Perfect mature and star arms

Divergent mature arm

Divergent star arm

Divergent mature and star arms

Pan-Drosophilid miRNAs and mirtrons

Perfect mature and start

dme-bantam intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:642193-642303 + TTTGT---------------------------A-ACTCCAATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droSim1 chr3L:290535-290645 + TTTGT---------------------------A-ACTCCAATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droSec1 super_2:662642-662752 + TTTGT---------------------------A-ACTCCAATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droYak2 chr3L:629639-629749 + TTTGT---------------------------A-ACTCCAATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droEre2 scaffold_4784:648329-648439 + TTTGT---------------------------A-ACTCCAATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droAna3 scaffold_13337:6520579-6520690 - TTTGT---------------------------AAACTCCAATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTTATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
dp4 chrXR_group8:4603895-4604015 - TTTGGGAC-------T-----ACTCCACCAAT---A---TATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTTATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droPer1 super_29:844606-844726 - TTTGGGAC-------T-----ACTCCACCAAT---A---TATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTTATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droWil1 scaffold_180698:10172097-10172254 + TTTTTTTCATACATTTT-------------------TTTGATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACAGAAAAAAAAAGAAGAAAAAAAAATAACGATCATCATCTTGCC
droVir3 scaffold_13049:5805300-5805416 + TTTGTGTG-------T-----CGTCT------A-TCTC---TGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTAT-TTCATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC
droMoj3 scaffold_6680:4143306-4143408 + CT--------------------------------------ATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTTTTTTATACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATAACCACA--------------------------------------TTCC
droGri2 scaffold_15110:13265206-13265333 - TGTGCGTC-------TCTCTGTCTCCATCACT---A-CCTATGATTTGACTACGAAACCGGTTTTCGATTTGGTTTGACTGTTT-TTCAGACAAGTGAGATCATTTTGAAAGCTGATTTTGTCAATGAATA-CCACA--------------------------------------TTCC

dme-mir-10 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:2635213-2635319 - C------CTC-----ATCAGTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATATCCATCGA----------
droSim1 chr3R:2666345-2666451 - C------CTC-----ATCAGTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATATCCATCGA----------
droSec1 super_6:2726434-2726540 - C------CTC-----ATCAGTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATATCCATCGA----------
droYak2 chr3R:7777990-7778096 + C------CTC-----ATCACTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGTT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATATCCATCGG----------
droEre2 scaffold_4770:2882555-2882661 - C------CTC-----ATCAGTTTGCTCTACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATATCCATCGG----------
droAna3 scaffold_13340:5417353-5417464 + C------CTA-----TCCAGTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGTT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATTTCCATCGTAAA-----AT
dp4 chr2:19739488-19739592 + T------CTC-----A--AGTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTACATTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATGTACAACGA----------
droPer1 super_3:2487675-2487785 + TTTGGTTCTC-----A--AGTTTGCTCCACGTCTACCCTGTAGATCCGAATTTGTTTTACATTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGTTCAATGTACAACGA----------
droWil1 scaffold_181089:12007310-12007419 - --------------------TTTGTTCTACGTCTACCCTGTAGATCCGAATTTGTTTTATACTAGTTTTTAAGGACAAATTCGGTTCTAGAGAGGTTTAAGTGGTTCAATGTTCTACAAACAAACCAAA
droVir3 scaffold_13047:6092057-6092155 + --------------------TTTGTTCCACGTCCACCCTGTAGATCCGAATTTGTTGTACACTAGTT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTCTGTGGCTCATTGTCCAGCGA----------
droMoj3 scaffold_6540:16502892-16503003 + T------GTCTAAGTTCCACTCTGTTCCACGTCTACCCTGTAGATCCGAATTTGTTGTACCATAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTATGTGGCTCATTGTCCAGCGA----------
droGri2 scaffold_14906:11443552-11443654 + T---------------TCACTTTGTTCCACGTCTACCCTGTAGATCCGAATTTGTTGTACACTAGCT-TTAAGGACAAATTCGGTTCTAGAGAGGTTTGTGTGGCTCAATGCCCACCGA----------

dme-mir-1010 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:18118586-18118686 + CTTTGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAA----TTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGACCTGGA
droSim1 chr3R:17925969-17926072 + ATTCGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAATA-TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGACCTGGA
droSec1 super_0:18476145-18476248 + ATTCGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAATA-TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGACCTGGA
droYak2 chr3R:18962287-18962391 + GTTTGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAATATTTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGACCTGGA
droEre2 scaffold_4820:9960766-9960869 - CTTTGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAATA-TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGACCTCGA
droAna3 scaffold_13340:9102978-9103081 + GTTCGTGCTTAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAATA-TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTATGAGGACCTGGA
dp4 chr2:12275938-12276041 + GTTCGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTAACCAACCTTT-ATTGTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGGTACGAGGATCTCGA
droPer1 super_0:8195066-8195169 - GTTCGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTAACCAACCTTT-ATTGTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGGTACGAGGATCTCGA
droWil1 scaffold_181130:12259759-12259863 + ATTCGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTACCAACAATATTTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGATACGAGGATCTCGA
droVir3 scaffold_13047:8363181-8363284 - GTTTGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTCACAACAAAT-TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGATCTGGA
droMoj3 scaffold_6540:27812506-27812608 + CTTTGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAATTTCACAACAAT--TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGGTACGAGGATTTGGA
droGri2 scaffold_15074:1256125-1256227 + GTTCGTGCTCAACGGGTAAGTGGTGTAGATGAAACAAAACTCTCAACAAT--TTTTTGTTGGATTGTTTCACCTATCGTTCCATTTGCAGCTACGAGGATCTGGA

dme-mir-125 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:18472300-18472439 + AAT-----ATTGGCATTGGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA------------------------AAAAATAAGGC
droSim1 chr2L:18161211-18161350 + AAT-----ATTGGCATTGGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA------------------------AAAAATAAGGC
droSec1 super_7:2098251-2098391 + AAT-----ATTGGCATTGGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA-----------------------AAAAAATAAGGC
droYak2 chr2R:4989099-4989238 + AAT-----ATTGGCATTGGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA------------------------AAAAATAAGGC
droEre2 scaffold_4845:5799089-5799228 - AAT-----ATTGGCATTGGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA------------------------AAAAATAAGGC
droAna3 scaffold_12916:2379461-2379598 + AAT-----ATTGGTATTGGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAATA------------------------CAAAA--AAGA
dp4 chr4_group3:3635996-3636136 + AGT-----ATTGGTATGAGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTATAC-----------------------AAAAAAAAAAGC
droPer1 super_2335:2506-2645 + AGT-----ATTGGTATGAGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTATAC------------------------AAAAAAAAAGC
droWil1 scaffold_180708:11623324-11623458 + ATT-----ATTGGTATTAGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTGGCA------------------------AAA-----AGC
droVir3 scaffold_12963:18451638-18451806 + TATTACACATTGGTATTAGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTAACAAAAAAACAAAAACAATTACAAAAAAATAAGAA
droMoj3 scaffold_6500:6184266-6184401 - CAC-----ATTGGTATTAGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA------------------------AAAAGTA----
droGri2 scaffold_15252:6428908-6429045 + CAC-----ATTGGTATTAGTGACATGTGCAAATGTTTGTATGGCTGATTCCCTGAGACCCTAACTTGTGACTTTTAATACCAGTTTCACAAGTTTTGATCTCCGGTATTGGACGCAAACTTGCTGATGTTAGTA------------------------AAAAA--AAAC

dme-mir-190 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:8564884-8565013 + ACTT------------------------------------------GCCCTT-----------------------CAAAA---------C-GA-------ACTAA-----------TTGATGGTTCCAGTGAGATATGTTTGATATTCTTGGTTGTTTCATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGACCCTCGCCAATCTACTAAAACA-------
droSim1 chr3L:8005898-8006027 + ACTT------------------------------------------GCCCTT-----------------------CAAAA---------C-GA-------ACTAA-----------TTGATGGTTCCAGTGAGATATGTTTGATATTCTTGGTTGTATCATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGACCCTCGCCAATCTACTAAAACA-------
droSec1 super_0:844136-844265 + ACTT------------------------------------------GCCCTT-----------------------CAAAA---------T-GA-------ACTAA-----------TTGATGGTTCCAGTGAGATATGTTTGATATTCTTGGTTGTTTCATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGACCCTCGCCAATCTACTAAAACA-------
droYak2 chr3L:3348658-3348787 - ACTA------------------------------------------GCCCTT-----------------------CAAAA---------C-GA-------ACTAA-----------TTGATGGTTCCAGTGAGATATGTTTGATATTCTTGGTTGTTTCATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGACCCTCGCCAATCTACTAAAACA-------
droEre2 scaffold_4784:5482466-5482595 - ACTA------------------------------------------GCCCTT-----------------------CAAAT---------C-GA-------ACTAA-----------TTGATGGTTCCAGTGAGATATGTTTGATATTCTTGGTTGTTTCATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTAGCCTTCGCCAATCTACTAAAACA-------
droAna3 scaffold_13337:8074872-8075002 - ACTC------------------------------------------GCCTCT-----------------------CCAAA---------CACA-------ACTAA-----------TTGATGGTTCCAGTGAGATATGTTTGATATTCTTGGTTGTTACATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGACTCTCGCCAATCTACTAAAATA-------
dp4 chrXR_group3a:147689-147845 - ACTA------------------------------------------GT---TAACCCTAACTCTCATCTGCCCACAAA--CCAACCCAAC-GA-------ACTAA-----------TTGGGGATTCCAGTGAGATATGTTTGATATTCTTGGTTGTTACATTCAAGAGTTCACCCAGGAATCAAACATATTATTACTGTGATACCCGGAAATCTACTAAACCC-------
droPer1 super_23:151050-151206 - ACTA------------------------------------------GT---TAACCCTAACTCTCATCTGCCCACAAA--CCAACCCAAC-GA-------ACTAA-----------TTGGGGATTCCAGTGAGATATGTTTGATATTCTTGGTTGTTACATTCAAGAGTTCACCCAGGAATCAAACATATTATTACTGTGATACCCGGAAATCTACTAAACCC-------
droWil1 scaffold_180949:5214317-5214457 + ACTT------------------------------------------GCCCT-----------CTCATCTGCCCACAAAAA---------C-GA-------ACTAA-----------TTGATGGTCCCAGTGAGATATGTTTGATATTCTTGGTTGTTACATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGATCGTCGG-AATCTACTAAAAAC-------
droVir3 scaffold_13049:6215347-6215479 + AC-------------------------------------------------------------------------CAAAT---------C-AA-------ACTACCCCCCACTCATCTAATGATTCCAGTAAGATATGTTTGATATTCTTGGTTGTTACATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGATTGTTGAAACTCTACTAAACCA-------
droMoj3 scaffold_6680:4536880-4537026 + AGCC------------------------------------------AC---------------------------CAAAATCAACCAAAC-TACCTATCCACTAC------CTCATCTAACGATTCCAGTGAGATATGTTTGATATTCTTGGTTGTTACATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGATCGCTTAAACTCTACTAAAA-A-------
droGri2 scaffold_15072:36258-36427 + ACTACCAATAAAATAAAAATCCAACCAATCAACCAACCAACCAACTACCCA------------------------------------------------------------CTCATCTAATGATTCCAGTGAGATATGTTTGATATTCTTGGTTGTTACATTCAAAAGTTCACCCAGGAATCAAACATATTATTACTGTGATTGTTGAAACTCTACTAAAAACAAATCAA

dme-mir-210 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:18022237-18022366 + CCACG-----------------------------------------------TCCGGAA-----CCGAAAGGTGCTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATAGAAGCAACAG-----C----------------------------------------------------------CAGCCATTGTTCCATC
droSim1 chrX_random:4635946-4636075 + CCACG-----------------------------------------------TCCGGAA-----CCGAAAGGTGCTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATAGAAGCAACAG-----C----------------------------------------------------------CAGCCATTGTTCCATC
droSec1 super_8:332193-332322 + CCACG-----------------------------------------------TCCGGAA-----CCGAAAGGTGCTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATAGAAGCAACAG-----C----------------------------------------------------------CAGCCATTGTTCCATC
droYak2 chrX:16646312-16646441 + CCATG-----------------------------------------------TCGCGAA-----CCGAAAGGTACTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATAGAAGCAACAA-----C----------------------------------------------------------CAGCCATCGTCCCATA
droEre2 scaffold_4690:8350125-8350254 + CCACG-----------------------------------------------TCGCGAA-----CCAAAAGGTGCTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATAGAAGCAACAA-----C----------------------------------------------------------CAGCCATCGTCCCACA
droAna3 scaffold_13335:1603991-1604112 - GC--G------------------------------------------------------------TTAACGGTGCTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATAGAAGCAACCAATCAACTGACCA--C-------------------------------------------------CAG----------ATC
dp4 chrXL_group3a:1970441-1970623 - ATATG-----------------------------------------------T---GATTTAGCTCGATCGGTACTTATTGCAGCTGCTGGCCACTGCACAAGATTAGATTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATATTAGCATCAAA---ACTAAACAAACCAAAAAGGAAGTTGAACGCCTAATGCAATCGATGAGTGTTGGGTTGCTTCAG------TT---TC
droPer1 super_11:2708510-2708698 + ATATG-----------------------------------------------T---GATTTAGCTCGATCGGTACTTATTGCAGCTGCTGGCCACTGCACAAGATTAGATTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCATATTAGCATCAAA---ACTAAACAAACAAAAAAGGAAGTTGAACGCCTAATGCAATCGATGAGTGTTGGGTTGCTTCAGT-TTCATTCCA--
droWil1 scaffold_181096:12033222-12033334 + CAATC-----------------------------------------------GCAAAAG-----CATAACGGTACTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTTA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGGCCAGAAAACGACCAG--------------------------------------------------------------------------------
droVir3 scaffold_12928:1257190-1257317 - T---A-----------------------------------------------TATTTAA-----ACGAGCGGTACTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTCA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGACCAGAGAAACAGCGAAT-ATT----------------------------------------------------------TAACTATTTTTCC---
droMoj3 scaffold_6473:13732313-13732476 + CCACATATACAGAGCATATATGTATATGCATATATCATACAAGTATATAGAATCCAGATCCATTGGGAACGGTGCTTATTGCAGCTGCTGGCCACTGCACAAGATTAGACTCA--AGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGATGCCAGAGAAGCAACA---------------------------------------------------------------------------------
droGri2 scaffold_15203:8453543-8453644 + ----------------------------------------------------------------------GGAGCTTATTGGAGCTGCTGGCCACTGCACAAGATTAGATTCAAAAGACTCTTGTGCGTGTGACAGCGGCTATTGTAAGAGACCAGATA----ACAT-----C----------------------------------------------------------AAGCCAT---------

dme-mir-263a intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:11953395-11953518 - CCATCTAAT----------------------------------------GGT--ATATAGATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTAATTTTTA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGAGAATAAAACAT---------CCAAAATGAA
droSim1 chr2L:11760450-11760573 - CCATCTAAT----------------------------------------GGT--ATATAGATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTAATTTTTA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGAGAATAAAACAT---------CCAAAATGAA
droSec1 super_16:152684-152807 - CCTTCTAAT----------------------------------------GGT--ATATAGATCTCGACACAGTTAATGGCACTGGAAGAATTCACGGGGTAATTTTTA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGAGAATAAAACAT---------CCAAAGTGAA
droYak2 chr2L:8374818-8374940 - CCAGCTGCT----------------------------------------GGT--ATATAGATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTACTTTTTA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGAGAATAAAACAT---------CCAA-ATGAA
droEre2 scaffold_4929:13456433-13456555 + CCATCTGAT----------------------------------------GGT--GTATAGATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTACTTTTGA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGAGAATAAAACAT---------CCGA-ATGAA
droAna3 scaffold_12943:2289700-2289819 + ACA----------------------------------------------AGT--TTCTCCATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTAATTTCTA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGGGATTAAAACATCAAA------A-AAGTGA-
dp4 chr4_group3:7322788-7322905 + ACTCATAAG----------------------------------------TGT--ATCCACATCCCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTT-TTTCAA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGGGACT----CAT---------CTCA-ATCAA
droPer1 super_1:8768281-8768398 + ACTCATAAG----------------------------------------TGT--ATCCACATCCCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTT-TTTCAA--TACAACCCGTGATCTCTTAGTGGCATCTATGGTGCGGGACT----CAT---------CTCA-ATCAA
droWil1 scaffold_180708:2657721-2657853 - CTTTCGATT----------------------------------------GG---TTCTGCATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTTTTTATTTAACAC-ACCCGTGATCTCTTAGTGGCATCTATGGTGCGGGATTTAAGCATACAGAACATCCGACATCAA
droVir3 scaffold_12963:13235091-13235216 + CTTAATGTT----------------------------------------GCTTGCTCTGCATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTTTTTATAA--CAC-GCCCGTGATCTCTTAGTGGCATCTATGGTGCGGGA-TATTACGTACAA------C-AAATGAA
droMoj3 Unknown ACT-------------------------------------------------------------------AGTGATTGGCACTGGGAGAATTCACAGTTGA-TTATAT--AATATTCTGTGGTTCTGC-----------GGGTGCCAAAATATAATAT---------TCGGAATAAT
droGri2 scaffold_15126:6621358-6621517 - CTACCTGAATTTCTGCTGGGTAAGTTATTTTTTTCAAGTGATTTTTCTTGTT-GTTCTGCATCTCGGCACAGTTAATGGCACTGGAAGAATTCACGGGGTTATTTTAA--CAC-GCCCGTGATCTCTTAGTGGCATCTATGGTGCGGGA-TATTACGT---------GCAGA---AA

dme-mir-276a intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:10358313-10358440 + CC-AA----------GA---------TATTTTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCA--TTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-CAAGTGAATGCAAAA-------------------------------------ATCC
droSim1 chr3L:9747980-9748107 + CC-AA----------GA---------TATTTTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCA--TTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-CAAGTGAATGCAAAA-------------------------------------ATCC
droSec1 super_0:2571151-2571278 + CC-AA----------GA---------TATTTTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCA--TTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-CAAGTGAATGCAAAA-------------------------------------ATCC
droYak2 chr3L:10348871-10348998 + GC-AA----------GA---------TATTTTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCA--TTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-CAAGTGAATGCAAAA-------------------------------------ATCC
droEre2 scaffold_4784:10353122-10353248 + GC-AA----------GA---------TAT-TTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCA--TTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-CAAGTGAATGCAAAA-------------------------------------ATCC
droAna3 scaffold_13337:15274238-15274391 + CC-AA----------GA---------TATTTCTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTAACATTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCTAAAATCAAC-GA-----AA------ACATAAAGCGGAGTTGGTTTCCCCTTCAACCA-AAAAAT-C
dp4 chrXR_group6:8756376-8756505 + CG-AACGGAGGAGAAGATGTGTGTATT--TTTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCATATTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAGACAAC-GA------------------------------------------------------
droPer1 super_27:1191188-1191317 + CG-AACGGAGGAGAAGATGTGTGTATT--TTTTTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCATATTATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAGACAAC-GA------------------------------------------------------
droWil1 scaffold_181024:222598-222734 - CTGAA----------AA---------TA--TGCTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCATTTAATAAACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-GTTACGAAA------ACAG----------------------CAACAAGAAA-AAAC
droVir3 scaffold_13049:16143973-16144087 + TG-AA----------AA---------TAT--GCTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCAATTTATATACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAAAACAAC-GAAGTG--------------------------------------------------
droMoj3 scaffold_6680:20621809-20621940 - CC-AA----------AG---------TAT--GCTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTCAATTTAAATACTCGTAGGAACTTCATACCGTGCTCTTGGAAGACCAAAACACAACTCAAACAAAAACGAAAACG----------------------------------AGCG
droGri2 scaffold_15110:12521926-12522042 - CA-AA----------AA---------TAT--GCTACCTGGTTTTTGCCATCAGCGAGGTATAGAGTTCCTACGTTAAATTTAAATACTCATAGGAACTTCATACCGTGCTCTTGGAAGACCAAAACACAAC-AAAG------------------------------------------------AAAC

dme-mir-276b intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:10312870-10312998 + GACCA-------TC-----GAAC-GA--AAAAAACCGAAGTCTTTTTACCATCAGCGAGGTATAGAGTTCCTACGTTCCTATATT-C---AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGACTGTCGACCAGCATA--------TAGTTAAAA
droSim1 chr3L:9702897-9703022 + GACCA-------TC-----GAAC-G---AAAAAACCGAAGTCTTTTTACCATCAGCGAGGTATAGAGTTCCTACGTTCCT--ATT-C---AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGACTGTCGACCATCATA--------TAGTTGAAA
droSec1 super_0:2526747-2526871 + GACCA--------C-----GAAC-G---AAAAAACCGAAGTCTTTTTACCATCAGCGAGGTATAGAGTTCCTACGTTCCT--ATT-C---AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGACTGTCGACCATCATA--------TAGTTGAAA
droYak2 chr3L:10302128-10302256 + GACAA-------CA-----GAAA-GAACAAAAAACCGAAGTCTTTTTACCATCAGCGAGGTATAGAGTTCCTACGTTCCT--ATT-C---AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGACTGTCGACCATCATA--------AAGTTAAAA
droEre2 scaffold_4784:10306167-10306292 + GACAA-------CC-----GAAT-A---AAAAAACCGAAGTCTTTTTACCATCAGCGAGGTATAGAGTTCCTACGTTCCT--ATT-C---AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGACTGTCGACCATCATA--------AAGTTGAAA
droAna3 scaffold_13337:15233368-15233487 + ATTT------------------CTG---AAGAAACCGAAGCCTATTTGCCATCAGCGAGGTATAGAGTTCCTACGTGCCA--CTTAAACTAGTCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCGACCATCATG--------A-----AAG
dp4 chrXR_group6:8706029-8706135 + ATCTA---------------------------AAGCGAAGCCTCTTTACCATCAGCGAGGTATAGAGTTCCTACGTGCCG-TATC-CAA-AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCCATCAAC--------------------
droPer1 super_27:1146104-1146210 + ATCTA---------------------------AAGCGAAGCCTCTTTACCATCAGCGAGGTATAGAGTTCCTACGTGCCG-TATC-CAA-AGTCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCCATCAAC--------------------
droWil1 scaffold_181024:290398-290516 - AACAA--------------ATTT-G---AAATAAACGAAGCCTATTTACCATAAGCGAGGTATAGAGTTCCTACGTGCAA--ATTGCAATAATCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCGAACAACAA-----------------A
droVir3 scaffold_13049:16093198-16093326 + TATCT--------T---AAGATTTA---AAGATACCGAAGTCTATATACCATCAGCGAGGTATAGAGTTCCTACGTGCAA--ATTGCAATAATCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCGACCAGCAA-----------GAAAAGA
droMoj3 scaffold_6680:20678203-20678343 - GACCAAGTGAAACAGAG--ATTGTA---AAGATAACGAAGTCTATATACCATCAGCGAGGTATAGAGTTCCTACGTGCAA--ATTGCAATAGTCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCGACCAACAAA--------ACGAATAAA
droGri2 scaffold_15110:12572308-12572448 - AAATC-------TC---AAAACCGA---AAGATAACGAAGTCTATTTACCATTAGCGAGGTATAGAGTTCCTACGTGCAA--ATTGCAATAATCGTAGGAACTTAATACCGTGCTCTTGGAGGGCTGTCGACCAGCATTGATCAAAACAATTAAGT

dme-mir-277 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:5925729-5925858 + G-ATAAAAT--GCA--TCCT-TTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACTATCTGA-AGCATGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAGGAAA------------------
droSim1 chr3R:15450308-15450437 - G-ATAAAAT--GCA--TCCT-TTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACTATCTGA-AGCATGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAGGAAA------------------
droSec1 super_0:15987777-15987906 - G-ATAAAAT--GCA--TCCT-TTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACTATCTGA-AGCATGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAGGAAA------------------
droYak2 chr3R:9973459-9973588 + G-ATAAAAT--GCA--TCCT-TTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACTATCTGA-AGCATGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAGGAAA------------------
droEre2 scaffold_4770:15674279-15674408 - G-ATAAAAT--GCA--TCCT-TTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACTATCTGA-AGCATGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAGGAAA------------------
droAna3 scaffold_13340:6488981-6489110 + A-GAAAAAT--GCA--TCCT-TTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACATTCTGA-AGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAAGAAA------------------
dp4 chr2:5020571-5020711 - G-ATTAACTGAGCA--TCCT-TTGA--AGGTTTTGGGTTGCGTGTCAGGAGTGCATTTGCACTGAAACATTCTGA-AGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAAGACAAATA--TGC-GA------
droPer1 super_19:726018-726152 - G-ATTAACTGAGCA--TCCT-TTGA--AGGTTTTGGGTTGCGTGTCAGGAGTGCATTTGCACTGAAACATTCTGA-AGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAAGACAAAT---------------
droWil1 scaffold_181089:11168086-11168217 - G-AAAACAA--GCA--TCCTTTTGA--AGGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAAATTTCTAAAAGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCTCGAATGCAAGAAA------------------
droVir3 scaffold_12855:2684186-2684333 - GTATATAGA--GCATATCCT-T-GAGACAGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACATTCTGAAAGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAAACAA-ATAAATGCTGAAT----
droMoj3 scaffold_6540:11885074-11885210 - T-ATAGCAT-AGCA--TCCTCTTGAGACAGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACATTCTGA-AGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAACAA--CTAA-------------
droGri2 scaffold_14624:2266182-2266325 + A--TA------TCA--TC-T-TTGAGACAGTTTTGGGCTGCGTGTCAGGAGTGCATTTGCACTGAAACATTCTGAAAGCTTGTAAATGCACTATCTGGTACGACATTCCAGAACGTACAATCTTCCCGAATGCAAGAAA--TAAATGCTGAATAAAC

dme-mir-281-1 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:8057863-8057982 - AATCGAATC-CAAATGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGA--AACTA-TT-TAATATCACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGATGCGCTGTGAG
droSim1 chr2R_random:2148092-2148211 - AATCGAATC-CAAATGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGA--AAGCA-TT-TAATATCACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGATGCGCTGTGAG
droSec1 super_1:5602965-5603084 - AATCGAATC-CAAATGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGA--AACCA-TT-TAATATCACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGATGCGCTGTGAT
droYak2 chr2R:8893333-8893452 + AATCGAATC-CATATGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGA--ATTCA-TT-TAATATCACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGATGCGCTATGAG
droEre2 scaffold_4845:17736182-17736301 + AATCGAATA-CATATGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGA--AACCA-TT-TAATATCACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGATGCACTATGAG
droAna3 scaffold_13266:2568740-2568853 + CT---ATCT-CGAATGCGAATACGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGA--TACCT---ATAAC---ACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGCTTCGCTCCGAT
dp4 chr3:418413-418523 - AA---AACA-CGAATGCGAATAGGTGAATAAAGAGAGCTGTCCGTCGACAGTCAACG--TACCAATT-TAAT---ACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGTTGCGC----AG
droPer1 super_2:605310-605420 - AA---AACA-CGAATGCGAATAGGTGAATAAAGAGAGCTGTCCGTCGACAGTCAACG--TACCAATT-TAAT---ACTGTCATGGAATTGCTCTCTTTGTATAATATTCGACGTTGCGC----AG
droWil1 scaffold_181141:3241875-3241979 + AG---A-----AAAAGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGTTAAACGA-TTTTAAA---ACTGTCATGGAATTGCTCTCTTTGTATGATATTCGACGT--------GAC
droVir3 scaffold_12875:19829913-19830024 + AATCGTACC-CAAAAGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGT--AACAA-ATGTAAT---ACTGTCATGGAATTGCTCTCTTTGTATGATATTCGACGTTGCCC------
droMoj3 scaffold_6496:6376225-6376337 - AATCGTAGCGAAAATGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGT--AAAGA-TTGTAAA---ACTGTCATGGAATTGCTCTCTTTGTATGATATTCGACGTTGCCC------
droGri2 scaffold_15245:18178188-18178294 + AATT---AT-GAAAAGCGAATAAGTGAATAAAGAGAGCTGTCCGTCGACAGTCCAGT--ATAAA-TTTTAAT---ACTGTCATGGAATTGCTCTCTTTGTATGATATTCGACGTTGC--------

dme-mir-281-2 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:8057643-8057764 - CTTTCAG----ATC-CTCCGCGAATTGTGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A----AGACCGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAACATTCGAAAGGCGACGAT--TAT
droSim1 zdp42d09.g1:294-416 + CTTTCAG----ATC-CTCCGCGAATTGTGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A----AGACCGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAACATTCGAAAGGCGACGAT--TAT
droSec1 super_1:5602746-5602867 - CTTTCAG----ATC-CTCCGCGAATTGTGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A----AGACCGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAACATTCGAAAGGCGACGAT--TAT
droYak2 chr2R:8893539-8893660 + CTTTCAG----ATC-CCCCACGAATAGTGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A----ATACCAATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAGGCGACGAT--TAG
droEre2 scaffold_4845:17736400-17736520 + CTTTCAG----ATC-CTCCACGAATTGTGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A----ATACCGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAACATTCGAAAGGCGACGAT--TA-
droAna3 scaffold_13266:2568922-2569043 + CCGCAAG---GATA-CTCCACGAATAGTGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-AA--AACACGGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAACATTCGAAAGGCGACGAT-----
dp4 chr3:418209-418322 - TAT---A----ATA-CTGAACGAATAGTGAAATAAAGAGAGCTATCCGTCGACAGTCAAGTT-A----A-TCAGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAAGCGCCGA------
droPer1 super_2:605106-605226 - TTTTCTGTATAATA-CTGAACGAATAGTGAAATAAAGAGAGCTATCCGTCGACAGTCAAGTT-A----A-TCAGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAAGCGCCGA------
droWil1 scaffold_181141:3242068-3242181 + T------------------CCGAATAGCGAAATGAAGAGAGCTATCCGTCGACAGTCCAGTTTAATACATCCGAATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAATCGACGGT--TTT
droVir3 scaffold_12875:19830099-19830219 + CTAACCA----AAC-T--TGCGAATAGCGAAATGAAGAGAGCTATCCGTCGACAGTCAAGCT-A-----TACAGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAAGCGACGACTTTAT
droMoj3 scaffold_6496:6376053-6376173 - CCCTCAG----T----TCTGCGAATAGCGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A---TATACATATTTTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAATCGACGAT-ATAT
droGri2 scaffold_15245:18178374-18178494 + GTTTCAC----AACAAATTACGAATAGCGAAATGAAGAGAGCTATCCGTCGACAGTCAAGTT-A---TATACCGATTGTAATACTGTCATGGAATTGCTCTCTTTGTATAATATTCGAAAAGCGACGAT-----

dme-mir-2a-2 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:19569475-19569576 - TGT---ACGATGTTGATTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAGACA
droSim1 chr2L:19257527-19257628 - CGT---ACGATGTTGATTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAGACA
droSec1 super_7:3183838-3183939 - CGT---ACGATGTTGATTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAGACA
droYak2 chr2R:6066549-6066650 - CGT---ACGATGTTGATTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAGACA
droEre2 scaffold_4845:4720188-4720289 + CGT---ACGATGTTGATTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAGACA
droAna3 scaffold_12916:12013971-12014072 + GGC---ACGATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAAACA
dp4 chr4_group5:1153071-1153173 + TAT--TATGATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGAAAACA
droPer1 super_5:5560564-5560666 + TAT--TATGATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGGAAACA
droWil1 scaffold_180708:4285049-4285146 + --------GATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCAACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGAAAACA
droVir3 scaffold_12723:2960501-2960597 - --------GATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCGACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGAAAACA
droMoj3 scaffold_6500:6908893-6908997 + AGAAATTTGATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCGACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGAAAACA
droGri2 scaffold_15126:521944-522043 + TT-----TGATGTTGCTTATCTAAGCCTCATCAAGTGGTTGTGATATGGATACCCGACGCATATCACAGCCAGCTTTGATGAGCTAGGATAATCAACGGAGAACA

dme-mir-2b-2 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:19570167-19570279 - ATCGAAAC-----------------------------------------AGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCGATG-CTCAAGGCAAAA--------------A
droSim1 chr2L:19258228-19258340 - ATCGAAAC-----------------------------------------AGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCGATG-CTCAAGGCAAAA--------------A
droSec1 super_7:3184520-3184632 - ACCGAAAC-----------------------------------------AGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCGATG-CTCAAGGCAAAA--------------A
droYak2 chr2R:6067209-6067321 - ATCGAAGC-----------------------------------------AAGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTCTGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCGATG-CTCAAGACAAAA--------------A
droEre2 scaffold_4845:4719511-4719623 + ATCGAAGT-----------------------------------------AGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCGATG-CTCAAGACAAAA--------------A
droAna3 scaffold_12916:12013302-12013412 + CC----AC-----------------------------------------AGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCAATG-CTCAAGACAAAA-------------AA
dp4 chr4_group5:1152145-1152298 + ACCCAAAGAACCCAAAGCCTCGGGTCTCGGGGCCCCCGTGTCCGGGCCAAGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACACGATG-CTCAAGACAAAA--------------G
droPer1 super_5:5559630-5559783 + ACCCAAAGAACCCAAAGCCTCGGGTCTCGGGGCCCCCGTGTCCGGGCCAAGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACACGATG-CTCAAGACAAAA--------------G
droWil1 scaffold_180708:4283205-4283312 + ---GAGGC-----------------------------------------AGGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTATTCATATCACAGCCAGCTTTGAGGAGCGACGCAATGGCTCAAGTTA------------------
droVir3 scaffold_12723:2961084-2961203 - AGCGAGAGA----------------------------------GAGAGAAAGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTACTCATATCACAGCCAGCTTTGAGGAGCGACACGATG-CTCAGCACAAAA--------------A
droMoj3 scaffold_6500:6907804-6907929 + GACCAAGA-----------------------------------------GAGAGAATTGTGTCATTCTTCAAAGTGGTTGTGAAATGTTTGC-TTTTTCTGCCTACTCATATCACAGCCAGCTTTGAGGAGCGACACGATG-CTCAGTACAAAATTCAAAACATGAAAA
droGri2 scaffold_15126:521314-521426 + GAGAGAGA-----------------------------------------GAGAGAATTGTGTCCTTCTTCAAAGTGGTTGTGAAATGTTTGCCTTTTTATGCCTACTCATATCACAGCCAGCTTTGAGGAGCGACACGATG-CTCAACACAAAA--------------A

dme-mir-305 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:7425957-7426059 + GTAT--------CAAC-----------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGTC-TCGTAACCCGGCACATGTTGAAGTACACTCAATATGAGGCGATTTGCAT----------------AC
droSim1 chr2L:7217527-7217627 + GTAT--------CA-C-----------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGTC-TCGTAACCCGGCACATGTTGAAGTACACTCAATATGAGGCGATTTGCAT----------------AC
droSec1 super_3:2941418-2941520 + GTAT--------CAAC-----------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGTC-TCGTAACCCGGCACATGTTGAAGTACACTCAATATGAGGCGATTTGCAT----------------AC
droYak2 chr2L:5473614-5473716 - GTAT--------CAAC-----------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGGC-CCGTAACCCGGCACATGTTGAAGTACACTCAATATGAGGCGATTTGCAT----------------AC
droEre2 scaffold_4929:16344683-16344785 + GTAT--------CAAC-----------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGGT-CCGTAACCCGGCACATGTTGAAGTACACTCAATATGAGGCGATTTGCAT----------------AC
droAna3 scaffold_12916:15334141-15334251 + GTATTTTTGAGAAATA-----------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTCCA-CCGTAACCCGGCACATGTTGAAGTACACTCAATATGAGGCGAATGTCAA----------------AC
dp4 chr4_group1:4175881-4175974 + G----------------------------------------------------TCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGTC-CTGTAACCCGGCACATGTTGAAGTACACTCAATATGTGGCGAAGTTCGT----------------GC
droPer1 super_5:1086315-1086408 - G----------------------------------------------------TCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGTC-CTGTAACCCGGCACATGTTGAAGTACACTCAATATGTGGCGAAGTTCGT----------------GC
droWil1 scaffold_180772:5257378-5257513 - GATT--------CT-CTTTTTTTTTTATTGGCATTTTTAATTTATTGTTGTTGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTCCGTTTGTAACCCGGCACATGTTGAAGTACACTCAATATGTGGCGATCTTCAT------------------
droVir3 scaffold_12963:15419827-15419927 - GTTT--------CA-------------------------------------TGTCTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTGAC-TTGTAACCCGGCACATGTTGAAGTACACTCAATATGCGTTGATTTGCAT----------------TT
droMoj3 scaffold_6500:18399247-18399346 - GTGT--------C----------------------------------------TCCCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTCAG-TGGAAACCCGGCACATGTTGAAGTACACTCAATATGCGGTGATTTGCAGTT--------------GC
droGri2 scaffold_15126:5008540-5008648 + ------------------------------------------------------CTCCCATGTCTATTGTACTTCATCAGGTGCTCTGGTGTCAC-TCGTAACCCGGCACATGTTGAAGTACACTCAATATGCGGTGATTGGCATTTGCTGCGTTTTAATTAA

dme-mir-307a intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:5508741-5508858 - AAGT---------TAG--CAGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGACAGAGTATCCACGAAAC
droSim1 chr2R:4140609-4140726 - AAGT---------TAG--CAGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGACAGAGTATCCACGAAGC
droSec1 super_1:3126041-3126158 - AAGT---------TAG--CAGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGACAGAGTATCCACGAAGC
droYak2 chr2L:18140631-18140748 - AAGT---------TAG--CAGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGACAGAGTATCCACGAAAC
droEre2 scaffold_4929:8848869-8848986 + AAGT---------TAG--CAGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGACAGAGTATCCACGAAAC
droAna3 scaffold_13266:12795467-12795585 - AAGT---------TAG--CAGCCTTTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGACAGAGTATCCACAAGAC
dp4 chr3:14135687-14135806 - AAGT---------TCGGGTCGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGATAGAATATCCACAAAGC
droPer1 super_4:1183061-1183180 + AAGT---------TCGGGTCGCA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGATAGAATATCCACAAAGC
droWil1 scaffold_180701:3433650-3433765 - ---T---------TAA--CA-CA-TTTTGCCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTTATAATATGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGATAGAATATCCACAAAGT
droVir3 scaffold_12875:5789441-5789560 - AAAT---------AAACCGAACA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTAGTT-CGATTTGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGATAGAGTATCCACTAAGC
droMoj3 scaffold_6496:24271667-24271782 + AAAC---------TA----AGAA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATTCGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGATAGAATATCCACAAAGC
droGri2 scaffold_15112:722942-723066 - AAAATAAAAGAACT----AAACA-TTTTGTCTTGCTTTGACTCACTCAACCTGGGTGTGATGTTATTT-CGATTTGGTATCCATCACAACCTCCTTGAGTGAGCGATAGCAGGATAGAATATCCACAAGAA

dme-mir-307b antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:5508724-5508873 + TT--------CACTGGTGCCAGTTAGTTTCGTGGATACTCTGTCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCTGC--TAACTTTGCA-------------------------TCGGTTTCACT-
droSim1 chr2R:4140592-4140741 + TT--------CACTGGTGCCAGTTAGCTTCGTGGATACTCTGTCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCTGC--TAACTTTGCA-------------------------TCGGTTTCACT-
droSec1 super_1:3126024-3126173 + TA--------CACTGGTGCCAGTTAGCTTCGTGGATACTCTGTCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCTGC--TAACTTTGCA-------------------------TCGGTTTCACT-
droYak2 chr2L:18140614-18140763 + CT--------CACTGGTGCCAGTTAGTTTCGTGGATACTCTGTCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCTGC--TAACTTTGCA-------------------------TCGGTTTCACT-
droEre2 scaffold_4929:8848853-8848999 - TA--------TTTTG----TAGTTAGTTTCGTGGATACTCTGTCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCTGC--TAACTTTGCA-------------------------TCGGCTTCACTT
droAna3 scaffold_13266:12795452-12795608 + TTAA------CATT----CTAGTTAGTCTTGTGGATACTCTGTCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAAGGCTGC--TAACTTTC----------------GTTTCGGAT--TGGGGTTCACTG
dp4 chr3:14135673-14135829 + TA--------TTCTTTTGTCCG---GCTTTGTGGATATTCTATCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCGACCCGAACTTTTTCTCAGTTTTCA-----------------GTTTTCACT-
droPer1 super_4:1183038-1183202 - TGAATCACTATTCTGTTGTCCG---GCTTTGTGGATATTCTATCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GCGACCCGAACTTTTTCTCAGTTTTCA-----------------GTTTTCACT-
droWil1 scaffold_180701:3433631-3433773 + GTAATAAAT---C---TTTCATTGAACTTTGTGGATATTCTATCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCATATTATAAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGGCAAAAT-GT-GT--TAAG----------------------------------TTCTATAA-
droVir3 scaffold_12875:5789437-5789575 + ---------------------GTTGGCTTAGTGGATACTCTATCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCAAATCG-AACTAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GTT----------------------CGGTTTATTTT---GTCACTTTTGCACT-
droMoj3 scaffold_6496:24271651-24271794 - TC--------TATTGGT-----TTAGCTTTGTGGATATTCTATCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCGAATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-TCT----TAGTTTT-----------CT--------T---G--TTGTTTTTATT-
droGri2 scaffold_15112:722926-723081 + TC--------GCCTGTCGCCTGTTTTC-TTGTGGATATTCTATCCTGCTATCGCTCACTCAAGGAGGTTGTGATGGATACCAAATCG-AAATAACATCACACCCAGGTTGAGTGAGTCAAAGCAAGACAAAAT-GTT---------------TAGTTCTT---TTATTTTTATT--TAATTTTTTCT-

dme-mir-31a intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:13671285-13671406 - CGATC---------------GTAT--ATC---AACTCCGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGACGTTGAAAAGCGATTTT--GAAGAGCGCTATGCTGCATCTAGTCAGT-TGTTCAATGGAACAGTCAGCGAG---ATC------------------------------------------
droSim1 chr2R:12409842-12409963 - CGATC---------------GTAT--AGC---ACCTCCGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGACGTTGAAAAGCGATTTT--GAAGAGCGCTATGCTGCATCTAGTCAGT-TGTTCAATGGAACAGTCAGCGAG---ATC------------------------------------------
droSec1 super_1:11168758-11168879 - CGATC---------------GTAT--AGC---ACCTCCGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGACGTTGAAAAGCGATTTT--GAAGAGCGCTATGCTGCATCTAGTCAGT-TGTTCAATGGAACAGTCAGCGAG---ATC------------------------------------------
droYak2 chr2R:15512007-15512128 + CGATC---------------GTAT--AGC---ACCTCTGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGACGTTGAAAAGCGATTTT--GAAGATCGCTATGCTGCATCTAGTCAGT-TGTTCAATGGAACACTCAGCGAG---ATC------------------------------------------
droEre2 scaffold_4845:7899182-7899303 - CGATC---------------GTAT--AGC---ACCTCCGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGACGTTGAAAAGCGCTTTT--AAAGAGCGCTATGCTGCATCTAGTCAGT-TGTTCAATGGAACAGTCAGCGAG---ATC------------------------------------------
droAna3 scaffold_13266:10515593-10515725 + CGATC---------------ATAT--AGCCAAGAATCTGTTGTT-AAATTGGCAAGATGTCGGCATAGCTGACGTTGGAAAACGAATTT--TGAGAGCGCTATGCTGCATCTAGTCAGT-TGTTCAATGGAACAGTCAACAAG---ATCGAAACTCT----------------------------------
dp4 chr3:16483204-16483318 - CG---------------------T--ACC---GCATCTGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGAAGTTGAAAAGCGATCTT--TGAGAACGCTATGCTGCATCTAGTCAGT-TATTCAATGGAACAGTCAACA-G---ATC------------------------------------------
droPer1 super_4:278992-279106 + CG---------------------T--ACC---GCATCTGTTGGT-AAATTGGCAAGATGTCGGCATAGCTGAAGTTGAAAAGCGATCTT--TGAGAACGCTATGCTGCATCTAGTCAGT-TATTCAATGGAACAGTCAACA-G---ATC------------------------------------------
droWil1 scaffold_180700:4557862-4557981 - CA-TC---------------ATCATTAT-----CATCTGTTTTTCGAATTGGCAAGATGTCGGCATAGCTGATA-------AT-ATTTTTAGAAAAGCGCTATGCTGCATCTAGTCAGTTTATTCAATAGAGCAATCGACAATATTATC------------------------------------------
droVir3 scaffold_12875:16937652-16937767 - ---TC---------------GCCT--C-----GCATCTGTTGTT-CAATTGGCAAGATGTCGGCATAGCTGACGTTTGAAAGCGCATTT--TTATAGCGCTATGCTGCATCTAGTCAGT-TATTCAATGGAACAATCAACAAA---A--------------------------------------------
droMoj3 scaffold_6496:11065442-11065572 + CTATATTTATAAATATTTCGGTTT--ATC---GCATCTATTGTT-GAATTGGCAAGATGTCGGCATAGCTGACGTTTCAAAGCGCAT-T--GCATAGCGCTATGCTGCATCTAGTCAGT-TATTCAATGGAACAGTCAACA--------------------------------------------------
droGri2 scaffold_15245:16476618-16476778 - CTCTC---------------GCGA--TTC---TCATCTGTTGGT-GAATTGGCAAGATGTCGGCATAGCTGACGTTTGAAAGCGCATCT---TATAGCGCTATGCTGCATCTAGTCAGT-TATTCAATGGAACACTCAACA-T---ATCCATAC-CTGAAATGCTTAGAAACTTGGAGTATCTACGGATTA

dme-mir-31b intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:8887323-8887479 - TCGCTCCACGT-----------TAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAGCGGATCGAACATTTTATCGTCCGAAAAA---------------------------ATGTGAT---TATT---TTT--GAAAA------GCGGCTATGCCTCATCTAGTCAATTGCATTACTTTGACTCTATCAGCGTTG
droSim1 chrX:7083953-7084109 - TCGCTCCTCGT-----------TAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAGCGGATCGAGCCTCTTATCGTCCGAAAAA---------------------------ATGTGAT---TATT---TTT--GAAAA------GCGGCTATGCCTCATCTAGTCAATTGCATTACTTTGACGCTATCAACGTTG
droSec1 super_34:250169-250325 - TTGCTCCTCGT-----------TAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAGCGGATCGAGCCTCTTATCGTCCGAAAAA---------------------------ATGTGAT---TATT---TTT--GAAAA------GCGGCTATGCCTCATCTAGTCAATTGCATTACTTTGACGCTATCAACGTTG
droYak2 chrX:12425680-12425836 + TTTCTCCTCGT-----------TAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAGCGGATCGAGCCTTTGATCGTCCGAAAAA---------------------------ATGTGAA---TATT---TTT--TAAAA------GCGGCTATGCCTCATCTAGTCAATTGCATTACTTTGACTCTATCAGCGTTG
droEre2 scaffold_4690:6225295-6225451 + TCGCTCCTCGT-----------TAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAGCGGATCGAGCCTCTTATCGTCCGAAAAA---------------------------ATGTGAA---TATT---TTT--GAAAA------GCGGCTATGCCTCATCTAGTCAATTGCATTACTTTGACACTATCAACGTTG
droAna3 scaffold_13047:712420-712562 - AT---CCTCG------------AAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAGAGGATCGAGCGAGTCATCGACCGAGACG---------------------------A----------------ATT--CCAAA------GCGGCTATGCCTCATCTAGTCAATTACATTACTTTGACACTTTCCACGAGG
dp4 chrXL_group1e:8162325-8162445 - GTGT-CCT----------------GACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CAAAA-------------------------------------------------------A---GAAGATGA-----TTT--GAAAT------GCGGCTATGCCTCATCTAGTCAATTGCATTCATTTGATTCTATCAACGATG
droPer1 super_13:404315-404435 + GTGT-CCT----------------GACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CAAAA-------------------------------------------------------A---GAAGATGA-----TTT--GAAAT------GCGGCTATGCCTCATCTAGTCAATTGCATTCATTTGATTCTATCAACGATG
droWil1 scaffold_181150:794468-794638 + TCACGAAT-----GTG---ATGAAAACAACTAGTGGATTTGGCAAGATGTCGGAATAGCTGAAAGTCACACAAAATCA----------------------TAAAATGTTTGCCGTTTTGTTATTGT-TGTGAA-----T-TTTATTGATTTCAAAAATTACGGCTATGCCTCATCTAGTCAATTGCATTAGTTTGATTAAGTCAAC--TG
droVir3 scaffold_12726:2775742-2775905 - TTGCAGCACATATATATAAATATAGACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAAAG--TC----------------------ATA-AAT----CCAGAATTTCTATT-T-TGTGTA-----TTTTTATTGAGTACA------GCGGCTATGCCTCATCTAGTCAATTGCATTCATTTGACAAAAGCAACG---
droMoj3 scaffold_6473:5711141-5711289 + GTGGTCCTCG----------------CAAATAATGAATTTGGCAAGATGTCGGAATAGCTGAGAG-CACAAA-TATC----------------------ATAGAAT----CCAGAATTTATATT-T-TGTGTA-----T-TTTATTGAGTACA------GCGGCTATGCCTCATCTAGTCAATTGCATTCATTTGACAGCAGCAAC---C
droGri2 scaffold_15203:6378282-6378443 - TCGACCACCAT--TTGCACCCGCAAACAAATAATGAATTTGGCAAGATGTCGGAATAGCTGACAG-CACAA--GATC----------------------ACA-AAT----CAAGAAACTTTATT-T-TGTGTA-----TTTTTATTGAGTACA------GCGGCTATGCCTCATCTAGTCAATTGCATTCATTTGAC---ATCAACAACG

