------------------------------------CAGTCCCTCTGACGGACTGGGGTAACTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droAna3 scaffold_13337:21827571-21827739 - TTC-CGGCACTCCGGCATTCCAGCTC-GGGTTTTAGGTTGA-GTTTACAGTAAAATAAATATTTAAGTGGAGCCTGCGACTCTG----CTACTGCC---ACTGCCACTGCCACTGCCACTGCCGCTC------------------------GGGGAGTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
dp4 chrXR_group8:6818889-6819024 - TATCCG------------------TCGGGTTTTTAGGTTGA-GTTTACAGTGAAATAAATATTTAAGTGGAGCCTGCGACTGG---GACTC----------------------------------------CAG-----CTCTCCGACTGGGCTAACTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droPer1 super_36:488140-488275 + TATCCG------------------TCGGGTTTTTAGGTTGA-GTTTACAGTGAAATAAATATTTAAGTGGAGCCTGCGACTGG---GACTC----------------------------------------CAG-----CTCTCCGACTGGGCTAACTCACTTGAGCGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droWil1 scaffold_180698:607141-607313 - TTT------------------------TTTTTTTAGGTTGAAGTTTACAGTAAAATAAATATTTAAGTGGAGTC---GACTGTGTCGACTACAGCCCGGACTACC---CGGACTGCTAGAACGACTCGGTTCCGACTCTTTTTCTGTCGGGGTAAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCATT
droVir3 scaffold_13049:19817984-19818083 - ---------------------------GTTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTGAAGTGG---------------------------------------------------------------------------GCCT-GGGGAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCCGT
droMoj3 scaffold_6680:7513468-7513568 - G--------------------------GCTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTGAAGTGGGCCC----------------------------------------------------------------------------GGGGAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCCGT
droGri2 scaffold_15110:17555344-17555443 + ---------------------------AGTTTTTAGGTTGA-GTTTACAGTAAAATAAATATTGAAGTGG---------------------------------------------------------------------------GCCT-GGGGAAGTCACTTGAACGTTTGTTGGCACGTAAAAGACATCATAATTAGCCGT

dme-mir-4942 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:23332312-23332452 + TATGACATCTGCCTGTT-----------ATGAA-------TACATATATT-TTTATGTTTG--AG-TCAACATC--GA------------------------------------------GTTGCCGATGTTTGG---AAAACATCGATGACATCGCT----------GTTGGCATCGA----AATATGTCCATATCTAATATATAGTTCCATTCTGTTTTATT
droSim1 chr3L:22456065-22456207 + AATGACAGCTGCCTGTT-----------ATAAG-------TAATTGTATT-TTTATGTTTG--AGCTAAACATC--GA-----------------------------------------TTATGCCGATGTTTGG---AAAACATCGATGACATCGCT----------GTTGCCATCAA----AGTATGTCCATATCTAATATATAGTTCCATTCTGTTATATT
droSec1 super_41:217199-217341 + AATGACATCTGCCTGTT-----------GTAAG-------TAATTGTATT-TTTATGTTTG--AGCTAAACATC--GA-----------------------------------------TTATGCCGATGTTTGG---AAAACATCGATGACATCGCT----------GTTGCCATCAA----AGTATGTCCATATCTAATATATAGTTCCATTCTGTTATATT
droYak2 chr3L:23917805-23917956 + TATGATATCTGAATATTTAGTTTTTCTTTTGC---------ATATTTATT-TTTAATATTG--AGCTTCACATA--TA-----------------------------------------TATTGCCGATGTTTAC---AAAACATCGATGACATTGTT----------TTTGGCATCGT----CATATGCCCATCACTAATATATAGTCCCCTTCTGTTTCATT
droEre2 scaffold_4784:22817455-22817604 - GGC---ATCTGTATAGG-----------ATGAA-------TAAATTAATT-TTTAAGTTTG--ACCACAACTTT--CA-----------------------------------------TTTTGCCGATGTTTAG---AAAACATCGATGACACCGCA-----TCATCGTTGTCATCGACTTACATATGTACATCTCTAATATATAGTATCATTCTGTTTTATT
droAna3 scaffold_12916:14167403-14167537 + TGCT---------CGTT-----------AGAGA-------TGAT-AAACA-TCGATGTTGGCTTGCCAAACATC--GA-----------------------------------------TGTCAACGATGTTTTC---AAAACATCGATGACATCGAT----------GTTAACATCGA----TGTTTCTCCACCTCTGACCACTGGAGTGAATTATTTTTAGT
dp4 chrXL_group1e:10317112-10317245 + TCAAACATATTATTTTT--------ATTGTAAATATCCTA----------------GTTAT--GGTGTAAATCT--GA-----------------------------------------AAATATCGATGTTTGAGAAAAAACATCGATGACATCCAT----------GTTAACATCGA----TGTTTGTCCAGCTTTAGCTTGCATCCCTAGCTTG-------
droPer1 super_69:203478-203603 - CATATT-----ATTATT-----------GTAAATATCCTA----------------TTTAT--AGTGTAAATCT--GA-----------------------------------------AAATATCGATGTTTGAGAAAAAACATCGATGACATCCAT----------GTTAACATCGA----TGTTTGTCCAGCTTTAGCTTGCATCCCTAGCTTG-------
