dsi_263

############################################################################################################################################################################### AAACTCCTATAAAACAGGAACCAGTAGCACCTTCATCTCCCCGAACTACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACAGTAAAGAGAATGAGGCGGGGGCAAAACAAATATGATCATTCCCCGCCAGCGCCAGTTCCTACGCC *********************************..((((((.....(((((((((..((((...((((((((..((...............))..)).))).))).))))...))))))))).)))))).........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O001 Testis	O002 Head	SRR553485 Ovary	SRR553486 Ovary
..................................................CGTTCTCAAGCTGCCACTC..........................................................................................................	19	0	3	4.00	12	9	3	0	0
..................................................CGTTCTCAAGCTGCCACTCCT........................................................................................................	21	0	1	2.00	2	2	0	0	0
...................................................GTTCTCAAGCTGCCACTCCT........................................................................................................	20	0	1	1.00	1	1	0	0	0
.............................................................TGCCACTCCTGTTGAGGAACTTCGA.........................................................................................	25	0	1	1.00	1	0	0	1	0
...................................................................TCCTGTTGAGGAACTTCGATTTGCCAC.................................................................................	27	0	1	1.00	1	0	0	0	1
..................................................CGTTCTCAAGCTGCCACTCC.........................................................................................................	20	0	1	1.00	1	1	0	0	0
...........................................................GCTGCCAAACCTGTTGAG..................................................................................................	18	2	5	0.20	1	0	0	0	0
................................................................CACTCCTGTTGAGGG................................................................................................	15	1	7	0.14	1	0	0	0	0
...........................................................GCTGCCAAACCTGTTGAGTA................................................................................................	20	3	11	0.09	1	0	0	0	0
...........................................AACGACTCGTCGTCAAGCT.................................................................................................................	19	3	19	0.05	1	0	0	0	0
..........................................................................GAGGATCTTCGATTT......................................................................................	15	1	20	0.05	1	0	0	1	0

############################################################################################################################################################################### GGCGTAGGAACTGGCGCTGGCGGGGAATGATCATATTTGTTTTGCCCCCGCCTCATTCTCTTTACTGTCTCGCTAATCTCGGTGGCAAATCGAAGTTCCTCAACAGGAGTGGCAGCTTGAGAACGAGTAGTTCGGGGAGATGAAGGTGCTACTGGTTCCTGTTTTATAGGAGTTT *********************************.........((((((.(((((((((...((((.(((.(((.((..((...............))..))))))))...))))..))))))))).....))))))..*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR618934 Ovary
......AGAACTGGCGCTGGCG.........................................................................................................................................................	16	1	1	3.00	3	3
.......GAACTGGCGCTGGCG.........................................................................................................................................................	15	0	1	1.00	1	1
...........................................................................................................................CGAGTAGGTCGGGGC.....................................	15	2	20	0.65	13	0
...........................................................................................GAACTTCCTCAACATGAGT.................................................................	19	2	2	0.50	1	1
...GTAAGAACTGGCGCTG............................................................................................................................................................	16	1	3	0.33	1	0
...................................................................TCTCGCTAAACTCGGT............................................................................................	16	1	5	0.20	1	1
.....................................................................................................................TGAAATCGAGTAGGTCGGGG......................................	20	3	6	0.17	1	0
.................TGGCGGGGAGTGATC...............................................................................................................................................	15	1	7	0.14	1	1
..................................................................................................................................TGCGGGGAGATGAAGATG...........................	18	2	11	0.09	1	1
......AGAACTGGCGCTGGC..........................................................................................................................................................	15	1	16	0.06	1	1
.....................................................................................................................TGAAAACGAGTAGGACGGG.......................................	19	3	18	0.06	1	0
........................................................................................................................................................TGATTCCAGTTTTATAGG.....	18	2	20	0.05	1	0
.......................................................TTCTGTTTACTGTGTCGTTA....................................................................................................	20	3	20	0.05	1	1
......................................................................TGCTAATCTCGGTGG..........................................................................................	15	1	20	0.05	1	0

