dmo_259

ACACGTGCAAAAACCAAAACGAAGCGATGTGTAAAAGAAGGAATGAAAAATAACGGTAGTTTACGGTTGTAGCAACGAAAGCGTAAGCTAGAACATAGTGTGTGCCAATACTTTTTTTACGAAAATTTGTGCCTATATTTATATTTTAGTTCTGTGCAAGTGA *********************************........(((((((....((((...(((.(((.((((.(((....)))..)))).)))...)))..))))......)))))))........**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	M060 embryo	V110 male body	V041 embryo	V049 head
..................................................TAACGGTAGTTTACGGTTGTAGCAAC.......................................................................................	26	0	4	5.75	23	14	6	3	0	0
..................................................TAACGGTAGTTTACGGTTGTAGC..........................................................................................	23	0	4	5.25	21	15	5	0	1	0
..................................................TAACGGTAGTTTACGGTTGTAGCAACGA.....................................................................................	28	0	4	4.50	18	14	3	1	0	0
..................................................TAACGGTAGTTTACGGTTGTAGCA.........................................................................................	24	0	4	4.50	18	15	1	2	0	0
..................................................TAACGGTAGTTTACGGTTGTAGCAACG......................................................................................	27	0	4	4.25	17	14	3	0	0	0
.....TGCAAAAACCAAAACGAAGCGATGTG....................................................................................................................................	26	0	1	3.00	3	2	0	0	1	0
..................................................TAACGGTAGTTTACGGTTGTAGCAA........................................................................................	25	0	4	3.00	12	5	1	6	0	0
...................................................AACGGTAGTTTACGGTTGTAGC..........................................................................................	22	0	4	1.25	5	5	0	0	0	0
..................................................TAACGGTAGTTTACGGTTGTAGCAACGAA....................................................................................	29	0	4	1.00	4	2	1	1	0	0
...................................................AACGGTAGTTTACGGTTGTAGCAACG......................................................................................	26	0	4	0.75	3	3	0	0	0	0
........................................................................................TAGAACATAGTGTGTGCCAATACT...................................................	24	0	3	0.67	2	2	0	0	0	0
...................................................AACGGTAGTTTACGGTTGTAGCAAC.......................................................................................	25	0	4	0.50	2	2	0	0	0	0
..................................................................................................................................GCCTATATTTATATTTTAGTTCTGTGC......	27	0	6	0.50	3	2	1	0	0	0
..................................................TAACGGTAGTTTACGGTTGTAG...........................................................................................	22	0	4	0.50	2	2	0	0	0	0
...................................................AACGGTAGTTTACGGTTGTAGCA.........................................................................................	23	0	4	0.50	2	2	0	0	0	0
..............................................................................................ATAGTGTGTGCCAATACT...................................................	18	0	3	0.33	1	1	0	0	0	0
........................................................................................TAGAACATAGTGTGTGCCAATACTT..................................................	25	0	3	0.33	1	1	0	0	0	0
................................................................................GCCTAAGCTAGAACATAGTGTGTGCC.........................................................	26	1	3	0.33	1	0	1	0	0	0
............................................................TTACGGTTGTAGCAACGAAAGCGT...............................................................................	24	0	4	0.25	1	1	0	0	0	0
...................................................AACGGTAGTTTACGGTTGTAGCAA........................................................................................	24	0	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTTACGGTTGTAGCAAAA......................................................................................	27	2	4	0.25	1	1	0	0	0	0
..................................................TAACAGTAGTTTACGGTTGTAGCAAC.......................................................................................	26	1	4	0.25	1	0	1	0	0	0
..................................................TAACAGTAGTTTACGGTTGTAGCA.........................................................................................	24	1	4	0.25	1	1	0	0	0	0
.............................................................TACGGTTGTAGCAACGAAAGCGT...............................................................................	23	0	4	0.25	1	1	0	0	0	0
..................................................TGACGGTAGTTTACGGTTGTAGCA.........................................................................................	24	1	4	0.25	1	0	1	0	0	0
..................................................TAACGGTAGTTTTCGGTTTTAGG..........................................................................................	23	3	4	0.25	1	0	0	0	1	0
............................................................TTACGGTTGTAGCAACGAAAGCGTAAGC...........................................................................	28	0	4	0.25	1	1	0	0	0	0
...................................................................TGTAGCAACGAAAGCGTAAGCTAG........................................................................	24	0	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTGACGGTTGTAGCA.........................................................................................	24	1	4	0.25	1	1	0	0	0	0
..................................................TGACGGTAGTTTACGGTTGTAGCAAC.......................................................................................	26	1	4	0.25	1	0	1	0	0	0
..................................................TAACGGGAGTTTACGGTTGTAGCAAC.......................................................................................	26	1	4	0.25	1	0	1	0	0	0
..........................................................GTTTACGGTTGGAGCAACGAAAGC.................................................................................	24	1	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTTACGGTTGTAGCAACAAA....................................................................................	29	1	4	0.25	1	1	0	0	0	0
..................................................TGACGGTAGTTTACGGTTGTAGCAACG......................................................................................	27	1	4	0.25	1	0	1	0	0	0
...................................................AACGGTAGTTTACGGTTGTAGCAACGAA....................................................................................	28	0	4	0.25	1	1	0	0	0	0
.......................................................GTAGTTTACGGTTGTAGCAACGA.....................................................................................	23	0	4	0.25	1	0	1	0	0	0
..................................................TAACGGTAGTTTACGGTTGTAGCAAA.......................................................................................	26	1	4	0.25	1	0	0	1	0	0
..................................................TAACGGTAGTTGACGGTTGTA............................................................................................	21	1	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTTACGGTTGT.............................................................................................	20	0	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTTACGGCTGTAGCAAA.......................................................................................	26	2	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTCACGGTTGTAGCAACGA.....................................................................................	28	1	4	0.25	1	1	0	0	0	0
..................................................TAACGGTAGTTGACGGTTGTAGC..........................................................................................	23	1	4	0.25	1	1	0	0	0	0
............................................................TTACGGTTGTAGCAACGAAAGCGTA..............................................................................	25	0	4	0.25	1	1	0	0	0	0
..................................................................................................................................GCGTATATTTATATTTTAGTTCTGT........	25	1	6	0.17	1	1	0	0	0	0
..................................................................................................................................GCCTATATTTATATTTTGGTTCTGTGC......	27	1	6	0.17	1	1	0	0	0	0
..................................................................................................................................GCCTATATTTGTGTTTTGGTTCTGTGC......	27	3	6	0.17	1	0	1	0	0	0
..................................................................................................................................GCCTATATTTGTATTTTAGTTCTGTGC......	27	1	6	0.17	1	1	0	0	0	0
.............................................................................................................................TTTGTGCCTATATTTATATTTTAGTTC...........	27	0	15	0.07	1	1	0	0	0	0
...........................................................TTTACGGTTTTAACATCGA.....................................................................................	19	3	20	0.05	1	0	0	0	0	1