droWil1 scaffold_181155:90645-90784 - TATTGTTTCCGCCTCTT-----------CTGAT-------CAATCTATTT-CTAATTTATT--TGCT-AACTT---CTTCTCGACTACGTACATATCTACTACGTACAACTCTAGTCAGATATATCCATATCCTATAACG-----------------------------------------------------------AAATCCAACTGCATTCTTAATCGTG
droVir3 scaffold_13036:829247-829384 - TTTATCGTTTATATTTGAAATT------ATTAA-------TTAAATTATT-ATTATTTTTA--AGTAATACAAA-----------------------------------------------------------------ATAAATTAAGGAAATAAAAGTGCAAATTTGTTGTTTTCAA----AG-ATACATTTAATTAATTTTTATTTTTTTTTTATTTTATT
droMoj3 scaffold_6500:19787300-19787437 - TATTATG---AGCTGAA-----------ATAAA-------TATAAAAATA-TTTA--ATTA--AATTCAACAAAATGATGTC------------------------------------------TAGATATTAAA---AAAAAAAAAAAAAATAAAAT----------ATATATATATA----TATATATATATATAT-ATATATATATATATTTTTTTTTTTT
droGri2 scaffold_14853:4224791-4224937 - TATATC-TATGCGTCTGTAGATACT----TGCA-------TAAGTGTATCATCTATGTACG--GTTTACATATA--GT-----------------------------------------GT---ATGGTTTATAA---AAAATATTTCTCAATACGCC----------GTTAGTACAAA----AAAAAAGTAGTGTATAAAAAATGCTTGCACTTTGTTTTAGT

dme-mir-4943 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16528359-16528506 - ATTTTAAACAACTA-TTTCGG-------ATCGTTTG---------------AATGACCAATTTTGT-------------CTTTTATTTTCTCT--G--------------T-G-----TTTT-----CAGTTAATG-AAAGAT-AG-TGAACACAGTGCTAAATGAAAGATAATGAGACCCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droSim1 chr2L_random:601476-601603 - ATTT------------------------ATTT-TTG---------------AATGACCAATTTTGT-------------CTT---TCTTCTCT--G--------------T-C-----GTTT-----CAGTTAATG-AAAAGT-AG-TAAACACAGTGCTAAATGAAAGAGAATGAGACCCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droSec1 super_7:174891-175018 - ATTT------------------------ATTT-TTG---------------AATGACCAATTTTGT-------------CTT---TCTTCTCT--T--------------T-C-----TTTT-----CAGTTAATG-AAAAGT-AG-TAAACACAGTGCTAAATGAAAGAGAATGAGACCCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droYak2 chr2R:4574442-4574584 + ATTTTATAAAACTA-TGGGGG-------ATAC-TTA---------------GATAATTAATTTTGT-------------CAT---TGTTCTTT--G--------------T-C------TTT-----CAGTTAATG-AAAAGT-AG-TAAACACAGTGCTAAATGAAAGAGAATGAGACGCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droEre2 scaffold_4845:19592406-19592554 - ATTTTATGCAACTA-TTGTGT-----GTATCT-TTA---------------AATGACTAATTTTGT-------------CAT---TCTTCTCT--G------TTT-----T-T-----TTTT-----CAGTTAATG-AATAGT-AG-CAAACACAGTGCTAAATGAAAGAGAATGAGACGCAGTCGACAGGACCC---------AAGAAGACGATGTTGATTG
droAna3 scaffold_12916:16031637-16031788 + ATGTT------------------------TAA-ATG---------------ATTAAAAAATTATGTTCAACTAATTATTAA-------TTTAT--A------TTTT-ATTGTCTTCCCATTA-----CAGTTAATGAAAAAGT-AATTTAAAAAATCGCTAAATGAAAGAGAATGAGACCCAGTCGACATTTCCC---------AAGAAGACCATGTTGATTG
dp4 chr4_group3:8251613-8251715 - TT-----------------------------------------------------------------------------------TGTTCCTTTTC--------------T-C-----TTTA-----CAGTTATTTGCCAAGC-AG--AAGAAAAGTGCTAAATGAAAGAGAATGAGACACAGTCGACAGACGAA---------CAGAAGACGATGTTGATTG
droPer1 super_1:9700572-9700674 - TT-----------------------------------------------------------------------------------TGTTCCTTTTC--------------T-C-----TTCA-----CAGTTATTTGCCAAGC-AG--AAGAAAAGTGCTAAATGAAAGAGAATGAGACACAGTCGACAGACGAA---------CAGAAGACGATGTTGATTG
droWil1 scaffold_180772:4810613-4810759 - AAGTTTACCAATTAATAGCAA-------ATTG-TTGGTATTTCCATTTTAAAATTGCTAACATTTA---------CCTTAA-------TTTCT--C------TTCT-TTTC-T-----TTTT-----CAAT---------TCC-AG-CTTACGTTGCTATAAATGAGAAAGGATCAA------------GATCAA---------ACGAAAAGGATGTTGATTG
droVir3 scaffold_13052:1601321-1601473 - ATATTGCGCAACCA-TTCTGGTCCGAATTTCA-TTG---------------AGTCAGTCATTTTGG----GTAACTCTT------------GA--GTTTATTTCTTAATTGTC------TTTCGCTGAAATTGTGCAATAAAT-AA-CA---ATTT---------------TACCATCAGCATTAGCCAGCACAC---------ACACGCACGCTATCGGTTT
droMoj3 scaffold_6500:21042727-21042874 - AATTA------------------------TAA-TTG---------------AACACTTGA-TGCGATTGCCAAATTTTTGAT---TTTTGGTTCTA--------------T-T-----TTTA-----GAGTTACAG-CTAAAT-GA-AA---ACTATACCAATTATAAAATCAAAAGGGCTACACAAGAACATTTATGATTTCAAAGAAAAGTGTTTCATTTG
droGri2 scaffold_14822:853797-853916 - GCATG-----------------------------------------------ATGACTTGTGGTCT-------------CTA---TTCTATAT--G--------------C-T-----GGTT-----GAGTTTGTG-AATGGTCAG-TTGCCGTGGCGAAAGATAAAAGACAAG--GAACAGGTTGGATTGACCA---------AAGAGAAATATGATCATAG