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	2L:16053681-16053855 -	dsi_263	AAACTCCT---------------------ATAAAACAGGAACCAGT------------------A---GC---ACCTTCATCTCCCCGAAC---------TACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACAGTAAAGAGAATGAGGCGGGGGCAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC
droSec2	scaffold_5:5069786-5069960 -		AAACTCCT---------------------ATAAAACAGGAACCAGT------------------A---GC---ACCTTCATCTCCCCGAAC---------TACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAAATTAGCGAGACAGTAAAGAGAATGAGGCGGGGGCAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC
dm3	chr2L:16346041-16346215 -		AAACTCCG---------------------ATAAAACAGGAACCAGT------------------A---GC---ACCTTCATCGCCCCGAAC---------GACTCGTTCTCAAGCTGCGACTCCTGTTGAGGAACTACGATTTGCCACCGAGATTAGCGAGACAGTAAAGAGAATGAGGCGGGGGCAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACCCC
droEre2	scaffold_4845:19411553-19411727 -		AAACTCCT---------------------ATAAAACAGGAACCAGC------------------A---GC---ACCTTCATCGCCCCGAAC---------TACTCGTTCTCAAGCAGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACGGTAAAGAGAATGAGGCGGGGACAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC
droYak3	2R:2800467-2800641 -		AAACTCCT---------------------ATAAAACAGGAGCCAGT------------------A---GT---ACCGTCATCTCCCCGAAC---------TACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTGCGATTTGCCACCGAGATTAGCGAGACGGTAAAAAGAATGAGGCGGGGACAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC
droEug1	scf7180000404992:85025-85199 +		AAACTCCA---------------------ATAAAACAGGAACCAGT------------------G---GC---ACCTTCATCGCCACGAAC---------TACTCGTTCCCAAGCTGCCACTCCTGTCGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACTGTGAAGAGAATGAGACGTGGACAGAACAAATATGATCA------TTCTCCACCAGCCCCAGCT------------------------------------CCGAATCC
droBia1	scf7180000301468:451294-451474 -		AAACTCCT---------------------ATGAAACAGGAACCCAT------------------A---GC---ACCTTCATCCCCTAGGAC---------AACTCGTTCGCAGGCTGCCACGCCAGTCGAGGAGCTTCGATTTGCCACCGAGATAAGCGAGACGGTGAAGAGGATGAGGCGTGGGCAGAACAAATACGATCA------CTCTCCGCCCGCACCCGCGC---------C---AAA-----------------T-CCCACGCC
droTak1	scf7180000415912:11788-11977 +		AGACTCCC---------------------ATGAAACAGGAACCCAT------------------TGTTGC---ACCCTCATCGCCCAGAAC---------AACTCGTTCGCAAGCTGCCACTCCAGTGGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACGGTGAAGAGGATGAGGCGTGGGCAAAACAAATACGATCA------TTCTCCACCTGCACCGGCGCAAAATC---C---AAA-----------------T-CCCACGCC
droEle1	scf7180000490579:1024077-1024257 +		AAACGCCT---------------------ATGAAACAGGAACCCGT------------------A---GC---ACCTCCATCGCCGCGAAC---------TACTCGTTCCCAAGCTGCGACTCCTATCGAGGAACTTCGCTTTGCCACAGAGATTAGCGAGACGGTCAAGAGGATGAGGCGTGGGCAGAACAAATACGATCA------TTCCCCGCCAGCACCAGCGC---------C---AAA-----------------T-CCCACACC
droRho1	scf7180000779449:111079-111259 +		AAACCCCT---------------------GTGAAACAGGAATCCGT------------------A---GC---ACCTTCATCGCCGCGAAC---------TACTCGTTCCCAAGCTGCCACTCCTGTCGAGGAACTTAGATTCGCCACAGAGATAAGCGAGACGGTCAAGAGGATGAGGCGTGGTCAGAACAAATACGATCA------TTCCCCGCCAGCACCAGCCC---------C---AAA-----------------T-CCCCCGCC
