dpe_293

Antisense to exon [dper_GLEANR_13324:2]; Antisense to CDS [Dper\GL13142-cds]; intron [Dper\GL13149-in]

CTGCATGCCTTACGGCTTCTGCTGATCCTCTGAAGGTTCCTTCGCTGCTGCGACCGTCGTCTCTCTTTTAGAGAGACTGCCGGTGACAGTGGCAGTGCCTGCTCCTGCGGCGGCTCCACTTGAAGAGCTGCTAGTGTTG *********************************........(((((((..(((((.((((((((...)))))))).)).)))..)))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M042 female body	V111 male body	V057 head	M021 embryo	V042 embryo	V050 head
...................................................................CTAGAGAGACTGCCGGTGACA...................................................	21	1	1	44.00	44	18	20	6	0	0	0
...................................................................CTAGAGAGACTGCCGGTGAC....................................................	20	1	1	43.00	43	9	29	5	0	0	0
...................................................................CTAGAGAGACTGCCGGTGA.....................................................	19	1	1	42.00	42	10	22	10	0	0	0
.................................................................CTCTAGAGAGACTGCCGGT.......................................................	19	2	1	28.00	28	26	0	2	0	0	0
...................................................................CTAGAGAGACTGCCGGTGACAA..................................................	22	2	1	27.00	27	11	6	6	4	0	0
................................................................ACTCTAGAGAGACTGCCGGT.......................................................	20	3	3	25.00	75	35	15	25	0	0	0
......................................................................GAGAGACTGCCGGTGACA...................................................	18	0	1	25.00	25	18	1	6	0	0	0
......................................................................GAGAGACTGCCGGTGACAA..................................................	19	1	1	24.00	24	5	12	6	1	0	0
....................................................................TAGAGAGACTGCCGGTGAC....................................................	19	0	1	16.00	16	7	5	4	0	0	0
..................................................................TCTAGAGAGACTGCCGGT.......................................................	18	1	1	16.00	16	7	0	9	0	0	0
.................................................................CTCTAGAGAGACTGCCGG........................................................	18	2	1	15.00	15	12	0	3	0	0	0
..............GTTTCTTCTTATCCTCTGAAG........................................................................................................	21	3	4	14.25	57	57	0	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGACA...................................................	19	0	1	14.00	14	4	5	4	0	0	1
...................................................................CTAGAGAGACTGCCGGTG......................................................	18	1	1	14.00	14	10	0	4	0	0	0
................................................................ACTCTAGAGAGACTGCCGG........................................................	19	3	6	13.83	83	58	11	14	0	0	0
................................................................ACTCTAGAGAGACTGCCGGTGA.....................................................	22	3	1	12.00	12	5	3	4	0	0	0
.................................................................CTCTAGAGAGACTGCCGGTGA.....................................................	21	2	1	11.00	11	7	3	1	0	0	0
.....................................................................AGAGAGACTGCCGGTGACAAGC................................................	22	3	2	9.00	18	5	7	6	0	0	0
................................................................ACTCTAGAGAGACTGCCGGTGAC....................................................	23	3	1	9.00	9	4	2	3	0	0	0
...................................................................CTAGAGAGACTGCCGGTGACAAG.................................................	23	3	1	9.00	9	1	7	0	1	0	0
....................................................................TAGAGAGACTGCCGGTGACAAGC................................................	23	3	1	7.00	7	2	4	1	0	0	0
..................................................................TCTAGAGAGACTGCCGGTGAC....................................................	21	1	1	7.00	7	0	5	2	0	0	0
....................................................................TAGAGAGACTGCCGGTGACA...................................................	20	0	1	7.00	7	1	3	3	0	0	0
......................................................................GTGAGACTGCCGGTGACA...................................................	18	1	1	7.00	7	4	3	0	0	0	0
..................................................................TCTAGAGAGACTGCCGGTGACA...................................................	22	1	1	7.00	7	2	5	0	0	0	0
.............GGTTTCTTCTTATCCTCTGAA.........................................................................................................	21	3	1	7.00	7	7	0	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGACAA..................................................	20	1	1	7.00	7	4	2	1	0	0	0
....................................................................TAGAGAGACTGCCGGTGACAA..................................................	21	1	1	6.00	6	3	1	2	0	0	0
....................................................................TGGTGAGACTGCCGGTGAC....................................................	19	2	1	6.00	6	6	0	0	0	0	0
......................................................................GAGAGACTGCCGGTGACAAG.................................................	20	2	2	6.00	12	4	7	1	0	0	0
.......................................................................AGAGACTGCCGGTGACAA..................................................	18	1	1	5.00	5	3	0	2	0	0	0
.....................................................................AGTGAGACTGCCGGTGAC....................................................	18	1	1	5.00	5	0	0	0	5	0	0
.................................................................CTCTAGAGAGACTGCCGGTGACA...................................................	23	2	1	5.00	5	2	1	2	0	0	0
................................................................ACTCTAGAGAGACTGCCGGTG......................................................	21	3	2	5.00	10	8	0	2	0	0	0
................................................................ACTCTAGAGAGACTGCCG.........................................................	18	3	20	4.10	82	37	1	44	0	0	0
....................................................................TAGAGAGACTGCCGGTGA.....................................................	18	0	1	4.00	4	0	2	2	0	0	0
................................................................ACTCTAGAGAGACTGCCGGTGACA...................................................	24	3	1	4.00	4	3	0	1	0	0	0
.................................................................CTCTAGAGAGACTGCCGGTG......................................................	20	2	1	4.00	4	3	1	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGAC....................................................	18	0	1	4.00	4	1	0	3	0	0	0
..................................................................TCTAGAGAGACTGCCGGTGA.....................................................	20	1	1	4.00	4	0	3	1	0	0	0
.................................................................CTCTAGAGAGACTGCCGGTGAC....................................................	22	2	1	4.00	4	2	1	1	0	0	0
....................................................................TAGAGAGACTGCCGGTGACAAG.................................................	22	2	1	3.00	3	0	3	0	0	0	0
.....................................................................GGTGAGACTGCCGGTGACA...................................................	19	2	1	3.00	3	3	0	0	0	0	0
....................................................................TAATGAGACTGCCGGTGACA...................................................	20	2	1	3.00	3	0	1	0	2	0	0
......................................................................GAGAGACTGTCGGTGACA...................................................	18	1	1	2.00	2	0	2	0	0	0	0
..................................................................TCTAGAGAGACTGCCGGTG......................................................	19	1	1	2.00	2	0	2	0	0	0	0
...................................................................CTGGTGAGACTGCCGGTGACA...................................................	21	3	3	2.00	6	3	0	2	0	1	0
...................................................................CTAGAGAGGCTGCCGGTGACAA..................................................	22	3	1	2.00	2	2	0	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGACAAG.................................................	21	2	1	2.00	2	0	1	1	0	0	0
.................................................................CTCTAGAGAGACTGCCGGTGACAA..................................................	24	3	1	2.00	2	2	0	0	0	0	0
...................................................................CTAGTGAGACTGCCGGTGAC....................................................	20	2	1	2.00	2	0	0	0	1	1	0
........................................................................GAGACTGCCGGTGACAAG.................................................	18	2	8	1.50	12	4	3	5	0	0	0
...............TTTCTTCTTATCCTCTGAAG........................................................................................................	20	3	18	1.28	23	23	0	0	0	0	0
.......................................................................AGAGACTGCCGGTGACAAG.................................................	19	2	5	1.20	6	4	1	1	0	0	0
.....................................................................AGAGAGACTGCCGGTGACAACC................................................	22	3	1	1.00	1	1	0	0	0	0	0
.................................................................CTCTAGAGAGACTGCCGGTGACAG..................................................	24	2	1	1.00	1	0	0	1	0	0	0
..................................................................TCTGGTGAGACTGCCGGTGACA...................................................	22	3	1	1.00	1	1	0	0	0	0	0
....................................................................TAGTGAGACTGCCGGTGACA...................................................	20	1	1	1.00	1	0	0	0	1	0	0
...................................................................CTAGAGAGAATGCCGGTGACA...................................................	21	2	1	1.00	1	0	1	0	0	0	0
..................................................................TCTAGAGAGACTGCCCGTGA.....................................................	20	2	1	1.00	1	0	0	1	0	0	0
...................................................................CTAGAGAGATTGCCGGTGACA...................................................	21	2	1	1.00	1	0	1	0	0	0	0