dme-mir-34 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:5926643-5926771 + CAAACAA-GTATTC------TTAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAA-TT--ATTGC-CGTTGACAA----TTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTAAAGCAA----------CTTATAA---
droSim1 chr3R:15449371-15449500 - CAATCAAAGTATTC------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAA-TT--ATTGC-CGTTGACAA----TTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTAAAGCAA----------CTTATGG---
droSec1 super_0:15986833-15986962 - CAATCAAAGTATTC------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAA-TT--ATTGC-CGTTGACAA----TTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTAAAGCAA----------CTTATAG---
droYak2 chr3R:9974454-9974582 + CAATCAA-GTATTC------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAA-TT--ATTGC-CGTTGACAA----TTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTAAAGCAA----------CGTACTC---
droEre2 scaffold_4770:15673299-15673427 - CAATCAA-GTATTC------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAA-TC--ATTGC-TTGTGACAA----CTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTAAAGCAA----------CGTACTC---
droAna3 scaffold_13340:6489967-6490093 + TAATTCA-GTTACC------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCTGG-------TGCTCGTTGGCAATTAATTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTAGAGCAA----------CTTA------
dp4 chr2:5019555-5019683 - AAATCCA-GAAAAT------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAAAAT--ATTGC-CTTTGACCA----TTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCCATAACAA----------CG-ATAA---
droPer1 super_19:724982-725124 - AAATCCA-GAAAAT------TCAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAAAAT--ATTGC-CTTTGACCA----TTCACAGCCACTATCTTCACTGCCGCCGCGACAAGCCATAACAACGATAAGCAACATATAATCG
droWil1 scaffold_181089:11166523-11166648 - TAAC------AT--------TCTATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTAGCCAA-TTAAATTGC-CAA-AACAA-TAAACCACAGCCACTATCTTCACTGCCGCCGCGACAGGCCATGACAA----------CAATCGG---
droVir3 scaffold_12855:2682541-2682664 - AAAAAAA-ATTACCTTAAATCCGATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTGGCCAA-T------------TGACAA----ATCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTATGACAG----------CAAA--A---
droMoj3 scaffold_6540:11883356-11883481 - CGAAAAA-ATACCCTTTAATCCGATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTGGCCAC-T------------TGAAAA----ATCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTATGACAC----------CGAGAGA---
droGri2 scaffold_14624:2267430-2267555 + AAACCAA-ATTCCAT-----TGAATTGGCTATGCGCTTTGGCAGTGTGGTTAGCTGGTTGTGTGGCCAA-C------------TGACAA----ATCACAGCCACTATCTTCACTGCCGCCGCGACAAGCTATGACACCAATAA-----ATATAA---

dme-mir-4 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15548779-15548889 - AAT---------------ATTATGGAGCGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTTTCCGGTCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTAGCAGCACC-----------------------AC
droSim1 chr2R:14254213-14254323 - AAT---------------ATTCTGTGGCGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGACTTTTCCGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTAGCAGCACC-----------------------AC
droSec1 super_1:13063508-13063618 - AAT---------------ATTCTGTGGCGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGACTTTTCCGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTAGCAGCACC-----------------------AC
droYak2 chr2R:13623899-13624012 + CAG---------------ATACTGGGGCAGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGACTTTTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTAGCAGCACC--------------------ATTAC
droEre2 scaffold_4845:9749030-9749140 - AAG---------------ATACTGTAGCGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGACTTTTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATCAGCAGCACC-----------------------AA
droAna3 scaffold_13266:9731502-9731641 + AATAATAT----AC-----CAATATAAAGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGACTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCAATTGCGGCGCTTATTAACAAGAATTTCAAATGTGAC
dp4 chr3:12677403-12677511 - TA-----------------CCTTATTGTGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTTGCAGCACT-----------------------AC
droPer1 super_2:8906155-8906263 + TA-----------------CCTTATTGTGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTTGCAGCACT-----------------------AC
droWil1 scaffold_180701:1651595-1651704 - AAC---------------CAAATGGC-GGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATTATCGCCAGT-----------------------TT
droVir3 scaffold_12875:4112289-4112408 + ATATA--T----ATCTATATCATATAGAGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATAAGCAGCGGC-----------------------TA
droMoj3 scaffold_6496:20936612-20936737 - AAAGAAAACAAAATCTATATCGTATAGAGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATAAGCAGCGCC-----------------------TA
droGri2 scaffold_5621:2961-3084 + ATCGA--------TCTATGTTTTATAGAGGTTGCAATTAGTTTCTTTGGTCGTCCAGCCTTAGGTGATTTCTCTGATCATAAAGCTAGACAACCATTGAAGTTCGTTGTGGCATACGCAGCGATTAT-----------------ATAGT

dme-mir-5 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15548648-15548746 - TTC----------AT-CGGGCCATTCGCTAAAAGGAACGATCGTTGTGATATGAGTTG-TTT----CCTAACATATCACAGTGATTTTCCTTTATAACGCATGTTTAAA---GTCCAC
droSim1 chr2R:14254083-14254180 - TTC----------AT-CGGGCCATTCGCTAAAAGGAACGATCGTTGTGATATGAGTTG-TTC----CC-AACATATCACAGTGATTTTCCTTTATATCGCATGTTAAAA---GTCCAC
droSec1 super_1:13063377-13063475 - TTC----------AT-CGGGCCATTCGCTAAAAGGAACGATCGTTGTGATATGAGTTG-TTC----CCGAACATATCACAGTGATTTTCCTTTATAACGCATGTTTAAA---GTCCAC
droYak2 chr2R:13624045-13624143 + TTT----------AA-CGGGCCGTTCGCTAAAAGGAACGATCGTTGTGATATGCGTTA-TTC----CCTAACATATCACAGTGATTTTCCTTTATAACGCATGTACAAA---GTCCAC
droEre2 scaffold_4845:9748899-9748997 - TTT----------GA-CGGGCCGTTCGCTAAAAGGAACGATCGTTGTGATATGCGTTG-TTC----CCTAACATATCACAGTGATTTTCCTTTATAACGCATGTAAAAA---GTCCAA
droAna3 scaffold_13266:9731665-9731765 + TTC----------TA-AGGACCATTCGCTAAAAGGAACGATCGTTGTGATATGCGTTT-ATCC-CTCGTTACATATCACAGTGATTTTCCTTTATAACGCATGCAG-TT---GTCCAA
dp4 chr3:12677226-12677327 - TTC----------CTAGGGGCCATACGCTAAAAGGAACGATCGTTGTGATATGCGTTA-ATTC-ACCGTTACATATCACAGTGATTTTCCTTTATAGCGCATGTCT-GC---GCCCAC
droPer1 super_2:8906345-8906446 + TTC----------CTAGGGGCCATACGCTAAAAGGAACGATCGTTGTGATATGCGTTA-ATTC-ACCGTTACATATCACAGTGATTTTCCTTTATAGCGCATGTCT-GC---GCCCAC
droWil1 scaffold_180701:1651453-1651556 - TTT----------TTCTGGGCCATTCGCTAAAAGGAACGATCGTTGTGATATGCGTTAGATTC-ACCGTTATATATCACAGTGATTTTCCTTTATAGCGCATGCAT-GTTCTGTC--C
droVir3 scaffold_12875:4112452-4112549 + TAA----------AT-TGGGTCATGCTCTAAAAGGAACGATCGTTGTGATATGCGTTC-ATTA-ACCGTTACATATCACAGTGATTTTCCTTTATAGCGCGTGC----A---GCCCGT
droMoj3 scaffold_6496:20936453-20936560 - TGCAAACTCGATGAA-TGGGCCATGCGCTAAAAGGAACGATCGTTGTGATATGCGTTA-ATCG-ACCGTTACATATCACAGTGATTTTCCTTTATAGCGCGTGC----A---GTCCCC
droGri2 scaffold_15112:2108518-2108620 - GTC------G---TTATGGGTCACTCGCTAAAAGGAACGATCGTTGTGATATGCGTTC-ATTAAATCGTTACATATCACAGTGATTTTCCTTTATAGCGCGTGCTC--T---GCCCAA

dme-mir-79 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16698539-16698665 + AT---GAGTGCCT----TAGAGTGAAG--------------------------CTGACTTGCCATTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAACTACTTCATAAAGCTAGATTACCAAAGCATTGGCTTCTGCAGGTCAA-TCGTCA----------GAAACA----AT
droSim1 wck39a12.g1:600-726 - AT---GAGTGCGT----CAGAGTGTAG--------------------------CTGACTTACCATTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAACTACTTCATAAAGCTAGATTACCAAAGCATTGGCTTGTGCAGATCAA-TCGTCA----------GAAACA----A-
droSec1 super_7:345550-345676 + AT---GAGTGCCT----CAGAGTGTAG--------------------------CTGACTTGCCATTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAACTACTTCATAAAGCTAGATTACCAAAGCATTGGCTTGTGCAGATCAA-TCGTCA----------GAAACA----AA
droYak2 chr2R:4404406-4404531 - AT---AAGTGAAT---TGAGAGTGTAG--------------------------CTGCCTTGCCATTGCTTTGGCGCTTTAGCTGTATGATAGATTTATACTACTTCATAAAGCTAGATTACCAAAGCATTGGCTTCTGCAGATCAA-TCATCA------------GACA----AA
droEre2 scaffold_4845:19768185-19768311 + AT---AAGTGACT----TAGAGTGCAG--------------------------CTGCCTTGCCATTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAACTACTTCATAAAGCTAGATTACCAAAGCATTGGCTTCTGCAGATCAA-TCTTCA----------GAAAGA----AA
droAna3 scaffold_12916:15864702-15864823 - TA---TAGTGTTC----TA-----TAG--------------------------CTGCTTAACCGATGCTTTGGCGCTTTAGCTGTATGATAGATTTAAA-TACTTCATAAAGCTAGATTACCAAAGCATTGGCTTCCGCAGGCCTG-TCTTCAA---------GGAATA----AA
dp4 chr4_group3:8443957-8444103 + GA---AAGTGTTT----AAAAGTACAACAATCTAATCTGTGCTTAA----GCCCTGCTCTGCTTCTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAAATACTTCATAAAGCTAGATTACCAAAGCATTGGCTC-TGTGGAAACT-TCATCC-----------AAACA----AT
droPer1 super_1:9895076-9895222 + GA---AAGTGTTT----AAAAGTACGACAATCTAATCTGTGCTTAA----GCCCTGCTCTGCTTCTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAAATACTTCATAAAGCTAGATTACCAAAGCATTGGCTC-TGTGGAAACT-TCATCC-----------AAACA----AT
droWil1 scaffold_181061:28846-28963 - GT---AAT-------------GGATAA--------------------------TGGTCTTGCCTATGCTTTGGCGCTTTAGCTGTATGATAGATTTGA-CTACTTCATAAAGCTAGATTACCAAAGCATGGGCTCTGGCTGA--CT-TAATCA-----------ACGCAAGTGTT
droVir3 scaffold_12963:12863019-12863151 - AT---AGCC---AGGATTAGA-TGAA-------------------------CGCCGCACTGCCGTTGCTTTGGCGCTTTAGCTGTATGATAGATTTGAA-TACTTCATAAAGCTAGATTACCAAAGCATTGGCTC-TGTGGC-CAGCTTAGCA---AAGTTGTGAAACG----AT
droMoj3 scaffold_6500:7202098-7202247 + A------GTGTCT----TGTAATGTAA-------ACGTGTTTTTAAATATTCGCCCCATTGCCGTTGCTTTGGCGCTTTAGCTGTATGATAGATTTAAA-TACTTCATAAAGCTAGATTACCAAAGCATTGGCTC-TGTGG-CCAA-ACCCCAGCGAACTTGTGAAATA----AT
droGri2 scaffold_14978:831072-831198 + ATTTAAAGTGCTT----CTTCTTGGTG--------------------------CCACATTGCCGTCGCTTTGGCGCTTTAGCTGTATGATAGATTTGAA-TACTTCATAAAGCTAGATTACCAAAGCATCGGCGCCTGTGGC-CA--GCTTAA----------CAAACG----TT

dme-mir-8 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:12718922-12719038 + A-----------------------------------------TCT-----------------------------TGCTAA---------TTAGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-TTATAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTAACCTTCAGTAC-CAC---
droSim1 chr2R:11454608-11454724 + A-----------------------------------------TCT-----------------------------TGCTAA---------TTAGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-TTATAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTAACCTTCAGTAC-CAC---
droSec1 super_1:10223793-10223909 + A-----------------------------------------TCT-----------------------------TGCTAA---------TTAGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-TTAAAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTAACCTTCAGTAC-CAC---
droYak2 chr2R:16257218-16257334 - A-----------------------------------------TCT-----------------------------TGCTAA---------TTAGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-TTATAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTAACCTTCAGTAG-CAC---
droEre2 scaffold_4845:13131118-13131232 - G-----------------------------------------TCT-----------------------------TGCTAA---------TTAGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-TTATAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTAACCTTCAGTAC-C-----
droAna3 scaffold_13266:13876642-13876748 - A-----------------------------------------TCT-----------------------------TGCTTA---------TTTGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TTCTGATAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTAACC---------------
dp4 Unknown_singleton_1898:47537-47693 - AAATAACAAAAGAGGGAAACACAGTGCGGTGACGAAAACACGTTT-----------------------------TGCT-A---------TTCGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-AGATACCTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTATCCATCATAAAT-CC---
droPer1 super_4:6545710-6545866 + AAATAACAAAAGAGGGAAACACAGTGCGGTGACGAAAACACGTTT-----------------------------TGCT-A---------TTCGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATCCT------TT-AGATACCTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTATCCATCATAAAT-CC---
droWil1 scaffold_180700:6381462-6381593 + C-----------------------------------------GCT-----------------------------TGCAAAAAGATTCTTCTTGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATTTT-GTACTAT-AGATATCTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTATCCATCATAAATCAT---
droVir3 scaffold_12875:10672387-10672513 - A-----------------------------------------TCT----------------GTTTGCTTGCAATTACTTA---------TTTGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATTCTTGA--TTT-AAATAATTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTATACATCA-----------
droMoj3 scaffold_6496:16285321-16285444 + C-----------------------------------------AAT-----------------------------TGCCTA---------TTTGCTAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATTCCTGT--TTT-AAATAACTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTTTCCATCATAAAT-GCAAT
droGri2 scaffold_15245:3783124-3783258 - A-----------------------------------------TTTTTATGTGAAATAATCAATT----------TGCT-------------TGCAAGGACATCTGTTCACATCTTACCGGGCAGCATTAGATTCTTGA--TTT-AAATAATTCTAATACTGTCAGGTAAAGATGTCGTCCGTGTCCTTATCCATCATAAAT--C---

dme-mir-87 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:9950403-9950531 - CCAAAGT---------CCTTT--GGCAACACATTTCATTCGCGCCTGTATCTTGCTGAACCGCTGCC-ATTATGGCCAACG-ATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATGTGTTTAGCATTCATC----GGAGAATTT
droSim1 chr2L:9739846-9739974 - CTTAAGT---------CCTTT--GGCGGCACATTTCATTCGCGCCTGTATCTTGCTGAACCGCTGCC-ATCATGGCCAACG-ATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATGTGTTTAGCATTCATC----GGAGGATTT
droSec1 super_3:5397127-5397255 - ACCAAGT---------CCTTT--GGCGGCACATTTCATTCGCGCCTGTATCTTGCTGAACCGCTGCC-ATCATGGCCAACG-ATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATGTGTTTAGCATTCATC----GGAGGATTT
droYak2 chr2L:12640967-12641095 - TCCAAGT---------CCTTT--GGCGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTTACA-ATTATGGTCTTCG-ATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTTTAGCATTCATC----GGAGGATTT
droEre2 scaffold_4929:10570531-10570659 - CACGAGT---------CCTTT--GGCGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTTGCC-ATTATGGCCTACG-ATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTTTAGCATTCATC----GGACGATTT
droAna3 scaffold_12916:13789760-13789886 - TG--AAT---------CCTTTCAAGCGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTTACC-GATATGGCACAGA-ATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTTAAGCAATCTTC----AAAAGAT--
dp4 chr4_group3:220105-220226 + TCCTAC----------CGTGT--GCTGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTAGCC-ATAATGGTCTTTCATCCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTTAAGCAATCTTC----AC-------
droPer1 super_1:1694906-1695025 + TCCTAC----------CGTGT--GCTGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTAGCC-ATAATGGTCTTTCATCCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTTAAGCAATCTTC-------------
droWil1 scaffold_180708:12250833-12250971 - CCA--ATCAAAATTAACATTT-GGCCGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTTACCAATTGTGATCTTCATTTCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTGACGGTAACATC----GTTGGAATA
droVir3 scaffold_12723:3996238-3996344 + CTA---T---------CCCTT-GGCCGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTTACA-ATTGAGACATCTAAATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGT-------------------------
droMoj3 scaffold_6500:14729857-14729979 - -----AT---------CCTTA--GCCGGCATCTTTCATTCGCGCCTGTATCTTGCTGAACCGTTACA-ATTGTCACATCCAAATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTAGCGGTCTCATC----AAAGCA---
droGri2 scaffold_15252:3661296-3661426 - TT---AT---------CCTTG--ACCGGCATATTTCATTCGCGCCTGTATCTTGCTGAACCGTTACC-ATTGTGACATCCAAATCCGGTTGAGCAAAATTTCAGGTGTGTGAGAAATTTGTAGCGGCTTCATCACTTGGTGGATAG

dme-mir-929 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:121076-121193 + TGA--C-ATGGCG---GAACCAG-------------TCCTGGTGGAGCTCAAATTGACTCTAGTAGGGAGTCCTTT-AATGAGCGACTCCCTAACGGAGTCAGATTGAGCTGCAAAGGAGCGA-CACAAC-----AGAGGAGC----A
droSim1 chr3R:194547-194664 + TGG--C-ATGGCG---CAACCAG-------------TCCTGGTGAAGCTCAAATTGACTCTAGTAGGGAGTCCTTT-AATGAGCGACTCCCTAACGGAGTCAGATTGAGCTACAAAGGAGCGA-GACAAC-----AGAGGAGC----A
droSec1 super_6:240419-240536 + TGA--C-ATGGCG---CAACCAG-------------TCCTGGTGAAGCTCAAATTGACTCTAGTAGGGAGTCCTTT-AATGAGCGACTCCCTAACGGAGTCAGATTGAGCTACAAAGGAGCGA-GACAAC-----AGAGGAGC----A
droYak2 chr3R:481089-481206 + TGA--A-ATGGCA---AAACCAG-------------TCCTGGTGAAGCTCAAATTGACTCTAGTAGGGAGTCCTTT-AATGAACGACTCCCTAACGGAGTCAGATTGAGCTACAAAGGAGCGA-GACAAC-----ACAGGACC----A
droEre2 scaffold_4770:471031-471148 + TGA--A-GTGGCG---GAACCAG-------------TCCTGGTGAAGCTCAAATTGACTCTAGTAGGGAGTCCTTC-CATAAGCGACTCCCTAACGGAGTCAGATTGAGCTACAAAGGAGCGA-GACAAC-----ACAGGTGC----A
droAna3 scaffold_13340:11127706-11127842 + AGC--C-ACCAAC---CAACCAACCAACCAACCACTTCCTGGCGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTTTAACGAGAGACTCCCTAACGGAGTCAGATTGAATTACAAAGGAGCGA-GACAACGACTACGTGGTGG----C
dp4 chr2:24810831-24810947 - G-A--A-GT-GCA---CGGCAA-------------TTCCTGCAGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTTTATTGAGCGACTCCCTAACGGAGTCAGATTGAATTACCAAGGAAC-A-GACAAC-----AGTGGAGC----G
droPer1 super_6:111437-111553 - G-A--A-GT-GCA---CGG--G-----------ATTTCCTGCAGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTTTATTGAGCGACTCCCTAACGGAGTCAGATTGAATTACCAAGGAAC-A-GACAAC-----AGTGGAGC----A
droWil1 scaffold_181089:9825565-9825678 - TGA-------------GAA---------------CTTCCTGCGGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTTATATAAGCGACTCCCTAACGGAGTCAGATTGAATTACAAAGGAACAACAACAAC-----AAAAA-GCCACGA
droVir3 scaffold_12822:1418795-1418911 + AGGCCAAGT-GCGACGCGT--G-----------AATTCCTGCCGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTT-CACGAGCGACTCCCTAACGGAGTCAGATTGAATTACAAAGGACCCA-GACAAC-----GAG----------
droMoj3 scaffold_6540:34020273-34020392 + ACA--T-AT-ACG---CTACGAG-----------TTTCCTCATGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTTTTTTTAACGACTCCCTAACGGAGTCAGATTGAATTTCAGAGGACCCA-GACAAC-----GAAGAAGC----G
droGri2 scaffold_15074:2468173-2468294 - TGA--AAGT-GTGCCCCCG--A-----------ACTTCCTGCTGCAGTTCAAATTGACTCTAGTAGGGAGTCCTTTTAACGAGCGACTCCCTAACGGAGTCAGATTGAGTTACAAAGGACCAA-GTCAAC-----AATGCCCC----A

dme-mir-958 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:22662374-22662495 - GGATT-TTCC-------------------------ACGATCGGCGTGTCTATGGCAAGTAGAATAGCAGGCTTATCACATGTTTAATTCA-ATCTGCTGTGAGATTCTTCTATTCTACTTTCGACAA-CACCCGTTAACATCACACCCG---------A
droSim1 chr3L:21947666-21947787 - GGATT-TTCC-------------------------ACGATCGGCGTGTCTTTGGCAAGTAGAATAGCAGGCTTATCACATGTTCAATTCA-ATCTGCTGTGAGATTCTTCTATTCTACTTTCGACAA-CACCCGTTAACATCACACCCG---------A
droSec1 super_11:2578674-2578788 - GGATT-TTCC-------------------------ACGATCGGCGTGTCTTTGGCAAGTAGAATAGCAGGCTTATCACATGTTCAATTCA-ATCTGCTGTGAGATTCTTCTATTCTACTTTCGACAA-CACCCGTTAACATCA----------------
droYak2 chr3L:23128644-23128763 - GGATT-TTCC-------------------------ACGATCGGCGTGTCTTTGGCAAGTAGAATAGCAGGCTTATCACATGTTTAACTCA-ATCTGCTGTGAGATTCTTCTATTCTACTTTCGACAA-CACCCGTTAACATCGAACCC-----------
droEre2 scaffold_4784:22312266-22312387 - GGATT-GTCT-------------------------ACGATCGGCGTGGCTTTGGCAAGTAGAATAGCAGGCTTATCACATGTTCCATTCA-ATCTGCTGTGAGATTCTTCTATTCTACTTTCGACAA-CACCCGTTTACATCAAACCCG---------A
droAna3 scaffold_13337:22380395-22380515 - GAATA-TTCCA------------------------ACGACCGGTGGGTTTTTAGCAAGTAGAATAGCAGGCTTATCACAGGTTCC-TTTA-ACCCACTGTGAGATTCTTCTATTCTACTTTCGAGAAACACCCGTAAACACCGATCTC-----------
dp4 chrXR_group8:344159-344293 - GGATA-TGGC-------------------T--AGCACGATCGGTGTGTATTTGGCAAGTAGAATAGCAGGCTTATCACATGTTCCATTCA-ATCCGCTGTGAGATTCTTCTATTCTACTTTCGACAAACACCCGTTGACATCTAATAGAGC-AGCCCTC
droPer1 super_96:132292-132395 + G-------------------------------------ATCGGTGTGTATTTGGCAAGTAGAATAGCAGGCTTATCACATGTTCCATTCA-ATCCGCTGTGAGATTCTTCTATTCTACTTTCGACAAACACCCGTTGACATC-----------------
droWil1 scaffold_180698:7060886-7061014 + TGAGTTTTGA--------------CTATGACT--ATCTAACGGTGTGTCTTTGGCAAGTAGAATAGCAGGCTTATCACATGTTCCCTTTACAACCGGTGTGAGATTCTTCTATTCTACTTTCGAAAAGCACCCGATAACAACAAA--------------
droVir3 scaffold_13049:17089392-17089522 + TGTTT-TTTTA------ATGTTCTCTATAT--ATTTTGATCGGTGTGGAT-TGGCAAGTAGAATAGCAGGCTTATCACATGTACAATTCA-ACCTAGTGTGAGATTCTTCTATTCTACTTTCGACAAACACCAGCTAGCGTC-----------------
droMoj3 scaffold_6680:22084806-22084935 + GTGTT-TTCC--------------CTGTGATT--CTCAGTCGGTGTGGAT-TGGCAAGTAGAATAGCAGGCTTATCACATGTACCATTTG-ACCGAGTGTGAGATTCTTCTATTCTACTTTCGACAAGCACCAGTCAGCGTCGTTTTCG----------
droGri2 scaffold_15110:15103971-15104124 - GTGTG-TGCAGGTTTTATGGTTTTTGTTTT--ACTCTGATCGGTGTGGAT-TGGCAAGTAGAATAGCAGGCTTATCACATGTAACATTCG-ACATGGTGTGAGATTCTTCTATTCTACTTTCGACAAACACCAGCTAGCGTCACATTCAGTTAAGTTTA

dme-mir-987 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:5200513-5200636 - GCG-GAAG--ACGA--AC------------AATGTTGGACTGTGTTTAAAGTAAATAGTCTGGATTGATGAAAGT-TGCATTCGAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTGAACAAAATGCAACAGGAAAA
droSim1 chr2R:3860388-3860511 - GCG-GAAG--ACGA--AC------------AATGTTGGACTGTGTTTAAAGTAAATAGTCTGGATTGATGAAAGT-TGCATTCGAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTGAACAAAATGCAACAGGAAAA
droSec1 super_1:2832514-2832637 - GCG-GAAG--ACGA--AC------------AATGTTGGACTGTGTTTAAAGTAAATAGTCTGGATTGATGAAAGT-TGCATTCGAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTGAACAAAATGCAACAGGAAAA
droYak2 chr2L:17856053-17856176 - GCG-GAAG--ACGA--AC------------AATGTTGGACTGTGTTTAAAGTAAATAGTCTGGATTGATGAAAGT-TGCATTCGAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTGAACGAAATGCAACAGGAAAG
droEre2 scaffold_4929:17456334-17456457 + GCG-GAAG--ACGA--AC------------AATGTTGGACTGTGTTTAAAGTAAATAGTCTGGATTGATGAAAGT-TGCATTCGAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTGAACGAAATGCAACAGGAAAA
droAna3 scaffold_12430:12714-12838 + ACG-GAAAA-ATGT--AC------------AATGTTGGACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGT-TGTATTCGAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTCGAACGAAATTCAACAGGATAA
dp4 chr3:9267901-9268036 - ATG-CAAC--ACGA--ACACACACAGAAATAATGTTGGACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGT-TATATTCAAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTAAACGATATGCAACTGGATAA
droPer1 super_4:4590324-4590459 - ATG-CAAC--ACGA--ACACACACAGAAATAATGTTGGACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGT-TATATTCAAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTAAACGATATGCAACTGGATAA
droWil1 scaffold_180697:853193-853321 + GAGAGAAGGAGAGATCAT------------AATGTTGAACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGT-TATATTCAAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTGAACAAAATGCAACAAAAATG
droVir3 scaffold_12875:1241652-1241774 - GCG-TC----GCTC--AC------A-----AATGTTGAACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGT-TTTATTCAAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTAAACGAAATGCAACAGAAGAA
droMoj3 scaffold_6496:4307034-4307162 - ACG-GATATCGCGAATAA------------ACTGTTGAACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGTTTATATCTAAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTAAACGAAATGCAACAGAAGCA
droGri2 scaffold_15245:9744744-9744853 + C-------------------------------TGTTGAACTGTGCTTAAAGTAAATAGTCTGGATTGATGAAAGT-TTTATTCAAGAATTCATCAACAGGCATTTACTTCAACTGCAGTTTAAACGAAATGCAACAAAAGA-

dme-mir-993 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:2602040-2602188 + GG-GATCTC---------------------------CAATTGT--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-AAATGGCGTT-CGG-CA-CATTGTCGGACTGCTGGCTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACC--TCAA--------TATG
droSim1 chr3R:2632916-2633065 + GG-GATCTC---------------------------CAATTGT--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-AAATGGCGTT-CGG-CG-CATTGTCGGATTGCTGGCTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACC--TCAAT-------GAAA
droSec1 super_6:2693177-2693327 + GG-GATCTC---------------------------CAATTGT--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-AAATGGCGTTTCGG-CG-CATTGTCGGATTGCTGGCTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACC--TCAAT-------GAAA
droYak2 chr3R:7811352-7811500 - GG-GATCTC---------------------------CAATTGT--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-AAATGGCGTT-CGA-CG-CATTGTCGGATTGCTGGCTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAATAAACC--TCAA--------GACA
droEre2 scaffold_4770:2845885-2846032 + GG-GATCTT---------------------------CAATTGT--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-AAATGGCGTT-CGA-CG-C-TTGTCGGATTGCTGGCTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAATAAACC--TCAA--------GCCA
droAna3 scaffold_13340:5446725-5446870 - AC-GATCTT---------------------------CAATTGA--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-ATATTGCGTT-CGA-TG-CATTGTCGGACTGCTGGCTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAAC--AT-----------T
dp4 chr2:19773774-19773922 - CG-GATCTT---------------------------TGATTGC--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-ATATTGCGCC-CGA-TG-TATTTTCGAGTGTTTGTGTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAAC--TC--------TGAA
droPer1 super_3:2522178-2522326 - CG-GATCTT---------------------------TGATTGC--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-ATATTGCGCT-CGA-TG-TATTTTCGAGTGTTTGTGTCGATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAAC--TC--------TGAA
droWil1 scaffold_181089:11961167-11961347 + GATAATTTT---------------------------CATTTGTTTTTATTCAAGTTACACCGAAACAAAAAAGAAAACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTTTAAAGTGCATTTCCGATGCCATTG-------------TCAATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAAC--AATGACGACATAAA
droVir3 scaffold_13047:6141838-6142002 - GT-GGTCTCGTACTGGGTGAAGTGGGGGTCAGTGAATAACAGA--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-ATAGTGCATT-CAAATGCCATT-------------CTCAATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAACTCA----------AAA
droMoj3 scaffold_6540:16546170-16546300 - -------------------------------------AACAGA--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-ATAGTGCATA-CGAATGCCATTG-------------TCAATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAACTCAA--------ACTC
droGri2 scaffold_14906:11483329-11483464 - GT-GATATT---------------------------CA---GA--------------------------------AACGCTCCCGTGACCTACCCTGTAGTTCCGGGCTTTTGTTT-TTAGTGCATT-CAAATGCCATTG-------------TCAATTATCAGAAGCTCGTCTCTACAGGTATCTCACAGGGTAGAAAGAAACAACG-AA--------TAAA

dme-mir-994 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:6233844-6233964 + C--------------GC------GTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACCCAAG--AATTTTTCACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAACAGC-----CTAGATCC
droSim1 chr3R:15159284-15159404 - C--------------GC------GTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACCCATG--AATTTTTCACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGATCC
droSec1 super_0:15709450-15709570 - C--------------GC------GTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACCCATG--ATTTTTTCACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGATCC
droYak2 chr3R:10262359-10262479 + C--------------GC------GTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACCCAAG--AATTTTTCACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGTTCC
droEre2 scaffold_4770:15384035-15384155 - C--------------GC------GTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACCCATG--AATTGTTCACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGTTCC
droAna3 scaffold_13340:867356-867469 - -----------------------------GATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACCCTCG-AAGTCATTCCCATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGATTT
dp4 chr2:7233487-7233613 - T--------------GTCGCGTTGTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTAACATACA--AATCCTTTACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGATCG
droPer1 super_0:1094175-1094302 - T--------------GTCGCGTTGTCCTGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTAACATAAC-AAATCCTTTACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTAGATCG
droWil1 scaffold_181108:495-611 + C--------------G--------ACATGAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTAATTATTCAAATCTTTGACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CTA-----
droVir3 scaffold_13047:1194160-1194276 + C------------CAGC------GATTTTGATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACATTAG--AAGCTTTCACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CT------
droMoj3 scaffold_6540:5225156-5225284 + AGGTCTAACGTTGAAGC------GATATCAATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACATTTC--AACCTATTACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAGC-----CT------
droGri2 scaffold_14906:5077444-5077577 - G--------------ATGACAATGATTTACATTTATATCGAGTTATCTAAGGAAATAGTAGCCGTGATTTTACATTTGAAACTCTCTTACATATCACAGTTGCTGTTTCTTTTAGATAGCTCTTTTGTAAGCAACAAACCCTAACTCC

dme-mir-996 five_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:25042891-25043017 + GGAAGG---------------------------------------------------------------------------------------------------ATGCTCTTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-GGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACAA-CGAA----G----A------GAGC
droSim1 chr3R:24713787-24713913 + GGAAGG---------------------------------------------------------------------------------------------------ATGCTCTTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-GGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACAA-CGAA----G----A------GAGC
droSec1 super_4:3905684-3905810 + GGAAGG---------------------------------------------------------------------------------------------------ATGCTCTTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-GGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACAA-CGAA----G----A------GAGC
droYak2 chr3R:21454418-21454540 - GGAAGG---------------------------------------------------------------------------------------------------ATGCTCTTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-GGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACTA-CGAA----G----A----------
droEre2 scaffold_4820:2987415-2987537 - GGAAGG---------------------------------------------------------------------------------------------------ATGCTCTTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-GGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACTA-CGAA----G----A----------
droAna3 scaffold_13340:14198945-14199070 - GGTCT----------------------------------------------------------------------------------------------------------TTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-GTTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACAC-CAAA----G----AGTCGGATAGT
dp4 chr2:1883607-1883737 + CAGCGT---------------------------------------------------------------------------------------------------TTGCTCTTCTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-TGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAACACAA-CGAACCGAA----A------GAGC
droPer1 super_7:2047020-2047150 + CAGCGT---------------------------------------------------------------------------------------------------TTGCTCTTCTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-TGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAACACAA-CGAACCGAA----A------GAGC
droWil1 scaffold_181108:1735977-1736125 + GGATGGATGGAGTCCTTTCTATGTGGCAGCG----------------------------------------------------------------------------TCTCT----TGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGTTTGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAGCACAA-C-AA----G----A---GCGCAGC
droVir3 scaffold_12822:2333349-2333515 + GAGAGG-----------------CTGCAGCTGCTGCCTGATTTTTGATTTTTTTTT-TTTTTTTGTTTC--GCT----------------------------CTTTTGCTCTTCTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-TGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAACACA--------------------------
droMoj3 scaffold_6540:26449231-26449397 + GAGAGG---GAGGT----CTCTACTGCAGCTGCTGCCTGAT-----ATTTCTTTTT------------------------------------------------TTTGCTCTTCTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-TGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAATACACACAGC----G----A------AAAC
droGri2 scaffold_14624:3251484-3251700 + AGAGAGAGAGAGA---------------G--------AAATGTTTGCTTGCTCTCTATCTCTCTGTCTCTCGCCCACTTTCTAGCTTCAACTGCAACTGCAACTGCTGCTCTTTTCTGACTCTATTTTGTCGGCGAACATGGATCTAGTGCACGGT-TGTTCATGATTAAGTTCGTGACTAGATTTCATGCTCGTCTATTAAGTTGGGTCAACACAC-AACACAAAAAAAAAAGAGGAGAGC

dme-mir-998 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:17447586-17447758 - CT-------------------------------------------------------CGTCAGCAAT---------------------CGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-GC--------------TC---------CAG---GGCAAAT--TGTTCATTTTGAAATTGAAATTCTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATCTCTCG
droSim1 chr3R:4023089-4023261 + CT-------------------------------------------------------CGTCAGCAAT---------------------CGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-GC--------------TC---------CAG---GGCCAAT--TGTTCATTTTGAAATTGAAATTCTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATCTCTCG
droSec1 super_6:4044375-4044547 + CT-------------------------------------------------------CGTCAGCAAT---------------------CGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-GC--------------TC---------CAG---GGCCAAT--TGTTCATTTTGAAATTGAAATTCTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATCTCTCG
droYak2 chr3R:6285151-6285323 - CT-------------------------------------------------------CGTCAGCAAT---------------------CGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-GC--------------TC---------CAG---GGCCAAT--TGTTCATTTTGAAATTGAAATTCTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATATCTCG
droEre2 scaffold_4770:4217706-4217878 + CT-------------------------------------------------------CGTCAGCAAT---------------------CGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-GC--------------TC---------CAG---GGCCAAT--TGTTCATTTTGAAATTGAAATTCTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATCTCTCG
droAna3 scaffold_13340:5676182-5676384 + CT-------------------------------------------------------CGTCAGCAAT-------------------CTCGT-CTCCTCTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACCTGCTGCTGCTGCTGCTCTC---------CAGTTTGGCCAATTTTGTTAATTTTGAAATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCACCAAAAACATCTCTCG
dp4 chr2:23856839-23857018 - CT-------------------------------------------------------CGTCTGAAATA---------------TATATCGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-AT-------------TTC---------CAG---GGCCAAT--TGTTAATTTTGCGATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATCTCTCG
droPer1 super_3:6633404-6633583 - CT-------------------------------------------------------CGTCTGAAATA---------------TATATCGT-C----CTCGT------------------GTCAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-AT-------------TTC---------CAG---GGCCAAT--TGTTAATTTTGCGATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAC-AA---CATCTCTCG
droWil1 scaffold_181089:8480191-8480341 + ---------------------------------------------------------------------------------------------------------------------------AAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCACTGACAACACTG--ACC-GC--------------TGCTTTAAACCTGG---GGCCAAT--TGTTCATTTTGAAATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCAT-CA---CA-------
droVir3 scaffold_13047:6339512-6339744 + CTTTATGTCGATGTTTTTTCGTTATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAAT-------AAAT-----------------GGAAA----CCATTTGCTCGCAACGCGCAAGCG-CAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCAGTG----CACTG--ACC-GT--------------TG---------CAG--AGGGCAAT--TGTTCAAATTGAAATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCACTAA-----------G
droMoj3 scaffold_6540:1739242-1739414 - CA-------------------------------------------------------AAT-ATCAAT---------------------GGATA----CCATT------------------AAAAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCAGTG----CACTGTAACC-GT--------------TG---------CAG--AGGGCAAT--TGTTCAAATTGAAATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAGTTTCAAACATGCATTCACCAA---AAAATGAAA
droGri2 scaffold_14906:11660076-11660280 + CTTTATGTTGCTC------------------------------------------------------AAATGGGACCATTCTGTATATC-AAT----CCAAT------CAACGCGCAAGCG-CAAATTCATTTTGGAACTGAATTCTCGTGGGTCTGCAGTG----CACTG--ACC-GT--------------TG---------CAG--AGGGCAAT--TGTTCATTTTGAAATTGAAATTTTGTAGCACCATGAGATTCAGCTCTGGCGTGAATTTCAAACATGCATCCACCAAAT-CAAATCA-A

dme-mir-9a intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:19558216-19558323 + CTCT------ATATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGCCCAGCGAGA
droSim1 chr3L:18890412-18890519 + CTCT------ATATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGACCAGCGAAA
droSec1 super_29:261369-261476 + CTCT------ATATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGACCAGCGAAA
droYak2 chr3L:20989402-20989507 - CTCT--------ATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGACCAGCGAAA
droEre2 scaffold_4784:19355664-19355769 + CTCT--------ATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGACCAGCGAAA
droAna3 scaffold_13337:17332424-17332537 - ATCTTATATAACACTATGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGTCCAGCGAAA
dp4 chrXR_group8:7634812-7634919 + TTCT------TCAATCAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGTCCAGCGAAA
droPer1 super_48:412952-413059 + TTCT------TCAATCAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGTCCAGCGAAA
droWil1 scaffold_180727:842215-842322 + CCCTCGC---ATATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATACATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGCGTCTGTTCATC---A
droVir3 scaffold_13049:13137002-13137114 + CGACCAGCCAGGATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGTGTCTGCTCAACGTA-
droMoj3 scaffold_6680:14226499-14226603 - A---------ATATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGTGTCTGCTCAGCGTAA
droGri2 scaffold_15110:23882734-23882841 + TGCC------GCATACAGGGTGCTATGTTGTCTTTGGTTATCTAGCTGTATGAGTGATAAATAACGTCATAAAGCTAGCTTACCGAAGTTAATATTAGTGTCTCTTCAACGTAA

dme-mir-9c intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16697909-16698030 + CT----------------------------TGC-ACTA---TTTA--------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCACGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACA------------------------------------------TGATAT----
droSim1 zdv96e12.b1:15-131 + CT----------------------------TGC-ACTA---TTTA--------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCACGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACA----------------------------------------------------
droSec1 super_7:344892-345054 + CT----------------------------TGC-ACTA---TTTA--------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCACGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACAACGCACCAACCCA-AAACAGCCACAAATACAGGAATGATTAATGATAT----
droYak2 chr2R:4405017-4405183 - CT----------------------------TGC-ACTA---TTTA--------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCGCGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACAGCGCACCAACCAA-AAACAGCCACAAATACAGGAATGATTAAAAATATCTTT
droEre2 scaffold_4845:19767520-19767683 + AT----------------------------TGC-ACCT---TTTA--------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCGCGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACAACGCACCAACCAAAAAACAGCCACAAATACAGGAATGATTTCTAATAT----
droAna3 scaffold_12916:15865465-15865583 - CA----------------------------CGC-ACTCCCTTTCA--------------TTA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCACGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACA----------------------------------------------------
dp4 chr4_group3:8443145-8443295 + CT-CTCCCATTCGCTGTCTGTCGACTTCCATGC-ACTT---TTTGTTCTCCTT------TAA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTTTTGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACA----------------------------------------------------
droPer1 super_1:9894267-9894417 + CT-CTCCCATTCGCTGTCTGCCGCCTTCCATGC-ACTT---TTTGTTCTCCTT------TAA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTTTTGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTAACA----------------------------------------------------
droWil1 scaffold_181061:30518-30658 - CCTCCCCTCTTCACCATC-------------------T---TTTCCTCTCCCTCCATCATCATTTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTTTTGCACATTGTATATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTGCCA----------------------------------------------------
droVir3 scaffold_12963:12863840-12863951 - CA----------------------------CAC-ACAA---TTT---------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTTT---ACAGTTTGTATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTGCCA----------------------------------------------------
droMoj3 scaffold_6500:7201331-7201445 + AT----------------------------TGCCACTC---TT----------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTT-C--ACATATTGTATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTGACACCG-------------------------------------------------
droGri2 scaffold_14978:830199-830317 + AT----------------------------TGC-AATT---TCTT--------------TCA-TTTTTGCTGTTTCTTTGGTATTCTAGCTGTAGATTGTTTCT---ATATCTTGTATCATCTAAAGCTTTTATACCAAAGCTCCAGCTTAAATTGCTTGCCACCGCCT----------------------------------------------

dme-mir-iab-4 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:12681982-12682079 + CGATTCTGTGCGACCTCGTAAACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGAGAGCACTAACAAC
droSim1 chr3R:8791202-8791299 - CGATTCTGTGCGACCTCGTAAACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGATAGCACGAGCAAC
droSec1 super_12:1472230-1472327 - CGATTCTGTGCGACCTCGTAAACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGATAGCACGAGCAAC
droYak2 chr3R:11708953-11709050 - CGATTCTGTGCGACCTCGTAAACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGAAAGCACGAGCAAC
droEre2 scaffold_4770:8952402-8952499 - CGATTCTGTGCGACCTCGTAAACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGAAAGCACGAGCAAC
droAna3 scaffold_13340:7215188-7215285 - TGATTTTGTGCAACTTCGTATACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGGTAACACCTTCAAC
dp4 chr2:17671752-17671849 + -GAACCTGTGCGACTTCGTATACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGGAAACACCAGCAAC
droPer1 super_0:11526558-11526655 + -GAACCTGTGCGACTTCGTATACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGGAAACACCAGCAAC
droWil1 scaffold_181130:4905585-4905682 - TGAATCTGTGCAACTTCGTATACGTATACTGAATGTATCCTGAGTGTATGCTATCCGGTATACCTTCAGTATACGTAACACGATGAAACACCAACAAC
droVir3 scaffold_12855:414691-414788 - AGAGCCTGTGCAACTTCGTATACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGGAAACACCAGCGAC
droMoj3 scaffold_6540:1943729-1943826 + TGAGCCTGTGCAACTTCGTATACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGGAAACACCAGCAAC
droGri2 scaffold_14906:12815108-12815201 + -----CTGTGCAACTTCGTATACGTATACTGAATGTATCCTGAGTGTATCCTATCCGGTATACCTTCAGTATACGTAACACGAGGAAACACCAGCAAC

Divergent mature

dme-mir-100 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:18471419-18471548 + ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------CA-ATGACA
droSim1 chr2L:18160327-18160456 + ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------CA-ATGACA
droSec1 super_7:2092721-2092850 + ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------CA-ATGACA
droYak2 chr2R:4988205-4988334 + ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------CA-ATGACA
droEre2 scaffold_4845:5800004-5800133 - ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------CA-ATGACA
droAna3 scaffold_12916:2378756-2378885 + ATACTCACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTTTATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------CA-ATCGAA
dp4 chr4_group3:3634738-3634867 + ATACTTATATATGGACCATTAACAGAAACCCGTAATTCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------TT-ATCACA
droPer1 super_1:5115309-5115438 + ATACTTATATATGGACCATTAACAGAAACCCGTAATTCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAT---------------------TT-ATCACA
droWil1 scaffold_180708:11622810-11622939 + ATAGTCACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGGCCAACAAAAT---------------------CGAAT--CG
droVir3 scaffold_12963:18449830-18449980 + ATACTCAAATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAAGACATATAAAATATATTAACAAAA-ATGACA
droMoj3 scaffold_6500:6185704-6185833 - ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTATATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACTTGGTTTTTGG-CAACAAA-G---------------------CA-AAGCAA
droGri2 scaffold_15252:6427650-6427777 + ATACTTACATATGGACCATTAACAGAAACCCGTAAATCCGAACTTGTGCTGTTTTTTATCTGTTACAAGACCGGCATTATGGGAGTCTGTCAATGCAAACAACT-GGTTTTTGG-CAACAAAA-----------------------G-ACTACA

dme-mir-969 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:18018375-18018498 + TTCGG---------------TGAATCC--CCAAGTCTCTGTCCTACGTCCGAGTTCCACTAAGCAAGTTTTGAGATCGT-TTTAAAAACAAAAACTTGACACGTTGAGCTCGTTCGTGGGA--TGGAC----TACTGC-----AATTCGAAA--T
droSim1 chrU:15519348-15519471 + TTCGG---------------GGAATCC--CCAAGTCTCTGTCCTACGTCCGAGTTCCACTAAGCAAGTTTTGAGATCGT-TTTAAAAACAAAAACTTGACACGTTGAGCTCGTTCGTGGGA--TGGAC----TACTGC-----AATTCAAAA--T
droSec1 super_8:326574-326685 + TTCGA---------------GGAATCC--CCAAGTCTCTGTCCTACGTCCGAGTTCCACTAAGCAAGTTTTGAGATCGT-TTTAAAAACAAAAACTTGACACGTTGAGCTCGTTCGTGGGA--TGGAC----TACT-------------------
droYak2 chrX:16642309-16642432 + TTCGG---------------GGTATCC--CCAAACCTCTGTCCTACGTCCGAGTTCCACTAAGCAAGTTTTGAGATCGT-TTTAAAAACAAAAACTTGACACGTTGAGCTCGTTTGTGGGA--TGGTC----TACCGC-----AATTCGAAA--G
droEre2 scaffold_4690:8346009-8346128 + TTTGG---------------GAAGTTC--CCAAATCTCTGTCCTACGTCCGAGTTCCACTAAGCAAGTTTTGAGATCGT-TTTAAAAACAAAAACTTGACACGTTGAGCTCGTTCGTGGGA--TGGAT----TACTGC---------CGAAA--G
droAna3 scaffold_13335:1607974-1608101 - TGTGT--TTATTTTTTTT--GGAA-------AATATTCTGTTTTACGTGCGAGTTCCACTAAGCAAGTTTTGAGAATTT-TTTAAAAACAAAAACTTGACACGTTGAGCTCGTCCGTGGGG--CAGAT----AATGTC-----AG--CAGTA--T
dp4 chrXL_group3a:1977519-1977620 - TTCCT---------------GGAAGCCATCTAGGAGCCTGTTCTACGTGCGAGTTCCACCATGCAAGTTTTGAGC--GTATATGAATCCAAAAACTTGACACGTTGAGCTCGTGCGTGG------------------------------------
droPer1 super_11:2701270-2701398 + TTCCT---------------GGAAGCCATCTAGGAGCCTGTTCTACGTGCGAGTTCCACCATGCAAGTTTTGAGC--GTATATGAATCCAAAAACTTGACACGTTGAGCTCGTGCGTGGTG--CAGCCAAATCATCGC-----AGCGCATCC--A
droWil1 scaffold_181096:12029390-12029503 + TTTAT-----------------------------ATCCTGTCCTACGCATGAGTTCCACTAAGCAAGTTTTGGGCATAT-TTCAAAAACAAAAACTTGACACGTTGAGCTCGTCTGTGTGA--CAGAA----C-GAACAAC--AAATGAAGA--A
droVir3 scaffold_12928:1264092-1264205 - TTCAA---------------GAGCAGC--TCGCGCTTCTGCCCTACGCACGAGTTCCACTAATCAAGTTTTGAGCGGAT-TCGAAAGTCGAAAACTTGACACGTTGAGCTCGTCCGTGGGG--CGGCA----TTC---------------AA--G
droMoj3 scaffold_6473:13724290-13724417 + TCCTTATCCATAC-------CATATCC--ACATTTGGCTGTCCTACGAGCGAGTTCCACTAATCAAGTTTTGAGT--GT-TCGAAAATCAAAAACTTGACACGTTGAGCTCGTCTGTGTGG--CA--C----AAGTTC-----AA--CAAAAGCA
droGri2 scaffold_15203:8445730-8445869 + TTCGGT-TTGTTCTTTTACAGCAGTGCATCCGGGTGTCTGCCACACTTACGAGTTCCACTATTCAAGTTTTGAGC--GTATTTGAAATCAAAAACTTGACACGTTGAGCTCGTGTGTGCGTTGCGG------AAA-TCAACTTA---CTCAA--A