droFic1	scf7180000454078:276954-277134 -		AAACTCCT---------------------GTGAAGCAGGAACCAAT------------------T---GC---ACCTTCATCGCCTCGAAC---------AACTCGTTCCCAAGCTGCCACTCCTGTCGAAGAAATTCGATTTGCCACCGAGATTAGTGAGACGGTTAAGAGAATGAGGCGTGGACAGAACAAATACGATCA------TTCCCCGCCAGCACCAGCGC---------C---GAA-----------------T-CCCACGCC
droKik1	scf7180000302382:112155-112350 -		AAACCCCG---------------------CTGAAACAGGAACCCGT------------------AGTAGC---GCCTTCATCTCCTCGAAC---------GACCCGTTCACAAGCTGCCACACCGGTCGAGGAGCTACGCTTTGCCACCGAGATAAGTGAGACTGTCAAAAGAATGAGGCGAGGCCAAAATAAATACGATCA------TTCCCCGCCAGCGCCAGCTTCAGCTTCAGCGGTAAA-----------------T-CCCGTGCC
droAna3	scaffold_12943:5013111-5013282 -		AGACGCCC---------------------CTGAAGCAGGAGCCCGT------------------GGTGGC---GCCAGCATCGCCGCGAAC---------CACCCGGTCCCAGGCCGCCACTCCCGTGGAGGAACTGCGCTTTGCCACCGAAATCAGCGAGACTGTGAAGCGGATGCGGCGTGGCCAGAACAAGTACGATCA------TTCCCCGCCAGCTCCCGT------------------------------------------GCC
droBip1	scf7180000395654:28477-28654 +		AGACGCCC---------------------TTGAAACAGGAGCCCGT------------------GGTGAC---GCCCGCATCGCCGAGAAC---------CACTCGGTCCCAGGCCGCCACACCAGTGGAGGAGCTGCGTTTTGCCACCGAAATCAGCGAGACTGTGAAGCGAATGCGCCGCGGCCAAAACAAGTACGATCA------TTCCCCGCCAGCTCCAGT-----------------------------------T-CCAGCGAC
dp5	4_group3:8047608-8047815 -		AGACGCCT---------------------CTAAAGCAGGAGCAGGT------------------ACAGGC---ACCCGCCTCACCGAGGAA---------CACACGCTCCCAGGCGGCCACACCCGTCGAGGAGCTGCGGTTTGCCACCGAAATCAGTGAGACTGTGAAACGCATGCGGCGTGGACAGAACAAATACGATCA------TTCCCCACCTGCCCCGGCACCAGTTG------TAGTTCCAGTCCAGCCTGAACCGGCAGCAGC
droPer2	scaffold_1:9497067-9497274 -		AGACGCCT---------------------TTAAAGCAGGAGCAGGT------------------ACAGGC---ACCCGCCTCACCGAGGAA---------CACACGCTCCCAGGCGGCCACACCCGTCGAGGAGCTGCGGTTTGCCACTGAAATCAGTGAGACTGTGAAACGCATGCGGCGTGGACAGAACAAATACGATCA------TTCCCCACCTGCCCCGGCACCAGTTG------TAGTTCCAGTCCAGCCTGAACCGGCAGCAGC
droWil2	scf2_1100000004585:4449035-4449239 -		AGACTCCTCCTCCACGTGGATCAGTATCCGTTAAAAAGGAACCCGATATAGTAGAT------GTCGT---GGTGGCCTCCAGTCCGCGTAC---------TACTCGCTCTCAGGCAGCCACACCCATTGAAGAGTTGCGTTTTGCAACCGAAATTAGTGAGACGGTCAAACGTATGAGACGTGGACAAAACAAATATGATCA------TTCCCCGCCAGCTCCAGCA------------------------------------------CC
droVir3	scaffold_12963:13150177-13150372 +		AGATGCCA---------------------TTGAAGCAGGAGCCAGTTGCGTCAGTTACGACAGTTGC---GTCGACTTTAACTTCTCACAA---------CACGCGTTCACAAGCTGCCACGCCAGTGGAGGAACTGCGCTTCGCCACCGAAATAAGCGAGACTGTAAAACGTATGCGACGTGGACAAAACAAGTATGATAC------TTTGCCACCTACTCCATCA------------------------------------TCAGCGCC
droMoj3	scaffold_6500:6957370-6957552 -		AAATGCCA---------------------CTGAAGCAGGAGACAGC------------------T---GTACTGAGTTCGAATTCCCATAA---------CACACGTTCACAAGCTGCCACGCCTGTAGAGGAACTGCGTTTTGCCACCGAAATAAGTGAGAACGTAAAACGCATGCGACGTGGACAGAACAAGTATGATACCTTGCCTTCAACGCCAGCATTAGT-----------------------------------A-GCGGCA-C
droGri2	scaffold_14978:549572-549764 -		GCAAGTTG---------------------ACCAAGCGGGAGCCGGA------------------AACCGA---ACCGGAACCGTTGCCAACTGTTGCCAAGACGCGCTCGCAAGCGGCGACACCTGTCGAGGAGCTACGTTTCGCCACGGAGATCAGTGAGACTGTGAAGCGAATGCGTCGTGGCCAAAACAAGTACGACTC------GGTCCAAGGTGGCCCAGCCT---------T---AAT-----------------C-CAGCAGCC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