.............GGTTTCTTCTTATCCTCTGAAG........................................................................................................	22	3	1	1.00	1	1	0	0	0	0	0
...................................................................CTATAGAGACTGCCGGTGAC....................................................	20	2	1	1.00	1	0	1	0	0	0	0
...................................................................CTAGAGAGACTGCCGGTGACAGC.................................................	23	2	1	1.00	1	0	1	0	0	0	0
...................................................................CTAGAGAGACTGCCGGAGACAA..................................................	22	3	1	1.00	1	0	1	0	0	0	0
................................................................ACTATAGAGAGACTGCCGGT.......................................................	20	3	1	1.00	1	0	1	0	0	0	0
.....................................................................AGAGAGACTGCCGTTGACAA..................................................	20	2	1	1.00	1	0	1	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGGCA...................................................	19	1	1	1.00	1	0	0	1	0	0	0
....................................................................TAGAGAGACTGGCGGTGA.....................................................	18	1	1	1.00	1	0	1	0	0	0	0
...................................................................CTAGAGAGCCTGCCGGTGAC....................................................	20	2	1	1.00	1	1	0	0	0	0	0
.................................................................CTCTAGAGAGACTTCCGGTGAC....................................................	22	3	1	1.00	1	1	0	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGACG...................................................	19	1	1	1.00	1	0	0	0	1	0	0
..............GTTTCTTCTTATCCTCTGAA.........................................................................................................	20	3	17	1.00	17	17	0	0	0	0	0
.............GGTTTCTTCTTATCCTCTGA..........................................................................................................	20	3	14	1.00	14	14	0	0	0	0	0
...................................................................CTAGAGAGACTGCCGGTGACGA..................................................	22	3	1	1.00	1	0	0	1	0	0	0
....................................................................TAGAGAGACTGCCGGTGG.....................................................	18	1	1	1.00	1	0	1	0	0	0	0
..................................................................TCTAGTGAGACTGCCGGT.......................................................	18	2	1	1.00	1	0	0	1	0	0	0
......................................................................GAGAGACTGCCGGTGACAATCC...............................................	22	3	1	1.00	1	0	0	1	0	0	0
...............................................................TACTCTAGAGAGACTGCCGGT.......................................................	21	3	1	1.00	1	0	0	1	0	0	0
...................................................................CTAGAGAGACTGCCGGCGAC....................................................	20	2	1	1.00	1	0	0	1	0	0	0
......................................................................GAGAGACTGCCGGTGATA...................................................	18	1	1	1.00	1	1	0	0	0	0	0
.................................................................CTCTAGAGAGACTGCCGGTGTC....................................................	22	3	1	1.00	1	0	0	1	0	0	0
......................................................................GCGAGACTGCCGGTGACAA..................................................	19	2	1	1.00	1	0	0	1	0	0	0
...................................................................CTAGCGAGACTGCCGGTGAC....................................................	20	2	1	1.00	1	0	0	0	1	0	0
........................................................................GAGACTGCCGGTGACAAA.................................................	18	2	6	0.67	4	0	1	0	2	1	0
......................................................................GTGAGACTGCCGGTGACAAA.................................................	20	3	12	0.58	7	1	4	0	2	0	0
...................................................................CTAGAGAGACTGCACGTGACA...................................................	21	3	2	0.50	1	0	0	1	0	0	0
................TTCTTCTTATCCTCTGAAG........................................................................................................	19	2	4	0.50	2	2	0	0	0	0	0
.....................................................................AGAGAGACTGCCGGTGGC....................................................	18	1	2	0.50	1	0	0	1	0	0	0
...................................................................CTGGCGAGACTGCCGGTGACA...................................................	21	3	2	0.50	1	0	1	0	0	0	0
......................................................................GTGAGACTGCCGGTGACAA..................................................	19	2	2	0.50	1	0	0	0	1	0	0
..................................................................TCTAATGAGACTGCCGGTGAC....................................................	21	3	2	0.50	1	0	0	0	1	0	0
...................................................................CTAGCGAGACTGCCGGGGAC....................................................	20	3	2	0.50	1	0	0	0	1	0	0
...................................................................CTGGTGAGACTGCCGGTGAC....................................................	20	3	10	0.50	5	2	0	2	0	1	0
.....................................................................AGAGAGTCTGCCGGTGAC....................................................	18	1	2	0.50	1	0	0	1	0	0	0
..................................................................TCTAGAGATACTGCCGGTG......................................................	19	2	2	0.50	1	1	0	0	0	0	0
...................................................................CTAGAGAGACTGCCGGTGCC....................................................	20	2	3	0.33	1	0	0	1	0	0	0
.....................................................................GGTGAGACTGCCGGTGAC....................................................	18	2	6	0.33	2	2	0	0	0	0	0
......................................................................ATGAGACTGCCGGTGACA...................................................	18	2	3	0.33	1	0	0	0	1	0	0
..................................................................TCTGGTGAGACTGCCGGTGAC....................................................	21	3	3	0.33	1	1	0	0	0	0	0
.................................................................CTATAGAGAGACTGCCGG........................................................	18	2	3	0.33	1	0	0	1	0	0	0
...................................................................CTAAAGAGACTGCCGGTGA.....................................................	19	2	3	0.33	1	0	1	0	0	0	0
...............TTTCTTCTGATCCTCTGAAGT.......................................................................................................	21	3	6	0.33	2	2	0	0	0	0	0
..............GTTTCTTCTCATCCTCTGAAG........................................................................................................	21	3	3	0.33	1	0	0	0	0	0	1
...................................................................CTAGATAGACTGCCGGTGACAA..................................................	22	3	3	0.33	1	1	0	0	0	0	0
...............................................CTTCGACCGTCGTCACTCT.........................................................................	19	2	3	0.33	1	0	0	0	0	1	0
................TTCTTCTTATCCTCTGAAGT.......................................................................................................	20	3	19	0.32	6	6	0	0	0	0	0
...................................................................CTGGTGAGACTGCCGGTGA.....................................................	19	3	20	0.25	5	4	0	0	0	1	0
................................................................ATTCTAGAGAGACTGCCG.........................................................	18	2	4	0.25	1	0	0	1	0	0	0
.....................................................................AGAGAGACTGCCGGTGTCG...................................................	19	2	4	0.25	1	0	0	1	0	0	0
......................................................................GAGAGACTGCCGGCGACAA..................................................	19	2	4	0.25	1	1	0	0	0	0	0
....................................................................TGGTGAGACTGCCGGTGA.....................................................	18	2	4	0.25	1	0	1	0	0	0	0
........................................................................GAGACTGCCGGTGACAAAC................................................	19	3	20	0.20	4	4	0	0	0	0	0
................TTCTTCTTATCCTCTGAA.........................................................................................................	18	2	10	0.20	2	2	0	0	0	0	0
......................................................................CTGAGACTGCCGGTGACA...................................................	18	2	5	0.20	1	1	0	0	0	0	0
.....................................................................AGAGAGACTGCCGGCGACAAG.................................................	21	3	6	0.17	1	0	0	1	0	0	0
.....................................................................AACGAGACTGCCGGTGATA...................................................	19	3	13	0.15	2	0	0	0	2	0	0
...............................................................CATTCTAGAGAGACTGCCGG........................................................	20	3	7	0.14	1	1	0	0	0	0	0
.................................................................CCCTAGAGAGACTGCCGGT.......................................................	19	3	7	0.14	1	0	0	1	0	0	0
.....................................................................AGAGAGACTGCCGGGGACCA..................................................	20	3	8	0.13	1	0	0	1	0	0	0
.....................................................................AGAGCGAATGCCTGTGACAG..................................................	20	3	8	0.13	1	0	0	1	0	0	0
.................TCTTCTTATCCTCTGAAG........................................................................................................	18	2	9	0.11	1	1	0	0	0	0	0
................................................................GCTCTAGAGAGACTGCCGG........................................................	19	3	15	0.07	1	1	0	0	0	0	0
........................................................................................GTGGAAGTACCTGCTCCGGC...............................	20	3	17	0.06	1	1	0	0	0	0	0
.................................................................CTCTAGAGAGACTTCCGG........................................................	18	3	20	0.05	1	1	0	0	0	0	0

