dan_517

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## CCACTACTGACTAACTAATCCTAATCTCTCCTCCCTCTTTCAGTTGCTGATAACGTAAACCAGTGGCAATAACATAGAATAAAGTAACTTGGCTGAGAGGCATCCTTGAGCCATTCCAAAAGCGAATCTACAGTGAAAAAAATAAAACACAACAATAAAAAGTGCTTATTGAAGAAGATATAAAGTCCTTGAATCCTGTAGAAGTCAGTCCGGATTCCGGAGAAGCCACAACGTCGTCCACAAAACCATCG ***************************************************...((..(((((.............((...(((..((.((((((.(((........))).)))....))).))..))).)).............)))............)).))**********************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V055 head	V105 male body	V039 embryo
.....................................................CGTAAACCAGTGGCAATAAC..................................................................................................................................................................................	20	0	1	2.00	2	2	0	0	0
...............................................................................................................................................................................................................GGCCGGATTCCGGAGAAGCCACAACGTC................	28	1	1	1.00	1	1	0	0	0
..................................................................................................................................................................................................................CTGTTTCCGGAGAAGCCACAACGTC................	25	2	1	1.00	1	1	0	0	0
................................................................................................................................................................................................................................GCCACAACGTCGTCCACAAAACCATC.	26	0	1	1.00	1	1	0	0	0
............AACTAATACTAATCTCTC.............................................................................................................................................................................................................................	18	1	1	1.00	1	0	1	0	0
..............................................................................................................................................................................................................................AAGCCACAATGTCGTCCACA.........	20	1	1	1.00	1	0	1	0	0
...................................................................................................................................................CACAACAATAAAAAGTGCTT....................................................................................	20	0	1	1.00	1	0	0	1	0
........................................................................................................................................................................................GTCCTTGAATCCTGTAGAAGT..............................................	21	0	1	1.00	1	0	0	1	0
........................................................................................................................................................................................GTCCTTGAATCCTGTAGAA................................................	19	0	1	1.00	1	0	0	0	1
..............................................................................................................................TCTACAGTGAAAAAAAAAA..........................................................................................................	19	1	2	0.50	1	1	0	0	0
..............................................................................................................................................................................................................................AAGCCACAATGTCGTCCACC.........	20	2	3	0.33	1	0	1	0	0
............................................................................................................................................AACAAAACACAACAATAAAA...........................................................................................	20	1	4	0.25	1	1	0	0	0
.............................................GCTGAACACGTATACCAGTG..........................................................................................................................................................................................	20	3	4	0.25	1	0	1	0	0
.....................................................................................................................................TGAAAAAGTTAAAACACAACCA................................................................................................	22	3	18	0.06	1	1	0	0	0
.........................................................................................................................................AAAAATAAATCACAACAAGA..............................................................................................	20	2	20	0.05	1	1	0	0	0
.........................................................................................TGGCTGAGAGGCTAACTTG...............................................................................................................................................	19	3	20	0.05	1	0	1	0	0

GGTGATGACTGATTGATTAGGATTAGAGAGGAGGGAGAAAGTCAACGACTATTGCATTTGGTCACCGTTATTGTATCTTATTTCATTGAACCGACTCTCCGTAGGAACTCGGTAAGGTTTTCGCTTAGATGTCACTTTTTTTATTTTGTGTTGTTATTTTTCACGAATAACTTCTTCTATATTTCAGGAACTTAGGACATCTTCAGTCAGGCCTAAGGCCTCTTCGGTGTTGCAGCAGGTGTTTTGGTAGC **********************************************************************************...((..(((((.............((...(((..((.((((((.(((........))).)))....))).))..))).)).............)))............)).))***************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V039 embryo	V055 head
.............................................................................................................................................................................CGTCTATATTTCAGGAACTGAC........................................................	22	3	1	1.00	1	1	0
....ATGAATGATTGATTAGG......................................................................................................................................................................................................................................	17	1	3	0.33	1	0	1
......................TTAGAGAGGAGGGAGCAG...................................................................................................................................................................................................................	18	2	6	0.17	1	1	0
.....................ATAAGAGAGGAAGGAGAAA...................................................................................................................................................................................................................	19	2	16	0.06	1	0	1
..................................................................................................................................................................................................................ATCCAAGGCCTCTTCGGTG......................	19	3	20	0.05	1	0	1