AAACTCCT---------------------ATAAAACAGGAACCAGT------------------A---GC---ACCTTCATCTCCCCGAAC---------TACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACAGTAAAGAGAATGAGGCGGGGGCAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC	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
........................................................................................................CGTTCTCAAGCTGCCACTC....................................................................................................................................................	19	3	4.00	12	0	0	0	0	9	3	0	0	0	0	0	0
........................................................................................................CGTTCTCAAGCTGCCACTCCT..................................................................................................................................................	21	1	2.00	2	0	0	0	0	2	0	0	0	0	0	0	0
.........................................................................................................GTTCTCAAGCTGCCACTCCT..................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
...................................................................................................................TGCCACTCCTGTTGAGGAACTTCGA...................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0
.........................................................................................................................TCCTGTTGAGGAACTTCGATTTGCCAC...........................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	1	0	0	0
........................................................................................................CGTTCTCAAGCTGCCACTCC...................................................................................................................................................	20	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0

droSec2

AAACTCCT---------------------ATAAAACAGGAACCAGT------------------A---GC---ACCTTCATCTCCCCGAAC---------TACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAAATTAGCGAGACAGTAAAGAGAATGAGGCGGGGGCAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
........................................................................................................................................................ATTAGCGAGACAGTAAAGAGA..................................................................................................	21	1	2.00	2	1	1	0	0
............................................GT------------------A---GC---ACCTTCATCTCCCCGA......................................................................................................................................................................................	21	1	1.00	1	0	1	0	0

droEre2

AAACTCCT---------------------ATAAAACAGGAACCAGC------------------A---GC---ACCTTCATCGCCCCGAAC---------TACTCGTTCTCAAGCAGCCACTCCTGTTGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACGGTAAAGAGAATGAGGCGGGGACAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
..............................TAAAACAGGAACCAGC------------------A---GC---ACCTTC................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	1	0
........................................................................................................................................................ATTAGCGAGACGGTAAAGAGA..................................................................................................	21	1	1.00	1	0	0	0	0	1	0
.........................................................................................................GTTCTCAAGCAGCCACTCCT..................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
.....................................................................................................................................................GAGATTAGCGAGACGGTAAAGA....................................................................................................	22	1	1.00	1	1	0	0	0	0	0

droYak3

AAACTCCT---------------------ATAAAACAGGAGCCAGT------------------A---GT---ACCGTCATCTCCCCGAAC---------TACTCGTTCTCAAGCTGCCACTCCTGTTGAGGAACTGCGATTTGCCACCGAGATTAGCGAGACGGTAAAAAGAATGAGGCGGGGACAAAACAAATATGATCA------TTCCCCGCCAGCGCCAGT-----------------------------------T-CCTACGCC	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
............................................................................................................CTCAAGCTGCCACTCCTGTTGAGG...........................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1	0
...................................................................................................................................................................GGTAAAAAGAATGAGGCGGG........................................................................................	20	1	1.00	1	0	0	1	0	0	0	0
.................................................................................................................GCTGCCACTCCTGTTGAGG...........................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0
...........................................................................................................................................................................................AAACAAATATGATCA------TTCCC..........................................................	20	1	1.00	1	1	0	0	0	0	0	0

