dvi_12196

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- TAATAATTTAATTCTGTTCAGCGCCCTCATTTGGCTGCTCGTCGCGCCAGGTAAGAGTTCAGGTGTTTCGGTGCCCCAAAATGTGTCAGAACCGTTATTCGATATTCGAGTGATATCTCAAAAGTCAGATATTAGCCTAAGTCCGAGTGTCCAAAATTGTGATACAAGATTGATGCGCCCGTATTAAAAGTGGATCGTGTCGGATCGCTGGAATTCGATTTGTTAAGCACCAACAGCAAAGTCGGAACGAA ************************************************......(((((..((...((((((..(((..(((((((.((.........((((((((..((((((((........)))))))).........)))))))).....)).)))))))...)))..))).)))...))....)))))......************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M047 female body	M027 male body	SRR060659 Argentina_testes_total	SRR060680 9xArg_testes_total	SRR060676 9xArg_ovaries_total	SRR060657 140_testes_total	SRR060666 160_males_carcasses_total	SRR060683 160_testes_total
...............GTTCAGCGCCCTCATTTGGCTGCTCG..................................................................................................................................................................................................................	26	0	1	1.00	1	1	0	0	0	0	0	0	0
..............................................................................................................................................................GAGATACAAGATTGATGCGCC........................................................................	21	1	1	1.00	1	0	0	1	0	0	0	0	0
...................................................................................................................................................................................................................................CACCAACAGCAAAGTCGGAA....	20	0	1	1.00	1	1	0	0	0	0	0	0	0
.........................CTCATTTGGCTGCTCGTCGCGCC...........................................................................................................................................................................................................	23	0	1	1.00	1	0	1	0	0	0	0	0	0
...........................CATTTGGCTGCTCGTCGCGC............................................................................................................................................................................................................	20	0	1	1.00	1	1	0	0	0	0	0	0	0
.......................................TGTCGCGCCAGGTAAGAG..................................................................................................................................................................................................	18	1	1	1.00	1	0	0	0	1	0	0	0	0
.................................GCTGCTCGTCGCGCCAGC........................................................................................................................................................................................................	18	1	3	0.33	1	0	1	0	0	0	0	0	0
.....................................................AAAGATCTGGTGTTTCGGT...................................................................................................................................................................................	19	3	20	0.10	2	0	0	0	0	0	1	1	0
..........................................CGCGCCAGGGGAGAGTTCT..............................................................................................................................................................................................	19	3	14	0.07	1	1	0	0	0	0	0	0	0
..............................TTGGCTCATCGTCCCGCCA..........................................................................................................................................................................................................	19	3	18	0.06	1	0	0	0	0	1	0	0	0
..............................................................................AGAGGTGTCAGAACCGTT...........................................................................................................................................................	18	2	20	0.05	1	0	0	0	0	0	0	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droVir3	scaffold_12963:16113834-16114084 +	dvi_12196	TA----ATAATTTAATTCTGTTCAGCGCCCTCATTTGGCTGCTCGTCGCGCCAGGTAAGA------------------------------------------------------GTTC-AGGTGTTTCGGTGCCCCAAAATGTGTCAG---------------------------------------------------------------------AACCGTTATTCGATATTCGAGTGATATCTCAAAAGTCAGATATTAGCCT-AAGTCCGAGTGTCCAAAATTGTGATAC-AAGATTGATGCGCCCGTATTAAAAGTGGATCGTGTCGGATCGCTGGAAT--TCGATTTGTTAAGCACCAACAGCAAAGTCGGAACGAA
droMoj3	scaffold_6500:5575715-5575977 +		TT----TTCCCTTAACTTTGTACGGCGCCTTTTTTCTGCTGCTCGTCGCGCCAGGTAAGAAAACCCCCCCAAAAAAAAAAAAAAAAAAACAAAAAATCACAAAATCCAAAATGTGTGTTGAGTGTCA------------AAGTGTCTG---------------------------------------------------------------------GGTCGATATCC--------------------------------CAGCCCAAAGACTGATATTAACAAAAAGTGATAAAAATATTGATGCGGCCGCATTAG-TTTGGACCGTGAATAAACGACGGACTACTCTCTATGCTAAGCACTATAAATAATAT--TGATAAA
droGri2	scaffold_15252:13543887-13544045 +		AA----ATAGTATGAAGTTGGCCAATGCTTTTATTTTGCTGCTCGTCTTGCCAGGTAAGAA--------------------------------------------------AGAGTTC-AAGTGTCT--------------------GTCCGTCCGTCCGTCCGTCCCACAAACGGCAGGACTCCCAAGTGTAGTGTGATAAAAAATAAAGCGCCCCGATTAATGTGC--------------------------------CAGTCC---------------------------------------------------------------------------------------------------------------------
dp5	Unknown_singleton_2387:670-724 +		AA----GTCACATCTTTTTGGCCAGCTCTCTGCTGTTGCTACTCGCGTTGCCAGGTAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_1:9383508-9383566 +		CAAAAGTCCACATCTTTTTGGCCAGCTCTCTGCTGTTGCTACTCGCGTTGCCAGGTAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droKik1	scf7180000302405:466058-466087 -		AT----TT--------G----------------------------------------------------------------------------------------------------TAGGGTATTT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACG----GATCAAGACGAA
droFic1	scf7180000454051:9852-9922 -		AA----GTCACATCGTTTTGGCCAGCTGTTCGCTGTTGCTAATCGCCCTGCCAGGTAAAA---------------------------------------------------AGCATTT-GGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000780102:166416-166485 -		AA----GTCACATCGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAA-----------------------------------------------------GCATTTTGGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1	scf7180000297014:5491-5509 +		AG----C--------------------------------AAATGACCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGACAAA
droTak1	scf7180000415629:43474-43536 +		T------------CGTTTTGGCCAGCTCTCTGCTGTTGCTAATCGCCCTGCCAGGTAAAA---------------------------------------------------AGCATTT-GGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEug1	scf7180000409461:362558-362628 +		TA----GCCCCATCGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAA---------------------------------------------------AGCATTT-GGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSec2	scaffold_3:3842271-3842326 +		AA----GTCACATCGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droYak3	2L:10985125-10985174 +		TA----A-----------TGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAAT--------------------------------------------------TACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEre2	scaffold_4929:17256443-17256505 +		T------------CGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAAAAAGA----------------------------------------------AGCATTT-TGG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