Species	Coordinate	ID	Alignment
droAna3	scaffold_12916:3964549-3964799 +	dan_517	C-------------------------------CACT--------------ACTGACTAACTAAT--CCTAA--TCTCTCCTCC--CTCTTTCAGT--TGCTGATAACGTAAACCAGTGGCAATAACATAGAATAAAGTAACT-TGGC-TGAGAGGCAT-CC--------------TT----GAGCCATTCC---AAAAG------CGAATC--TAC---AGTGAAAAAAATAAAACACAACAATAAAAAGT-----------------------------------GCTTATTGAAGAAG-A-----------TA--------TAAAGTCCTTGAATCC--TG------------------T----------------------------------------------------------------------------------AGAAGTCAGTCCGG------------------------------A---------TTCCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droBip1	scf7180000396737:819618-819842 -		C-------------------------------AATG--------------ACTAACAAATC------CTAA--TCTCTCTTCC--GTTTTTCAGT--TGCTGATAACGTAACCCAGTGGCAATAACATAGAATAAACCAACT-TGGC-TGAAGGGCAT-TC--------------AG----G-GCCAGGCC---AAGAGAG------AATC--TAC---AGCGAAACA---------------------GTGCTATCTGAAGAAC---AA---------GTA-------------------------------------------AAGCCCTTGAATCC--TG------------------T----------------------------------------------------------------------------------ACAAGTCAGTCCGG------------------------------A---------CGCCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droKik1	scf7180000302570:370777-371130 +		CAAAAAAAAAACAGAACTTTTACATA------TCCC--------------ACTAAC----CTTA--CCATA--TCTCCTTTCTGTTTTTTACAGTTTTGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAAACACGGC-AAAAAGT-TAAGAAAAGGTTACAAAAA---------AAAGGCCCCAAAAAGTAAATGCGAATTT-CGG---AGTGAA------------------------------ACAAGTGCAA----A---------GTCAACAACTTGTGGGAGTCCAAGCGCTATTGAGTTTCGAGTCCTTGAGTTCTTGGATCCCTTG------------------CCCGT---------GTCCGCG------TCCGCG--T---CCGTGCCCCGTGTG--------------TTAGTGTT-GCG---CGTAAGTGAGTCCGG------------------------------A---------CTCCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droFic1	scf7180000453883:76822-76909 -		C-------------------------------CATC--------------ACTAACAAACTTTT--TCTTA--TCTCTTCTCTT-TTTTTGCAGT--TGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491186:406340-406685 +		C-------------------------------GATT--------------ACTAACAAACTTTTT-TTCCA--TCTCTTTTCT--ATTTTTCAGT--TGCTGATAACGCAAACAAGTGGCAATAATAAAGAGAAAAATAAAC-GGGC-TAAAAGGTTC-GA------------------------AAGGCC-GAAAAAGTGAAAGCCAATTC-AGT---AGTAAA------------------------------ACCAGTGCAA----A---------GTCAAAAACTTGTGGGAGTCG-AGTGCTCGTCGTCC--------TCGAGTCCTTGAGTCC--TG------------------CCAGTGGTGGTGGTGTG---------CCAAGTGTATTAAGTGTGCAAAGTGTGCC--AG-GTG-------------------TGCTAGTGCGTCCGTGGATACCAGATACCAGATACCAGATAACGGATAACGGA--TACCGGAGAAGCCACAACGT---CGTCCATAAAACCATCG
droRho1	scf7180000780132:25111-25411 +		C-------------------------------CATT--------------ACTAACAAACTTTT--TCCTA--TCTCTTTTCT--ATTTTGCAGT--TGCTGATAACGCAAACAAGTGGCAATAACATAGAATAAATTAAAC-GGGC-TAAAAGGTTC-GA------------------------AGGGCC--AAAAAGTGAAAGCCAATC--CGT---AGTGAA------------------------------ACCAGTGCAA----A---------GTCAACAACTTGTGGGAGTCG-AGTGCTCG---TCC--------TCGAGTCCTTGAGTCC--TG------------------CCAGT---------GTG---------CCAAGTGTGTTAGGTGTGCAAAGTGTACA---------------AAGTGTGCCAGGTGTGAGTGCGTCCGG------------------------------A---------TACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droBia1	scf7180000302422:7650008-7650309 -		C-------------------------------CACC--------------ACTAACCGACCTTTT-TGTTA--TCTCTCTTCT--GTCTTGCAGT--TGCTGATAGCGTAAACAAGTGGCAATAACATAGAATAAATCAAAC-CGGT-GAAAAGGCTC-GA------------------------AGGGCC---GAAAGTGAAAGCCAATC--CGG---AGTGAA------------------------------ACCAGTGCAA---AA---------GTCAACAGCTTGTGGGAGTCG-AGAGCTCG---TCCTCGAGTCCCCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------TTAAGTGCATTAAGTGTGCCAAGTGTGCGAGT--------------------G---TGTGAGTGCGTCCGG------------------------------A---------TACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droTak1	scf7180000415115:122343-122659 -		C-------------------------------CATT--------------ACTAACCGACTTTC--GCTTA--TCTCTCTTCT--CTTTTGCAGT--TGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAAAC-CGGTAAAAAAGGTTC-GA------------------------AGGGCC---GAAAGTGAAAGCCAATT--CGG---AGTGAA------------------------------ATTAGTGCAAGTAGA---------GTCAACAACTTGTGGGAGTCG-AGTGCTCG---TCCTCGAGTCCTTGCATCCTTGAATCC--T---------------ACTGCCGGT---------GTGT-TG-----TTAAGTGCATTAAGTGACCCA---GAGCGTCC--G---------------------TGTGAGTGCGTCCGG------------------------------ATAACGGAGCTACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droEug1	scf7180000409767:858718-859018 -		C-------------------------------CATT--------------ACTAACCGACTTTT--TCTTA--TCTCTT---T--GTTTTCCAGT--TGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAAAC-CGGC-AAAAAGGTTT-GA------------------------AAGGCC---AAAAGTGAAAGCCAATC--CGC---TGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGTGCTCG---TCCTCGAGTCCTTCAGTCCTTGAATCC--TG------------------TCAGT---------GTG---------TTAAGTGCATTAAGTGTGCCAAGTGTGCGTGTGCG---------------------TGTGAGTGCGTCCGG------------------------------A---------TACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
dm3	chr2L:20431905-20432191 +		-------------------------------------------------------------------------TCTCTCTTTT--GTTTTGCAGT--TGCTGATAACGTATACAAGTGGCAATAACA--GAATAAATTAAGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---TGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGTTCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------CTCAGTGCTTTAAGTGTGCCAAGTGTGCGTCTGCGTGTGCGTGAGCGTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droSim2	2l:19895935-19896277 +		TA-----------------TCTGATACCTGACCAATACCACAGTACAATATCTAACCAATAATTCTCTGTGTCTCTCTCTTTT--CTTTTGCAGT--TGCTGATAACGTATACAAGTGGCAATAACA--GAATAATTTAGGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---AGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGCTCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------CTCAGTGCTTTAAGTGTGCCAAGTGTGCGTCTGCGTGTGCGTGAGCGTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droSec2	scaffold_18:319216-319541 +		C-------------------------------CAATACCACAGTACAATATCTAACCAATAGTTCTCTGTG--TCTCCCTTTT--CTTTTGCAGT--TGCTGATAACGTATACAAGTGGCAATAACA--GAATAAATTAAGC-CGGA-A-AAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---AGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGCTCG---TCC--------TCGAGTCCTTAAATCC--TG------------------CCAGT---------GTG---------CCCAGTGCTTTAAGTGTGCCAAGTGTGCGTCTGCGTGTGCGTGAGCGTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droYak3	2R:6796803-6797121 +		A-------------------------------CAATAGCTTAATACAAAAACTAACCAAAAATTCTCTATA--TCT---TTAT--TTTTTGCAGT--TGCTGATAACGTATAAAAGTGGCGATAGCA--GAATAAATTTTGC-CGGA-AAAAAGG-TC-GA------------------------AAGACC---AAAAGTGAAATCCAATT--CGG---AGTGAAAA----------------------------ACAAGTCGAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGTTTG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------CTCAGTGCTTTAAGTGTGCCCAGTGTGCGTCTGCGTGTGCGT------GAGCC---TGTGACTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
droEre2	scaffold_4845:4000090-4000391 -		C-------------------------------ACCT--------ACAATAACTAACCGAAAGTTTTCCATA--TCTCTCT--T--GTTTTGCAGT--TGCTGATAACGTGTACAAGTGGCAATAACA--GAATAAAT-AAGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---AGTGCAAAA---------------------GTGCAATCCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGTTCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GAG---------CTCAGTGCTTTAGGTGTGCCCAGTGTGCGTC-------------------------TGTGACTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG
dp5	4_group4:2677776-2678052 +		C-------------------------------T-----------------ACTAACTGCCTCTTTTCTCTCTCTCTCTCTTGTG-CTCTTGCAGG--TGCTGATAACGGTGAAAAGTGGCAATAATATCGAATAAATTAATA-CA---AAGAAGG----------------------GCTTG-GCCAGGCG-GAAAAAGGAAAAGTGAATAGCCGGAAAAGTGAA------------------------------ACAAGTGCAG----AGCCAGCCAAGTGCAACGCTTGCGGCA---------------------------------CATCGAGTCC--TGCCACTGCGAAAGCGATTGCCAGT---------G------------C------------------AAGTG-------------------------------TGTTAGTGCGCGAGT------------------------------G----------TCCCGAGAAGCCACAACGT---CGTCCTCCAAACCAACG
droPer2	scaffold_10:1686173-1686457 +		--------------------------------------------------ACTAACTGCCTCTTTTCTCTC--TCTCTCTTGTG-TTCTTGCAGG--TGCTGATAACGGTGAAAAGTGGCAATAATATCGAATAAATTAATA-CA---AAGAAGG----------------------GCTTG-GCCAGGCG-GAAAAAGGAAAAGTGAATAGCCGGAAAAGTGAA------------------------------ATAAGTGCAG----AGCCAGCCAAGTGCAAAGCTTGCGGCA---------------------------------CATCGAGTCC--TGCCACTGCGAAAGCGATTACCAGT---------GCCAGTGCCAGTGC------------------AAGTG-------------------------------TGTTAGTGCGCGAGT------------------------------G----------TCCCGAGAAGCCACAACGT---CGTCCTCCAAACCAACG
droWil2	scf2_1100000004577:2105789-2105819 -		---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGTCACAACGTCGTCGTCTACAAAACCAACG
droVir3	scaffold_12963:17611365-17611396 -		-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGTCGTCACAACGT---CGTCCGCAAAACCTACG
droMoj3	scaffold_6308:1849715-1849771 -		T-------------------------------TTAC--------------TCAACCCGA-----------------------------------------------------------------------------------------------------------------------------------------------ACTCGAACC--CAA---AATGAAA-----------------------------AAAAAAAAAA---AA---------AATAACAGAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG
droGri2	scaffold_14853:5575134-5575186 -		A-------------------------------GCAG--------------TCAGGCGGC-------------------------------------------------------------A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G---------CACAGCAGCAGCAACAGCAA---CAACAGCAGCAGCAGCA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