Divergent star

dme-let-7 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:18472019-18472126 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTAATTA-CACATCATACTATACAATGTGCTAGCTTTCTTTGCTTGACTACAAGCCGCATTT
droSim1 chr2L:18160930-18161037 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTAATTA-CACATCATACTATACAATGTGCTAGCTTTCTTTGCTTGACTACAAGCCGCATTT
droSec1 super_7:2097967-2098074 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTAATTA-CACATCATACTATACAATGTGCTAGCTTTCTTTGCTTGACTACAAGCCGCATTT
droYak2 chr2R:4988819-4988926 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTAATTA-CACATCATACTATACAATGTGCTAGCTTTCTTTGCTTGACTACAAGCCGCATTT
droEre2 scaffold_4845:5799401-5799508 - A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTAATTA-CACATCATACTATACAATGTGCTAGCTTTCTTTGCTTGACTACAAGCCGCATTT
droAna3 scaffold_12916:2379166-2379273 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGCAACTA-AGAATCGTACTATACAATGTGCTAGCTTTCTTTGCTTGACAATAAGCCGCATTT
dp4 chr4_group3:3635640-3635746 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTACTT--CAGATCGTACTATACAATGTGCTAGCTTTCTTTGCTTGACTATAAGCCTCATTT
droPer1 super_1:5116219-5116325 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTACTT--CAGATCGTACTATACAATGTGCTAGCTTTCTTTGCTTGACTATAAGCCTCATTT
droWil1 scaffold_180708:11623134-11623240 + AAAGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTAATTATTCAATCATACTATACAATGTGCTAGCTTTCTTTGCTTGACTATAAGCCACA---
droVir3 scaffold_12963:18451337-18451441 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTATTTA-TAGAGCATACTATACAGCGTGCTAGCTTTCTTTGCTTGACAATAAGCCGCA---
droMoj3 scaffold_6500:6184568-6184672 - A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTACTTA-TAGACCATACTATACAGCGTGCTAGCTTTCTTTGCTTGACTATAAGCCGCA---
droGri2 scaffold_3792:132-239 + A-AGGACCTTTTTCTCTCTGGCAAATTGAGGTAGTAGGTTGTATAGTAGTATCTA-TCTAGCATACTATACAGCTTGCTAGCTTTCTTTGCTTGACTATAAGCAGCATAG

dme-mir-1 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:20487426-20487546 + AAAGACC-----------------ATCCCAT--ATTCAGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGT-TATA-TTCAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAGACATCG----------------------------------G----AGTTGAAA
droSim1 chr2L:20052694-20052814 + AAAGACC-----------------ATCCCAT--CTTCAGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGT-TATA-CTCAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAGACATCG----------------------------------G----AGTTGAAA
droSec1 super_18:365651-365771 + AAGGACC-----------------ATCCCAT--CTTCAGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGT-TATA-CTCAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAGACATCG----------------------------------G----AGTTGAAA
droYak2 chr2R:6842709-6842830 + AAAGAAC-----------------ATCCCAC--CATCAGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATATA-CTCAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAGTCATCG----------------------------------G----AGTTGAAA
droEre2 scaffold_4845:3954268-3954372 - AAGGACC---------------------------TCCAGCCT-GTGAGAGTTCCATGCTTCCTTGCATTCAATAGT-TATA-CTCAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAGACATCG----------------------------------G------------
droAna3 scaffold_12916:6985813-6985928 + AAATATC-------------------------AAGAGAGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATAAT-ATCAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCAAGACTTCA----------------------------------A----GTTTAAAT
dp4 chr4_group3:7845311-7845422 - GGAAA--------------------------TCAGAAGGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATAAC-ATAAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCAAGACAGCG-----------------------------------------TCTACA
droPer1 super_1:9292009-9292126 - AAAGACGG-A-------------A-------TCAGAAGGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATAAC-ATAAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCAAGACATCG----------------------------------C------CTACAG
droWil1 scaffold_180708:1845911-1846049 + ATAGATGGTAGATATATATGTAG--------CTACTTGGCCTCTTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATATTAAATAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGTCCGACATCA----------------------------------TCTACAATATAAT
droVir3 scaffold_12963:13613413-13613527 - TGTGC--------------------------TTACTTGGCCT-TTGAGAGTTCCATGCTTCCTTACATTCAATAGTATTCA-AATAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAAACATCA----------------------------------C----AAAAACAA
droMoj3 scaffold_6500:24555167-24555325 + TGGGTCTT-AAA--------TTGT-------TCATTGCGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATTTA-TATAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAAGCATCATACCAAACTGTAAAAAAAAACACATTATGAAATTG----TGTTTAAA
droGri2 scaffold_15126:6250403-6250508 + ATTGT--------------------------TTACTTGGCCT-TTGAGAGTTCCATGCTTCCTTGCATTCAATAGTATATA-AATAAGCATATGGAATGTAAAGAAGTATGGAGCGAAATCTGGCGAAACATC------------------------------------------------

dme-mir-1000 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:21414566-21414695 - TATACCATGAA----------------AT-------------CG-GACGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTAACACTATATT--ATAGTTTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGTCATTAGCAACG--------AGCGG---------------------------------------------------------------------------------CGGACA-----G-
droSim1 chr3R:21243636-21243765 - TATACCATGAA----------------AT-------------CG-GACGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTTACACTATATT--ATAGTTTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGTCATTAGCAACG--------AGCGG---------------------------------------------------------------------------------CGGACA-----G-
droSec1 super_13:202504-202633 - TATACCATGAA----------------AT-------------CG-GACGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTAACACTATATT--ATAGTTTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGTCATTAGCAACG--------AGCGG---------------------------------------------------------------------------------CGGACA-----G-
droYak2 chr3R:25064545-25064667 + --------GAA----------------TT-------------GG-GACGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTAACACTATATT--ATAGCTTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGTCATTAGCAACG--------AGAGG---------------------------------------------------------------------------------CGGCCA-----G-
droEre2 scaffold_4820:6627814-6627943 + TATACCATGAA----------------AT-------------CG-GACGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTAACACTATATT--ATAGCTTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGTCATTAGCAACG--------AGCGG---------------------------------------------------------------------------------CGGTCA-----G-
droAna3 scaffold_13340:3670416-3670527 - TA-------------------------------------------GACGCTTGCCGATGATATTGTCCTGTCACAGCAGTATTGTAATTCTATACTATATAGCTTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGTCATTAGCAACG--------AGG----------------------------------------------------------------------------------------A-----G-
dp4 chr2:21158113-21158302 - TATCGA----ATTACATACGGCGTCGGATCGGAGCAGATGAGAG-GGCGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTAAC--TTAATT--ATAGCCTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGCCATTGGCAACA--------AAGAGAAGGAGAAGCTACAAAGCTACAAAGCTACGGAAAAATGCT--------------------------------------------ACA-----G-
droPer1 super_3:3932619-3932791 - TATCGA----ATTACATACGGCGTCGGATCGGAGCAGATGAGAG-GGCGCTTGCCATTGATATTGTCCTGTCACAGCAGTATTGTAAC--TTAATT--ATAGCCTACTGCTGGGTCGGGGCATTAACATTGTTGAGCGCCATTGGCAACA--------AAGAG-----------------CTACAAAGCTACGGAAAAATGCT--------------------------------------------ACA-----G-
droWil1 scaffold_181130:14638697-14638859 + TCCATCTAACA----------------AA-------------AG-AGAGCTTGCCAGTGATATTGTCCTGTCACAGCAGTATAGTAAC--ATATTC--ATTTCGTACTGCTGAGCCGGGGCATTAACATTGTTGAGCGTCTGTGGCAACG--------AGCGGAAAACT--------------------------------CTACTTCTGATGATGATAATAATGATTCAA--------------GTCAA-----A-
droVir3 scaffold_12855:6810247-6810376 - TATATCGTCG-----------------AT-------------CGTTGCGCTTGCCAGTGATATTGTCCTGTCACAGCAGTATTGTACG--TTAAGC--AATTGGTACTGCTGAGCCGGGGCATTAACATTGTTGAGCGTCGTTAGCAACCAA------AAAGC---------------------------------------------------------------------------------CAGAAA-----A-
droMoj3 scaffold_6540:25791543-25791693 + TCTATTAT-------------------------------------AGCGCTTGCCAGTGATATTGTCCTGTCACAGCAGTATTGTAAA--TTAAGC--AATTGGTACTGCTGAGCCGGGGCATTAACATTGTTGAGCGTCGTTAGCAACC--------AGAAGAAATCTAA--------------------------------------------------------TCGAGTCGACTATGCGGCATACACAGAGG-
droGri2 scaffold_14906:2964690-2964824 - TATAT---TTA----------------AT-------------CGTTGCGCTTGCCAGTGATATTGTCCTGTCACAGCAGTATTGTTAA--TTAAGC--AATTGGTACTGCTGAGCCGGGGCATTAACATTGTTGAGCGTTGCTAGCAACTAAAAAGCGAGCAG---------------------------------------------------------------------------------CGAGCA-----GC

dme-mir-1006 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16724780-16724873 - CGTGTCAACTTCCAGGTGAGTTTGAAATTGAAATGCGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droSim1 chr2L:16422879-16422972 - CGGGTCAACTTCCAGGTGAGTTTGAAATTGAAATGCGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droSec1 super_7:371570-371663 - CGGGTCAACTTCCAGGTGAGTTTGAAATTGAAATGCGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droYak2 chr2R:4378132-4378225 + CGTGTCAACTTCCAGGTGAGTTTGAAATTGAAATGCGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droEre2 scaffold_4845:19796345-19796438 - CGTGTCAACTTCCAGGTGAGTTTGAAATTGAAATGCGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droAna3 scaffold_12943:3938325-3938418 + CGTGTCAACTTCCAGGTGAGTTTGAAATTGAAATGCGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTCCAATACCAGCTG
dp4 chr4_group3:3057660-3057753 + CGCGTCAACTTTCAGGTGAGTTTGAAATTGAAATGTGTAAATTGTTTG--TGCCAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGCTG
droPer1 super_1:4544383-4544476 + CGCGTCAACTTTCAGGTGAGTTTGAAATTGAAATGTGTAAATTGTTTG--TGCCAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGCTG
droWil1 scaffold_180708:1783971-1784066 + CGTGTTAATTTCCAGGTGAGTTTGAAATTGAAATGCCTAAATTGTTTTGTGTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATATCAATTA
droVir3 scaffold_12963:6536524-6536617 - CGTGTCAACTTTCAGGTGAGTTTGAAATTGAAATATGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droMoj3 scaffold_6500:25691037-25691130 - CGTGTCAACTTCCAGGTGAGTTTGAAATTGAAATGTGTAAATTGTTTG--GTACAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGTTG
droGri2 scaffold_15252:9753534-9753627 - CGCGTCAATTTCCAAGTGAGTTTGAAATTGAAATGTGTAAATTGTTTG--GTCCAATTTAAATTCGATTTCTTATTCATAGGTGCAATACCAGCTG

dme-mir-11 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:17448204-17448308 - AGATCTAT--GTGAGGCGC-ACTTGTCAAGAACTTTCTCTGTGACCCGCGTGTACT------------TAAAAGCCGCATCACAGTCTGAGTTCTTGCTGAGTGC-GAAATCCTCGAAGCA------------------------
droSim1 chr3R:4022563-4022667 + AGATCTCC--ATGAGGCGC-ACTTGTCAAGAACTTTCTCTGTGACCCGCGTGTACT------------TAAAAGCCGCATCACAGTCTGAGTTCTTGCTGAGTGC-GAAATCCTCGAAGCA------------------------
droSec1 super_6:4043853-4043957 + AGATCTCC--ATGAGGCGC-ACTTGTCAAGAACTTTCTCTGTGACCCGCGTGTACT------------TAAAAGCCGCATCACAGTCTGAGTTCTTGCTGAGTGC-GAAATCCTCGAAGCA------------------------
droYak2 chr3R:6285759-6285863 - AGTTCTCC--ATGAGGCGC-ACTTGTCAAGAACTTTCTCTGTGACCTGCGTGTACT------------TAAAAGCCGCATCACAGTCTGAGTTCTTGCTGAGCGC-GAAATCCTCAAAGCA------------------------
droEre2 scaffold_4770:4217167-4217271 + AGATCTCC--ATGAGGCGC-ACTTGCCAAGAACTTTCTCTGTGACCTGCGTGTACT------------GAAAAGCCGCATCACAGTCTGAGTTCTTGCTGAGCGC-GGAATCCTCGAAGCA------------------------
droAna3 scaffold_13340:5675670-5675780 + ATCTCTA-ATATGAGGCGC-ACTTGCCAAGAACTCTCTCTGTGACTTGTGTCCTTTTT--TT------CGAAACTCACATCACAGTCTGAGTTCTTGCTGAGAGCGGGAATCCTCCAATCG------------------------
dp4 chr2:23857524-23857651 - AACACTCGATTTGAGGCCC-TCTTGTCAAGAACTTATTCTGTGACCTGCGTGACATTT--------------AGCCACATCACAGTCTGAGTTCTTGCTGAGCGT-GAACT-CGCCAACCAACATGAGTGAATAGCCCCCAAAAA
droPer1 super_3:6634087-6634214 - AACACTCGATTTGAGGCTC-TCTTGTCAAGAACTTATTCTGTGACCTGCGTGACATTT--------------AGCCACATCACAGTCTGAGTTCTTGCTGAGCGT-GAACT-CGCCAACCAACATGAGTGAATAGCCCCCAAAAA
droWil1 scaffold_181089:8479022-8479138 + ACAGCAAA--GAGAAGCCCTTCTTGTCAAGATCTCTCTCTGTGACCTGCGTGAGATTT--ATCATATATGAAAACCGCATCACAGTCTGAGTTCTTGCTGAGCGGTGAGCTAAGCAAGACA------------------------
droVir3 scaffold_13047:6338937-6339046 + GGTTTTA---TTGAAGCGC-ACTTATCAAGAACTTTTTCTGTGACTTGCGTGAACTCTTATA------TGCAAACCGCATCACAGTCTGAGTTCTTGCTTAGCGC-GCACTTCGCACAGCA------------------------
droMoj3 scaffold_6540:1740109-1740221 - CGCATTCGATTTGAAGCGC-ACTTAACAAGAACTTTTTCTGTGACCTGCGTGAATTCCTATA------TGCAAACCGCATCACAGTCTGAGTTCTTGCTTAGCGC-GCACTTCGCACAGCA------------------------
droGri2 scaffold_14906:11659470-11659581 + CGAATTCGAAATGAAGCCC-ACTCGTCAAGAACTCTCTCTGTGACTTGCGTGAACTTTCATG------TGAAAATCGCATCACAGTCTGAGTTCTTGCTGAGCGC-GCT-TTCGCACCACA------------------------

dme-mir-12 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15403491-15403594 + AA-----------------GGAG------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droSim1 chrX_random:4024315-4024418 + AT-----------------GGAG------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTGAAATCCAACAACCAGTACTTGTGTCATACTACGCCGTGCACGGATCGCACTAA
droSec1 super_73:137914-138017 + AT-----------------GGAG------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTGAAATCCAACAACCAGTACTTGTGTCATACTACGCCGTGCACGGATCGCACTAA
droYak2 gnl|ti|371645083:614-718 + AA-----------------GGAG------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droEre2 scaffold_4690:11630938-11631041 - AA-----------------GGAG------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTAAAACCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droAna3 scaffold_12929:2898571-2898667 - -------------------------------GCGTCTGTACGGCTGAGTATTACATCAGGTACTGGTGTGCCTTTAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACCGATCGCACTAA
dp4 chrXL_group1a:977995-978098 + AT-----------------CCAG------CAGCGTCTGTACGGCTGAGTATTACATCAGGTACTGGTGTGCTTTAAATCCAACAACCAGTACTTATGTTATACTACGCCGTGCACTGATCGCACTAA
droPer1 super_26:1092636-1092739 + AT-----------------CCAG------CAGCGTCTGTACGGCTGAGTATTACATCAGGTACTGGTGTGCTTTAAATCCAACAACCAGTACTTATGTTATACTACGCCGTGCACTGATCGCACTAA
droWil1 scaffold_180702:1592742-1592841 - ----------------------G------CAGCGCCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCTTTAATCCAACAACCAGTACTTATGTCATACTACGCCGTGCACGGATCGCACTAA
droVir3 scaffold_12970:2049296-2049416 + AACAGCCGCATCAGCATCCGCAT------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCATTTAACTAACAACCAGTACTTATGTCATACTACGCCGTGCAGTGGGCGCACTAA
droMoj3 scaffold_6359:3259767-3259875 + AG------------CATCAGCAT------CAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCAATTAACTAACAACCAGTACTTATGTCATACTACGCCGTGCAGTGGGCGCACTAA
droGri2 scaffold_14853:6951707-6951816 - AA-----------------GCAGCATCACAAGCGTCTGTACGGTTGAGTATTACATCAGGTACTGGTGTGCCATTTAACCAACAACCAGTACTTATGTCATACTACGCCGTGCAGTGGGCGCACTAA

dme-mir-124 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:17566355-17566484 + C-CCA----------------A--------------------GTGTCCTTCGTCATTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCCACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGCAGTTCTACAA-----ATTACTCATACCCAATA
droSim1 chr2L:17270490-17270619 + C-CCA----------------A--------------------GTGTCCTTCGTCATTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCCACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGCAGTTCTACAA-----ATTACTCATACCCAATG
droSec1 super_7:1207305-1207434 + C-CCA----------------A--------------------GTGTCCTTCGTCATTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCCACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGCAGTTCTACAA-----ATTACTCATACCCAATG
droYak2 chr2R:3533165-3533294 - C-CCA----------------A--------------------GTGTTCTTCATCATTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCCACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGCAGTTCTACAA-----ATTTCTCATACCCAATG
droEre2 scaffold_4845:6683953-6684082 - C-CCA----------------A--------------------GTGTCCTTCATCATTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCCACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGCAGTTCTACAA-----ATTACTCATACCCAATG
droAna3 scaffold_12916:3309677-3309806 - C-CAG----------------A--------------------GGCTTTTGTGTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCGACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGAAACTCTACAA-----ACTACAAATGACATATT
dp4 chr4_group3:10867616-10867737 - T-CTC----------------A--------------------GTGC---TCGTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCGACCATAAGGCACGCGGTGAATGCCAAGAGCGGACGAAACTCTACTA----------TCAAAAACAGCA
droPer1 super_8:2078713-2078834 - T-CTC----------------A--------------------GTGC---TCGTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTATATGTATTTCGACCATAAGGCACGCGGTGAATGCCAAGAGCGGACGAAACTCTACTA----------TCAAAAACAGCA
droWil1 scaffold_180764:940183-940306 - T-TCT---------------CA--------------------GA-------GTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGCAGGCCTATATGTTATTTGACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGAAATTCTACAA-----AA-ACCAAAACGCAAAA
droVir3 scaffold_12963:16493143-16493272 + G-ACAACATT---------------------------CGTGAGTG----CCGTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTCTATGAATTTTGACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGAAACTCTACAA-----TTAACAAA-----AATA
droMoj3 scaffold_6500:21419441-21419593 + CGACAA--TTGCCCTGCGCTCAGCGTGCGGGACTCGCCGTGAGTG----ACGTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTCTATGAATTTTGACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGAAACTCTACAA-----AA--------TCCAACA
droGri2 scaffold_15252:13906813-13906947 + G-TGG----------------T--------------------GTGTGTGCCGTCGTTTGGTACGTTTTTCTCCTGGTATCCACTGTAGGCCTCTATGTTTTTTGACCATAAGGCACGCGGTGAATGCCAAGAGCGAACGAAACTCTACACTTCCATTCAAATATAACCAGCA

dme-mir-133 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:20616602-20616729 + CAT--------TCGAGAA---------------------------TTTCCACC--------TGCAAC-ACTGTGTGTAGCTGGTTGACATCGGGTCAGATCTGTTT-T-TCAAGCATTTGGTCCCCTTCAACCAGCTGTAGCCAGTGGTTGATGACAACGAAAG-CCTA----------------GTGAAC
droSim1 chr2L:20179920-20180047 + CAT--------TCGAGAA---------------------------TTTGCACC--------TGCAAC-GCTGTGTGTAGCTGGTTGACATCGGGTCAGATCTGTTT-T-TTAAGCATTTGGTCCCCTTCAACCAGCTGTAGCCAGTGGTTGCTGACATCGAAAG-CCGA----------------GCGAAC
droSec1 super_18:496867-496993 + CAT--------TCGAGA----------------------------TTTGCACC--------TGCAAC-GCTGTGTGTAGCTGGTTGACATCGGGTCAGATCTGTTT-T-TTAAGCATTTGGTCCCCTTCAACCAGCTGTAGCCAGTGGTTGCTGACATCGAAAG-CCTA----------------GCGAAC
droYak2 chr2R:6964793-6964921 + TAT--------TCCAGAA---------------------------TTTCCTCC--------TGCAAC-GCTGTGTGTAGCTGGTTGACATCGGGTCAGATCTGTTT-TTCCAAGCATTTGGTCCCCTTCAACCAGCTGTAGCCAGTGGTTGATGACAACGAAGT-ACGA----------------GTAAAC
droEre2 scaffold_4845:3836606-3836724 - AT---------------------------------------------TTCCTC--------TGCAAC-GCTGTGTGTAGCTGGTTGACATCGGGTCAGATCTGTTT-T-CCTAGCATTTGGTCCCCTTCAACCAGCTGTAGCCAGTGGTTGATGCCAACTAAAT-TCGA----------------GTGAAC
droAna3 scaffold_12916:7117508-7117634 + T----------TCGTGAA---------------------------TGATTATC--------TGCAAC-GCTGTATGTAGCTGGTTGACATCGGGTCAGATCTATCT-TTTCAAGCATTTGGTCCCCTTCAACCAGCTGTAG-CAGTGGTTGATGACAACAAAGT-ACAA----------------GTGAAA
dp4 chr4_group3:7699977-7700121 - GAC--------GCGTGTG---------------------------TGCTTATG--------TACAACGGCTGTATGTAGCTGGTTGACATCGGGTCAGATCTATTT-TATCAAGTATTTGGTCCCCTTCAACCAGCTGTAT-CAGTGGTTGATTCCAACAAAAA-ACAAAAGGCGCCAACAAATAATAAAG
droPer1 super_1:9145698-9145865 - TAT--------TTGTATGTGTAT--TT--GTATGTGACGCGTGTGTGCTTATG--------TACAACGGCTGTATGTAGCTGGTTGACATCGGGTCAGATCTATTT-TATCAAGTATTTGGTCCCCTTCAACCAGCTGTAT-CAGTGGTTGATTCCAACAAAAA-ACAAAAGGCGCCAACAAATAATAAAG
droWil1 scaffold_180708:2027542-2027651 + -------------------------------------------------------------TACAAC-ACTGAATGTAGCTGGTTGACATCGGGTCAGATCTATTTATTTGAAGCATTTGGTCCCCTTCAACCAGCTGTAG-CAGTGGTTGATCCCAACAAAAA-GCAA-----------------TGGAA
droVir3 scaffold_12963:13475783-13475914 - CAA--------ACGAAGATATAT--ATTGCCAA--------TCGAATCACATT--------CACAAC-GCTGTGTGTAGTTGGTTGACATCGGGTCAGATCTATTT-CTGAAAGCATTTGGTCCCCTTCAACCAGCTGTAG-CAGTGGTTGAAGCCAACAA------------------------------
droMoj3 scaffold_6500:24707638-24707772 + CATGAAATAAATTGTGT------------------------TGTGTACTCAAACAAACATCCACAAC-GCTGTGTGTAGTTGGTTGACATCGGGTCAGATCTGTTT-T-TCGAGAATTTGGTCCCCTTCAACCAGCTGTAG-CAGTGGTTGATGACAACAAGT----------------------------
droGri2 scaffold_15126:6389834-6389991 + CAA--------ACAAAACTATATACATGATTAA--------TTTGAATTTATT--------TACAAC-GCTGTATGTAGCTGGTTGACATCGGGTCAGATCTATTT-ATTCGAGTATTTGGTCCCCTTCAACCAGCTGTAG-CAGTGGTTGATGTCAACAAGTGAACTTAAG-----AAC-AATAGTGAAA

dme-mir-137 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:11952744-11952864 - TTACGATGGCGT------------CGC--------------------------------CAATCTCCAATGGCCACGTGTATGCTCGTAGCTATAACCTGAAA--TCC-AAATGTTATTGCTTGAGAATACACGTAGTTCACCGAGATTTGTTCAGCAATAAAA---------------------------------AGAG
droSim1 chr2R:10688339-10688459 - TTACGATGGCGT------------CGC--------------------------------CAATCTCCAATGGCCACGTGTATGCTCGTAGCTATAACCTGAAA--TCC-AAATGTTATTGCTTGAGAATACACGTAGTTCACCGAGATTTGTTCAGCAATCAAA---------------------------------AGCG
droSec1 super_1:9448872-9448992 - TTACGATGGCGT------------CGC--------------------------------CAATCTCCAATGGCCACGTGTATGCTCGTAGCTATAACCTGAAA--TCC-AAATGTTATTGCTTGAGAATACACGTAGTTCACCGAGATTTGTTCAGCAATCAAA---------------------------------AGCG
droYak2 chr2R:17032219-17032325 + CC---------------------------------------------------------CAATCTCCAATGGCCACGTGTATGCTCGTAGCTATAACCTGACA--TCC--AATGTTATTGCTTGAGAATACACGTAGTTCACCGAGATTTGTTCAGCAATTAAA---------------------------------AAAG
droEre2 scaffold_4845:13905048-13905167 + TTACGGTGGCGA--------------------------------------------CTCCAATCTCCAATGGCCACGTGTATGCTCGTAGCTATAACCTGACA--TCC--AATGTTATTGCTTGAGAATACACGTAGTTCACCGAGATTTGTTCAGCAATCAAA---------------------------------GGGG
droAna3 scaffold_13266:15447223-15447345 + TTAAAGTGGCAA-------------------------------------------CCTGGAATCTCCAATGGCCACGTGTATGCTCGTAGCTATAACGTGAAA--TGCGAAATGTTATTGCTTGAGAATACACGTAGTTCAGAGAGATTTGTTCAGCAATCGAA---------------------------------GTGG
dp4 chr3:16385856-16386036 - TTAAGATGACAG------------CGACGG-----CCAAGGCAATGCCGACGGCGACTAGAATCTTCAACGGCCACGTGTATACTCATAGCTATAACCTGATA--TCC-GAATGTTATTGCTTGAGAATACACGTAGTTTAACAAGATTCGTTCAGCAATCAAACTGAAACGGAAAGTGTCTGTGAAAGGTGTCCTTAAAG
droPer1 super_4:376928-377074 + TTAAGATGACAG------------CGACGGCCACGCCACGGCAATGCCGACGGCGACTAGAATCTTCAACGGCCACGTGTATACTCATAGCTATAACCTGATA--TCC-GAATGTTATTGCTTGAGAATACACGTAGTTTAACAAGATTCGTTCAGCAATCA---------------------------------------
droWil1 scaffold_181141:1110993-1111093 - TT----------------------------------------------------------------TAATGGCCACGTGTATTCTTATAGCTGTAACCTGTTA--TACAAAATGTTATTGCTTGAGAATACACGTAGTTAA-CTAGATTCGTTCAACGGGTCAA---------------------------------ACAA
droVir3 scaffold_10468:1951-2100 - GTACGTCGGAGCAGACACGACAGCGG---------ACACAACAAT-----TGGAAATTGGAATCTGAAATGGCCACGTGTATGCTCGTAGCTATAACCTGTACAATC--AAATGTTATTGCTTGAGAATACACGTAGTTAA-CAAGATTCTCTCAACGATCCAA----------------------------------TAA
droMoj3 scaffold_6496:10610032-10610171 + CAACGGA-GTGT------------GGA---------CAC---AAT-----TGGAAATTGGAATCGGCAATGGCCACGTGTATGCTCGTAGCTATAACTGGTACAATC--AAATGTTATTGCTTGAGAATACACGTAGTTAG-CCAGATTCGCCCAACATGGCAATGGCA----------------------------ACAT
droGri2 scaffold_15245:16918481-16918602 - GGAGATTGGAAA-------------------------------------------ATTAAAATCTGAAATGGCCACGTGTATGCTCGTAGCTATAACCTGAACAATC--AAATGTTATTGCTTGAGAATACACGTAGTTAA-CAAGATTGCCTCAACGACTCCA---------------------------------ATAA

dme-mir-13a intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:11243249-11243353 - CCAAG----C------------------CAT--AATTCTTACGTAACTCCTCAAAG-GGTTGTGAAATGTCGAC-TATTA-TCTACTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-C--GCG----GCA----------------------GCG
droSim1 chr3R:10237822-10237926 + CCAAG----C------------------CAT--AGTTCTTACGTAACTCCTCAAAG-GGTTGTGAAATGTCGAC-TATTA-TCTACTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-C--TCG----GCA----------------------GCG
droSec1 super_0:10705053-10705157 + CCAAG----C------------------CAT--AGTTCTTACGTAACTCCTCAAAG-GGTTGTGAAATGTCGAC-TATTA-TCTACTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-C--TGG----TCA----------------------GCG
droYak2 chr3R:15188577-15188681 + CCAAG----C------------------CAT--AATTCTTACGTAACTCCTCAAAG-GGTTGTGAAATGTCGCC-TATTA-TCTACTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-C--TCG----GCA----------------------ACT
droEre2 scaffold_4770:10769389-10769493 - CCAAG----A------------------CAC--AATTCTTACGTAACTCCTCAAAG-GGTTGTGAAATGTCGAC-TATTA-TCTACTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-T--TAA----AAA----------------------GCG
droAna3 scaffold_13340:12827611-12827739 - ACAAGAATCCCCTCAAAAAAGGACGATCCATCGAGTTCTTACGTAACTCCTCAAAG-GGCTGTGAAATGTTGCCA--TTA-TCTACTCATATCACAGCCATTTTGATGAGTTTCGTGGGA-AT-C-GTCA----GAA----------------------AAC
dp4 chr2:9824930-9825029 + CC-------C------------------CA-----TACTTACGTAACCCATCAAAC-GGTTGTGAAATGTTGCAT--TTA-TCAAATCATATCACAGCCATTTTGATGAGTTTCGTGTGG-AA-TGGCCA----GCA----------------------ATC
droPer1 super_0:10660066-10660165 - CC-------C------------------CA-----TACTTACGTAACCCATCAAAC-GGTTGTGAAATGTTGCAT--TTA-TCAAATCATATCACAGCCATTTTGATGAGTTTCGTGTGG-AA-TGGCCA----GCA----------------------ATC
droWil1 scaffold_181089:2143204-2143324 - CCGTT----CCGGCAAAAGATG-------GA--ATTTCTTACGTAACTCTTCAAGGGGGTTGTGAAATGTTGCCATTTTATTCAACTCATATCACAGCCATTTTGATGAGTTTCGTGCGAGTATT--CCT----GCA----------------------ACA
droVir3 scaffold_13047:13335625-13335725 + CCACT----C-----------------------AATTCTTGCGTAACTCTTCAAGG-GGTTGTGAAATGTTGCCG--TTA-TCAAGTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-T--GCT----TAA----------------------ATT
droMoj3 scaffold_6540:10568336-10568468 + CTCCG----C-----------------CCATTCAATTCTTGCGTAACTCTTCAAGG-GGTTGTGAAATGTAGCCA--TTA-TCAAGTCATATCACAGCCATTTTGATGAGTTTCGTGTGA-AT-T--GCTTTCAGCATTGTCCCATCCGTTTTGTGTCACTG
droGri2 scaffold_14906:4357674-4357778 - CCAAG----C-----------------CCACCCAATTCTTGCGTAACTCTTCAAGG-GGTTGTGAAATGTGGGTA--TTA-TCAAGTCATATCACAGCCATTTTGATGAGTTTCGTGCGA-AT-T--GCTT---T-------------------------CA

dme-mir-13b-1 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:11243115-11243212 - CACG-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGAACTTATGT---ATTC-ACAATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droSim1 chr3R:10237959-10238056 + CGCG-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGAACTTATGT---ATTC-GCAATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droSec1 super_0:10705190-10705287 + CGCG-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGAACTTATGT---ATTC-GCAATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droYak2 chr3R:15188722-15188819 + CACG-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGAACTTATGT---ATTC-GCAATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droEre2 scaffold_4770:10769258-10769355 - AACG-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGAACTTATGT---ATTC-GCAATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droAna3 scaffold_13340:12827469-12827566 - --CA-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAAGGCTTGTGACCTTATGT---ATTTCGCAATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAC
dp4 chr2:9825076-9825174 + AGCA-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGACCTTATGT---ACTCTTGAATCATATCACAGCCATTTTGACGAGTTTGGGTACAGAAATTTCAA
droPer1 super_0:10659921-10660019 - AGCA-----------------------------------------------------TCTTTCTTATACCATGTCGTTAAAATGTTTGTGACCTTATGT---ACTCTTGAATCATATCACAGCCATTTTGACGAGTTTGGGTACAGAAATTTCAA
droWil1 scaffold_181089:2143062-2143162 - TGCA-----------------------------------------------------ACTTTCTTATACCATGTCGTTAAAATGTTTGTGACTTTATGTTGTGTCT-CTATTCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droVir3 scaffold_13047:13335778-13335875 + TGCA-----------------------------------------------------ATTTTCTTATACCATGTCGTTAAAATGCCTGTGACCTTATGT---ATTT-TATATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droMoj3 scaffold_6540:10568509-10568606 + TGCA-----------------------------------------------------ATTTTCTTATACCATGTCGTTAAAATGTCTGTGACCGTATGT---ATTC-ACTATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATCTCAA
droGri2 scaffold_14906:4357489-4357639 - CGTGCAGTCGCCGCCTCCTCCTGTTCCTCCTCCTTCTCCTTTGTGTGTTTCTTTCTTTCTTTCTTATACCATGTCGTTAAAATGCTTGTGACCTTATGT---ATTT-TATATCATATCACAGCCATTTTGACGAGTTTGGGTAAAGAAATGTCAA

dme-mir-13b-2 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:8985248-8985347 + TCTA---CCTCT------------------GCT------------------GTCTATTAACGCGTCAAAATGACTGTGAGCTATGTGG----ATTTGA-CTTCATATCACAGCCATTTTGACGAGTTTGTTG-GACAG-CCAGCCT
droSim1 chrX_random:2632466-2632565 + TCTG---CCTCT------------------GCT------------------GTCTATCAACGCGTCAAAATGACTGTGAGCTATGTGG----ATTTGA-CTTCATATCACAGCCATTTTGACGAGTTTGTTG-GGCAG-CCAGCCT
droSec1 super_34:345603-345702 + CCTG---CCTCT------------------GCT------------------GTCTATCAACGCGTCAAAATGACTGTGAGCTATGTGG----ATTTGA-CTTCATATCACAGCCATTTTGACGAGTTTGTTG-GGCAG-CCAGCCT
droYak2 chrX:12330556-12330651 - CTTA---CCCCT------------------GCT------------------GTCTAGTAACGCGTCAAAATGACTGTGAGCTATGTGG----ATTTGA-CTTCATATCACAGCCATTTTGACGAGTTTGCTG-GCCAGT-----CT
droEre2 scaffold_4690:6132295-6132393 - TTTAAACCCCCT------------------GCT------------------GTCTATTAGCGCGTCAAAGTGACTGTGAACTATGTGG----ATTTGA-CTTCATATCACAGCCATTTTGACGAGTTTGTTG-GGCAGC-C----C
droAna3 scaffold_13047:797460-797571 + TGTCCCGCTTCT------------------GCTT----CATTAC--CT---GTTTCCCAGCGCGTCGAAATGACTGTGACTTATGCGT----ATTTGA-TGTCATATCACAGCCATTTTGACGAGTTTGGTG-GACAGT-GAAAGT
dp4 chrXL_group1e:7000785-7000885 - GCTA---CTGCT------------------GCT------------------GCACATTTACGCGTCAAAATGACTGTGAGCTATGTGT----TTTTGA-TCTCATATCACAGCCATTTTGACGAGTTTGATG-TGCAGTCCCACTC
droPer1 super_13:1553253-1553353 + GCTA---CTGCT------------------GCT------------------GCACATTTACGCGTCAAAATGACTGTGAGCTATGTGT----TTTTGA-TCTCATATCACAGCCATTTTGACGAGTTTGATG-TGCAGTCCCACTC
droWil1 scaffold_180777:2053037-2053171 + TCCC---CCAATGTACCTACCCCTGCAACTGCTGTGCTT---ACAACTGATGTCCATGGTCGCGTCAAAATGACTGTGAGCTATGTTAACCGGTCAGAAATTCATATCACAGCCATTTTGACGAGTTCGATG-GGCAT-AC---GA
droVir3 scaffold_12970:9304312-9304422 + TCTC---TCGCT------------------GCT---------GCCAATGCTCCATATTGGCGCGTCAAAATGACTGTGAGCTATGTTGTTGCATTTGCCATTCATATCACAGCCATTTTGACGAGTTTGATGTGGCAGC-CA----
droMoj3 scaffold_6473:13342549-13342650 - TCCT---CTAAT------------------GCT------------------CCATATTTGCGCGTCAAATTGACTGTGAGCTATGTTT----ATGAGATTATCATATCACAGCCATTTTGACGAGTTTGATGTGGCAG-CCACCAA
droGri2 scaffold_15203:306998-307104 + TCG-------TT------------------GCT---------ATCAGTGCTCCATATTGGCGCGTCAAATTGACTGTGAGCTATGTTGTTGCAGTTGTAATTCATATCACAGCCATTTTGACGAGTTTGATGTGGCAGC-CA----

dme-mir-14 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:5441252-5441344 + ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTATTAAATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droSim1 chr2R:4072822-4072914 + ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTATTAAATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droSec1 super_1:3055916-3056008 + ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTATTAAATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droYak2 chr2L:18072267-18072359 + ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTATTAAATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droEre2 scaffold_4929:8915902-8915994 - ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTATTAAATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droAna3 scaffold_13266:183955-184047 - ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTATTAAATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
dp4 chr3:15883112-15883203 + ACGTACTGCATTC-ATGTGGGAGCGAGACGGGGACTCACTGTGCTTTTGAAGTAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droPer1 super_4:878748-878839 - ACGTACTGCATTC-ATGTGGGAGCGAGACGGGGACTCACTGTGCTTTTGAAGTAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droWil1 scaffold_180700:3302349-3302441 + ACGTACTGCAACCTATGTGGGAGCGAGACGAGGACTCACTGTGCTTTTTATATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droVir3 scaffold_10324:225313-225405 + ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTTTTATATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droMoj3 scaffold_6496:2042842-2042934 + ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGATTTTTATATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA
droGri2 scaffold_15245:15401666-15401758 - ACGTACTGCAACCTATGTGGGAGCGAGACGGGGACTCACTGTGCTTTTTATATAGTCAGTCTTTTTCTCTCTCCTATACAAATTGCGGGCGTA

dme-mir-184 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:9216892-9217021 - CTG--GGCTG--------ACCCGAG-----------GGTTGGCCGGTGCATTCGTACCCTTATCATTCTCTCGCCCCGTGTGCACTTAAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAATTCATCAAACCAATACCCA--------TT
droSim1 chr2R:7673827-7673955 - CTG--GGCTG--------ACCCGAG-----------GGTTGGCCGGTGCATTCGTACCCTTATCATTCTCTCGCCCCGTGTGCATTTAAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAATTCATCAAGC-AATCCCCA--------TT
droSec1 super_1:6740004-6740132 - TTG--GGCTG--------ACCCGAG-----------GGTTGGCCGGTGCATTCGTACCCTTATCATTCTCTCGCCCCGTGTGCATTTAAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAATTCATCAAGC-AATCTCCA--------TT
droYak2 chr2R:7742247-7742374 + CTG--GGCTG--------ACCCGAG-----------TGTTGGCCGGTGCATTCGTACCCTTATCATTCTCTCGCCCCGTGTGCAT-TGAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAATTCATCAAGC-AATCCCCA--------TT
droEre2 scaffold_4845:16598085-16598213 + CTG--GGCTG--------ACCCGAG-----------GGTTGGCCGGTGCATTCGTACCCTTATCATTCTCTCGCCCCGTGTGCATTTAAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAATTCGTCAAGC-AATCCCCA--------GT
droAna3 scaffold_13266:16524568-16524693 - CCCAGTGCCG--------G--CGAG------------TCCGGCCGGTGCATTCGTACCCTTATCATTCTCGCGCCCCGTGTGCATAATGAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAATTCATCAGGT-TG--TCCA--------TC
dp4 chr3:696696-696816 + --G--GGTCG--------GCCCGGGGACTCCG----GGTCGACCGGTGCATTCGTACCCTTATCATTCTCGCGCCCCGTGTGCATTAAAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAACTCATCA----------------------
droPer1 super_2:863138-863258 + --G--GGTCG--------GCCCGGGGACTCCG----GGTCGACCGGTGCATTCGTACCCTTATCATTCTCGCGCCCCGTGTGCATTAAAAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAACTCATCA----------------------
droWil1 scaffold_181009:2073162-2073280 - ACG------------------CGAAGAGTCAGTTAAAGCTGACCGGTGCATTCGTACCCTTATCATTCTCGCGCCCCGTGTGCATATCTAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAACTCAACA----------------------
droVir3 scaffold_12875:243286-243412 + TTG--GGCT-----------------------------TTGGCCGGTGCATTCGTACCCTTATCATTCTCGCGCCCCGTGTGCATATCTAGACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAAGTCAACTAAC-TAAGTGCAGCAACTATTT
droMoj3 scaffold_6496:5255786-5255918 - AAT--GGCCAATCTGCCGT--TGGG-----------CATTGGCCGGTGCATTCGTACCCTTATCATTCTCGCGCCCCGTGTGCATATCTATACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAAGTCAACTAA---ATACATG--------CG
droGri2 scaffold_15245:10719551-10719668 - CCA--GCCTG--------CATATGG-----------TTTTGGCCGGTGCATTCGTACCCTTATCATTCTCTCGCCCCGTGTGGATAACTATACAACTGGACGGAGAACTGATAAGGGCTCGTATCACCAACTCATCAAA--------------------

dme-mir-193 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:21567099-21567236 + TTTGATCG-----C-----------------AATCCGTGTGTGCCCTTATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTATATAGCCA--TATTTATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACAGGTTCGAC-----
droSim1 chr3L:20903305-20903442 + TTCGATCG-----C-----------------AATCCGTGTGTGCCCCCATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTATATAGCCA--TATTTATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACAGGTTCGAC-----
droSec1 super_11:1487328-1487465 + TTCGATCG-----C-----------------AATCCGTGTGTGCCCCCATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTATATAGCCA--TATTTATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACAGGTTCGAC-----
droYak2 chr3L:18945598-18945735 - TTTGATCG-----G-----------------AATCCGTGAGTGCCCCCATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTATATAGCCA--TATTTATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACAGGTTCGAC-----
droEre2 scaffold_4784:21221186-21221323 + TTTAATCG-----G-----------------AATCCGTGTGTGCCCCCATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTACATAGCCA--TATTTATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACAGGTTCGAC-----
droAna3 scaffold_13337:17070826-17070956 - CCGAATCG-----A-----------------AATCTGTGTGTGCCCCCATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTATATTGCCA--TATTCATAAATTCTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACTA------------
dp4 chrXR_group6:2746028-2746170 - CTCAATTG-----G-----------------AATATTTGTGTGCACCCATTATAGTTGGGATTTTTTAGATCAGCAGTTATTGCTATACAGCCG--TATTAATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACTGGCTTAACAATAA
droPer1 super_9:1042494-1042636 - CTCAATTG-----G-----------------AATATTTGTGTGCACCCATTATAGTTGGGATTTTTTAGATCAGCAGTTATTGCTATACAGCCG--TATTAATAAATCTTCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACTGGCTTAACAATAA
droWil1 scaffold_180727:1082196-1082335 - TTTAATTA-----A---------TC------AATCTGTGTGTGCGCCCATTATGGTTGGGATTTTTTAGATCAGCAGTTATTGCTACA-AGTCAAAAATTTATT-ATCATCTACTGGCCTACTAAGTCCCAACATAATGAGAGTAAAAACCACTGACGAAAT-----
droVir3 scaffold_13049:17910638-17910773 + CTTAATGG-----T-----------------TGTAAGCGTGTGCCCTCATTATAGTTGGGATTTTTTAGATCAGCAGTTATTGATATATATATG--TAT-CGTAAATCTTCTACTGGCCTACTAAGTCTCAATATAATGGGAGTAAAAACCTCAG-TATAAC-----
droMoj3 scaffold_6680:23178993-23179110 + ------------------------------------GCGTGTGCCCTCATTATAGTTGGGATTTTTTAGATCAGCAGTTATTGATAAATA------TTATCATAAGTTCTCTACTGGCCTACTAAGTCTCAATATAATGGGAGTAAACACCTCAG-TTCAA------
droGri2 scaffold_10030:24062-24212 - TATAACTATCGAGGAAATTTACATAAATGTGCTAAAGCGTGTGCCCTCATTATAGTTGGGATTTTTTAGATCAGCAGTTATTGATAAAGACCTT--TA-TCGTAAATCTTCTACTGGCCTACTAAGTCCCAATATAATGGGAGTAAAACCCTCA-------------

dme-mir-219 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:17308091-17308220 + AAATAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TTCAATATTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATAAGAATACAACTCGGCAACCAAA--TCA
droSim1 chr3L:16646167-16646296 + AAATAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TTCAATATTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATAAGAATACAACTCGGCAACCAAA--TCA
droSec1 super_0:9359464-9359593 + AAATAAATATTTGGTTAATTCAATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TTCAATATTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATAAGAATACAACTCGGCAACCAAA--TCA
droYak2 chr3L:16762572-16762701 - AAATAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TTCAATATTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATAAGAATACAACTCGGCAACCAAA--TCA
droEre2 scaffold_4784:16541302-16541431 - AAATAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TTCAATATTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATAAGAATACAACTCGGCAACCAAA--TCA
droAna3 scaffold_13337:8265335-8265463 + CAAAATAT-TTTGGTTAATTCAATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGAAT-TCAAATACTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATACGAATACAACGAAGAGAACCAT--TTC
dp4 chrXR_group6:9338098-9338227 - ATCAAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TCCAATACTCAAGGGTTGTGACTGGACATCGCGGCTCGAAATAAGAATACAACCCAGCAACCAAA--ATC
droPer1 super_35:387455-387584 + ATCAAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATA-TCCAATACTCAAGGGTTGTGACTGGACATCGCGGCTCGAAATAAGAATACAACCCATCAACCAAA--ATC
droWil1 scaffold_180955:2086476-2086593 + A---AAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATT-TCAAATACTCAAGGGTTGCATCTGGGCATCGCGGCTCGAAATAAGAATACA---------CCCAA--TAA
droVir3 scaffold_13049:5991414-5991542 - GTATAAATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATT-TCAAATACTCAAGGGTTGCGACTGGGCATCGCGGCTCGAAATGAGAATCCAACCCA-CAACCAAA--CAA
droMoj3 scaffold_6680:4316890-4317021 - AAACATATATTTGGTTAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATTTTTAAATACTCAAGGGTTGCATCTGGGCATCGCGGCTCGAAATGAGAATCCAACACAAA-GCCAAAATATA
droGri2 scaffold_15110:13121815-13121944 + TAACAAACATTTGGTGAATTCGATTTTTAGCTATGATTGTCCAAACGCAATTCTTGTTGATT-TCAAAAACTCAAGGGTTGCATCTGGGCATCGCGGCTCGAAATGAGAATACAACACAAAAATCAAA--ACA