TGTGCACGTTTTTGGTTTTGCTTCGCTACACATTTTCTTCCTTACTTTTTATTGCCATCAAATGCCAACATCGTTGCTTTCGCATTCGATCTTGTATCACACACGGTTATGAAAAAAATGCTTTTAAACACGGATATAAATATAAAATCAAGACACGTTCACT **********************************........(((((((....((((...(((.(((.((((.(((....)))..)))).)))...)))..))))......)))))))........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	M060 embryo	V110 male body
..................................................................................................................AAAATGCTTTTAAACACGGATATAAA.......................	26	0	5	5.60	28	13	15	0
.................................................................................................................AAAAATGCTTTTAAACACGGATATAAA.......................	27	0	5	1.80	9	5	4	0
......................................................................................CGATCTTGTATCACACACGGTTAT.....................................................	24	0	3	1.33	4	1	3	0
........GTTTTGGTTTTGCTTCGCTACACA...................................................................................................................................	24	1	1	1.00	1	1	0	0
................................................................................................................AAAAAATGCTTTTAAACACGGATATAAA.......................	28	0	5	1.00	5	4	1	0
...................................................................................................................AAATGCTTTTAAACACGGATATAAA.......................	25	0	5	1.00	5	4	0	1
.......................................................................CGTTGCTTTCGCATTCGATCTTGTAT..................................................................	26	0	4	0.75	3	3	0	0
..................................................................................CATTCGATCTTGTATCACACACGGT........................................................	25	0	3	0.67	2	1	1	0
.............GGTTTTGCTTCGCTACACATTTTCTT............................................................................................................................	26	0	3	0.67	2	2	0	0
......................................................................................CGATCTTGTATCACACACGGTTATTA...................................................	26	1	3	0.67	2	0	2	0
.............GGTTTTGCTTCGCTACACATTTTCTTCC..........................................................................................................................	28	0	2	0.50	1	1	0	0
....................................CTTCCTTACTTTTTATTGCCATCA.......................................................................................................	24	0	3	0.33	1	1	0	0
................................................................................CGCATTCGATCTTGTATCACACACGGTTC......................................................	29	1	3	0.33	1	0	1	0
................................................................................CGCATTCGATCTTGTATCACACACGGT........................................................	27	0	3	0.33	1	1	0	0
.............................................................................................................CGAAAAAAATGCTTTTAAACACGGAT............................	26	1	3	0.33	1	0	1	0
................................................................................CGCATTCGATCTTGTCTCACACACGGTT.......................................................	28	1	3	0.33	1	0	1	0
..............GTTTTGCTTCGCTACACATTTTCTT............................................................................................................................	25	0	3	0.33	1	1	0	0
.........................................................................................TCTTGTATCACACACGGTTATGAA..................................................	24	0	3	0.33	1	0	1	0
................................................................................CGCATTCGATCTTGTATCACACACGGGT.......................................................	28	1	3	0.33	1	0	1	0
................................CTTTCTTCCTTACTTTTTATTGCCATCA.......................................................................................................	28	1	3	0.33	1	1	0	0
.....................................................................................TCGATCTTGTATCACACACGGGTAT.....................................................	25	1	3	0.33	1	0	1	0
..................................................................................CATTCGATCTTGTATCACACACGGTT.......................................................	26	0	3	0.33	1	0	1	0
.....................................................................................TCGATCTTGTATCACACACGGTTGT.....................................................	25	1	3	0.33	1	0	1	0
.....................................................................................TCGATCTTGTATCACACACGGTTAT.....................................................	25	0	3	0.33	1	0	1	0
....................................................TGCCATCAAATGCCAACATCGTTGC......................................................................................	25	0	4	0.25	1	1	0	0
.............................................................ATGCCAACATCGTTGCTTTCGC................................................................................	22	0	4	0.25	1	1	0	0
.......................................................................CGTTGCTTTCGCATTCGATCTTGTATC.................................................................	27	0	4	0.25	1	1	0	0
......................................................................................................ACGGTTATGAAAAAAATGCTT........................................	21	0	4	0.25	1	1	0	0
....................................................................................................ACACGGTTATGAAAAAAATGCTTTTA.....................................	26	0	4	0.25	1	0	1	0
...................................................................ACATCGTTGCTTTCGCATTCGATCTT......................................................................	26	0	4	0.25	1	0	1	0
....................................................CGCCATCAAATGCCAACATCGTTGCTT....................................................................................	27	1	4	0.25	1	0	1	0
...................................................................................................................AAATGCTTTGAAACACGGATATAAA.......................	25	1	5	0.20	1	1	0	0
...................................................................................................................AAATGCTTTTAAACACGGATATA.........................	23	0	5	0.20	1	1	0	0
.................................................................................................................AAAAATGCTTTTAAACACGGATAT..........................	24	0	5	0.20	1	1	0	0
.....................................................................................................................ATGCTTTTAAACACGGATATAACTA.....................	25	1	5	0.20	1	0	1	0
...............................................................................................................AAAAAAATGCTTTTAAACACGGATATAAA.......................	29	0	5	0.20	1	1	0	0
...................................TTCTTCTTACTTTTTATTGCCATCA.......................................................................................................	25	3	5	0.20	1	1	0	0
.........................................................................................................................................AAATATAAAATCAAGACACGTTCACT	26	0	6	0.17	1	1	0	0
......................................................................................................................TGCTTTTAAACACGGATATAAA.......................	22	0	13	0.08	1	0	0	1
......................................................................................................................TGCTTTTAAACACGGATATAAATAT....................	25	0	13	0.08	1	0	1	0
........................................................................................................................CTTTTAAACACGGATATAAA.......................	20	0	14	0.07	1	1	0	0