dme-mir-4957 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15213971-15214085 - CTTTTTTTT--------------CTCTGCTC----GT-----------------------T--GTA--------TTTTACGCA--CTCTGCTGGCAGCG---CTGTCGGC---GTCGCTGCCAGCTGCCAGCAGCGAGCGGTACACTT--------GCAACTATC-----CTGT-GCACCCTACAATT
droSim1 chrX:11736931-11737042 - CTTTTTTTTTTTT----------CTCTGCTC----GT-----------------------T--GCA--------TTTTACGCA--CTCTGCTGGCAGCG---ACGCCGAC---AGCGCTGCCA-------GCAGCGAGCGGTACACTT--------GCAACTATC-----CTGC-GCACCCTACAATT
droSec1 super_56:101687-101796 - CTTTTTTTTT--T----------CTCTGCTC----GT-----------------------T--GCA--------TTTTACGCA--CTCTGCTGGCAGCG---ACGCCGAC---AGCGGTGCCA-------GCAGCGAGCGGTACACTT--------GCAACTATC-----CTGC-ACACCCTACAATT
droYak2 chrX:9414156-9414285 - TTTTTTT----------------CTCTGCTC----GTTTTTCTCTCTTTTTCTTCTCGCCT--GCA--------TTTTACGCA--CTCTGCTAGCAGCG---ACGCCGAC---TGCGCTGCCA-------ACAGCAAGCGGTACACTT--------GCAACTATT-----CTAT-GCACCCTACAATT
droEre2 scaffold_4690:11807313-11807440 + TTTTTT-----------------CTCCGCTC----GTTTTTCTCTCCTTTTCTGCTCGCCT--GCA--------TTTTACGCA--CTCTGCTGGCAGCG---ACGCCGAC---TGCGCTGCAA-------ACAGCGAGCGGTACACTT--------GCAACTATT-----CTGT-GCACCCTACAATT
droAna3 scaffold_13117:1427273-1427395 - ATTTTTCTTC---CCATGCAACC-TGTGTCC----AT-----------------------TGTACG--------TTTTACGCA--CTCTCC--CCAGCA---ACACCGCC---GCCGATAGCG-------ACTGCGACGAGTACGTTG--------GCAGCGGCACTTGACTCT-TTTTGCGGCAATT
dp4 chrXL_group1e:12152468-12152588 - CTTTAGCTTT---TTG--------------CGTTTGCGTTTGCCCCGATTTCAATGCA-AT--GTG--------TTGTACGCA--CACGGGTT---TTT---ATCTCAGC---TGTGGGATGA-------ACGGC--CCGAGACACTT--------GC--CGATG-----CGGC-GA-CCC--CAGGC
droPer1 super_14:1456573-1456693 + CTTTAGCTTT---TTG--------------CGTTTGCGTTTGCCCCGATTTCAATGCA-AT--GTG--------TTGTACGCA--CACGGGTT---TTT---ATCTCAGC---TGTGGGATGA-------ACGGC--CCGAGACACTT--------GC--CGATG-----CGGC-GA-CCC--CAGGC
droWil1 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12928:4095173-4095244 - CTCTTTATTG---CAA--------------------------------TGCGAC-----------------------TACGCATGATTTAGGCGCAGGT---TGGTCG----------------------------------ACACTT--------GCATTGGTT-----GC--------AAGTACTT
droMoj3 scaffold_6680:3750941-3751063 - TTTGTTTTTG---TTT-----------TCTT----TT-----------------------T--GTAGCCTAGGAATTTACC-----TCTTGTGGCATATCAGCTGTTGGC---TTTGGTTGCA-------AACACACG--TTGACTTTTCACACACAGAATTCTG-----TTGAAATGTTTAACACTT
droGri2 scaffold_14853:566008-566117 + CTCTTTTATT----------------------------------GCAATGAGACTGCG-AC--GCA--------TGATTTGGG--CGCAGG-------T---CTATCACCACTTGCACTGACG-------ACTGCTTTTGCTTTTGCT--------ACTACTTTT-----ACTT-GCCAGCGGAACTT

dme-mir-4964 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:8859818-8859960 + TCGCCATGCTTCGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTATATTTTTTTATATGGTACGTATTTATTTGTCTGCAAATGGCTGCCAAG-----------------------------------GAGT---------------------GCTACATAATCAATTTGTTTG-TT
droSim1 chrX:7057967-7058102 + TCGCCATGCTTCGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTATATATATTTATA-------TACGCATTTGTCTGCAAATGGCTGCCATG-----------------------------------GAGT---------------------GCTACATAATCAATTTGTTTG-TT
droSec1 super_34:222375-222488 + TCGCCATGCTTCGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTTTATATATT-----------------------------TGGCTGCCATG-----------------------------------GAGT---------------------GCTACATAATCAATTTGTTTG-TT
droYak2 chrX:12451967-12452096 - TTGCCATGCTTGGACAATT----------------------------TT---------------------------TGAATGGTCCTTTT----------CATGCCCAAGG---------------------CGAATAAATAT------------GTATTTATGTGTAGATA-------------TATGTATTTGTCTGAAAATGGCTGCCAAG-----------------------------------GAGT---------------------GCTACATAATCAATTTGCTTA-TT
droEre2 scaffold_4690:6251913-6252052 - TTGCCATGCTTGGACAATT----------------------------TT---------------------------TGAATGGTCCTTTC----------CATCCCCAAGG---------------------CGAATAAATATGTTTGTGTGTACGAGTATATATTTATA---------------TATGTATCGGTCTGCAAATGGCTGCCAAT-----------------------------------GAGT---------------------GCTTCAAAATCAAATTGTTTG-TT