C-------------------------------CACT--------------ACTGACTAACTAAT--CCTAA--TCTCTCCTCC--CTCTTTCAGT--TGCTGATAACGTAAACCAGTGGCAATAACATAGAATAAAGTAACT-TGGC-TGAGAGGCAT-CC--------------TT----GAGCCATTCC---AAAAG------CGAATC--TAC---AGTGAAAAAAATAAAACACAACAATAAAAAGT-----------------------------------GCTTATTGAAGAAG-A-----------TA--------TAAAGTCCTTGAATCC--TG------------------T----------------------------------------------------------------------------------AGAAGTCAGTCCGG------------------------------A---------TTCCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
..........................................................................................................CGTAAACCAGTGGCAATAAC............................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	2.00	2	0	2	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCACAACGT---CGTCCACAAAACCATC.	26	1	1.00	1	0	1	0	0	0	0
...........................................................................................................................................................................................................................................CACAACAATAAAAAGT-----------------------------------GCTT........................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................GTCCTTGAATCC--TG------------------T----------------------------------------------------------------------------------AGAAGT........................................................................................	21	1	1.00	1	0	0	0	0	1	0
.......................................................................................................................................................................................................................................................................................................................................GTCCTTGAATCC--TG------------------T----------------------------------------------------------------------------------AGAA..........................................................................................	19	1	1.00	1	0	0	1	0	0	0

droBip1

C-------------------------------AATG--------------ACTAACAAATC------CTAA--TCTCTCTTCC--GTTTTTCAGT--TGCTGATAACGTAACCCAGTGGCAATAACATAGAATAAACCAACT-TGGC-TGAAGGGCAT-TC--------------AG----G-GCCAGGCC---AAGAGAG------AATC--TAC---AGCGAAACA---------------------GTGCTATCTGAAGAAC---AA---------GTA-------------------------------------------AAGCCCTTGAATCC--TG------------------T----------------------------------------------------------------------------------ACAAGTCAGTCCGG------------------------------A---------CGCCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CAAAAAAAAAACAGAACTTTTACATA------TCCC--------------ACTAAC----CTTA--CCATA--TCTCCTTTCTGTTTTTTACAGTTTTGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAAACACGGC-AAAAAGT-TAAGAAAAGGTTACAAAAA---------AAAGGCCCCAAAAAGTAAATGCGAATTT-CGG---AGTGAA------------------------------ACAAGTGCAA----A---------GTCAACAACTTGTGGGAGTCCAAGCGCTATTGAGTTTCGAGTCCTTGAGTTCTTGGATCCCTTG------------------CCCGT---------GTCCGCG------TCCGCG--T---CCGTGCCCCGTGTG--------------TTAGTGTT-GCG---CGTAAGTGAGTCCGG------------------------------A---------CTCCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

