dsi_81

TTCTATAAGCTAACGAGCATTCATTAAAACTTCGTTTTTTCTAAAATTATATAAGTATGTTATTCTATTTTGTGTGTTTTACAAAATCTGTGTAACATGCTTAATATATTTTTTGAAAACTATCCCCCTACCACCGAAGTGTACAAATTAAAAAAA *********************************.(((((.((((.((((((((((((((((...((((((((.....))))))))....))))))))))).))))).)))).))))).**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O001 Testis	M024 male body	O002 Head	SRR618934 Ovary	M025 embryo	GSM343915 embryo	SRR553485 Ovary	SRR553488 Ovary	M023 head	M053 Female-body	SRR553487 Ovary
..................................................ATAAGTATGTTATTCTATTTTG....................................................................................	22	0	1	71.00	71	56	10	0	3	1	0	0	0	0	1	0
....................................................................................AATCTGTGTAACATGCTTAAT...................................................	21	0	1	61.00	61	53	4	2	0	1	0	0	0	1	0	0
....................................................................................AATCTGTGTAACATGCTTAATAT.................................................	23	0	1	43.00	43	39	1	2	1	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCTAT........................................................................................	18	0	1	38.00	38	36	0	1	1	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCTATTT......................................................................................	20	0	1	32.00	32	30	1	1	0	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCTATT.......................................................................................	19	0	1	31.00	31	29	0	0	0	0	0	0	2	0	0	0
.....................................................................................ATCTGTGTAACATGCTTAATAT.................................................	22	0	1	23.00	23	18	2	2	1	0	0	0	0	0	0	0
....................................................................................AATCTGTGTAACATGCTT......................................................	18	0	1	17.00	17	16	0	1	0	0	0	0	0	0	0	0
.....................................................................................ATCTGTGTAACATGCTTAATA..................................................	21	0	1	16.00	16	12	4	0	0	0	0	0	0	0	0	0
....................................................................................AATCTGTGTAACATGCTTAA....................................................	20	0	1	14.00	14	13	0	1	0	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCTATTT......................................................................................	21	0	1	13.00	13	12	0	0	0	0	0	0	0	0	0	1
...................................................................................AAATCTGTGTAACATGCTTAATAT.................................................	24	0	1	9.00	9	6	0	0	1	0	1	1	0	0	0	0
.....................................................................................ATCTGTGTAACATGCTTAAT...................................................	20	0	1	9.00	9	9	0	0	0	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCTATTTT.....................................................................................	21	0	1	8.00	8	8	0	0	0	0	0	0	0	0	0	0
.....................................................................................ATCTGTGTAACATGCTTAATATA................................................	23	0	1	8.00	8	5	1	1	0	0	0	1	0	0	0	0
....................................................................................AATCTGTGTAACATGCTTAATA..................................................	22	0	1	7.00	7	4	2	0	0	0	1	0	0	0	0	0
....................................................................................AATCTGTGTAACATGCTTA.....................................................	19	0	1	6.00	6	6	0	0	0	0	0	0	0	0	0	0
...................................................................................AAATCTGTGTAACATGCT.......................................................	18	0	1	6.00	6	6	0	0	0	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCTAT........................................................................................	19	0	1	6.00	6	6	0	0	0	0	0	0	0	0	0	0
.....................................................................................ATCTGTGTAACATGCTTAA....................................................	19	0	1	5.00	5	3	1	1	0	0	0	0	0	0	0	0
.....................................................................................ATCTGTGTAACATGCTTA.....................................................	18	0	1	4.00	4	4	0	0	0	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCTA.........................................................................................	18	0	1	4.00	4	4	0	0	0	0	0	0	0	0	0	0
......................................................................................TCTGTGTAACATGCTTAATAT.................................................	21	0	1	4.00	4	4	0	0	0	0	0	0	0	0	0	0
....................................................................................AATCTGTGTAACATGCTTAATATA................................................	24	0	1	3.00	3	3	0	0	0	0	0	0	0	0	0	0
......................................................................................TCTGTGTAACATGCTTAATA..................................................	20	0	1	3.00	3	3	0	0	0	0	0	0	0	0	0	0
...................................................................................AAATCTGTGTAACATGCTTAATA..................................................	23	0	1	3.00	3	2	1	0	0	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCTATT.......................................................................................	20	0	1	3.00	3	3	0	0	0	0	0	0	0	0	0	0
...................................................................................AAATCTGTGTAACATGCTTA.....................................................	20	0	1	2.00	2	2	0	0	0	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCT..........................................................................................	16	0	1	2.00	2	0	0	0	2	0	0	0	0	0	0	0
......................................................................................TCTGTGTAACATGCTTAA....................................................	18	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCTATTTT.....................................................................................	22	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
........................................................................................TGTGTAACATGCTTAATATA................................................	20	0	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0
...................................................................................AAATCTGTGTAACATGCTT......................................................	19	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCTATTTTGT...................................................................................	23	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
......................................................................................TCTGTGTAACATGCTTAAT...................................................	19	0	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................TAAGTGGACAAATTAAAAAAA	21	2	5	0.20	1	0	0	0	0	0	0	0	0	0	0	0
.......................................................TATGTTATTCTATTTA.....................................................................................	16	1	18	0.06	1	0	0	0	0	0	0	0	1	0	0	0
...............................................................TCTATTTTGTTGGTTTTAGA.........................................................................	20	3	20	0.05	1	0	0	0	0	0	0	1	0	0	0	0
................................................................................ACAAAGTTTGTGTAAGATG.........................................................	19	3	20	0.05	1	0	1	0	0	0	0	0	0	0	0	0