---------################################################################################################################################## GACGTACGGAATGCCGAAGACGACTAGGAGACTTCCAAGGAAGCGACGACGCTGGCAGCAGAGAGAAAATCTCTCTGACGGCCACTGTCACCGTCACGGACGAGGACGCCGCCGAGGTGAACTTCTCGACGATCACAAC *********************************........(((((((..(((((.((((((((...)))))))).)).)))..)))))))...........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M042 female body	V111 male body	M021 embryo	V057 head	V050 head
.............CCAAAGAAGAATAGGAGACTT.........................................................................................................	21	3	1	70.00	70	35	35	0	0	0
.............CCAAAGAAGAATAGGAGACTTC........................................................................................................	22	3	1	26.00	26	21	1	2	1	1
..............CAAAGAAGAATAGGAGACTTC........................................................................................................	21	3	4	6.50	26	24	2	0	0	0
.................AGAAGAATAGGAGACTTC........................................................................................................	18	2	9	1.78	16	16	0	0	0	0
................AAGAAGAATAGGAGACTTC........................................................................................................	19	2	4	1.75	7	6	1	0	0	0
.............CCAAAGAAGAATAGGAGACT..........................................................................................................	20	3	14	1.71	24	9	12	0	3	0
..............CAAAGAAGAATAGGAGACTT.........................................................................................................	20	3	17	1.41	24	10	13	0	1	0
................AAGAAGAATAGGAGACTT.........................................................................................................	18	2	10	0.50	5	4	0	0	1	0
...............AAAGAAGAATAGGAGACTTC........................................................................................................	20	3	18	0.50	9	8	0	0	1	0
................AAGAAGAATAGGAGACTTCA.......................................................................................................	20	3	19	0.11	2	2	0	0	0	0