C-------------------------------CATC--------------ACTAACAAACTTTT--TCTTA--TCTCTTCTCTT-TTTTTGCAGT--TGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

C-------------------------------GATT--------------ACTAACAAACTTTTT-TTCCA--TCTCTTTTCT--ATTTTTCAGT--TGCTGATAACGCAAACAAGTGGCAATAATAAAGAGAAAAATAAAC-GGGC-TAAAAGGTTC-GA------------------------AAGGCC-GAAAAAGTGAAAGCCAATTC-AGT---AGTAAA------------------------------ACCAGTGCAA----A---------GTCAAAAACTTGTGGGAGTCG-AGTGCTCGTCGTCC--------TCGAGTCCTTGAGTCC--TG------------------CCAGTGGTGGTGGTGTG---------CCAAGTGTATTAAGTGTGCAAAGTGTGCC--AG-GTG-------------------TGCTAGTGCGTCCGTGGATACCAGATACCAGATACCAGATAACGGATAACGGA--TACCGGAGAAGCCACAACGT---CGTCCATAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

C-------------------------------CATT--------------ACTAACAAACTTTT--TCCTA--TCTCTTTTCT--ATTTTGCAGT--TGCTGATAACGCAAACAAGTGGCAATAACATAGAATAAATTAAAC-GGGC-TAAAAGGTTC-GA------------------------AGGGCC--AAAAAGTGAAAGCCAATC--CGT---AGTGAA------------------------------ACCAGTGCAA----A---------GTCAACAACTTGTGGGAGTCG-AGTGCTCG---TCC--------TCGAGTCCTTGAGTCC--TG------------------CCAGT---------GTG---------CCAAGTGTGTTAGGTGTGCAAAGTGTACA---------------AAGTGTGCCAGGTGTGAGTGCGTCCGG------------------------------A---------TACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

droBia1

C-------------------------------CACC--------------ACTAACCGACCTTTT-TGTTA--TCTCTCTTCT--GTCTTGCAGT--TGCTGATAGCGTAAACAAGTGGCAATAACATAGAATAAATCAAAC-CGGT-GAAAAGGCTC-GA------------------------AGGGCC---GAAAGTGAAAGCCAATC--CGG---AGTGAA------------------------------ACCAGTGCAA---AA---------GTCAACAGCTTGTGGGAGTCG-AGAGCTCG---TCCTCGAGTCCCCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------TTAAGTGCATTAAGTGTGCCAAGTGTGCGAGT--------------------G---TGTGAGTGCGTCCGG------------------------------A---------TACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

C-------------------------------CATT--------------ACTAACCGACTTTC--GCTTA--TCTCTCTTCT--CTTTTGCAGT--TGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAAAC-CGGTAAAAAAGGTTC-GA------------------------AGGGCC---GAAAGTGAAAGCCAATT--CGG---AGTGAA------------------------------ATTAGTGCAAGTAGA---------GTCAACAACTTGTGGGAGTCG-AGTGCTCG---TCCTCGAGTCCTTGCATCCTTGAATCC--T---------------ACTGCCGGT---------GTGT-TG-----TTAAGTGCATTAAGTGACCCA---GAGCGTCC--G---------------------TGTGAGTGCGTCCGG------------------------------ATAACGGAGCTACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

droEug1

C-------------------------------CATT--------------ACTAACCGACTTTT--TCTTA--TCTCTT---T--GTTTTCCAGT--TGCTGATAACGTAAACAAGTGGCAATAACATAGAATAAATTAAAC-CGGC-AAAAAGGTTT-GA------------------------AAGGCC---AAAAGTGAAAGCCAATC--CGC---TGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGTGCTCG---TCCTCGAGTCCTTCAGTCCTTGAATCC--TG------------------TCAGT---------GTG---------TTAAGTGCATTAAGTGTGCCAAGTGTGCGTGTGCG---------------------TGTGAGTGCGTCCGG------------------------------A---------TACCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total
No Reads

