dsi_214

CCAGGACGATGGAGTGTCCTGGCCAGACAGCCCGTCTCCAGGCGGAGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGCGGCGGAGTATCCTCGACAGCCAATCCATCCCGATCCTTCCTTTCGCGACTCTCGAATCGCGACTCTTCGCGT *********************************((((....))))....((((.((..((((.((((.((((........)))).)))))))).)).))))...................**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M025 embryo	M023 head	O002 Head	SRR553487 Ovary
.....................................................................................CGGCGGAGTATCCTCGACAGCC...................................................	22	0	1	20.00	20	13	7	0	0
.....................................................................................CGGCGGAGTATCCTCGACAGC....................................................	21	0	1	7.00	7	4	3	0	0
.....................................................................................CGGCGGAGTATCCTCGAC.......................................................	18	0	1	4.00	4	1	3	0	0
.....................................................................................CGGCGGAGTATCCTCGACAGA....................................................	21	1	1	2.00	2	0	2	0	0
.....................................................................................CGGCGGAGTATCCTCGACAG.....................................................	20	0	1	2.00	2	0	2	0	0
.....................................................................................CGGCGGAGTATCCTCGACAGCCA..................................................	23	0	1	2.00	2	1	0	0	1
............................................................................................................................CCTTTCGCGACTCTCGAA................	18	0	1	2.00	2	0	2	0	0
.....................................................................................CGGCGGAGTATCCTCGACA......................................................	19	0	1	1.00	1	0	0	1	0
.....................................................................................CGGCGGAGTATCCTCGACAGAC...................................................	22	1	1	1.00	1	0	1	0	0
.....................................................................................CGGCGGAGTATCCTCGACT......................................................	19	1	1	1.00	1	0	1	0	0
...............................................................................................................................TTCGCGACTCTCGAATCG.............	18	0	1	1.00	1	0	1	0	0
..................................................AGTTGCGGTTTGCTATCGCG........................................................................................	20	0	1	1.00	1	0	0	1	0
.....................................................................................CGGCGGAGTATCCTCGACAGT....................................................	21	1	1	1.00	1	0	1	0	0
........................................GGTGGAGTTCCGTAGCGGT...................................................................................................	19	3	10	0.20	2	0	0	0	2
...............................CCGTCTCCGGGCGGA................................................................................................................	15	1	8	0.13	1	0	0	0	0
..............................GCCCTCTCAAGGCGGAGTT.............................................................................................................	19	3	11	0.09	1	0	0	0	0
.................................................................................................................................AGCGACTCTCGAATCGCCT..........	19	3	12	0.08	1	0	1	0	0
.....................................CCCGGCGTAGTTCAGT.........................................................................................................	16	2	20	0.05	1	0	0	0	0
...................................................................................TGCGGAGGAGCATCCTCGG........................................................	19	3	20	0.05	1	0	0	0	0