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6540:1266883-1267045 -	dmo_259	ACACGTGCAAAA---ACCAAAACGAAG------------CGATGTGTAAAAGAAGGAATGAAAAATAACGGTA------------------GTTTA----CGGTTGT------AGCA--ACGAAAG----------CGTA-AGC-TA-GAACATAGTGTGTGCCAATACTTTTTTTACGAAAATT-TGTGCCTATATTTATA--------------TTTTA-------GTTCTGTGCAAGTGA
droGri2	scaffold_14906:6034895-6034929 -		AATTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAATCTA-----------TATATATATAT---------------TTGTGGAAGTGG
droWil2	scf2_1100000004947:17618-17780 +		ACACGTGCAACA---CCCAAAACGAAC------------GCAAAAGTAAAAGAAAAAATGAAAAATAACGGTA------------------GATTT----CCATTGT------GGAA--ACGAAAG----------AGCG-TTC-TA-GAATAAAGCGTGTGCCAAAACTTTTTTGATGAAAATT-TGTGCCTATATTTACA--------------TTTTT-------GTATTTTGCAAATGA
dp5	Unknown_singleton_3284:508-679 -		ATCAGAGAAAAA---AACAGATCACAAAGTG-AGATAAGCAGTCTGCAAGAGAAGCATGCAAAACGAAACGCC------------------GATTA----CCGTTGC------ATTT--TCTAAGA----------AAGA-AGAATA-ACCGAAAATGTGTCCGAATAATTGT---GCGTAAAAA-AGTGGCCTTTTTAATA--------------CTTTT------AATT-TTTTTTGATTT
droPer2	scaffold_26:1343637-1343794 +		ATACATATCGC--------------AAAGTA-AGATAAGCTGTAC------------G-CAAAAAGAAACACC------------------GATTG----CCGTTGC------ATTT--TCTAAGAAGAA------AAAAAGCA-TA-GCCGAAAATGTCTCCGAATAATTGTTGTACGTAAATT-GTTGTGGCTTTTTTGATA------------CTTTT------AAGTTTTTTTCATATG
droAna3	scaffold_12966:16660-16830 +		ACAACATAAAAA---AGCACATATTTTCATAGA-TCGAAGTATTTCTAAGTAAATCTCCAAAAAAAAAACGCC------------------GATTA----CCGTTGC------ATTC--ACAAAGA----------GAAC-TGA-TA-ATCTTGAATGCGTACGAATAATTTTTTGCCGC-ATTT-TTAGCCCTTGTTTTGCTTTTATTT-----------------------ATATATATAT
droBip1	scf7180000395754:8324-8484 -		GAACGGCACAAA----TGCAAAGGAAG---------------------------GCAC-ACCAA---------------AGCATATGGTAAAAGTC----CCGTTACAATTGTCAAA--ACA-----GAAAAGATAGAAG-TGC-GTAATTTCTTAAGTGTATCATGACTTTTGTGGAACTAAATTTA-AGATTTTTTTAAG--------------TTTTT-------CTTATTTTTAAGTAA
droKik1	scf7180000299297:11502-11680 -		AACAACAAAAAA---AGCACACCGAAGCCTA-ATCCAATGTAATTCCAAGAAAAGTAC-CAAAAAGCATCGTC------------------GATTA----CCGTTGC------ATTC--AGAAATA----------GAAA-TCG-AT-AAACGACAAATGTCCGAATAATTTTTGTGCAGTATTT-TATGCAGTTTTTTCGCTTTCCCATCCATAT---------------TTTCGTGGGAAA
droFic1	scf7180000449908:2099-2259 +		GAACTGCACAAA----TGCAAAGGAAG---------------------------GCAC-ACAAA---------------AGCATATGGTAAAAGTC----CCGTTACAATTGTCAAA--ACA-----GAAAAGATAGAAG-TGT-GTAATTTCTTAAGTGTATCATGACTTTTGTGGAACTAAATTTA-AGATTTTTTTAAG--------------TTTTT-------CTTATTTTTAAGTAA
droEle1	scf7180000488062:1913-2085 +		GCTTGTAAATGTATAGCCACGCAATTC-----CGATAAT-TAAGTTAACGGGGCTTTT-GAAGAACAATGTAG------------------CCATA----TCGATGG------AATTTCGACAAAA----------TAGT-TCA-CT-ATTACCTAAGTGTGCCAATAATTTTGTTAAAAAAAAT-CAGGTCTTTTTTTAAT--------------TAATT-------GTAATTTTTATAATT
droRho1	scf7180000773899:42014-42188 +		AAACAAAAAAAA---ACGAAACTGAAGGCTG-ATCCAAAGTAATTCCAAGAAAAGTAT-TAAAAAGAATCGGC------------------GATTA----CCGTTGC------TTTC--GGAAATA----------GAAG-TCA-AT-AAATGACAAATGTCCGAATAATTTTTGTGCAGCATTT-TATGCAGTTTTTTCGCTTTCCCTTCCA-------------------TATTTTCGTGG
droBia1	scf7180000302426:64484-64653 +		ACGCACCGAAATTA-ACCGAAA------------ATCAACTAATTCCAAGAAAAGTAC-CAAACAGAGACGGC------------------GATTA----CCGTTGC------ATTC--AAAAATA----------TAAG-TCG-AA-AAATAAGAAATGTCCGAATAATTTTTGTGCGGAATTT-TGAGCAGTTTTTTCGCTTTCCTTTCCATAT---------------TTTCGTGTGTAA
droEug1	scf7180000409159:5406-5556 +		AAATATCAAAGCTCAGCGA---------------GTAAAATGTAA--------ACAAATAAACTTTAACGGTAAACTAAGCCTTAGAGCTAAAAACCAAAGCTTTGCCATTGTGAGT--------------------------------------------GCAAA--------------------ACTGTAACATTTGA-CTT---TTTTTACA-GTTTGGCGTGTCATTTTCTTTAACTGA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