TTTTTTTAATTTGTACACTTCGGTGGTAGGGGGATAGTTTTCAAAAAATATATTAAGCATGTTACACAGATTTTGTAAAACACACAAAATAGAATAACATACTTATATAATTTTAGAAAAAACGAAGTTTTAATGAATGCTCGTTAGCTTATAGAA **********************************.(((((.((((.(((((.(((((((((((....((((((((.....))))))))...)))))))))))))))).)))).))))).*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
..........................TACGGGGAAAGTTTTAAAAAAATA..........................................................................................................	24	3	1	1.00	1
..............................................AATATATGAAGCATGTTA............................................................................................	18	1	3	0.33	1
.....................................................................................................................................AGAATGCTCGTTAGTTTTTAG..	21	3	4	0.25	1
..............................................................TACACAGATTTTCTAAAAA...........................................................................	19	2	20	0.05	1

Species	Coordinate	ID	Alignment
droSim3	2R:15133988-15134143 -	dsi_81	TTCTATAAGCTAACGAGCATTCATTAAAACTTCGTTTTTTCTAAAATTATATAAGTATGTTATTCT--ATTTTGTGTGTTTTACAAAATCTGTGTAACATGCTTAATATATTTTTTGAAAACTATCCCCCTACCACCGAAGTGTACAAAT-T--AAAAAAA
droSec2	scaffold_1:14026901-14027057 -	dse_234	TTCTATAAGCTAACGAGCATTCATTAAAACTTCGT-TTGTCTAAAATTATATAAGTATGTTATTCT--ATTTTGTGTGTTTTACAAAATCTGTGTAACATGCTTAATATATTTTTTGAAAACTATCAACCTACCACCGAAGTGTAGAAAT-TAAAAAAAAA
dm3	chr2R:16472566-16472690 -		---------------------------AACTTGGTTTTTTCTAAAATTATTTAGGTCCGTTTTGCAT-ATTTTAGGTGTTTTACAAAATCTGTGTAACATACTTAATATATTTTTAGAAAACTAACACC--------TAAGTGTACGGAATCAAAAAAAAA
droEre2	scaffold_4845:10618910-10619024 -	der_62	------------------------------------TTTTCCAGAAATATTTAAGTCTGTTATGCATAGTTTTGTGAGTTTGACAAAATCTGCACAACCGGCTTAATGTATTTTTAGAAAACGAGCACCTTA-------GTTGTAAAGAA-T--AAACTAA
droYak3	2R:12723891-12724014 +	dya_121	---------------------------AACTTTGATTTTTCTAGAAATATTTAAGTCTGTTCTGCTTAGATTTGTGAATTTGACAAAATCTGCACAGCCGGCTTAATGTATTTTTAGAAACTTAGCACCTTT-------TGTGTAAAGAA-A--AAACTAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