ACGCGAAGAGTCGCGATTCGAGAGTCGCGAAAGGAAGGATCGGGATGGATTGGCTGTCGAGGATACTCCGCCGCACGTTGTGTAGTGCCGCGATAGCAAACCGCAACTGAACTCCGCCTGGAGACGGGCTGTCTGGCCAGGACACTCCATCGTCCTGG **********************************...................((((.((.((((((((.((((........)))).)))).))))..)).))))....((((....))))*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
............................................................................................................................................GAAACTCCGTCGTCCTGG	18	2	1	1.00	1
.......................................TCGGGAAGGATTGGCTCT.....................................................................................................	18	2	2	1.00	2
......................................TTCGGGATGGATTGGCTC......................................................................................................	18	2	4	0.50	2
........................................CGGGATAGATTGGCT.......................................................................................................	15	1	5	0.20	1
.....................................................................................................................CTTGAGAAGGGCTGTCT........................	17	2	7	0.14	1
......................................TTCGGGAAGGATTGGCTC......................................................................................................	18	3	20	0.10	2
................TTCGAGAGTTGCGACAGTA...........................................................................................................................	19	3	20	0.05	1
......................................TTCGGGAAGGATTGGCTCT.....................................................................................................	19	3	20	0.05	1
....................................................................................GTGCCGCGATAGTAATTC........................................................	18	3	20	0.05	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	2R:1784908-1785065 +	dsi_214	CCAGGAC------------GATGGAGTGTCCTGGCCAGACAGCCCGTCTCCA-------------------------------------------------------------------G-GCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAGCC---------------------------AA--------------------TCCATCCCGATCCTTCCTT---------------TCGCGACTCTCG---------A--ATCGCGACTCT-----TCGCGT
droSec2	scaffold_1:655265-655415 +		CCAGAAC------------GATGGTGTGTCCTGGCCAGACAGCCCGTCTCCA-------------------------------------------------------------------G-GCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAGCC---------------------------AA--------------------TCCATCCCGATCCTTCCTT---------------TCGCGACTCGCG---------A---------CTCT-----TCGCGT
dm3	chr2R:2986013-2986170 +		CCAGGAC------------GATGGAGTGTCCTGCCCAGACAGCCCGTCTCCA-------------------------------------------------------------------G-GCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAGCC---------------------------AA--------------------TCCTTCCCGAACCTTCCTT---------------TCGCGACTCACG---------A--CTCTCAACTCT-----TCGCGT
droEre2	scaffold_4929:19580945-19581077 -		CCAGGAC------------GACGGAGTGTCCTGGCCAGACAGCCCGTCTCCA-------------------------------------------------------------------T-GCGG-------CGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGCAGTAT------CCT---------CGACAA--------------------------------------------------------------GCTTCC----------------TGCGCGATTCCCG---------A----------G-C-----TCGCGT
droYak3	2L:15698324-15698456 +		CCAGGAC------------GATGGAGTGTCCTGACCAGACAGCCCGTCTCCA-------------------------------------------------------------------T-GCGG-------AGTTCAGTTGCGGCTTGCTAACGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAT--------------------------------------------------------------CCTTCC----------------TGCGCGATTTCCG---------A-----------CT-----TCGCGT
droEug1	scf7180000409672:5008822-5008974 +		CCAAGACGGAAAAC----------AGAGTCCTGGCCAGACAGTCAGTCTCCA-------------------------------------------------------------------G-TCGG-------AGTTCAGTTGCGGTTTGCTAACGCGGCACAACACAACGTGC-GGCGGAGTAT------CCT---------CGATATCCTCGATAT-------------------------ATCCTTT--ACATCCTCGACATCCCGGTCCTTCC----------------TTCGC------------------------------------------
droBia1	scf7180000302292:3154014-3154153 -		CCAGGTCCTGAGACAGAGTCGCGGACCATCCTGGCCAGACAGTCGGTCTCCA-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CTT---------TGAGCTCCCAGAT---------------------------A-----------T---------------------------------------------TCTCG---------A----------A-T-----ATCCTC