ACACGTGCAAAA---ACCAAAACGAAG------------CGATGTGTAAAAGAAGGAATGAAAAATAACGGTA------------------GTTTA----CGGTTGT------AGCA--ACGAAAG----------CGTA-AGC-TA-GAACATAGTGTGTGCCAATACTTTTTTTACGAAAATT-TGTGCCTATATTTATA--------------TTTTA-------GTTCTGTGCAAGTGA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--AC..........................................................................................................................	26	4	5.75	23	14	0	0	0	6	3
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGC...............................................................................................................................	23	4	5.25	21	15	1	0	0	5	0
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--ACGA........................................................................................................................	28	4	4.50	18	14	0	0	0	3	1
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--............................................................................................................................	24	4	4.50	18	15	0	0	0	1	2
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--ACG.........................................................................................................................	27	4	4.25	17	14	0	0	0	3	0
.....TGCAAAA---ACCAAAACGAAG------------CGATGTG.....................................................................................................................................................................................................	26	1	3.00	3	2	1	0	0	0	0
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--A...........................................................................................................................	25	4	3.00	12	5	0	0	0	1	6
..................................................................AACGGTA------------------GTTTA----CGGTTGT------AGC...............................................................................................................................	22	4	1.25	5	5	0	0	0	0	0
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--ACGAA.......................................................................................................................	29	4	1.00	4	2	0	0	0	1	1
..................................................................AACGGTA------------------GTTTA----CGGTTGT------AGCA--ACG.........................................................................................................................	26	4	0.75	3	3	0	0	0	0	0
.................................................................................................................................................TA-GAACATAGTGTGTGCCAATACT.........................................................................	24	3	0.67	2	2	0	0	0	0	0
..................................................................AACGGTA------------------GTTTA----CGGTTGT------AGCA--AC..........................................................................................................................	25	4	0.50	2	2	0	0	0	0	0
.............................................................................................................................................................................................GCCTATATTTATA--------------TTTTA-------GTTCTGTGC......	27	6	0.50	3	2	0	0	0	1	0
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AG................................................................................................................................	22	4	0.50	2	2	0	0	0	0	0
..................................................................AACGGTA------------------GTTTA----CGGTTGT------AGCA--............................................................................................................................	23	4	0.50	2	2	0	0	0	0	0
........................................................................................................................................................ATAGTGTGTGCCAATACT.........................................................................	18	3	0.33	1	1	0	0	0	0	0
.................................................................................................................................................TA-GAACATAGTGTGTGCCAATACTT........................................................................	25	3	0.33	1	1	0	0	0	0	0
.............................................................................................TTA----CGGTTGT------AGCA--ACGAAAG----------CGT........................................................................................................	24	4	0.25	1	1	0	0	0	0	0
..................................................................AACGGTA------------------GTTTA----CGGTTGT------AGCA--A...........................................................................................................................	24	4	0.25	1	1	0	0	0	0	0
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--AAA.........................................................................................................................	27	4	0.25	1	1	0	0	0	0	0
..............................................................................................TA----CGGTTGT------AGCA--ACGAAAG----------CGT........................................................................................................	23	4	0.25	1	1	0	0	0	0	0
.............................................................................................TTA----CGGTTGT------AGCA--ACGAAAG----------CGTA-AGC-..................................................................................................	28	4	0.25	1	1	0	0	0	0	0
........................................................................................................TGT------AGCA--ACGAAAG----------CGTA-AGC-TA-G..............................................................................................	24	4	0.25	1	1	0	0	0	0	0
..................................................................AACGGTA------------------GTTTA----CGGTTGT------AGCA--ACGAA.......................................................................................................................	28	4	0.25	1	1	0	0	0	0	0
......................................................................GTA------------------GTTTA----CGGTTGT------AGCA--ACGA........................................................................................................................	23	4	0.25	1	0	0	0	0	1	0
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------AGCA--AA..........................................................................................................................	26	4	0.25	1	0	0	0	0	0	1
.................................................................TAACGGTA------------------GTTTA----CGGTTGT------..................................................................................................................................	20	4	0.25	1	1	0	0	0	0	0
.............................................................................................TTA----CGGTTGT------AGCA--ACGAAAG----------CGTA-......................................................................................................	25	4	0.25	1	1	0	0	0	0	0
.......................................................................................................................................................................................TT-TGTGCCTATATTTATA--------------TTTTA-------GTTC...........	27	15	0.07	1	1	0	0	0	0	0

droGri2

AATTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAATCTA-----------TATATATATAT---------------TTGTGGAAGTGG	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droWil2