dm3

-------------------------------------------------------------------------TCTCTCTTTT--GTTTTGCAGT--TGCTGATAACGTATACAAGTGGCAATAACA--GAATAAATTAAGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---TGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGTTCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------CTCAGTGCTTTAAGTGTGCCAAGTGTGCGTCTGCGTGTGCGTGAGCGTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total	GSM154618 Ovary	GSM154620 Ovary	GSM154621 Ovary	GSM154622 Ovary	GSM180328 Head	GSM180329 Mixed-body	GSM180330 Embryo	GSM180331 Embryo	GSM180332 Embryo	GSM180333 Embryo	GSM180334 Larvae	GSM180335 Disc	GSM180336 Pupae	GSM180337 S2	GSM231091 Ovary	GSM239041 Head	GSM239050 Head	GSM239051 S2	GSM239052 S2	GSM246084 Head	GSM266765 S2	GSM280082 Ovary	GSM280083 Ovary	GSM280084 Ovary	GSM280085 Testis	GSM280086 Ovary	GSM280087 S2-NP	GSM280088 S2-NP	GSM312995 Head	GSM313160 Head	GSM313161 Head	GSM313162 Head	GSM313163 Head	GSM313164 Head	GSM313165 Head	GSM343287 Embryo	GSM379050 Ovary	GSM379051 Ovary	GSM379052 Ovary	GSM379053 Ovary	GSM379054 Ovary	GSM379055 Ovary	GSM379056 Ovary	GSM379057 Ovary	GSM379058 Ovary	GSM379059 Ovary	GSM379060 Ovary	GSM379061 Ovary	GSM379062 Ovary	GSM379063 Ovary	GSM379064 Ovary	GSM379065 Ovary	GSM379066 Ovary	GSM379067 Ovary	GSM424739 S2	GSM424740 S2	GSM424741 S2	GSM467729 Female-body	GSM467730 Female-body	GSM467731 Female-body	M002 CS	M003 Male-body	M004 Male-body	M005 ML-DmD32	M006 ML-DmD32	M029 OSC	M030 OSC	M031 OSC	M032 S2-R+	M033 S2-R+	M034 S2-R+	M035 S2-R+	M036 S2-R+	M037 S2-R+	M038 S2-R+	M039 S2-R+	M048 S2-R+	OSS2 OSS	OSS6 OSS	OSS7 OSS	OSS8 OSS	S1 Head	S10 Embryo	S11 Embryo	S12 Embryo	S13 Embryo	S14 Embryo	S15 S2-GMR	S16 Kc	S17 Larvae	S18 Larvae	S19 Pupae	S2 Head	S20 Pupae	S21 Disc	S22 Head	S23 Female-body	S24 Male-body	S25 Larvae	S26 Larvae	S27 Pupae	S28 Pupae	S29 Head	S3 Male-body	S30 S2-GMR	S31 S2	S32 S2	S33 Kc	S34 Kc	S35 Kc	S4 Female-body	S5 Disc	S6 Embryo	S7 Embryo	S8 S2	S9 Embryo	SRR001337 Head	SRR001338 Head	SRR001339 Head	SRR001340 Head	SRR001341 Head	SRR001342 Head	SRR001343 Head	SRR001344 Head	SRR001345 Head	SRR001346 Head	SRR001347 Head	SRR001348 Head	SRR001349 Head	SRR001664 Head	SRR010951 Ovary	SRR010952 Ovary	SRR010953 Ovary	SRR010954 Ovary	SRR010955 Ovary	SRR010956 Ovary	SRR010957 Ovary	SRR010958 Ovary	SRR010959 Ovary	SRR010960 Ovary	SRR014268 Embryo	SRR014269 Embryo	SRR014270 Embryo	SRR014271 Embryo	SRR014272 Embryo	SRR014273 Ovary	SRR014274 Ovary	SRR014275 Ovary	SRR014276 Ovary	SRR014277 Ovary	SRR014278 Ovary	SRR014279 Ovary	SRR014280 Ovary	SRR014281 Ovary	SRR014282 Ovary	SRR023197 S2	SRR023399 S2	SRR023400 S2	SRR023402 S2	SRR023407 S2	SRR029028 S2	SRR029029 S2	SRR029030 S2	SRR029031 S2	SRR029032 S2	SRR029033 S2	SRR029608 Head	SRR029633 Head	SRR030145 gb3	SRR031692 Head	SRR031693 Head	SRR031694 Head	SRR031696 Head	SRR031697 Head	SRR031698 Head	SRR031699 Head	SRR031700 Head	SRR031701 Head	SRR031702 Head	SRR031703 Head	SRR031704 Head	SRR032092 S2	SRR032093 S2	SRR032094 S2	SRR032095 S2-NP	SRR032096 S2-NP	SRR032152 Head	SRR060643 Testis	SRR060644 Ovary	SRR060645 Testis	SRR060646 Ovary	SRR060647 Ovary	SRR060648 Ovary	SRR060649 Ovary	SRR060650 Testis	SRR060651 Ovary	SRR060652 Testis	SRR060653 Ovary	SRR065151 Ovary	SRR065152 Ovary	SRR065153 Ovary	SRR065154 Ovary	SRR065155 Ovary	SRR065800 Ovary	SRR065801 Ovary	SRR065802 Ovary	SRR065803 Ovary	SRR065804 Ovary	SRR065805 Ovary	SRR065806 Ovary	SRR065807 Ovary	SRR097865 S2-NP	SRR097866 S2-NP	SRR097867 S2-NP	SRR298536 Ovary	SRR298537 Ovary	SRR298711 Ovary	SRR298712 Ovary	SRR317110 Ovary	SRR317111 Ovary	SRR317112 Ovary	SRR317113 Ovary	SRR317114 Ovary	SRR317115 Ovary	SRR317116 Ovary	SRR317117 Ovary	SRR341115 S2	SRR341116 S2	SRR341117 S2	SRR341118 S2	SRR351332 Mixed-body	SRR351333 Mixed-body	T004 OSC	T005 CME-L1	V001 Embryo	V002 Embryo	V003 S2	V006 Female-body	V007 Head	V008 S2	V009 CME-L1	V010 ML-DmD20-C5	V011 Sg4	V012 Male-body	V013 Head	V014 DTT	V015 DreRFHV	V018 Kc167	V019 GM2	V020 S2-R+	V021 ML-DmD21	V022 ML-DmD32	V023 Head	V024 Kc167	V025 S2-R+	V026 1182-2H	V027 ML-DmD21	V028 CME-W1-Cl.8+	V029 ML-DmD9	V030 ML-DmD8	V031 GM2	V032 S1	V033 CME-W1-Cl.8+	V034 ML-DmD16-C3	V035 ML-DmD32	V036 ML-DmD20-C5	V037 S2	V038 S2	V063 Ovary	V0632 Ovary	V064 Ovary	V0642 Ovary	V065 Ovary	V0652 Ovary	V066 Ovary	V0662 Ovary	V067 S2-NP	V073 mbn2	V074 S3	V075 ML-DmBG1-C1	V076 ML-DmBG3-C2	V077 Head	V078 Head	V079 Head	V080 Head	V081 Embryo	V082 Embryo	V083 Male-body	V084 Female-body	V085 CME-W2	V086 Female-body	V088 Ovary	V0882 Ovary	V089 Ovary	V0892 Ovary	V090 Male-body	V091 fGS/OSS	V092 Male-body	V093 Male-body	V094 S2-R+	V095 S2-R+	V096 Ovary	V097 Ovary	V098 Ovary	V125 ML-DmD9	V126 CME-L1	V127 G2	V128 S3	V129 ML-DmBG1-C1	V130 ML-DmBG3-C2	V131 ML-DmD16-C3	V132 ML-DmD32	V133 Sg4	V134 ML-DmD8	V135 CME-W2	V136 Male-body	V137 Head	V138 Male-body	V139 Female-body	V140 Female-body	V141 Female-body	V142 Female-body	V144 OSC	V145 S2	V146 S1	V147 1182-2H	V148 mbn2	GSM1528798 follicle cells
.......................................................................................................................................................................................................................................................................................................AGTCG-AGCGTTCG---TCC--------TCGAGTCCTTG............................................................................................................................................................................................................	27	1	9.00	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	9	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGT..............	28	1	7.00	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................C--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------...................................................................................................................................................................	24	1	5.00	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................................................................................................TGTGGGAGTCG-AGCGTTCG---TCC--------TCGA...................................................................................................................................................................................................................	26	1	4.00	4	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................AAGTGTGCGTCTGCGTGTGC...............................................................................................................	20	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................TGCCAAGTGTGCGTCTGCGTGTGCGTG............................................................................................................	27	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	1	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................CTTTAAGTGTGCCAAGTGTGCGTC........................................................................................................................	24	1	3.00	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................................................................................................TGCGTGTGCGTGAGCGTGAGCC---TGT............................................................................................	25	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................AA---AA---------GTCAACAACTTGTGGGAGTCG-.............................................................................................................................................................................................................................................	25	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
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.....................................................................................................................................................................................................................................................................GCAA---AA---------GTCAACAACTTGTGGGAGTC...............................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................TAAGTGTGCCAAGTGTGCGTCTGCGTG..................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................GCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGA...............................	28	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................AGTCG-AGCGTTCG---TCC--------TCG....................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................AA-----------------------------ACCAGTGCAA---AA---------GTCAA..............................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................CCTTGAATCC--TG------------------CCAGT---------GTG---------CT.....................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................AAAGG-TC-GA------------------------AAGGCC---AAAAG...................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAG.................................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droSim2

