dwi_2771

intron [Dwil\GK25198-in]; CDS [Dwil\GK25198-cds]; exon [dwil_GLEANR_9358:2]; intron [Dwil\GK25198-in]

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Name	Class	Family	Strand
AT_rich	Low_complexity	Low_complexity	+
(TTG)n	Simple_repeat	Simple_repeat	+
AT_rich	Low_complexity	Low_complexity	+

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##############################-------------------- GGGTGGGTGGTAAAGTGCCTTTTGTTTCCTTACATATATAAAATTATATACATAATATATTTCTTCTTTTACAACCTTTTTACATGCTGCTTACTGAACAACAACTGCAACAACAACAACAACTATGTATAATAATAATAATGACAACCTGATCTTCTCCTTACCTTTAAAATAATAATAATATTAAATTGTCTTATAAAGCTCTACTAAAAAAACTACAACAACAACCAGGTATTTGGAAATATTGCTAC ******************************************************************................((.(((................))).)).......**********************************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M045 female body	V118 embryo	V119 head	V117 male body
....GGGTGATAGCGTGCCTTTTGT..................................................................................................................................................................................................................................	21	3	1	4.00	4	4	0	0	0
.....GGTGATAGCGTGCCTTTTGT..................................................................................................................................................................................................................................	20	3	10	2.90	29	25	0	1	3
...TGGGTGATAGCGTGCCTTTTGT..................................................................................................................................................................................................................................	22	3	1	1.00	1	1	0	0	0
................................................................................................................................................................................................................AAAAAAACTACAACAACAACCAGGTATT...............	28	0	1	1.00	1	1	0	0	0
.....GGTGATAGAGTGCCTTTTGT..................................................................................................................................................................................................................................	20	2	1	1.00	1	0	0	1	0
....................................................................TTACAACCTTTTTACATGCTG..................................................................................................................................................................	21	0	1	1.00	1	0	1	0	0
......GTTGGAAAGTGCCTTTTGTT.................................................................................................................................................................................................................................	20	2	1	1.00	1	0	1	0	0
.............AATGCCTTTTGTTTTCTTACA.........................................................................................................................................................................................................................	21	2	1	1.00	1	1	0	0	0
........TGGAAAGTGCCTTTTGTTCCC..............................................................................................................................................................................................................................	21	3	2	0.50	1	0	1	0	0
......GTTGGAAAGTGCCTTTTGT..................................................................................................................................................................................................................................	19	2	2	0.50	1	0	1	0	0
......GTGATAACGTGCCTTTTGT..................................................................................................................................................................................................................................	19	2	2	0.50	1	1	0	0	0
...TGGGTGATAGCGTGCCTTTTG...................................................................................................................................................................................................................................	21	3	3	0.33	1	1	0	0	0
....GGGTGATAGCGTGCCTTTTG...................................................................................................................................................................................................................................	20	3	5	0.20	1	1	0	0	0
.......................................................................................................................................................ATTTTCTCCTGACCTTGAAAAT..............................................................................	22	3	7	0.14	1	1	0	0	0
.......TTGGAAAGTGCCTTTTGTTCC...............................................................................................................................................................................................................................	21	3	7	0.14	1	0	1	0	0
.......TTGGAAAGTGCCTTTTGTT.................................................................................................................................................................................................................................	19	2	16	0.13	2	1	1	0	0
....GGGTGATAGCGTGCCTTTT....................................................................................................................................................................................................................................	19	3	12	0.08	1	1	0	0	0
..................................................................................................CAACAACTGCAACAACAACAA....................................................................................................................................	21	0	18	0.06	1	1	0	0	0
......GTGATACCGTGCCTTTTGT..................................................................................................................................................................................................................................	19	3	19	0.05	1	0	0	1	0
........TGGAAAGTGCCTTTTGTT.................................................................................................................................................................................................................................	18	2	20	0.05	1	1	0	0	0