droTak1	scf7180000415382:228079-228239 +		CCAGAAGGGAAAACCGAGCCACGGAGTATCCTGGCCAGACAGTCAGTCTCCG-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGGTATCGCGGCACTACACAACGTGC-GCCGGAGTATCAGTATCCT---------CGAAAACC---------------------------TT---------G--ACATCCTCGACATCCCGATCCTTCC----------------ATCGCGTC---------------------------------------
droEle1	scf7180000491265:108274-108483 +		CCAGGAGCGGAAGCAGCGCCACGGAGTGTCCTGCCCAGACAGCCAGTCTACG-------------------------------------------------------------------G-GCCG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC--GCGGAGTGT------CCT---------CGGTATCCTCAGTAT----CCTCGGTATCCTCGAC-----ATCCTCG--ACATCCTCGACAGCCCGATCCTTCT-----------GTTCCTTCGCGTTGTTCG---------ACTTTCTCGA-TTG-----TCGCGT
droRho1	scf7180000780072:163374-163551 -		CCAGGACCGAAAACAGAGCCACGGAGTGTCCTGGCCAGACAGTCAGTCTCCG-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACATAACGTGC--GCGGAGTAT------CCT---------CGAAATCCTCGAC---------------------------ATCCTCG--ATATCCTCGACATCCAGATCCTTTC----------------TTCGCGTTCCTCG---------A----------CTT-----TCGCGT
droFic1	scf7180000453955:273999-274167 -		CCAAGACAGAAAGCAGAGCCACCAAGTATCCTGGCCAGACAGTCAGTCTCCG-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGAAGTCC---------------------------TA---------G--ATATCCTCGACATCCCGATCCTTCC-----------------TCGCGTTCCTCG---------A----------GTT-----TCGCTT
droKik1	scf7180000302640:92221-92370 +		CCAGGAC------------GCGCAAACATCCT-GCCAGACTGCCGGGCCCCAG----------------------------T-------------------------------------G-GCGG-------AGTTCAGTTGCTATTTGCCAGCGCGGCTCTACACAACGTGC-GGCGGACTTG--CTATCCTCT-------CGACAA--------------------------------------------------------------CG----TTCA-------GTTCCATCGAGCTCCCCGAAT--------------TA-CGT-----ACGCGT
droAna3	scaffold_13266:3223073-3223233 +		GCAGAAT----------------CAGTGTCCTGGCTAGACAGCCCGGCTCCG-----------------------------T-------------------------------------G-ACAG-------CGTTCAGTTGCGGTTTGCTTACGCGGCAGAACACACCGTGC-GGCGGCCTAT------CCT---------CGCCATCC---------------------------TT--------------------TGCATCCTGA------------------GATCCTTCGTCCTTTTGGCATTTTATTT--TACGCGTTCCT-----TCGGCT
droBip1	scf7180000396427:1694036-1694201 +		TCAGCAG-------------AAGCGTTGTCCTGGCTAGACAGACCGGCTCCG-----------------------------C-------------------------------------G-ACAG-------CGTTCAGTTGCGGTTTGCTAACGCGGCACAACACACCGTGC-AACGGCTAAT------CCT---------TGCCAATT---------------------------TT--------------------GGCATCCTGA------------------GATCCTTCGTCTATTTGGCATTT---TT--TACGCGTTCCTCCGGCTCGCTT
dp5	3:1271504-1271677 +		CCACCA-----AGCAGCGT-GCAGCGTGTCCTTGCCAGACAGCCGGGCTCCG-------------------------------------------------------------------A-ACGGAGTCCGTAGTTCAGTTGCGGTTTACAAGCGCGCCACTACACAACGTGCAGGCGGAGTATAGCTATCTTTATCCCAGA---CA-----------------------------------------------T---------------CC----TTTGGCACGCGCTTCCCTCGTGTTCC--GTTT--------------GA-TCT-----ACGCGT
droPer2	scaffold_2:1446966-1447139 +		CCACCA-----AGCAGCGT-GCAGCGTGTCCTTGCCAGACAGCCGGGCTCCG-------------------------------------------------------------------A-ACGGAGTCCGTAGTTCAGTTGCGGTTTACAAGCGCGCCACTACACAACGTGCAGGCGGAGTATAGCTATCCTTATCCCAGA---CA-----------------------------------------------T---------------CC----TTTGGCACGCGCTTCCCTCGTGTTCC--GTTT--------------GA-TCT-----ACGCGT
droWil2	scf2_1100000004513:2577721-2577936 +		CCGG-------------------TAGTGTCCTTGGTAGACAGCACGGCTCCAGCTCCAGCTCCGGCGCACAGTTCCAACTCCGACAAAAAACTTTGACTCCGGTTTGGTTTCAGTTTCAGAATGAGTTCA--GTTTCAGTTGCGGTTTGCTAGCGCGGCAAAACACAACGTGCAGGCGGAAAAT------CCA---------CTTCAATTTCTACT-TGGGCAACG-----------AATATATTCGCTACGCA---------------------------------------------TATTCG---------A---------------------CTT
droVir3	scaffold_10324:1142317-1142425 +		CCAGGCA----------------TGTTGCCACTGGCAGACAGCGTGTCCTTGTCTCCGGCTTCTGGCA---------------------------------------------------G-CGGC-------AAATCAGTTGCGGTTTTCAGACGCGGCACAACACAACGTGC-AAGCGGATAT------C----------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3	scaffold_6496:4898037-4898141 -		CCGGGCA----------------TGTTGCCACTGGCAGACAGCGTGTCCTTGTTTCTGGCTTTTGGCCA--------------------------------------------------T--GGC-------AAATCAGTTGCGGTTTGGTAACGCGGCACAACACAACGTGCAAGCGGA---------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2	scaffold_15245:9224393-9224497 +		CCAGGCA----------------TGTTGCCACTGGCAGACAGCGTGTCCTTGTCTCCGGCTTCTGGCT---------------------------------------------------G-TGTC-------AAATCAGTTGCGGTTTGCAAACGCGGCACAACACAACGTGCAAGCGGA---------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