TA-----------------TCTGATACCTGACCAATACCACAGTACAATATCTAACCAATAATTCTCTGTGTCTCTCTCTTTT--CTTTTGCAGT--TGCTGATAACGTATACAAGTGGCAATAACA--GAATAATTTAGGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---AGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGCTCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------CTCAGTGCTTTAAGTGTGCCAAGTGTGCGTCTGCGTGTGCGTGAGCGTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total	M023 Head	M024 Male-body	M025 Embryo	M053 Female-body	O001 Testis	O002 Head	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary	V044 Embryo	SRR902008 Ovary	SRR902009 Testis	SRR1275487 Male larvae	SRR1275485 Male prepupae	SRR1275483 Male prepupae
...................................................................................................................................................................................................................................................................................................................CG---TCC--------TCGAGTCCTTGAATCC--TG------------------CC...............................................................................................................................................................................	25	1	6.00	6	0	5	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................AACA--GAATAATTTAGGC-CGGA-AAAAA.................................................................................................................................................................................................................................................................................................................................................................................................	26	1	2.00	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................A---------GTCAACAACTTGTGGGAGTCG-AGCGCT.......................................................................................................................................................................................................................................	28	1	2.00	2	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................TAACA--GAATAATTTAGGC-CGGA-AAAAAGG-..............................................................................................................................................................................................................................................................................................................................................................................................	29	1	2.00	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................GCAA---AA---------GTCAACAACTTGTGGGA..................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................................................................................................................G-AGCGCTCG---TCC--------TCGAGTC................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAGTCG-AGCGCTC......................................................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................GTCG-AGCGCTCG---TCC--------TC.....................................................................................................................................................................................................................	17	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGCGTGAGCGTGAGCC---TGTGA..........................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................CG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------...................................................................................................................................................................	28	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................A-AAAAAGG-TC-GA------------------------AAGGCC---........................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................AATAACA--GAATAATTTAGGC-CGGA-AAAA..................................................................................................................................................................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................GTGCAA---AA---------GTCAACAACTTGTGGGA..................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................TCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CC...............................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................................................................................................TTGTGGGAGTCG-AGC..........................................................................................................................................................................................................................................	15	12	0.17	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0

droSec2

C-------------------------------CAATACCACAGTACAATATCTAACCAATAGTTCTCTGTG--TCTCCCTTTT--CTTTTGCAGT--TGCTGATAACGTATACAAGTGGCAATAACA--GAATAAATTAAGC-CGGA-A-AAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---AGTGAAA-----------------------------ACCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGCTCG---TCC--------TCGAGTCCTTAAATCC--TG------------------CCAGT---------GTG---------CCCAGTGCTTTAAGTGTGCCAAGTGTGCGTCTGCGTGTGCGTGAGCGTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAGTCG-AGC..........................................................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCACAACGT---CGTCCACAAAACCATC.	26	1	1.00	1	0	1	0	0
..................................................................................................GCTGATAACGTATACAAGTGGC..................................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0
..............................................................................................................................................................................................C---AAAAGTGAAATCCAATC--CGG---AGTGA..........................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TA......................................	25	1	1.00	1	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGAGCC---TGTGAGTGCGTCCGG------------------------------G---------TAGC....................................	27	1	1.00	1	0	1	0	0
....................................................................................................................................................................................................................................................................................................................................................................................................................GCCAAGTGTGCGTCTGCGTGT.................................................................................................................	21	1	1.00	1	0	1	0	0
.........................................................................................................................................TAAGC-CGGA-A-AAAGG-TC-GA------------------------AAGGC............................................................................................................................................................................................................................................................................................................................................................	24	1	1.00	1	0	0	1	0
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAGTCG-AG...........................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................GAGCGTGAGCC---TGTGAGT........................................................................................	18	1	1.00	1	0	0	0	1