CCCACCCACCATTTCACGGAAAACAAAGGAATGTATATATTTTAATATATGTATTATATAAAGAAGAAAATGTTGGAAAAATGTACGACGAATGACTTGTTGTTGACGTTGTTGTTGTTGTTGATACATATTATTATTATTACTGTTGGACTAGAAGAGGAATGGAAATTTTATTATTATTATAATTTAACAGAATATTTCGAGATGATTTTTTTGATGTTGTTGTTGGTCCATAAACCTTTATAACGATG **********************************************************************************************************************************................((.(((................))).)).......******************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V117 male body	V118 embryo	M045 female body
.....................................................................................CGACGAAGGACTGGTTGATG..................................................................................................................................................	20	3	5	0.20	1	1	0	0
................................................................................................TTGTTGTTGACGTTGTTGTT.......................................................................................................................................	20	0	20	0.05	1	0	1	0
............................................................................................................TTGTTGTTGTTGTTGATA.............................................................................................................................	18	0	20	0.05	1	0	1	0
.................................................................................................TGTTGTTGACGTTGTTGTT.......................................................................................................................................	19	0	20	0.05	1	0	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004909:6556819-6557069 -	dwi_2771	GGGTGGGTGGTAAAGTGCCTTTTGTTTCCTTACATATATAAAATTAT----ATACATA---A----TAT----ATTTCTTCTTTTACAACCTTTTTACATGCTGCTTA-----CTGAACAACAACTGCAACAACAACAACAACTATG---------------------TATAATAATAATAATGACAACCTGAT---CTTCTCCTTACC--TTTAAAAT-------------------------------------AATAATAATATTAAATTGTCTTATAAAGCTCTACTAAAAAAACTACAACAACAACCAGGT---------ATTTGGAAATATTGCTAC
droVir3	scaffold_13042:3606470-3606635 +		ATT-----------------------------------T----------------------------------CTTTCTTCCTGTACAAC--CTTTACATGCTGCTTTGGAAAA-TAAAATCAACCGCAATTAAAA-------TACATACATACATATATATA-TATCTCTTTAT--TACAATAAC--------AACTTT----CCTCTT--------------------------------------------------------------------GAAAAGCTCTACTAAAAAAACAACAACTACAACCAGGT---------ATTA----TGC--TCTAT
droMoj3	scaffold_6308:831099-831297 +		ATA-----------------------------------TATATTAAAACATATTTA-AATCTTTTCTCTATTTCTTTCTT--CCTATTAC--CTATACATGCTGCTTGGGAA-A-TAAAAAAAACTGCTATTAAAA-------TACATATATATCTATAATTATTATCT--AT-----ACTATAAT--------AACTTT----CCTCAC--------------------GAA---------------------------------------------AAAAAGCTCTACTAAAAAAACAACAACTACAACCAGGT---------ATTC--AATGCTCTCTAC
droGri2	scaffold_15203:1685428-1685492 +		TTGTCGT---------------------------------------------------------------------AC-------ACATT--TTTCACATATTCC------------ACAGCGACAAC------------------------------------------------------------------------------------------------------------------------------------------------------------GACAACAACAGCAACAACAACAACAAC--------------------------------
droPer2	scaffold_820:4829-4975 -		AAC-----------------------------------AACA---------------------------------------------------------------------------------ACAACAACAACAACAACAACAACAAGTAGACCAACAACAATCATCACA-------ACAACAACAAC---AC---CACC---TCCTCCTCCAACAAC-------------------------------------AACAACAACATCA-------------TTCCACACAACATAATCCACAACAACAG-----C---------ATCTGCAACAGCAGCAGC
droBip1	scf7180000395529:233943-234116 -		ATA-----------------------------------AATA-------------------ACTTTTCCCTCT--ATTTCTCTCTATTCT--C-TTCCCTGCTGCTTGGAATAC-GATAATCAACCGCAATTATT---------------------------------TCAATAC-----TATAAT--A---AT---CTTC---TCTCCTATTTAAAAA-------------------------------------AAAATAAAT-------------ATAAAGCTCTACTAAAAAAACAACAACAACAACCAGGT---------ACAAAAAAAAATAACTA-
droKik1	scf7180000302696:443207-443430 +		TTT--------------------GTATTTGTATGTATATACCCTTTTACCTAACTT-AATACTCTCTCTCTCT--TTTTTCCTCTATTCT--CTTTTCCTGCCGCTTGGAATAC-TTAAAACAACCGCAATTATTA---------------------------------TAATAT-----CTTAAT--A---ATCTCCTT----TCTCCTATCTAAAAACAATGCAATATAAA---------------------------------------------AAAAAGCTCTACTAAAAAAACAACAACAACGACCAGGTACAAACAACG-TAGAAAATATAACAAC
droBia1	scf7180000302378:208407-208548 +		AAC-----------------------------------AACA---------------------------------------------------------------------------------ACAACAACAACAACGGCAACAATG---------------------CCGAATC-----TGGT-------------------------------GAAACTAAGCAGTAAAAAGCAAATTCCTGTTAATAAATTACTACCACAATGTTA-----AACTAGAAAGAATGACAAAAAACATAATAATAACTAACCAGT---------ATTT--------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