dme-mir-252 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:9289926-9290048 - GTG-------TGCCG------------CCTACTTACC-----------------------------------------------AAGTTCGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCGAGTTGCCCAGCAAAA---------GAA
droSim1 chr3R_random:533427-533549 - GTG-------TGCCG------------TCTACTTACC-----------------------------------------------AAGTTCGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCGAGTTGCCCAGCAAAA---------GAA
droSec1 super_0:12715202-12715324 + GTG-------TGCCG------------TCTACTTACC-----------------------------------------------AAGTTCGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCGAGTTGCCCAGCAAAA---------GAA
droYak2 chr3R:13598006-13598135 - GTGCTAGATGTACGA------------TGTACTTACC-----------------------------------------------AAGTTCGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCGAGTTGCCCAGCAAAA---------GAA
droEre2 scaffold_4770:12350666-12350788 + GTG-------CTAGA------------TGTACTTACC-----------------------------------------------AAGTTCGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCGAGTTGCCCAGCAAAA---------GAA
droAna3 scaffold_13340:1848657-1848824 - GAG--------------------------TACTTAGCCCCAACCATTGGTAAATATTGATTTTATACTTACATTACTTCCTGCGAAG-TCGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCGAGTTGTCCAGCAAAATACAAG---GAA
dp4 chr2:16736618-16736739 - T-A-------TCTTG------------TGCATTTTGG-----------------------------------------------CGGTTTGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCG-GTGGTCCAACAGTG---------AAA
droPer1 super_0:3659179-3659300 + T-A-------TCTTG------------TGCATTTTGG-----------------------------------------------CGGTTTGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTCGTGTCCGCAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGGCG-GTGGTCCAACAGTG---------AAA
droWil1 scaffold_181130:6363211-6363342 - GAT-------GGATCAATACTTACTTGAAC------------------------------------------------GAAG--CGTATTGCTTTACTAAGTACTAGTGCCGCAGGAGTTTGGTTCGTGTCCGTAATACCTCCTGCTGCCCAAGTGCTTATTAAAGCGACGACTTTACCTACTTAA---------AAA
droVir3 scaffold_12855:2861518-2861626 + T----------------------------------------------------------------------------------------TGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTTGTGTCCGCAATGCCTCCTGCTGCCCAAGTGCTTATTAAAGCGACTAGTTTTCCACCAGCA-ACAATTAGAAA
droMoj3 scaffold_6540:10349255-10349360 - T----------------------------------------------------------------------------------------TGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGGTTGTGTCCGCAATGCCTCCTGCTGCCCAAGTGCTTATCAAAGCGACGAGTTTTTCAACAGCA-GCAAT---TAA
droGri2 scaffold_14906:3807816-3807948 - TTG-------TGGCA----CTTACTTGAGC----------------------------------------------TTGATG--CGTATTGCTTTCCTAAGTACTAGTGCCGCAGGAGTTAGGTTTGTGTCCGCAATGCCTCCTGCTGCCCAAGTGCTTATTAAGGCGACGAATTTTCCAACAATGTGC------GAG

dme-mir-263b intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:15836491-15836610 - CTGTAGCTCTTCA-----------------------------A------TTTGCTGACTTTGAGTCTTGGCACTGGGAGAATTCACAGTTGACTTTAT-----TATTCTGTGGTTCTGCGGGTGCC-AAAACTTAAAAACCG-GCTTTGTACAACGATT------------TCT
droSim1 chr3L:15181316-15181435 - CTCTAGCTCTTCA-----------------------------A------TTTGCTGACTTTGAGTCTTGGCACTGGGAGAATTCACAGTTGACTTGAT-----TATTCTGTGGTTCTGCGGGTGCC-AAAACTTAAAAACCG-GCTTTATACAACGAAT------------TCT
droSec1 super_0:7944386-7944505 - CGCTAGCTCTTCA-----------------------------A------TTTGCTGACTTTGAGTCTTGGCACTGGGAGAATTCACAGTTGACTTGAT-----TATTCTGTGGTTCTGCGGGTGCC-AAAACTTAAAAACCG-GCTTTATACAACGATT------------TCT
droYak2 chr3L_random:2539138-2539257 - CGATAGCTCTTCA-----------------------------A------TCTGCTGACTTTGAGTCTTGGCACTGGGAGAATTCACAGTTGACTTTAT-----TATTCTGTGGTTCTGCGGGTGCC-AAAATTTAATCAACG-GCTCTATACAACGATT------------TCT
droEre2 scaffold_4784:18090156-18090270 - CTG--GCGATTCA-----------------------------AACC---ATAGCTGACTTTGAGTCTTGGCACTGGGAGAATTCACAGTTGATTTTAT-----TATTCTGTGGTTCTGCGGGTGCC-AAAATTTAATCAACA-GCTCCATACAACG------------------
droAna3 scaffold_13337:11320710-11320858 + TTGTGATTTTTGAATCAAATATTCTG--------------G----ACTCTCTGCTGTCTTTGAATCTTGGCACTGGGAGAATTCACAGTTGATTTTAT-----TATTCTGTGGTTCTGCGGGTGCC-AAAATTGAAATAATG-GCCTAAAACCTCAAAAAAGGATATTTATTAT
dp4 chrXR_group6:3598033-3598148 - CGATCGTTA-----------------------------------------TTGCTGGCATTGGCTCTTGGCACTGGGAGAATTCACAGTTGGTTTCCAT---ATATTCTGTGGTTCTGCGGGTGCC-AAAATCGAATGTTCG-GCTCGAAACAGCAGCT------------GAA
droPer1 super_9:1894031-1894138 - T--------------------------------------------------TGCTGGCATTGGCTCTTGGCACTGGGAGAATTCACAGTTGGTTTTCAT---ATATTCTGTGGTTCTGCGGGTGCCCAAAATCGAATGTTCG-GCTCGAAACAGCAGCT------------GAA
droWil1 scaffold_180727:1452378-1452537 + CTTAAATTCTAAG-AAAGATTTTCTGTGTGTGTTTGAACGAAAATAAAGTCTGCTCACAATGCATCTTGGCACTGGGAGAATTCACAGTTGATTCTTATTCGATATTCTGTGGTTCTGCGGGTGCC-AAAATCTAATGTTTGAGCTGTGATCATCGAAA------------AAG
droVir3 scaffold_13049:24412507-24412633 - TTGT-GTTCTTCT------------------------ACGGAAAGCAGAGCTACTGCCATTTCATCTTGGCACTGGGAGAATTCACAGTCGATTACATA---ATATTCTGTGGTTCTGCGGGTGCC-AAAATGTAATGTGTG-GACCAAGACAGC-----------------CT
droMoj3 Unknown AC-TAGT---------------------------------------------------------GATTGGCACTGGGAGAATTCACAGTTGATTATATA---ATATTCTGTGGTTCTGCGGGTGCC-AAAATATAATATTCG-GAATA------------------------AT
droGri2 scaffold_15110:24319786-24319904 - ATATTGT--GGAA-----------------------------A------GCTACTGCCATTACATCTTGGCACTGGGAGAATTCACAGTTGGTTATATA---ATATTCTGTGGTTCTGCGGGTGCC-AAACTGTAATGTGTG-GACATAGA-AACAACC------------TGA

dme-mir-274 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:11650003-11650132 + AG-T----TTTGGTGAC--------GAATCC---------TGTGTTGCAGTTTCGTTTTGTGACCGACACTAACGGGTAATTG--------------------TT------------------TGGCCG-CCAGGAT--TACTCGTTTTTGCGATCACAAATTATGAAATTGCAGCAAAA-CT---------CAACGA--------AATTG
droSim1 zdo16e12.g1:275-405 + AG-T----TTTAGTGAC--------AAATCC---------TGTGTTGCAGTTTCGTTTTGTGACCGACACTAACGGGTAATTG--------------------TT------------------TGGCCA-CCAGGAT--TACTCGTTTTTGCGATCACAAATCATGAAATTGCAGCAAAA-TG---------CAACAA--------AAATG
droSec1 super_0:3837012-3837141 + AG-T----TTTAGTGAC--------AAATCC---------TGTGTTGCAGTTTCGTTTTGTGACCGACACTAACGGGTAATTG--------------------TT------------------TGATCA-CCAGGAT--TACTCGTTTTTGCGATCACAAATCATGAAATTGCAGCAAAA-CG---------CAACAA--------ATATA
droYak2 chr3L:11678621-11678750 + TG-A----TTTTATGCC--------GAATCC---------TGTGTTGCAGTTTCGTTTTGTGACCGACACTAACGGGTAATTG--------------------TT------------------TGGTCG-CCAGGAT--TACTCGTTTTTGCGATCACAAATCATGAAATTGCAGCAAAA-CG---------CAACAA--------AGTCG
droEre2 scaffold_4784:11632283-11632412 + TG-A----TTTTATGGC--------CAATCC---------TGTGTTGCAGTTTCGTTTTGTGACCGACACTAACGGGTAATTG--------------------TT------------------TGGCCG-CCAGGAT--TACTCGTTTTTGCGATCACAAATCATGAAATTGCAGCAAAA-CG---------CAACGA--------AGTCG
droAna3 scaffold_13337:5918600-5918728 + GC-C----TTTTTTTAA--------AAAACA-------GAAATGTTGCAGTTTCGTTTTGTGACCGACACTAACGGGTATTTT--------------------AC------------------AGGACATACAGGAT--TACTCGTTTTTGCGATCACAAATCCTGAAATTGCAGCAAAA-AA---------CAGCAA--------A----
dp4 chrXR_group6:10040179-10040309 - CC-TGGCACCTGGAACC--------TGGTCC---------CGTGCTGCAGTTTCATTTTGTGACCGACACTAACGGGTAATGG---------------------C------------------TGGCCG--CAGGAC--TACTCGTTTTTGCGATCACA-ATACTGAAATTGCAGCAACG-AG---------CAGCGA--------AACTG
droPer1 super_61:320241-320372 - ACCTGGCACCTGGGACC--------TGGTCC---------CGTGCTGCAGTTTCATTTTGTGACCGACACTAACGGGTAATGG---------------------C------------------TGGCCG--CAGGAC--TACTCGTTTTTGCGATCACA-ATACTGAAATTGCAGCAACG-AG---------CAGCGA--------AACTG
droWil1 scaffold_180949:2705123-2705289 - TT-T-------TGTGAT--------TATTTT---TAATATCCTGTTGCAGTTTCATTTTGTGACCGACACTAACGGGTAGTAACGGGTTAACAAAGTCGTTTTTC------------------TGGCCT------TT--TACTCGTTTTTGCGATCACAAATTCTGAAATTGCAGCAAAAGATCAACGTATACAACAAACACATAAAATGA
droVir3 scaffold_13049:23860698-23860839 + AA-T----CCCAATGTC--------GCATCCTGT-------TTGTTGCAGTTTCGGTTTGTGACCGACACTAACGGGTAGTTGGG----------------------GCA-CCTCGAATAC-G--------CTGTTT--TACTCGTTTTTGCGATCACAAATTCTGAAATTGCAACGAAA-AG---------CAACAA-----GAAAATTT
droMoj3 scaffold_6680:18485462-18485604 + GA-A----TCTGTTGTCAAGT----GTATCC---------TGTGTTGCAGTTTCGGTTTGTGACCGACACTAACGGGTAGTTGAG----------------------GCA-TCTCGTATTC-G--------CTGTTTTATACTCGTTTTTGCGATCACAAATTCTGAAATTGCAACGAAA-CG---------CAACGA--------AAATG
droGri2 scaffold_15110:13805592-13805748 - AA-AGTGAAATAGTGCAACGTATACGAGTCCTGT-----GCGTGTTGCAGTTTCGGTTTGTGACCGACACTAACGGGTAGTTA--------------------AAGGGCATCCTCGCATTCTG--------CTGGCT--TACTCGTTTTTGCGATCACAAATTCTGAAATTGCAACGAAA-AT---------CAACAA--------AACCA

dme-mir-275 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:7425780-7425907 + TGATGTTCCCCCGACTGTA--AAGTCTCCTACCTTGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----TTATAT---ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGG-CAGACATATAT----CTCCATCTT-------------------CACC--AT
droSim1 chr2L:7217350-7217477 + TGATGTTCCCCCGACTGAA--AAGTCTCCTACCTTGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----TTATAT---ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGG-CAGACATATAT----CTCCATCTC-------------------CGCC--AT
droSec1 super_3:2941240-2941367 + TGATGTTCCCCCGACTGAA--AAGTCTCCTACCTTGCGCGCTAATCAGTGACCGGGGCTTGTTTT-----TTATAT---ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGG-CAGACATATAT----CTCCATCTC-------------------CGTC--AT
droYak2 chr2L:5473766-5473897 - TGATGTTCCCCCGACTGAACAGAGTCTCCTACCTTGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----TTATAT---ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGC-CAGACATATAT----CTCCAACTC-------------------CACGATAT
droEre2 scaffold_4929:16344506-16344633 + TGATGTTCCCCCGACTGAA--AAGTCTCCTACCTTGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----TTATAT---ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGC-CAGACATATAT----CTCCATCTC-------------------CACC--AT
droAna3 scaffold_12916:15333987-15334092 + -------------ACTCTC--CAGTCTCCTACCTTGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----TGCA-----ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGG-CAGACATATAT----C---------------------------CGCC--AT
dp4 chr4_group1:4175726-4175840 + CCACCTTC-------TTGA--AAGTCTCCTACCATGCGCGCTAATCAGAGACCGGGGCTGGTTTT-----TTCACT---GCAGTCAGGTACCTGAAGTAGCGCGCGTGGTGC-TAGACACGAA--CATC--TGT----------------------------GT
droPer1 super_5:1086449-1086563 - CCACCTTC-------TTGA--AAGTCTCCTACCATGCGCGCTAATCAGAGACCGGGGCTGGTTTT-----TTCACT---GCAGTCAGGTACCTGAAGTAGCGCGCGTGGTGC-TAGACACGAA--CATC--TGT----------------------------GT
droWil1 scaffold_180772:5257564-5257692 - -----------------------GTCTCTTACCTTGCGCGCTAATCAGTGACCAGGGCTGAGTAATTTTATTCAAT---ACAGTCAGGTACCTGAAGTAGCGCGCGTGGTTT-TAGACCAAGATTCATC------GCACGACGACGGCGACAACGACGAC--AC
droVir3 scaffold_12963:15419953-15420067 - --------------CTGCG--CCGTCTTTTACCGTGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----GGTTATCCCACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGGCCAGACGTATT--CATC------TT-------------------AAGC--TT
droMoj3 scaffold_6500:18399386-18399492 - -----------------------GTCTTTTACCGTGCGCGCTAATCAGTGACCGGGGCTGGTTTC-----GATTATCTCACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGGCTAGACGCATT--CAAC------GCTC-----------------T-----GC
droGri2 scaffold_15126:5008400-5008494 + -----------------------GTCGTTTACCGCGCGCGCTAATCAGTGACCGGGGCTGGTTTT-----GATTATCCCACAGTCAGGTACCTGAAGTAGCGCGCGTGGTGGCCAGACGCAT------------------------------------------

dme-mir-278 antisense_to_3pUTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:11544556-11544683 + T--GATACGAG---------------------------ACCATGGTAATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTG---TCATTTAAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------G---------TGTCCGT
droSim1 chr2R:10277194-10277321 + T--GATACGAG---------------------------ACCATGGTAATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTG---TCCTTTAAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------G---------TGTCCGT
droSec1 super_1:9037606-9037733 + T--GATACGAG---------------------------ACCATAGTAATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTG---TCCTTTAAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------G---------TGTCCGT
droYak2 chr2R:17445962-17446088 - T--GATACGAC---------------------------ACCATGGTAATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTG---TCCTTTAAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------G---------TGTCCG-
droEre2 scaffold_4845:14318899-14319025 - T--GATACGAG---------------------------ACCATGGTAATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTG---TCCTTTAAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------G---------TGTCCG-
droAna3 scaffold_13266:12641317-12641435 - TATG-----------------------------------TAACGGTAATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTG---TCCTTCGAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAGCGATTTATCA----------------------------TCCGG
dp4 chr3:19640883-19641018 - T--G-----------------------------------CAACGGTAATGGTACGGTGCGACCGGACGATGGTTCACAACGACCGTG---TCTCTTAAACTGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAGCGATTTATCATCATCGTCGCGCCCCAG---------TGCTCGT
droPer1 super_37:642280-642415 - T--G-----------------------------------CAACGGTAATGGTACGGTGCGACCGGACGATGGTTCACAACGACCGTG---TCTCTTAAACTGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAGCGATTTATCATCATCGTCGCGCCCCAG---------TGCTCGT
droWil1 scaffold_181009:1555699-1555856 - T--GTAACGAGTTAAAAAAAAATAAGGGGAGATCCCCCATAATGGTAATGGTACGGTGCGACCGGATGACGGTTCACAACGACCGTG---TCAATTTTACTGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCATAATC----------------------TCTAGG
droVir3 scaffold_12875:6427523-6427640 - T--G---------------------------------------GTTTATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTGCA-TACTTTTAACTGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------A---ATCAG------AT
droMoj3 scaffold_6496:23589388-23589515 + T--G---------------------------------------GTTTATGGTACGGTGCGACCGGATGATGGTTCACAACGACCGTACAGTTTTTTCAACGGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAACGATTTATCA----------------GCAAATCAGATATCAGC
droGri2 scaffold_15112:1314106-1314223 - T--GGTC--------------------------------------TGATGGTACGGTGCGACCGGATGACGGTTCACAACGACCGTGCT-TATTTTTAACTGGTCGGTGGGACTTTCGTCCGTTTGTAACGCCATTTGTCAGCGATTTATCA----------------A----------ATCAGT

dme-mir-279 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:25041292-25041421 + ACTGG--------AGCTGGAATTGG-AATTCATACTACTGTTTTTAGTGGGTGGGGGTCCAGTGTTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCATCAAG--------------CACGT
droSim1 chr3R:24712183-24712312 + ACTGG--------AGCTGGAATTGG-AATTCATACTGCTGTTTTTAGTGGGTGGGGGTCCAGTGTTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCATCAAG--------------CACGT
droSec1 super_4:3904072-3904201 + ACTGG--------AGCTGGAATTGG-AATTCATACTGCTGTTTTTAGTGGGTGGGGGTCCAGTGTTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCATCAAG--------------CACGT
droYak2 chr3R:21456037-21456166 - ACTGG--------AACTAGAATTGA-AATTCATACTACTGTTTTTAGTGGGTGAGGGTCCAGTGCTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCATCAAG--------------CACGT
droEre2 scaffold_4820:2989050-2989173 - ACTGG--------------AATTGG-AATTCATACTACTGTTTTTAGTGGGTGGGGGTCCAGTGTTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCATCAAG--------------CACGT
droAna3 scaffold_13340:14200293-14200422 - GGCGG--------CGATACTAATAC-TACTACTACTACTGTTTTTAGTGGGTGAGGGTCCAGTGTTTCACATTGATTT-C---TGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCAGCAAG-----------GCCCACGT
dp4 chr2:1881900-1882031 + AGTGG--------TTTTA-AGTTCG-CGATCATACTACTGTTTTTAGTGAGTGAGGGTCCAGTGTTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCAACAGA-----------ATGCACGT
droPer1 super_7:2045298-2045429 + AGTGG--------TTTTA-AGTTCG-CGATCATACTACTGTTTTTAGTGAGTGAGGGTCCAGTGTTTCACATTGATTTTCTT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCAACAGA-----------ATGCACGT
droWil1 scaffold_181108:1734340-1734482 + ACTAC--------TACTACGACTAG-AACAACTACTACTGTTTTTAGTGAGTGAGGGTCCAGTGTTTCACATTAAATAT-TT-AGTATTTGTGACTAGATCCACACTCATTAATAACGGTAGTTCAATCATCGAAAATAAAAAAAGAAACACGT
droVir3 scaffold_12822:2330907-2331031 + ACGAG-----------TGGA-TCGAATATGCGTACTACTGTTTTTAGTGAGTGAGGGTCCAGTGTTTCACATTCGTTTTTTCAAGTATTTGTGACTAGATCCACACTCATTAACAACGGTAGTTCAATCAGCAAA--------------TA---
droMoj3 scaffold_6540:26447118-26447234 + AC-GG--------TTCTG-A-TCGGAAATACGTACTACTGTTTTTAGTGAGTGAGGGTCCAGTGTTTCACATTGTTTG-CTTAAGTATTTGTGACTAGATCCACACTCATTAAAAACGGTAGTTCAATC-------------------------
droGri2 scaffold_14624:3249724-3249850 + ATAAGGGAAGTGATTTA-----TGGATAACCGTATTACTGTTTTTAGTGGGTGAGGGTCCAGTGTTTCACATTGTTT--ATT-TGTATTTGTGACTAGATCCACACTCATTAAAAACGGTAGTTCAATCAACA-------------------GT

dme-mir-282 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:3251007-3251133 + CCGTTCTTT---------AACTATAGTTTCCTTCTAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTCGAA-AGCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGCGAACAATCAGC------------------GAAAACGGA
droSim1 chr3L:2784381-2784507 + CCGTTCTTA---------AACTAAAGTTTCCTTTTAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTCGAA-AGCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGCGAACAATCAGC------------------GAAAACGGA
droSec1 super_2:3244745-3244871 + CCGTTCTTA---------AAATAAAGTTTCCTTTTAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTCGAA-AGCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGTGAACAATCAGC------------------GAAAACGGA
droYak2 chr3L:3795918-3796050 + TCGTTCTATATCCGTTATAT---CAGTTTCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TACGAA-AGCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGTGAAAAATCAGC------------------GAAAACGGA
droEre2 scaffold_4784:5933708-5933834 + TCGTTCTAT---------CACCACAGTTTCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTCAAA-AGCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGCGAACAAGCAGC------------------GAAAACGGA
droAna3 scaffold_13337:7556585-7556720 + CCGTTCTAA-TTCGAAA-ATCGAAAATTTCCTTATAGATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTCGAA-AGTCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGCGACAAGACATC----------------ACAAAAACGGA
dp4 chrXR_group8:3299974-3300083 - ---------------------------TGCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTTGAAAACCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGAAGAAATGCATC------------------AAAAGCGGA
droPer1 super_65:103931-104040 - ---------------------------TGCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTTGAAAACCCGATCAGACATAGCCTATAAGAGGTTAGGTGTACCAAGGAAGAAATGCATC------------------AAAAGCGGA
droWil1 scaffold_181136:1999668-1999787 + TTTTCCTTTAT--GTAA-TATTAATATATCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTTGGA------TTCAGACATAGCCTATGAGAGGTTAGGTGTACCAAGGAGAAAATACAAC------------------A--------
droVir3 scaffold_12758:910696-910814 - GCGTCCGAC--------------AAATTTCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTCGAT-ATACGGTCAGACATAGCCTATGAGAGGTTAGGTGTACCAAGGGG-ACAAGCAGC------------------GAGGGCG--
droMoj3 scaffold_6680:1963284-1963406 - ATTTTTTTT-TGCG------GT-GCATTTCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCA--TTTGAT-ATAAGATCAGACATAGCCTATGAGAGGTTAGGTGTAGCAAGGGG-TCAAACAGC------------------AGA----GA
droGri2 scaffold_15110:607073-607202 + ---------------------------TTCCTTATAAATCTAGCCTCTACTAGGCTTTGTCTGTGCACTTTTTCA-ATTCAATCAGACATAGCCTATGAGAGGTTAGGTGTACAAATGGATCAAAGCAACAAGGCTGCTGTCGGGGACTAAAAATGA

dme-mir-283 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15401974-15402103 + AGAGAA-A----------AG-----------------------TGTCACCTCACACGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCAT
droSim1 chrX_random:4022807-4022936 + AGAGAA-A----------AG-----------------------TGTCACCTCACACGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCAT
droSec1 super_73:136400-136529 + AGAGAA-A----------AG-----------------------TGTCACCTCACACGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCAT
droYak2 chrX:9587590-9587719 + AGAGAA-A----------AG-----------------------TGTCACCTTACACGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCAT
droEre2 scaffold_4690:11632475-11632604 - AGAGAA-A----------AG-----------------------TGTCACCTCACACGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGCCTAAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTGATCACCAT
droAna3 scaffold_12929:2900376-2900509 - GTGTTA-CAGTGTT------------------------CA-----CCACCTCACCTGATTCTTAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTATGCCTGATTA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTCGAATTGCATTTTATCACCAA
dp4 chrXL_group1a:976013-976147 + AGAGAA-A-----------G------------CGACGTCACGA-TTCACCTCA--CGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGC-AAGATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCA-
droPer1 super_26:1090677-1090833 + AGAGCG--AACGAGAGAGAGTGCCAGAGAAAGCGACGTCACGA-TTCACCTCA--CGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTAAGC-AAGATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCA-
droWil1 scaffold_180702:1594772-1594907 - GAGTGC-GAGTGGG------------------------A----GGGAGCCTAACG-AATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCTATGCCTAGATATTTGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTAATCACCAA
droVir3 scaffold_12970:2047646-2047770 + ACA---------------AG----------------------ATGTCACCTCACCCGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCAATGCCTAAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACC--
droMoj3 scaffold_6359:3257693-3257822 + AGTGAACC----------AG----------------------CTGTCACCTCACCCGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCAATGCCC-AATA--TGAAACACTCGGAATTTCAGTTGGTATATACTTTTTTGAATTGCATTTTATCACCA-
droGri2 scaffold_14853:6953507-6953633 - AGAAT--------------G--------------A--------CGTCACCTCACCCGATTCTCAAAGGTAAATATCAGCTGGTAATTCTGGGAGCAATGCC-AAATA--TGAAACACTCGGAATTTCAGTTGGTATCGACTTTTTTGAATTGCATTTTATCACCA-

dme-mir-284 three_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:8377222-8377351 - ATAATCGGTGATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTGAGGGC-AAGGCTTGAATAATGCTCCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCGAT-----------------------------------ATTCCTCAACAATG
droSim1 chr3R:13050845-13050974 + ATAATGGGTAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTGAGGGC-AAGGCTTGAATACTGCTCCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCGAT-----------------------------------ATTCCGCAACAATG
droSec1 super_0:13609227-13609356 + ATAATGGGTAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTGAGGGC-AAGGCTTGAATACTGCTCCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCGAT-----------------------------------ATTCCGCAACAATG
droYak2 chr3R:12662228-12662357 - ATAATGGGTGATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTGAGGGC-AAGGCTTGAGTACTGCTTCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAT-----------------------------------ATTCCGCAACAATG
droEre2 scaffold_4770:13275536-13275665 + TTAATGGGTGATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTGAGGGC-AAGGCTTGAGTACTGCTTCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAT-----------------------------------ATTCCGCAACAATG
droAna3 scaffold_12911:3307955-3308116 - ACAAAAGGCAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTGAGGGC-AAGGCTTGAGAACTGCTTCAGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAGTACAGCA---GAAAGAGCCGTGAACCGTGTTCAATATGCCACGACAATG
dp4 chr2:2484958-2485100 - ATCAGAGGCAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGGGAAGGC-AAGGCTTGAGCACTGCTTCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAGCACAACGCTGAATGG------------TGCTCAAAATAC----------
droPer1 super_7:2652948-2653090 - ATCAGAGGCAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGGGAAGGC-AAGGCTTGAGCACTGCTTCTGAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAGCACAACGCTGAATGG------------TGCTCAAAATAC----------
droWil1 scaffold_181130:2186197-2186330 - GTGTGTGACAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTTAGGGGAAAGGCTTGAGCATTGCATACTAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAGCTCAACGTT--------------------------------CAACAGTG
droVir3 scaffold_12855:584465-584599 + ATAAATGGAAATTGCGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTAAAGGG-AAGGCTTGTGCACTGCTTACAAAGTCAGCAACTTGATTCCAGCAATTGCGGCCCAAGGACAACGTTGGAAAG------------TGTC------------------
droMoj3 scaffold_6540:12381805-12381927 - TGTAT---TAATTGCGTTGCAGTTCCTGGAATAAAGTTGACTGTGTCGCCTGTAAGGGG-AAGGCTTTTGCATTGCTTACAAAGTCAGCAACTTGATTCCAGCAACTGCGGCCCAAGCT---------------------------------------CAACGTGG
droGri2 scaffold_14906:1700701-1700824 + ATA--TGGAAATTGGGTTGCAGTTCCTGGAATTAAGTTGACTGTGTAGCCTGTAAGAGG-AAGGCTTGTGCACTGCTTACAAAGTCAGCAACTTGATTCCAGCAATTGCGGCTCAAACT---------------------------------------CAACGTTG

dme-mir-285 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:11939178-11939306 - AC-----TTGCC---CT---------------GCCACTTCGAATCGAAGAAC-TGAGATCGATTGGTGCATAGATATC----AGGAGAACCCACTCA---------ATTTAACTCTAGCACCATTCGAAATCAGTGCTTTTGATAAGAAACAATCAGCGAA------------GTGTC
droSim1 chr3L:11307954-11308082 - AC-----TTGCC---CA---------------GCCACTTCGAATCGAAGAAC-TGAGATCGATTGGTGCATAGATATC----AGGAAAACCCACTCA---------ATTCAACTCTAGCACCATTCGAAATCAGTGCTTTTGATAAGAAACAATCAGCGAA------------GTGTC
droSec1 super_0:4127812-4127940 - AC-----TTGCC---CA---------------TCCACTTCAAATCGAAGAAC-TGAGATCGATTGGTGCATAGATATC----AGGAAAACCCACTCA---------ATTCAACTCTAGCACCATTCGAAATCAGTGCTTTTGATAAGAAACAATCAGCGAA------------GTGTC
droYak2 chr3L:11984774-11984902 - TC-----TTGCC---CT---------------ACCACTTCGAATCGAAGAAC-TGAGATCGATTGGTGCATAGATATC----AAGACAACCCACTCA---------ATTCAACTCTAGCACCATTCGAAATCAGTGCTTTTGATAAGAAACAATCAGCGAA------------GTGTC
droEre2 scaffold_4784:11929878-11930011 - TCAGGAGCTGCA---CT---------------CCCACTTCGAGTCGAAGAAC-TGAGATCGATTGGTGCATAGATATC----AAGAAGCCCCACTCA---------ATTCAACTCTAGCACCATTCGAAATCAGTGCTTTTGATAAGAAACAATCAGCGGA------------GTGTC
droAna3 scaffold_13337:6191341-6191461 - GC---------C---AG---------------GATAATTCGAATCAAAGAAC-TGAGATCGATTGGTGCATAGATATC----AAGGAGATCCGATCA---------TTTCAATTCTAGCACCATTCGAAATCAGTGCTTTTGATAAGAACCACTCAACAGA-----------------
dp4 chrXR_group6:1929779-1929903 - TC-----TTACA---AT---------------TACAGTTCGAATCGAAGAAC-TGAGATCGATTGGTGCATAGATATC----AAGAGGACTCGCTAAT--------TTTCAACTCTAGCACCATTCGAAATCAGTGCTTTTGATGAGAACCATTCAACAGA-----------------
droPer1 gnl|ti|738578230:636-763 + TC-----TTACA---AT-------------T-TACAGTGGGAATCGAAGAACCTGAGATCGATTGGTGCATAGATATC----AAGAGGACTCGATAAT--------TTTCAACTCTAGCACCATTCGAAATCAGTGCTTTTGATGAGAACCATTCAACAGA-----------------
droWil1 scaffold_180949:5768880-5769006 + AC-----A------------------------AATTGTTCGAATTAAAGAAC-TGAGATCGATTGGTGCATAGATAAT----ATGCGAATTCTATCATTTGATTTCATTCAATTCTAGCACCATTCGAAATCAGTGCTTTTGATTAGAACCAATCAACAAG-----------------
droVir3 scaffold_13049:21101427-21101556 + AT-----GCAC----CA---------------GCCAGTTCAAATTGAAGAAC-TGAGATCGATTGGTGCATAGATATCGCCCAAAA--AGTAATTCA---------TTTCAATTCTAGCACCATTCGAAATCAGTGCTTTTTATTCGAACCGATCAGCGGC------------GCATC
droMoj3 scaffold_6680:15475365-15475526 + AC-----ACACCCAGCAGACATCAAACACCACACCAGTTCAAATTGAAGAAC-TGAGATCGATTGGTGCATAGATAACGCCCAAAAAG--TCATTTT----A----TTTCAATTCTAGCACCATTCGAAATCAGTGCTTTTTATTGGAACCGATCAACGGTGTATGGGAACAAGTGTC
droGri2 scaffold_15110:22570097-22570226 - AT-----GTAG----CA---------------GCCAGTTCAAATTGAAGAAC-TGAGATCGATTGGTGCATAGATATCGTCCAAGAA---TAATTTA----A----TTTCAATTCTAGCACCATTCGAAATCAGTGCTTTGTATTGGAACCGATCAGCGGC------------GCATT

dme-mir-286 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15548912-15549041 - TTG-G--------GCAC--------T------CC----------AGTTTTAAAATTGAATGGCGAATGTCGGTATGGTCTCTTTTTCAAA-G-A------AA-------GGTT----TCG--ATTAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATATTCAACATGC-----TCA--G
droSim1 chr2R:14254346-14254476 - TTG-G--------GCAC--------T------CC----------AGTTTTAAAATTGAATGGCGAATGTCGGTATGGTCTCTTTTTCCAA-AGA------AA-------GGTT----TCG--ATCAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATATTCAACATGC-----TCA--G
droSec1 super_1:13063641-13063770 - TTG-G--------GCAC--------T------CC----------AGTTTTAAAATTGAATGGCGAATGTCGGTATGGTCTCTTTTTCCAA-T-A------AA-------GGTT----TCG--ATCAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATATTCAACATGC-----TCA--G
droYak2 chr2R:13623749-13623876 + TAG----------GCAC--------T------CC----------AGTTTTAAAATTGAATGGCGAATGTCGGTATGGTCTCTTTTTCAAA-A--------GA-------GGTT----TCG--ATCAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATATTCAACATGC-----TCA--G
droEre2 scaffold_4845:9749162-9749292 - TAG----------GCAC--------T------GC----------AGTTTTAAAATTGAATGGCGAATGTCGGTATGGTCTCTTTTTCAAA-G--------AA-------GGTT----TCG--ATCGA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATATTCAACATGC-----ACACTG
droAna3 scaffold_13266:9731344-9731477 + TTT-A--------GCAT--------C------AG----------AATTTTAAAATTGAATGGCGATTGTCGGTATGGTCGCTTTTTCACA-A-A------AAAATT---GGTT----ACC--AACAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATGTTCATCAAGC-----TAA--A
dp4 chr3:12677574-12677700 - AAA-A--------GAAG--------A------CA----------AATTTTAAAATTAAATGGCGATTGTCGGTTTGGTCGCTTTTTACCA-----------G-------GGTT----CCG--ATCAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAGAATGTTCAACATGG-----CCA--A
droPer1 super_2:8905966-8906092 + AAA-A--------GAAG--------A------CA----------AATTTTAAAATTAAATGGCGATTGTCGGTTTGGTCGCTTTTTACCA-----------G-------GGTT----CCG--ATCAA---GCGAAGTGACTAGACCGAACACTCGTGCTATAATTTTAGAATGTTCAACATGG-----CCA--A
droWil1 scaffold_180701:1651730-1651882 - TAT----------GCAA--------T------TG-AAATT----ACTTTTAAAATTGAATGGCGATTGTCGGTATAGTCTCTTTTTCCAA-A--------AATCTTGTTTGTTTTTGCCA--ATCTAATAAGAAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATGTTCAACAAGCAACAACCA--A
droVir3 scaffold_12875:4112084-4112243 + GTG-----TTCCAGTATTCCAGTGTTTCAATTCCAATATTCCAGTATTTTAAAATTAAATGGCGATTGTCGGTATGGTCGCTTTTTCAAA-C--------AA-------TATA----CCATTATC--TATATAAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATGTTCAACGTAT-----ATA--A
droMoj3 scaffold_6496:20936771-20936914 - TCC-A--------GTGT--------T------CGAAAATTATAAAATTTTAAAATTAAATGGCGATTGTCGGTATGGTCTCTTTTTCAACAT-ATACACCAA-------ACAT----T------C--TATATAAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATGTTCAACAATT-----TCA--A
droGri2 scaffold_15112:2108802-2108953 - TGTGTGTGTT---GCAG--------T-CAAACCCAG----CCAGTATTTTAAAATTAAATGGCGATTGTCGGTATGGTCGCTTTTGAACC-T-AAACTC------T---ATAT----ACA--ATA--TATATAAAGTGACTAGACCGAACACTCGTGCTATAATTTTAAAATGTTCAACATAG-----GCA--T

dme-mir-2a-1 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:19569882-19569987 - TATTGG-CGCATTCATGCTGGGCTCTCAAAGTGGTTGTGAAATGCATT-TC----CGCTTTGCGCGGCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTATCGTACA
droSim1 chr2L:19257947-19258052 - TATTGG-CGCATTCATGCTGGGCTCTCAAAGTGGTTGTGAAATGCATT-TC----CGCTTTGCGCGGCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTATCGTACA
droSec1 super_7:3184244-3184349 - TATTGG-CGCATTCATGCTGGGCTCTCAAAGTGGTTGTGAAATGCATT-TC----CGCTTTGCGCGGCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTATCGTACA
droYak2 chr2R:6066940-6067043 - --TTGG-CGCATTCACGCTGGGCTCTCAAAGTGGTTGTGAAATGCATT-TC----CGCTTTGCGCGGCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTATCGTACA
droEre2 scaffold_4845:4719792-4719897 + TATTGG-CGCATTCATGCTGGGCTCTCAAAGTGGTTGTGAAATGCATA-TC----AGCTTTGCGCGGCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTATCGTACA
droAna3 scaffold_12916:12013650-12013754 + TATTGG-CACATTCCTGCTGGGCTCACAAAGTGGTTGTGAAATGCATT-TC----CATTTTGCCC-GCATATCACAGCCAGCTTTGATGAGCTTAGCGTTATGTATCGTACA
dp4 chr4_group5:1152486-1152589 + TATTGG-CACATTCATGCTGGGCTCACAAAGTGGTTGTGAAATGCATT-TT-----GCTTTGCCC-GCATATCACAGCCAGCTTTGATGAGCTCGGCGTAATGTATCGTACA
droPer1 super_5:5559971-5560074 + TATTGG-CACATTCATGCTGGGCTCACAAAGTGGTTGTGAAATGCATT-TT-----GCTTTGCCC-GCATATCACAGCCAGCTTTGATGAGCTCGGCGTAATGTATCGTACA
droWil1 scaffold_180708:4284676-4284781 + CA-CGA-CACATTCATGCTGAGCTCACAAAGTGGTTGTGAAATGCATTATT----TGCTTTATCCAGCATATCACAGCCAGCTTTGATGAGCTCTGCGTAATGTGAATTGCA
droVir3 scaffold_12723:2960768-2960874 - GATTGG-CACATTCATGCTGCGCTCTCAAAGTGGTTGTGAAATGCATT-TG--AAAGCTTTGCGC-GCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTCACGTACA
droMoj3 scaffold_6500:6908308-6908415 + -ATTGGCCACATTCATGCTGAGCTCTCAAAGAGGCTGTGAAATGCATT-TT-GAAAGCTTTGCGA-GCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTAACGTACA
droGri2 scaffold_15126:521642-521748 + --TTGG-CACATTCATGCTGCGCTCTCAAAGTGGTTGTGAAATGCATT-TTTGAAAGCTTTGCGC-GCATATCACAGCCAGCTTTGATGAGCTTAGCGTAATGTAAACTACt

dme-mir-2c intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:11243451-11243582 - TGCGT----CG-----------ACGTTACCTCGTAT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAGAAAGATATTTCTGCATTTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCAGCG------ATAGCA-AA-------------------------------------------ATGTG--------------ACC
droSim1 chr3R:10237596-10237727 + TGCGT----CG-----------ACGTTACCTCGTAT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAGAAAGATATTTCTGCATTTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCAGCG------ATAGCA-AA-------------------------------------------GTGTG--------------ACC
droSec1 super_0:10704829-10704960 + TGCGT----CG-----------ACGTTACCTCGTAT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAGAAAGATATTTCTGCATTTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCAGCG------ATAGCA-AA-------------------------------------------GTGTG--------------ACC
droYak2 chr3R:15188346-15188476 + TTCGT----CG-----------ACGTTACCTCGTAT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAGAAAGATATTTCTGCATTTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCATCG------ATAGTA--A-------------------------------------------GTGCG--------------ACC
droEre2 scaffold_4770:10769593-10769723 - TGTGT----CG-----------ACGTTACCTCGTAT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAGAAAGATATTTCTGCATTTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCATCG------ATGGCA--A-------------------------------------------GTGTG--------------ACC
droAna3 scaffold_13340:12827820-12827951 - TGCGTTTAGCG-----------ACGTATCTACGAAT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAG--AGATATTTCTGCATTTGAAGTGTATCACAGCCAGCTTTGATGGGCATTGCAATAAGCCTAGATTCCGATTGAA-----------------------------------------------------------------A-C
dp4 chr2:9824664-9824803 + TGCGT----GCGTGCTTGCGTATCGGCACTTGGTATCCTTACTTTCAGTGTCATCAAAAATGGCTGAAGAAAGATATATTTGCATTTGAAGCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCATCG------ATTGCA------------------------------------------------GTT--------------TCG
droPer1 super_0:10660285-10660410 - TGCGT----AT------------CGGCACTTGGTATCCTTACTTTCAGTGTCATCAAAAATGGCTGAAGAAAGATATATTTGCATTTGAAGCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCATCG------ATTGCA-GT---------------------------------------------TT------------------
droWil1 scaffold_181089:2143458-2143641 - TGTGT----GT---------------GA-ATTGCGT-CTTACTTTCAATGTCATCAAAAAGGGCTGAAGAAAGATATTTTTGCATTTGAAGCGTATCACAGCCAGCTTTGATGGGCATTGCAATGAGCATCGTT-----TTGCA-TTTTTCCCCTCATTATTCGCCACACACTCTGGGAGTACCAGCCAACAGAGACAGAGAGCGAGCGAC-
droVir3 scaffold_13047:13335413-13335531 + TGT---------------------------ACATGT-CTTACTTTCAATGTCATCAAAAAGGGCTGA-GAATGATATATCTGCAATTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAAAGGGCAACG-------TAGCAGAA-------------------------------------------AAGTA--------------ACA
droMoj3 scaffold_6540:10568085-10568205 + CATGC-------------------------TTG-GT-CTTACTTTCAGTGTCATCAAAAAGGGCTGA-GAATGATATTTCTGTAATTGAATTGTATCACAGCCAGCTTTGATGGGCACTGCGAAGGGCGAAG-------TAACA-GT-----------------------------------------AACATTA--------------ACA
droGri2 scaffold_14906:4357869-4357995 - TGTGT----GT-----------TTGTGTGTACATGT-CTTACTTTCAATGTCATCAAAAAGGGCTGA-GAATGATATATCTGCAATTGAATCGTATCACAGCCAGCTTTGATGGGCATTGCAAAGGGCAATG-------TAGCA-AA-------------------------------------------AAGAG-----------------

dme-mir-3 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15549085-15549183 - GCCA-C------------CTAA-GGTCCCGATCCTGGGATGCATCTTGTGCAGTTATGTTTC--AAT-------CT----CACATCACTGGGCAAAGTGTGTCTCAAGATCCTGGCCACATCG--------------TCG
droSim1 chr2R:14254518-14254616 - ACCA-C------------CAAA-GGTCCCGATCCTGGGATGCATCTTGTGCAGTTATGTTCC--AAT-------CT----CACATCACTGGGCAAAGTGTGTCTCAAGATCCTGGCCACATCG--------------TCG
droSec1 super_1:13063812-13063910 - ATCA-C------------CAAA-GGTCCCGATCCTGGGATGCATCTTGTGCAGTTATGTTTC--AAT-------CT----CACATCACTGGGCAAAGTGTGTCTCAAGATCCTGGCCACATCG--------------TCG
droYak2 chr2R:13623606-13623704 + ACCA-T------------CAAA-GGTCCTGATCCTGGGATGCATCTTGTGCAGTCATGTTTC--CAT-------CT----CACATCACTGGGCAAAGTGTGTCTCAAGATCTTGGCCACTTCG--------------ACG
droEre2 scaffold_4845:9749329-9749427 - ACCC-A------------CCAA-GGTCCTGATCCTGGGATGCATCTTGTGCAGTTATGTTTC--TAT-------CT----CACATCACTGGGCAAAGTGTGTCTCAAGATCCTGGCCACTTCG--------------ACG
droAna3 scaffold_13266:9731210-9731313 + GCCC-C------------CAACTGGCTACGATCTTGGGACGCATTTTGTGCAGTTATGCACC--AAA-AATA------TATCCATCACTGGGCAAAGTGTGTCTCAGGATCTTGGCCATCTCA--------------ACG
dp4 chr3:12677741-12677846 - ACGA-CGA--------TACCGA-GGCAACGATCCTGGGATGCATTTTGTGCAGTTATGTCTA--CGTGATCA------TCCTCATCACTGGGCAAAGTGTGTCTCAGGATTGCAGCCCCGCCA--------------A--
droPer1 super_2:8905820-8905925 + ACGA-CGA--------TACCGA-GGCAACGATCCTGGGATGCATTTTGTGCAGTTATGTCTA--CGTGATCA------TCCTCATCACTGGGCAAAGTGTGTCTCAGGATTGCAGCCCCGCCA--------------A--
droWil1 scaffold_180701:1651920-1652025 - TCGA-A------------TTTA-GACCATGATTTTGGGATGCATTTTGTGCAGTTATGTCTTCATGTGATAATTCT----CTCATCACTGGGCAAAGTGTGTCTCATAATTTTGGTAACCATA--------------T--
droVir3 scaffold_12875:4111929-4112038 + AATAAAAATACCAGAATCTCAT-AGCTCTGCTTTTGGGATGCATTTTGTGCGGTTATGTCTG--CCT-------CCAAAACCCATCACTGGGCAAAGTGTGTCTCAAAATTGTGGCTACC--------------------
droMoj3 scaffold_6496:20936961-20937077 - AACT-C------------TCGC-AGCTCTACTTTTGGGATGCATTTTGTGCAGATGTCTAAC--GAT-------TGGAAACCCATCACTGGGCAAAGTGTGTCTCAAAATTGGGGCAACTAGCACAAAGGAGGAGTGTTT
droGri2 scaffold_15112:2109003-2109099 - AATT-T------------TCAT-AGCTCTGCTTTTGGGATGCATTCTGTACAGTAATGTTGA--CTCTTGTA------AAACCATCACTGGGCAAAGTGTGTCTCAAAATTGTGGCAA---------------------G

dme-mir-304 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15402977-15403094 + GTACCAATTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGGTT-TAAGCCATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGACTGCGGCATATGCCACA--TT
droSim1 chrX_random:4023795-4023912 + GTACCAATTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGGTT-TGAGCCATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGACTGCGGCATATGCCACA--TT
droSec1 super_73:137399-137516 + GTACCAATTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGGTT-TGAGCCATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGACTGCGGCATATGCCACA--TT
droYak2 chrX:9589334-9589451 + GTACCAATTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGGTT-TGAGCCATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGACTGCGGCATATGCCACA--TT
droEre2 scaffold_4690:11631458-11631575 - GTACCAATTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGGTT-TGAGCCATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGACTGCGGCATATGCCACA--TT
droAna3 scaffold_12929:2899093-2899202 - -----------ATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGATT-TGAGCCATTTGACGGACTCACTTTGCAACTGGAGATTGCTCGAGACTGCGGCATATGCCACAAAGT
dp4 chrXL_group1a:977383-977495 + ------ACTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGATT-TGAGGCATTTGACACACTCACTTTGCAACTGGAGATTGCTCGAAACTGCGGCACATGCCACA--TT
droPer1 Unknown ------ACTGTATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGATT-TGAGGCATTTGACACACTCACTTTGCAACTGGAGATTGCTCGAAACTGCGGCACATGCCACA--TT
droWil1 scaffold_180702:1593181-1593292 - -------TTGTATCTGTAACATTGATTAATCTCAATTTGTAAATGTGAGCGATTTAAATCCATTCGATGCACTCACTTTGCAATTGGAGATTGCTCGAGATTGCAGCATATGCCACA--TT
droVir3 scaffold_12970:2048738-2048856 + TTGTTAAACTTATCTGCAGCATTGATTAATCTCAATTTGTAAATGTGAGCGATTTTAAAGTATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGATTGCAGCTTATGCCACA--TA
droMoj3 scaffold_6359:3259146-3259264 + GTCCAACTCTTATCTGCAGCATTGATTAATCTCAATTTGTAAATGTGAGCGATTTTTAACTATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGACTGCAGCATATGCCACA--TT
droGri2 scaffold_14853:6952274-6952391 - TTGTTAACT-TATCTGCAGCATTGAATAATCTCAATTTGTAAATGTGAGCGATTATTAAGAATTTGACGCACTCACTTTGCAATTGGAGATTGCTCGAGATTGCAGCATATGCCACA--TT