droAna3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp4 chrXL_group1e:8134181-8134346 + TTTCCATGCTTGGACAATT---------------------------CTT---------------------------TGAACGGTCGTCCCT----TTTTGCCAGCCCAAGGGGGGAGGGATGGGGGGGGGGGGGAATAAATAT--------------ATCAACAA----AAA-------------TAC--------------------------TCGTAAGGCGAATAATGGCAACGTCTGGGGTGAGC----GATTGAGAGTTGTATCTGGAAGCTATATAATC-------------
droPer1 super_13:433852-434017 - TTTCCATGCTTGGACAATT---------------------------CCT---------------------------TGAACGGTCGTCCCGCCCGGTTTGCCAGCCCAAGGGGC----GGCGGGGGGAGGGGGGAATAAGTAT--------------ATCAACAA----AAA-------------TAC--------------------------TCGTAAGGCGAATAATGGCAACGCCTGGGGTGAGC----GATTGAGAGTTGTATCTGGAAGCTATATAATC-------------
droWil1 scaffold_181150:832777-832852 + ATGTCTTCCATTCCCTATT----------------------------TG---------------------------CGTATTTTCTT------------------TCAGTA---------------------TAAATGAATAT------------GTATGAGTCG----AAA-------------TAC--------------------------CTATA------------------------------------------------------------------------AATG-AT
droVir3 scaffold_12726:2732407-2732514 + TGGA------TCAACAAAT----------------------------GCCGCACATTTCTTTCTTGCTTTCGTTCACAATTTCTCTT------------------GTAATA---------------------TAATCAAT-TT------TT----ATTCAATTC-------------------------------------------------------------------------------------ATAC---------------------GATTCACATTCAATTCGTTTGACT
droMoj3 scaffold_6500:9117978-9118115 - CA----AGCTGCGACTATGTAATTAAAATTGTATGTATCAGCGGGTC-T-----------------------AT----------------------------TGCTATGTG---------------------TGTATAGGTGT------------GTGTGTGTGTGTATG---------------TGTGTGTATGTGTGCATATACAAAGCCAT-----------------------------------AATA---------------------GCATAAAACTCGATAAGCCTG-GC
droGri2 scaffold_15110:597989-598133 + TCGCCATATTTCGTTGAAT---------------------------T-C-----------------------TT----CGCCATATATCG----------TATGATTT---------------------------ATATATAT------ATATATAAATATATATATATATTTCGGCTCCAAATATTTTTTATATTTTGCAAAGACTTGCTGTG-----------------------------------G--TTTTTCATAAGTGAGTTTGAAT-----------------ATTG-TA

dme-mir-4968 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:11545623-11545808 - AAACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAACAGCAGCA---------------GCAGC------A------------------------------------------------------------------GAAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droSim1 chr3L:10929570-10929746 - AAACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAG------------------------------------------------------------------------------------------------AAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droSec1 super_0:3745423-3745605 - AAACTGCATTCGAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAGCA---------------GCA---------------------------------------------------------------------------GAAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droYak2 chr3L:11579958-11580167 - AAACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAGAA---------------GCAGC---AGCAGCAGC----------------------------------AGTAGAAA------TAGCAGCA-----GTAGCAACAGCAACT-AACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droEre2 scaffold_4784:11545792-11545968 - A-ACTGCATTCAAGT-----------TTTTCC-T-----------------------CAGAGC-----C-GCGACT----GCTGG---CGTGTTA-TTG------------------TTGC----TGTTGCAGCTAGCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAG------------------------------------------------------------------------------------------------AAGCAACAGCAACTGAACTGCAGAGGAGCAATAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
droAna3 scaffold_13337:5830221-5830437 - AAACTGCATTCAAGTTTTGTTTTTGTTATTTTTT-----------------------CTTTGC--TTCT-GCAACTATT-GCTGGTTAGCTGCTAGTTG------------------CTGC----TGCTGCTGCT-GCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGTAGCAGTA---------------GCAGT---GGCA----------------------------------------------------GAG---GAGACAGAGGAGCCACTGCAAC--AACTGCAACAA---AACAGCAGCT-GAGAGTTCAGTTGCGAAAC-CGGCG
