dvi_8998

CDS [Dvir\GJ16964-cds]; CDS [Dvir\GJ16964-cds]; exon [dvir_GLEANR_17473:2]; exon [dvir_GLEANR_17473:3]; intron [Dvir\GJ16964-in]

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Name	Class	Family	Strand
Helitron-1N1_DVir	RC	Helitron	+
Homo6	DNA	hAT-Pegasus	+

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------################################################## ACTTTATAACACTACCCAGCGAAAGCTACGGCAGTGACAGCAGCCTAAGCGTAGGTGCTCCAAAAGGACATCTATTATCACTTAACCAGTCACGACTGGGAAGCGTTGGCAAATACTATTGTTTACCCTCCATATCTTAAAATCCCTTTTCCTCCAAAGGGAAAGGGAGCATTTCCGACCACATAGAGGGCGACGAGCTAAGTCGAACTACCCATGTCCGTCTGTCTGAACGCGTCGTTTATCACTTGGGGGAATTTCTTTACAGCTTTTACAGATTGAACTCCGGTTTGATTGATTTCTTCTCTATGCACTTGCAGGATTGGACCGATGAGACTAGCAGCGAGGAGAGCTCACAATACGAAGAGCC ************************************************((((((((......((((.(((.............(((((....)))))(((((((.(((((......))))).))((((((.....((((.(((((((((((....))))))))))).......((((((.(((((.((((((.......)))).((.......)))).))))).)).....)))))))).....))))))............)))))....((((((((....))))))))))).))))......))))))))..************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M027 male body	SRR060674 9x140_ovaries_total	SRR060680 9xArg_testes_total	SRR060685 9xArg_0-2h_embryos_total	V116 male body	SRR060668 160x9_males_carcasses_total	SRR060687 9_0-2h_embryos_total	SRR060661 160x9_0-2h_embryos_total	SRR060682 9x140_0-2h_embryos_total	SRR060689 160x9_testes_total	SRR060671 9x160_males_carcasses_total	SRR060662 9x160_0-2h_embryos_total
......................................................................................CATTCGCGACTGGGAAGC.......................................................................................................................................................................................................................................................................	18	2	4	1.25	5	2	0	0	0	0	0	1	0	1	1	0	0
................................................................................................................................................................................................................................................................................................................................TGGACCGATGAGACTAGCAGCGAGG......................	25	0	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................................................................................................................................................................................................................................ACTAGCAGCGAGGAGAGCTCACA............	23	0	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0
......................................................................................................................................................................................................................................................................................................................................GAAGAGAGTAGCAGCGAGGA.....................	20	2	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0
..............................................................................................................................................................................................................................................................................ACAGATTGAACTCCGGTTTGATTGAT.......................................................................	26	0	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
...................................................................................AATCATTCGCGACTGGGAAGC.......................................................................................................................................................................................................................................................................	21	3	2	0.50	1	0	0	0	0	1	0	0	0	0	0	0	0
.......................................GCAGGCTAAGCGTAGGTCC.....................................................................................................................................................................................................................................................................................................................	19	2	2	0.50	1	0	0	0	0	0	1	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................ATGAACTACGGTTGGATTGA........................................................................	20	3	4	0.25	1	0	0	0	0	0	0	0	1	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................TGAGATTAGCAGCGATGA.....................	18	2	5	0.20	1	0	0	0	0	0	0	0	0	0	0	1	0
.................................................................................................................................................................................................................................................................................GAACGAACTCTGGTTTGATT..........................................................................	20	3	11	0.09	1	0	0	0	0	0	0	1	0	0	0	0	0
......................................................................................................................................................................................................................................................................................AACGCCGTTCTGATTGATTT.....................................................................	20	3	14	0.07	1	0	0	0	0	0	0	0	0	0	0	0	1
.....................................................................................................................................................................................................................................................................................................................................AGAAGAGAGTAGCAGCGAGG......................	20	3	16	0.06	1	0	0	0	0	1	0	0	0	0	0	0	0
...................................................................................................................................................................AGCGAGCATTTCCGGCAAC.........................................................................................................................................................................................	19	3	20	0.05	1	0	0	0	0	1	0	0	0	0	0	0	0