TA----ATAATTTAATTCTGTTCAGCGCCCTCATTTGGCTGCTCGTCGCGCCAGGTAAGA------------------------------------------------------GTTC-AGGTGTTTCGGTGCCCCAAAATGTGTCAG---------------------------------------------------------------------AACCGTTATTCGATATTCGAGTGATATCTCAAAAGTCAGATATTAGCCT-AAGTCCGAGTGTCCAAAATTGTGATAC-AAGATTGATGCGCCCGTATTAAAAGTGGATCGTGTCGGATCGCTGGAAT--TCGATTTGTTAAGCACCAACAGCAAAGTCGGAACGAA	Size	Hit Count	Total Norm	Total	M027 Male-body	M028 Head	M047 Female-body	M061 Embryo	SRR060654 Ovary	SRR060655 Testis	SRR060656 Ovary	SRR060657 Testis	SRR060658 Ovary	SRR060659 Testis	SRR060660 Ovary	SRR060661 Embryo	SRR060662 Embryo	SRR060663 Embryo	SRR060664 Male-body	SRR060665 Female-body	SRR060666 Male-body	SRR060667 Female-body	SRR060668 Male-body	SRR060669 Female-body	SRR060670 Testis	SRR060671 Male-body	SRR060672 Female-body	SRR060673 Ovary	SRR060674 Ovary	SRR060675 Ovary	SRR060676 Ovary	SRR060677 Ovary	SRR060678 Testis	SRR060679 Testis	SRR060680 Testis	SRR060681 Testis	SRR060682 Embryo	SRR060683 Testis	SRR060684 Embryo	SRR060685 Embryo	SRR060686 Embryo	SRR060687 Embryo	SRR060688 Ovary	SRR060689 Testis	SRR1106712 embryo_0-2h	SRR1106713 embryo_0-2h	SRR1106714 embryo_2-4h	SRR1106715 embryo_4-6h	SRR1106716 embryo_4-6h	SRR1106717 embryo_6-8h	SRR1106718 embryo_6-8h	SRR1106719 embryo_8-10h	SRR1106720 embryo_8-10h	SRR1106721 embryo_10-12h	SRR1106722 embryo_10-12h	SRR1106723 embryo_12-14h	SRR1106724 embryo_12-14h	SRR1106725 embryo_14-16h	SRR1106726 embryo_14-16h	SRR1106727 larvae	SRR1106728 larvae	SRR1106729 mixed whole adult body	SRR1106730 embryo_16-30h	V047 Embryo	V053 Head	V116 Male-body	GSM1528803 follicle cells
...................GTTCAGCGCCCTCATTTGGCTGCTCG..................................................................................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................CACCAACAGCAAAGTCGGAA....	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................CTCATTTGGCTGCTCGTCGCGCC...........................................................................................................................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...............................CATTTGGCTGCTCGTCGCGC............................................................................................................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....................................GCTGCTCGTCGCGCCAGC........................................................................................................................................................................................................................................................................................................................................	18	3	0.33	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droMoj3

TT----TTCCCTTAACTTTGTACGGCGCCTTTTTTCTGCTGCTCGTCGCGCCAGGTAAGAAAACCCCCCCAAAAAAAAAAAAAAAAAAACAAAAAATCACAAAATCCAAAATGTGTGTTGAGTGTCA------------AAGTGTCTG---------------------------------------------------------------------GGTCGATATCC--------------------------------CAGCCCAAAGACTGATATTAACAAAAAGTGATAAAAATATTGATGCGGCCGCATTAG-TTTGGACCGTGAATAAACGACGGACTACTCTCTATGCTAAGCACTATAAATAATAT--TGATAAA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.........................CGCCTTTTTTCTGCTGCTC...................................................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0

droGri2

AA----ATAGTATGAAGTTGGCCAATGCTTTTATTTTGCTGCTCGTCTTGCCAGGTAAGAA--------------------------------------------------AGAGTTC-AAGTGTCT--------------------GTCCGTCCGTCCGTCCGTCCCACAAACGGCAGGACTCCCAAGTGTAGTGTGATAAAAAATAAAGCGCCCCGATTAATGTGC--------------------------------CAGTCC---------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dp5