droEug1

AAACTCCA---------------------ATAAAACAGGAACCAGT------------------G---GC---ACCTTCATCGCCACGAAC---------TACTCGTTCCCAAGCTGCCACTCCTGTCGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACTGTGAAGAGAATGAGACGTGGACAGAACAAATATGATCA------TTCTCCACCAGCCCCAGCT------------------------------------CCGAATCC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AAACTCCT---------------------ATGAAACAGGAACCCAT------------------A---GC---ACCTTCATCCCCTAGGAC---------AACTCGTTCGCAGGCTGCCACGCCAGTCGAGGAGCTTCGATTTGCCACCGAGATAAGCGAGACGGTGAAGAGGATGAGGCGTGGGCAGAACAAATACGATCA------CTCTCCGCCCGCACCCGCGC---------C---AAA-----------------T-CCCACGCC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AGACTCCC---------------------ATGAAACAGGAACCCAT------------------TGTTGC---ACCCTCATCGCCCAGAAC---------AACTCGTTCGCAAGCTGCCACTCCAGTGGAGGAACTTCGATTTGCCACCGAGATTAGCGAGACGGTGAAGAGGATGAGGCGTGGGCAAAACAAATACGATCA------TTCTCCACCTGCACCGGCGCAAAATC---C---AAA-----------------T-CCCACGCC	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AAACGCCT---------------------ATGAAACAGGAACCCGT------------------A---GC---ACCTCCATCGCCGCGAAC---------TACTCGTTCCCAAGCTGCGACTCCTATCGAGGAACTTCGCTTTGCCACAGAGATTAGCGAGACGGTCAAGAGGATGAGGCGTGGGCAGAACAAATACGATCA------TTCCCCGCCAGCACCAGCGC---------C---AAA-----------------T-CCCACACC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AAACCCCT---------------------GTGAAACAGGAATCCGT------------------A---GC---ACCTTCATCGCCGCGAAC---------TACTCGTTCCCAAGCTGCCACTCCTGTCGAGGAACTTAGATTCGCCACAGAGATAAGCGAGACGGTCAAGAGGATGAGGCGTGGTCAGAACAAATACGATCA------TTCCCCGCCAGCACCAGCCC---------C---AAA-----------------T-CCCCCGCC	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AAACTCCT---------------------GTGAAGCAGGAACCAAT------------------T---GC---ACCTTCATCGCCTCGAAC---------AACTCGTTCCCAAGCTGCCACTCCTGTCGAAGAAATTCGATTTGCCACCGAGATTAGTGAGACGGTTAAGAGAATGAGGCGTGGACAGAACAAATACGATCA------TTCCCCGCCAGCACCAGCGC---------C---GAA-----------------T-CCCACGCC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AAACCCCG---------------------CTGAAACAGGAACCCGT------------------AGTAGC---GCCTTCATCTCCTCGAAC---------GACCCGTTCACAAGCTGCCACACCGGTCGAGGAGCTACGCTTTGCCACCGAGATAAGTGAGACTGTCAAAAGAATGAGGCGAGGCCAAAATAAATACGATCA------TTCCCCGCCAGCGCCAGCTTCAGCTTCAGCGGTAAA-----------------T-CCCGTGCC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

AGACGCCC---------------------CTGAAGCAGGAGCCCGT------------------GGTGGC---GCCAGCATCGCCGCGAAC---------CACCCGGTCCCAGGCCGCCACTCCCGTGGAGGAACTGCGCTTTGCCACCGAAATCAGCGAGACTGTGAAGCGGATGCGGCGTGGCCAGAACAAGTACGATCA------TTCCCCGCCAGCTCCCGT------------------------------------------GCC	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
............................................................................................................................................................................GATGCGGCGTGGCCAGAAC................................................................................	19	1	1.00	1	0	0	0	0	0	1
........................................................................................................................................................ATCAGCGAGACTGTGAAGC....................................................................................................	19	1	1.00	1	0	0	0	0	0	1
.....................................GGAGCCCGT------------------GGTGGC---GCCAGCATCGCCGC........................................................................................................................................................................................	29	1	1.00	1	0	0	0	0	0	1
............................................................................................................................................................GCGAGACTGTGAAGCGGATGCGGCGT.........................................................................................	26	1	1.00	1	1	0	0	0	0	0
..........................................................................................................................................................CAGCGAGACTGTGAAGCGGATGCGGC...........................................................................................	26	1	1.00	1	0	0	0	0	0	1