dme-mir-306 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16698389-16698503 + GTGAATAG-TTTAAA------AG--------------TCCACTC-G-----ATGGCTCAGGTACTTAGTGACTCTCAAT--------GCTTTTGA--CATTTTGGGGGTCACTCTGTGCCTGTGCTG-----CCAGTGGGACATA-ATCTACA----AATA-------------A
droSim1 zdv96e12.b1:525-640 + GTGAATAG-TTTAAA------AG--------------TCCACTC-G-----ATGGCTCAGGTACTTAGTGACTCTCAAT--------GCCTTTGA--CATTTTGGGGGTCACTCTGTGCCTGTGCTG-----CCAGTGGGACATA-ATCTACA----AATA-------------A
droSec1 super_7:345406-345520 + GTGAACAG-TTTAAA------AT--------------TCCACTC-G-----ATGGCTCAGGTACTTAGTGACTCTCAAT--------GCCTTTGA--CATTTTGGGGGTCACTCTGTGCCTGTGCTG-----CCAGTGGGACATA-ATCTACA----AATA-------------A
droYak2 chr2R:4404548-4404662 - GTGAAAAG-TTTTAA------AG--------------TCCACTC-G-----GTGGCTCAGGTACTTAGTGACTCTCAAT--------GCTTTTGA--CATTTTGGGGGTCACTCTGTGCCTGTGCTG-----CCAGTAGGACATA-ATCCACA----AATA-------------A
droEre2 scaffold_4845:19768040-19768155 + GTGAATAG-TTTAAG------TG--------------TCCACTC-G-----GTGGCTCAGGTACTTAGTGACTCTCAAT--------GCTTTTGA--CATTTTGGGGGTCACTCTGTGCCTGTGCTG-----CCAGTGGGACGCA-ATCAACA---AAATA-------------A
droAna3 scaffold_12916:15864848-15864962 - GTGAAAGT-GCCAGA------AG--------------TCCACTT-G-----GTAGCTCAGGTACTTAGTGACTCTCAAT--------GCATTTGA--CATTTTGGGAGCCACTTTGTGCCTGGGCCA-----TCAGTGCGACTAT-ATCTTCT----ATTA-------------A
dp4 chr4_group3:8443802-8443917 + GTGATTTA-TCTACA------AG--------------CACACTTTG-----CCGGCTCAGGTACTTAGTGACTCTCAAT--------GCTTTCGA--CATCTTGAGAGTCTCTCTGTGCCTGCACTG-----GCGGTGGTGCAAC-TGCAACG----ATTA-------------A
droPer1 super_1:9894921-9895036 + GTGATTTA-TCTACA------AG--------------CACACTTTG-----CCGGCTCAGGTACTTAGTGACTCTCAAT--------GCTTTCGA--CATCTTGAGAGTCTCTCTGTGCCTGCACTG-----GCGGTGGTGCAAC-TGCAACG----ATTA-------------A
droWil1 scaffold_181132:873705-873839 - GTGACTATACAAAGTGATACGAG--------------TTATCTCTGCCTAAACAGCTCAGGTACTTAGTGACTCTCAAA--------GAATATATATAGACTTGAGAGACGCTCTGTACCTAGACTGTTGTGTCTGCGGAATGTC-AACATCA----TGTG-------------T
droVir3 scaffold_12963:12863192-12863320 - GTGCTG--------A------ACTC-CTCCCGCCCTGCACACCC-C-----GCTGCTCAGGTACTTAGTGACTCTCAATCATCTATTGCTTTGCA--TACCTTGAGGGTCGCTCTGTGCCTGTGCCG-----CCTGTGCTGCACA-ACCAACG----ACGA-------------G
droMoj3 scaffold_6500:7201931-7202062 + ATTCATGA-TGTCC-------AG--------------CACACGC-T-----GCAGCTCAGGTACTTAGTGACTCTCAATCACATATTGCTTTGCA--TACTTTGAGGGTCGCTCTGTGCCTGTGCCG-----CCCGTGTTGCACACAGCCACA----CA---ATTGTGA-ATTCG
droGri2 scaffold_14978:830883-831041 + GTGTTAAA-TGTGGAAAAACCAATCCAATCCG--CTGCACACGT-T-----GCTGCTCAGGTACTTAGTGACTCTCAATTCAACATTGTATTGCA-CGCCTTTGAGGGTCGCTCTGTGCCTGTGTTG-----CACGTGTTGCATT-CACACCATCCGAGTGATTTGTGTCCTTTG

dme-mir-308 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:10103292-10103384 - AACACG--TCTCGACGCCTCGCAGTATATTTTTGTGTTTTGTTTCGTTTTGCAATCCAAATCACAGGATTATACTGTGAGATGACCAGCGTG---CCA
droSim1 chr2R:8866656-8866748 - CACACG--TCTCGACGCCTCGCAGTATATTTTTGTGTTTTGTTTCGTTTTGCAACTCAAATCACAGGATTATACTGTGAGATGACCAGCGTG---CCA
droSec1 super_1:7611688-7611779 - CA--CG--TCTCGACGCCTCGCAGTATATTTTTGTGTTTTGTTTCGTTTTGCAACTCAAATCACAGGATTATACTGTGAGATGACCAGCGTG---CCA
droYak2 chr2R:10041132-10041224 - CACACG--TCTCGACGCCTCGCAGTATATTTTTGTGTTTTGTTTCCTTTTGCAACTCAAATCACAGGATTATACTGTGAGATGACCAGCGTG---CCA
droEre2 scaffold_4845:15739235-15739330 + CACACG--TCTCGACGCCTCGCAGTATATTTTTGTGTTTTGTTTCGTTTTGCAAATCAAATCACAGGATTATACTGTGAGATGACCAGCGTGCCGCCA
droAna3 scaffold_13266:5819955-5820045 + CA--TG--TCTCGTCGCCTCGCAGTATATTTTTGTGTTTTGTTTGG-TTTGAAACTCAAATCACAGGATTATACTGTGAGATGCCAAGCGTG---TCA
dp4 chr3:16336992-16337078 - --------TCTTGACGCCTCGCAGTATATTTTTGTGTTTTGTTGTG-TCTGAAACGCAAATCACAGGATTATACTGTGAGATGCTGGGCGTG---CTA
droPer1 super_4:426256-426345 + G---CG--TCTTGACGCCTCGCAGTATATTTTTGTGTTTTGTTGTG-TCTGAAACGCAAATCACAGGATTATACTGTGAGATGCTGGGCGTG---CTA
droWil1 scaffold_180700:1860929-1861010 + AGACTA--TTCTTGCGTCTCGCAGTATATTTTTGTGTTTTGTTCAATTTGTCAACTCAAATCACAGGATTATACTGTGAGCTGC--------------
droVir3 scaffold_12875:17605293-17605383 + AACGCA--T-TCGATGTCTCGCAGTATACTTTTGTGTTTTGTTTAT-TTTGAAAATCAAATCACAGGATTATACTGTGAGTTATCGGCTGTA---GCA
droMoj3 scaffold_6496:11229058-11229148 + AACACA--T-TCGATGTCTCGCAGTATATTTTTGTGTTTTGTTTAT-TATAAAAATCAAATCACAGGATTATACTGTGAGTTATCGGCTGAA---ACA
droGri2 scaffold_15245:14076242-14076330 - CCCACCACTGTCGATGTCTCGCAGTATATTTTTGTGTTTTGTTTATTTTTGAAAATCAAATCACAGGATTATACTGTGAGTTATC------G---CCA

dme-mir-314 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:11766097-11766216 + TGGCCCGCACTCTTATCGTAACTTGTGTGGCTTCGAACTTACCTAGTTGAGGAAA-----ACTCCC-ATG-TCGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
droSim1 chr3L:11131600-11131719 + TGGCCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----AGTCCC-GTG-TCGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
droSec1 super_0:3951120-3951239 + TGGCCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----AGTCCC-GTG-TCGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
droYak2 chr3L:11794902-11795021 + TGGCCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----AACCCC-ATG-TCGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
droEre2 scaffold_4784:11743709-11743828 + TGGCCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAG-----AATCCC-ATG-TCGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
droAna3 scaffold_13337:6019503-6019620 + TGGCCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----AATC-A--GT-TTGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
dp4 chrXR_group8:4342117-4342235 - TGGTCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----ACTC-CGA-A-ATGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAAATCGCATT
droPer1 super_29:576219-576337 - TGGTCCGCACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----ACTC-CGA-A-ATGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAAATCGCATT
droWil1 scaffold_180949:2570151-2570270 - TAGTTCGTACTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTAGTTGAGGAAA-----AATTCA-ATG-TTGGATTTTGTTACCTCTGGTATTCGAGCCAATAAGTTCGGCCACGAATTCGCATT
droVir3 scaffold_13049:23988146-23988266 + TGGTTCGTGCTCTTATCGTAACTTGTGTGGCTT-GAATGTACCTGGTTGAGGAAC----GAATTCA-ACGTTTGGATTTTGTTGCCTTTGGTATTCGAGCCAATAAGTTCGGCCACCGGTTCACATT
droMoj3 scaffold_6680:18619757-18619881 + TAGGTCGGGCTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTCGTCGAGCGAAAAGCGAATTCA-TTG-TTGGATTTTGTTGCTCTTGGTATTCGAGCCAATAAGTTCGGCAACCAGTTCGCATT
droGri2 scaffold_15110:9705224-9705329 - TATTTCCAGCTCTTATCGTAACTTGTGTGGCTTCGAATGTACCTGGCTAAGGAAA--------------G-TTGGATTTCC------TAGGTATTCGAGCCAATAAGTTCGGCAGCGGGTTCGCATT

dme-mir-315 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:18854056-18854169 + GAGTTCCTTC------------ACGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCTCATTG-TTTACC---AGTTGGCTTTCGAGCAATAATTGAAACCAGATAAGTGATCCCCTCAACGCTG-----
droSim1 chr3L:18159364-18159477 + GAGTTCCTTC------------ACGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCTTATTG-TTTACC---AGTTGGCTTTCGAGCAATAATTGAAACCAGATAAGTGATCCTCTCATCGCTG-----
droSec1 super_19:820227-820338 + GAGTTCCTTC------------ACGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCTTATTG---TACC---AGTTGGCTTTCGAGCAATAATTGAAACCAGATAAGTGATCCCCTCATCGCTG-----
droYak2 chr3L:21787014-21787126 - GAGTTCCG-C------------ACGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCTTACTA-TTTAAC---AGCTGGCTTTCGAGCAATAATTGAAACCAGATAAGTGATCCTTACAACATTG-----
droEre2 scaffold_4784:18670595-18670707 + GAGTTCCTAC------------ACGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCT-ATTA-TCTAAC---AGCTGGCTTTCGAGCAATAATTGAAACCAGATAAGTGATCCTTACAACGCTG-----
droAna3 scaffold_13337:18585473-18585582 - GAGCTCCTAA------------ATGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCTTATAA-ATTATT---AGCTGGCTTTCGAGCAATAATTGAAACCAAATAAGTGATCCTGACAAC---------
dp4 chrXR_group6:4103840-4103943 - G---------------------CCGGACACTTATCTATTTTTGATTGTTGCTCAGAAAGCCCTTATAA-TTAACC---AGTTGGCTTTCGAGCAATTATCAAAGCCAAATAAGTGATCCCAACAACATT------
droPer1 super_9:2393048-2393151 - A---------------------CCGGACACTTATCTATTTTTGATTGTTGCTCAGAAAGCCCTTATAA-TTAACC---AGTTGGCTTTCGAGCAATTATCAAAGCCAAATAAGTGATCCCAACAACATT------
droWil1 scaffold_180955:104826-104946 + GGTTTGCTTATTTGCCCA---TCTGGACACTTATATAATTTTGATTGTTGCTCAGAAAGCCCTCATTACTTTATC---AGTTGGCTTTCGAGCAATAATTGAAACCAAATAAGTGAGCCTGTCAACA--------
droVir3 scaffold_13049:18083575-18083698 - CATTTCCTTCCTACCTCACAAAACGGACGCCTATATCATTTTGATTGTTGCTCAGAAAGCCCTG--CA-TTCAAT---ACTTGGCTTTCGAGTAATAATCGAAACCAAATAAGCGATCCTAACTACGTTT-----
droMoj3 scaffold_6680:23648550-23648660 - ----------------------ACGGACCCTTATATAATTTTGATTGTTGCTCAGAAAGCCCGTAA---TTTAACTTAACATGGCTTTCGAGTAATAATCGAAACCAAATAAGGCATCCAAACATCATTTTGTCA
droGri2 scaffold_15110:24135484-24135597 - CAGCCAACTACT----------ATGGACGCTCATATAATTTTGATTGTTGCTCAGAAAGCCTTT--CA-CTTGAC---ACTTGGCTTTCGAGTAATAATCGAAACCAAATAAGCGATCCTAACTACAATT-----

dme-mir-317 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:5916833-5916954 + AA----GC------GAATTTTCCA-------------TATGCAACTGCCATTGGGATAC-ACCCTGTGCTCGCTTTGAATGAAATGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TGG-CATCCT-TGCTGCACCA-------------CA-
droSim1 chr3R:15459127-15459249 - AA----GC------GAATTTTCCA-------------TATGCAACTGCCATTGGGATAC-ACCCTGTGCTCGCTTTGAATGAAATGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TGG-CATCCTTTGCTGCTCCA-------------CA-
droSec1 super_0:15996573-15996694 - AA----GC------GAATTTTCCA-------------TATGCAACTGCCATTGGGATAC-ACCCTGTGCTCGCTTTGAATGAAATGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TGG-CATCCT-TGCTGCTCCA-------------CA-
droYak2 chr3R:9963959-9964079 + AA----GC------GAATTTTCCA-------------TATGCAACTGCCATTGGGATAC-ACCCTGTGCTCGCTTTGAATGAAATGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TGG-CGTCCT-TGCTGCTCCAG---------------
droEre2 scaffold_4770:15683457-15683577 - AA----GC------GAATTTTCCA-------------TATGCAACTGCCATTGGGATAC-ACCCTGTGCTCGCTTTGAATGAAATGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TGG-CGTCCT-TGCTGCTCCAG---------------
droAna3 scaffold_13340:6479980-6480089 + AA----GC------TCATTT---G-------------TGTGCATCGGCTGCTGGGATAC-ACCCTGTGCTCGCTTTGAATGAAATGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TTG-CATCCT-TTC-----------------------
dp4 chr2:5029980-5030116 - AA----GC---------TCTTCCGTGTCTCGTGTCTCTGTGCAACTGCCGTTGGGATAC-ACCCTGTGCTCGCTTTGAATATGGTGCAAGCAAGTGAACACAGCTGGTGGTATCCAATGGCCGTT--CTG-CAACAA-TGCAACATCAGC---------AACAA
droPer1 super_19:735499-735629 - AA----GC---------TCTTCCGTGTCTCGTGTCTCTGTGCAACTGCCGTTGGGATAC-ACCCTGTGCTCGCTTTGAATATGGTGCAAGCAAGTGAACACAGCTGGTGGTATCCAATGGCCGTT--CTG-CAACAA-TGCAACATCAG---------------
droWil1 scaffold_181089:11180051-11180176 - AA----GCTTTCTAGATTCTTC---------------TGTGCAACTGCCACTGGGATAC-ACCCTGTGCTCGCTTTGAATATTGTGCAAACAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTTTTTTG-CATCCA-TGCAACACCA----------------
droVir3 scaffold_12855:2698510-2698638 - AA----GC---------TTTTTC--------------AGTGCAATTGCCGCTGGGATAC-ACCCTGTGCTCGCTTTGAATT--GTGCAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT---GGCAGCCAA-TGCAACAATTGCAACAACTGCAACA-
droMoj3 scaffold_6540:11898843-11898966 - GAGTAAGC----------TTTCT-----------CTCTGTGCAATTGCCGCTGGGATAC-ACCCTGTGCTCGCTTTGAGTT-TATGT-TGCAAGTGAACACAGCTGGTGGTATCCAGAGGCCGTT---GACAGCCAA-TGCAACAACAGC---------A--A-
droGri2 scaffold_14624:2253109-2253242 + AAA-AAGC---------TTTTCGC-------------TGTGCAATTGCCACTGGGATATTGCCCTGTGCTCGCTTTGAATATTGTGTAAGCAAGTGAACACAGCTGGTGGTATCCAGTGGCCGTT--TGG-CGCACA-TGCAACAACAACAACAAGAGCA--A-

dme-mir-318 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:6234009-6234106 + G-------TCCTT--CGGTTTCAGTTTATGGGATACACACAGTTCAGTTTTGTCACAC-T--TCAAGCATCACTGGGCTTTGTTTATCTCATGAGAGCGAAATTTATTCA
droSim1 chr3R:15159142-15159239 - G-------TCCTT--CGGTTTCAGTTTATGGGATACACACAGTTCAGTTTTGTCACAC-T--TCAAGCATCACTGGGCTTTGTTTATCTCATGAGAGCGAAATTTATTCA
droSec1 super_0:15709308-15709405 - G-------TCCTT--CGGTTTCAGTTTATGGGATACACACAGTTCAGTTTTGTCACAC-T--TCAAGCATCACTGGGCTTTGTTTATCTCATGAGAGCGAAATTTATTCA
droYak2 chr3R:10262524-10262621 + G-------TCCTC--CGGTTTCAGTTTATGGGATACACACAGTTCAGTTTTGTCGCAC-T--ACAAGCATCACTGGGCTTTGTTTATCTCATGAGAGCGAAATTTGTTCA
droEre2 scaffold_4770:15383893-15383990 - G-------TCCTC--CGGTTTCAGTTTATGGGATACACACAGTTCAGTTTTGTCACAC-T--TCAAGCATCACTGGGCTTTGTTTATCTCATGAGAGCGAAATTTGTTCA
droAna3 scaffold_13340:867198-867296 - G-------TCCTC--CGGTTTCAATTTGTGGGATACACACGGTTCAGTTGTGTCACTTTT--GCGAGCATCACTGGGCTTTGTTTATCTCATAAGACTGAAATTTGTTCA
dp4 chr2:7233334-7233438 - CGTGTGCCTCTTT--TGGTTTCAATTTATGGGATGCACCAAGTTCAGTTTTGTCACAT-T--TCGAGCATCACTGGGCTTTGTTTATCTCATAAGAGCGAAATTGATTCA
droPer1 super_0:1094016-1094113 - C-------TCTTT--TGGTTTCAATTTATGGGATGCACCAAGTTCAGTTTTGTCACAT-T--TCGAGCATCACTGGGCTTTGTTTATCTCATAAGAGCGAAATTGATTCA
droWil1 scaffold_181108:652-751 + G-------TCAGA--CGGTTTCAATTTATGGGATACACCAAGTTCAGTTTTGTCGCAT-TCCACGAGCATCACTGGGCTTTGTTTATCTCATAAAGGAGAAATGAATACA
droVir3 scaffold_13047:1194317-1194415 + T-------GATTT--GGATTTCAATTTATGGGATACACCAAGTTCAGTTTTGTCAGATGT--CCAAGCATCACTGGGCTTTGTTTATCTCATAAGAGTGAAATTTGTTCA
droMoj3 scaffold_6540:5225327-5225427 + G-------TGATTAAGGATTTCAATTTATGGGATACACTAAGTTCAGTTTTGTCAGATGT--CCAAGCATCACTGGGCTTTGTTTATCTCATAAGAGCGAAATTTGTTCA
droGri2 scaffold_14906:5077291-5077389 - G-------ATTTC--GGATTTCAATTTATGGGATACACCAAGTTCAGTTTTGTCAGATGT--CCAAGCATCACTGGGCTTTGTTTATCTCATAAGAGCGAAATTAGTTCA

dme-mir-33 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:19791046-19791174 + CTG-----AGTGCCACCAGACTCT--------TCCT-CTGGAGATGACACGAAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CCAATT---GC-TTCAGGCAATACAACTTCAGTGCAAGCTCTGTGCATTTCACATA-CAAC------------GCCG---AATG------
droSim1 chr3L:19083102-19083230 + CTG-----AGTGCCACCAGACTCC--------TCCT-CCGGAGATGACACGAAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CCAATT---GC-TTCAGGCAATACAACTTCAGTGCAAGCTCTGTGCATTTCACACA-CAAC------------GCCG---AATG------
droSec1 super_29:452742-452870 + CTG-----AGTGCCACCAGACTCT--------TCCT-CCGGAGATGACACGAAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CCAATT---GC-TTCAGGCAATACAACTTCAGTGCAAGCTCTGTGCATTTCACACA-CAAC------------GCCG---AATG------
droYak2 chr3L:20771315-20771443 - CTG-----AGTGCCACCAGACTCT--------TACT-CCAGAGATGTCACGAAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CCAATT---GC-TTCAGGCAATACAACTTCAGTGCAAGCTCTGTGCATTTCACAAA-CAAC------------GCCG---AGTG------
droEre2 scaffold_4784:19550563-19550691 + CTG-----AGTGCCACCAGACTCT--------CACT-CCAGAGATGACACGAAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CCAATT---GC-TTCAGGCAATACAACTTCAGTGCAAGCTCTGTGCATTTCACAAA-CAAC------------GCCG---AGTG------
droAna3 scaffold_13337:19456783-19456919 - CCG-----AATACCAGCAGACACTATACACCCGCCC-TCGGAGATGTCACGCAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CCACTT---GC-TCCAGGCAATACAACTGCAGTGCAAGCTCTGTGCATTTCACAAA-CAAC------------GCCA---ACTT------
dp4 chrXR_group6:5913809-5913939 + AAA-----AACCAAACCAAACACT-----------C-CCGGAGATGACACGCAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CATCTT---GATTTCAGGCAATACAACTGCAATGCAAGCTCTGTGCATTTCATAAATCAAC------------GCCGTCCAATG------
droPer1 super_47:413986-414116 + AAA-----AACCAAACCAAACACT-----------C-CCGGAGATGACACGCAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CATCTT---GATTTCAGGCAATACAACTGCAGTGCAAGCTCTGTGCATTTCATAAATCAAC------------GCCGTCCAATG------
droWil1 scaffold_180698:8572488-8572628 + CGG-----AACCTAAACAAAT------------------TGAAGTTACACGAAGGTGCATTGTAGTCGCATTGTCTGTGCTCCAAAAAAAAAAAACCCCCAGTT-T-CTATTCAGGCAATACAACTGCAGTGCAAGCTTCGTGTGACTTATAAG-CAAC------------GGCA---AATA------
droVir3 scaffold_13049:22941104-22941227 - CCA-----AAATC----CGACA-----------TCT-CTGGAGCTGTTACGGAGGTGCATTGTAGTCGCATTGTCTGTC-------------------TCAAAT-TTGC-CCGCGGCAATACAACTGCAGTGCAAGCTCCGTGCAGTTCACACG-CAAC------------GTCG---GAAG------
droMoj3 scaffold_6680:17552824-17552948 - CAG-----CATTCCGACA---------------TCT-TTGGAGCTGTGACGGAGGTGCATTGTAGTCGCATTGTCTGTA-------------------TCCTTTATTCT-CTGCGGCAATACAACTGCAGTGCAAGCTCCGTGCAGTTCACTCG-CAAC------------GTCG---GACA------
droGri2 scaffold_15110:18214439-18214590 - CTCTGCACAGTTAGGGCAGACA-----------TCTCCAGGAGCTGTCACGAAGGTGCATTGTAGTCGCATTGTCTGTC-------------------CAAAAA-TTGC-ATGCGGCAATACAACTGCAGTGCAAGCTCCGTGCAGTTCACTAG-CAACAACTCTTTGATCGCTG---ATCGATCTGA

dme-mir-375 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:857527-857647 + CATCCGAAACCC-------------------------------CTTCCGGGCAGCGAATTACTTGGGCCAAGGGAATGCAAACTGTG---AT-----------C---ATCCCGAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCG-ACTAAAGCGCCACGTGG--T
droSim1 chr2L_random:38968-39087 + CATCCGAATCC--------------------------------CTCCCGGGCAGCGAATTACTTGGGCCAAGGGAATGCAAACTGTG---AT-----------C---ATCCCGAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCG-ACTAAAGCGCCACGTGG--T
droSec1 super_14:828161-828280 + CATCCGAATCC--------------------------------CTCCCGGGCAGCGAATTACTTGGGCCAAGGGAATGCAAACTGTG---AT-----------C---ATCCCGAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCG-ACTAAAGCGCCACGTGG--T
droYak2 chr2L:841557-841670 + CATCCGAGTC------------------------------------CCGGGCAGCGAATTACTTGGGCCAAGGGAATGCAAACTGTG---AT----------------GCCTAGTAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCG-ACTAAAGCGCCACGTGG--T
droEre2 scaffold_4929:914698-914811 + CACCACC------------------------------------ATCCCGGGCAGCGAATTACTTGGGCCAAGGGAATGCAAACTGTG---AT----------------GCCTAGTAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCG-ACTAAAGCGCCACGTCG--A
droAna3 scaffold_12916:2746986-2747121 + CCACGGAAA------------------AGACACCCCACGGAAA-CGAGGGGCAGCGAATTACTTGGGCCAAGGGAATTCAAACTGTG---AT-----------CGCAATGCTAGAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCG-TTGCAAACGCCACGTGG--T
dp4 chr4_group3:5649077-5649230 + CATCCAAGGCCTGTGCCTGTGTCTGAGAGCCCACCCACCCGAA---TAGGGCAGCGAATTACTTGGGCCAGGGGAATTCAAACTGTG---AT-----------CGCAATGCAAAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGCCTC-AAGTAAACGCCACGTGGGTT
droPer1 super_1:7140235-7140385 + CATCCAAGGCCTGTGCCTGTGCTTGAGAGCCCACCCACCCGAA---TAAGGCAGCGAATTACTTGGGCCAGGGGAATGCAAACTGTG---AT-----------CGCAATGCAAAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGCCTC-AAGTAAACGCCACGTGG---
droWil1 scaffold_180772:2278802-2278947 - AATTTAAAACCGTTTTCCATTTC-------------ATTT---TTTGGGGGCAGCGAATTACTTGGGCCAAGGGAATTCAAACTGTG---AAT-----TATTTCAAAATGCAAAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGTCCGTACAATTGCGACACGTGG--T
droVir3 scaffold_12963:19405390-19405507 + CATTCAAAGT------------------------------------TCGGGCAGCAAATTACTTGGGCCAAGGGAATGCAAACTGTC---AA-----------CGCATTGCAATAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGCCCA-AC-ATAACGCCACGTGG--T
droMoj3 scaffold_6500:23808221-23808350 - TGTTCAGTGTATGCTC---------------------------CTGCAGGGCTGCGAATTACTTGGGCCAAGGGAATGCAAACTGTTCGAAA-----------AGCATTGCAAAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGCCCG-A-TAAAACGCCACGTGG--T
droGri2 scaffold_15252:7270330-7270448 + C-----------------------------------------------GGGCAGCGAATTACTTGGGCCAAGTGGATGTAAACTGTG---AAAGCGCATTTTGCATATAACAAAAAGTTTGTTCGTTTGGCTTAAGTTATTTTCATGCCCG-A-TATAACGCCACGTGG--G

dme-mir-6-1 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15548493-15548604 - AACTTAA-----------------------TCACAGCCTTTAATGTAGAGGGAATAGTTGCTGTGCTGTAAGTTAATATACC---ATATCTATATCACAGTGGCTGTTCTTTTTGTACCTAAAGTGC--CTAACATC----------------ATT
droSim1 chr2R:14253929-14254041 - AACTTAA-----------------------TCACAGCCTTTAAAGTAGAGGGAATAGTTGCTGTGCTGTAAGTTAATATACC---ATATCTATATCACAGTGGCTGTTCTTTTTGTACCTAAAG-GCATTTTACATC----------------ATT
droSec1 super_1:13063224-13063336 - AACTTAA-----------------------TCACAGCCTTTAAAGTAGAGGGAATAGTTGCTGTGCTGTAAGTTAATATACC---ATATCTATATCACAGTGGCTGTTCTTTTTGTACCTAAAG-GCATTTTACATC----------------ATT
droYak2 chr2R:13624186-13624297 + AGTTTAA-----------------------TCACAGCCTTTAACGTAGAGGGAATAGTTGCTGTGCTGTAAGTTAATAACAA---ATATCTATATCACAGTGGCTGTTCTTTTTGTACCTAAAGTGC--CTAACATC----------------ATT
droEre2 scaffold_4845:9748744-9748855 - AGCTAAA-----------------------TCGCAGCCTTTAAAGTAGAGGGAATAGTTGCCGTGCTGTAAGTTAATATATC---ATATCTATATCACAGTGGCTGTTCTTTTTGTACCTAAAGTGC--CTAACATC----------------ATC
droAna3 scaffold_13266:9731810-9731917 + ---------------------------------CCGCCTTTAAAGTAGAGAGAATAGTGGCTGTGCTGTAAGTTT------C--AAAATCTATATCACAGTGGCTGTTCTTTTTGCACCTAAAGTGC--CAAACAGCCAAACCCGAG------AAT
dp4 chr3:12677072-12677187 - AC-----------------------------ACCAGCCTTTGAAGTAGAGAGAATAGTTGCTGTGCTATATGTCC----TTCG-ACTCTATATATCACAGTGGCTGTTCTTTTTGTACCTAAAGTGC--CAAACAGCCAAG-----GAATCGCGTT
droPer1 super_2:8906485-8906600 + AC-----------------------------ACCAGCCTTTGAAGTAGAGAGAATAGTTGCTGTGCTATATGTCC----TTCG-ACTCTATATATCACAGTGGCTGTTCTTTTTGTACCTAAAGTGC--CAAACAGCCAAG-----GAATCGCGTT
droWil1 scaffold_180701:1651298-1651414 - T---CAA-----------------------C--CAGCCTTTAAAGTAGAGAGAATAGTTGCTGTGTTTTATGCCC----TTTT-CAATTTCATATCACAGTGGCTGTTCTTTTTGTGCCTAAAGTGC--CCCACAACAACA-----ACAACAACAC
droVir3 scaffold_12875:4112589-4112722 + GACTTAAAACTATATCGCCCAGTTATCTGTTTATAGCCTTTAAAGTAGAGAGAATAGACGCTGTGCTGTATGTTT----TGCGTATGGTCTATATCACAGTGGCTGTTCTTTTTGTACCTGAAGCGC--CGTACAAC----------------GTT
droMoj3 scaffold_6496:20936294-20936412 - TATTTATTTCTCTAGTGT-----------TTTTTCGCCTTTAAAGTAGAGAGAATAGATGCTGTG-----AGTATATCTGTT---GCATTTATATCACAGTGGCTGTTCTTTTTGTACCTAAATGGC--CAGACAGC----------------ATT
droGri2 scaffold_5621:3389-3488 + A----------------------------------GCCTTTAATGTAAAGAGAATAGATGCTGTGCTGTATGTTG----AACGTATTGTCTATATCACAGTGGCTGTTCTTTTTGTACCAAAAGTGC--CGTACAAC----------------AAA

dme-mir-6-2 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15548359-15548462 - TAACCA---------------------TGCCG--TTTTTAACCCAAGGGAACTTCTGCTGCTGATATATTAT-----------TGA-------------AAAA----CTACTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAT-TCCAA
droSim1 chr2R:14253794-14253897 - TAACCA---------------------TGCCG--TTTTTAACCCCAGGGAACTTCTGCTGCTGATATATTAT-----------TGA-------------AAAA----CTCCTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAT-TCCAA
droSec1 super_1:13063092-13063195 - TAACCA---------------------TGCCG--TTTTTAACCCCAGGGAACTTCTGCTGCTGATATATTAT-----------TGA-------------AAAA----CTCCTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAT-TCCAA
droYak2 chr2R:13624327-13624430 + TAACCA---------------------TACCG--TTTTTAACCGCAGGGAACCTCTGCTGCTGATATATTAT-----------TGA-------------GAAA----CTTCTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAT-TCCAA
droEre2 scaffold_4845:9748613-9748715 - AACCCA---------------------TACCG--TTTTTAACCCCAGGGAACCTCTGCTGCTGATATATTAT-----------TGA--------------AAA----CTCCTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAT-TCCAG
droAna3 scaffold_13266:9731948-9732061 + ATATTA---------------------TTCCG--GTGTTAGCCCCAGGGAACTGTTGCTGCTGATATATTATTCTCCCAAAAA-AA-------------AAAT----CACCTATATCACAGTGGCTGTTCTTTTTGGCTGCACCGACAAG-TTCAC
dp4 chr3:12676931-12677045 - TCCCCG---------------------TGCCGTGTCCCCAACCGCAGGGAACCGCTGCTGCTGATATATTATCCACCCATCTTTGA---------------CA----TTTCTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAG-TCCAA
droPer1 super_2:8906627-8906741 + TCCCCG---------------------TGCCGTGTCCCCAACCGCAGGGAACCGCTGCTGCTGATATATTATCCACCCATCTTTGA---------------CA----TTTCTATATCACAGTGGCTGTTCTTTTTGGTTGCACGGCCAAG-TCCAA
droWil1 scaffold_180701:1651131-1651259 - TTTTTA---------------------AAGTTTTTGTTTAACCGCAGGGAACTGTCGCTGCTGATATAT-----ATATATTATTGTTATATATAATTTAAAAATGATTTTCTATATCACAGTGGCTGTTCTTTTTGGTTTTACGATCATT-TTCAA
droVir3 scaffold_12875:4112748-4112878 + TAAATATTTGCTGACAAATTTCTTATGTGCTA--TGTTTAACCGCAGGGAACTGCTGCTGCTGATATACTGTATAGATTATATCGA----------------------TTCCATATCACAGTGGCTGTTCTTTTTGGTTGCATCGCAATC-CACAA
droMoj3 scaffold_6496:20936121-20936236 - TATCCA------GAGA-----------GATTG--CGTTTAACCGCAGGGAACTGCTGCTGCTGATATACTATA----TGTATTTGT---------------CA--GTACTCTATATCACAGTGGCTGTTCTTTTTGGTTGCATCGCAAATAGCCAA
droGri2 scaffold_15112:2108071-2108181 - TTCACC-------------------AATGCTA--TGTTTAACCACAGGGAACTGCTGCTGCTGATATAC-----AACCATAT-TTA-------------TACA----CGACTATATCACAGTGGCTGTTCTTTTTGGTTGCATCGCCATT-TGCAA

dme-mir-6-3 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15548206-15548315 - AAA-----TTGAAAATTGTACAAAAAGAAGGGAACGGTTGCTGATGATGTAGTTTGAAACTCT----CACAATTTATATCACAGTGGCTGTTCTTTTTTGTTTGGCAATCGATCTACGT
droSim1 chr2R:14253641-14253750 - AAA-----TTGAAAATTGTACAAAAAGAAGGGAACGGTTGCTGATGATGTAGTTCGAAACTCT----CACAATTTATATCACAGTGGCTGTTCTTTTTTGTTTGGCAATCGATCTACGT
droSec1 super_1:13062939-13063048 - AAA-----TTGAAAATTGTACAAAAAGAAGGGAACGGTTGCTGATGATGTAGTTCGAAACTCT----CACAATTTATATCACAGTGGCTGTTCTTTTTTGTTTGGCAATCGATCTACGT
droYak2 chr2R:13624474-13624583 + AAA-----TTGAAAATTGTTCAAAAAGAAGGGAACGGTTGCTGATGATGTAGTTCGAAACTCT----CTCAATTTATATCACAGTGGCTGTTCTTTTTTATTTGGCAATCGATCTACAT
droEre2 scaffold_4845:9748460-9748569 - AAA-----TTGAAAATTGTTCAAAAAGAAGGGAACGGTGGCTGATGATGTAGTTCGAAACTCT----CACAATTTATATCACAGTGGCTGTTCTTTTTTGTTTGCCAATCGATCTGCGT
droAna3 scaffold_13266:9732107-9732212 + AAA-----TTGAAAATTGTTCAAAAAGAAGGGAACGGTCGCTGCTGATGTAGTT----ATTCG----CATCATTTATATCACAGTGGCTGTTCTTTTTTGTTTGCCAATCGATCTACGT
dp4 chr3:12676789-12676898 - AAA-----TTGAAAATTGTTCAAAAAGAAGGGAACGGTTGCTGCTGATGTAGTTCAAGTTTTG----CACAATTTATATCACAGTGGCTGTTCTTTTTTGTTTGCCAATCGATCACCGA
droPer1 super_2:8906774-8906883 + AAA-----TTGAAAATTGTTCAAAAAGAAGGGAACGGTTGCTGCTGATGTAGTTCAAGTTTCG----CACAATTTATATCACAGTGGCTGTTCTTTTTTGTTTGCCAATCGATCAACGA
droWil1 scaffold_180701:1650985-1651090 - CAT-----TT----TTTGTTTAAAAAGAAGGGAACGGTTGCTGTTGATGTAGTATACCATTTTGTTTAACAA--TATATCACAGTGGCTGTTCTTTTTTGTTTAACAATCAATCAAC--
droVir3 scaffold_12875:4112942-4113050 + CGC-----TCGTCAATTGTTTAAAAGGAAGAGAACGTTCGCTGTTGATGTAGT-CGACCTTTG----TACTCTTTATATCACAGTGGCTGTTCTTTTTTGTTTAGCAATTTCTCAACTT
droMoj3 scaffold_6496:20935943-20936057 - AATCGTGGCCGTAAATTGCTTAAAGAGAAGAGAACGTTCGCTGTTGATGTAGTCGAATTCATT----TAATCTTTATATCACAGTGGCTGTTCTTTTTTGTTTAACAATTTTTCAACGT
droGri2 scaffold_15112:2107905-2108014 - A-C-----TCATAAATTGTTTAAAAGGAAGAGAACGCTCGCTGCTGATGTAGTTCATGATTCA----AATATTTTATATCACAGTGGCTGTTCTTTTTTGTTTATCAATGATTCAACTT

dme-mir-7 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16493557-16493674 + GATTGGTC-CTCC-TGGGAGTGCATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTGGTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATTTG-TGCTCTTCATTCT----------A
droSim1 chr2R:15154934-15155051 + GATTGGTC-CTCC-TGGGAGTGCATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTGGTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATTTG-TGCTCTTCATTCT----------A
droSec1 super_1:14047859-14047976 + GATTGGTC-CTCC-TGGGAGTGCATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTGGTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATTTG-TGCTCTTCATTCT----------A
droYak2 chr2R:12702727-12702844 - GACTGGTC-CTCC-TGGGAGTGCATTTCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTGGTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATTTG-TGCTCTTCATTCT----------A
droEre2 scaffold_4845:10640174-10640291 + GATTGGTC-CTCC-TGGGAGTGTATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTGGTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATTTG-TGCTCTTCATTCT----------A
droAna3 scaffold_13266:4109353-4109468 - TGGGAGTC-CT-G-TGGAAGTGCATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTTTATGGTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATTCG--GCTCATCACTCT----------A
dp4 chr3:8655644-8655762 - GATTGGCCTCTCC-TGGGAGTGTATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTCTGCTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATCTG-TGCTCTTCATTCT----------A
droPer1 super_4:2540080-2540198 - GATTGGCCTCTCC-TGGGAGTGTATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTCTGCTAA---TAACAATAAATCCCTTGTCTTCTTACGGCGTGCATCTG-TGCTCTTCATTCT----------A
droWil1 scaffold_180700:3423572-3423692 - AAATTGTGTGTGG-T-GGAATGCATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTAATAAAATTAACAATAAATCCCTTGTCTTCTTATGGCGTGTATTTAAAGCTCTTCATT-T----------G
droVir3 scaffold_12823:2295157-2295274 - G--TCGT-----C-TCCAAATGCTTTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTCTGCTAA---TAACAATAAATCCCTTGTCTTCTTATGGCGCGCAT-TC-TGCTCTTCATTTATAATA--A-TT
droMoj3 scaffold_6496:1650020-1650148 - TAACCGTTCGTCGTATCGAGTGCTTGCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTCTGCTAA---TAACAATAAATCCCTTGTCTTCTTATGGCTCGCAT-TG-AGCTCTTCATTTCAAATCTCGTTA
droGri2 scaffold_15245:15782213-15782323 + GTTT-------------AAATGCATTCCGTATGGAAGACTAGTGATTTTGTTGTTTGGTCTTTGTTAA---TAACAATAAATCCCTTGTCTCCTAACGGCGCGCAT-TG-TGCTCTTCATTAT----TTC-TTA

dme-mir-927 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:15859965-15860086 - GGCAATATTAAATTGTGGTTGCTGTAGAGTTTTAGAATTCCTACGCTTTACCGTGGCA-TACGAAATTCGGCAAAGCGTTTGGATTCTGAAACCCTACCGATCCATTATC-------------ATGTTAAAAAAAA
droSim1 chrX:12269402-12269519 - GGCCATATTAAATTGTGGATGCTGTAGAGTTTTAGAATTCCTACGCTTTACCGTGGCA-TACGAAATTCGGCAAAGCGTTTGGATTCTGAAACCCTATCGATCCATTATC-------------ATGTTATTA----
droSec1 super_37:439539-439656 - GGCAATATTAAATTGTGGATGCTGTAGAGTTTTAGAATTCCTACGCTTTACCGTCGCA-TACGAAATTCGGCAAAGCGTTTGGATTCTGAAACCCTATCGATCCATTATC-------------ATGTTATTA----
droYak2 chrX:10049094-10049217 - GGCAGTTAAAAATTGTGGGCGCTGTAGAGTTTTAGAATTCCTACGCTTTACCGTCGCA-TACGAAATTCGGCAAAGCGTTTGGATTCTGAAACCCTACCGATCCATTACCATTAC-------CATATTATTA----
droEre2 scaffold_4690:11188754-11188871 + GGCAATAATAAATTGTGGGTGCTGCAGAGTTTTAGAATTCCTACGCTTTACCGTGGCA-TACGAAATTCGGCAAAGCGTTTGGATTCTGAAACTCTACCGATCCATTATC-------------ATATTATTA----
droAna3 scaffold_13250:3108664-3108783 + TAA--------AAAAAGGGTATTGTGGAGTTTTAGAATTCCTACGCTTTACCGTTGCA-TATGAAATTAGGCAAAGCGTTTGGATTCTGGAACCCTATGTATTCATTTTTATAATGTGTTTTCA---TAAAT----
dp4 Unknown_group_79:17437-17552 + ATAGATAG-ATAACGAGGATATTGTAGTGTTTTAGAATTCCTACGCTTTACCGTTGCAAAACGAAATTCGGCAAAGCGTTTGGATTCTGAAACCCTATGAGTCTGCATTC-------------A--ACAAAA----
droPer1 super_192:48564-48679 + ATAGATAG-ATAACGAGGATATTGTAGTGTTTTAGAATTCCTACGCTTTACCGTTGCAAAACGAAATTCGGCAAAGCGTTTGGATTCTGAAACCCTATGAGTCTGCATTC-------------A--ACAAAA----
droWil1 scaffold_180777:2521614-2521709 - CACAATCTGACATTG--------GTAGCGTTTTAGAATTCCTACGCTTTACCGTCGCC-TACGAAACTCGGCAAAGCGTTTGGATTCTGAAACATTATCTCTGCA-------------------------------
droVir3 scaffold_12970:3343518-3343635 - AACTTTT---AATAATGTCCATCGTATCGTTTTAGAATTCCTACGCTTTACCGTCGTG-TCCGAAATTTGGCAAAGCGTTTGGATTCTGAAACGATATATGGTCGGTAAC-------------A--ACAAAAACAG
droMoj3 scaffold_6473:7790778-7790858 - ---------------TGGCCAGCGTATCGTTTTAGAATTCCTACGCTTTACCGTCGTA-TACGCAATTTGGCAAAGCGTTTGGATTCTGAAACAATA---------------------------------------
droGri2 scaffold_15203:10526906-10527015 + GATAGTAGTTTACCGTGACTATTGTATTGTTTTAGAATTCCTACGCTTTACCGTCGTA-TACGAAATTTGGCAAAGCGTTTGGATTCTGAAACGGTATGTGGTCAGAAAC-------------A------------

dme-mir-92a intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:21472213-21472337 + TTTCAGCCGAA--------TATAAAT----------------------------------------------ATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAAT-AAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAAT-----AAACA------------ACTAAAATCTA-------------T----AAA
droSim1 chr3R:21300457-21300581 + TTTCAGCCGAA--------TAAAAAT----------------------------------------------ATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAAT-AAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAAT-----AAACA------------ACTAAAATCAA-------------T----AAA
droSec1 super_13:258996-259120 + TTTCAGCCGAA--------TAAAAAT----------------------------------------------ATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAAT-AAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAAT-----AAACA------------ACTAAAATCAA-------------T----CAA
droYak2 chr3R:25001360-25001484 - TTTCGTTCGAA--------TATGAAT----------------------------------------------ATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTTGAAT-AAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAAT-----AAACA------------ACTAAAATGCA-------------T----TTT
droEre2 scaffold_4820:6569995-6570123 - TTTCGGCCGAA--------TATGAAT----------------------------------------------ATGAATTTCCCGTAGGACGGGAAGGTGTCAACGTTTTGCATTTCGAAT-AAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTAAT-----AAACA------------ACTGAAATGAA-------------TTTTATAT
droAna3 scaffold_13340:3727762-3727906 + TTTCCATCGAA--------TAT-AAT----------------------------------------------ACAAATTTCCCGTAGGACGGGAAGGTGTCAAGGTTTTGAATT-AAATT-AAACATTGCACTTGTCCCGGCCTATGGGCGGTTTGTCAA-----ACACATCGATACATATTTTTAG---AAATATTTAAAATTTGG----ATA
dp4 chr2:23635253-23635419 - CTTTA--------------------TATGCATATCCTGTAGGACAAGACTACAGTACTACTCGGAATACCATAGAGATTGCCCGTAGGACGGGAAGGTGTCAACGTTTTAAATTTTGAAC-AAACATTGCACTTGTCCCGGCCTATGGGCGGCTTGTCAT-----ACACATCGAT-CGTACAACTAG---CAA-------------C----AAA
droPer1 super_3:6410293-6410459 - CTTTA--------------------TATGCATATCCTGTAGGACAAGACTACAGTACTACTCGGAATACCATAGAGATTGCCCGTAGGACGGGAAGGTGTCAACGTTTTACATTTTGAAC-AAACATTGCACTTGTCCCGGCCTATGGGCGGCTTGTCAT-----ACACATCGAT-CGTACAACTAG---CAA-------------C----AAA
droWil1 scaffold_181130:14578411-14578543 - CTGTAGCCGGGTGAAACATT----ATCTGCAT----------------------------------------TCAAATTTCTCGTAGGACGGGAAGGTGTCAACGTTTTGCCTTATGAATCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTGTAAAAC----GACATC-----------CTAT---CA-------------------AAA
droVir3 scaffold_12855:6880771-6880902 + CGACAATATGG--------CTTTATC----------------------------------------------ACAAACTGCTTGCAGGACGGGAAGGTGTCAACGTTTTGCTTTATGAATCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTGTGCCACAACAAACG------------ATTGAAAATAT------------GA----AAA
droMoj3 scaffold_6540:25734544-25734668 - CTGCAAT--AC--------CCAAATC----------------------------------------------ATAAATTGCTTGCAGGACGGGAAGGTGTCAACGTTTTACCTTTTGATTCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTATCTTAC----AACA------------ATCAGGTCCAA-------------T----AGA
droGri2 scaffold_14906:3023231-3023367 + TTTTT---TAA--------TATATAT------ATTCT-TAA-AC-------------------GTGTACC--ATAAATTGCTTGCAGGACGGGAAGGTGTCAACGTTTTGCATTTTGAATCAAACATTGCACTTGTCCCGGCCTATGAGCGGTTTGTGCAT----CTACA------------ACTGGT----T-------------T----AAA

dme-mir-92b intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:21477105-21477234 + AGTGCAGT------GGTACATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTTGCATTTTCGAAATACAAATTGCACTAGTCCCGGCCTGCAATGAGTGTCGCAGTCGACGATCTACACAGTGCA
droSim1 chr3R:21305387-21305516 + AGTGCAGT------GGTACATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTTGCCTTTTCGAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAGTCGACGATCTACACAGTGCA
droSec1 super_13:263913-264042 + AGTGCAGT------GGTACATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTTGCCTTTTCGAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAGTCGACGATCTACACAGTGCA
droYak2 chr3R:24996445-24996574 - AGTGCAGT------GGTACATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTTGCCTTTTCGAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAGTCAGCGATCTGCACAGTGCG
droEre2 scaffold_4820:6565044-6565173 - AGTGCAGT------GGTACATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTTGCCTTTTCGAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAGTCAGCGATCTACACAGTGCA
droAna3 scaffold_13340:3732627-3732749 + AGTGCAGT------GAAGCATTAAA---ACGTCACCTGATGTAGGCCGTGCCCGGTGCTTATTTGTTACT-TTTGGAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCAAAGGCAGCTATCTTCAC------
dp4 chr2:23630755-23630875 - -GTACAGT-----TGGAGCATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTCGTTGTTTGAAAATACAAATTGCACTAGTCCCGGCCTGCAGAGAGTGTCGCACACAACGAGCT----------
droPer1 super_3:6405653-6405778 - AGTGCAGTACAGTTGGAGCATTAAA---ACGTCACCTGATGTAGGCCGTGCCCAGTGCTTATTTGTCGTTGTTTGAAAATACAAATTGCACTAGTCCCGGCCTGCAGAGAGTGTCGCACACAACGAGCT----------
droWil1 scaffold_181130:14574160-14574279 - TGCGGAA----ATTGTATCTTTAAAAATACGTCACATGATGTAGACCGTGCCTGGTGCTTATTTGTTGCTATTTAAATATACAAATTGCACTAGTCCCGGCCTGCAGTAAGTGTCGCAAACAAC---------------
droVir3 scaffold_12855:6883792-6883910 + AGTGGTGT------GCAACATTAAA---ACGTCACCTGATGTAGGTCGTGCCTGGTGCTTATTTGTTGTTATGCGAAAATCCAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAGCCAACGTTC-----------
droMoj3 scaffold_6540:25731646-25731761 - AGTGCTGT------GCAACATTAAA---ACGTCACCTGATGTAGGTCGTGCCTGGTGCTTATTTGTTGTTATGCGAAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAAACAACG--------------
droGri2 scaffold_14906:3026528-3026659 + AGTGATGT---GGTGCAACATTAAA---ACGTCACCTGATGTAGGTCGTGCCTGGTGCTTATTTGTTGTTATGTGAAAATACAAATTGCACTAGTCCCGGCCTGCAGTGAGTGTCGCAAACAACAAACAACA-ACAGCA