TTCTATAAGCTAACGAGCATTCATTAAAACTTCGTTTTTTCTAAAATTATATAAGTATGTTATTCT--ATTTTGTGTGTTTTACAAAATCTGTGTAACATGCTTAATATATTTTTTGAAAACTATCCCCCTACCACCGAAGTGTACAAAT-T--AAAAAAA	Size	Hit Count	Total Norm	Total	V044 Embryo	M023 Head	M024 Male-body	M025 Embryo	O001 Testis	O002 Head	M053 Female-body	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary
..................................................ATAAGTATGTTATTCT--ATTTTG.......................................................................................	22	1	71.00	71	0	0	10	1	56	0	1	0	0	0	0	3
......................................................................................AATCTGTGTAACATGCTTAAT......................................................	21	1	61.00	61	0	1	4	1	53	2	0	0	0	0	0	0
......................................................................................AATCTGTGTAACATGCTTAATAT....................................................	23	1	43.00	43	0	0	1	0	39	2	0	0	0	0	0	1
..................................................ATAAGTATGTTATTCT--AT...........................................................................................	18	1	38.00	38	0	0	0	0	36	1	0	0	0	0	0	1
..................................................ATAAGTATGTTATTCT--ATTT.........................................................................................	20	1	32.00	32	0	0	1	0	30	1	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCT--ATT..........................................................................................	19	1	31.00	31	0	0	0	0	29	0	0	0	0	0	2	0
.......................................................................................ATCTGTGTAACATGCTTAATAT....................................................	22	1	23.00	23	0	0	2	0	18	2	0	0	0	0	0	1
......................................................................................AATCTGTGTAACATGCTT.........................................................	18	1	17.00	17	0	0	0	0	16	1	0	0	0	0	0	0
.......................................................................................ATCTGTGTAACATGCTTAATA.....................................................	21	1	16.00	16	0	0	4	0	12	0	0	0	0	0	0	0
......................................................................................AATCTGTGTAACATGCTTAA.......................................................	20	1	14.00	14	0	0	0	0	13	1	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCT--ATTT.........................................................................................	21	1	13.00	13	0	0	0	0	12	0	0	0	0	1	0	0
.....................................................................................AAATCTGTGTAACATGCTTAATAT....................................................	24	1	9.00	9	1	0	0	0	6	0	0	1	0	0	0	1
.......................................................................................ATCTGTGTAACATGCTTAAT......................................................	20	1	9.00	9	0	0	0	0	9	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCT--ATTTT........................................................................................	21	1	8.00	8	0	0	0	0	8	0	0	0	0	0	0	0
.......................................................................................ATCTGTGTAACATGCTTAATATA...................................................	23	1	8.00	8	0	0	1	0	5	1	0	1	0	0	0	0
......................................................................................AATCTGTGTAACATGCTTAATA.....................................................	22	1	7.00	7	1	0	2	0	4	0	0	0	0	0	0	0
......................................................................................AATCTGTGTAACATGCTTA........................................................	19	1	6.00	6	0	0	0	0	6	0	0	0	0	0	0	0
.....................................................................................AAATCTGTGTAACATGCT..........................................................	18	1	6.00	6	0	0	0	0	6	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCT--AT...........................................................................................	19	1	6.00	6	0	0	0	0	6	0	0	0	0	0	0	0
.......................................................................................ATCTGTGTAACATGCTTAA.......................................................	19	1	5.00	5	0	0	1	0	3	1	0	0	0	0	0	0
.......................................................................................ATCTGTGTAACATGCTTA........................................................	18	1	4.00	4	0	0	0	0	4	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCT--A............................................................................................	18	1	4.00	4	0	0	0	0	4	0	0	0	0	0	0	0
........................................................................................TCTGTGTAACATGCTTAATAT....................................................	21	1	4.00	4	0	0	0	0	4	0	0	0	0	0	0	0
......................................................................................AATCTGTGTAACATGCTTAATATA...................................................	24	1	3.00	3	0	0	0	0	3	0	0	0	0	0	0	0
........................................................................................TCTGTGTAACATGCTTAATA.....................................................	20	1	3.00	3	0	0	0	0	3	0	0	0	0	0	0	0
.....................................................................................AAATCTGTGTAACATGCTTAATA.....................................................	23	1	3.00	3	0	0	1	0	2	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCT--ATT..........................................................................................	20	1	3.00	3	0	0	0	0	3	0	0	0	0	0	0	0
.....................................................................................AAATCTGTGTAACATGCTTA........................................................	20	1	2.00	2	0	0	0	0	2	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCT--.............................................................................................	16	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	2
........................................................................................TCTGTGTAACATGCTTAA.......................................................	18	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
.................................................TATAAGTATGTTATTCT--ATTTT........................................................................................	22	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
..........................................................................................TGTGTAACATGCTTAATATA...................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................................................AAATCTGTGTAACATGCTT.........................................................	19	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
..................................................ATAAGTATGTTATTCT--ATTTTGT......................................................................................	23	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
........................................................................................TCTGTGTAACATGCTTAAT......................................................	19	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0