TGAAATATTGTGATGGGTCGCTTTCGATGCCGTCACTGTCGTCGGATTCGCATCCACGAGGTTTTCCTGTAGATAATAGTGAATTGGTCAGTGCTGACCCTTCGCAACCGTTTATGATAACAAATGGGAGGTATAGAATTTTAGGGAAAAGGAGGTTTCCCTTTCCCTCGTAAAGGCTGGTGTATCTCCCGCTGCTCGATTCAGCTTGATGGGTACAGGCAGACAGACTTGCGCAGCAAATAGTGAACCCCCTTAAAGAAATGTCGAAAATGTCTAACTTGAGGCCAAACTAACTAAAGAAGAGATACGTGAACGTCCTAACCTGGCTACTCTGATCGTCGCTCCTCTCGAGTGTTATGCTTCTCGG ************************************************((((((((......((((.(((.............(((((....)))))(((((((.(((((......))))).))((((((.....((((.(((((((((((....))))))))))).......((((((.(((((.((((((.......)))).((.......)))).))))).)).....)))))))).....))))))............)))))....((((((((....))))))))))).))))......))))))))..************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	SRR060683 160_testes_total	SRR060678 9x140_testes_total	V053 head	SRR060681 Argx9_testes_total	M047 female body	SRR060677 Argx9_ovaries_total	SRR060665 9_females_carcasses_total	SRR060679 140x9_testes_total
.......TTGTGATGGGTCGCTTTCGATG..................................................................................................................................................................................................................................................................................................................................................	22	0	1	1.00	1	1	0	0	0	0	0	0	0
.......................................................................................................................ACCACTGGGAGATATAGAAT....................................................................................................................................................................................................................................	20	3	3	0.33	1	0	1	0	0	0	0	0	0
.............TAGGTCGGTTTCGATGCCGTG.............................................................................................................................................................................................................................................................................................................................................	21	3	5	0.20	1	0	0	1	0	0	0	0	0
...................................................................................................................................................................................................................GGTACAGGGAGACATACTTGCG......................................................................................................................................	22	2	8	0.13	1	0	0	0	1	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................GTCCAACCCTGGCAACTCT..................................	19	3	17	0.06	1	0	0	0	0	1	0	0	0
...................................................................................................................................................................................................................GGTACAGGCAGACATATTTGC.......................................................................................................................................	21	2	17	0.06	1	0	0	0	0	0	1	0	0
...........................................................................................................................................................................................................................................................................................................................TGCTAACCTGCCTACGCT..................................	18	3	20	0.05	1	0	0	0	0	0	0	0	1
...................................................................................................................................................................................................................................................CGAACCCACTTAAAGAAGTG........................................................................................................	20	3	20	0.05	1	0	0	0	0	0	0	1	0

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droVir3	scaffold_12928:5557006-5557372 +	dvi_8998	ACTTTATAACACTACCCAGCGAAAGCTACGGCAGTGACAGCAGCCTAAGCGTAGGTGCTCCAAAAGG---ACATCTATTATCACTTAACCAGTCACGACTGGGAAGCGTTGGCAAATACTATTGTTTACCCTCCATATCTTAAAATCCCTTTTCCTCCAAAGGGAAAGGGAGCATTTCCGACCACATAGA-------------------GGGCGACGAGCTAAGTCGAACTACCCATGTCCGTCTGTCTGAACGCGTCGTTTATCACTTGGGGGAATTTCTTTACAGCTTTTACAGATTGAACTCCGGTTTGATTGATTTCTTCTCTATGCACTTGCAGGATTGGACCGATGAGACTAGCAGCGAGGAGAGCTCACAATACGAAGAGCC
droMoj3	scaffold_6359:4078954-4079016 +		TGTTCCC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTAA----------------------------------------------------------------------------------------------------------------------------------------------------GGACTGGAGCGAGGAAACCAGCAGCGAGGAGAGCTCATACTACGAGCCAGA
droGri2	scaffold_15203:1444966-1445039 +		ATTTCGATAAAGAATCACTACTAAGCTCGGATAGCAACAGCAGCTTGAGCGTAGGTTCTTTTATATA---ACAATTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5	XL_group1a:933983-933986 -		ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer2	scaffold_26:1047124-1047127 -		ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droAna3	scaffold_12929:2955210-2955224 -		ATTTTGTTCCACCGC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1	scf7180000391693:31213-31216 -		ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droKik1	scf7180000302401:100429-100432 -		ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droFic1	scf7180000454038:608934-608982 -		ATTTCCTGGAACCACCAGACATGG------ATAGTTCGGACAGCTTAAGTGTGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491023:1221496-1221499 +		ACTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1	scf7180000777097:117022-117098 +		ACTTCCTCGATCCACCGGGGGATGACGATAACAGCTCGGACAGTTTGAGTGTGAGCATTTTAGGAACCCTATAATTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBia1	scf7180000302193:3657044-3657109 +		AA---------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAAGTGTTTCCGACCCCATAAA-------------------GGATCACTAGCCAAGTCAATCTACCCATGTCCGTCTGTCTG-------------------------------------------------------------------------------------------------------------------------------------------
droTak1	scf7180000415879:66472-66561 -		AA---------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAAGCGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGGGTCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCTGAACGC--------------------------------------------------------------------------------------------------------------------------------------
droEug1	scf7180000409533:514878-514907 -		ACTTTTTGGACTCACCAGAGGATG------AAAGCT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSim2	x:14527832-14527906 -		ATTTCCTGGATCCGCCTGAGGATG------ACAGCTCGGACAGCTTAAGTGTGAGCATCTAGAGAACTCCAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAC------------------------------------------------------------------------------------------------------------------------------A---TATC