dme-mir-932 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:6902047-6902167 + ATTT------CAAAAAGA----------GTATTGGTTTTGAAGTTTTCAATTCCGTAGTGCATTGCAGTGTGTT----TCATTATTTACTGCAAGCGCTGCGGATTTGGCAACTTTGACGACCTTCATCATCT---GCT--------------AGAGA
droSim1 chr2L:6697521-6697641 + ATTT------CAAAAAAG----------GTATTGGTTTTGAAGTTTTCAATTCCGTAGTGCATTGCAGTGTGTT----TAATTATTTACTGCAAGCGCTGCGGATTTGGCAACTTTGACGACCTTCATCATCT---GCT--------------AGAGA
droSec1 super_3:2435750-2435870 + ATTT------CAAAAAGG----------GTATTGGTTTTGAAGTTTTCAATTCCGTAGTGCATTGCAGTGTGTT----TAATTATTTACTGCAAGCGCTGCGGATTTGGCAACTTTGACGACCTTCATCATCT---GCT--------------AGAGA
droYak2 chr2L:6007719-6007838 - ATTT------CAAAAAT-----------ATATTGGCTTTGAAGTTTTCAATTCCGTAGTGCATTGCAGTGTGCT----TAATTATTTACTGCAAGCGCTGCGGATTTGGCAACTTTGACGACCTCCATCATCT---GCT--------------AGAGA
droEre2 scaffold_4929:15815527-15815649 + ATTT------CAAGAAG-----------GTATTGGTTTTGAAGTTTTCAATTCCGTAGTGCATTGCAGTGTCTT----TACTTATTTACTGCAAGCGCTGCGGATTTGGCAACTTTGACGACCTTAATCATCTGGAGCT--------------AGAGA
droAna3 scaffold_12916:8482562-8482668 + -------------------------------TTGGTTTCGAGACTTTCAATTCCGTAGTGCATTGCAGTGTTTT----TAAACTACAACTGCATGCTCTGCGGACTTGGCAGATTTGAAGACCAGGAGCAACT---TTT-------------AAGAAC
dp4 chr4_group5:397117-397229 + ----------------------------GCATTGGTGTCGTGGCTCTCAATTCCGTAGTGCATTGCAGTTTAATATAATTATCAACAACTGCAAGCGCTGTGGACTTGGCAGCTCCGATAGCCGCAAACA-CA---GCT--------------GCAGC
droPer1 super_5:4895121-4895233 + ----------------------------GCATTGGTGTCGTGGCTCTCAATTCCGTAGTGCATTGCAGTTTAATATAATTATCAACAACTGCAAGCGCTGTGGACTTGGCAGCTCCGATAGCCGCAAACA-CA---GCT--------------GCAGC
droWil1 scaffold_180772:6812317-6812450 - ATTT------AATCCAAA----------TTCAAGGCATTGTAGCTATCAATTCCGTAGTGCATTGCAGTTGGTA----CTAGAAAATACTGCAAGCGCTGCGGACTTGCTAACTCTGATGACCATAAAAC-CA---CCTAAAAGCAATTCCTTAGATA
droVir3 scaffold_12963:14767730-14767833 - --------------------------------TGGCAGCGAAACTCTCAATTCCGTAGTGCATTGCAGTTGATT----TTAGGAATTACTGCAAGCGCTGCAGAATTGGCAGCTCCGCTGACCGCAGACAACG---TAT----------------GGA
droMoj3 scaffold_6500:17707448-17707541 - TAT--------------------------CAATGGCTGCGTAACTTTCAATTCCGTAGTGCATTGCAGTTGATT----TAAGGAATTACTGCAAGCGCTGCAGAATTGGCAGCTCCGTTGACC-----------------------------------
droGri2 scaffold_15126:4596325-4596461 + ATTTGTGCGGCAGGAAAAGTTGGGAGTTGCAATGGCAATGTAACTTTCAATTCCGTAGTGCATTGCAGTTGATT----TAAGCAACTACTGCATGCCCTGCAGAATTGGCAGCTCTGTTGACCACATACAGCA---AAT--------------GGTGT

dme-mir-957 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:22511281-22511406 - TTATATCCG---TAGTGT------------TGTCCACAATAGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT--CTATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GAGGCGCGAGCATCTA----TCCAAA
droSim1 chr3L:21812307-21812432 - TTGTATCCG---TAGTGT------------TGTCCACAATAGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT--CTATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GAGGCGTGAGCATCTA----TCCAAA
droSec1 super_11:2446955-2447080 - TTGTATCCG---TAGTGT------------TGTCCACAATAGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT--CTATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GAGGCGTGAGCATCTA----TCCAAA
droYak2 chr3L:22973852-22973977 - TCATATCCG---TAGTGT------------TGTCCACAATAGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT--ATATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GAGGCGTGAGCAACTA----TCCAAA
droEre2 scaffold_4784:22180738-22180863 - CCATATCCG---TAGTGT------------TGTCCACAATAGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT--CTATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GAGGCGTGAGCATCTA----TCCAAA
droAna3 scaffold_13337:22247678-22247807 - TAAGATTCG---TAATATAGTAATATATACTGCCTACAATGGCCCTTAGTTTTCGACGTGTTTTGGTGTGCAGGGG-AGTT--CTATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GAGGCGTGAGCATC------------
dp4 chrXR_group8:186470-186597 - ACCCACCAG---TAA-----------ATACTGTCCACAATGGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT-GATATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GCGGCATGAGCATCTA----ACCAAA
droPer1 super_80:80367-80497 + ACAACCCACCAGAAT-----------ATACTGTCCACAATGGACCTTAGTTTTCGACGTGTTTTGGTGTGCTGGGG-AGTT-GATATTCCGATTGAAACCGTCCAAAACTGAGGCCAACTGT-GCGGCATGAGCATCTA----ACCAAA
droWil1 scaffold_180698:7262478-7262610 + TCTCTCGCA---TCATA-------------TATCCGCAATGGACCTTAGTTTTCGACGTGTTTTGGTGTGCTTAGGAAGTTTTCTATTCCGATTGAAACCGTCCAAAACTGAGGCCAATTGTTGTGATAGAAGCAACCATGAAAACAAA
droVir3 scaffold_13049:17242400-17242523 + TTATTTCCTAACTAG-----------ATAATGCCCACAATGGTTCTTAGTTTTAGACGTGTTTTGGTGTGCTTG-A-AGTT--TTGTTCCGATTGAAACCGTCCAAAACTGAGGCCGATTGT-GAGGTAAAAGCGTCCA---------A
droMoj3 scaffold_6680:22273688-22273794 + ------------------------------TGCCCACAATGGATCTTAGTTTTAGACGTGTTTTGGTGTGCTTGGG-AGTT--TTGTTCCGATTGAAACCGTCCAAAACTGAGGCCAATTGT-GAGGCGAAAGCATCCA----G-----
droGri2 scaffold_15110:14942014-14942124 - T------------------------------ACCCACAATGGATCTTAGTTTTAGACGTGTTTTGGTGTGCTTGGG-AGTT--TTGTTCCGATTGAAACCGTCCAAAACTGAGGCCAATTGT-GTGGTAAAAGCATCCA----AATATC

dme-mir-965 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:243020-243156 - TAATTGTACAATCTGGA-----CA-----ATATTGCTCAACA-TTTTGGGGGGTAAAACTGTACGTTATATGTGCCCTTCTG-TGATATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTAGAGCTATTGCAACGA----------AAAGT-----GTTTTTC
droSim1 chr2L:248245-248381 - TACTTGTACAATCTGGA-----CA-----AAATTGCTCAACA-TTTTGGGGGGTGAAACTGTACGTTATATGTGCCCTTCTG-TGAAATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTAGAGCTACTGCAACGA----------AAAGT-----GGTTTTC
droSec1 super_14:240987-241123 - TACTTGTACAATCTGGA-----CA-----AAATTGCTCAACA-TTTTGGGGGGTGAAACTGTACGTTATATGTGCCCTTCTG-TGAAATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTAGAGCTACTGCAACGA----------AAAGT-----GGTTTTC
droYak2 chr2L:236040-236180 - TAATTGTACAATCACCATCTGACA-----AAATTGCTCAACA-TTTTAGGGGGTTAAACTGTACGTTATATGTGCCCTTT-T-GTAAATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTGAAGCAACAGCAACAA----------ATAGT-----GTATTTC
droEre2 scaffold_4929:289337-289472 - TACTTGTAGAACCTG-A-----CA-----AAATTGCTCAACA-TTTTAGGGGGTGAAACTGTACGTTATATGTGTCCTTCTG-TAAAATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTACAGCAACAGCAACAA----------AAAGT-----GAATCTT
droAna3 scaffold_12943:4147952-4148086 + TGGGTTTTCTGG--------------------AAGCTCAACCCTTTTGGGGGGTCAAACTGTACGTTCTATGTGGCAATCTT-AGAAATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTGAAGCAAAGTCAACAAATCTCAACT-AAAGT-----GTT--TT
dp4 chr4_group1:4362148-4362281 + TCATTTCCCCAT--------------------CTGCTCAAAA-ATTTGAGGGGTCAAACTGTACGTTCTATGTGACAATATT-CGAAATTCATAAGCGTATAGCTTTTCCCCTTAAAACTTGATGCAACAGCAACAA-TCGCAACAACAATTCTA-------GC
droPer1 super_5:848159-848292 - TCATTTCCCCAT--------------------CTGCTCAAAA-ATTTGAGGGGTCAAACTGTACGTTCTATGTGACAATATT-CGAAATTCATAAGCGTATAGCTTTTCCCCTTAAAACTTGATGCAACAGCAACAA-TCGCAACAACAATTCTA-------GC
droWil1 scaffold_180764:130106-130233 - TAT--GTAATAAATTAA-----AGAATCAATTCTACACAACA--TTTATGGGGTTAAACTGTACGTTGTATGTGCAAATCTTAAGAAATCCATAAGCGTATAGCTTTTCCCCTTAAAAGTTGATGTTAAATCAACAA---------------------------
droVir3 scaffold_12963:8856389-8856513 + TTAGTGTAGAAAAAGAA-----AAAAACAC--ACACACAAAT-GTTTAGGGGGTCAAACTGTACGTTGTATGTGCAAATG-A-TGAAATTCATAAGCGTATAGCTTTTCCCCTTAAACGTTGATGTGACGACAAC-----------------------------
droMoj3 scaffold_6500:2474475-2474605 - AATGTGAACAAA--------------------ACACTCAAAT-GTTTAGGGGGTCAAACTGTACGTTGTATGTGTAAACA-A-TGAAATCCATAAGCGTATAGCTTTTCCCCTTAAAAGTTGAAGTGGAATCAACAG----------CAATTTAAGCATAGCTA
droGri2 scaffold_15252:12933990-12934109 - G--------------GA-----AA-----ATAACACTCAAAT-GTTTAGGGGGTCAAACTGTACGTTATATGTGTAAATG-A-AGAAATTCATAAGCGTATAGCTTTTCCCCTTAAAAGTTGAAGTGATAGCAACCT----------AAAAA-----GTC--TT

dme-mir-970 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:12530354-12530478 + AAAGTGCCCAT-------------------AA------TCGAAAGGCATCTGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGTAATG--A-TTTG---AATCTATCATAAGACACACGCGGCTATAACCGTT--GTCT--AAGAGCTTCAAA---A-------------------TC------GAT
droSim1 chrX_random:3444234-3444357 + AAAGTGAACGT-------------------AA------TCGAAAGGCATCTGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGAATTG--A-TTTG---AATCTATCATAAGACACACGCGGCTATAACCGAT--GTCT--AAATGCTTCAAA-----------------------TC------GAC
droSec1 super_21:285079-285202 + AAAGTGAACGT-------------------AA------TCGAAAGGCATCTGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGAATTG--A-TTTG---AATCTATCATAAGACACACGCGGCTATAACCGAT--GTCT--AAATGCTTCAAA---A--------------------T------GAT
droYak2 chrX:6807144-6807273 + ATAGTGCATTT-------------------AA------TCGAAAGGCATCTGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGTAATG--A-TTTG---AATCTATCATAAGACACACGCGGCTATAACCGAT--GTCA--C---------ACATGCGACACA--------------CACATTAGAT
droEre2 scaffold_4690:14328958-14329082 - AAAGTGC-CTT-------------------AA------TCGAAAGGCATCCGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGTAATG--A-TTTG---AATCTATCATAAGACACACGCGGCTATAACCGAT--GTCT--AAACGCTTCAAA---G----TG--------------C------AAT
droAna3 scaffold_13117:3438231-3438350 + TTAGTGGA-------------------------------AGAAAGGCATTTGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGATATC--G-AAAG---AATCTATCATAAGACACACGCGGCTATAATCGAT--GTCCTTAGAGTCTACAAG---C--------------------T------AAA
dp4 chrXL_group1a:3316403-3316556 + ATCACCC---CAAAAAGTGAGCAGACA-----TCGCG-A--CATGGCATCTGTTGCAGCTAGCGGGTGTTTTATCTGGTAGCTGTACCC--T-TTTG---AATCTATCATAAGACACACGCGGCTATGACCGAT--GCCC--AAACCATCCAAG---A----TTCAATAATTAGTAATC------AAT
droPer1 super_77:191839-191992 - ATCACCC---CAAAAAGTGAGCAGACA-----TCGCG-A--CATGGCATCTGTTGCAGCTAGCGGGTGTTTTATCTGGTAGCTGTACCC--T-TTTG---AATCTATCATAAGACACACGCGGCTATGACCGAT--GCCC--AAACCATCCAAG---A----TTCAATAATTAGTAATC------AAT
droWil1 scaffold_181096:1892772-1892900 + AGAGTGTAC---------------------AATCGTATT--CAGGGCATTTGTTGCAGCTAGCGGGTGTTTTATTTGGTAGCTGCACTA-AAATTTCAATAATCTATCATAAGACACACGCGGCTATGACCGAT--GTCTTT-----CT----------------------TAGCCAAC------AAT
droVir3 scaffold_13042:2658865-2658967 + --------------------------------------------GACGTCTGTTGTAGCCAGCGGATGTTTTATTTGGTAGTTGCGCTT--T-ATTA---AATCTATCATAAGACACACGCGGCTATAACAGTGCCG--TTCA---------ACAAGCAA------------------C------GTC
droMoj3 scaffold_6328:939989-940116 - TAAACCC---CA----GTGATCGACTATGAAA------ACAATTGACGTCTGTTGTAGCCAGCGGATGTTTTATTTGGTAGTTGTATTT--T-ATAA---AGTCTATCATAAGACACACGCGGCTATAACAGAACTG--TTCA---------ATA------------------------------AGC
droGri2 scaffold_15203:5475247-5475378 + AAAGTCTGCCC-------------------AA------AAAATTGACGTCTGTTGTAGCCTGCGTATGTTTTATTTGGTAGTTGTAACTAAA-ATCG---AATCTATCATAAGACACACGCGGCTATCACAGTTCCG--TTCA---------ACAATCAACGTA--------------C-CATT-ACA

dme-mir-971 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:12956090-12956215 + TGCATGTGAGAGAA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC--------------------------GTACACAGAAAGAAAACC---
droSim1 zec46h04.g1:44-170 + TGCATGTGAGAGAA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC--------------------------GTACACAGAAAGAAAACC---
droSec1 super_21:701218-701343 + TGCATGTGAGAGAA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC--------------------------GTACACAGAAAGAAAACC---
droYak2 chrX:7229770-7229895 + TGCATGTGAGAGAA--------TTCCGTGGCTGGCAT--CGCTCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC--------------------------GTACACAGAAAGAAAAAC---
droEre2 scaffold_4690:13914734-13914859 - TGCATGTGAGAGAA--------TTCCGTGGCTGGCAT--CGCCCGCTGTAAATTGTAATCATCAAAGCGTT-TT------CTCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGTGCCAGTCC--------------------------GTACACAGAAAGAAAACC---
droAna3 scaffold_13117:3891784-3891909 + TGCATGTGAGAAAA--------TTCCGTGGCTGGCAT--CGTTCACTGTAAATTGTAACCATCAAAGCGTT-TTTT----ATCAGAGCCGCTTGGTGTTACTTCTTACAGTGAGTGAGCCAGCTG--------------------------GAGCACATATTAAAAA-----
dp4 chrXL_group3a:1391638-1391748 - AGCATGTGAGAGAGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG------------------------------------------------------
droPer1 super_52:413307-413417 + AGCATGTGAGAGAGCGGCTCCTTTCCCTGGACCCCAT--CGCTCGCTGTAAATTGTAATGGCCAAAGCTTT-TTTG----TTGGTAGCAGCTTGGTGTTACTTCTTACAGTGAGTGTG------------------------------------------------------
droWil1 scaffold_181096:6691507-6691601 - AC-----------A--------TTAAACGGCCCAATA--CGCTCGCTGTAAATTGTAGCAATCAAAGCGTTGCCTTTTGCCTC---ACAGCTTGGTGTTACTTCTTACAGTGAGTGTG------------------------------------------------------
droVir3 scaffold_12928:4279754-4279849 - ------------------------------------------CCGCTGTAAAATGTAATCATCAGAGCGTC-CT------CTC--AACCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCC--------------------------AAGGTCCGACCGTAAATCATA
droMoj3 scaffold_6328:350121-350240 + ---------------------------------------CGACCGCTGTAAATTGTAATCATCAAAGCGTC-TG------CTA--AATCGCTTGGTGTTACTTCTTACAGTGAGCGCGGCGCTCGAAACTACAGTGAAACTAGCATAAAGTGAACAAGGAAAGGAAA-----
droGri2 scaffold_14853:994421-994540 - CACG--------AA--------CT---TGAATGACGTCACGCCCGCTGTAATATGTAATCATCAAAGCGTG-TATT----TT---ACTCGCTTGGTGTTACTTCTTACAGTGAGTGCGACGGCCACAC-----------------------GTCCAGCGGAGGAGAGTG---

dme-mir-981 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:1682879-1683005 - A-CTGCAACTTAGGAG-------------------AAACATCCTCACTGAAGTCGGGTTTCGTTAGCAGCGGGCTGTTTTAATAAA--------TTCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAAAATCAACGCTCAAGGCCG
droSim1 chrX_random:1085378-1085505 - AACTGCAACTTAGGAT-------------------AAACATCCTCACTGAAGTCGGGTTTCGTTAGCAGCGGGCTGTTTTAATAAA--------TTCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAAAATCAACGCTCAAGGCCA
droSec1 super_10:1477754-1477881 - AACTCCAACTTAGGAT-------------------AAACATCCTCACTGAAGTCGGGTTTCGTTAGCAGCGGGCTGTTTTAATAAA--------TTCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAAAATCAACGCTCAAGGCCA
droYak2 chrX:1528063-1528198 - A------ACTTAAGAGAGAGACCAA-----GTGCAAAGCATCCTCACTGAAGTCGGGTTTCGTTAGCAGCGGGCTGTTTTAAAAAA--------TTCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAAAATCAACGCTCAAGGCCG
droEre2 scaffold_4644:1660954-1661093 - A-CTGCAACTTAAGAGGG-CACCAA-----CTGCAAAGCATCCTCACTGAAGTCGGGTTTCGTTAGCAGCGGGCTGTTTTAATAAA--------TTCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAAAATCAACGCTCTAGGCCG
droAna3 scaffold_12929:1586917-1587049 + A-TTATAGTTTTA-----AGA---ACTGTGTTTCATAAAGTCCTCACTGAAGCCGGGTTTCGTTAACAGCGGGCTGTCATTTCGAA--------ATCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAATAACAACGTTTAA-----
dp4 chrXL_group1a:4258914-4259036 - A-CGAATATCTA-------------------TGCGAAAAATCCACATTGAAATCGGGTTTCGTTAACAGCGGGCTGTTATGAATAA--------ATCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAGAAACAAC----AAATGCA
droPer1 super_11:835055-835162 - T---------G-------------------ATGCGAAAAATCCACATTGAAATCGGGTTTCGTTAACAGCGGGCTGTTATGAATAA--------ATCAACAAGTTCGTTGTCGACGAAACCTGCATGCTGTGT-GGAGAAACAAC-----------
droWil1 scaffold_181096:4683233-4683341 + ---------------------------------------ATCCACACTGAAATCGGGTTTCGCTAGCAGCGGACTGTCATGATAAATGTGAAAAACAAACAAGTTCGTTGTCGACGAAACCTGCATCATGTGTCGGACAAACAGCTCT--------
droVir3 scaffold_12942:51501-51599 + A-----------------------------------ACAATCTACATTGAACTCAGATTTCGTCAGCAGCGGGCTGTGATGATTA----------TGAACAAGTTCGTTGTCGACGAAACCTGCATACTGTGT-GGAGTGGCAAC-----------
droMoj3 scaffold_6328:4397474-4397588 + --CTGTGGATAAAAAT-------------------AGTAATCTACATTGAACTCAGGTTTCGTTAGCAACGGGCTGTGATGATTAA--------AAGAACAAGTTCGTTGTCGACGAAACCTGCATGCTATGT-GGAGAGGCAAC-----------
droGri2 scaffold_14853:795296-795391 + ----------------------------------------TCCACATTGAGCTCGGGTTTCGTCAGCAGCGGGCTGTGATGACTAA--------A-AAACAAGTTCGTTGTCGACGAAACCTGCATACTGTGT-GGAGAGTCAACG----------

dme-mir-988 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:8046362-8046490 - CAAAAGAA---CAT------AGTT-G-----------------------------ACGGCGGTA--------------------CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGA-TCTG-CGA---------A----------------ATACA-CAGTGGTAT
droSim1 chr2R_random:2089209-2089337 - CTAGAGAA---CAT------TTTT-G-----------------------------ATGGCGGTA--------------------CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGA-TCTG-AGA---------A----------------ATACA-CAGTGATAT
droSec1 super_1:5591420-5591548 - CTAGAGAA---CAT------TTTT-G-----------------------------ATGGCGGTA--------------------CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGATGA-TCTG-CGA---------A----------------ATACA-CAGTGTTTT
droYak2 chr2R:8904838-8904966 + CTAAATAA---CAT------TTTT-C-----------------------------ATGGCGTTA--------------------CTGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGA-CCTG-CGA---------A----------------ATACA-CAGGGATAT
droEre2 scaffold_4845:17747735-17747863 + CAGAAAAA---CAT------ATTT-G-----------------------------ATGACGGTA--------------------CCGGGCATTTTGGGTGTGTGATTTGTAGCAAAGTGATATGTATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGA-CCTG-CGA---------A----------------ATACA-CAGTGTTAT
droAna3 scaffold_13266:2579688-2579821 + TAATGGAA---TCA---GTAAGTG-G-----------------------------AAAGGTGTA--------------------CTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATAGGTATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--CAAGGTGC-TTTC-CAACGG-----CA------------------ACA-TATCAGCAA
dp4 chr3:405625-405769 - CCGGATAA---C---------T-----------------GGGTATCCAGGAATCCAGACT------------------------GTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAAT--CCC-ACACCTA-----CACTCTCAT------ATAAT----GATCAT
droPer1 super_2:590063-590227 - AAGAAAAA---AGT------TGTTATATCCCGGATAACTGGGTATCCAGGAATCCAGACT------------------------GTGGACATTTTGGGTGTGTGATTTGTGGCAAAGTGATATGCATT-TGAT--CATCCCCTTGTTGCAAACCTCACGCC--AAAGTTGAAT--CCC-ACACCTA-----CACTCTCAG------ATAAT----GATCAT
droWil1 scaffold_181141:3254354-3254482 + AAGT---A---CATTTGTTTAGTT-A-----------------------------AAACGAATT--------------------GTGGGCATTTCGGGCGTGTGATTTGTAGCAAAGTGATATGTACT-TGAT--AATCCCCTTGTTGCAAACCTCACGCCGGAAAGATGT-C-TC--CA---------A----------------ATACATCAG-----T
droVir3 scaffold_12875:19840344-19840491 + TATGCACAGATCAT------GT-------------------------------CCAGAGTGT--GTAATA-----------TATCTGCGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGC--TTGGATTCCATCCCCTTGTTGCAAACCTCACGCC--AAAGGTGG-C------GCATTTAACCAGCA-----AT------ATAAA-GATTCATGT
droMoj3 scaffold_6496:6364073-6364233 - TGGATAAA---GAC------TATT-C-----------------------------GGAGTGTTA----TATCTATCATGTGTATTTGCGCATTTTGGTCGTGTGATTTGTGGCAAAGTGATGAGC-TA-TGATTCCATCCCCTTGTTGCAAACCTCACGCT--GAAGGTGA-C------GCATAGCAGCAACA-----ATTGAAAGATATT-CGATTAAAC
droGri2 scaffold_15245:18189031-18189168 + TAAA---G---CAT------ATTA-A----------------ATTC---------CGAGTGT--G--GTA-----------TTTCTGTGCATTTTGGGCGTGTGATTTGTGGCAAAGTGATGAGC--T-TGATTCCATCCCCTTGTTGCAAACCTCACGCC--GAAGGTGG-C------GCATCTAAGCA----------------ACA-A-TATTAATAT

dme-mir-989 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:10032841-10033044 - ATT-TTATTTAAGTACAA-------AGATTTTGGGAATCGGCCACTACCTTGCAGTCACGTGATGAA---AAGACACAGGTGACACTGATC---CGGATTTGGTAGTTG-ACAAATCCTCCATG-----------------------------CCGAGATTAGTTTCATTTTGCGTCTTTTGAA------TTCGAATAGTTCATGTGATGTGACGTAGTGGAACATACCTGAAATTACAAG-CAACA------CGAA-GT---GA
droSim1 chr2R:8799008-8799211 - ATT-TTATTTAAGTACAT-------AAATTCCGGGAATCGGCCACTACCTTGCAGTCACGTGATGAA---AAGACACTGGTGACACTGATC---CGGATTTGGTAGTTG-ACAAATCCTCCATG-----------------------------CCGAGATTAGTTTCATTTTGCGTCTTTTGAA------TTCGAATAGTTCATGTGATGTGACGTAGTGGAACATACCTGAAATTGCAAG-CAACA------CGAA-GT---GA
droSec1 super_1:7540579-7540782 - ATT-TTATTTAAGTACAG-------AAATTCCGGGAATCGGCCACTACCTTGCAGTCACGTGATGAA---AAGACACTGGTGACACTGATC---CGGATTTGGTAGTTG-ACAAATCCTCCTTG-----------------------------CCGAGATTAGTTTCATTTTGCGTCTTTTGAA------TTCGAATAGTTCATGTGATGTGACGTAGTGGAACATACCCGAAATTGCAAG-CAGCA------CGAA-GT---GA
droYak2 chr2R:9968911-9969114 - TTTTTTATTTAATTACAA-------AGATGCCGGGAATCGGCCACTACCTTGCAGTCACGTGATGAA---AAGACACAGGTGACACTGATC---CGGATTTGGTGGTGG-ACCCATTCTC-ATT-----------------------------CCGAGATTAGTTTTATTTTGCGTCTTTTGAA------TTCGAATAGTTCATGTGATGTGACGTAGTGGAACATACCTGGTGTTGCAAG-CAACA------TGGA-GT---AA
droEre2 scaffold_4845:15804995-15805201 + ATT-TTATTTAATTACAA-------AGATGCCGGGAATCGGCCACTACCTTGCAGTCACGTGATGAA---AAGACCCAGGTGACACTGATC---CGGATTTGGTAGTCGTACAAATCCTCCATT-----------------------------CCGAGTTAAGTTTCATTCTGCGTCTTTTGAA------TTCGAACAGTTCATGTGATGTGACGTAGTGGAACATACCTGGTGTTGCAAG-CAACA------TGTA-GGCA-TA
droAna3 scaffold_13266:5886554-5886734 + A--------------CCA-------ACGTTTCGGGAAGTGGCCACTACCTCGCAGTCACGTGATGCC---AAAATGCAACTGACACTGATC---CGGAGATGGT------------CCTCCATC---------C-------------------TTGGGATTAGTGTTAATTTGTGTTTTTTTTA------TTTGAATAGTTCATGTGATGTGACGTAGTGGAACATTCCTGGCGTTCCTAA-CAACA------AAAA-GT---GA
dp4 chr3:2729279-2729420 - A-------------------------CGTTGCGGGAATGGGCCACTACCTCGCAGTCACGTGATATC---GGAATGCAA------------------------------------T-----------------------------------------GATCTACGTTAAATTGTGTTTCTT---------TTTGAATAGTTCATGTGATGTGACGTAGTGGAACATTCCTGGCGTTGTCAG-CAACA------GAAATGT---AC
droPer1 super_2:2918784-2918948 - TTG-TAAACCAAGAAGAACCAAACAACGTTGCGGGAATGGGCCACTACCTCGCAGTCACGTGATATC---GGAATGCAA------------------------------------T-----------------------------------------GATCTACGTTAAATTGTGTTTCTT---------TTTGAATAGTTCATGTGATGTGACGTAGTGGAACATTCCTGGCGTTGTCAG-CAACA------GAAATGT---AC
droWil1 scaffold_180745:1541090-1541255 + TAC-GAGTTCGAGTACAA----TAAATGTTTTGGGAATTGGCCACTACCTCGCAGTCACGTGATGAG---AGA---------------------------------------------------GATGCAAGA------------------------GGACTTTG------TATGCCATTTGCATTTAATATTTCATAGTTCATGTGATGTGACGTAGTGGAACATTCCTGAGCTTTAAAGTCATCA------AGAA-GG---AA
droVir3 scaffold_12875:1889282-1889470 + A---------------------AAAACGATTCGGGAATTGGCCACTACCTCGCAGTCACGTGATCCA---CAAACGCAGC--------------CGGCTCTGGTGCTTG-GGAAA---------AATACAATTTTCTTTTGTTTTCCTGGGCGCCGCA-------ACGTTTTGCGT----TCA--------TTTCATATTTCATGTGATGTGACGTAGTGGAACATTCCTGACGTTTGCAG-CCACA------GCGC-GAAGTG-
droMoj3 scaffold_6496:23382296-23382464 - A---------------------AAAACGATTCGGGAATTGGCCACTACCTCGCACTCACGTGATGCACTCAAAACGCCGACGAGGACGT---------------------CCAAATT--CCAT---------TTTCT--CGTTTTCCTC--------------TGTCGTTTTGCGT----TGA--------TTTCATATTTCATGTGATGTGACGTAGTGGAACATTCCTGGCGTTGCC-----CCAGCAATCCG----------
droGri2 scaffold_15112:3992495-3992691 + ATG-TAAT-----GAA------AAAGCGTTCCGGGAATTGGCCACTACCTCGCAGTCACGTGATGCC---ACAAGGCGGGC-ACGCCGTGCAACATCCTCTCTTCGTTT-ACACATCTCCTCTT-----------------------------GAGAGGATTGCGTCGTTCCGCCT----TGAA-------TTTCATATTTCATGTGATGTGACGTAGTGGAACATTCCTGACGTTTCCCA-CAACA------AGAA-CA---AC

dme-mir-999 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:17623934-17624068 - GATG--AAC---GGAG-AAG--------AA--------AGGAT-G-CCGCTCAATTACCCCGACATAGTCATACGGTGAATGTTGTGTATTGGAGACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCC----CAGCCACA-CAGCCCAGTATCAA
droSim1 chr3R:17429586-17429720 - GATG--AAC---GGAG-AAG--------AA--------AGGAT-G-CCGCTCAATTACCCCGACATAGTCGTACGGTGAATGTTGTGTATTGGAGACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCC----CAGCCACA-CAGCCCAGTATCAA
droSec1 super_0:17996302-17996436 - GATG--AAC---GGAG-AAG--------AA--------AGGAT-G-CCGCTCAATTACCCCGACATAGTCATACGGTGAATGTTGTGTATTGGAGACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCC----CAGCCACA-CAGCCCAGTATCAA
droYak2 chr3R:18443923-18444058 - AA-----AT---CGAG-AAG--------AA--------AGGAT-G-CCGCTCAATTACCCCGACATAGTCATACGGTGAATGTTGTGTATTGGAGACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCCACACCAGCCACATCAGCC--ACATCGG
droEre2 scaffold_4820:10463202-10463335 + GATG--AAC---GAAG-AAG--------AA--------AGGAT-G-CCGCTCAATTACCCCGACATAGTCATACGGTGAATGTTGTGTATTGGAGACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCC----CAGCCACACCAGCC--ACACCAG
droAna3 scaffold_13340:8622498-8622632 - GTTGCCAAA---GGACCAAA--------AA--------AGGAT-G-CCGCTCAATTACCCCGACATAGTCGTACGGTGAATGTTGTGTATTGGAAAGCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCT-----AGCCTAC-CATCTCACTATC--
dp4 chr2:6480711-6480794 - ---------------------------------------------------------------CATAGTCGTACGGTGAATGTTGTGTATTGG--ACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGTCAGCC----AAGCAGCA--AGCC---------
droPer1 super_0:306015-306135 - GATG----TGAAGGAG-CCC--------AA--------AGGAT-GCCCGCTCAATTACCATGACATAGTCGTACGGTGAATGTTGTGTATTGG--ACCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGTCAGCC----AAGCAGCA---------------
droWil1 scaffold_181130:11672712-11672848 - GACG--A-C---GA-CGACGACGCCAACGACAGCAGCAAAGATGTCCCGCTCAATTACCATGACATAGTCGTACGGTGAATGTTGTTTA-TGGAGTCCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGCCAGCC----AAACAACA---------------
droVir3 scaffold_12822:3936742-3936840 - G---------------------------------------------CCGCTCAATTACCGTGACATAGTCGTACGGTGAATGTTGTGTA-TGGAGTCCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTGTTAGCT----AATCAACA---------------
droMoj3 scaffold_6540:17209641-17209764 - ATTA--AAA---GG-G-CAG--------TG--------A-GTC-G-CCGCTCAATTACCGTGACATAGTCGTACGGTGAATGTTGTTTA-TGGAGTCCAATGTTAACTGTAAGACTGTGTCTCGGTGGTTG-CAGCC----AAACAACA-GCGACC--------
droGri2 scaffold_8129:786-906 - GATA----A---GGACAAGA--------GAC-------A-GCA-G-TCGCTCAATTACCATGACATAGTCGTACGGTGAATGTTGTGT-TTGGAGTCCAATGTTAACTGTAAGACTGTGTCTTGGTGGTTGCCAGCC----AAGCAACA-AA------------

dme-mir-iab-8 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:12681982-12682079 - GTTGTTAGTGCTCTCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTTTACGAGGTCGCACAGAATCG
droSim1 chr3R:8791202-8791299 + GTTGCTCGTGCTATCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTTTACGAGGTCGCACAGAATCG
droSec1 super_12:1472230-1472327 + GTTGCTCGTGCTATCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTTTACGAGGTCGCACAGAATCG
droYak2 chr3R:11708953-11709050 + GTTGCTCGTGCTTTCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTTTACGAGGTCGCACAGAATCG
droEre2 scaffold_4770:8952402-8952499 + GTTGCTCGTGCTTTCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTTTACGAGGTCGCACAGAATCG
droAna3 scaffold_13340:7215188-7215285 + GTTGAAGGTGTTACCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTATACGAAGTTGCACAAAATCA
dp4 chr2:17671753-17671849 - GTTGCTGGTGTTTCCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTATACGAAGTCGCACAGGTTC-
droPer1 super_0:11526559-11526655 - GTTGCTGGTGTTTCCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTATACGAAGTCGCACAGGTTC-
droWil1 scaffold_181130:4905585-4905682 + GTTGTTGGTGTTTCATCGTGTTACGTATACTGAAGGTATACCGGATAGCATACACTCAGGATACATTCAGTATACGTATACGAAGTTGCACAGATTCA
droVir3 scaffold_12855:414691-414788 + GTCGCTGGTGTTTCCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTATACGAAGTTGCACAGGCTCT
droMoj3 scaffold_6540:1943729-1943826 - GTTGCTGGTGTTTCCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTATACGAAGTTGCACAGGCTCA
droGri2 scaffold_14906:12815109-12815201 - GTTGCTGGTGTTTCCTCGTGTTACGTATACTGAAGGTATACCGGATAGGATACACTCAGGATACATTCAGTATACGTATACGAAGTTGCACAG-----

Divergent mature and star

dme-mir-1002 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:13747594-13747712 - TGT----------AT-------------------CGGAATT--------AA-------TTAGAAATTATATATTTAAGTAGTGGATACAAAGGGCGAT-TTG-ATAT-AAA--AGTGTCGCATTGTATGACCTACTTAACTAGCTGATTTTGTATCCCAACATAATA--G
droSim1 chr2L:13506512-13506649 - TGT----------CGGAATAAATATAATAATAATCGGAAAT--------AT-------TTAGAAATTATATATTTAAGTAGTGGATACAAAAGGCGAT-TTG-ATAT-AAA--AGTATCGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAACATAAAA--T
droSec1 super_3:14439-14576 - TGT----------CGGAATAAATATAATAATAATCGGAAAT--------AT-------TTAGAAATTATATATTTAAGTAGTGGATACAAAAGGCGAT-TTG-ATAT-AAA--AGTATCGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATTCCAACATAAAA--T
droYak2 chr2L:10159916-10160031 - TATGCTTCGAAGTTTTAA------------------------------------------AAAAATTATATATTTAAGTAGTGGATACAAAAGGCGAT-T-G-ATAT-AAA--AATGTCGCATTGTATGGCCTACTTAACTAGCTGATTTTGTATCCCAACTTA------
droEre2 scaffold_4929:11719022-11719139 + TCT----------AT-------------------ATT----AATTG----A-------T-CAAAATTATATATCTAAGTAGTGGATACAAACGGCGAT-TTG-GTAT-AAA--AATGTCGCATTGTATGACCTGCTTAACTAGCTGATTTTGTATCCCAACGTACAA--A
droAna3 scaffold_12943:1815398-1815512 - TCA----------TA-----------------------AATATCTGTGCAA-------A-CTAAATCATGTGTTTAAGTAGGCAATACAT-GGGCGAC-TAA-ATAA-AAT--ATACTCGCAATGTATAGCCTACATAACTAGTTGATTTTTGCAAGCATC--------C
dp4 chr4_group1:1722923-1723028 + CCT----------CTCAA------------------------------------------AATAATCGGGCACCTAAGTAGTTGATACAA-GGGCGAT-AAT-GTAAAAGA--ACTTTCGCATTGTGTGACCTACTTAAATGCTCGATTGTTTCAAGCAACCT-------
droPer1 super_5:3483460-3483570 - CCT----------CTCAA------------------------------------------AATAATCGGGCACCTAAGTAGTTGATACAA-GGGCGAT-AAT-GTAAAAGA--ACTTTCGCATTGTGTGACCTACTTAAATGCCCGATTGTTTCAAGCAACCTCTAA--A
droWil1 scaffold_180772:545437-545562 + TCA----------TT--------------------TG----ATCTGGTCAT-------TGAAAAATGTTACACTTAAGTAGTTAATACAA-TGGCGAT-TCGTATTC-CATTGTACATCGCATTGTGTGAGTTACTTTGTTGAGAGATTTTTCCAAACAACAAGATAATC
droVir3 scaffold_12723:5043888-5043982 - GCA----------AT---------------------------------------------GAAAATTGAACGCTTAAGTAGTTAATACAA-GGGCGAGTTTT-TTC----T--TGCATCGCATTGTGTGACCTACTTAAATGACAAATTTTCA--AG--AC--------A
droMoj3 scaffold_6500:16664711-16664807 + TGA----------T----------------------------------------------GAAAATTCAGCACTTAAGTAGTTGATACAA-AGGCGAA-TTT-AT-T-AAA--TTTATCGCATTGTGTGAGCTACTTAAATGACAGATTTTTA-T-AGTAC--------G
droGri2 scaffold_15126:8057211-8057331 - TGT----------AA------------------------ATATTTATAATCACTGTATT-GAAAATTTAACACTTAAGTAGTTGATACAA-GGGCGAGTTTC-ATA----A--AGTATCGCATTGTGTGACCTACTTGAATGAGAGATTTTTA--AGATACT--GTA--A

dme-mir-1003 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:20484312-20484397 + CAAGCTGCGCAGAAGGTGGGTATC-TGGATGTGGTTGGCTCT--------------GGCGGTCCTCTCACATTTACATATTCACAGGCGCCGTGAGCTGCG
droSim1 chr3R:20323145-20323230 + GAAGCTGCGCAGAAGGTGGGTATC-TGGATGTGGTTGGCTCT--------------GGCGGTCCTCTCACATTTACATATTCACAGGCGCCGTGAGCTGCG
droSec1 super_0:20818704-20818789 + GAAGCTGCGCAGAAGGTGGGTATC-TGGATGTGGTTGGCTCT--------------GGCGGTCCTCTCACATTTACATATTCACAGGCGCCGTGAGCTGCG
droYak2 chr3R:26013202-26013287 - GAAGCTGCGCAGAAGGTGGGTATC-TGGATGTGGTTGGCTCT--------------GGCGGTCCTCTCACATTTACATATTCACAGGCGTCGTGAGCTGCG
droEre2 scaffold_4820:7574099-7574184 - GAAACTGCGCAGAAGGTGGGTATC-TGGATGTGGTTGGCTCT--------------GGCGGTCCTCTCACATTTACATATTCACAGGCGCCGTGAGCTGCG
droAna3 scaffold_13340:4690326-4690418 - CAAGCTACGCCGAAGGTGAGTATAGTGGATGTGGGTGGCTCTTATTTG--------GCCGGTCCTCTCACATCTCCATATTCACAGGCGTCGAGAGCTGCG
dp4 chr2:1751559-1751647 - GAAGCTACGTAGAAGGTGGGTATCGTGCTTGTGGGTGGCTCTT----G--------GTCAGTCCTCTCACATCTCTATATTCACAGGCGCCGCGAGTTGCG
droPer1 super_7:1904970-1905058 - GAAGCTACGTAGAAGGTGGGTATCGTGCTTGTGGGTGGCTCTT----G--------GTCAGTCCTCTCACATCTCTATATTCACAGGCGCCGCGAGTTGCG
droWil1 scaffold_181089:9616822-9616911 - AAAGTTGCGCCGTAGGTGAGTATC-GGGTTGTGATTGGCTCCT----T------GTGGTAGTCCTCTCACATCTCTATATTCACAGGCGTCGCGAGCTGCG
droVir3 scaffold_13047:780932-781019 + AAAGCTGCGTCGTAGGTGAGTAAT-CAGTTGTGGGTGGCTTTT----T--------GAAAGCCCTCTCACATCTCTTTATTCACAGGCGGCGTGAGTTGCG
droMoj3 scaffold_6540:4775668-4775755 + CAAGCTGCGGCGCAGGTGAGTAAT-CAGTTGTGGGTGGCTCTA----G--------TGAAGCCCTCTCACATCTCTTTATTCACAGGCGGCGAGAGTTGCG
droGri2 scaffold_14906:5529285-5529380 - GAAATTGCGGCGCAGGTGAGTAAT-CAGTTGTGGGTGGCTTTT----GTTCTTAGGGAAAGCCCTCTCACATCTCTTTATTCACAGGCGGCGCGAATTGCG

dme-mir-1007 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:21167397-21167491 - ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--T-TGGTTC--TTGGA------C--TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGGATCTTCT
droSim1 chrX:12920203-12920297 + ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--T-TGGTTC--TTGGA------C--TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droSec1 super_8:3474404-3474498 - ACGAATCTGTACAGTGTAAGCAGTGTTTGAACTCGATC--T-TGGTTC--TTGGA------C--TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droYak2 chrX:20343121-20343215 - ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--T-AGGATC--TTGGA------C--TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droEre2 scaffold_4690:17696754-17696848 - ACGAATCTGTTCAGTGTAAGCAGTGTTTGAACTCGATC--T-GGGATC--TTGGA------C--TCTTGATAAGCTCAATTAACTGTTT----GCAGCGGACGGCATCTTCT
droAna3 scaffold_13334:1054378-1054469 + ACGAATCCGTACAGTGTAAGCAGTGTTTGAACTCGATC--T----------TGGAA--TAGC--TCCCGATAAGCTCAATTAACTGTTT----GCAGCCGATGGCATCTTCT
dp4 chrXL_group1a:9060607-9060705 + ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAAT-TGAATCGAATCGA------ATCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT
droPer1 super_15:1454063-1454161 + ACGAATCGATACAGTGTAAGCAGCGATTGA--TCAATCAAT-TGAATCGAATCGA------ATCGAATGATAAACTCCATTAACTGTTT----GCAGCCGATGGCATCTTCT
droWil1 scaffold_180702:162895-162984 - ATGAATCCATGCAATGTGAGTT--TTTTGATTTT---C--T-----TG--TTTAA------T--TTCGAAAAACTTTAATCGACTGTATTCTATCAGCTGATGGCATCTTCT
droVir3 scaffold_12970:7925725-7925826 - ACGAATCAATGAAATGTAAGCAGTGCTTGAGCTTATTC--TCTGGCTTCATTTGAC--CA--TTTTCTGATAAGCTCAATTAACTGTTT----GCAGCGGATGCCGCCCTCT
droMoj3 scaffold_6482:1600635-1600734 + ATGAGTCCATGAAATGTAAGCAGTGTTTGAACTAAATC--TCTGGCTA--CTTGGC--CG--TATATTGATAAGCTCAACTAACTGTTT----GCAGCGGACACCTATTTGG
droGri2 scaffold_15203:11134564-11134665 + GCGAATCAATACAATGTAAGCAGTGTTTGAACTGAATA--TCTGGTTA--TCCGACTTCA--TATACTGATAAGCTCAATTCACTGTTT----GCAGCGGATGGCGTCTTCT

dme-mir-1011 mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:16679012-16679095 - ATTCTGACCGTGCACGTGAGTTTTTGAGCCAGGAATAT--------AGTTC----T-------TAT-TATTGGTTCAAATCGCTCGCAGAATCCACCCTGGCAA
droSim1 chr3R:4780974-4781057 + ATTCTGACCGTGCACGTGAGTTTTTGAGCCAGGAATAT--------AGTTC----T-------TAT-TATTGGTTCAAATCGCTCGCAGAATCCACCCTGGCAA
droSec1 super_27:54817-54900 + ATTCTGACCGTGCACGTGAGTTTTTGAGCCAGGAATAT--------AGTTC----T-------TAT-TATTGGTTCAAATCGCTCGCAGAATCCACCCTGGCAA
droYak2 chr3R:5477803-5477886 - ATTCTGACCGTGCATGTGAGTTTTTGAGCCAGGAATAT--------AATTC----T-------TAT-TATTGGTTCAAATCGCTCGCAGAATCCACCCTGGCAA
droEre2 scaffold_4770:4975828-4975911 + ATTCTGACCGTCCACGTGAGTTTTTGAGCCATGAATAT--------AATTC----T-------TAT-TATTGGTTCAAATCGCTCGCAGAATCCACCCTGGCAA
droAna3 scaffold_13340:7952070-7952154 - GTGGTGACGGTGCATGTGAGTCTTTGAACCAGGAATAT--------AATTT----G-------TATATATTGGTTCAAATCGCTCGTAGAATCCTCCCTGGCAA
dp4 chr2:12756663-12756757 + ATTGTGACGATGCATGTGAGATTTTGAATCTAATATAT--------AATATAATCCGTACGTGTAT-ATATGGTTCAAATTACTCGTAGAACCCTCCCTGGCAA
droPer1 super_0:7702112-7702205 - ATTGTGACGATGCATGTGAGATTTTGAATCTAATATAT--------AATATAATCT-TACATGTAT-ATATGGTTCAAATAACTCGTAGAATCCTCCCTGGCAA
droWil1 scaffold_181108:2184466-2184552 + ATTCTGACCGTACATGTGAGTCTTTGAATCAGGAATAT--------ATTATCA--T-------TATATATTGGTTCGAAATGCTCGTAGAATCCACCTTGGCAA
droVir3 scaffold_13047:12031331-12031423 + ATTGTCACGGTGCATGTGAGTCATTGAACCAGGAATATATGTATGTAATTC----T-------TATATATTGGTTCAAATTTCTCGCAGAATCCGCCCTGGCAA
droMoj3 scaffold_6540:29750589-29750676 - ATTGTGACAGTGCATGTGAGTCTTTGAGCCAGGAATAT--------ATGTTCATCT-------TAT-TATTGGTTCAAATCTCTCGTAGAATCCTCCCTGGCAA
droGri2 scaffold_14830:1201859-1201943 + ATTGTCACTGAGCATGTGAGTCTTTGAGCCAGGAATAT--------AATTG----T-------TATATATTGGTTCAAACAACTCGTAGAATCCGCCCTGGCAA