droBip1

AGACGCCC---------------------TTGAAACAGGAGCCCGT------------------GGTGAC---GCCCGCATCGCCGAGAAC---------CACTCGGTCCCAGGCCGCCACACCAGTGGAGGAGCTGCGTTTTGCCACCGAAATCAGCGAGACTGTGAAGCGAATGCGCCGCGGCCAAAACAAGTACGATCA------TTCCCCGCCAGCTCCAGT-----------------------------------T-CCAGCGAC	Size	Hit Count	Total Norm	Total
No Reads

dp5

AGACGCCT---------------------CTAAAGCAGGAGCAGGT------------------ACAGGC---ACCCGCCTCACCGAGGAA---------CACACGCTCCCAGGCGGCCACACCCGTCGAGGAGCTGCGGTTTGCCACCGAAATCAGTGAGACTGTGAAACGCATGCGGCGTGGACAGAACAAATACGATCA------TTCCCCACCTGCCCCGGCACCAGTTG------TAGTTCCAGTCCAGCCTGAACCGGCAGCAGC	Size	Hit Count	Total Norm	Total	V112 Male-body	V043 Embryo	V051 Head	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head
.............................................................................................................................................................................ATGCGGCGTGGACAGAACA...............................................................................	19	1	1.00	1	0	1	0	0	0	0	0
.................................................................................................................................................CACCGAAATCAGTGAGACTGT.........................................................................................................	21	1	1.00	1	0	0	0	0	0	1	0
.....................................................................................GAGGAA---------CACACGCTCCCAGGCGGCC........................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	1	0

droPer2

AGACGCCT---------------------TTAAAGCAGGAGCAGGT------------------ACAGGC---ACCCGCCTCACCGAGGAA---------CACACGCTCCCAGGCGGCCACACCCGTCGAGGAGCTGCGGTTTGCCACTGAAATCAGTGAGACTGTGAAACGCATGCGGCGTGGACAGAACAAATACGATCA------TTCCCCACCTGCCCCGGCACCAGTTG------TAGTTCCAGTCCAGCCTGAACCGGCAGCAGC	Size	Hit Count	Total Norm	Total	V111 Male-body	V042 Embryo	V050 Head	V057 Head	M021 Embryo	M042 Female-body
....................................................................................................................GCCACACCCGTCGAGGAG.........................................................................................................................................	18	1	1.00	1	0	0	0	0	0	1
..............................................................................................................................................................................TGCGGCGTGGACAGAACA...............................................................................	18	1	1.00	1	0	0	0	1	0	0

droWil2

AGACTCCTCCTCCACGTGGATCAGTATCCGTTAAAAAGGAACCCGATATAGTAGAT------GTCGT---GGTGGCCTCCAGTCCGCGTAC---------TACTCGCTCTCAGGCAGCCACACCCATTGAAGAGTTGCGTTTTGCAACCGAAATTAGTGAGACGGTCAAACGTATGAGACGTGGACAAAACAAATATGATCA------TTCCCCGCCAGCTCCAGCA------------------------------------------CC	Size	Hit Count	Total Norm	Total	V117 Male-body	V118 Embryo	V119 Head	M020 Head	M045 Female-body
......................................................................................................................CACACCCATTGAAGAGTTGC.....................................................................................................................................	20	1	2.00	2	1	1	0	0	0
......................................................................................................................CACACCCATTGAAGAGTTG......................................................................................................................................	19	1	1.00	1	0	1	0	0	0
...................................................................................................................AGCCACACCCATTGAAGAGTTGC.....................................................................................................................................	23	1	1.00	1	1	0	0	0	0
.................................................................................................................................................AACCGAAATTAGTGAGACG...........................................................................................................	19	1	1.00	1	0	1	0	0	0
...................................................................................................................................................................GGTCAAACGTATGAGACGTGGA......................................................................................	22	1	1.00	1	0	1	0	0	0
..................................................................................................................................................ACCGAAATTAGTGAGACGGT.........................................................................................................	20	1	1.00	1	1	0	0	0	0
...................................................................................................................................................................GGTCAAACGTATGAGACGTG........................................................................................	20	1	1.00	1	1	0	0	0	0
...............................................ATAGTAGAT------GTCGT---GGTGGCCT.................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0