droSec2

TTCTATAAGCTAACGAGCATTCATTAAAACTTCGT-TTGTCTAAAATTATATAAGTATGTTATTCT--ATTTTGTGTGTTTTACAAAATCTGTGTAACATGCTTAATATATTTTTTGAAAACTATCAACCTACCACCGAAGTGTAGAAAT-TAAAAAAAAA	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
.....................................................................................AAATCTGTGTAACATGCTTAAT......................................................	22	1	4.00	4	0	1	1	2
......................................................................................AATCTGTGTAACATGCTTAAT......................................................	21	1	4.00	4	1	0	2	1
..................................................ATAAGTATGTTATTCT--ATTTTG.......................................................................................	22	1	3.00	3	1	0	0	2
.....................................................................................AAATCTGTGTAACATGCTTAATA.....................................................	23	1	2.00	2	0	2	0	0
.......................................................................................ATCTGTGTAACATGCTTAATATA...................................................	23	1	2.00	2	1	0	0	1
......................................................................................AATCTGTGTAACATGCTTAATA.....................................................	22	1	1.00	1	1	0	0	0
..................................................ATAAGTATGTTATTCT--ATTTT........................................................................................	21	1	1.00	1	1	0	0	0
..................................................ATAAGTATGTTATTCT--ATTTTGT......................................................................................	23	1	1.00	1	1	0	0	0
...................................................TAAGTATGTTATTCT--ATTTTGT......................................................................................	22	1	1.00	1	1	0	0	0
...................................................TAAGTATGTTATTCT--ATTTTG.......................................................................................	21	1	1.00	1	0	1	0	0
.......................................................................................ATCTGTGTAACATGCTTAAT......................................................	20	1	1.00	1	1	0	0	0
.................................................TATAAGTATGTTATTCT--ATTT.........................................................................................	21	1	1.00	1	0	0	0	1
......................................................................................AATCTGTGTAACATGCTTAA.......................................................	20	1	1.00	1	1	0	0	0
.....................................................................................AAATCTGTGTAACATGCTTAATAT....................................................	24	1	1.00	1	0	1	0	0