dme-mir-1017 tailed_mirtron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:20314319-20314517 + CCGAACCGTATCCGGGTGAGTTTAGTGGAGTT-TAAAGCTTCCC-------ATCGCCAGCAA-----------TTACGCGAAAGCTCTACCCAAACTCATCCCCCGAAAA-TGA--------------------------------------T----CCCTTTC-TCCCCTTTTCCCAACACA--T------------TTGT----------------------------------ATCCC-----ACTTCCTGCGCGTCTTCGTGGATTT-----------------------GTAA------CTGCTTC-AATGG------C--TGGACGGTT-TAGATATCTTCTTCAACA
droSim1 chr3R:20155121-20155319 + CCGAACCGTATCCGGGTGAGTTTAGTGGAGTT-TAAAGCTTCCC-------ATCGCCAGCAA-----------TTACGCGAAAGCTCTACCCAAACTCATCCCCTGAAAA-ATA--------------------------------------T----CCCTCTC-TCCCCTTTTCCCGACACT--T------------TTGT----------------------------------AACCC-----ACTTCCTGCACGACTTCATGGATTT-----------------------GTAA------CTGCTTC-AATGG------C--TGGACGGTT-TAGATATCTTCTTCAATA
droSec1 super_0:20650438-20650636 + CCGAACCGTATCCGGGTGAGTTTAGTGGAGTT-TAAAGCTTCCC-------ATCGCCAGCAA-----------TTACGCGAAAGCTCTACCCAAACTCATCCCCTGAAAA-ATA--------------------------------------T----CCCTCTC-TCCCCTTTTCCTCACACA--C------------TTGT----------------------------------ATCCC-----ACTTCCTGCGCGACTTCATGGATTT-----------------------GTAA------CTGCTTC-AATGG------C--TGGACGGTT-TAGATATCTTCTTCAACA
droYak2 chr3R:26186848-26187051 - CCGAGCCGTATCCGGGTGAGTTTAGTGGAGTT-TAAAGCTTCCC-------ATCGCCAGCAA-----------TTACGCGAAAGCTCTACCCAAACTCATCCCCTGAAAAAATA--------------------------------------T----CCCTTTC-CCTCTTTTTTCCAACACATTC------------TTGT----------------------------------ATCCC-----ACTTTTTTTGCGCCTTCTTGGATGT-----------------------GTGA------CTGCTGC-AATGG------CCATGGACTGTT-TAGATATCTTCTTCAATA
droEre2 scaffold_4820:7744417-7744612 - CCGAACCGTATCCGGGTGAGTTTAGTGGAGTT-TAAAGCTTCCC-------ATCGCCAGCAA-----------TTACGCGAAAGCTCTACCCAAACTCATCCCCTGAAAA-ATA--------------------------------------T----CCCTTTC---CCCCTTTCCCAACACA--C------------TTGT----------------------------------ATCCC-----ACTTCTCGCGCGAC-TCTTGGACTT-----------------------GTGG------CTGCTTC-ACTGG------C--TGGACTATT-TAGATATCTTCTTCAACA
droAna3 scaffold_13088:356279-356461 + CCGAGCCGTATCCGGGTGAGTTTAGTGGAGTT-TAATGCTTCTC-------ATCGCCGGCCC-----------TTTCGCGAAAGCTCTACCCAAACTCATCCCCTGAAAACC-------------------------------------------TTTTTTC-C------------CCCCATT--T------------TCTT----------------------------------CCCTT-----ACTGTTTTTGCAC---TTTGGATTT--------------------TATGTGGC-----CTGC------TGG------A--TGGCTTCTT-CAGATATATTTTTCAACA
dp4 chr2:18479367-18479560 - CCGAACCGTATCCGGGTGAGTTTTGTGGAGTT-TAAAGTTAACA-------ATCGCCGACAATC----A--AATTACGCGAAAGCTCTACCCAAACTCATCCCTCACAA-------------------------------------------TTGTTTTCCT-CC---------CCCACCAAA--AATCTCCCTCACCCTGT----------------------------------AAATC-----ACT-------------------------------------------ATGCGGCT---GCTGC------TGGTATTCGGCTTGGACTGTTCCAGATATCTTCTTCAATA
droPer1 super_3:1203012-1203205 - CCGAACCGTATCCGGGTGAGTTTTGTGGAGTT-TAAAGTTTACA-------ATCGCCGACAATC----A--AATTACGCGAAAGCTCTACCCAAACTCATCCCTCACAA-------------------------------------------TTGTTTTCCT-CC---------CCCACCAAA--AATCTCCCTCTCCCTGT----------------------------------AAATC-----ACT-------------------------------------------ATGCGGCT---GCTGC------TGGTATTCGGCTTGGACTGTTCCAGATATCTTCTTCAATA
droWil1 scaffold_181108:4383442-4383643 - CTGAACCATATCCAGGTGAGTTTTGTAGAGTTTTAAAGCTATAA-------ATCGCCGGTAAATAGACGTTAAAGACGCGAAAGCTCTACCCAAACTCAC-CCCGG-AAA------------------------------------------TTTTTTTATT-C-T-CTTTTTTCCCAACAAA--A------------ATAA----------------------------------TGACA-----ATTT-------A---TCTTGGAAAT--------------------TTGGTAA------ACACTTTAAATAA------T--TGTATATAT-TAGATATATTTTTCAATA
droVir3 scaffold_13047:3684405-3684633 + CCGAGCCGTATCCGGGTGAGTTTCGTAGAGTT-TAAAGCTCTTA--CTTTGCTCGCTGGCAC----GC-----CCACGCGAAAGCTCTACCCAAACTCAC--TATGCAAACCCCCAACCCATACCCAAATCCA--------------------------------------------------------------------------------TGCTCCTTGTCTCTCTCTCTCTCTCTTTCTCTC-----TCTCTCT-------------CTCTCTCTCCACTTTTGTTTCATGCTGCAC---TCGC------TGGCTCTTG---TTGAATGTT-CAGACATATTCTTTAATA
droMoj3 scaffold_6540:20694202-20694463 + CCGAGCCCTATCCCGGTGAGTTTCGTAGAGTT-TAAAGCTCACA--CTTTGCTCGCCAACAA----GC-----GCACGCGAAAGCTCTACCCAAACTCAC--TATGAAAATCTATACTCCAAACCCGAATCCAATCTTCGTGGATTCCATCATCGTGTCTCT-CT---------CTCTCTCTC--TCTCTCTC-----------------------------------------------------TCTCTCTGTTTGTCTTTCTGGATCTCTTTCTTTCTTTTGGTATTTCATGCTGCTC---TCGC------TGGCCTTG-A--TCAAATGTT-CAGACATCTTCTTCAACA
droGri2 scaffold_14906:340737-340980 + CGGAACCGTATCCGGGTGAGTTTCGTAGGGTT-TAAAGCAACAAAACTTTGCTCGCCGACAC----GC-----GTACGCGAAAGCTCTACCCAAACTCAC--TATGGAAACC-----------------------------------------CGTATCCCA-AC---------CCCCCAAAT--AATCC-----AACCAATATCCCAATCCTGGCCTGTTCGTTCTCGTGTTCTTTGCTTTTCTC-----TTCTGCTCTTTCTTG-------------------------CCTGCTGCGATTGCTGCTT------GTTTTG-C--TAAAATGTT-TAGACATATTCTTCAATA

dme-mir-309 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:15549196-15549294 - AA-------GTTT---GGAATAG-CAATTATACGACAAACCTTGTTCGGTTTTGCCA----------------ATTTCCA------AG-CCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAACGA--------------C-GACC
droSim1 chr2R:14254629-14254727 - AA-------GTTT---GGAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCCA----------------ATTTCCA------AG-CCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAACGA--------------C-GACC
droSec1 super_1:13063923-13064021 - AA-------GTTT---GGAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCCA----------------ATTTCCA------AG-CCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAACGA--------------C-GACC
droYak2 chr2R:13623487-13623590 + AA--GCAAAGTTT---GGAACAG-CAATTATACGACAAACCTTGTTCTGTTTTGCCA----------------ATTTCCT------AG-CCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAACGA--------------C-GACC
droEre2 scaffold_4845:9749440-9749538 - GA-------GTTT---GGAACAG-CAATTATACGACAAACCTTGTTCGGTTTTGCCA----------------ATTTCCT------AG-CCAGCACTGGGTAAAGTTTGTCCTATAATCCCGAAACGA--------------C-GACC
droAna3 scaffold_13266:9731105-9731197 + GA-----------------AGAT-C-ATTATACGACAAACCTTGTTCGGTTTTGCCA----------------ATTTCCT------A--GCAGCACTGGGTAAAGTTTGTCCTATAATCTATAAAAAA--------G-----CCGTCC
dp4 chr3:12677873-12677971 - AA-------CTAT---CTCGGAA-CTATTATACGATAAACTTTGTTCAGTTTTGCCA----------------ACTTGCT------T--GCAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGTAA--------G-----C-GATC
droPer1 super_2:8905688-8905793 + AAAAACGAACTATCTCGGA---A-CTATTATACGATAAACTTTGTTCAGTTTTGCCA----------------ACTTGCT------T--GCAGCACTGGGTGAAGTTTGTCTTATAATCCCACAGTAA--------G-----C-GATC
droWil1 scaffold_180701:1652063-1652174 - A---------TTT---CATATAA-T-ATTATATGATAAACTTTGTTCAGTTTTGCAATCAAAAAATCAAGAAAA-TTCCT------TA-GCATCACTGGGTGAAGTTTGTCTTATAATCTTTAAACTA--------------C-AATC
droVir3 scaffold_12875:4111798-4111897 + TA---------------TAACAA-ATATTATATGGTAAACTTTGTTCAGTTTTGCCA----------------GGCTCTT-TTTGTGC-GCATCACTGGGTGAAGTTTGTCGTATAATCGCAAAAAGA--------------A-CAGC
droMoj3 scaffold_6496:20937092-20937209 - TA-------TACA---AGAACAGAATATTATAAGGTAAACTTTGTTCAGTTTTGCCG----------------GGTTCTATGTTGTGC-GCATCACTGGGTGAAGTTTGTCGTATAATCG--AAACGAAACAGCAAGGAAAAA-GTCC
droGri2 scaffold_15112:2109131-2109231 - AA-------ATAT---ATAATTA-C-ATTATATGGCAAACCTTGTTCAGTTTTGACA----------------ACTTTGTTTCTGTGCATCATCACTGGGTGAAGTTTGTCGTATAATC--GAAATG-----------------GATC

dme-mir-310 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16471242-16471360 - AAAAGTGTTT------GC----G-----------------------AAAACATAAACATTTGCAGGGC-GGGTCGTGTGTCAGTGTATTTAT-------------ATCT-TAGC----------TATATTGCACACTTCCCGGCCTTTAAATGTCCA---ATGTTTCAACATT-------------TAAATCT-----
droSim1 chr2R:15132542-15132660 - AAAAGTGCTT------GC----A-----------------------AAAACATAAACATTTGCAGGAC-GGGTCGTGTGTCAGTGTATTTAC-------------TTCT-TAGC----------TATATTGCACACTTCCCGGCCTTTAAATGTCCA---ATGTTTCAACTTT-------------AATATCT-----
droSec1 super_1:14025465-14025583 - AAAAGTGCTT------GC----A-----------------------AAAACATAAACATTTGCAGGAC-GGGTCGTGTGTCAGTGTATTTAC-------------TTCT-TAAC----------TATATTGCACACTTCCCGGCCTTTAAATGTCCA---ATGTTTCAACTTT-------------AATATCT-----
droYak2 chr2R:12724925-12725037 + CTT-------------GC----A-----------------------AATACACAAACATTTGCAGGAC-GGGTCGTGTGGCAGTGTATTGAT-------------TTCT-TAGC----------TATATTGCACACTTCCCGCCCTTTAAATGTCCA---GTGTTTCGACTTG-------------GATATCT-----
droEre2 scaffold_4845:10616419-10616531 - CTT-------------GC----A-----------------------AATACACAAATATTTGCAGGAC-GGGTCGTGTGTCAATGTATTGAT-------------CTCT-TAGC----------TATATTGCACACTTCCCGCCCTTTAAATGTCCA---GTGTTTCAACTTG-------------AATATCT-----
droAna3 scaffold_13266:4133041-4133158 + AATAGC----------------------------------------AAAACATAAACACTTGCAGGAC-GGGGAGCGTGACAATATATATAT-------------TTTA-TAAA--------CATATATTGCACACCTCCCGGCCTATAAGTGTAAA----TGTTCCTACAGG-------------TAAAACTTCTAA
dp4 chr3:8679992-8680133 + ATTATAGTGT------GCGGAGTATGTGCTGTGTAT--T-------TGTACACCAACATTTGTGCGTCTAAGATCTGT-GCAGTATATACAT-------ACATAG-AA-TACAA----------AATATTGCAGACTTCTCAGACTACAAATGTGAA---CTGTCTGGTCTTC-------------AAAAAAT-----
droPer1 super_4:2566796-2566912 + CTGTGCATTT------G-------------------------------TACACCAACATTTGTTCGTCTAAGTTCTGTG-CAGTATATACAT-------ACATAG-TT-TAAAA----------AATATTGCACACTTCTCAGACTACAAATGTGAA---CTGTCTGGTCTTC-------------AAAA--------
droWil1 scaffold_180700:3453399-3453550 + GAAGGAGTCAATGACCAC----A-----------------------AATTTTCAAACATTCTTTGGAC-GGACTT-GT-CAAATATGTTTGG-------ATATAAAATT-CAACAATTGGACAACATATTGATCAAAACCGGGCCAAAAATTGTTGG---AAAATTCTTCAAAGTTGTTGGACTTGACAATTT-----
droVir3 scaffold_12875:13668721-13668866 - AAAACAATTT------GG----TAAATACTGCGCATAGCCTTGCGCCTTATGTAATCATTTTTAGGCC-GTGCTCTGTGTGAATATGTTTTT-------------AACTATAAT----------CATATTGCACATCTCCCGGCCTATAAGTGTAGATGCATAATTCATCAAA-------------TATAAAT-----
droMoj3 scaffold_6496:9090283-9090389 - TGT--------------------------------------------------ATCCATTTTTAGGCC-GTGCTATGTGACAATATGTATTT-------AAATTG-TA-TTTAT----------CATATTGCACATCTCCCGGCCTACAAGTGTAAATGCACAATTCAACT----------------ATGTAC-----
droGri2 scaffold_15245:17564471-17564548 + C--------------------------------------------------------------AGGAT-GGAAGCTGTGACAATATGTAGGTTTTAATTAATTTA-TA-TTTCA----------TATATTGCACACCTCCCGGCCTATAAATG---------------------------------------------

dme-mir-311 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16471367-16471480 - TGAAAA-----------------A-TCG---AAATTTCTAGATCATTTTTCGGA--CGGTATATGGGTTAATATTTCAT------------TTGTCGAATATATTGCACATTCACCGGCCTGAAAATATCA-A--GAATT-------AACATC-----------------------------------GAA---AAG
droSim1 chr2R:15132667-15132782 - TGAAAA-----------------A-TCG---AAATTTCTAGATAATTTTTCGGA--CGGTATATGAGTCAATATTTTCT----------TTTTTTCGAATATATTGCACATTCACCGGCCTGAAAATATCA-A--GAATT-------AGCATC-----------------------------------GAA---AAA
droSec1 super_1:14025591-14025696 - GAAA------------------------------TTTCTAGATAATTTTTCGGA--CGGTATATGAGTCAATGTTTTCT------------TTTTCGAATATATTGCACATTCACCGGCCTGAAAATATCA-A--GAATT-------AGCATC-----------------------------------GAA---AAA
droYak2 chr2R:12724807-12724923 + TTTAAA-----------------AA-TATCTCACTTTCTAGATAGTTTTGCGGA--CGGTATCTGCGTCAATATTTCCT------------TGTTAGAATATATTGCACATTCACCGGCCTGAAAATATCA-A--GGACT-------TGCATC-----------------------------------GAA---AAG
droEre2 scaffold_4845:10616532-10616644 - TTGAAA-----------------C-CCC---TA-ACCCTAGATAGTTTTTCGGA--CGGTATCTGCGTCAATATTTCCT------------TGTTAGAATATATTGCACATTCACCGGCCTGAAAATATCA-A--GGACT-------TACATC-----------------------------------AAA---AAG
droAna3 scaffold_13266:4132915-4133034 + AGAGAA-----------------A-TAT---TTGTTGCCAGATTATCTTCAGGA--CGGTATTTGTGTCAATATGGATA-------------TTTCAAACATATTGCACTTATACCGGCCTGATGATCTCC-G--GCGCTCGTCATCTGTGAC-----------------------------------TAA---AAG
dp4 chr3:8679876-8679985 + CATCGA-----------------GC-TGCTTTGATTTGTA-----------GGC--CGTGGTTCTTGCAAATACGGATT---------------CATAACGTATTGCACTAGCCCCGGTCCAAAAAACAAT-A--GCAA-CGCC---GGCAAC-----------------------------------AGCAAAGTA
droPer1 gnl|ti|732560583:591-697 + CATCGA-----------------GC-TGCTTTGATTTGTA-----------GGC--CGTGGTTCTTGCAAATACGAATT---------------CATAACGTATTGCACTAGCCCCGGTCCAAAAAACAAT-A--GCAA-CGCC---GGCAAC-----------------------------------AGC---AAA
droWil1 scaffold_180700:3453290-3453392 + TAAT-------------------------------TTATA-----------GGCTTCGGGGT-TGTTGCAAAATGGTTTATTCT-----AATAACTCCCCATATTGCACCTTTTCCGGCCTCTAAATTAACTTTTG-----------AACATCCCG--------------------------------GGT---GGG
droVir3 scaffold_12875:13668876-13669002 - GAAAAA-----------------C-TAG-TGCGTCCGCATGACCATTTTAAGGA--CGGTATTTGTGACAATATGTGCAG-TTAAATCAATTTGTTTAGCATATTGCACATCTCCCGGCCTAAAAATGAAC-C--GTGCT-------CTCTTC-----------------------------------GAT---ATA
droMoj3 scaffold_6496:9090405-9090568 - AAACGAAAAATGTCAAATTTTCAGC-TG---------------CGTTTGCAGGA--CGGTATTTGTGACAATATGAATTATTGAAATCAATTTATTCAGCATATTGCACATCTCCCGGCCTATAAAACAGT-T--GTGA-GCCC---GTCGAT---TTAAATGATTTGTGTATTTAAAATAAATTTTCACC-----A
droGri2 scaffold_15245:17564385-17564474 + AAAT-------------------------------TTGCAGTTCGTGTTTAG------T-----------GTTTTTTCC------------CGCTTAAGCATCTTGCAAATTATATGGCTTGCAGTTATCT-G--CATTA-------ACCATT-----------------------------------TTC---AGG

dme-mir-312 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16471546-16471641 - AATTAAGTT-TGAAGCGATTTGGTTCGTCACAAGGGCAATTCTGCATT--TTTTAACTAGTATTGCACTTGAGACGGCCTGATTA--CTTTA-----AAACGAATC
droSim1 chr2R:15132834-15132929 - AATTAAGTT-TAAAGCGTTTTGGTTCGTCACAAGGGCAATTCTGCATT--TTTAAACTTGTATTGCACTTGAGACGGCCGAATTA--CTTTA-----AAAAGAATC
droSec1 super_1:14025748-14025843 - AATTAAGTT-TAAAGCGTTTTGGTTCGTCACAAGGGCAATTCTGCATT--TTTAAACTTGTATTGCACTTGAGACGGCCGAATTA--CTTTA-----AAAAGAATC
droYak2 chr2R:12724685-12724781 + AATTGCGTT-TGAAGCGCTTCGGTTCGTCCCAGGAGCAATTCTGCACTA-TTAAAGCTAGTATTGCACTTGAGACGGCCGGATTA--CTTTT-----AAACGAATC
droEre2 scaffold_4845:10618147-10618242 - AATTAAGTT-TGAAGCGCTTCGGTTCGTACCAGGAGCAATTCTGCATT--TTTAAGCTAGTATTGCACTTGAGACGGCCGGATTA--CTTTT-----AAACAAAAC
droAna3 scaffold_13266:4132676-4132765 + TCTACAAT--------TTTCCGGTGCGTCTCTAGTGCAACTCTTGGTTT-TTTATACAAGTATTGCACTTGAGACGGCCGAAATA--TAGTG-----GATCTAAGC
dp4 chr3:8679756-8679828 + G---------------------------------GGCAATACTGTGTTGTATTTCACCAGTATTGCACACCCACTGGCCTGAAAGTGCCTACTGCTGGGTTCAACA
droPer1 gnl|ti|732455623:23-94 + G---------------------------------GGCAATACTGTGTTGTATTTGAACAGTATTGCACACCCACTGGCCTGAAAGTGCCTACTGCTGGGTTCAA--
droWil1 scaffold_180700:3453141-3453235 + CATAAACTCGAAAATTTTTTAGGTTCGTTTAGTCTGCAAATT-GTAAT--ATACGAAAATAATTGCACACTTCACGGCCGGAAAA--GTTCA-----AGTTAAACA
droVir3 scaffold_12875:13669041-13669063 - AGCTATATT-T-----------------------------------------------------------------------------TTCA-----GGCCGTGTC
droMoj3 scaffold_6496:9090603-9090622 - GTCTGCAAT-TTAAGCTTCTT-------------------------------------------------------------------------------------
droGri2 scaffold_15245:17564268-17564358 + AAGCAAATC-TTCAGTTTTTCGGCTGTGGTTAGTGTCAATTCTTTTT---ATTTGACAAGCATTGCACTCTTCACGGCCGGATAA--AT---------GAGGGTCT

dme-mir-313 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:16471680-16471780 - TCGTTCT--AGCCAACAA---TTTTCTGCTGCGGATGGGGGCAGTACTG--------------------------TTTTTTTAACATT--GAGTATTGCACTTTTCACAGCCCG-----AAAATGTTAGCAACTGC-CTT
droSim1 chr2R:15132971-15133071 - TCGATCT--AGCCAACAA---TTTTCTGCTGCGCATTGGGGCACTACTG--------------------------TTTTTTTTAAATT--GAGTATTGCACTTTTCACAGCCTT-----AAAATGTTAGCAACTGC-CTA
droSec1 super_1:14025885-14025985 - TCGATCT--AGCCAACAA---TTTTCTGCTGCGCATTGGGGCACTACTG--------------------------TTTTTTTTTAATT--GAGTATTGCACTTTTCACAGCCTT-----AAAATGTTAGCAACTGC-CTA
droYak2 chr2R:12724540-12724640 + TCTACGT--AGCCAACAA---TTTTCGGCTGTGGATTGGGCTAGTACTG--------------------------TGATTTTAGCATT--AAGTATTGCACATTCCCCAGCCTG-----AAAGTGTTAGTAACTGC-CAA
droEre2 scaffold_4845:10618281-10618381 - TCGATGT--AGCCAACAA---TTTTCGGCTGTGGAGTGGGCTAGTACTG--------------------------TGATTTTAACATT--GAGTATTGCACATTCCCCAGCCTG-----AAAGTGTTTGCATTTGC-CAA
droAna3 scaffold_13266:4132526-4132623 + TTT--GT--AGTCAGCAT---TTCCAGACTGTGGTTTGGGCAGATACTA--------------------------CATTTT--AGGAT--CAGTATTGCACATTCCCCAGCCTG-----GAAACGCTTGCGACAGA-CCT
dp4 Unknown --------------------------------------------------------------------------------------------------------------------------------------------
droPer1 super_4:2566453-2566554 + TTCGTGTTCGGTGGATAC---CTTCAAGCTGGGGGATGGG-CAATACTG--------------------------TGTTGTATTTGAA--CAGTATTGCACACCCACTGGCCTG-----AAAGTGCCTACTGCTGG-GTT
droWil1 scaffold_180700:3452993-3453102 + TTAATTATTTGTCCAAATTTAGTTCTGGCTGCGGTTTGTGCAAATTACT---T----------------------ATTTT--TTTGTA--AAGTATTGCACAACCTACAGCCTGGCACTAAATGGAGAAAAATCAT-CAA
droVir3 scaffold_12875:13669100-13669187 - T---------------------TTTCGGCTGTGGTCAGTGTCAATTCTT--------------------------TTTTTTTATTTTTACAAGTATTGCACTTTTCACGGCCGG-----AAAAATTGAGATTCCATTTAA
droMoj3 scaffold_6496:9090655-9090750 - TTT--TT--TGCATTCGT---TTTCCGGTTGTGAATTGTGTCAATTCTT--------------------------TTTATTTTAC-----AAGTATTGCACTTTTCACGGCCGG-----AAAAAGGATAAAATATT-TAA
droGri2 scaffold_15245:17564118-17564229 + TCATTAT--CCCGAACAA---CATCATTCCGCGCTCGGCTTTAGAATTTGTTCCTTATTTTGTGAGGATAATTTACAATTC--GAAGA--TAATAT-----------TGGC-AG-----GATATG-TTACAGTTCC-TCT

dme-mir-316 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:21661799-21661917 - GAAAA--------------------------------------------GTGGATACAC-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTCAATTCCACAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTGCTCAGCGATT------------------------------TGCA------------------------------------
droSim1 chr3L:21004826-21004944 - GAAAA--------------------------------------------GTGGATACAC-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTCATTTCCACAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTGCCCAGCGACT------------------------------TGCA------------------------------------
droSec1 super_11:1581867-1581985 - GAAAA--------------------------------------------GTGGATACAC-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTCATTTCCACAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTGCCCAGCGACT------------------------------TGCA------------------------------------
droYak2 chr3L:18849495-18849613 + GAAAA--------------------------------------------GTGGATACAC-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTCATTTCAACAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTGACCAGCGATT------------------------------TGCA------------------------------------
droEre2 scaffold_4784:21318808-21318933 - GAAA-------------------------------------TACACAAAGTGGATACAC-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTCATTTCAACAACGACAGGAAAGGGAAAAAGGCGTATTCACTATGAGTTTGGCCAGCGACT------------------------------TGCA------------------------------------
droAna3 scaffold_13337:3985740-3985858 - CAAGA--------------------------------------------ACATATATTC-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTAATTCAAACAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTGGTCAACATTT------------------------------CGTC------------------------------------
dp4 chrXR_group6:4548558-4548677 + GTAAA----------------------------------A-TATACAAAG-----ATC-AAAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTTATTCGATCAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTATCCAACAA---------------------------------ACA------------------------------------
droPer1 super_9:2845596-2845715 + GTAAA----------------------------------A-TATACAAAG-----ATC-AAAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTTATTCGATCAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTATCCAACAA---------------------------------ACA------------------------------------
droWil1 scaffold_180698:1092691-1092806 + ATATA--------------------------------------------ATGTATGTAT-AAATTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTTATTTAACTAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAGTTTAATCAACAAAT------------------------------T---------------------------------------
droVir3 scaffold_13049:24266823-24266971 + ATATC--------------------------------------------TTTGATCTATAAAGTTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTTATT-GAGCAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAATTTGTTCAACCAATCTGTTTAAACACCTATTCAATGAAAAGAAATGCT------------------------------------
droMoj3 scaffold_6680:18891183-18891347 + GATCTA--ACTGAATCGATTTT--------------------------------TATATAAAGTTCTAGTCGATTTGTCTTTTTCCGCTTACTGACGTTTTATT-GAACAACGGCAGGGAAGGGAAAAAGGCGTATTTACTATGAATTATTTCAACGATA------------------------------TAAAAATTTCTATTAAAATAATAATCAGAGTGAGAGAGGG
droGri2 scaffold_15110:9482044-9482193 - TACCAGAGACTAAA-CATTTTGTGTATAAGTATTGTATGATTAAGCAATC-----TTC-AGAGTTCTAGTCGATTTGTCTTTTTCCGCTTACTGGCGTTTTATT-GAGCAACGACAGGAAAGGGAAAAAGGCGTATTTACTATGAATGTAATCAACAA------------------------------------------------------------------------

dme-mir-4977 five_prime_UTR Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:3294222-3294357 - TTTTCGTTTAC-----TTTTTAACCCTCCGCT--CGAGAACGTGGTTTCT---TTTGCGACGTGCAATACTCT------------------------------------------------------------------------GTGGCAGAAGTCT-TGC-ACCGTTCCAAAAGAG-AGCAGCACGTGGAGCGACGAGAACGGCCG-TACAATACCCAAG
droSim1 chrU:460991-461115 - TTTT----------------TAACCCTCCGCT--CGAGAACGTGGTTTCT---TTTGCGACGTGCAATACTCT------------------------------------------------------------------------GTGGCAGAAGTCT-TGC-ACCGTTCCAAAAGAG-AGCAACACGTGGAGCGACGAGCACGGCCG-TACAATACCCAAG
droSec1 super_1:944262-944397 - TTTTCGTTTAC-----TTTTTAACCCTCCGCT--CGAGAACGTGGTTTCT---TTTGCGACGTGCAATACTCT------------------------------------------------------------------------GTGGCAGAAGTCT-TGC-ACCGTTCCAAAAGAG-AGCAGCACGTGGAGCGACGAGCACGGCCG-TACAATACCCAAG
droYak2 chr2L:15977521-15977656 - TTTTCGTTTAC-----TTGTTAACCCTCCGCT--CGAGAACGTGGTTTCT---TTTGCGACGTGCAATACTCT------------------------------------------------------------------------GTGGCAGAAGTCT-TGC-ATCGTTCCAAAAGAG-AGCAGCACGTGGAGCGACGAGCACGGCCG-TAAAATACCCAAG
droEre2 scaffold_4929:19300554-19300689 + TTTTCGTTTAC-----TTTTTAACCCTCCGCT--CGAGAACGTGGTTTCT---TTTGCGACGTGCAATACTTT------------------------------------------------------------------------GTGGCAGAAGTCT-TGC-ACCGTTCCAAAAGAG-AACAGCACGTGGAGCGACGAGCACGGCCG-TACAATACCCAAG
droAna3 scaffold_13266:3498798-3498932 - ACCC-CTTTAT-----TTTTATTTTCACCGTT--CGAGAGGGTGTTCTCTTTGTTTTCGGCGTGCAAAACCCT------------------------------------------------------------------------TTG--AGAAGTTT-TGC-ATCGTTCGAAATTAGGGGCAGCACCTCGAACA--GTACACGGCCG-TAAAATTCCTAAA
dp4 chr3:1570003-1570137 - TTTTTGGTT---------TTGT----------TTTGAGAACGTGCCTTCTTT-TTTTTGGCGTGCAACACTT---------------------------------TTTTC---------------------------GCGTCTCTGTGG-AAAAGTTT-TGC-ATCGTTTCAAAAAAAAAGATACACGTCGA----CACATACGGCCGCTAAGATTCCAAAA
droPer1 super_2:1744183-1744317 - TTTTTGGTT---------TTGT----------TTTGAGAACGTGCCTTCTTT-TTTTTGGCGTGCAACACTT---------------------------------TTTTC---------------------------GCGTCTCTGTGG-AAAAGTTT-TGC-ATCGTTTCAAAAAAAAAGATACACGTCGA----CACATACGGCCGCTAAGATTCCAAAA
droWil1 Unknown TTTTTTTTTTT-----TGTTTTACCTTTTTGT--TGAGGAAA---------------------------CATTTCAAAAAATTCTCCGTTTAAGTGCAAGAAACG-------------------------------------------------TGCTCTGCCTACG--CCAAA-----A----------------GTAATACGGCCGTAAACATTCCAAAA
droVir3 scaffold_12875:10810504-10810650 - TTTTGATTTACTTTAATTTCGTTTGCATCGAT--T-AAAACGTGT-TTG----TTTG---CGTGCAATCACT--------------------------------TTTTCCACCGTGTC----------------CCGGC--GTGTGCGA-GAAAGTCT-TGC-AACGTACAA-------AACAACACGTTGA----TAAGCACGGCCGCAAAAATTCCCAAA
droMoj3 scaffold_6496:16132312-16132448 + TTTT--------------------GCATCGAT--T-AAAACGTGT-TTG----TTTGCG-TTTGCAACAACT--------------------------------TTTTCCACCGTGTCCCCCA-----------CCGGCGTGTGTGCGA-AAAAGTCTTTGC-AACGTTCCAAA-------CAACACGTCGA----TAAGTACGGCCGCAAAAATTCCTAAA
droGri2 scaffold_15245:3916304-3916452 - TTTTCGTTTG---------------CATCGATTGT-GAAACGTGT-TTG----TTTGTAGCGTGCAACACACT-------------------------------TTTT-CAC----T--CCCACCCAGCGTGTGT--GTGTGTGTGTGA-AAAAGTCTGTGC-AACGTTCAGA------AACAACACGTCGAA----CTCTACGGCCGCAAAAATTCCCAAA

dme-mir-4987 CDS Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:10840329-10840491 - ATCAGTCGT---CTGTTGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGATTCTCACAGCAGGGCTCCAGCTCGGCCAAAAAATCGGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGAACAAGAAGAAAATGGT-------
droSim1 chr2L:10648081-10648243 - ATCAGTCGT---CTGTTGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGATTCTCACAGCAGGGCTCCAGCTCGGCCAAGAAATCGGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGAACAAGAAGAAAATGGT-------
droSec1 super_3:6258415-6258577 - ATCAGTCGT---CTGTTGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGATTCTCACAGCAGGGCTCCAGCTCGGCCAAGAAATCGGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGAACAAGAAGAAAATGGT-------
droYak2 chr2L:7248063-7248225 - AACAGTCGT---CTGTTGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGATTCTCACAGCAGGGCTCCAGCTCGGCCAAGAAATCGGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAAAACAAGAAGAAAATGAT-------
droEre2 scaffold_4929:14589948-14590110 + ACCAGTCGT---CTGTTGGTGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGATTCTCACAGCAGGGCTCCAGCTCGGCCAAGAAATCGGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGAACAAGAAGAAAATGAT-------
droAna3 scaffold_12916:14695622-14695781 - ACCAATCGT---CCGTGGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGAGCGGCACGTTTCTCGCAGCAGAGCTCCGGCTCAGCCAAGAAATCTGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGAACAAAAAGAAGAT----------
dp4 chr4_group4:3045338-3045500 - AACAATCGT---CTGTGGGTGGGGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGGGCGGCACGTTTCTCGCAGCAGGGCTCCGGCTCGGCTAAGAAATTTGTCGTCGCCATTGCAAGTTCGCCTTTTGGTCTCACCACGGCCAAAAACCGGAAGAAACTGAT-------
droPer1 super_10:2060188-2060350 - AACAATCGT---CTGTGGGTGGGGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGGGCGGCACGTTTCTCGCAGCAGGGCTCCGGCTCGGCTAAGAAATTTGTCGTCGCCATTGCAAGTTCGCCTTTTGGTCTCACCACGGCCAAAAACCGGAAGAAACTGAT-------
droWil1 scaffold_180703:3531157-3531322 + AACATTCGAGTAGTGTTGGCGGTGCCGTTGACGATGACTCAGCGCGTTTGCAACAGCGTGCGGCACGATTCTCTCAGCAGGGCTCTGGTTCGGCTAAGAAATCGGTCGTTGCGATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGAATAAGAAGAAAATGTT-------
droVir3 scaffold_12963:15772752-15772915 + ATTCGTCGT---CGGTGGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGTTTCTCACAGTCGAGCAGCGGCTCGTCTAAGAAATCTGTCGTCGCAATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGCACAAGAAGAGATTGCAG------
droMoj3 scaffold_6500:18770378-18770547 + ATTCGTCGT---CGGTTGGCGGTGCTGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGTTTCTCACAGACGAGCGGTGGCTCGGCTAAGAAATCTGTCGTCGCAATTGTAAGCTCACCGTTTGGTCTCACCACGGCCAAGCACAAGAAGAGATTGCAGGCCTCG
droGri2 scaffold_15126:2074135-2074298 - ATTCGTCGT---CGGTGGGCGGTGCCGTTGATGATGACACAGCGCGCTTGCAACAGCGTGCGGCACGTTTCTCACAGTCGAGCAGCGGCTCGGCAAAGAAATCTGTCGTCGCCATTGCAAGCTCACCGTTTGGTCTCACCACGGCCAAGCACAAGAAGAGATTGCAG------

dme-mir-955 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:3299040-3299166 + TAAGGAACACTTTTTGGCC--AGCTAATCAACTCCATCGTGCAGAGGTTTGAGTGTCCTGT---GTTTTGCCTAATCGCATTCAATTTCTGAACGGTAGAGATGGTACGCTTAGAAACAACCTAAA--ACAA-------------------------------------------------TT
droSim1 chr3L:2834561-2834687 + TAAAGAACACTTTTTGGCC--AGCTAATCAACTCCATCGTGCAGAGGTTTGAGTGTCCTGT---GTTTTGCCTAATCGCATTCAATTTCTGCACGGTAGAGATGGTACGCTTAGAAACAACCTAAA--AAAA-------------------------------------------------TT
droSec1 super_2:3291343-3291466 + TAATAAACACTTTTTGGTC--AGCTAATCAACTCCATCGTGCAGAGGTTTGAGTGTCCTGT---GTTTTGCCTAATCGCATTCAATTTCTGCAG---AGAGATGGTACGCTTAGAAACAACCTACA--AAAA-------------------------------------------------TT
droYak2 chr3L:3844747-3844864 + TAAAGTAAA---------C--AGCTAATCAACTCCATCGTGCAGAAGTTTGAGTGTCCTGT---GTGTTGCCTAATCGCATTCAATTTCTGAACGGTAGAGATGGTACGCTTAGAAACAACCTAAA--ATGA-------------------------------------------------GT
droEre2 scaffold_4784:5981989-5982116 + AAGGAATACACTTTTGTCC--AGCTAATCAACTCCATCGTGCAGAGGTTTGAGTGTCTTGT---GTGTTGCCTAATCGCATTCAATTTCTGAACGGTAGAGATGGTACGCTTAGAAACAACCTAAA--GCAA-------------------------------------------------GT
droAna3 scaffold_13337:7606422-7606539 + TGAAGGATGTTTTTTGAGA--AGCTCATCAGCTCCATCGTGCAGAGGTTTGAGTGTCTAAT----TTTTAACCATTCGCATTCAACCTTTGGACGGTAGAGATGGTCAGTGAGAAAGCAACCTA-----------------------------------------------------------
dp4 chr4_group1:2379981-2380081 + AATT----------TAAAA--AAATGAATAAATTCAAATGACAAAAATGTAAATGAATTAA-----------AAAATAAATTCAAATGATAAAAAGTAAA----------TGAATAAAAAAATAAAGTAAAA-------------------------------------------------TT
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_180698:10215726-10215851 + ATTCAAATACTTTTGCGTTAAGGTTGGCTGGCTCCATCGTGCTTAGGTTTGAGTGTCTTCGTTTGTTTTCTCTAATGGCATTCAACCTTGGAGCGATAGAGACGGCCAATCGAGAAACAGCCTAAA---------------------------------------------------------
droVir3 scaffold_12758:855562-855687 - TATGTATGGATCTCTCATC--AGTTAGCTAGCTCCATCGTGCACAGGTTTGAGTGTT-TGA---GTTTTTCCTAGTGGCATTCAACCTTTGAACGGTAGAGATGGCCAACTGAAAAGCGACCTAAA--CTAA-------------------------------------------------TA
droMoj3 scaffold_6680:1909563-1909732 - TCAGGTATCCAATATG-----GGTTAGCGAGCTCCATCGTGCACAGGTTTGAGTGTT-TGT---GT-TTGGCTAGTCGCATTCAGCCTTTGAACGGTAGAGATGGCCAACTGAAAAGCGACCTAAC---TGAAAGCGAATCAAGGGAACTAGGCCAATAGGCGAGAATCATATAGAAATAGTT
droGri2 scaffold_15110:657067-657177 + TAAAG-----------------GTTGGCGAACTCCATCGTGCACGGGTTTGAGTGTC-TGA---GT-TTGCCAAGTGGCATTCAGCCCCTGGACGCTAGAGATGGCCAACTGAAAAGCAACCTAAA--AA------------------------------------------------CAATC

dme-mir-956 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3L:11766816-11766993 - ATGAGC-ACTTTTCCTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCAAGTGCTCG-GCTCA-CTGGCCC---------------------AAATGCAGTTTGCC-C-GGAGA--------------CGCCGGT---------------TAACCCAG--------------CACTGAAATGTGTAGTTTCGAGACCACTCTAATCCATTGCAGCATTTTCAACAATATGCAAA
droSim1 chr3L:11132280-11132457 - ATGTGC-TCTTTTCCTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCAAGTGCTCG-GCTCA-CTGGCCC---------------------AAATGCAGTTTGCC-C-GGAGA--------------CGCCGGT---------------TGCCCAAG--------------CACTGAAATGTGTAGTTTCGAGACCACTCTAATCCATTGCAGCATTTTCCACAATATGCAAA
droSec1 super_0:3951754-3951931 - ATGAGC-TCTTTTCCTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCAAGTGCTCG-GCTCA-CTGGCCC---------------------AAATGCAGTTTGCC-C-GGAGA--------------CGCCGGT---------------TGCCCAAG--------------CACTGAAATGTGTAGTTTCGAGACCACTCTAATCCATTGCAGCATTTTCCACAATATGCTAA
droYak2 chr3L:11795661-11795838 - ATGTGC-ACTTTTCCTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCAAGTGCTCG-GCTCA-CTGGCCC---------------------AAATGCAGTTTGCC-C-GGAGG--------------AGCCGGT---------------TTACCCAG--------------CACTCAAGTGTGTAGTTTCGAGACCACTCTAATCCATTGCACCATTTTCCACTATATGCAAA
droEre2 scaffold_4784:11744386-11744563 - ATGTGC-ACTTTTCCTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCTAGTGCTCG-GCTCA-CCGGCCC---------------------AAATGCAGTTTGCC-C-GGAGA--------------TGCCGGT---------------TTCCTCAG--------------CACTCAAATGTGTAGTTTCGAGACCACTCTAATCCATTGCAGCATTTTCCACAATATGCAAA
droAna3 scaffold_13337:6020232-6020390 - ATGTGC-ACTTTTCTAGATCGTTATCGCGTTTGGAATGGTCTCGTTAGCTAACGAATGGACTA------------------------------------------AAATGCAATTTGCA-A-TTCGG--------------CGCCAAT---------------TATCCAGG--------------CGCCAAAAAGTTTAGTTTCGAGACCACTCTAATCCATTGCATGATCTTCACTTGTATGCAAA
dp4 chrXR_group8:4341287-4341484 + ATGTGC-ACTTCTACTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCAACTGCTTGCGCGCA-TTGGCC----------------------AAATGCATTTCGCA-C-CGGGATGGATGTG--GATG-------TGGCTGGATGTGGTGTCCCCAAG--------------CACAGCCAGGTGTAGTTTCGAGACCACTCTAATCCATTGCACCGCCCACCCATTTATGCAAA
droPer1 gnl|ti|732454354:721-914 + ATGTGC-ACTTCTACTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAGCAACTGCTTGCGCGCA-TTGGC-----------------------AAATGCATTTCGCA-CCGGA--TGGATGTG--GATG-------TGGCTGGATGTG-TGTTCCCAAG--------------CACAGCC-AGTGTAGTTTCGAGACCACTCTA-TCCATTGCACCGCCCACCCATTTATGCAAA
droWil1 scaffold_180949:2569086-2569314 + ATGTGC-AATTATACTGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAACAAGTGCTTG-GGGCAATTGAGCCAAAAACAAAACAGAAAAAAGAAAATGCACTTTGCCAT-CAAAACGAATGTGCGAATATGCAATT---------------TGGCCAGGCTCCTCGAACATAACACTAAGAGGTGTAGTTTCGAGACCACTCTAATCCATTGCCACATTTTTCACAATATGCAAA
droVir3 scaffold_13049:23989392-23989532 - ATGCGCGAAATTTAACGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAACA---------------TTGACCA---------------------AAGCGCACCTT----------------------------------------------------------------------ACAGCGTAGTGTAGTTTCGAGACCACTCTAATCCATTGCATCGTTTCTGGGCATATGCAAA
droMoj3 scaffold_6680:18620871-18621011 - ATGTGCGAAATTCAACGATCGTTATCGTGTTTGGAATGGTCTCGTTAGCTAACGGATGAACA---------------TTAACCA---------------------AAGCGCACCTT----------------------------------------------------------------------ACGGCGTAGTGTAGTTTCGAGACCACTCTAATCCATTGCACCGTTTCTTTCCATATGCAAA
droGri2 scaffold_15110:9704256-9704382 + ATGTGCGAATCTAAGCGATCGTTATCGCGTTTGGAATGGTCTCGTTAGCTAACCAAAGCGCT--------------------------------------------------CGTT----------------------------------------------------------------------ACAGCGTAGTGTAGTTTCGAGACCACTCTAATCCATTCCATCGCTTTTCATTGTATGCAAA

dme-mir-960 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5641048-5641170 + TATC---G-----TA------------CCGCCCAC---------------------G---GGTTTTGTACCACATTCTGAGTATTCCAGATTGC-ATAGCTTTGTGCTAC------TATTGCTATACGGTCTGGGACACTTTTAACATGGTATCAA-ATCAG---------ATTCA----------------CCTAATAG
droSim1 chr2L:5434134-5434256 + CATC---G-----TC------------ACGCCCAC---------------------G---GGTTTTGTACCACATTCAGAGTATTCCAGGTTGC-ATAGCTTTGTGCTAC------TATTGCTGTACGATCTGGGACACTTTTAACATGGTATCAA-ATCTG---------ATTCC----------------CCCAAACG
droSec1 super_5:3718789-3718911 + CATC---G-----TA------------CCGCCCAC---------------------G---GGTTTTGTACCACATTCTGAGTATTCCAGATTGC-ATAGCTTTGTGCTAC------TATTGCTGTACGATCTGGGAGACTTTTAACATGGTATCAA-ATCTG---------ATTCC----------------CCCAAAGG
droYak2 chr2L:13552137-13552259 - CATC---G-----CT------------TCGCCCGC---------------------G---TGTTTTGTACCAGATTCTGAGTATTCCTGATTGC-ATAGCTTTGGCCTTT------GATTGCTATACGGTCTGGGACACTTTTAACGTGGTATCAA-ATCTG---------ATTCA----------------ACCGAAGG
droEre2 scaffold_4929:5729522-5729643 + CAAC---G-----CA------------CCGCCCGC---------------------G---TTTTTTGTGCCAGATTCAGAGTATTCCAGATTGC-ATAGCTTTGGGCTTT------GATTGCTATACGGTCTGGGACACTTTAAACGTGGCATCAA--TCCT---------ATTCA----------------ACTGATGG
droAna3 scaffold_12916:11084824-11084972 + TATC---G-----GCCAATAGGCCAATTAACCCGGACC---A------ATCAATATG---AGTTTTGTGCCAGATTCTGAGTATTCCTGATTGC-ATAGCTCTGTGTTGT------GACTGCTATACGGTCTGGGACACTTCTAACATGGCATCAA-ATCTG---------TGTCAAC--------------GGCAGCAG
dp4 chr4_group4:3182464-3182586 - TGTG---G-----GT------------GTGCGTGT---------------------GTGCGGGTGTGTGCTATATTCTGAGTATTGCCTCCTGTTGTAGTTGTGGAATATTGAAATATCAACTATACGGTTCGGAATCCTCTAAATATGGCAGCC--------------------A----------------CTAAAGAC
droPer1 super_10:2201395-2201525 - TATACACGTAAATGT------------GTGTGGGT---------------------GTGCGGGTGTGTTCTATATTCTGAGTATTGCCTCCTGTTGTAGTTGTGGAATATTGAAATATCAACTATACGGTTCGGAATCCTCTAAATATGGCAGCC--------------------A----------------CTAAAGAC
droWil1 scaffold_180708:8626131-8626297 - TAAG---A-----AT------------TAACTTTGAATTGGAAACGATATTGAAA-T---GAATTTATGCTAAATTCTGAGTATTCCTGATTGC-ATAGTGTGTATTTGA------TACTACTATACGGTCGGGGAAACTTTTAACATGGCCCAAA--TGATAAATGACAGTGACAATGAAAAAGAAAATACCAAAACAG
droVir3 Unknown --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6500:14018206-14018306 + TAA-----------------------------------------------------------------GTCATGCTTTGAGTATTCCTTATTGC-ATAGTTTAC--ATAT------AATTACTATACAGTCTGGAGCACTTAAAGTTGGGCATAGACAACCG---------AACAA----------------CTTAGGAG
droGri2 scaffold_15252:3146997-3147109 + TGTT---G-----AT------------TGGCCTTG---------------------G-------TTATGCTAAATTCCAAGTATTCCTTATTGC-ATAGTTTATAAT--T------GAATACTATACAATCTGGCGTTCTTAGAATTTGTCATAAG-AC-------------TTCA----------------CATAACAA