dp4 chrXR_group6:10126891-10127089 + AAACGGCATACAAGT-----------TTTTCC-TCGCCAAACACAAAGCGTTTTAGCCAGAGCTCTTCT-GCAACTATT-GCTGG-------TTG-TAG------------------TTGT----AGTT-------GCTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCGGTGGCA---------------GCGGT---GGCA----------------------------------------------------GCG---GTGGCAGCGG-----TGGCA------------------GACGGCAGCCCCCGAGTTCAGTTGCAAAAC-CGGCG
droPer1 super_4:4953737-4953917 + TTTC-GTTTTC--GT-----------TTTCATTT--------------------------CGC-----T-GT--AA----ACAAG---C--GATT-TTG------------------TTGC----TCTTTCTGCTCGTAATTGAG-A-------TAAATGCATTTT---AAATGCGCAAC--CGCAGCTGCA------------------GCAGCAGCAGCA----------------------------------------------------GAGGCAGCA-----GTTGCAACAGCAGCT-AGCTTCAACT----GGTTGCAGTT-GCGTATGCAGATGCGATGCAAGGCG
droWil1 scaffold_180698:2057599-2057768 - ACACTGCAGACAAGTTTTAAATGCCTTTTTTT-T-----------------------CGTAGC-------------------TCT---CTTGTTG-TTGTTGTTGCTAA-GT--------C----TTCTGCAACTA-TTGCCACGGT-------TTGTTGCTTCACTGATTACGCGCAATGCAGCAGCAGCAGCG---------------GCAG---------------------------------------------------------------------------------CAGCA------------------AGCGGCAGCT-TCGAGTTCAGTTGCAAAAC-CGGCG
droVir3 scaffold_12855:885802-885977 - AGGATATGGGCGATT-----------GTCTTA-T-----------------------CAGTGG-----TGGTGCCG----GACCA---GCTGTTA-GTG------------------CCGT----TGCTGATGCCAGCGGCAACCTT-------TTGCTCGATCAT-CATCACCATCATC---------ATCAT--CAACAACAGCAGCAGCAGC------A----------------------------------------------------G--------------CAGCAGCAGCAACA-ACAACAACAGCAGCAACAGCAGCA-GCTACTGCAG---------------
droMoj3 scaffold_6496:11355914-11356095 - AAACGAAATGAAACT-----------TTGTGC-G-----------------------CATAG--------GCAACCAACAGC-GG-------CGG-CAG------------------CAGC----AGCAGCAG------------------------------------------------------------------------------CAGC---AGCAGCAGCGCCAGCATCGCTGAGACTTTGACGCGTTGGCAAAAGAAGCAGCAGCAG------CA-----GCAGCAACAGCAAC--AACAGCC--GCAGCAGCAGCAGCA-GCGACGGCAGCAGCAGAAA-CGTCG
droGri2 scaffold_15110:4649694-4649883 + CAAT----------T-----------TTCTCA-T-----------------------CAGTTT-----C-T-------------------TGCCG-ATGATGAAGCAAATGTCATCGCTGCAGAATGTTGCATTTCGC-GCCAAGATGGGTGAGCTGCTGCTGC---------ACACAATGCAACAATCACAAATGCAACAACAGCAGCAACAGC------A----------------------------------------------------GCAGCAGCA-----GCAACAACAACA--------GC--AACAACAACAGGAGCC-G---ATGCAGCAGCA------ACCG

dme-mir-4975 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:2594652-2594793 - TAGAACTGGAAATCTGGGCAAATAA--AGCACGTTGCTCCCTGTTTACTTGGGTTTTCTG----------------------------TTCATTTCGCCTATCGAACGTTGAACTTAAAAAGCCACGATCAGTTGTTTAACATACAGATATCTCTGTACACAAGAAGATTCA
droSim1 chr2R:1414726-1414867 - TAGAACTGAAAGTCTCGGCAAATAG--AGCACGTTGCTCCCTGTTTACTCAGGTTCCCTG----------------------------TTCATTTCGCCTATCGAACGTTGAACTTCAAGAGCCACGATCAGTTGGTAAAGATACAGATATCTCTGTATACTAGAAGATACA
droSec1 super_1:259050-259190 - TAGAACTGGAAGTCTCGGCAAATAA--AGCACGTTGCTCCCTGTTTACTCAGGTTCCCTG----------------------------TTCAGTTCGCCTATCGAACGTTGAACTTCAAGAGCCACGATCAGTTGGT-AGGATACAGATATCTCTGTATACTAGAAGATACA
droYak2 chr2L:15337545-15337682 - TAGAAATGAAAATCTCGGCAAGTAA--AGCACGTTGCTCCATGTTTACTCAGGTTTGCTG----------------------------TTTATATCGCCTATCAAACGTTGAACTTGA---ATCACGATCAGTTGGTCAACATACATATATTTGT-CACACTAGGTGATCCA
droEre2 scaffold_4929:19950710-19950840 + TAGGACTGCAGATCCCGGCAACTAA--AGCACGTTGCTCCCAGTTTACTCAGGTTCGCTG----------------------------TTTATATCGCCTATCGAGCGTTGAACTTGAGGAGCCACGATCAGTTGGTCAGCATACATATA-----------AAGATGATCCA
droAna3 scaffold_13266:18414789-18414883 + AAGTCTA----ATTTCGGT------------------GCCTTGTTTACTTCGCTCTCCGGCGGAGAGCTGCAGTGCACGAGGTGTCTAATCGGCCAGCCCATAGAGCAATGAACTT--------------------------------------------------------
dp4 chr3:859167-859237 - TAGCACAGAAAATCTCGGCAATCAAAAAACACGCCGTT-TCTGTTTACGTTACTTCTCGT----------------------------CCCGTCCCGTCT------------------------------------------------------------------------
droPer1 super_2:1035040-1035110 - TAGCACAGAAAATCTCGGCAATCAAAAAACACGCCGTT-TCTGTTTACGTTACTTCTCGT----------------------------CCCGTCCCGTCT------------------------------------------------------------------------