ACACGTGCAACA---CCCAAAACGAAC------------GCAAAAGTAAAAGAAAAAATGAAAAATAACGGTA------------------GATTT----CCATTGT------GGAA--ACGAAAG----------AGCG-TTC-TA-GAATAAAGCGTGTGCCAAAACTTTTTTGATGAAAATT-TGTGCCTATATTTACA--------------TTTTT-------GTATTTTGCAAATGA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
.................................................................TAACGGTA------------------GATTT----CCATTGT------GGAA--A...........................................................................................................................	25	3	0.67	2	0	2	0	0	0
.................................................................TAACGGTA------------------GATTT----CCATTGT------GGAA--ACGA........................................................................................................................	28	2	0.50	1	0	0	0	1	0
.............................................................................................................................................TTC-TA-GAATAAAGCGTGTGCCAAAACT.........................................................................	27	7	0.43	3	0	3	0	0	0
...........................................AAGTAAAAGAAAAAATGAAAAATA................................................................................................................................................................................	24	3	0.33	1	0	1	0	0	0
..................................................................AACGGTA------------------GATTT----CCATTGT------GGAA--............................................................................................................................	23	3	0.33	1	0	1	0	0	0
.....TGCAACA---CCCAAAACGAAC------------GCAAAAGT....................................................................................................................................................................................................	27	3	0.33	1	0	1	0	0	0
..............................................TAAAAGAAAAAATGAAAAATAACGGTA------------------........................................................................................................................................................	27	3	0.33	1	0	1	0	0	0
......GCAACA---CCCAAAACGAAC------------GCAAAAGTAA..................................................................................................................................................................................................	28	3	0.33	1	0	1	0	0	0
................................................................ATAACGGTA------------------GATTT----CCATTGT------GGAA--AC..........................................................................................................................	27	3	0.33	1	0	0	1	0	0
.................................................................TAACGGTA------------------GATTT----CCATTGT------GGAA--AC..........................................................................................................................	26	3	0.33	1	0	0	0	1	0
.....TGCAACA---CCCAAAACGAAC------------GCAAAAG.....................................................................................................................................................................................................	26	3	0.33	1	0	1	0	0	0
.................................................................TAACGGTA------------------GATTT----CCATTGT------GGAA--............................................................................................................................	24	3	0.33	1	0	0	0	1	0
.................................................................................................................................................TA-GAATAAAGCGTGTGCCAAAACT.........................................................................	24	7	0.29	2	0	0	0	2	0
.................................................................................................................................................TA-GAATAAAGCGTGTGCCAAAACTTT.......................................................................	26	7	0.29	2	0	2	0	0	0
.......................................................................................................................................................TAAAGCGTGTGCCAAAACTTTTTTGA..................................................................	26	9	0.22	2	0	0	0	2	0
.......................................................................................................................ACGAAAG----------AGCG-TTC-TA-GAATAAAGCG.....................................................................................	26	6	0.17	1	0	0	1	0	0
........................................................................................................TGT------GGAA--ACGAAAG----------AGCG-TTC-TA-G..............................................................................................	24	6	0.17	1	0	0	0	1	0
........................................................................................................................................AGCG-TTC-TA-GAATAAAGCGTGTGCCA..............................................................................	26	7	0.14	1	0	1	0	0	0
...........................................................................................................................................G-TTC-TA-GAATAAAGCGTGTGCCAAAACT.........................................................................	28	7	0.14	1	0	1	0	0	0
.................................................................................................................................................TA-GAATAAAGCGTGTGCCAAAACTTTT......................................................................	27	7	0.14	1	0	0	0	1	0
..............................................................................................................................................TC-TA-GAATAAAGCGTGTGCCAAAACTTT.......................................................................	28	7	0.14	1	0	1	0	0	0
...............................................................................................................................................C-TA-GAATAAAGCGTGTGCCAAA............................................................................	22	7	0.14	1	0	1	0	0	0
..............................................................................................................................................TC-TA-GAATAAAGCGTGTGCCAAAACT.........................................................................	26	7	0.14	1	0	0	0	1	0
.............................................................................................................................................TTC-TA-GAATAAAGCGTGTGC................................................................................	20	7	0.14	1	0	1	0	0	0
...............................................................................................T----CCATTGT------GGAA--ACGAAAG----------AGCG-TTC-..................................................................................................	26	7	0.14	1	0	1	0	0	0
.................................................................................................................................................TA-GAATAAAGCGTGTGCCAAAACTT........................................................................	25	7	0.14	1	0	1	0	0	0
......................................................................................................................................................ATAAAGCGTGTGCCAAAACTTTTTTG...................................................................	26	8	0.13	1	0	0	0	1	0
......................................................................................................................................................ATAAAGCGTGTGCCAAAACTTTTTTGAT.................................................................	28	8	0.13	1	0	0	0	1	0
........................................................................................................TGT------GGAA--ACGAAAG----------AGCG-TTC-..................................................................................................	21	8	0.13	1	0	0	0	1	0
.......................................................................................................................................................TAAAGCGTGTGCCAAAACTTTTTTGAT.................................................................	27	9	0.11	1	0	1	0	0	0
.......................................................................................................................................................TAAAGCGTGTGCCAAAACT.........................................................................	19	9	0.11	1	0	0	0	1	0
........................................................................................................................................................AAAGCGTGTGCCAAAACTTTTTTGA..................................................................	25	9	0.11	1	0	0	0	1	0
........................................CAAAAGTAAAAGAAAAAA.........................................................................................................................................................................................	18	10	0.10	1	0	0	0	1	0
............................................................................................................................................................................................TGCCTATATTTACA--------------TTTTT-------GTATTT.........	25	13	0.08	1	0	1	0	0	0
........................................................................................................................................................................................T-TGTGCCTATATTTACA--------------T..........................	18	13	0.08	1	0	1	0	0	0