AA----GTCACATCTTTTTGGCCAGCTCTCTGCTGTTGCTACTCGCGTTGCCAGGTAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
.............................CTGCTGTTGCTACTCGCGTTGCCAGC........................................................................................................................................................................................................................................................................................................................................	26	2	0.50	1	0	1	0	0	0	0	0	0	0	0

droPer2

CAAAAGTCCACATCTTTTTGGCCAGCTCTCTGCTGTTGCTACTCGCGTTGCCAGGTAAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droKik1

AT----TT--------G----------------------------------------------------------------------------------------------------TAGGGTATTT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACG----GATCAAGACGAA	Size	Hit Count	Total Norm	Total
No Reads

droFic1

AA----GTCACATCGTTTTGGCCAGCTGTTCGCTGTTGCTAATCGCCCTGCCAGGTAAAA---------------------------------------------------AGCATTT-GGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AA----GTCACATCGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAA-----------------------------------------------------GCATTTTGGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AG----C--------------------------------AAATGACCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGACAAA	Size	Hit Count	Total Norm	Total
No Reads

droTak1

T------------CGTTTTGGCCAGCTCTCTGCTGTTGCTAATCGCCCTGCCAGGTAAAA---------------------------------------------------AGCATTT-GGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TA----GCCCCATCGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAA---------------------------------------------------AGCATTT-GGGTATTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droSec2

AA----GTCACATCGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droYak3

TA----A-----------TGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAAT--------------------------------------------------TACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Size

Hit Count

Total Norm

Total

M026
Head

M043
Female-body

M056
Embryo

V046
Embryo

V052
Head

V058
Head

V120
Male-body

SRR1275488
Male larvae

SRR1275486
Male prepupae

SRR1275484
Male prepupae

GSM1528802
follicle cells

No Reads

droEre2

T------------CGTTTTGGCCAGCTCTTTGCTGTTGCTAATCGCCCTGCCAGGTAAAAAAAGA----------------------------------------------AGCATTT-TGG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

ATTATTAAATTAAGACAAGTCGCGGGAGTAAACCGACGAGCAGCGCGGTCCATTCTCAAGTCCACAAAGCCACGGGGTTTTACACAGTCTTGGCAATAAGCTATAAGCTCACTATAGAGTTTTCAGTCTATAATCGGATTCAGGCTCACAGGTTTTAACACTATGTTCTAACTACGCGGGCATAATTTTCACCTAGCACAGCCTAGCGACCTTAAGCTAAACAATTCGTGGTTGTCGTTTCAGCCTTGCTT ************************************************......(((((..((...((((((..(((..(((((((.((.........((((((((..((((((((........)))))))).........)))))))).....)).)))))))...)))..))).)))...))....)))))......************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060671 9x160_males_carcasses_total	SRR060682 9x140_0-2h_embryos_total	SRR060687 9_0-2h_embryos_total	SRR060666 160_males_carcasses_total	SRR060668 160x9_males_carcasses_total	SRR060669 160x9_females_carcasses_total	SRR060684 140x9_0-2h_embryos_total	SRR060672 9x160_females_carcasses_total	SRR060686 Argx9_0-2h_embryos_total	SRR060679 140x9_testes_total	V116 male body	SRR060685 9xArg_0-2h_embryos_total	M027 male body	SRR060667 160_females_carcasses_total	V053 head	SRR060664 9_males_carcasses_total	SRR060676 9xArg_ovaries_total	SRR060674 9x140_ovaries_total	V047 embryo	M047 female body	SRR060665 9_females_carcasses_total	SRR060675 140x9_ovaries_total	SRR060681 Argx9_testes_total	SRR060662 9x160_0-2h_embryos_total
.................................................................AAACCCACGGTTTTTTACACA.....................................................................................................................................................................	21	3	16	19.81	317	69	43	33	29	30	25	18	15	11	9	6	6	5	5	0	3	3	1	2	1	1	1	1	0
.................................................................................................................................................................................................................................TCGTGGTTCTCGCTACAGCCT.....	21	3	5	0.20	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................TGAAGCTAGAGAATTCGTG.....................	19	3	20	0.10	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................TACAGACCTCAAGCTAAACAA...........................	21	3	12	0.08	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
.................AGTCGCGAGAATAAACCAAC......................................................................................................................................................................................................................	20	3	13	0.08	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
.....................................................................................AGTCTTGGCAGTAAGGTGT...................................................................................................................................................	19	3	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1

dvi_12196

scaffold_12963:16113884-16114034 +

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