droWil1 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-4985 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:20181738-20181869 + ATAAAAAGTATGTCACT------------------T-GGGG-GCGCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGAATGGAAAATGTCGCCG-----------------------------------------------------------------------------------------------------------------------------------------------AGCCATGTAAATCGTTTGGCCTACCCGTCTACCA-GCCAACC----AACCA
droSim1 chr2R:18643325-18643449 + ATAAAAAGTATGTCACT---------------TGGTG-GGG-GCGCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGGAAAATGCCGCCG-----------------------------------------------------------------------------------------------------------------------------------------------AGCCATGTAAATCGATTG---------AAGGCC-C-GTGGCC----AACCA
droSec1 super_23:61187-61303 + ATAAAAAGTATGTCACT---------------TGGTG-GGG-GCGCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGGAAAATGTCGCCG-----------------------------------------------------------------------------------------------------------------------------------------------AGCCATGTAAATCGATTG---------AAGGCC-C-GTG------------
droYak2 chr2R:20147877-20148015 + ATAAAAAGTATGTCACT------------------G-GGGG-GCGCTGCACT---------GGCACTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGCGAAATGTCGCCAAACGAAAAA----ATAAATCA----------------------------------------------------TAG------------------------------------------------------------------------TGTAACTCGTTTG---------AAGGCCACACCAACT----AGTAA
droEre2 scaffold_4845:21546843-21546980 + ATAAAAAGTATGTCACT---------------A----GGGGGCTTCTGCACT---------GGCATTGAAA-AGTGAA------TTACATTGATCGTGACATGGGGATGGAAAATGTCGCCGCACAAAAAA--------AGTG----------------------------------------------------TAG------------------------------------------------------------------------TGTAAATCGTTTG---------AAGGCC-C-ATGGCCAACCAACCG
droAna3 scaffold_13266:14229911-14230049 - AAAAAAAGTATGTCACA---------------C--TG-GGG-GAACTGCACT---------GACATTGAAAAACTGAA------TTACATTGGACGGTGGATGGG-------------------------------------------TGGACTGATGGACTGATGGACTGACAGCCA-------------------------------------------------------CGATCATC--------ACTAGCGTCGCAGTTAAGTTATGTAA-------------------------------------ACCG
dp4 chr3:18492568-18492741 - GTAAAAAGTATGTCAGAGAAGAGAAGAGAACACAGTGGGCG-CTGCTGCACT---------GACATTGAAA-AGTGAA------TTGCATTGATCATGACGGGGGGTTGA-------CGCTG-------------------------------------------------ACTGCCACGAACCGCTCAGAACAATAGTGTAAATGTGGAATAATGCTCG--------------------------------------------------TAGAAC-CCATTC---------G----CA-GTCCATG----GGCTG
droPer1 super_45:328754-328870 - GTGAAATGTATTTGAAA---------------------------------CG---------AGTAACGGAA-ATTGCA------TTATTTCAATTACAAA-----------------------------------TCCAATGAGAGGGAGAGGG-------ACAGGGA----C---------------------------------------------AGGG-------------------------------------------ACCCAGCACAA-----------CCCTAGGAGCCA-GCCAGCC----AGCCA
droWil1 scaffold_180949:4063354-4063494 - ATTGAGGGCGTGATTTA------------------TG-CCC-GATCTACCCC---------ATCATTTAAT-GTTAAAGACAATGCTAATTGGCCATTAAAATAGGCCG-----------CA------------------------ACAGACAC-------AAATAGT----T---------------------------------------------TGGGACCTA------AAATCAAA-------------------------------------------GCCAACCGACCACCA-GCCAACC----AGCCA
droVir3 scaffold_12875:7276052-7276211 + GG----------------------------------------GCGCTGCATTTGCCAGGCCAGAGTTAAAA-AGTGAA------TTGAATTGGCCGCTTGATTGA-------------------------------------------CAG-CCGACGGGCTGA-------------------------------------ATATGTGCAGCAATGCCAACAAATCGATGCCAAAGTCAGTGTCAGTCCCACGTAATCGACAATCAGTTATTTAC-----------------------A-TACGAGC----CACAA
droMoj3 scaffold_6473:1699609-1699741 - ATAATCTATTAGTTATT---------------TAATA-TAT-GT------------------------------CAATCATTCAGCCACTCAATCATTAA-----------------------------------GTTAATCAACGAGTAACTC-------AATCAGT----C---------------------------------------------AGTCATTCAGTGCCTCAATCGTT----------------------------------------AAGTCTTCCAATAAGTCA-CTCAATC----AGTCA
droGri2 scaffold_15203:4626832-4626941 - GCCCATGCCA--------------------------------------------------------TAAAA-AGAGTT------TTGAACTAATCTTAAGCAGGCAGCGCAAATCGCTATAAATCAG-CTTTCTATTCTT--------------------------------------------------------TG------------------------------------------------------------------------TT---------TTGCCCCACTGTGCACCA-GCCAGCC----AGCCA