CCAGGAC------------GATGGAGTGTCCTGGCCAGACAGCCCGTCTCCA-------------------------------------------------------------------G-GCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAGCC---------------------------AA--------------------TCCATCCCGATCCTTCCTT---------------TCGCGACTCTCG---------A--ATCGCGACTCT-----TCGCGT	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
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACAGCC---------------------------......................................................................................................	22	1	20.00	20	0	7	0	13	0	0	0	0	0	0	0	0
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACAGC..................................................................................................................................	21	1	7.00	7	0	3	0	4	0	0	0	0	0	0	0	0
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGAC.....................................................................................................................................	18	1	4.00	4	0	3	0	1	0	0	0	0	0	0	0	0
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACAG...................................................................................................................................	20	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACAGCC---------------------------A.....................................................................................................	23	1	2.00	2	0	0	0	1	0	0	0	0	0	1	0	0
..................................................................................................................................................................................................................................................................................CCTT---------------TCGCGACTCTCG---------A--A.....................	18	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACA....................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0
.....................................................................................................................................................................................................................................................................................T---------------TCGCGACTCTCG---------A--ATCG..................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................................AGTTGCGGTTTGCTATCGCG......................................................................................................................................................................................	20	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

CCAGAAC------------GATGGTGTGTCCTGGCCAGACAGCCCGTCTCCA-------------------------------------------------------------------G-GCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAGCC---------------------------AA--------------------TCCATCCCGATCCTTCCTT---------------TCGCGACTCGCG---------A---------CTCT-----TCGCGT	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
.........................................................................................................................................AGTTGCGGTTTGCTATCGCGG.....................................................................................................................................................................................	21	1	2.00	2	0	1	1	0
.........................................................................................................................................AGTTGCGGTTTGCTATCGCG......................................................................................................................................................................................	20	1	1.00	1	0	0	1	0
...............................................................................................................................................................ACTACACAACGTGC-GGCGGA...............................................................................................................................................................	20	1	1.00	1	0	0	1	0

droEre2

CCAGGAC------------GACGGAGTGTCCTGGCCAGACAGCCCGTCTCCA-------------------------------------------------------------------T-GCGG-------CGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGCAGTAT------CCT---------CGACAA--------------------------------------------------------------GCTTCC----------------TGCGCGATTCCCG---------A----------G-C-----TCGCGT	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
........................................................................................................................................................................CGTGC-GGCGCAGTAT------CCT---------.........................................................................................................................................	18	1	1.00	1	0	0	1	0	0	0
............................................................................................................................................................................C-GGCGCAGTAT------CCT---------CGACAA--------------------------------------------------------------GC...................................................................	22	1	1.00	1	0	0	0	1	0	0

droYak3

CCAGGAC------------GATGGAGTGTCCTGACCAGACAGCCCGTCTCCA-------------------------------------------------------------------T-GCGG-------AGTTCAGTTGCGGCTTGCTAACGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGACAT--------------------------------------------------------------CCTTCC----------------TGCGCGATTTCCG---------A-----------CT-----TCGCGT	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACAT--------------------------------------------------------------CCT..................................................................	23	1	4.00	4	0	0	0	0	0	0	4
............................................................................................................................................................................C-GGCGGAGTAT------CCT---------CGACAT--------------------------------------------------------------CC...................................................................	22	1	1.00	1	0	0	0	0	0	0	1

droEug1

CCAAGACGGAAAAC----------AGAGTCCTGGCCAGACAGTCAGTCTCCA-------------------------------------------------------------------G-TCGG-------AGTTCAGTTGCGGTTTGCTAACGCGGCACAACACAACGTGC-GGCGGAGTAT------CCT---------CGATATCCTCGATAT-------------------------ATCCTTT--ACATCCTCGACATCCCGGTCCTTCC----------------TTCGC------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CCAGGTCCTGAGACAGAGTCGCGGACCATCCTGGCCAGACAGTCGGTCTCCA-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CTT---------TGAGCTCCCAGAT---------------------------A-----------T---------------------------------------------TCTCG---------A----------A-T-----ATCCTC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