Species	Coordinate	ID	Alignment
droPer2	scaffold_77:103663-103801 +	dpe_293	CTGCATGCCTTACGG---CTTCT-----------------GCTGATCCTCTGAAGG-------------------------------------------TTCCTTCGC---------------------TG------------CTGCGACCGTCGTCTCTCTTTTAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AG----------------TGGCAGT---GCCTGCTCCTGCGGCGGCTCCACTTGAAGAGCTGCTAGTGTTG
dp5	XL_group1a:3401236-3401374 -	dps_205	CTGCATGCCTTACGG---CTTCT-----------------GCTGATCCTCTGAAGG-------------------------------------------TTCCTTCGC---------------------TG------------CTGCGACCGTCGTCTCTCTTTTAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AG----------------TGGCAGT---GCCTGCTCCTGCGGCGGCTCCACTTGAAGAGCTGCTAGTGTTG
droWil2	scf2_1100000003789:1888-2019 +		TTGCATTCGCTGCTG---CT-------------------------------------GTTGC----------------TGTTGCTGATGCTGC---------------TGTTGCT---------GC---TGCTGTTG---TTGTTGCT-----------------GCT----GTTGTTGCT------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTGCTGCAGT--TGTTGTTGCTGTTGTTGTTG
droVir3	scaffold_12928:6859260-6859385 +		CTGCTCCTCCTCCTG---CT-------------------------------------CTTGCTGCAGATCTGGATGCT----G---------CT---------CTTGC---------------------TG------------CTGAAGCTG--------------CT----CCTGCGGTGA--------C------------------T-----GCTG-----------------------CTG----------------CTCGTGTTGCTGC---CCTTGATGCAGCTCT--TCTTGCAGCTCCTCCTGTTG
droMoj3	scaffold_6473:10898333-10898473 -		CTGCTGCTGTTGCTG---CTGTT-----------------GTTGC-----------TGCT----------------------G---CTGTTGC---------------TGCTGCTGCTGCTGCTGCTGCTG---T---TGCTGCTGCT-----------------GCT----GCTGCTGCTG--------C------------------T-----GCTG-----------------------CTG----------------CTGCTGTTGCTGC---TGCTGCTGCTGCTGC--TGTTGCTGCTGCTGCTGTTG
droGri2	scaffold_98:884-1018 +		CTGCTGTTTTAACTG---CTCCT-----------------GCTGC-----------TGCTGCTGATGATGTTGACGCT----G------CTGC------TGCTGCTGC---------------------TG------------TT--------------------GGT----GCTGCTGCTG--------C------------------T-----GCTG-----------------------CTG----------------CTGCCGCTGCTGC---TGCTGCCGCTGCTGC--TGCTGCTGCTGCCGCTGCTG
droAna3	scaffold_13248:3481163-3481302 +		T-GCAGGACCTGCTG---TTGCT-----------------GTTGG-----------------------TGCTGG----TGCTG---------CTGGTGCTTCTGTTGC---------------------TG------------CTGCTGCTG---------------------TTGTTGTTG---CTG--C------------------T-----GCTG----CTGCTG-------------CTG--------GTGAAG--CACCACC---GCC---TGCTGTTGCTGCTGC--TGCTGGGACTGCTGCTGTTG
droBip1	scf7180000395895:27109-27231 -		GC--------TGCTG---CTGCC-----------------GCTGA-----------------------TGCCGC----CGCCGCTGCCAC-------G--------------------------GC---TG---CAT-TGTTGCTGCT-----------------GCT----GCTGTTGCTG--------C------------------C-----GCCG-----------------------GCA----------------CTGCCGCTGCTGT---TGCTGCTGTTGCCGC--CGGCGTTGCTACTATTGCTG
droKik1	scf7180000302401:199846-199989 -		CTGCAGTTGTTGCTG---CT-------------------------------------GCTGC----------------TGCTTCTTTACC-------G---CCTTC--AGTAATTCCAGTAGTTCCTTTTGTTG---------TTTCTGCCT--------------TT----GTTGTTGTTG--------T------------------T-----GCTG----C-------------------AG----------------TTGCTGTCTTTGC---TTTATTAGCTGCTCC--AGAAGCTTCTGCTGTTTTCG
droFic1	scf7180000453829:1093178-1093321 -		CTGTTGGAGTTGCTG---CTGCT-----------------GTTGC---------------------------------TCCTGCTGCAATTGC---------------TGTTGTT---------GCTTCTGCTGAAATTGCTGTA--------------------GTT----GCTGATGCT------G--C------------------T-----GTTG-----------------------TTG--------CTGTTG--CTGCAGT---GTCTGTTGCTGCTGTTGTTGT--ATTTGGTGCTGTTGTTGTTG
droEle1	scf7180000490564:1746098-1746218 -		CTGTATCGTTTATGG---CCGCT-----------------GCCGC-----------CGCATCGAA--------ACTTT----G---------------------------CAGCT---------C-----------------------------------------GGCACTCAGATCGCTTTCGCTGAAC------------------T-----TCAG-----------------------TTG----------------C--GTTT---GGCTGCTC----ATCAGCGAG--TTGAGCAGCTGCTCCTGTTG
droRho1	scf7180000780080:529475-529596 -		CTGCGTCACCTATTG---CTGAT-----------------GCTGC-----------TGCTGATGT--------TT-------------------------------GC---------------------TG------------CTGCTGCTG---------------------CTCCTCCTC--------C------------------T-----GCTG-----------------------CTGCGGATGTTGTGGACCGTTGCC-C---GCC------TGCTGCTGCTGC----AAAGCGCCGCCGCTGGGA
droBia1	scf7180000301760:2681338-2681469 +		TTGCTGCTGTTGCTG---AT-------------------------------------GCTGC----------------TCTTGCTTCTGTTGC---------------TCTTGCT---------TC---TGTTGCTG---TTCCTGCT-----------------GCT----GAAATTGCT------G--C------------------A-----TTTG-----------------------CTG----------------TTGCAGTTCCTGC---TGCTGTTGCTGCTGT--TGATTGGGTTGCTGATGTTG
droTak1	scf7180000413903:84835-84963 +		ATATCTTAG-GATTG---TGCCT-----------------GCTGATCATCTGCAGT-------------------------------------------TGTAGTTGT---------------------TG------------TTGCTTCCG---------------------TTGCTGTT----------------------------------GC------------CTCTCGTTTTGTGTTG----------------TTGCTGGAACTGA---TGTTGCTGCTGCTGT--TGTTGCTGCTGCTGCTGTTG
droEug1	scf7180000409110:993973-994093 -		TTGCTGCTGTGCCGC---C---T-----------------GCTGATCATCGGCAGT-------------------------------------------TGCTGCTGC---------------------TG------------CGGCTACTA---------------------CTGTTGCT-------------------------------------G----C-----CTCACGT------TTC----------------GTGTTGCTAGTAC---TGCTGTTGCTGTTGC--TGCTAGTGCTGGTATTGCTG
dm3	chr3L:20230346-20230482 +		TTGCTGGC-----------CGCT-----------------GCTGC-----------TGCTGC----------------CGCCGCTGCAGCCGC---------------GTTCGCC---------TC--------------------CT------------------------CCTCTTGCTG--------TTGAGTGGCTTCACTCTTCTCCT--GACG-----------------------CTG----------------CTGCTGC---GCCTGCTGCTGCTGTTGCTGT--GTGTAGGCCTGCTGGTGTTG
droSim2	x:11958117-11958251 -		TTGCATGTGCTCTATTTACTTTAGGATTGTTGTGTTGTCTGCTGATCGTC-GCGTT-------------------------------------------TCGCGTTGT---------------------TG------------TTGCTGCCG---------------------TTGTTGCT------G--C------------------C--GTTGCTG----C-------------------TG----------------CTGCTGCTTGTGT---TGCTGCTGC-----------TGTTGTTGCTCGTGTTG
droSec2	scaffold_15:1216778-1216893 +		CGGCATTTGTTGCAC---CT-------------------------------------GCTGC----------------TGCTGGA----TTAC---------------CGCTGCT---------TG---TT--------------------------------TTGGA----CATGCTGCTG--------C------------------C-----GACG-----------------------CTA----------------GTGTTGCTGCTGC---TGCTGCTGCTGCTAC--TGCAGCTGCTGCTGCTGCTG
droYak3	2L:9710234-9710365 -		CTGCAATTGTTGCTG---CT-------------------------------------GTTGC----------------TGCTGCTGCAATTGT---------------TGCTGCT---------GC---TGCTGCAA---TTGTTGCT-----------------GCT----GTTGTTGCT------G--C------------------T-----GCAG-----------------------TTG----------------TTGCTGCTGGAAC---TGCTGTTGCTGCAGC--TGCTGGAGCTGTTGCTGCTG
droEre2	scaffold_4770:15789295-15789436 +		CCATGTG-----------CTGTT-----------------GCTGC-----------TGCAGCGGA--------TTGCT----G---CCGT---------TGCTTCCGT---------------------TG------------CTGTGGTTGTTGCTGTTGTTTTGGGCAACCAGGTTGCC-------------------------------G--GCAGTTGTC-------------------T-------------------GTGGATGTGGA---TGTTGCTGCTGGTGG--CCGCGCATCGGCTGGTGCTG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droPer2