droVir3

AGATGCCA---------------------TTGAAGCAGGAGCCAGTTGCGTCAGTTACGACAGTTGC---GTCGACTTTAACTTCTCACAA---------CACGCGTTCACAAGCTGCCACGCCAGTGGAGGAACTGCGCTTCGCCACCGAAATAAGCGAGACTGTAAAACGTATGCGACGTGGACAAAACAAGTATGATAC------TTTGCCACCTACTCCATCA------------------------------------TCAGCGCC	Size	Hit Count	Total Norm	Total	V116 Male-body	V053 Head	V047 Embryo	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
............................................................................................................................AGTGGAGGAACTGCGCTTCGCCAC...........................................................................................................................	24	1	2.00	2	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................GTGGAGGAACTGCGCTTC................................................................................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.......A---------------------TTGAAGCAGGAGCCAGTTGC..............................................................................................................................................................................................................................	21	1	1.00	1	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
.................................................................................................................................................................................GACGTGGACAAAACAAGT............................................................................	18	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0
...................................................................................................................TGCCACGCCAGTGGAGGAACTGCG....................................................................................................................................	24	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	1	0	0	0	0	0	0	0
............................................................................................................................AGTGGAGGAACTGCGCTTCGCC.............................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................ACTGCGCTTCGCCACCGAA.......................................................................................................................	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................................................................................................................................GAAATAAGCGAGACTGTAAA......................................................................................................	20	1	1.00	1	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
.........................................................................................................................................................TAAGCGAGACTGTAAAACG...................................................................................................	19	1	1.00	1	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
..............................................................................................................................................CGCCACCGAAATAAGCGAGACT...........................................................................................................	22	1	1.00	1	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
..............................................................................................................................................................GAGACTGTAAAACGTATGCGACGT.........................................................................................	24	1	1.00	1	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
.........................................................................................................................................................................................CAAAACAAGTATGATAC------TTTGCCACCT.....................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
AGATGCCA---------------------TTGAAGCAGGAGC.....................................................................................................................................................................................................................................	21	1	1.00	1	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
................................................................TGC---GTCGACTTTAACTTCTCACAA---------CAC........................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0
........................................................................................................................................................................................................AC------TTTGCCACCTACTCCA...............................................	18	1	1.00	1	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

droMoj3

AAATGCCA---------------------CTGAAGCAGGAGACAGC------------------T---GTACTGAGTTCGAATTCCCATAA---------CACACGTTCACAAGCTGCCACGCCTGTAGAGGAACTGCGTTTTGCCACCGAAATAAGTGAGAACGTAAAACGCATGCGACGTGGACAGAACAAGTATGATACCTTGCCTTCAACGCCAGCATTAGT-----------------------------------A-GCGGCA-C	Size	Hit Count	Total Norm	Total	V110 Male-body	V056 Head	V049 Head	V041 Embryo	M046 Female-body	M060 Embryo
............................................................................................................................................TTTGCCACCGAAATAAGTGAGAACGT.........................................................................................................	26	1	1.00	1	0	0	0	0	1	0
................................................................................................................................................................GAACGTAAAACGCATGCGACGTG........................................................................................	23	1	1.00	1	0	0	0	0	1	0

droGri2

GCAAGTTG---------------------ACCAAGCGGGAGCCGGA------------------AACCGA---ACCGGAACCGTTGCCAACTGTTGCCAAGACGCGCTCGCAAGCGGCGACACCTGTCGAGGAGCTACGTTTCGCCACGGAGATCAGTGAGACTGTGAAGCGAATGCGTCGTGGCCAAAACAAGTACGACTC------GGTCCAAGGTGGCCCAGCCT---------T---AAT-----------------C-CAGCAGCC	Size	Hit Count	Total Norm	Total	V109 Male-body	M041 Female-body
No Reads

dsi_263

2L:16053731-16053805 -

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

-29.5	-29.1	-29.1