CCAGAAGGGAAAACCGAGCCACGGAGTATCCTGGCCAGACAGTCAGTCTCCG-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGGTATCGCGGCACTACACAACGTGC-GCCGGAGTATCAGTATCCT---------CGAAAACC---------------------------TT---------G--ACATCCTCGACATCCCGATCCTTCC----------------ATCGCGTC---------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

CCAGGAGCGGAAGCAGCGCCACGGAGTGTCCTGCCCAGACAGCCAGTCTACG-------------------------------------------------------------------G-GCCG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC--GCGGAGTGT------CCT---------CGGTATCCTCAGTAT----CCTCGGTATCCTCGAC-----ATCCTCG--ACATCCTCGACAGCCCGATCCTTCT-----------GTTCCTTCGCGTTGTTCG---------ACTTTCTCGA-TTG-----TCGCGT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

CCAGGACCGAAAACAGAGCCACGGAGTGTCCTGGCCAGACAGTCAGTCTCCG-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACATAACGTGC--GCGGAGTAT------CCT---------CGAAATCCTCGAC---------------------------ATCCTCG--ATATCCTCGACATCCAGATCCTTTC----------------TTCGCGTTCCTCG---------A----------CTT-----TCGCGT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CCAAGACAGAAAGCAGAGCCACCAAGTATCCTGGCCAGACAGTCAGTCTCCG-------------------------------------------------------------------G-CCGG-------AGTTCAGTTGCGGTTTGCTATCGCGGCACTACACAACGTGC-GGCGGAGTAT------CCT---------CGAAGTCC---------------------------TA---------G--ATATCCTCGACATCCCGATCCTTCC-----------------TCGCGTTCCTCG---------A----------GTT-----TCGCTT	Size	Hit Count	Total Norm	Total
No Reads

droKik1

CCAGGAC------------GCGCAAACATCCT-GCCAGACTGCCGGGCCCCAG----------------------------T-------------------------------------G-GCGG-------AGTTCAGTTGCTATTTGCCAGCGCGGCTCTACACAACGTGC-GGCGGACTTG--CTATCCTCT-------CGACAA--------------------------------------------------------------CG----TTCA-------GTTCCATCGAGCTCCCCGAAT--------------TA-CGT-----ACGCGT	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GCAGAAT----------------CAGTGTCCTGGCTAGACAGCCCGGCTCCG-----------------------------T-------------------------------------G-ACAG-------CGTTCAGTTGCGGTTTGCTTACGCGGCAGAACACACCGTGC-GGCGGCCTAT------CCT---------CGCCATCC---------------------------TT--------------------TGCATCCTGA------------------GATCCTTCGTCCTTTTGGCATTTTATTT--TACGCGTTCCT-----TCGGCT	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
........................................................................................................................................................ACGCGGCAGAACACACCGTGC-GGCGGC...............................................................................................................................................................	27	1	1.00	1	0	0	1	0	0	0
...................................................................................................................................................................CACACCGTGC-GGCGGCCTAT------CCT---------C........................................................................................................................................	24	1	1.00	1	0	0	0	0	0	1
....................................................................................................................................................................................................................................................................GCATCCTGA------------------GATCCTTCGTCCT.......................................	22	1	1.00	1	0	1	0	0	0	0

droBip1

TCAGCAG-------------AAGCGTTGTCCTGGCTAGACAGACCGGCTCCG-----------------------------C-------------------------------------G-ACAG-------CGTTCAGTTGCGGTTTGCTAACGCGGCACAACACACCGTGC-AACGGCTAAT------CCT---------TGCCAATT---------------------------TT--------------------GGCATCCTGA------------------GATCCTTCGTCTATTTGGCATTT---TT--TACGCGTTCCTCCGGCTCGCTT	Size	Hit Count	Total Norm	Total
No Reads