CTGCATGCCTTACGG---CTTCT-----------------GCTGATCCTCTGAAGG-------------------------------------------TTCCTTCGC---------------------TG------------CTGCGACCGTCGTCTCTCTTTTAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AG----------------TGGCAGT---GCCTGCTCCTGCGGCGGCTCCACTTGAAGAGCTGCTAGTGTTG	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----C-------------------A......................................................................	18	1	25.00	25	0	18	0	0	6	1
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	19	1	24.00	24	1	5	0	0	6	12
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------.......................................................................	19	1	16.00	16	0	7	0	0	4	5
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------A......................................................................	19	1	14.00	14	0	4	0	1	4	5
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------GC...................................................	22	2	9.00	18	0	5	0	0	6	7
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------GC...................................................	23	1	7.00	7	0	2	0	0	1	4
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------A......................................................................	20	1	7.00	7	0	1	0	0	3	3
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	20	1	7.00	7	0	4	0	0	1	2
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	21	1	6.00	6	0	3	0	0	2	1
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	20	2	6.00	12	0	4	0	0	1	7
.......................................................................................................................................................................A----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	18	1	5.00	5	0	3	0	0	2	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----...........................................................................................	18	1	4.00	4	0	0	0	0	2	2
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------.......................................................................	18	1	4.00	4	0	1	0	0	3	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	22	1	3.00	3	0	0	0	0	0	3
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	21	1	2.00	2	0	0	0	0	1	1
............................................................................................................................................................................GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	18	8	1.50	12	0	4	0	0	5	3
.......................................................................................................................................................................A----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	19	5	1.20	6	0	4	0	0	1	1
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------CC...................................................	22	1	1.00	1	0	1	0	0	0	0
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------G......................................................................	19	1	1.00	1	1	0	0	0	0	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGG----...........................................................................................	18	1	1.00	1	0	0	0	0	0	1
............................................................................................................................................................................GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------A....................................................	18	6	0.67	4	2	0	1	0	0	1
............................................................................................................................................................................GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------AC...................................................	19	20	0.20	4	0	4	0	0	0	0

dp5

CTGCATGCCTTACGG---CTTCT-----------------GCTGATCCTCTGAAGG-------------------------------------------TTCCTTCGC---------------------TG------------CTGCGACCGTCGTCTCTCTTTTAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AG----------------TGGCAGT---GCCTGCTCCTGCGGCGGCTCCACTTGAAGAGCTGCTAGTGTTG	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
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------A......................................................................	19	1	64.00	64	2	58	0	0	0	0	4	0	0	0
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----C-------------------A......................................................................	18	1	60.00	60	0	60	0	0	0	0	0	0	0	0
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------.......................................................................	18	1	33.00	33	0	33	0	0	0	0	0	0	0	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------A......................................................................	20	1	26.00	26	3	21	0	0	0	0	0	0	0	2
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	20	1	21.00	21	0	17	0	0	0	1	3	0	0	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------.......................................................................	19	1	19.00	19	0	16	0	0	0	1	2	0	0	0
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	19	1	16.00	16	0	15	0	0	0	0	1	0	0	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----...........................................................................................	18	1	14.00	14	1	13	0	0	0	0	0	0	0	0
.......................................................................................................................................................................A----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	18	1	13.00	13	0	13	0	0	0	0	0	0	0	0
............................................................................................................................................................................GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------A....................................................	18	6	12.33	74	1	67	0	0	2	3	0	0	0	1
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------GC...................................................	22	2	12.00	24	0	18	0	1	0	1	3	0	1	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------GC...................................................	23	1	9.00	9	0	8	0	0	0	0	1	0	0	0
............................................................................................................................................................................GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------AC...................................................	19	20	8.25	165	0	162	0	2	0	0	1	0	0	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------.....................................................	21	1	5.00	5	0	5	0	0	0	0	0	0	0	0
.....................................................................................................................................................................AGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	21	1	3.00	3	0	3	0	0	0	0	0	0	0	0
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	20	3	2.67	8	0	8	0	0	0	0	0	0	0	0
............................................................................................................................................................................GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	18	7	2.43	17	0	14	0	0	0	2	1	0	0	0
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GT.................................................................................................	16	1	2.00	2	0	0	0	0	0	0	0	0	0	2
....................................................................................................................................................................TAGA----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	22	1	2.00	2	0	2	0	0	0	0	0	0	0	0
....................................................AAGG-------------------------------------------TTCCTTCGC---------------------TG------------CTGCGACC...................................................................................................................................................................	23	1	1.00	1	0	1	0	0	0	0	0	0	0	0
.......................................................................................................................................................................A----GAGACTGCC-------------------------------G--GTGA----C-------------------AA----------------G....................................................	19	5	0.60	3	0	3	0	0	0	0	0	0	0	0
......................................................................................................................................................................GA----GAGACTGCC-------------------------------G--GTGA----G-------------------T......................................................................	18	7	0.14	1	0	1	0	0	0	0	0	0	0	0