droEre2

------------------------------------TTTTCCAGAAATATTTAAGTCTGTTATGCATAGTTTTGTGAGTTTGACAAAATCTGCACAACCGGCTTAATGTATTTTTAGAAAACGAGCACCTTA-------GTTGTAAAGAA-T--AAACTAA	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
......................................................................................AATCTGCACAACCGGCTTAATGT....................................................	23	1	309.00	309	2	2	262	36	7	0
......................................................................................AATCTGCACAACCGGCTTAAT......................................................	21	1	150.00	150	0	3	84	49	14	0
......................................................................................AATCTGCACAACCGGCTTAATG.....................................................	22	1	104.00	104	0	0	40	24	40	0
..................................................TTAAGTCTGTTATGCATAGTTT.........................................................................................	22	1	35.00	35	0	0	30	5	0	0
......................................................................................AATCTGCACAACCGGCTTAA.......................................................	20	1	28.00	28	0	0	21	6	1	0
..................................................TTAAGTCTGTTATGCATAGTT..........................................................................................	21	1	26.00	26	0	2	19	5	0	0
......................................................................................AATCTGCACAACCGGCTTA........................................................	19	1	17.00	17	0	0	11	5	1	0
..................................................TTAAGTCTGTTATGCATAGTTTT........................................................................................	23	1	16.00	16	0	2	10	2	2	0
..................................................TTAAGTCTGTTATGCATAGT...........................................................................................	20	1	10.00	10	0	1	8	0	1	0
..................................................TTAAGTCTGTTATGCATAGTTTTG.......................................................................................	24	1	6.00	6	0	0	2	3	1	0
.......................................................................................ATCTGCACAACCGGCTTAAT......................................................	20	1	3.00	3	0	0	0	0	3	0
...................................................TAAGTCTGTTATGCATAGTTTTG.......................................................................................	23	1	3.00	3	0	0	3	0	0	0
......................................................................................AATCTGCACAACCGGCTTAATGTA...................................................	24	1	3.00	3	0	0	1	1	1	0
.......................................................................................ATCTGCACAACCGGCTTAATG.....................................................	21	1	2.00	2	0	0	0	0	2	0
........................................................................................TCTGCACAACCGGCTTAATGT....................................................	21	1	2.00	2	0	0	2	0	0	0
...................................................TAAGTCTGTTATGCATAGTTTTGTGA....................................................................................	26	1	1.00	1	0	0	0	1	0	0
...................................................TAAGTCTGTTATGCATAGTTT.........................................................................................	21	1	1.00	1	0	0	0	0	1	0
........................................................................................TCTGCACAACCGGCTTAATG.....................................................	20	1	1.00	1	0	0	0	0	1	0
..................................................TTAAGTCTGTTATGCATAGTTTTGTG.....................................................................................	26	1	1.00	1	0	0	1	0	0	0
.....................................................................................AAATCTGCACAACCGGCTTAAT......................................................	22	1	1.00	1	0	0	1	0	0	0
..............................................................................TTTGACAAAATCTGCACAACCGGCT..........................................................	25	1	1.00	1	0	0	1	0	0	0
.........................................................................................CTGCACAACCGGCTTAATGT....................................................	20	1	1.00	1	0	0	1	0	0	0
..................................................TTAAGTCTGTTATGCATA.............................................................................................	18	2	0.50	1	0	0	0	1	0	0

droYak3

---------------------------AACTTTGATTTTTCTAGAAATATTTAAGTCTGTTCTGCTTAGATTTGTGAATTTGACAAAATCTGCACAGCCGGCTTAATGTATTTTTAGAAACTTAGCACCTTT-------TGTGTAAAGAA-A--AAACTAA	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
..................................................TTAAGTCTGTTCTGCTTAGATT.........................................................................................	22	1	94.00	94	0	0	3	0	53	7	31
......................................................................................AATCTGCACAGCCGGCTTAATG.....................................................	22	1	29.00	29	0	0	8	0	6	2	13
......................................................................................AATCTGCACAGCCGGCTTAAT......................................................	21	1	25.00	25	1	0	16	1	0	4	3
......................................................................................AATCTGCACAGCCGGCTTAATGT....................................................	23	1	19.00	19	1	0	7	1	0	1	9
..................................................TTAAGTCTGTTCTGCTTAGA...........................................................................................	20	1	15.00	15	0	0	3	0	8	1	3
..................................................TTAAGTCTGTTCTGCTTAGATTT........................................................................................	23	1	11.00	11	0	0	0	0	2	5	4
.......................................................................................ATCTGCACAGCCGGCTTAATGT....................................................	22	1	11.00	11	0	0	9	0	0	0	2
..................................................TTAAGTCTGTTCTGCTTAGAT..........................................................................................	21	1	10.00	10	0	0	2	0	3	3	2
.......................................................................................ATCTGCACAGCCGGCTTAATG.....................................................	21	1	6.00	6	1	0	1	0	2	2	0
.......................................................................................ATCTGCACAGCCGGCTTAAT......................................................	20	1	3.00	3	0	0	1	0	1	1	0
......................................................................................AATCTGCACAGCCGGCTTA........................................................	19	1	2.00	2	0	0	1	0	0	1	0
...................................................TAAGTCTGTTCTGCTTAGAT..........................................................................................	20	1	1.00	1	0	0	0	0	0	1	0
........................................................................................TCTGCACAGCCGGCTTAATG.....................................................	20	1	1.00	1	0	0	0	0	1	0	0

dsi_81

2R:15134038-15134093 -

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

-24.2	-23.8	-23.8