dme-mir-954 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr4:646737-646853 + GACTCATGCA--------------------CGTCT-TACAAACACAAGATTTTCTGGGTGTTGCGTTGTG------------TG--------TACCTGTGTACAGGCGTATTCACATGCA--------ACATCCCTTACATCTTGCTTGATTATACTCCGCCCG---------------------------------------------------------------CC
droSim1 chrU:391095-391211 + GACGCATGCA--------------------CGTCT-TACAAACACAAGAATTTCTGCGCGTAGAGTTTTG------------TG--------TACATGTGTACGTGCGTATTCACATCCA--------ACATCCCTGACGTCTTGCTTGATTATACTCCGCCCG---------------------------------------------------------------CC
droSec1 super_30:369242-369358 + GACGCATGCA--------------------CGTCT-TACAAACACAAGAATTTCTGCGCGTAGAGTTTTG------------TG--------TACATGTGTACGTGCGTATTTACATCCA--------ACATCCCTGACGTCTTGCTTGATTATACTCCGCCCG---------------------------------------------------------------CC
droYak2 chr4:700584-700681 + GACTCATGCA--------------------CGTCTTTACAAACACAAGATATTCTACGCGTTGTGTTTTG------------TG--------TACAT--------------------GCA--------ACATCCCTGACGTCTTGCGCGATTATACTCTGCCCG---------------------------------------------------------------TC
droEre2 scaffold_4512:633126-633238 - GAGACATGCA--------------------CGTCTTTACAAACACAAGATATTCTGCGCGTTGTGTTTTG-------------ACATGTATGTACAT--------------------GCAACCGTTATGCGTTCCAAGGACCCTATTAGATCGGAACACGGTCA---------------------------------------------------------------GT
droAna3 scaffold_13337:22987804-22987813 + TCCGCCCGC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T
dp4 chrXR_group8:8504771-8504835 + CT----------------------------------TACAAATTCTAGAATTTCTGTCTGTCTGTCTGTCTGTTTTTGTGTGTG--------TATGT----GTGTGTGTGC----------------------------------------------------------------------------------------------------------------------
droPer1 super_150:7787-7872 - AATGCATACA--------------------CGATA-TACATACATATGTGTGTGTGTGTGTGTGTGTGTG------------TG--------TGTGTGTGTGTGTGTG----------TA--------GACGTATGTGTAT-----GTGA-------------------------------------------------------------------------------
droWil1 scaffold_181130:1758155-1758267 + CACTTTTGTG--------------------CTGCG-TGTGAGT----GTGTGTGTGTGAGTTTAAGTGTG------------TG--------TATGTGCGAACATACGAATTTAGATAAA--------GATTCGTATACACATGACATTCGCATACTCACACCT---------------------------------------------------------------AC
droVir3 scaffold_13049:11239836-11239930 - TACATACGCA--------------------CA----TACATACATAGGTGTTCGTATG----------TA------------TG--------TACGTATGTAGGTGTG--CT---ATACACCCGTCAAAAGAGCTAATTTCCTTTCTTGGTTAT---------------------------------------------------------------------------
droMoj3 scaffold_6500:15364731-15364841 + GGGTCAGGCAAATTCGAATGTGAATTCAAAATACA-TACATACATATGTACAT---------GTATTGTG------------TG--------TGCAAGTGTACATGTGTGCTCACATGCA--------AACTCACTTACATAATGTATG--------------------------------------------------------------------------------
droGri2 scaffold_14822:646607-646724 + AACAAATGCA--------------------GCGCA-TGT----------------TT------------------------------------------TGATTCACAAGCCTGAACATA--------TCCTAGCATAT------------C------------GTTGGTAACGGGGCTCTGCAGAATACACACACAAACATATTGATGCTCGCGTTGATTATCATGCC

dme-mir-979 antisense_to_3pUTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19455855-19455979 + TTAATCAC---TGGAA-----------------------CATACATGTGAG-----------GATGTCACAAATACA--------------CTGA---ATTTGGGGGGAATTCT--------TATGTATATAC-AAATTCTTCCCGAACTCAGGCTAATTTTGTG---------------GCA---------------------------TCCGTATACACAAAA----------------------------------GT------ATA
droSim1 chrX_random:5079602-5079664 + TTAATATA---C--------------------------------------------------------------------------------------------------------------------------AAATTCTTCACGAATTCAGGCTAATTTTGTA---------------GGA---------------------------GCCGTATATACAAAA----------------------------------GT------ATA
droSec1 super_8:1738459-1738521 + TTAATATA---C--------------------------------------------------------------------------------------------------------------------------AAAATCTTCACGAATTCAGGCTACTTTTGTA---------------GGA---------------------------ACCGTATATACAAAA----------------------------------GT------ATA