dp5

ATCAGAGAAAAA---AACAGATCACAAAGTG-AGATAAGCAGTCTGCAAGAGAAGCATGCAAAACGAAACGCC------------------GATTA----CCGTTGC------ATTT--TCTAAGA----------AAGA-AGAATA-ACCGAAAATGTGTCCGAATAATTGT---GCGTAAAAA-AGTGGCCTTTTTAATA--------------CTTTT------AATT-TTTTTTGATTT	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
...................................TAAGCAGTCTGCAAGAGAAGCATGCA......................................................................................................................................................................................	26	1	17.00	17	0	2	0	0	0	0	0	15	0	0
.TCAGAGAAAAA---AACAGATCACAAAG......................................................................................................................................................................................................................	25	1	15.00	15	0	13	0	0	0	0	1	1	0	0
.............................TG-AGATAAGCAGTCTGCAAGAGAAG............................................................................................................................................................................................	25	1	9.00	9	0	0	0	0	0	0	0	9	0	0
..............................G-AGATAAGCAGTCTGCAAGAGAAG............................................................................................................................................................................................	24	1	6.00	6	0	5	0	0	0	0	0	1	0	0
.............................TG-AGATAAGCAGTCTGCAAGAGAAGC...........................................................................................................................................................................................	26	1	6.00	6	0	2	0	0	0	0	1	3	0	0
...................................TAAGCAGTCTGCAAGAGAAGCATGC.......................................................................................................................................................................................	25	1	5.00	5	0	3	0	0	0	0	0	2	0	0
...................................TAAGCAGTCTGCAAGAGAAGCATG........................................................................................................................................................................................	24	1	5.00	5	0	3	1	0	0	0	0	1	0	0
.TCAGAGAAAAA---AACAGATCACAAAGTG-...................................................................................................................................................................................................................	27	1	4.00	4	0	3	1	0	0	0	0	0	0	0
..............................................................................................TA----CCGTTGC------ATTT--TCTAAGA----------AAGA-A.....................................................................................................	25	2	4.00	8	0	7	0	0	0	0	1	0	0	0
..CAGAGAAAAA---AACAGATCACAAAG......................................................................................................................................................................................................................	24	1	4.00	4	0	4	0	0	0	0	0	0	0	0
.............................................................................................TTA----CCGTTGC------ATTT--TCTAAGA----------AAGA-......................................................................................................	25	2	4.00	8	0	7	0	0	0	0	1	0	0	0
...AGAGAAAAA---AACAGATCACAAAG......................................................................................................................................................................................................................	23	1	3.00	3	0	1	0	0	0	0	0	2	0	0
..............................................................................................TA----CCGTTGC------ATTT--TCTAAGA----------AAGA-AA....................................................................................................	26	2	2.50	5	0	5	0	0	0	0	0	0	0	0
ATCAGAGAAAAA---AACAGATCACAAAG......................................................................................................................................................................................................................	26	1	2.00	2	0	2	0	0	0	0	0	0	0	0
.............................TG-AGATAAGCAGTCTGCAAGAGA..............................................................................................................................................................................................	23	1	2.00	2	0	1	0	0	0	0	1	0	0	0
.TCAGAGAAAAA---AACAGATCACAAA.......................................................................................................................................................................................................................	24	1	2.00	2	0	2	0	0	0	0	0	0	0	0
......................CACAAAGTG-AGATAAGCAGTCTGCA...................................................................................................................................................................................................	25	1	2.00	2	0	2	0	0	0	0	0	0	0	0
............................................................................................................................................................................T---GCGTAAAAA-AGTGGCCTTTTTAA...........................................	24	3	2.00	6	0	6	0	0	0	0	0	0	0	0
.....................TCACAAAGTG-AGATAAGCAGTCTGCA...................................................................................................................................................................................................	26	1	2.00	2	0	2	0	0	0	0	0	0	0	0
...................................TAAGCAGTCTGCAAGAGAAGCATGCAA.....................................................................................................................................................................................	27	1	2.00	2	0	0	0	0	0	0	0	2	0	0
............................................................................................................................................................................T---GCGTAAAAA-AGTGGCCTTTTTA............................................	23	3	1.33	4	0	4	0	0	0	0	0	0	0	0
...................................................GAAGCATGCAAAACGAAACGCC------------------GAT.....................................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.TCAGAGAAAAA---AACAGATCACAAAGT.....................................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...............AACAGATCACAAAGTG-AGATAAGCAG.........................................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................AAGTG-AGATAAGCAGTCTGCAAGA................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.TCAGAGAAAAA---AACAGATCACAAAGTA-...................................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................TTA----CCGTTGC------ATTT--TCTAAGA----------AAGA-AA....................................................................................................	27	2	1.00	2	0	2	0	0	0	0	0	0	0	0
.....................TCACAAAGTG-AGATAAGCAGTCTGCAA..................................................................................................................................................................................................	27	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.................................................................GAAACGCC------------------GATTA----CCGTTGC------A.................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
....................................AAGCAGTCTGCAAGAGAAGCATG........................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.....................TCACAAAGTG-AGATAAGCAGTCTGCAAG.................................................................................................................................................................................................	28	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................TAAGCAGTCTGCAAGAGAAGCATGCC......................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
......................................GCAGTCTGCAAGAGAAGCATGCA......................................................................................................................................................................................	23	1	1.00	1	0	0	0	0	0	0	0	0	1	0
.....................TCACAAAGTG-AGATAAGCAGTCTG.....................................................................................................................................................................................................	24	1	1.00	1	0	1	0	0	0	0	0	0	0	0
............................................TGCAAGAGAAGCATGCAAAACGAAAC.............................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................AAGTG-AGATAAGCAGTCTGCAAG.................................................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................TAAGCAGTCTGCAAGAGAAGCA..........................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.................................................................GAAACGCC------------------GATTA----CCGTTGC------ATTT--TC..........................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	1	0	0