droWil2

TTGCATTCGCTGCTG---CT-------------------------------------GTTGC----------------TGTTGCTGATGCTGC---------------TGTTGCT---------GC---TGCTGTTG---TTGTTGCT-----------------GCT----GTTGTTGCT------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTGCTGCAGT--TGTTGTTGCTGTTGTTGTTG	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAGT--TG..................	23	20	2.25	45	0	30	0	15	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTG................................	23	20	0.85	17	0	15	0	2	0
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAGT--....................	21	20	0.65	13	0	10	0	3	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGC...............................	24	20	0.60	12	0	12	0	0	0
..........................................................................................TGC---------------TGTTGCT---------GC---TGCTGTTG---TTGT..........................................................................................................................................................................	24	20	0.50	10	0	10	0	0	0
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAGT--T...................	22	20	0.50	10	0	9	0	1	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTG................................	20	20	0.45	9	0	0	0	9	0
..........................................................................................TGC---------------TGTTGCT---------GC---TGCTGTTG---TTGTTG........................................................................................................................................................................	26	20	0.40	8	0	8	0	0	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTGTTGC...........	24	20	0.40	8	0	8	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTG.............................	26	20	0.35	7	0	7	0	0	0
.........................................................................................................................................................................................................................................................................TGCTGCAAT---TGTTGCTGCTGCAG.......................	23	20	0.35	7	0	7	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTG.............................	23	20	0.35	7	0	7	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGCTG..........................	26	20	0.30	6	0	6	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGC............................	24	20	0.25	5	0	5	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGC...............................	21	20	0.25	5	0	2	0	3	0
........................................................................................................................................................................................................................................................................................TGCTGCTGCAGT--TGTTGTTGCTG.........	23	20	0.25	5	0	5	0	0	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTGTTGCT..........	25	20	0.20	4	0	4	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAAT---T....................................	25	20	0.20	4	0	4	0	0	0
......................................................................................................................................................................................................................................................................TGTTGCTGCAAT---TGTTGCTGCTG..........................	23	20	0.15	3	0	3	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCT..............................	25	20	0.15	3	0	3	0	0	0
..............................................................................................................................................................................................................................................................................................TGCAGT--TGTTGTTGCTGTTGTTG...	23	20	0.15	3	0	3	0	0	0
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAGT--TGTTG...............	26	20	0.15	3	0	3	0	0	0
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAG.......................	20	20	0.15	3	0	2	0	1	0
......................................................................................................................................................................................................................................................................TGTTGCTGCAAT---TGTTGCTGCTGC.........................	24	20	0.15	3	0	3	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTAA............................	27	20	0.15	3	0	3	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAA.........................................	23	20	0.10	2	0	2	0	0	0
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAGT--TGTT................	25	20	0.10	2	0	2	0	0	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTGTT.............	22	20	0.10	2	0	0	0	2	0
........................................................................................................................................................................................................................................................................................TGCTGCTGCAGT--TGTTGTTGC...........	21	20	0.10	2	0	2	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCA..........................................	22	20	0.10	2	0	0	0	2	0
..........................................................................................TGC---------------TGTTGCT---------GC---TGCTGTTG---TTG...........................................................................................................................................................................	23	20	0.10	2	0	0	0	2	0
...............................................................................................................TGCT---------GC---TGCTGTTG---TTGTTGCT-----------------GC...................................................................................................................................................	24	20	0.10	2	0	2	0	0	0
...........................................................................................GC---------------TGTTGCT---------GC---TGCTGTTG---TTGTTG........................................................................................................................................................................	25	20	0.10	2	0	2	0	0	0
..............................................................................................................................................................................................................................................................................CAAT---TGTTGCTGCTGCAGT--TGTTG...............	24	20	0.10	2	0	2	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAAA---.....................................	24	20	0.10	2	0	2	0	0	0
............................................................................................................................................................................................................................................................................TGCAAT---TGTTGCTGCTGCAGT--TGT.................	24	20	0.10	2	0	2	0	0	0
............................................................................................................TGTTGCT---------GC---TGCTGTTG---TTGTTGCT-----------------.....................................................................................................................................................	25	20	0.10	2	0	2	0	0	0
..............................................................................................................................................................................TGTTGCT------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTG...............................................	23	20	0.10	2	0	2	0	0	0
..................................................................................................................T---------GC---TGCTGTTG---TTGTTGCT-----------------GCT----G.............................................................................................................................................	23	20	0.10	2	0	2	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTGC............................	27	20	0.10	2	0	2	0	0	0
.................................................................................................................................................................................................................T-----GTTG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTG................................	26	20	0.10	2	0	2	0	0	0
........................................................................................................................................................................................................................................................................................TGCTGCTGCAGT--TGTTGTTGCT..........	22	20	0.10	2	0	2	0	0	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTGTTG............	23	20	0.10	2	0	0	0	2	0
.................................................................................................................................................................................................................................................................................T---TGTTGCTGCTGCAGT--TGTTGTTG............	24	20	0.10	2	0	2	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTT.................................	22	20	0.10	2	0	2	0	0	0
........................................................................................................................................................................................................................................................................................TGCTGCTGCAGT--TGTTGTTG............	20	20	0.10	2	0	2	0	0	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTG...............	20	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTAG............................	27	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGCTTA.........................	27	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTTT............................	27	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................................................................................TGCTGCTGCAGT--TGTTGTTGCTGTTG......	26	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................TTG-----------------------CTG----------------TTGTTGCTGCAAT---TGTT.................................	23	20	0.05	1	0	1	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAAT---TG...................................	26	20	0.05	1	0	0	0	0	1
...............................................................................................................................................TTGCT-----------------GCT----GTTGTTGCT------G--............................................................................................................................	18	20	0.05	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................TGCAGT--TGTTGTTGCTGTTGTTGTTG	26	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTGG............................	27	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTGTA...........................	28	20	0.05	1	0	1	0	0	0
......................................................................................................................................................................................................................................................................................GTTGCTGCTGCAGT--TGTTGT..............	20	20	0.05	1	0	0	0	1	0
.....................................................................................................................................................................................................................................................................TTGTTGCTGCAAT---TGTTGCTGCT...........................	23	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGCT...........................	25	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................................................................T--TGTTGTTGCTGTTGTTG...	18	20	0.05	1	0	0	0	1	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTGTTGCTT.........	26	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................................................................................................T---TGTTGCTGCTGCAGT--TGTTGTTGCTA.........	27	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................................................GCTGCTGCAGT--TGTTGTTG............	19	20	0.05	1	0	1	0	0	0
.....................................................................................................................................................................................................................................................................................TGTTGCTGCTGCAGT--TGTTGTTGCTGT........	27	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................TTGTTGCT------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTG...............................................	24	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGCTT..........................	26	20	0.05	1	0	1	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCT..............................	22	20	0.05	1	0	1	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCT.............................................	19	20	0.05	1	0	1	0	0	0
........................................................................................................................................................................................................................TTG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTG.............................	27	20	0.05	1	0	1	0	0	0
....................................................................................................................................................................................T------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAT.........................................	23	20	0.05	1	0	0	0	1	0
....................................................................................................................................................................................................................................................G----------------TTGTTGCTGCAAT---TGTTGC...............................	20	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGCTT.............................	26	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................................................................................................................................AGT--TGTTGTTGCTGTTGTT....	19	20	0.05	1	0	0	0	1	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGCA...........................	25	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................................TGCTGCAAT---TGTTGCTGCTGCAGT--T...................	25	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................................................................TGCTGCAAT---TGTTGCTGCTGCAGT--TG..................	26	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................................................................................................................GCAAT---TGTTGCTGCTGCAGT--TG..................	22	20	0.05	1	0	1	0	0	0
......................................................................................................................................................................................................................................................................................GTTGCTGCTGCAGT--TGTTGTTGC...........	23	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................................................................................G-----------------------CTG----------------TTGTTGCTGCAAT---TGTTGC...............................	23	20	0.05	1	0	1	0	0	0
..........................................................................................................................................................................................................................G-----------------------CTG----------------TTGTTGCTGCAAT---TGTTG................................	22	20	0.05	1	0	1	0	0	0
...................................................................................................................................................T-----------------GCT----GTTGTTGCT------G--C------------------T-----GTTG-----------------------C.......................................................................	21	20	0.05	1	0	0	0	0	1
.............TG---CT-------------------------------------GTTGC----------------TGTTGCTGATG.................................................................................................................................................................................................................................	20	20	0.05	1	0	1	0	0	0
....................................................................................................................................................................................................................................................G----------------TTGTTGCTGCAAT---TGTTGCTG.............................	22	20	0.05	1	0	1	0	0	0
.................................................................................................................................................................................TGCT------G--C------------------T-----GTTG-----------------------CTG----------------TTGTTGCTGCAA.........................................	26	20	0.05	1	0	1	0	0	0
.........................................................................................................................................................................................................................TG-----------------------CTG----------------TTGTTGCTGCAAT---TG...................................	20	20	0.05	1	0	1	0	0	0
.............TG---CT-------------------------------------GTTGC----------------TGTTGCTGATGC................................................................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0
.......................................................................................................................................................................................................................................................................................TTGCTGCTGCAGT--TGTTGTTGCTG.........	24	20	0.05	1	1	0	0	0	0
...................................................................................................................................................................................................................................................TG----------------TTGTTGCTGCAAT---TGTTGCTGGA...........................	25	20	0.05	1	1	0	0	0	0
..................................................................................................................................................................................................................................................CTG----------------TTGTTGCTGCAAT---TGTTGCT..............................	23	20	0.05	1	0	1	0	0	0
.............................................................................................................................................................................................................................................................................................CTGCAGT--TGTTGTTGCTA.........	18	20	0.05	1	0	0	0	1	0
..............................................................................................................................................................................................................................................................................................TGCAGT--TGTTGTTGCTGTTGTTGT..	24	20	0.05	1	0	1	0	0	0