droYak2 chrX:11883259-11883281 - TTAATGGC---TGGGA-----------------------AATAC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GT------AAA
droEre2 scaffold_4690:9691773-9691867 + TTAATCGT---TGGCA-----------------------AATACGTATGG------------GGTGCCACA------CAAATCGATTAGCTCTGA---ATTCGGGCGGAATTCTGAAGCACGCAT-----------------------------CCACTTTTGTA---------------GCA---------------------------TCC---------------------------------------------------------
droAna3 scaffold_13417:2459297-2459411 - TAAGTTAC---TTATA-----------------------ATTAAATTTAAA-----------TATTTCGAAATAAAA--------------CTATAAAATAATTGTCTTATTTCAG------------------AAAATATGTACATATTTATACCAATCTT--------------------------------------------------------------------------------TACATATTTCAATAAAAAT------ATA
dp4 chrXL_group1e:12509670-12509797 - TTAAGCAT---TTTAATTTTTGTATTTTTCAAGATCGAAAATATTTATGC-GCGTAAATTTAAGAGTAAGTCCTTA-GTAAGTAAGGAAG-------------------AAC------------------------------------TACGCTCTGGATTTGAT---------------ATA---------------------------CTCGTGAAGTTAAAA----------------------------------CA------ATA
droPer1 super_14:1989251-1989367 - CTAAGTCA---TCGTG-----------------------CGCATCTGTTGG-----------GGAGTAAAAACTAAA--------------A-------TTAGAGTGGAAACTC--------TATTTTGAGTTGAATTTTTCCATGAAAATCTGCTACATTTTGG---------------G-T-----------------------------------------------------------------TTTAAATTTGTAT------TTT
droWil1 scaffold_181096:7961895-7962008 + TAGATTATGATTAGAATAAGCACACACAACACACGCACA-----------------------------------------------------------------------CACACACACACACATCTATATAT-AAATCAACCAAGAAAACA---CAATATCGAA---------------GAAA--------------------------TTAGAAAGTATATAT----------------------------------AT------ATA
droVir3 scaffold_13042:902091-902097 - TCAATCA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6328:2896306-2896380 - ATGAGAAA---GGG----------------------------------------------------CTATA------GAAATTGATGACG---------------------------------------------ATATAATCCAAAACTAAGATTACAATAATA---------------ATA---------------------------ATaataaac-----------------------------------------a------aaa
droGri2 scaffold_15081:2040284-2040418 - TTGTAATT---TAAGA--------------------------------------------------------------------------------------------------------------------------TGAAGATGAAGACA----------ATAATAATAATAGTGATAGGAGTTGAAGAGCTTAAATGTAAACTGATAATTGTATATACAAAGTTGAAAATGTCATTCTCTGGTTATTGGATTAAAATGAGGACACTT

dme-mir-983-2 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4262501-4262629 - ATTATATGCATATGCTATTATATTGCAATAATTAAATAATACGTTTCGAACTAATGATTTTCAGTTCATTCATTAGGTAGTTACGCATTATCTAGTTGTTGTAAACATTCAACTCGATGGCGGATGAGA
droSim1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droSec1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droYak2 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droEre2 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droAna3 Unknown ---------------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droMoj3 Unknown ---------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------------

dme-mir-984 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:4262664-4262783 - TGGCTTCTATTGCGTAGAAACAAATTTCATTGAGGTAAATACGGTTGGAATTTTGTCTTTTAACTATAAATCCAACCGAATTTGGCTCGGCGAAATTTTTCAGTTTACTGGCGTCGAAAA
droSim1 chrX:3277428-3277474 - TGGCTTCTACTCTCT--------ACTTCATTGCTTTGCATATGAT---------------------------ATCTTGCAGT--------------------------------------
droSec1 super_4:2462188-2462234 + TGGCTTCTACTATCT--------ACTTCATTGCTTTGCATATGAT---------------------------ATGTTGCAGT--------------------------------------
droYak2 Unknown ------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4690:1633226-1633277 - C---TTGTAA-ATGTACAAACAAATCTCAGTGTATAGCTTAAATC---------------------------CACCGGAATT--------------------------------------
droAna3 Unknown ------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown ------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6359:3791288-3791288 - T-----------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ------------------------------------------------------------------------------------------------------------------------