dme-mir-962 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5641283-5641404 + GAATTCA---ACTACTT---CG-----AT-GGGGC-ACTCAGGCTATAAGGTAGAGAAATTGATGCTGTCTACACTAT--------------T----CAGACTTCAGTTTCATTACCTTTCAATTTGTTTGCCCC-CA--TGCAACAGTGA------------------------------------------TA-----G---------------------------------TA
droSim1 chr2L:5434368-5434488 + GAATCT-ACAACTACCT---CG-----AT-GGGGC-GCTCAGGCTATAAGGTAGAGAAATTGATGTTGTCTACACTAT--------------T----CAGACTTCAGTTTCATTGCCTTTCAATTTGTTTGCCCC-CC--TGCAACAGTGA------------------------------------------TA-----------------------------------------
droSec1 super_5:3719023-3719143 + GAATCT-ACAACTACCT---CG-----AT-GGGGC-ATTCAGGCTATAAGGTAGAGAAATTGATGTTGTCTACACTAT--------------T----CAGACTTCAGTTTCATTGCCTTTCAATTTGTTTGCCCC-CA--TGCAACAGTGG------------------------------------------TA-----------------------------------------
droYak2 chr2L:13551914-13552032 - GAATCCA---ACCAACT---TC-----AT-GGGGC-ACACAAGCTATAAGGTAGAGAAATTGTTGTCTTCCACACTAT--------------T----CAGACATCAGTTTAACTATCTTTCAATTTGTTTGCCCC-CA--CGCAACAGTGA------------------------------------------TA-----------------------------------------
droEre2 scaffold_4929:5729744-5729862 + GAATCCC---AGTACCT---CC-----TT-GGGGC-ACTCAAGCTATAAGGTAGAAAAATTGTTGTCTTCCACACTAT--------------T----CGGACTGCAGTTTAACTATCTTTCAATTTGTTTGCCCC-CA--CGCAACAGTGA------------------------------------------CA-----------------------------------------
droAna3 scaffold_12916:11085088-11085210 + GGGCCCA---ACCACCT---GG-----CCGAGGGC-ACTCAAGCTATAAGGTAGAGAAAATAATGTCTTCGTCTCCAA--------------A----TAGACATCAATTTCCCTAGCTTGCATTTTGCCTGCCCC-CA--AGCAACAATGA------------------------------------------TA-----A---------------------------------CA
dp4 chr4_group4:3182204-3182349 - GAGTGCCACAAATGCCACATGATGCAAAT-GGAGC-AGTCGTGTTTTAAGGTACAGACTTTG---------AGTCTAT--------------TC---TAGGCATCAATTTTCGTATCTTTTAATTCGTCTGGCGC-CAACAGCAACAGCTA--------------------CAAAACGAGTAACGAGGAGAGATA-----------------------------------------
droPer1 super_10:2201135-2201280 - GAGTGCCACAAATGCCACATGATGCAAAT-GGAGC-AGTCGTGTTTTAAGGTACAGACTTTG---------AGTCTAT--------------TC---TAGGCATCAATTTTCGTATCTTTTAATTCGTCTGCCGC-CAACAGCAACAGCTA--------------------CAAAACGAGTAACGAGGAGAGATA-----------------------------------------
droWil1 scaffold_180708:8625857-8626006 - GGATAC-ACGTTTTCTATTTAA------TAAGGAC-CCTCAAGTTATAAGGTAGAGAAAATGTTGTCTTTATATT----TGTAACAAT-TGTT----AAGACATCACTTTCACTAGCTTTCAATTTGTCTGCTCCACA--TGCAACAACA-------------------TATAAT-------ACAATCAAACAAA-----------------------------------------
droVir3 scaffold_12963:3615418-3615613 + ACACAC-ACA--CATAA---GA-----A--AGGGCGCCTCAAATTATAAGGTAGAGAAATTGTTGTCTACT---TTACATATG--------GT----GAGACATCAAT-TCACTAGCTTTCAATTTGTACGCCCA-AA--TGCAACGGAACCATTTTGGAGGAACATCATAT-TT-------AGAATAAGCCACATGATAGGCAGCACATTTAGCATTTGAATGCCGGACTGCTCA
droMoj3 scaffold_6500:14018360-14018470 + G---------------------------T-AGAGC-GCTCAAGTTATAAGGTAGAGATATTGTTGTCTTTTTGCA----TATAGCACTCTGTTATGAAAGACATCAAT-TCACTAGCTTTCAATTTGTACGCTTA-AA--TGCAGCA-----------------------------------------------------------------------------------------
droGri2 scaffold_15252:3147228-3147335 + TCATAACACA-----CT---CA--------AGAGC-TCTCAGATTATAAGGTAGAGATTTTGTTGTCTTCTATTATA---------------A----AAGACATCAAT-TCACTAGCTTTCAATTTGTATGCTCA-AA--TGCAACGG----------------------------------------------------------------------------------------

dme-mir-963 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5641975-5642093 + TACAACTAA----------------------TTTTTCTTAGTCTAATCTAAAACAAGGTAAATATCAGGTTGTTTCCTGTATTCGA---TCGAAACATCTGTATATACCTTTGTTCCGATT-GGACA-AAAGTG--CGTCTTC--------------TA--GTT
droSim1 chr2L:5435040-5435157 + TACTACTGA----------------------TT-TTCTTAGTCTAATCTAAAACAAGGTAAATATCAGGTTGTTTCCTGTATTAGA---TCGAAACATCTGTATATACCTTTGATCCGGTT-GGACA-AAAGTG--CATCTTC--------------TA--GTG
droSec1 super_5:3719693-3719811 + TACTACTGA----------------------TTTTTCTTAGTCTAATCTAAAACAAGGTAAATATCAGGTTGTTTCCTGTATTAGA---TAGAAACATCTGTATATACCTTTGATCCGGTT-GGACA-AAAGTG--CATCTTC--------------TA--GTG
droYak2 chr2L:13551185-13551307 - CACTACTGC---A------------------TTGTTCTTGGTCTAATCTAAAACAAGGTACATATCAGGTTGTTTCCTATATTGGATGATCGAAACATCTGTATATACCTTTGTTCCGAAT-GGACG-AAAGAG--CATCTTC--------------AA--GTT
droEre2 scaffold_4929:5730368-5730489 + CAGTGCTGC----------------------TTGTTCTTAGTCTAATCTAAAACAAGGTACATATCAGGTTGTTTCCTGTATTGGATGATCGAAACATCTGTATATACCTTTGTTCCGAAT-GGACG-AAAGAG--CATCTTC--------------TA--GTT
droAna3 scaffold_12916:11085426-11085560 + TAATTA--GTTAAAAA---------------GTGTTCTTGATTTAATCTAAAACAAGGTACATATCTGGTTGTTTCCTATATTCAAAGTTTGAAACATCTGTATCTACCTTTGTTTCGATT-AAACT-AAAGAG--CTACT---AAGA---ATACGAGT--GTT
dp4 chr4_group4:3181623-3181668 - AAGAAGAGGA--AAA--------GATAATGT-GA-------------TTAATACAA-------------------------GTGGCTGATTGGA----------------------------------------------------------------------
droPer1 super_10:2200549-2200594 - AAGAAGAGGA--AAA--------GATAATGT-GA-------------TTAATACAA-------------------------GTGGCTGATTGGA----------------------------------------------------------------------
droWil1 scaffold_180708:8625051-8625198 - CATAGTTAAT--TGA--------GTTAATTG-AATTCTAATTCTAGTCTAAAACAAGGTACATATCAGGTTGTTTCGTATATTTGAAGCCTGAAACATCTGTATCTACCTTTGTTTCGAATAGGACT-AAAGAG--TTTTCTTTAAGCCCAACACATTT--GTT
droVir3 scaffold_12963:3616326-3616465 + TGGAGTTAATGTACGGATGGGCA--------TAAACAACAATCTAATCTGAAACAAGGTACATATCAGAGTGTTTCTTAAATTTGATTATTGAAACCTCTGTATATACCTTTCATTGGATT-AAACT-GATAAGCACATGTTT--------------CAAAAGT
droMoj3 scaffold_6500:14019361-14019489 + TGGAGTGCGC--A------------------CTG-AATCGGTCTAATCTAAAACAAGGTACATATCAGAGTGTTTCCCGTATTCGAGTTTTGAAACCTCTGTATATACCTTTCATTAGATT-CAACCGAAAGTC--CATA----AATATT---GA--TA--TAT
droGri2 scaffold_15252:3148184-3148306 + GCAAAATAA-----------------------------CAGTCTAATCCAAAACAAGGTACATATTAGAGCGTTTCCTATCTTTGAGTATTGAAACCTCTGTATATACCTTCA-TTCGATT-CGACT-GATAATCTCATT----AAAATC---ATTTCA--GTT

dme-mir-964 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:5642087-5642216 + TCTAGTTGGTGATAC-----------------------CA-------ATA----A--CATATTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTATGTTT--TTGATGT-TTAAGTTAAAAGCCTCTGTTCTAAGACAATTTGATGATCAAAA------CAGC-----CGGAGAAA
droSim1 chr2L:5435151-5435306 + TCTAGTGGGT-----AAATCCATGTGGTTATGACAAGTCAATC------A----A--AATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTTT--TTAATGT-TTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAACTTCAACT----TCATTTTGTAA
droSec1 super_5:3719805-3719957 + TCTAGTGGGT-----AAATCCATGTGGTTATGATAAGTCAATC------A----A--AATCTTGGTCCAACTTGCCTTAGAATAGGGGAGCTTAACTTGTGTTT--TTAATGT-TTAAGTTAAAAGCCACTGTTCTAAGACAATTTGATGATCAAAA---C---CACCTG-ACAAAAAAA
droYak2 chr2L:13551054-13551191 - TCAAGTT--------ATATCC-------TATGATCAATCAAT-------G----A--AATCTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTATGTAT--ATCATGT-ATAAGTTAAGAACCTTTATTCTAAGACAATTCGACTACAAAAT------CAAC-----TGAAAAAC
droEre2 scaffold_4929:5730483-5730617 + TCTAGTTGGTTA----CATCCTTGCGTTAGTGATCAATCAAT-------A----A--CGTTTTGGTCCCACTTGTCTTAGAATAGGGGAGCTTAACTTGTGTGT--GTTATGC-TTAAGTTAAGAGCCTTTATTCTAAGTCAATTCGACTGCCAA-------------------------
droAna3 scaffold_12916:11085546-11085681 + AAGAATACGA-----GTGTTCGCGGGATGAGC-----------------A----TCGAATCAAAGTCAAACTTGTTTTAGAATAGGGGAGCTTAACTTATTGGAG-AGTTGATATTAAGTTAAGATCCCTAATTCTAAGATAATGTGACCATTAATG---C---AAC-----G------T
dp4 chr4_group4:3181498-3181623 - AGGGATC-------C------CC------------------------GTG----C-CAAATAGAGCCAAAACTATCTTAGATCGAAGGTTCCTGGCTTACAGGG--ATTTGAT-GTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCAT-----CAACG----G-CCCTGAAAG
droPer1 super_10:2200424-2200549 - AGGGATC-------C------CC------------------------GTG----C-CAAATAGAGCCAAAATTATCTTAGATCGAAGGTTCCTGGCTTACAGGG--ATTTGAT-GTAAGTTAAGAACCTCCGCTCTAAGCTAGTATGGCTATCAT-----CAACG----G-CCCTGAAAG
droWil1 scaffold_180708:8624927-8625071 - TTTAAGCCCA-----ACACATTTGTTGTCTGTGT----CA---------G----T-TGAACAAGGTCAAACTTGTCTTAGAATAGGGGAGCTTAACTTATATTG--TTTTGCT-TAAAGTTAAGAGCCTCAATTCTAAGATAATGCGACTATCACCG---C---AGCA-G-TTC-AGATA
droVir3 scaffold_12963:3616457-3616573 + TTCAAAAGTT----T------TC---------------ATATTG---AAAATAC-----ATTAAGTTTAACTTATCTTAGAATAGGGGAGCTTAACTTT-GT-A--TGAACAT-TTAAGCTAAGAGCCTCAATTCTTAGATAATGCGACTAACAA-------------------------
droMoj3 scaffold_6500:14019483-14019608 + GATATATGATGA------------------TGATTTTCCAATTGTGATGAAATC-----ATTGAGTTCAACTTATCTTAGAATAGGGGAGCTTAACTTAA--TC--TGAACAC-TCAAGCTAAGAGCCTCGATTCTTCGATAATGCGACTAACA--------------------------
droGri2 scaffold_15252:3148300-3148427 + TTCAGTTGATTA----GA-----------------------------AGAGTGC-----ATTATGTCAAACTTATCTTAGAATAGGGGAGCTTAACTTTTATCATATTAGCGC-TCGAGCTAAGATCCTCAATTCTTGGATAAGGCGACTAGCAA--------CT----G-CAGTAAAAA

dme-mir-968 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:13747733-13747854 - TCAAAGA-AA------------AATTGTTGATGGAAGCTTCCTTAAGTAGTATCCATTAAAGGGTTGTTCTCAACATG-----CAAATCAACCTTTTGATGTACTACTTTAAGAATCTCCAGTTAAAGTCAACACA--TAAG
droSim1 chr2L:13506671-13506792 - TCAAAGAAAA------------AATTGTTCATGGAAGCTTCCTTAAGTAGTATCCATTAAAGGGTTGTTCTCAACATG-----CAAATCAACCGTTTGATGTACTACTTTAGGAATCTACAGTCAAAGTCAACAT---TAAA
droSec1 super_3:14598-14719 - TCAAAGAAAA------------AATTGTTCATGGAAGCTTCCTTAAGTAGTATCCATTAAAGGGTTGTTCTCAACATG-----CAAATCAACCGTTTGATGTACTACTTTAGGAATCTACAGTCAAAGTCAACAT---TAAA
droYak2 chr2L:10160053-10160172 - TCAAGGA-AA------------AGTGTTTGATGGAAGCTTCCTTAAGTAGTATCCATTAAAGGGTTGTGGTCA-CAAT-----AAGATCAACCTTTTGATTTACTACTTTAGGAATCTCCAGTCAAAGTCAACAT---TAAT
droEre2 scaffold_4929:11718898-11719017 + TCAAAGA-AA------------AGTTGTTGATGGAAGCTTCCTTAAGTAGTATCCATTAAAGGGTTGTGGTCA-CAAT-----TGAATCGACCGTTTAATGTACTACTTTAAGAATCTCCAGTCAAAGTCAACAA---TAAT
droAna3 scaffold_12943:1815538-1815649 - AAA---------------------T----TATGGCAGTTTCCTTAAGTAGTATCCATTAAAGGGTCGTTAATA-TATT-----CAAAGTGACCGTTTGATGTACTACTTTAGGTAGCTCCATTTAAAGTCGGCTAAAATAAG
dp4 chr4_group1:1722766-1722895 + TTGAATAGTGATTTAGTTCTACAATT----GCTGCAGCTTCCTTAAGTAGTATCCATTAAGAGGTCGTCATCT-AGCT-----AAAATCGACCTTTTGATGTACTACTTTAAAAAAGCACAGTCAAAGTCAACAGAA--CTG
droPer1 super_5:3483598-3483726 - TTGAATAGTGATTTAGTTCCACAATT----GCTGCAGCTTCCTTAAGTAGTATCCATTAAGAGGTCGTCATCT-AGCT-----AAAATCGACCTTTTGATGTACTACTTTAAAAAGC-ACAGTCGAAGTCAACAGAA--CTG
droWil1 scaffold_180772:545302-545417 + CTCGTG------------------------A-TGCAGATTCTTTAAGTAGTAACCTTTAAAGGGTCGTTTGTCCAATTCTTTTAAAGTCGATCCTTTAAGTTACTACTTGCAGAATGTGTTTCTGAAATCAACAAA--TATA
droVir3 scaffold_12723:5044036-5044131 - C---------------------AATT----A-TACATGTGCCTTAAGTAGTAACCATTAAGAGGTTGTTGTTA-GATT-----TAAATCCACCTTTTAATGTACTACTTATGACAAATGCATAG--------------CAAA
droMoj3 scaffold_6500:16664499-16664593 + AAA--------------------ATT----A-TGCAAGTATCATAAGTAGTAACCATTAAAAGGTCGTGATT-----T-----GAACTCAACCTTTTAATTTACTACTTGTGATAAATGCATAGAAATGT------------
droGri2 scaffold_15126:8057347-8057450 - TCTA----------------------------------TGCCTTAAGTAGTAACCATTAAAAGGTTGTTTTTGTAAAT-----TATACCGACCTTTTAGTGTACTACTTAAAGTACATTCATTGCAAGTCGACGAATATATA

dme-mir-973 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19445546-19445676 + AATATACTTC----ACTTTA-CCGTCGTCGACTTTTCGTGGTTGGTGGTTGAACTTCGATTTTAAG-TA--TTT--------AAATAAAATGAAATCTGTTCATTCTCCGACACAAGAAGTTCACGCAAAGGA------------------------GCTGCAGCTGCGAA
droSim1 chrX:15011303-15011407 + CG-------------------------TATACTTTTCCGGGTTGGTGGTTGAACTTCGATTTTAAG-CA--TTT--------AAATAAGA-TAAATCTGTTCATTCTTCGACCCAAAAAGTTCACGTGAAGAA------------------------GCAGCG------AA
droSec1 super_8:1727974-1728085 + AC------------------TTCAACGTATACTTTTCGGGGTTGGTGGTTGAACTTCGATTTTAGG-TA--TTT--------AAATAAGA-TAAATCTGTTCATTCTTCGACCCAAAAAGTTCACGTGAAGAA------------------------GCAGCG------AG
droYak2 Unknown GTTATAA--G----AT----TTTAACGTCGACTTTTCGTGGTTGGTGGCTGAACTTAGATTTTGAG-TA--TAC--------AAATAGAA-CAAATCTGTTCATTCCTCGACACAACAAGTTGACGTAAAGGA------------------------GCAGCA------AA
droEre2 scaffold_4690:9682299-9682417 + ACTATAC--C----AT----TTTAACGTCGACTTTTCGTGGTTGGTGGCTGAACTTAGATTTTGAG-TA--TTC--------AAATAAAA-TAAATCTGTTCATTCCTCGACACAAGAAGTTGACGTGCAGGA------------------------GCGGCA------AA
droAna3 scaffold_13417:2478622-2478750 - -----------------------GACACCGACTCCTCGTGTTTGGCGATTGAACCTGGATTTTTAA-TT--TTC--------GAGTACGA-GAAATCTGTTCATTCCTCGACACTAGTAGTTGGCGCGACA-C------TCAGCGCACCAAACATGAACCGCGGCTCAAAT
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7946449-7946592 + AAAATATATCGGGAATATTG-TCGACATGGCCTTTTCGTGTTTGGTGATTGAACTTGGATTTTGTTCTATATACATATATAAAAAT-ATG-TAAATCTGTTCATTCCTCGACACTAGAAGTTCATGTCAATAACTTCATTT----------------CCTGCA--------
droVir3 scaffold_13042:918337-918453 - AGAACAGTTA----AAATCATCGGACATTCACTTTTCGTGTTCGATGTTTGAACTTGGATTTTTTT-TA--TAT--------A-----CA-CAAATCTGTTCATTCCTCGACACTAGAAGTTTGCGTCAATAA------------------------GCTGC---------
droMoj3 scaffold_6328:2909116-2909204 - ----------------------CGGCTTTCACTTTTCGTGTTCGATGTTTGAACTTGGATTTTTAA-AA--TAT--------GAA---AA-GAAATCTGTTCATTCCTCGACACTAAGAGTTTAGG---------------------------------------------
droGri2 scaffold_15081:2051526-2051596 - -----------------------GACATTTACTTTTTGTGTTGGGTGATTC---------------------------------------------TGATTCACTTTTCGACACATCAAGTTCACCTCAATAA------------------------ACTGCA--------

dme-mir-974 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19445696-19445826 + AG----GTCC-AGGTAAGCTCAA-TTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTG--TTTCCAA-GAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCCA-AAT-------CAGCTTGGTATTTAT
droSim1 chrX:15011423-15011546 + GT----A---------AACTCAA-TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCG--TTTCCAA-GAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCCA-AGT-------CACCTTGGTATTTAT
droSec1 super_8:1728102-1728227 + AG----G-------TAAACTCGA-TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCG--TTTCCAA-GAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCCA-AGT-------CTCCTTGGTATTTAT
droYak2 Unknown GA----AAAC-AGAACCACTGAC-TTAGCACTGGTCATGGCCTCCAAGCGAGCAAAGAAGTAGTATTTGTG--TTCCAAA-AGTCAAATATAACTTTTTTGGAA-GCTACGGGGACTTGTCCA-AGA-------CAGC-----------
droEre2 scaffold_4690:9682437-9682562 + GA----AAAC-AGAACCACTAAC-TCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTG--TTCCAAA-AGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCCA-AGC-------CAACTTGCTG-----
droAna3 scaffold_13417:2478487-2478598 - GG----TTGC-A---ATCCTGGC-TTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTGCTTTTAATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCC---------------------------
dp4 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown -----------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7946609-7946719 + AT-----------------TCATTTTTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTC--TTTGGAA-ATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAAT-------CAAC-----------
droVir3 scaffold_13042:917533-917679 - ATCCGAATATGAGATTTACCA-ATTATTAACTGGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATCTGA-TATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTCA-TAAATAAACACGTCTGCCTATATAC
droMoj3 scaffold_6328:2908489-2908614 - TC----A---------------ATCAGACGCTGGGCATTCCCTCTGAGCGAGCAGAGAAGTATTTT-TGCGTGCATCTGA-TATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGTTGA-AATGTAAACGTTGCTCGCTCTCTAC
droGri2 scaffold_15081:2051206-2051247 - CA----------------------------AAGGACATCTTCTGTAAGCGAGCAAAAATATAATATTTGT-------------------------------------------------------------------------------

dme-mir-975 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19452771-19452891 + ATCCAA--------------TTGGCAATATTGAATTTTTGATTTTAAACACTTCCTACATCCTGTATGTGT-TTTG----------------------------CATCCGGTACAGATGTGGGAGTCGTTTGCACTCAGAGATTTCACAGAATTCGAGGATC-GA
droSim1 chrX:15018379-15018489 + -------------------------AATATTGAGTTTTTGATTTTAAACACTGCCTACATCCTGTATGTGT-TTTG----------------------------CATCCGATACAGTTGTAGGAGTCGTTTGCAGTCAGAGATTTCACAGACTGCGAGGATC-GA
droSec1 super_8:1735110-1735229 + A-AAA--------------TTAATTAATATTGAGTTTTTGATTTTAAACACTCCCTACATCCTGTATGTGT-TTTG----------------------------CATCCGATACAGTTGTAGGAGTCGTTTGCAGTCAGAGATTTCACAGACTGCGAGGATC-GC
droYak2 chrX:11885955-11886071 - ATCCA------------------GCAATATTGAATTCTTGACTTTAAACACTGCCTACATACTGTATGTGT-TTTG----------------------------CACCCGATACAGATGTGGGGGTCGTTTGCAATCAGAGATTCCGCAGGCTACGAGGATC-GG
droEre2 scaffold_4690:9688756-9688876 + -TCCA--------------ACCATCAACATTGAATTCTTGACTTTAAACACTTCCTACATCCTGTATGTGT-TTTG----------------------------CGCCCTATACAGATGTGGGGGTCGTTTGCACTCAGGGATTCCACAGGCTGCAAGGATC-GG
droAna3 scaffold_13417:2467701-2467813 - GTCCAAG------------CCAGTCGACAATGAATATTTGATTTTAAACACTACCTACATCCAGTATGTTACTTGA----------------------------CTCCCAATACGGATGTGGAGGGCGTTTACACTCAGAGATTCTGGAG-----------C-CA
dp4 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7956608-7956722 + GTTTTGTAGATGTGTTGGAATC-ACGACATTCAACTGTTATGTTTACATATGTCTAACATTCTGT-----------------TATAGTATAACAGTGTGTCTTGCG----------------------TTCCTACTCAACAC-TCAACAT-TCGC--------AA
droVir3 scaffold_13042:906902-907003 - ----------------------------------TCTTTGATTTTAGATACTCCCTATATCCAGTATGTGT-GCCACTT-ATTGAAATACA-----------------------AGATGTATGGGGTGTCTGCAATCACAAACCACGTAG-CCGCAA---TCAGC
droMoj3 scaffold_6328:2901122-2901224 - ----------------------------------TCTTTGATTGTAGATACTCCCTATATCCCGTATGTGC-GATACTTTGATAAAATACA-----------------------AGATGTATGGGGTGTCTGCAATCACAAACCACATAG-CCGCAA---TCAAA
droGri2 Unknown ---------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-976 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19452913-19453039 + AAC------------------G-----GCGGTG-GTGGGCAT--------------------------CG-----CCATGCAGTGCCGCGGCATTGGTGAGGC-CATCTCCAATGG-ATTAGTTCT---CA------ACATTGGATTAGTTATCATCAATGCCGGTGCACTGCACC--TAACAACATC---------------GCGCCGG
droSim1 chrX:15018511-15018617 + -----------------------------------------------------------------------------ATGCAGTGTCGTGGCATTGGTGAGGA-CATCTCCAATGG-ATTGGTTCT---CA------TCATTGGATTAGTTATCATCAATGCCGGTGCACTGCACTGCTGTCAACTTC---------------GCGCAAT
droSec1 super_8:1735239-1735349 + TCC------------------G------------------------------------------------------CATGCAGTGCCGTGGCATTGGTGAGGA-CATCTCCAATGG-CTTAGTTCT---CA------TCATTGGATTAGTTATCATCAATGCCGGTGCACTGCAGC--TGTCAACTTC---------------GCGCAAT
droYak2 chrX:11885798-11885920 - AGA------------------G--------GTGAGTGAGAAT--------------------------CG------CATGCAGTGCCACGACATTGGTGAGGG-CATCTCCAATGG-----GGACCCGGCA------TCATTGGATTAGTTCTCATTAATGCCGGAGCACTGCACC--TACCAACTTC---------------GCACGGT
droEre2 scaffold_4690:9688892-9689017 + TCC------------------A-----GAGGTGTGCCAGAAT--------------------------CG------CATGCAGTGCCTCGACATTGGTGAGGG-CATCTCCAATGG--GGAGCCAG---CA------TCATTGGATTAGTTCTCATTAATGCCGGAGCATGGCACC--TACGAACTGA---------------GCATTTG
droAna3 scaffold_13417:2467561-2467679 - GCT------------------A-----CCGATG-------------------------------------CTCCCCGAAGGAGCGCCTCGACATTGGTGAGTT-CATCTCCAATGG--TCAGTAGC---CC------GCATTGGATTAGTTCTCATTGATGGCGAAGCGAGT--CC--TACCCCCACA---------------CCAGCGA
dp4 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7956743-7956912 + CTCTCCCCTTCCTTCTTACACA-----GGATTATG-TAGGAT--------------------------TA------T-GGCAACACCTCGATATTGGTGAGTTCCAGCTCCAATGTTATTGGAGCCCAACATTGAACACATTGGATTAGTTCTCATCGATGGCGAAGTGTTT-GTGAGCAATATCGTATATTGTGCGTGCAGTGTATTGT
droVir3 scaffold_13042:906708-906880 - ATC------------------GTTATCGTTATC-GTTATCGTTATCAGAATTAATTATCGTTGAAGTGCGTTCTTTGGTGCAGCCCCTCGCGATTGATGATAG-CATCTCCAATGA-----GCATA---TC------ACATTGGATTAGTTCTCATCGATGCCGATGCGCTGTACCAGCAACAACAAC---AGGAATAGCAACGGAAACA
droMoj3 scaffold_6328:2900970-2901098 - TAT------------------C-----GTTATC-GCTAGCGA--------------------------CGCTTC-GGGTGCAGCCCCTCGCGATTGATGAAAG-CATCTCCAATGA-----GTATT---TC------GCATTGGATTAGTTCTCATCGATGTCGATGCGCTGTATCAGCAACAACAAC---------------AACATGA
droGri2 Unknown ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-977 intergenic Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19453040-19453168 + GGA-------AT--------------------------------------CCCAACACAACGA-ATCAACAA-----------------------A-----------------CAAGGTATGCTTTAGATAACTCGAATATCACATCTTC---------A--GTGTTCGAAATCTGATGAGATA-TTCACGTTGTCTAAATCATGTTTTGTACGAAAC--------------------TACAACTAA
droSim1 chrX:15018618-15018753 + GGA-------AT--------------------------------------ACCAACTCCGGAGTGCC-------------------------GAAAATGCA----TCC-----CAAGGTATGGTTTAGATAACTCGAATATCACATTTTC---------A--GTGTTCGATATCTGATGAGATA-TTCACGTTGTCTAAACCATGGTTTGTTTTTGAA--------------------AACTACTCA
droSec1 super_8:1735350-1735483 + GGA-------AT--------------------------------------ACCAACTCCGGAGTGCC-------------------------GAAAATTCA----TCC-----CAAGGTATGGTTTAGATAACTCGAATATCACATCTTC---------A--GTGTTCGATATCTGGTGAGATA-TTCACGTTGTCTAAACCATGGTTTGTTTGAAA----------------------ACTACTCA
droYak2 chrX:11885613-11885797 - TCCTATTCCTATTCC----------------GATTCC-GATTCGGAATCAACCAAGTGCGGACAGCT-------------------------CAGAGTTCA----CCC-----CAAGGTATGGCCTAGATAACACGGGTATCACATCTTT---------AT-GCATTCGATATCTGGTGAGATA-TTCACGTTGTCTAAACCATGTTTTGTAAGGAAATGCACTCTGCTCATCAGTTAAACTACTAA
droEre2 scaffold_4690:9689018-9689184 + GGG-------ATCGG----------------GATCCCGGATTCGG-----------------A-GTCAACAAACTCTTGTCAAACAAACGAGCAGAATTCA----ACC-----CAAGGTATGGCCTAGATAACTCGGGTATCACATCTTT---------AT-GCATTCGATATCTGGTGAGATAATTCACGTTGTCTAAACCATGTTTTGTAAGAAAT--------------------AACGCCTTA
droAna3 scaffold_13417:2467442-2467560 - GGC-------ACACG----------------CGTACC---------------------------------------------------------------------GC-----CGAGGTTCGGCCTCGATCACGAGAACGTCGCATCTTA---------GT-TACATTTCCATATGATGAGATA-TTCACGTCGTCGAAACCGTGTCTCGGCTTGGCC--------------------ACCAATCGC
dp4 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 scaffold_181096:7956913-7957043 + GAT-------GT--------------------------------------GACACCGTGGACG-ATCAACAA-----------------------AATTCA---------------TATACAATTTCAATAACGTAGATATCGCATCGTTTTTTTTTACC--ATATTTGATAAGAGATGAGATA-TTCACGTTGTTGAAGTTGTGAAGGAATTAA-----------------------------AAA
droVir3 scaffold_13042:906546-906707 - GGA-------AC--------------------------------------CGGAACAGAAACA-GGAAAAAG-----------------------AAATTGTGTTCCCCCTGGCCCAGCCCAGTTGCGATTGCGCGGACATCTCATCGTA---------TAAACATTCGATAACCAACGAGATA-TTCACGTTATCGAGACTGAGACGTCGGCAAAG------ACTGCAAGATTGTGCGACAAGTGA
droMoj3 scaffold_6328:2900856-2900969 - GTT-------AAACGAAATGAACCAGTTCGTTGTTC--------------------------------------------------------------------------TGGCCCAGCCCGGTTCCGATTGCGCGGACATCTCATCGTC---------TGACCATTCGATAACCGATGAGATA-TTCACGTTATCGAGACTGCG------------------------------------------
droGri2 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

dme-mir-978 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:19455254-19455375 + AAGTACAATA---TCTTGGT--------TGGCGGCACAATCTGCAATCTACGCCACTGGCTTACGTTGC-------AA-TCGAAAATCGTGTCCAGTGCCGTAAATTGCAGTTGTGTGAA--CGCAAACGGCAGCAG--------------------CGAAGG
droSim1 chrX_random:5079001-5079113 + AAGTA------------GAT--------TGGCGGCACAATCTGCAATCTACGCCACTGGCTTACGTTGT-------GG-TCGAGAATCGTGTCCAGTGCCGTATATTGCAGTTGTGTGGA--CGCAAACGGCAGCAG--------------------CGAAGG
droSec1 super_8:1737859-1737971 + AAGTA------------GAT--------TGGCGGCACAATCTGCAATCTACGCCACTGGCTTACGTTGT-------AG-TCGAGAATCGTGTCCAGTCCCGTAAATTGCAGTTGTGTGGA--CGCAAACGGCAGCAG--------------------CGAAGG
droYak2 chrX:11883747-11883862 - AAGTGCATCC------AGGT--------GGGCGGCACAGCCAGCACTCTACGCCGCTGGCTTACGTTGT-------AC-TCGGAAATCGTGTCCAGTGCCGTTGATTGCAGTTGTGTGGA--CGCAAAGGGCAGCG-----------------------GAGA
droEre2 scaffold_4690:9691187-9691301 + AAGTGCATCC-------AGT--------GGGCGGCACAACCAGCATTCTACGCCGCTGGCTTACGTTGT-------AC-TCGAAAATCGTGTCCAGTGCCGTTGATTGCAATTGTGTGGA--CGCAAAGGGCAGCG-----------------------GAGG
droAna3 scaffold_13417:2460507-2460635 - GAGTGCGGACAGGGCAAGCT--------CGGCGGCACAGACAGCATTCGACGCTGCTGGCTTACGTGGT-------GG-TTGATATCCGTGTCCAGTGACGTTGATTGCAGTTGTGTAGA--CGCGAATTACAGCGACCG------A----------TAGTTG
dp4 Unknown -------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 super_14:1991206-1991216 - AACAAC--------------------------------------------------------------------------------------------------------------------------------------------------------AACTA
droWil1 scaffold_181096:7961115-7961220 + -------------------T--------TGGCAACACAGGCAGCATTCGACGACGCTGGCTTACGTTAAAAAC---AA-ACGATATCCGTGTCCAGTGACGTTGATTGCAGTTGTGTA------CAATGATTAGCGG--------------------CGATTT
droVir3 scaffold_13042:902659-902773 - ACA-----------------------------GGCACA-GCCGTACTCTACGCTTTTGGGA-ACGAG--CTCTTTGAC----GCACTCGGTTCCATTGCCGTTGAGTAGAGCTGTCCTGA--TGCATATCTCAACG---T------ATTGATTCAAACAAGAA
droMoj3 scaffold_6328:2897048-2897148 - CG------------------------------GGTACA-GCCGTACTCTACGCTTTTGGGA-ACGAG--CAATCATACAAAGCCACTCGGTTCCATAGCCGTTGAGTAGAGCTGCCCCCGTTTGCACATCACAAC----------------------------
droGri2 scaffold_15081:2040911-2041055 - AAGTACGGCA---GTTCGATAACCAACAC--AGGTCCA-GCCGTATTCAGCGCTTTTGGAA-GTAAG--GAACATGAT----TCTCCTAGTTTCAATGCCGCTGAGTAAAGCTGTCCCAA--TGCAAATCGCAACG---TAACTGAATCGAATCAATCAATAA

dme-mir-980 antisense_to_intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chrX:174190-174317 - GCGTG-------------------TGAAATACGAAGTTGATTGTATGTCAGTTTTTCATTTGGCCTGGCTAGCTTACTCCT--TTTTAAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTAATTGCAGTTCGAC-----------TCCCGAATA---ATA
droSim1 chrX:118257-118384 - GCGTG-------------------TGAAATACGAAGTTGATTGTATGTCAGTTTTTCATTTGGCGTGGCTAGCTCACTACT--TTTTTAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTAATTGCAGTTCAAC-----------TGCCAAATA---ATA
droSec1 super_10:47183-47310 - GCGTG-------------------TGAAATACGAAGTTGATTGTATGTCAGTTTTTCATTTGGCGTGGCTAGCTCACTACT--TTTTTAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTAATTGCAGTTCAAC-----------TGCCAAATA---ATA
droYak2 chrX:117050-117182 - GCGTG-------------------TGAGATGTGAAGTTGATTGTATGTCAGTTTTTCATTTGGCGTGCCTAGCTTAGCTTT--TTTTAAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTAATTGCAGTTCGACTCGA------CTGCCAAATG---ATA
droEre2 scaffold_4644:121637-121764 - GCGTG-------------------TGAAATGTGAAGTTGATTGTATGTCAGTTTTTCATTTGGCGTGCCTAGCTTACCTCT--TTTTAAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTAATTGTAGTTCGAC-----------TGCAAAATT---ATA
droAna3 scaffold_13117:4815182-4815314 - AAGTGATAAGAAATGTCC-----------TAGGAAGTAATTTGTATGTCAGCCTCTCATTTGGCCTGCCTAGCTGACTTT---AAATTAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTGATTGCGATTCAAC-----------TTGC--AGA---ATA
dp4 chrXL_group1e:4097625-4097758 - CCGCC-------------------ACAAAAGAGAAACAAATTGAATGTGAGTCTCTCACATGGCTGGTCTAGCTGACTTG---TTTCTAATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTTTTTGTAGCCCAACGTAA-------AGCCGAAAATCGTAA
droPer1 super_17:1039174-1039307 - CCGCC-------------------ACAAAAGAGAAACAAATTGTATGTGAGTCTCTCACATGGCTGGTCTAGCTGACTTG---TTTCTAATACTGCTAGCTGCCTTGTGAAGGGCTTACGTGTTTTTGTAGCCCAACGTAA-------AGCCGAAAATCGTAA
droWil1 scaffold_181096:8731771-8731891 + ---------------------------------------ATTGTGTGTGAGTCTTTCACTGGGCGTGCTTAGCTAGAAATTTATTTACCATATTGCTAGCTGCCTTGTGAAGTGCTTACGTGTAATTGTTGAACAACAAAAAAAAATCAGAAAAAGC---ATA
droVir3 scaffold_10277:1011-1148 - GGGCTATAAAATTTGGACCAAATGTGA------GAGCGCATTGCATGTGAGTCCCTCATTTGGCAGGTTTAGCTGCTTTT---AATACGATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTGATTGTTAAACAAC-----------T--TAAACA---ACA
droMoj3 scaffold_6473:11075547-11075659 + TTATT-------------------T---ATATGAACCGCATTGCATGTGAGTCCCTCATTTGGTGCGCTTAGCTGTTTTTC--AATTTGATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTGTTTGTAATACAAC--------------------------
droGri2 scaffold_14853:6339037-6339158 + GATTA-------------------TGAG------AGCGCATTACATGTGAGTCCCTCATTTGGCGGACTTAGCTGCTTTTC--AATTTGATATTGCTAGCTGCCTTGTGAAGGGCTTACGTGTGATTGTAAATCAAC-----------TGAGGAAAA---ATA

dme-mir-986 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2R:4332472-4332601 + TAGCCACGCAG--AGGA---------CACACCTG-------AAATTACCCATCTCGAATAGCGTTGTGACTGA-GGTAACTGCGCATCGAATCTACTCAGCGGCGAGGCTATTCAAGTAAGGTTATTTTGGGC----CAGCGACTTTA--CGACC
droSim1 chr2R:2956848-2956977 + TAGCCACGCAG--AGGA---------CACACCTG-------AAATTACCCATCTCGAATAGCGTTGTGACTGA-GGTAACTGCGCATCGAATCTACTCAGCGGCGAGGCTATTCCAGTAAGGTTGTTTTGGGC----CAGCGACTTTA--TGACC
droSec1 super_1:1974074-1974203 + TAGCCACGCAG--AGGA---------CACACCTG-------AAATTACCCATCTCGAATAGCGTTGTGACTGA-GGTAACTGCGCATCGAATCTACTCAGCGGCGAGGCTATTCCAGTAAGGTTGTTTTGGGC----CAGCGACTTTA--TGACC
droYak2 chr2L:16988548-16988677 + TAGAAACGCAG--AGGA---------CACACCTA-------AAATTACCCATCTCGAATAGCGTTGTGACTGA-GGTAACTGCGCATCGTATCTACTCAGCGGCGAAGCTATTCCAGTAAGGTTATTTTGGGC----CAGCGACTTTA--CGACC
droEre2 scaffold_4929:18305702-18305825 - TAGATACG--------A---------GATACCTA-------AGATTACCCATCTCGAATAGCGTTGTGACTGA-GGTAACTGCGCATCGAATCTACTCAGCGGCAAGGCTATTCCAGTAAGGTTATTTTGGGC----CAGCGACTCAA--CGACC
droAna3 scaffold_13266:1670175-1670300 - TGGTTTC-CTG--AGGA---------TACGTCCA-------AAATGACTCATCTCGAATAGCGTTGTGACTGATGGTATTTAAATAT------AAATCCGAGACAATGCTATTCTTGTAAAGTCATCTTGACC----AAGCAACTTTTTCTAATC
dp4 chr3:2308599-2308727 + TATCTCCTGAATCGGAG---------TACGACTG-------AAACAACCCGTCTCGAATAGCGTTGTGACTGAT-GA--CTGCATTTGTAATTTTCTCAGCGGCAGTGCTATTCCAGTTGGGTTGTTTGCGGCCAAACAACAACTATA-------
droPer1 super_2:2480065-2480185 + GAATCG--------GAG---------TACGACTG-------AAACAACCCGTCTCGAATAGCGTTGTGACTGAT-GA--CTGCATTTGTAATTTTCTCAGCGGCAGTGCTATTCCAGTTGGGTTGTTTGCGGCCAAACAACAACTATA-------
droWil1 scaffold_180700:3161017-3161152 - TTACTACACAA--AGTGAACAGTTC-GATGACTT-------AAATGCCCAATCTCGAATAGCGTTGTAACTGAT-GA--TTGT-GATATGAGAGAGTCAGCCACTATGCTATACGAGGTGGGGCATTTGTGGGT---AAACAACCAAA--TTACG
droVir3 scaffold_12875:9403376-9403510 + AAACTATAAAG--TG--TTTTAATGGTTCACTTAAATGGCTAATTGTCTTCTCTCGAATAGCATTATGGCTGAT-GACAAT---TCTGGAATAACATCAGTTGAAATGCCATTCGGGTTAAGGCACTTGAGAAATGGCAGCGA------------
droMoj3 scaffold_6496:17707880-17708014 - TGTTGGCGAAC------TTTCAATGGCTCATTTAACTGGCTAATTGCCTTCTCTCGAATTGCATTATGGCCGAT-GACACAATTC-TGCAAAATCATCAGTTGGAATGCCATTCGGGTCAAGGCATTTACGAATCGCCAACGA------------
droGri2 scaffold_15245:2671305-2671410 + TTGAATGGCT-------------------------------TATTGCCTTTTCTCGAATTGCATTGTGACTGAT-GAAAAT----TTAGAAATTCATCAGTTAAAATGCCATTCGAGTTAAGGCACTTATGCA-----------TTAA--CAACC

dme-mir-995 intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr3R:16561630-16561749 + TTGACG---------------AATGTCA-------------------------TCCAC--------------------------CTGCACCCCGCAGCCCGAATTATGTGGGAGCTGCG----CCGTTTCC-----------GTA----ATCCGTAGCACCACATGATTCGGCTTCGTGGTACA-----------------GGATATCATCGGT-TTTTGCTA
droSim1 chr3R:4901723-4901838 - -----A---------------AATGTCG-------------------------TTCAC--------------------------CTGTACCCCGCAGCCCGAATTATGTGGGAGCTGCG----CCGTTTCC-----------AAA----GTCCGTAGCACCACATGATTCGGCTTCGTGGTGCA-----------------GGATATCATCGGT-TTTTGCTA
droSec1 super_27:174263-174377 - ---------------------AATGTCG-------------------------TTCAC--------------------------CTGTACCCCGCAGCCCGAATTATGTGGGAGCTGCG----CCGTTTCC-----------GAA----GTCCGTAGCACCACATGATTCGGCTTCGTGGTGCA-----------------GGATATCATCGGT-TTTTGCTA
droYak2 chr3R:5351033-5351167 + TGGACGTTGCCATCCTGGATTAAACTCA-------------------------TTCAC--------------------------CTGCACCCCGCAGCCCGAATTATGTGGGAGCTGCG----CCGTTTCT-----------AAA----ATCCGTAGCACCACATGATTCGGCTTCGTGGTGCA-----------------GGACATCAGCAAT-TTTTGGTA
droEre2 scaffold_4770:5101897-5102016 - CTGACG---------------AATGTCA-------------------------TTCAC--------------------------CTGCACCCCGCAGCCCGAATTATGTGGGAGCTGCG----CTGTTTTC-----------AGG----ATCCGTAGCACCACATGATTCGGCTTCGTGGTGCA-----------------GGACATCAGCGGT-TTTTGCTA
droAna3 scaffold_13340:13021664-13021782 - TTGACA---------------AATGTCA-------------------------TTCGC--------------------------CTGTCCTACGCAGCCCGGATTCTGTGGGAGCTGCG----CCGTTCTT-----------TCT----ATCCGTAGCACCACATGATTCGGCTTCGTGGTGCA-----------------GGGCATCATCC-T-GTTGGCTG
dp4 chr2:5900237-5900376 + TTGACG---------------AATGTCA-------------------------AACACCTC-GCAGGCTCTGCAGCAGACCCTGCTGCACAACGCAGCCCGGATTCTGTGTGTGCTGCG----CTGTGTTC---------TTAAA----AGCCGTAGCACCACATGATTCGGCTGCGTGGTCAG-----------------CCACACCTTCAG--------TA
droPer1 super_19:1637056-1637197 + TTGACG---------------AATGTCA-------------------------AACACCTC-GCAGGCTCTGCAGCAGACCCTGCTGCACAACGCAGCCCGGATTCTGTGTGTGCTGCG----CTGTGTTC---------TTAAA----AGCCGTAGCACCACATGATTCGGCTGCGTGGTCAG-----------------CCACACCTTCAGT-ATC-----
droWil1 scaffold_181108:2305175-2305323 - TTGACG---------------AATGTCAAATTTTCTGACTCCTGCAACTCATGTAAGG--------------------------CTTCACCAAGCAGCCCGGATTCTGCGAGTGCTGCG----CTACAACA-----------AGAACTAAGACGTAGCACCACATGATTCGGCTTCATGGTGAA-----------------GTACATCGCAACG-TCATCGTG
droVir3 scaffold_13047:12148438-12148588 - TTGACG---------------AATGTCA-------------------------AACGGCTTGGCCGGCTCAACA---------GCTGTACAACGAAGCCCGGATACTGTGTGTGTTGCG----CTGTTTA------------GAG----GTACGTAGCACCACATGATTCGGCTTCGTGGTGCACGCAACTGCAACAGA--GGGCGTCAACGGT-ATTTATTA
droMoj3 scaffold_6540:29636954-29637102 + TTGACG---------------AATGTCA-------------------------AACAGCTTGGCTGGCTTGGTA---------GCTGAACTACGAAGCCCGGGTTTTGTGTGTGCCGCG----CTGTTTTG-------------A----GTACGTAGCACCACATGATTCGGCTTGGTAGTACAGGCTCATTCAACAAATTAGG---CATCAAT-TTTATAGA
droGri2 scaffold_14830:1051305-1051441 + TTGACG---------------AATGTCA-------------------------AAT---------------------------GCTGTACAGTGAAGCCCGGATTCTGTGTGTGCTGCGTTTGCTGATTTGCCATACACATAAAT----ATACGTAGCACCACATGATTCGGCTTCGTGGTGCTAG---------------CAACTCCATCGCCAGTTAGATA

dme-mir-9b intron Pileup and folds Correction UCSC

Species Coordinate Alignment
dm3 chr2L:16698729-16698849 + TGTTGCTCTT------------T-TGTTTGCATATTATTTGCTCTTTGGTGATTTTAGCTGTATGGTGTTTATGTATATTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTCTGCATTAT---GTTTGAGTTGA
droSim1 vom21g07.g1:730-849 + TGTTGCTCTT------------T-TGTTTGCATATTATTTGCTCTTTGGTGATTTTAGCTGTATGGTGTATA--AGTATTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTCTGCATTAT---GCTTGAGTTGA
droSec1 super_7:345741-345859 + TGTTGCTCTT------------T-TGTTTGCATATTATTTGGTCTTTGGTGATTTTAGCTGTATGGTGTATA--AGTATTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTCTGCATTAT---GCTTGAGTTGA
droYak2 chr2R:4404225-4404345 - GGTTGCTCTT------------T-TGTTTGCATATTATTTGCTCTTTGGTGATTTTAGCTGTATGGTGTGTTTATGTGTTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTCTGCATTAT---GCTTGAGTTGA
droEre2 scaffold_4845:19768375-19768493 + AGTTGCTCTT------------T-TGTTTGCATATTATTTGCTCTTTGGTGATTTTAGCTGTATGGTGTGTA--TGTGTTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTTTGCATTAT---GCTTGAGTTGA
droAna3 scaffold_12916:15864526-15864643 - AGTTGCTCTT------------T-TGTTTGCACATTATTTGTTCTTTGGTGATTTTAGCTGTATGGTGTCT---CATATTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTTTGCATTTT---TTCTGAGTTGC
dp4 chr4_group3:8444179-8444302 + AGTTGATCTT------------T-TGTTTGCACATTATTTGATCTTTGGTGATTTTAGCTGTATGGTGTATATCAAAGATCCATAGAGCTTTATCACCAAAACCCAAATGGTTTTTGCATTTTTTCGCTTGAGTTGC
droPer1 super_1:9895298-9895421 + AGTTGATCTT------------T-TGTTTGCACATTATTTGATCTTTGGTGATTTTAGCTGTATGGTGTATATCAAAGATCCATAGAGCTTTATCACCAAAACCCAAATGGTTTTTGCATTTTTTCGCTTGAGTTGC
droWil1 scaffold_181132:873333-873452 - ATTGATTTTG------------A-TTTTCGCATATTATTTGGTCTTTGGTGATTTTAGCTGTATGGTGTATGAGCATAATCCATAGAGCTTTATTACCAAAAACCAAATGGTTTTTGCATTTT---GCTTGAGTTG-
droVir3 scaffold_12963:12862857-12862965 - TGTTGCCTTT------------TTATTTTGCATATTATTTGCTCTTTGGTGATTTTAGCTGTATGGTGTGCG--CGTATTCCATAGAGCTTTATTACCAAAAACCAAATGGTTTTTGCATT--------------GC
droMoj3 scaffold_6500:7202293-7202399 + TG--GCTTTT------------T-ATTTTGCATATTATTTGTTCTTTGGTGATTTTAGCTGTATGGTGTGCG--CGTATTCCATAGAGCTTTATTACCAAAAACCAAATGGTCTTTGCATT--------------GC
droGri2 scaffold_14978:831270-831399 + TGCTGCCCTTTGTTTGCCCTTTTGAGTTTGCATATTATTTGCTCTTTGGTGATTTTAGCTCTATGGTGTGCG--CATAATCCACAGAGCTTTATTACCAAAAACCAAATGGTTTTTGCATT-T---GCTTTCTTTT-