droVir3

CTGCTCCTCCTCCTG---CT-------------------------------------CTTGCTGCAGATCTGGATGCT----G---------CT---------CTTGC---------------------TG------------CTGAAGCTG--------------CT----CCTGCGGTGA--------C------------------T-----GCTG-----------------------CTG----------------CTCGTGTTGCTGC---CCTTGATGCAGCTCT--TCTTGCAGCTCCTCCTGTTG	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
.................................................................................................................................................................................................................T-----GCTG-----------------------CTG----------------CTCGTGTTGC...........................................	18	4	0.25	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	1	0

droMoj3

CTGCTGCTGTTGCTG---CTGTT-----------------GTTGC-----------TGCT----------------------G---CTGTTGC---------------TGCTGCTGCTGCTGCTGCTGCTG---T---TGCTGCTGCT-----------------GCT----GCTGCTGCTG--------C------------------T-----GCTG-----------------------CTG----------------CTGCTGTTGCTGC---TGCTGCTGCTGCTGC--TGTTGCTGCTGCTGCTGTTG	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

CTGCTGTTTTAACTG---CTCCT-----------------GCTGC-----------TGCTGCTGATGATGTTGACGCT----G------CTGC------TGCTGCTGC---------------------TG------------TT--------------------GGT----GCTGCTGCTG--------C------------------T-----GCTG-----------------------CTG----------------CTGCCGCTGCTGC---TGCTGCCGCTGCTGC--TGCTGCTGCTGCCGCTGCTG	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droAna3

T-GCAGGACCTGCTG---TTGCT-----------------GTTGG-----------------------TGCTGG----TGCTG---------CTGGTGCTTCTGTTGC---------------------TG------------CTGCTGCTG---------------------TTGTTGTTG---CTG--C------------------T-----GCTG----CTGCTG-------------CTG--------GTGAAG--CACCACC---GCC---TGCTGTTGCTGCTGC--TGCTGGGACTGCTGCTGTTG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
.................................................................................................................................................................................TGTTG---CTG--C------------------T-----GCTG----CTGCTG-------------C.......................................................................	21	20	0.05	1	1	0	0	0	0	0
...................................................................................................................................................TGCTG---------------------TTGTTGTTG---CTG--C------------------T-----...................................................................................................	19	20	0.05	1	1	0	0	0	0	0
...............................................................................................................................................................................GTTGTTG---CTG--C------------------T-----GCTG----CTGCTG-------------C.......................................................................	23	20	0.05	1	1	0	0	0	0	0