.........AAA---AACAGATCACAAAGTG-AGA................................................................................................................................................................................................................	22	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.........................................................TGCAAAACGAAACGCC------------------GATTA----CCGT...........................................................................................................................................	25	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.TCAGAGAAAAA---AACAGATCAC..........................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..............................G-AGATAAGCAGTCTGCAAGAGAAGCA..........................................................................................................................................................................................	26	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...................................................GAAGCATGCAAAACGAAACGCC------------------G.......................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...........A---AACAGATCACAAAGTG-AGATAAGCAGT........................................................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0
...........A---AACAGATCACAAAGTG-AGA................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................TTA----CCGTTGC------ATTT--TCTAAGA----------AAGA-A.....................................................................................................	26	2	0.50	1	0	1	0	0	0	0	0	0	0	0
................ACAGATCACAAAGTG-AGATAAGCAGTC.......................................................................................................................................................................................................	27	2	0.50	1	0	1	0	0	0	0	0	0	0	0
...........................................................................................GATTA----CCGTTGC------ATTT--TCTAAG......................................................................................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................................................................GAATA-ACCGAAAATGTGTCCG...............................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................TA----CCGTTGC------ATTT--TCTAAGA----------AAGA-AGAA..................................................................................................	28	2	0.50	1	0	1	0	0	0	0	0	0	0	0
........................................................................C------------------GATTA----CCGTTGC------ATTT--TCTAAGA----------A..........................................................................................................	25	2	0.50	1	0	1	0	0	0	0	0	0	0	0
....................................................................................................CCGTTGC------ATTT--TCTAAGA----------AAGA-A.....................................................................................................	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0
........................................................................................................TGC------ATTT--TCTAAGA----------AAGA-AGAATA-AC.............................................................................................	26	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................TTA----CCGTTGC------ATTT--TCTAAGA----------AAGA-AGA...................................................................................................	28	2	0.50	1	0	1	0	0	0	0	0	0	0	0
...............................................................................................A----CCGTTGC------ATTT--TCTAAGA----------AAGA-......................................................................................................	23	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................TTA----CCGTTGC------ATTT--TCTAAG......................................................................................................................	20	2	0.50	1	0	1	0	0	0	0	0	0	0	0
................ACAGATCACAAAGTG-AGATAAGCA..........................................................................................................................................................................................................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0
..............................................................................................TA----CCGTTGC------ATTT--TCTAAGA----------AAGA-......................................................................................................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.............................................................................................TTA----CCGTTGC------ATTT--TCTAAGA----------AAG........................................................................................................	24	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.................................................................................................................................................TA-ACCGAAAATGTGTCCGAAA............................................................................	21	2	0.50	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................ATA--------------CTTTT------AATT-TTTTTTGA...	20	13	0.46	6	0	0	0	0	0	0	0	0	6	0
............................................................................................................................................................................T---GCGTAAAAA-AGTGGCCTTTTTAATA--------------C..........................	27	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................T---GCGTAAAAA-AGTGGCCTTTTTAAA..........................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................TGTGTCCGAATAATTGT---GCGTAAAA...........................................................	25	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................AATGTGTCCGAATAATTGT---GC.................................................................	21	3	0.33	1	0	0	1	0	0	0	0	0	0	0
........................................................................................................................CTAAGA----------AAGA-AGAATA-ACCGAAAATG.....................................................................................	26	3	0.33	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................TGT---GCGTAAAAA-AGTGGCCTTTTTA............................................	25	3	0.33	1	0	0	0	0	1	0	0	0	0	0
............................................................................................................................................................................T---GCGTAAAAA-AGTGGCCTTTTT.............................................	22	10	0.20	2	0	2	0	0	0	0	0	0	0	0
..........................................................................................................................................................AATGTGTCCGAATAATTG.......................................................................	18	5	0.20	1	0	0	0	0	0	0	0	1	0	0
.........................................................................................................................................................................TTGT---GCGTAAAAA-AGTGGC...................................................	19	18	0.17	3	0	2	0	0	0	0	1	0	0	0
.....................................AGCAGTCTGCAAGAGAAAA...........................................................................................................................................................................................	19	6	0.17	1	0	0	0	0	0	1	0	0	0	0
........................................................................................................................................................................................................TA--------------CTTTT------AATT-TTTTTTGAT..	20	13	0.15	2	0	2	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................ATA--------------CTTTT------AATT-TTTTTTGATC.	22	13	0.15	2	0	0	0	0	0	0	0	0	2	0
.......................................................................................................................................................................................................ATA--------------CTTTT------AATT-TTTTTTGAT..	21	13	0.15	2	0	0	0	0	0	0	0	0	2	0
.........................................................................................................................................................................TTGT---GCGTAAAAA-AGTGGCA..................................................	20	18	0.11	2	0	0	0	0	0	0	0	0	2	0
.........................................................................................................................................................................TTGT---GCGTAAAAA-AGTGG....................................................	18	19	0.11	2	0	1	0	0	0	0	0	0	1	0
...........................................................................................................................................................................GT---GCGTAAAAA-AGTGGCCTTTTT.............................................	23	10	0.10	1	0	0	1	0	0	0	0	0	0	0
..........................................................................................................................................................................TGT---GCGTAAAAA-AGTGGCC..................................................	19	12	0.08	1	0	0	0	0	0	0	1	0	0	0
........................................................................................................................................................................................................TA--------------CTTTT------AATT-TTTTTTGA...	19	13	0.08	1	0	1	0	0	0	0	0	0	0	0
.........................................................................................................................................................................TTGT---GCGTAAAAA-AGTGGA...................................................	19	19	0.05	1	0	0	0	0	0	0	0	0	1	0