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droVir3

ACTTTATAACACTACCCAGCGAAAGCTACGGCAGTGACAGCAGCCTAAGCGTAGGTGCTCCAAAAGG---ACATCTATTATCACTTAACCAGTCACGACTGGGAAGCGTTGGCAAATACTATTGTTTACCCTCCATATCTTAAAATCCCTTTTCCTCCAAAGGGAAAGGGAGCATTTCCGACCACATAGA-------------------GGGCGACGAGCTAAGTCGAACTACCCATGTCCGTCTGTCTGAACGCGTCGTTTATCACTTGGGGGAATTTCTTTACAGCTTTTACAGATTGAACTCCGGTTTGATTGATTTCTTCTCTATGCACTTGCAGGATTGGACCGATGAGACTAGCAGCGAGGAGAGCTCACAATACGAAGAGCC	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
......................................................................................................................................................................................................................................................................................................................................................TGGACCGATGAGACTAGCAGCGAGG......................	25	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	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
..................................................................................................................................................................................................................................................................................................................................................................ACTAGCAGCGAGGAGAGCTCACA............	23	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....................................................................................................................................................................................................................................................................................................ACAGATTGAACTCCGGTTTGATTGAT.......................................................................	26	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	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

droMoj3

TGTTCCC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTAA----------------------------------------------------------------------------------------------------------------------------------------------------GGACTGGAGCGAGGAAACCAGCAGCGAGGAGAGCTCATACTACGAGCCAGA	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

ATTTCGATAAAGAATCACTACTAAGCTCGGATAGCAACAGCAGCTTGAGCGTAGGTTCTTTTATATA---ACAATTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

dp5

ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

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

No Reads

droPer2

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

droAna3

ATTTTGTTCCACCGC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

ATTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

ATTTCCTGGAACCACCAGACATGG------ATAGTTCGGACAGCTTAAGTGTGAG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

ACTT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

ACTTCCTCGATCCACCGGGGGATGACGATAACAGCTCGGACAGTTTGAGTGTGAGCATTTTAGGAACCCTATAATTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AA---------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAAGTGTTTCCGACCCCATAAA-------------------GGATCACTAGCCAAGTCAATCTACCCATGTCCGTCTGTCTG-------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AA---------------------------------------------------------------------------------------------------------------------------------------------------------------------GGAAGCGTTTCCGACCCCATAAAGTATATATATTCTTGATCAGGGTCACTAGCCGAGTCGATCTAGCCATGTCCGTCTGTCTGAACGC--------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

ACTTTTTGGACTCACCAGAGGATG------AAAGCT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droSim2

ATTTCCTGGATCCGCCTGAGGATG------ACAGCTCGGACAGCTTAAGTGTGAGCATCTAGAGAACTCCAAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAC------------------------------------------------------------------------------------------------------------------------------A---TATC	Size	Hit Count	Total Norm	Total	M023 Head	M024 Male-body	M025 Embryo	M053 Female-body	O001 Testis	O002 Head	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary	V044 Embryo	SRR902008 Ovary	SRR902009 Testis	SRR1275487 Male larvae	SRR1275485 Male prepupae	SRR1275483 Male prepupae
............CGCCTGAGGATG------ACAGCTCGG..............................................................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0

dvi_8998

scaffold_12928:5557056-5557322 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-67.6	-67.2	-67.2