dp5

CCACCA-----AGCAGCGT-GCAGCGTGTCCTTGCCAGACAGCCGGGCTCCG-------------------------------------------------------------------A-ACGGAGTCCGTAGTTCAGTTGCGGTTTACAAGCGCGCCACTACACAACGTGCAGGCGGAGTATAGCTATCTTTATCCCAGA---CA-----------------------------------------------T---------------CC----TTTGGCACGCGCTTCCCTCGTGTTCC--GTTT--------------GA-TCT-----ACGCGT	Size	Hit Count	Total Norm	Total	V112 Male-body	V043 Embryo	V051 Head	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head
........................................................................................................................................................................................................GA---CA-----------------------------------------------T---------------CC----TTTGGCACGCG....................................................	18	1	1.00	1	0	1	0	0	0	0	0

droPer2

CCACCA-----AGCAGCGT-GCAGCGTGTCCTTGCCAGACAGCCGGGCTCCG-------------------------------------------------------------------A-ACGGAGTCCGTAGTTCAGTTGCGGTTTACAAGCGCGCCACTACACAACGTGCAGGCGGAGTATAGCTATCCTTATCCCAGA---CA-----------------------------------------------T---------------CC----TTTGGCACGCGCTTCCCTCGTGTTCC--GTTT--------------GA-TCT-----ACGCGT	Size	Hit Count	Total Norm	Total	V111 Male-body	V042 Embryo	V050 Head	V057 Head	M021 Embryo	M042 Female-body
.........................................................................................................................................AGTTGCGGTTTACAAGCG........................................................................................................................................................................................	18	1	1.00	1	0	0	0	0	0	1

droWil2

CCGG-------------------TAGTGTCCTTGGTAGACAGCACGGCTCCAGCTCCAGCTCCGGCGCACAGTTCCAACTCCGACAAAAAACTTTGACTCCGGTTTGGTTTCAGTTTCAGAATGAGTTCA--GTTTCAGTTGCGGTTTGCTAGCGCGGCAAAACACAACGTGCAGGCGGAAAAT------CCA---------CTTCAATTTCTACT-TGGGCAACG-----------AATATATTCGCTACGCA---------------------------------------------TATTCG---------A---------------------CTT	Size	Hit Count	Total Norm	Total	V117 Male-body	V118 Embryo	V119 Head	M020 Head	M045 Female-body
.........................................................................................................................................AGTTGCGGTTTGCTAGCGCG......................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0
................................................................................................................................................................AAACACAACGTGCAGGCGGAAAAT------CCA---------.........................................................................................................................................	27	1	1.00	1	0	0	1	0	0

droVir3

CCAGGCA----------------TGTTGCCACTGGCAGACAGCGTGTCCTTGTCTCCGGCTTCTGGCA---------------------------------------------------G-CGGC-------AAATCAGTTGCGGTTTTCAGACGCGGCACAACACAACGTGC-AAGCGGATAT------C----------------------------------------------------------------------------------------------------------------------------------------------------

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

No Reads

droMoj3

CCGGGCA----------------TGTTGCCACTGGCAGACAGCGTGTCCTTGTTTCTGGCTTTTGGCCA--------------------------------------------------T--GGC-------AAATCAGTTGCGGTTTGGTAACGCGGCACAACACAACGTGCAAGCGGA---------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	V110 Male-body	V056 Head	V049 Head	V041 Embryo	M046 Female-body	M060 Embryo
No Reads

droGri2

CCAGGCA----------------TGTTGCCACTGGCAGACAGCGTGTCCTTGTCTCCGGCTTCTGGCT---------------------------------------------------G-TGTC-------AAATCAGTTGCGGTTTGCAAACGCGGCACAACACAACGTGCAAGCGGA---------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	V109 Male-body	M041 Female-body
No Reads

dsi_214

2R:1784958-1785015 +

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

-27.1	-26.8	-26.7