droYak3

A-------------------------------CAATAGCTTAATACAAAAACTAACCAAAAATTCTCTATA--TCT---TTAT--TTTTTGCAGT--TGCTGATAACGTATAAAAGTGGCGATAGCA--GAATAAATTTTGC-CGGA-AAAAAGG-TC-GA------------------------AAGACC---AAAAGTGAAATCCAATT--CGG---AGTGAAAA----------------------------ACAAGTCGAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGTTTG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GTG---------CTCAGTGCTTTAAGTGTGCCCAGTGTGCGTCTGCGTGTGCGT------GAGCC---TGTGACTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total	M026 Head	M043 Female-body	M056 Embryo	V046 Embryo	V052 Head	V058 Head	V120 Male-body	SRR1275488 Male larvae	SRR1275486 Male prepupae	SRR1275484 Male prepupae	GSM1528802 follicle cells
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTGCGTCCGG------------------------------G---------TAGCGGAG................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................A---AA---------GTCAACAACTTGTGGGA..................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCGG------------------------------G---------TAGCGGAGAAGCCAC.........................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.................................................................................................................................................................................................................................................................................................................................................................................................................................CTGCGTGTGCGT------GAGCC---TGT............................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
...........................................................................................................GTATAAAAGTGGCGATAGCA--GA.......................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.........................................................................................................................................................................................................................................................................................................................................................................................................................................GCGT------GAGCC---TGTGACTGCGT....................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................G---------TAGCGGAGAAGCCACAAC......................	19	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................GAA---AA---------GTCAACAACTTGTGGGAGTC...............................................................................................................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0
.................................................................................................................................GAATAAATTTTGC-CGGA-AAAAA.................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
................................................................................................................................................................................................................................................................CAAGTCGAA---AA---------GTCAACAACTTGTGGGA..................................................................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.....................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTGCGT------GAGCC---TGTGACTGCGTCC..................................................................................	26	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.....................................................................................................GATAACGTATAAAAGTGGCG.................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................AA---AA---------GTCAACAACTTGTGGGAGTC...............................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAGTC...............................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0

droEre2

C-------------------------------ACCT--------ACAATAACTAACCGAAAGTTTTCCATA--TCTCTCT--T--GTTTTGCAGT--TGCTGATAACGTGTACAAGTGGCAATAACA--GAATAAAT-AAGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---AAAAGTGAAATCCAATC--CGG---AGTGCAAAA---------------------GTGCAATCCAGTGCAA---AA---------GTCAACAACTTGTGGGAGTCG-AGCGTTCG---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------GAG---------CTCAGTGCTTTAGGTGTGCCCAGTGTGCGTC-------------------------TGTGACTGCGTCCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---CGTCCACAAAACCATCG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
..............................................................................................................................................................................................................................................................................................................................................................................................................................................................GACTGCGTCCGG------------------------------G---------TAGCGGAGA...............................	22	1	2.00	2	0	0	0	0	1	1	0
.........................................................................................................................ATAACA--GAATAAAT-AAGC-CGGA-......................................................................................................................................................................................................................................................................................................................................................................................................	22	1	2.00	2	0	0	0	0	1	1	0
........................................................................................................................................................................................................................................................................................................................................................................................................................AGTGTGCGTC-------------------------TGTGACTGC......................................................................................	19	1	2.00	2	0	0	0	0	0	2	0
...........................................................................................................................................................................................................................................................................................................................................................................AGT---------GAG---------CTCAGTGCTTTAGGTGTGCCC..................................................................................................................................	27	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................................................................................G-AGCGTTCG---TCC--------TCGAGTCCTTGA...........................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1	0
.....................................................................................................GATAACGTGTACAAGTGGCAAT...............................................................................................................................................................................................................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAGTCG-AGC..........................................................................................................................................................................................................................................	24	1	1.00	1	0	0	0	0	1	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................GTC-------------------------TGTGACTGCGTCCGG------------------------------G---------TAGC....................................	23	1	1.00	1	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................................G------------------CCAGT---------GAG---------CTCAGTGCT..............................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................CAACTTGTGGGAGTCG-AGC..........................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	1	0	0	0
............................................................................................................................................................................................................................................................................................................................................................................GT---------GAG---------CTCAGTGCTTTAGGTGTGCC...................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCCACAACGT---CGTCCACAAAACC....	24	1	1.00	1	0	0	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................................AGT---------GAG---------CTCAGTGCTTTAGGTGT......................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................CC--TG------------------CCAGT---------GAG---------CTCAGTG................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0
..........................................................................................................................................................................................................................................................................................................................................................................................................CTTTAGGTGTGCCCAGTGTGCGT.........................................................................................................................	23	1	1.00	1	1	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................GAG---------CTCAGTGCTTTAGGTGTGCCCAGTG..............................................................................................................................	28	1	1.00	1	1	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................CTTGAATCC--TG------------------CCAGT---------GAG---------CTC....................................................................................................................................................	22	1	1.00	1	0	0	0	0	1	0	0
..........................................................................................................................................................................................................................................................................................................................................CTTGAATCC--TG------------------CCAGT---------GAG---------CTCAGTGC...............................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1	0
.........................................................................................................................................................................................................................................................................................................................................................................................G---------CTCAGTGCTTTAGGTGTGCC...................................................................................................................................	21	1	1.00	1	0	0	0	0	0	1	0
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCGG------------------------------G---------TAGCGGAGAAGCCACAACGT---.................	25	1	1.00	1	0	0	0	0	1	0	0
.......................................................................................................................................................................................................................................................................................GTCAACAACTTGTGGGAGTC...............................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
.......................................................................................................................................................................................................................................................................AA---AA---------GTCAACAACTTGTGGGA..................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................................................................................................................TGTGCCCAGTGTGCGTC-------------------------TGT............................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
.....................................................................................................GATAACGTGTACAAGTGGCA.................................................................................................................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0
.............................................................................................................................................................................................................................................................................................AACTTGTGGGAGTCG-AGC..........................................................................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	1	0
..........................................................................................................................................AAGC-CGGA-AAAAAGG-TC-GA------------------------AAGGCC---........................................................................................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	1	0	0	0
....................................................................................................................................................................................................................................................................................................................G---TCC--------TCGAGTCCTTGAATCC--TG------------------CCAGT---------...................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGCCACAACGT---CGTCCACAAAACCATC.	28	1	1.00	1	0	0	0	0	1	0	0