GGGTGGGTGGTAAAGTGCCTTTTGTTTCCTTACATATATAAAATTAT----ATACATA---A----TAT----ATTTCTTCTTTTACAACCTTTTTACATGCTGCTTA-----CTGAACAACAACTGCAACAACAACAACAACTATG---------------------TATAATAATAATAATGACAACCTGAT---CTTCTCCTTACC--TTTAAAAT-------------------------------------AATAATAATATTAAATTGTCTTATAAAGCTCTACTAAAAAAACTACAACAACAACCAGGT---------ATTTGGAAATATTGCTAC	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...................................................................................................................................................................................................................................................................................................AAAAAAACTACAACAACAACCAGGT---------ATT...............	28	1	1.00	1	0	1	0	0	0
...................................................................................TTACAACCTTTTTACATGCTG...............................................................................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0
......................................................................................................................CAACAACTGCAACAACAACAA............................................................................................................................................................................................................	21	18	0.06	1	0	1	0	0	0

droVir3

ATT-----------------------------------T----------------------------------CTTTCTTCCTGTACAAC--CTTTACATGCTGCTTTGGAAAA-TAAAATCAACCGCAATTAAAA-------TACATACATACATATATATA-TATCTCTTTAT--TACAATAAC--------AACTTT----CCTCTT--------------------------------------------------------------------GAAAAGCTCTACTAAAAAAACAACAACTACAACCAGGT---------ATTA----TGC--TCTAT	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
...............................................................................................TACATGCTGCTTTGGAAAA-TAAAATCA............................................................................................................................................................................................................................	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	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
.......................................................................................................................................A-------TACATACATACATATATAT.....................................................................................................................................................................................	20	20	0.05	1	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	0	0	0	0	0	0

droMoj3

ATA-----------------------------------TATATTAAAACATATTTA-AATCTTTTCTCTATTTCTTTCTT--CCTATTAC--CTATACATGCTGCTTGGGAA-A-TAAAAAAAACTGCTATTAAAA-------TACATATATATCTATAATTATTATCT--AT-----ACTATAAT--------AACTTT----CCTCAC--------------------GAA---------------------------------------------AAAAAGCTCTACTAAAAAAACAACAACTACAACCAGGT---------ATTC--AATGCTCTCTAC	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
No Reads

droGri2

TTGTCGT---------------------------------------------------------------------AC-------ACATT--TTTCACATATTCC------------ACAGCGACAAC------------------------------------------------------------------------------------------------------------------------------------------------------------GACAACAACAGCAACAACAACAACAAC--------------------------------	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droPer2

AAC-----------------------------------AACA---------------------------------------------------------------------------------ACAACAACAACAACAACAACAACAAGTAGACCAACAACAATCATCACA-------ACAACAACAAC---AC---CACC---TCCTCCTCCAACAAC-------------------------------------AACAACAACATCA-------------TTCCACACAACATAATCCACAACAACAG-----C---------ATCTGCAACAGCAGCAGC	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
...................................................................................................................................AACAACAACAACAACAAGT.................................................................................................................................................................................................	19	15	0.07	1	0	0	1	0	0	0

droBip1

ATA-----------------------------------AATA-------------------ACTTTTCCCTCT--ATTTCTCTCTATTCT--C-TTCCCTGCTGCTTGGAATAC-GATAATCAACCGCAATTATT---------------------------------TCAATAC-----TATAAT--A---AT---CTTC---TCTCCTATTTAAAAA-------------------------------------AAAATAAAT-------------ATAAAGCTCTACTAAAAAAACAACAACAACAACCAGGT---------ACAAAAAAAAATAACTA-	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TTT--------------------GTATTTGTATGTATATACCCTTTTACCTAACTT-AATACTCTCTCTCTCT--TTTTTCCTCTATTCT--CTTTTCCTGCCGCTTGGAATAC-TTAAAACAACCGCAATTATTA---------------------------------TAATAT-----CTTAAT--A---ATCTCCTT----TCTCCTATCTAAAAACAATGCAATATAAA---------------------------------------------AAAAAGCTCTACTAAAAAAACAACAACAACGACCAGGTACAAACAACG-TAGAAAATATAACAAC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AAC-----------------------------------AACA---------------------------------------------------------------------------------ACAACAACAACAACGGCAACAATG---------------------CCGAATC-----TGGT-------------------------------GAAACTAAGCAGTAAAAAGCAAATTCCTGTTAATAAATTACTACCACAATGTTA-----AACTAGAAAGAATGACAAAAAACATAATAATAACTAACCAGT---------ATTT--------------	Size	Hit Count	Total Norm	Total
No Reads

dwi_2771

scf2_1100000004909:6556869-6557019 -

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