Perfect mature and star arms

Divergent mature arm

Divergent star arm

Divergent mature and star arms

Melanogaster-subgroup miRNAs and mirtrons

Perfect mature and start

dme-mir-1008 mirtron Pileup and folds Correction UCSC

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

dme-mir-2281 intron Pileup and folds Correction UCSC

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

dme-mir-2489 mirtron Pileup and folds Correction UCSC

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

dme-mir-3645 intron Pileup and folds Correction UCSC

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

dme-mir-4973 intergenic Pileup and folds Correction UCSC

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

Divergent mature

dme-mir-1013 mirtron Pileup and folds Correction UCSC

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

dme-mir-4916 mirtron Pileup and folds Correction UCSC

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

dme-mir-4919 mirtron Pileup and folds Correction UCSC

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

dme-mir-4946 intron Pileup and folds Correction UCSC

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

dme-mir-4965 intron Pileup and folds Correction UCSC

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

dme-mir-966 intron Pileup and folds Correction UCSC

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

Divergent star

dme-mir-1005 mirtron Pileup and folds Correction UCSC

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

dme-mir-1016 mirtron Pileup and folds Correction UCSC

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

dme-mir-2496 intergenic Pileup and folds Correction UCSC

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

dme-mir-4918 mirtron Pileup and folds Correction UCSC

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

dme-mir-4952 CDS Pileup and folds Correction UCSC

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

dme-mir-4967 intron Pileup and folds Correction UCSC

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

dme-mir-4969 intron Pileup and folds Correction UCSC

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

dme-mir-4983 intergenic Pileup and folds Correction UCSC

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

dme-mir-4984 intron Pileup and folds Correction UCSC

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

dme-mir-990 intron Pileup and folds Correction UCSC

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

Divergent mature and star

dme-mir-1001 intron Pileup and folds Correction UCSC

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

dme-mir-1009 mirtron Pileup and folds Correction UCSC

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

dme-mir-1012 mirtron Pileup and folds Correction UCSC

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

dme-mir-2280 three_prime_UTR Pileup and folds Correction UCSC

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

dme-mir-2282 intron Pileup and folds Correction UCSC

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

dme-mir-2490 antisense_to_intron Pileup and folds Correction UCSC

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

dme-mir-2492 intron Pileup and folds Correction UCSC

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

dme-mir-2493 intron Pileup and folds Correction UCSC

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

dme-mir-2494 mirtron Pileup and folds Correction UCSC

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

dme-mir-2498 intergenic Pileup and folds Correction UCSC

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

dme-mir-2500 mirtron Pileup and folds Correction UCSC

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

dme-mir-303 intergenic Pileup and folds Correction UCSC

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

dme-mir-3644 tailed_mirtron Pileup and folds Correction UCSC

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

dme-mir-4910 mirtron Pileup and folds Correction UCSC

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

dme-mir-4914 mirtron Pileup and folds Correction UCSC

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

dme-mir-4917 mirtron Pileup and folds Correction UCSC

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

dme-mir-4939 intergenic Pileup and folds Correction UCSC

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

dme-mir-4940 three_prime_UTR Pileup and folds Correction UCSC

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

dme-mir-4941 CDS Pileup and folds Correction UCSC

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

dme-mir-4944 intron Pileup and folds Correction UCSC

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

dme-mir-4947 intron Pileup and folds Correction UCSC

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

dme-mir-4949 five_prime_UTR Pileup and folds Correction UCSC

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

dme-mir-4950 intergenic Pileup and folds Correction UCSC

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

dme-mir-4953 intron Pileup and folds Correction UCSC

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

dme-mir-4954 intron Pileup and folds Correction UCSC

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

dme-mir-4955 intron Pileup and folds Correction UCSC

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

dme-mir-4958 CDS Pileup and folds Correction UCSC

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

dme-mir-4959 CDS Pileup and folds Correction UCSC

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

dme-mir-4960 intron Pileup and folds Correction UCSC

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

dme-mir-4962 intron Pileup and folds Correction UCSC

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

dme-mir-4963 three_prime_UTR Pileup and folds Correction UCSC

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

dme-mir-4966 intergenic Pileup and folds Correction UCSC

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

dme-mir-4970 intergenic Pileup and folds Correction UCSC

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

dme-mir-4971 CDS Pileup and folds Correction UCSC

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

dme-mir-4972 intron Pileup and folds Correction UCSC

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

dme-mir-4974 intron Pileup and folds Correction UCSC

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

dme-mir-4976 intergenic Pileup and folds Correction UCSC

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

dme-mir-4978 intergenic Pileup and folds Correction UCSC

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

dme-mir-4979 intergenic Pileup and folds Correction UCSC

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

dme-mir-4980 intron Pileup and folds Correction UCSC

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

dme-mir-4981 intergenic Pileup and folds Correction UCSC

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

dme-mir-4982 intron Pileup and folds Correction UCSC

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

dme-mir-4986 CDS Pileup and folds Correction UCSC

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

dme-mir-967 intron Pileup and folds Correction UCSC

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

dme-mir-972 intergenic Pileup and folds Correction UCSC

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

dme-mir-982 intergenic Pileup and folds Correction UCSC

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

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

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

dme-mir-985 intergenic Pileup and folds Correction UCSC

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

dme-mir-991 intergenic Pileup and folds Correction UCSC

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

dme-mir-992 intergenic Pileup and folds Correction UCSC

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

dme-mir-997 intergenic Pileup and folds Correction UCSC

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