droPer2

ATACATATCGC--------------AAAGTA-AGATAAGCTGTAC------------G-CAAAAAGAAACACC------------------GATTG----CCGTTGC------ATTT--TCTAAGAAGAA------AAAAAGCA-TA-GCCGAAAATGTCTCCGAATAATTGTTGTACGTAAATT-GTTGTGGCTTTTTTGATA------------CTTTT------AAGTTTTTTTCATATG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
..........................................................................................................................................................................TGTTGTACGTAAATT-GTTGT....................................................	20	1	1.00	1	0	1	0	0	0	0
..........................AAGTA-AGATAAGCTGTAC------------G-........................................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0
.....................................................................................................................................................CCGAAAATGTCTCCGAATAAT.........................................................................	21	1	1.00	1	0	1	0	0	0	0
........................................................................C------------------GATTG----CCGTTGC------ATTT--TCTAAGA.....................................................................................................................	24	1	1.00	1	0	1	0	0	0	0
.............................................................................................................................................................................TGTACGTAAATT-GTTGTGGCTTTTT............................................	25	1	1.00	1	0	1	0	0	0	0

droAna3

ACAACATAAAAA---AGCACATATTTTCATAGA-TCGAAGTATTTCTAAGTAAATCTCCAAAAAAAAAACGCC------------------GATTA----CCGTTGC------ATTC--ACAAAGA----------GAAC-TGA-TA-ATCTTGAATGCGTACGAATAATTTTTTGCCGC-ATTT-TTAGCCCTTGTTTTGCTTTTATTT-----------------------ATATATATAT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
......................................................TCTCCAAAAAAAAAACGCC------------------GATTA----CC.............................................................................................................................................	26	2	2.50	5	1	3	1	0	0	0
......................................................TCTCCAAAAAAAAAACGCC------------------GATTA----CCGT...........................................................................................................................................	28	2	2.00	4	1	3	0	0	0	0
......................................................TCTCCAAAAAAAAAACGCC------------------GATTA----CCGC...........................................................................................................................................	28	2	1.50	3	0	3	0	0	0	0
..............................................................................................TA----CCGTTGC------ATTC--ACAAAGA----------GAAC-T.....................................................................................................	25	3	1.33	4	0	3	0	0	1	0
.........................TTCATAGA-TCGAAGTATTTCTAAGTA...............................................................................................................................................................................................	26	3	1.00	3	1	1	1	0	0	0
.....................................................................................................................................................................ATAATTTTTTGCCGC-ATTT-TTAGCCC..................................................	26	1	1.00	1	0	1	0	0	0	0
......................................................................................................................................................................TAATTTTTTGCCGC-ATTT-TTAGCCCT.................................................	26	1	1.00	1	0	1	0	0	0	0
..........................................................................................................C------ATTC--ACAAAGA----------GAAC-TGA-TA-ATCTT..........................................................................................	26	2	1.00	2	0	2	0	0	0	0
...........................................................................................................................AGA----------GAAC-TGA-TA-ATCTTGAATGCGTA.................................................................................	26	2	1.00	2	1	1	0	0	0	0
.........................TTCATAGA-TCGAAGTATTTCTAAGTAA..............................................................................................................................................................................................	27	3	0.67	2	1	1	0	0	0	0
................................................................................................................................................................TACGAATAATTTTTTGCCGC-ATTT-T........................................................	25	3	0.67	2	0	2	0	0	0	0
.............................TAGA-TCGAAGTATTTCTAAGTAAATC...........................................................................................................................................................................................	26	3	0.67	2	0	2	0	0	0	0
....................................................AATCTCCAAAAAAAAAACGCC------------------GATTA----CC.............................................................................................................................................	28	2	0.50	1	0	1	0	0	0	0
..............................................TAAGTAAATCTCCAAAAAAAAAACGCC------------------........................................................................................................................................................	27	2	0.50	1	0	1	0	0	0	0
...................................................AAATCTCCAAAAAAAAAACGCC------------------GAT.....................................................................................................................................................	25	2	0.50	1	1	0	0	0	0	0
..................................................................................................................TTC--ACAAAGA----------GAAC-TGA-TA-ATCTT..........................................................................................	24	2	0.50	1	0	0	1	0	0	0
...........................................................................................................................AGA----------GAAC-TGA-TA-ATCTTGAATGCG...................................................................................	24	2	0.50	1	1	0	0	0	0	0
......................................................TCTCCAAAAAAAAAACGCC------------------GATT....................................................................................................................................................	23	2	0.50	1	0	1	0	0	0	0
........................................................................C------------------GATTA----CCGTTGC------ATTC--ACAAAGA----------GAAC-T.....................................................................................................	29	2	0.50	1	1	0	0	0	0	0
......................................................TCTCCAAAAAAAAAACGCC------------------GATTA----CCG............................................................................................................................................	27	2	0.50	1	1	0	0	0	0	0
.....................................................ATCTCCAAAAAAAAAACGCC------------------GATTA----CCGT...........................................................................................................................................	29	2	0.50	1	1	0	0	0	0	0
........................................................TCCAAAAAAAAAACGCC------------------GATTA----CCGT...........................................................................................................................................	26	2	0.50	1	0	1	0	0	0	0
........................................................TCCAAAAAAAAAACGCC------------------GATTA----CCGTTG.........................................................................................................................................	28	2	0.50	1	1	0	0	0	0	0
.................................................................................................................ATTC--ACAAAGA----------GAAC-TGA-TA-ATCTT..........................................................................................	25	2	0.50	1	0	1	0	0	0	0
.........................................................................................................................AAAGA----------GAAC-TGA-TA-ATCTTGAATGC....................................................................................	25	2	0.50	1	0	1	0	0	0	0
........................................................TCCAAAAAAAAAACGCC------------------GATTA----CCGTTGC------..................................................................................................................................	29	2	0.50	1	1	0	0	0	0	0
.......................................................................................................................................................TTGAATGCGTACGAATAATTTTTTGCC.................................................................	27	3	0.33	1	0	1	0	0	0	0
.........................TTCATAGA-TCGAAGTATTTCTAAGT................................................................................................................................................................................................	25	3	0.33	1	0	0	1	0	0	0
.............................................................................................................................................................................................GCCCTTGTTTTGCTTTTATTT-----------------------ATATA.....	26	3	0.33	1	1	0	0	0	0	0
.....................................................................................................CGTTGC------ATTC--ACAAAGA----------GAAC-C.....................................................................................................	22	3	0.33	1	0	1	0	0	0	0
........................................................................................................................................................TGAATGCGTACGAATAATTTTTTGC..................................................................	25	3	0.33	1	0	1	0	0	0	0
..........................TCATAGA-TCGAAGTATTTCTAAGTAAATC...........................................................................................................................................................................................	29	3	0.33	1	0	1	0	0	0	0
..............................................................................................TA----CCGTTGC------ATTC--ACAAAGA----------GAAC-......................................................................................................	24	3	0.33	1	0	1	0	0	0	0
........................................................................................................................................................TGAATGCGTACGAATAATTTTTTGCC.................................................................	26	3	0.33	1	0	1	0	0	0	0

droBip1

GAACGGCACAAA----TGCAAAGGAAG---------------------------GCAC-ACCAA---------------AGCATATGGTAAAAGTC----CCGTTACAATTGTCAAA--ACA-----GAAAAGATAGAAG-TGC-GTAATTTCTTAAGTGTATCATGACTTTTGTGGAACTAAATTTA-AGATTTTTTTAAG--------------TTTTT-------CTTATTTTTAAGTAA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AACAACAAAAAA---AGCACACCGAAGCCTA-ATCCAATGTAATTCCAAGAAAAGTAC-CAAAAAGCATCGTC------------------GATTA----CCGTTGC------ATTC--AGAAATA----------GAAA-TCG-AT-AAACGACAAATGTCCGAATAATTTTTGTGCAGTATTT-TATGCAGTTTTTTCGCTTTCCCATCCATAT---------------TTTCGTGGGAAA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GAACTGCACAAA----TGCAAAGGAAG---------------------------GCAC-ACAAA---------------AGCATATGGTAAAAGTC----CCGTTACAATTGTCAAA--ACA-----GAAAAGATAGAAG-TGT-GTAATTTCTTAAGTGTATCATGACTTTTGTGGAACTAAATTTA-AGATTTTTTTAAG--------------TTTTT-------CTTATTTTTAAGTAA	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GCTTGTAAATGTATAGCCACGCAATTC-----CGATAAT-TAAGTTAACGGGGCTTTT-GAAGAACAATGTAG------------------CCATA----TCGATGG------AATTTCGACAAAA----------TAGT-TCA-CT-ATTACCTAAGTGTGCCAATAATTTTGTTAAAAAAAAT-CAGGTCTTTTTTTAAT--------------TAATT-------GTAATTTTTATAATT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AAACAAAAAAAA---ACGAAACTGAAGGCTG-ATCCAAAGTAATTCCAAGAAAAGTAT-TAAAAAGAATCGGC------------------GATTA----CCGTTGC------TTTC--GGAAATA----------GAAG-TCA-AT-AAATGACAAATGTCCGAATAATTTTTGTGCAGCATTT-TATGCAGTTTTTTCGCTTTCCCTTCCA-------------------TATTTTCGTGG	Size	Hit Count	Total Norm	Total
No Reads

droBia1

ACGCACCGAAATTA-ACCGAAA------------ATCAACTAATTCCAAGAAAAGTAC-CAAACAGAGACGGC------------------GATTA----CCGTTGC------ATTC--AAAAATA----------TAAG-TCG-AA-AAATAAGAAATGTCCGAATAATTTTTGTGCGGAATTT-TGAGCAGTTTTTTCGCTTTCCTTTCCATAT---------------TTTCGTGTGTAA	Size	Hit Count	Total Norm	Total
No Reads

droEug1

AAATATCAAAGCTCAGCGA---------------GTAAAATGTAA--------ACAAATAAACTTTAACGGTAAACTAAGCCTTAGAGCTAAAAACCAAAGCTTTGCCATTGTGAGT--------------------------------------------GCAAA--------------------ACTGTAACATTTGA-CTT---TTTTTACA-GTTTGGCGTGTCATTTTCTTTAACTGA	Size	Hit Count	Total Norm	Total
No Reads

dmo_259

scaffold_6540:1266933-1266995 -

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

-14.7	-14.4	-14.1