droBip1

GC--------TGCTG---CTGCC-----------------GCTGA-----------------------TGCCGC----CGCCGCTGCCAC-------G--------------------------GC---TG---CAT-TGTTGCTGCT-----------------GCT----GCTGTTGCTG--------C------------------C-----GCCG-----------------------GCA----------------CTGCCGCTGCTGT---TGCTGCTGTTGCCGC--CGGCGTTGCTACTATTGCTG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CTGCAGTTGTTGCTG---CT-------------------------------------GCTGC----------------TGCTTCTTTACC-------G---CCTTC--AGTAATTCCAGTAGTTCCTTTTGTTG---------TTTCTGCCT--------------TT----GTTGTTGTTG--------T------------------T-----GCTG----C-------------------AG----------------TTGCTGTCTTTGC---TTTATTAGCTGCTCC--AGAAGCTTCTGCTGTTTTCG	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CTGTTGGAGTTGCTG---CTGCT-----------------GTTGC---------------------------------TCCTGCTGCAATTGC---------------TGTTGTT---------GCTTCTGCTGAAATTGCTGTA--------------------GTT----GCTGATGCT------G--C------------------T-----GTTG-----------------------TTG--------CTGTTG--CTGCAGT---GTCTGTTGCTGCTGTTGTTGT--ATTTGGTGCTGTTGTTGTTG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CTGTATCGTTTATGG---CCGCT-----------------GCCGC-----------CGCATCGAA--------ACTTT----G---------------------------CAGCT---------C-----------------------------------------GGCACTCAGATCGCTTTCGCTGAAC------------------T-----TCAG-----------------------TTG----------------C--GTTT---GGCTGCTC----ATCAGCGAG--TTGAGCAGCTGCTCCTGTTG	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CTGCGTCACCTATTG---CTGAT-----------------GCTGC-----------TGCTGATGT--------TT-------------------------------GC---------------------TG------------CTGCTGCTG---------------------CTCCTCCTC--------C------------------T-----GCTG-----------------------CTGCGGATGTTGTGGACCGTTGCC-C---GCC------TGCTGCTGCTGC----AAAGCGCCGCCGCTGGGA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TTGCTGCTGTTGCTG---AT-------------------------------------GCTGC----------------TCTTGCTTCTGTTGC---------------TCTTGCT---------TC---TGTTGCTG---TTCCTGCT-----------------GCT----GAAATTGCT------G--C------------------A-----TTTG-----------------------CTG----------------TTGCAGTTCCTGC---TGCTGTTGCTGCTGT--TGATTGGGTTGCTGATGTTG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ATATCTTAG-GATTG---TGCCT-----------------GCTGATCATCTGCAGT-------------------------------------------TGTAGTTGT---------------------TG------------TTGCTTCCG---------------------TTGCTGTT----------------------------------GC------------CTCTCGTTTTGTGTTG----------------TTGCTGGAACTGA---TGTTGCTGCTGCTGT--TGTTGCTGCTGCTGCTGTTG	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TTGCTGCTGTGCCGC---C---T-----------------GCTGATCATCGGCAGT-------------------------------------------TGCTGCTGC---------------------TG------------CGGCTACTA---------------------CTGTTGCT-------------------------------------G----C-----CTCACGT------TTC----------------GTGTTGCTAGTAC---TGCTGTTGCTGTTGC--TGCTAGTGCTGGTATTGCTG	Size	Hit Count	Total Norm	Total
No Reads

dm3

TTGCTGGC-----------CGCT-----------------GCTGC-----------TGCTGC----------------CGCCGCTGCAGCCGC---------------GTTCGCC---------TC--------------------CT------------------------CCTCTTGCTG--------TTGAGTGGCTTCACTCTTCTCCT--GACG-----------------------CTG----------------CTGCTGC---GCCTGCTGCTGCTGTTGCTGT--GTGTAGGCCTGCTGGTGTTG	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
.............................................................................................................................................................................................................CTTCTCCT--GACG-----------------------CTG----------------CTGC.................................................	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................C---------TC--------------------CT------------------------CCTCTTGCTG--------TTGAGT......................................................................................................................	21	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	0	0	0	0	0	0	0	1	0
..............................................................................................................................................................................................................TTCTCCT--GACG-----------------------CTG----------------CTGCTGC---...........................................	21	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	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
................................................................................................................................................................................TTGCTG--------TTGAGTGGCTTCACT.............................................................................................................	21	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	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
.......................................................................................................................................................................................................................................................................GCTGC---GCCTGCTGCTGCTG.............................	19	9	0.11	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	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
......................................................................................................................................................................................................................................................................TGCTGC---GCCTGCTGCTG................................	17	20	0.05	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	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
........................................GCTGC-----------TGCTGC----------------CGCCGCTG....................................................................................................................................................................................................................................	19	20	0.05	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	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

droSim2

TTGCATGTGCTCTATTTACTTTAGGATTGTTGTGTTGTCTGCTGATCGTC-GCGTT-------------------------------------------TCGCGTTGT---------------------TG------------TTGCTGCCG---------------------TTGTTGCT------G--C------------------C--GTTGCTG----C-------------------TG----------------CTGCTGCTTGTGT---TGCTGCTGC-----------TGTTGTTGCTCGTGTTG	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
........................GATTGTTGTGTTGTCTGCTGATCGT.........................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................TGCTGATCGTC-GCGTT-------------------------------------------TCGCGTTGT---------------------TG------------T..........................................................................................................................................................................	28	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0
.................................................C-GCGTT-------------------------------------------TCGCGTTGT---------------------TG------------TTGCT......................................................................................................................................................................	22	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................TGCTGCTTGTGT---TGCT.................................	16	3	0.33	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................TGTGT---TGCTGCTGC-----------TGTTT............	19	17	0.06	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

CGGCATTTGTTGCAC---CT-------------------------------------GCTGC----------------TGCTGGA----TTAC---------------CGCTGCT---------TG---TT--------------------------------TTGGA----CATGCTGCTG--------C------------------C-----GACG-----------------------CTA----------------GTGTTGCTGCTGC---TGCTGCTGCTGCTAC--TGCAGCTGCTGCTGCTGCTG	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

CTGCAATTGTTGCTG---CT-------------------------------------GTTGC----------------TGCTGCTGCAATTGT---------------TGCTGCT---------GC---TGCTGCAA---TTGTTGCT-----------------GCT----GTTGTTGCT------G--C------------------T-----GCAG-----------------------TTG----------------TTGCTGCTGGAAC---TGCTGTTGCTGCAGC--TGCTGGAGCTGTTGCTGCTG

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

No Reads

droEre2

CCATGTG-----------CTGTT-----------------GCTGC-----------TGCAGCGGA--------TTGCT----G---CCGT---------TGCTTCCGT---------------------TG------------CTGTGGTTGTTGCTGTTGTTTTGGGCAACCAGGTTGCC-------------------------------G--GCAGTTGTC-------------------T-------------------GTGGATGTGGA---TGTTGCTGCTGGTGG--CCGCGCATCGGCTGGTGCTG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

dpe_293

scaffold_77:103713-103751 +

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

-27.9	-27.8	-27.8