dp5

C-------------------------------T-----------------ACTAACTGCCTCTTTTCTCTCTCTCTCTCTTGTG-CTCTTGCAGG--TGCTGATAACGGTGAAAAGTGGCAATAATATCGAATAAATTAATA-CA---AAGAAGG----------------------GCTTG-GCCAGGCG-GAAAAAGGAAAAGTGAATAGCCGGAAAAGTGAA------------------------------ACAAGTGCAG----AGCCAGCCAAGTGCAACGCTTGCGGCA---------------------------------CATCGAGTCC--TGCCACTGCGAAAGCGATTGCCAGT---------G------------C------------------AAGTG-------------------------------TGTTAGTGCGCGAGT------------------------------G----------TCCCGAGAAGCCACAACGT---CGTCCTCCAAACCAACG	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
..........................................................................................................................................................................................................................................................................................................................................ATCGAGTCC--TGCCACTGCGAA.........................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....................................................................................................................................................................................G-GCCAGGCG-GAAAAAGGAA................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droPer2

--------------------------------------------------ACTAACTGCCTCTTTTCTCTC--TCTCTCTTGTG-TTCTTGCAGG--TGCTGATAACGGTGAAAAGTGGCAATAATATCGAATAAATTAATA-CA---AAGAAGG----------------------GCTTG-GCCAGGCG-GAAAAAGGAAAAGTGAATAGCCGGAAAAGTGAA------------------------------ATAAGTGCAG----AGCCAGCCAAGTGCAAAGCTTGCGGCA---------------------------------CATCGAGTCC--TGCCACTGCGAAAGCGATTACCAGT---------GCCAGTGCCAGTGC------------------AAGTG-------------------------------TGTTAGTGCGCGAGT------------------------------G----------TCCCGAGAAGCCACAACGT---CGTCCTCCAAACCAACG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACGT---CGTCCTCCAAACC....	20	1	1.00	1	1	0	0	0	0	0
.......................................................................................................................................................AAGG----------------------GCTTG-GCCAGGCG-G.........................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGCCACAACGT---CGTCCTC..........	19	1	1.00	1	0	0	0	0	1	0

droWil2

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGTCACAACGTCGTCGTCTACAAAACCAACG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
No Reads

droVir3

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAGTCGTCACAACGT---CGTCCGCAAAACCTACG	Size	Hit Count	Total Norm	Total	M027 Male-body	M028 Head	M047 Female-body	M061 Embryo	SRR060654 Ovary	SRR060655 Testis	SRR060656 Ovary	SRR060657 Testis	SRR060658 Ovary	SRR060659 Testis	SRR060660 Ovary	SRR060661 Embryo	SRR060662 Embryo	SRR060663 Embryo	SRR060664 Male-body	SRR060665 Female-body	SRR060666 Male-body	SRR060667 Female-body	SRR060668 Male-body	SRR060669 Female-body	SRR060670 Testis	SRR060671 Male-body	SRR060672 Female-body	SRR060673 Ovary	SRR060674 Ovary	SRR060675 Ovary	SRR060676 Ovary	SRR060677 Ovary	SRR060678 Testis	SRR060679 Testis	SRR060680 Testis	SRR060681 Testis	SRR060682 Embryo	SRR060683 Testis	SRR060684 Embryo	SRR060685 Embryo	SRR060686 Embryo	SRR060687 Embryo	SRR060688 Ovary	SRR060689 Testis	SRR1106712 embryo_0-2h	SRR1106713 embryo_0-2h	SRR1106714 embryo_2-4h	SRR1106715 embryo_4-6h	SRR1106716 embryo_4-6h	SRR1106717 embryo_6-8h	SRR1106718 embryo_6-8h	SRR1106719 embryo_8-10h	SRR1106720 embryo_8-10h	SRR1106721 embryo_10-12h	SRR1106722 embryo_10-12h	SRR1106723 embryo_12-14h	SRR1106724 embryo_12-14h	SRR1106725 embryo_14-16h	SRR1106726 embryo_14-16h	SRR1106727 larvae	SRR1106728 larvae	SRR1106729 mixed whole adult body	SRR1106730 embryo_16-30h	V047 Embryo	V053 Head	V116 Male-body	GSM1528803 follicle cells
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAGTCGTCACAACGT---CGTCC............	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

T-------------------------------TTAC--------------TCAACCCGA-----------------------------------------------------------------------------------------------------------------------------------------------ACTCGAACC--CAA---AATGAAA-----------------------------AAAAAAAAAA---AA---------AATAACAGAA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

A-------------------------------GCAG--------------TCAGGCGGC-------------------------------------------------------------A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G---------CACAGCAGCAGCAACAGCAA---CAACAGCAGCAGCAGCA	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

-12.5	-11.8	-11.8	-11.7

dan_517

scaffold_12916:3964599-3964749 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads