dmo_997

exon [dmoj_GLEANR_4328:1]; exon [dmoj_GLEANR_4328:2]; CDS [Dmoj\GI19391-cds]; CDS [Dmoj\GI19391-cds]; intron [Dmoj\GI19391-in]

Name	Class	Family	Strand
Gypsy11_I-int	LTR	Gypsy	-

##################################################--------------------------------------------------------------------################################################## CTTATTTGCTTGTGCTCTACTCTTTGCTGCTTTGCTGGCCATGGCAACAGGTAAGCATCAACAGTGGCAACAGTAGCAACAGCAGCAGCAGCAGCTTATCCTCTACTCCTCACTCCAGCTGATGTTGTCATCAATGGCGTCTGTCAGGATTGCTCGCCGCCTGATGCT ************************************************............(((((....(((((....(((.((....)).)))......)))))..)))))....************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V110 male body	V056 head
...........................................................AACAGTGGCAACAGTAGCAAC........................................................................................	21	0	3	1.33	4	0	4	0
..........................................................CAACAGTGGCAACAGTAGCAA.........................................................................................	21	0	3	1.33	4	0	4	0
...........................................................................................................................................TCTGTCAGGATTGCTCGT...........	18	1	1	1.00	1	0	0	1
...............................TTGCTGGCCATGGCAACAG......................................................................................................................	19	0	1	1.00	1	1	0	0
....................................................................................................................................AATGGCGTCTGTCAGGATTGC...............	21	0	1	1.00	1	0	0	1
.........TTGTGCTCTACTCTTTGCTGC..........................................................................................................................................	21	0	1	1.00	1	1	0	0
..............CTCTACTCTTTGCTGCTTTGC.....................................................................................................................................	21	0	1	1.00	1	1	0	0
..........TGTGCTCTACTCTTTGCTG...........................................................................................................................................	19	0	1	1.00	1	1	0	0
......................TTTGCTGCTTTGCTGGCCATGGCA..........................................................................................................................	24	0	1	1.00	1	1	0	0
......................................................................................................................ATGATGGTGTCATGAATGGCGT............................	22	3	2	0.50	1	0	1	0
.....................................................................ACAGTAGCAACAGCAGCAGC...............................................................................	20	0	11	0.09	1	1	0	0

GAATAAACGAACACGAGATGAGAAACGACGAAACGACCGGTACCGTTGTCCATTCGTAGTTGTCACCGTTGTCATCGTTGTCGTCGTCGTCGTCGAATAGGAGATGAGGAGTGAGGTCGACTACAACAGTAGTTACCGCAGACAGTCCTAACGAGCGGCGGACTACGA ************************************************............(((((....(((((....(((.((....)).)))......)))))..)))))....************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V056 head	M046 female body	V110 male body
GAATAAACGAACACGAGATG....................................................................................................................................................	20	0	1	1.00	1	0	1	0
........................................................................................................................................CGCAGACAGTCCTAACGAGC............	20	0	1	1.00	1	1	0	0
............................................................................................................................TACAGTAGTTGCCGCAGACAAT......................	22	3	3	0.33	1	1	0	0
..........................................................GTTGTCACCGTTGTCATC............................................................................................	18	0	3	0.33	1	0	0	1
..........................................................GTTGTCACCGTTGTCATCGTT.........................................................................................	21	0	3	0.33	1	0	1	0
..............................................................................................................................CAGTAGTTGCCGCACACACT......................	20	3	7	0.14	1	1	0	0
..............................................................................................................................CAGTAGTTGCCACAGACAAT......................	20	3	7	0.14	1	1	0	0
.............................GAAACGACCGTTACCTTTGTA......................................................................................................................	21	3	12	0.08	1	1	0	0

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6496:6192451-6192618 -	dmo_997	CT---TAT---TT---GCTTGTGCTCTACTCTTTGCTGCTTTGCTGGCCATGGCAAC------AGGTAAGCATCAAC-AGT------------------G--G-------CA-ACAGTAGCAACAGCA----------------GCAGCAGCAGCTTATCCTCT----------------A----C-T-CCTCACTCCAGC---TGATGTTGTCATCAATGGCGTCTGTCAGGATTGCTCGCCGCCTGATGCT
droVir3	scaffold_12875:20002555-20002750 +		GT---TAT---TTTTGATCTGTGCTCTGTTTGCCGCAGTCTTGGCA---TTGG---C------GGGTAAGCATTCCC---GCATCTATGTGCCCACAGCTCCTTAACAC-------GATC----CCGATCTTTCGCTCTCT-------------------CTCTCTCTCTCGCACTCTGTCTCCGCCT-G-----CCCAGCCGGCAATGTGGTCATCAATGGCGCCTGCCGGGACTGCTCGCCGCCAGATGCT
droGri2	scaffold_15245:11531656-11531837 -		AT---TGT---TT---GTCTGCGCTTTG---TTTGCCATCCTTGTGGCCCTGGCAGC------CGGTAAGAATCTCA---GC-------C-------------------GTCTCCTTTCA--GC-----------------ATTGAATTCCTTATGACTTCTCTATCTCTCTCTCTCTCTCTCTGCATAA-----CTTAGCTGGCACCGTTGTCATCAACGGTGTCTGCCGAGATTGCACTCCACCAGACGCT
droWil2	scf2_1100000004954:3523669-3523852 +		CC---TAAGCCTT---GCGTTTGTTGTC---CTCACCGCCTTGGTGGCCCAGTCAAC------AGGTATGCGATGAC-AGG------------------A--TTAA-------ACTGAAG----GCATCACCTCGCTTTATGTT----------------GCCTCTCTCTCTCTCTCTTTGTCTGTTT-T-----CCTAGCTGGTAAAGTGATTATCAATGGCAAATGCCAGAACTGCAGTCCTCCAGATGCA
dp5	XL_group1a:2554635-2554711 -		TC-----------------------------GTTGCTGCT--GCCAGCCACAGCAACAGCAGCAA-C-AGCAGC-----------------------------------------------------------------------------------------------------------------------------------AACAGCAGCAACAGCAGCAACAGCAGCAACAGCAG------------C
droPer2	scaffold_4:6932670-6932741 -		CC---TCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTCTCTAA-T-----CCCAGCTGGAACCGTGGTCATCAACGGAAGCTGCAAGGATTGCAGTCCCCCCGTCGCC
droAna3	scaffold_13266:4269162-4269341 +		GTGTTTAATTTTT---GCCTTTGCCACT---GCCGTTGTCCTGGCGTCCCTGGTGAC------AGGTAACCGCACAA-AAA------------------A--A-------AA-ACACTA------TAATCCTTCCTTAGAGAACGTTTCATTCATTATTTCGTT----------------A----CAC-T-----TTCAGCCGGAAATGTGATTATTGGAGGCGCCTGTCGGGATTGCAGTCCTCCGGTGGCG
droBip1	scf7180000395751:83469-83526 +		TT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGCCGGAAATGTGATTATTGGCGGCGCCTGCCGGGATTGCAGCCCTCCGGTGGCG
droKik1	scf7180000302471:69550-69725 +		TT---GT----------CCTTTGCTATT---GCCGCTGTCCTGGTGTCCCTGGCTTC------AGGTAAGCAGAC---AGGCG-CAATGGTCCTACTCCACCTTCTCCC-------GTTA--TCCCCA---------------GCATTCACTCATTATTCCAAT----------------C----C-T-C-----CATAGCCGGAACCGTGGTTATTGGCGGCCGATGCCTGGATTGCAGTCCGCCGGTGGGC
droRho1	scf7180000777700:11778-11845 +		TC---CAT-----------------------------------------------------------------------------------------------------------------------------------------------------------T----------------A----C-T-C-----CACAGCCGGAAATGTGATTATCGGCGGAACCTGCCGGGATTGCAGTCCGCCGGTGGCC
droBia1	scf7180000302292:2299192-2299336 -		TT-----------------------------GCCGCAGTCCTGGTTTCCCAGGCCAC------AGGTAGGAATCAGATG----------G-------------------TCCCCCTTTCA--GCCGCA---------------CGTTTCCCTTATTATTCCATT----------------A----C-T-C-----CGCAGCCGGAAATGTGATTATCGGCGGAGCGTGCCGGGATTGTAGTCCGCCGGTGGCG
droEug1	scf7180000409672:3278910-3278956 -		A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGATTATCGGCGGAGCTTGCCGGGATTGCAGTCCTCCGGTGGCG
droSim2	2r:14937627-14937673 -		A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGATTATCGGCGGAGTATGCCAGGATTGCAGTCCTCCGGTGGCG
droEre2	scaffold_4845:8476924-8477068 -		TT-----------------------------GTCGCTGTCCTGGCTTTCCAGGCCAC------AGGTAGGAATCAGATG----------G-------------------GCA-CCTCTCACCGCCACA----------------ATTTCACTTATTATTTCATT----------------A----C-T-C-----CGCAGCCGGAGATGTGATTATCGGCGGAGTATGCCAGGATTGCAGTCCTCCGGTGGCG

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

CT---TAT---TT---GCTTGTGCTCTACTCTTTGCTGCTTTGCTGGCCATGGCAAC------AGGTAAGCATCAAC-AGT------------------G--G-------CA-ACAGTAGCAACAGCA----------------GCAGCAGCAGCTTATCCTCT----------------A----C-T-CCTCACTCCAGC---TGATGTTGTCATCAATGGCGTCTGTCAGGATTGCTCGCCGCCTGATGCT	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
..........................................................................AAC-AGT------------------G--G-------CA-ACAGTAGCAAC.................................................................................................................................	21	3	1.33	4	0	0	0	0	0	4
.........................................................................CAAC-AGT------------------G--G-------CA-ACAGTAGCAA..................................................................................................................................	21	3	1.33	4	0	0	0	0	0	4
................................................................................................................................................................................................................................TCTGTCAGGATTGCTCGT...........	18	1	1.00	1	0	0	0	1	0	0
........................................TTGCTGGCCATGGCAAC------AG............................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
.........................................................................................................................................................................................................................AATGGCGTCTGTCAGGATTGC...............	21	1	1.00	1	0	0	0	1	0	0
..................TTGTGCTCTACTCTTTGCTGC......................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
.......................CTCTACTCTTTGCTGCTTTGC.................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
...................TGTGCTCTACTCTTTGCTG.......................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
...............................TTTGCTGCTTTGCTGGCCATGGCA......................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
.................................................................................................................ACAGTAGCAACAGCA----------------GCAGC........................................................................................................	20	11	0.09	1	1	0	0	0	0	0

droVir3

GT---TAT---TTTTGATCTGTGCTCTGTTTGCCGCAGTCTTGGCA---TTGG---C------GGGTAAGCATTCCC---GCATCTATGTGCCCACAGCTCCTTAACAC-------GATC----CCGATCTTTCGCTCTCT-------------------CTCTCTCTCTCGCACTCTGTCTCCGCCT-G-----CCCAGCCGGCAATGTGGTCATCAATGGCGCCTGCCGGGACTGCTCGCCGCCAGATGCT	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
........................................................................................................................................................................................................................CAATGGCGCCTGCCGGGACTG................	21	1	3.00	3	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	1	1	0
..........................................................................................................................................................................................................................ATGGCGCCTGCCGGGACTGCT..............	21	1	3.00	3	1	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............TTGATCTGTGCTCTGTTTGCC...........................................................................................................................................................................................................................	21	1	2.00	2	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	1	0	0
................ATCTGTGCTCTGTTTGCCGCA........................................................................................................................................................................................................................	21	1	2.00	2	0	1	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	0	0	0
.................................................................................................................................................................................................................................CTGCCGGGACTGCTCGCCGCC.......	21	1	2.00	2	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.................................................................................................................................................................................................................TGGTCATCAATGGCGCCTGCC.......................	21	1	2.00	2	0	0	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................GCAATGTGGTCATCAATGGCG.............................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0
.....TAT---TTTTGATCTGTGCTCT..................................................................................................................................................................................................................................	19	1	1.00	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................................................GCAATGTGGTCATCAATGGC..............................	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
................................................................................................................................................................................................................GTGGTCATCAATGGCGCCTGC........................	21	1	1.00	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
................................................................................................................................................................................................................................CCTGCCGGGACTGCTCGCCGC........	21	1	1.00	1	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	0	0	0	0	0
...........................................................................................................................................................................................................GCAATGTGGTCATCAATGG...............................	19	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................................................................................TCAATGGCGCCTGCCGGGACT.................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
............................................................................................................................................................................................................CAATGTGGTCATCAATGGCGC............................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................TGCCGGGACTGCTCGCCGCCAGA....	23	1	1.00	1	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	0
..............................................................................................................................................................................................................ATGTGGTCATCAATGGCGCCT..........................	21	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	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
................................................................................................................................................................................................................GTGGTCATCAATGGCGCCTG.........................	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
...............GATCTGTGCTCTGTTTGCCGC.........................................................................................................................................................................................................................	21	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
GT---TAT---TTTTGATCTGTGCT....................................................................................................................................................................................................................................	19	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
........................................................................................................................................................................................................................CAATGGCGCCTGCCGGGACT.................	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
.....TAT---TTTTGATCTGTGCTCTGT................................................................................................................................................................................................................................	21	1	1.00	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	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..............TGATCTGTGCTCTGTTTGCCGT.........................................................................................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

droGri2

AT---TGT---TT---GTCTGCGCTTTG---TTTGCCATCCTTGTGGCCCTGGCAGC------CGGTAAGAATCTCA---GC-------C-------------------GTCTCCTTTCA--GC-----------------ATTGAATTCCTTATGACTTCTCTATCTCTCTCTCTCTCTCTCTGCATAA-----CTTAGCTGGCACCGTTGTCATCAACGGTGTCTGCCGAGATTGCACTCCACCAGACGCT	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACT............	18	1	4.00	4	4	0
........................................................................................................................................................................................................................................GATTGCACTCCACCAGACG..	19	1	4.00	4	4	0
.................TCTGCGCTTTG---TTTGCCATC.....................................................................................................................................................................................................................	20	1	4.00	4	4	0
...........................G---TTTGCCATCCTTGTGGCCCTG.........................................................................................................................................................................................................	22	1	4.00	4	4	0
......................................................................................................................................................................................................................ATCAACGGTGTCTGCCGAG....................	19	1	3.00	3	3	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATTG................	20	1	3.00	3	3	0
................................................................................................................................................................................................................GTTGTCATCAACGGTGTCTG.........................	20	1	3.00	3	2	1
......................................................................................................................................................................................................................................GAGATTGCACTCCACCAGACG..	21	1	3.00	3	3	0
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACTCCACCA......	24	1	3.00	3	3	0
...................................................................................................................................................................................................................GTCATCAACGGTGTCTGCCGA.....................	21	1	3.00	3	3	0
................................................................................................................................................................................................................GTTGTCATCAACGGTGTCTGCCGAGATT.................	28	1	3.00	3	3	0
............................................................................................................................................................................................................................GGTGTCTGCCGAGATTGCA..............	19	1	3.00	3	3	0
......GT---TT---GTCTGCGCTTTG---TTT...........................................................................................................................................................................................................................	19	1	2.00	2	0	2
.................................................................................................................................................................................................................................CTGCCGAGATTGCACTCCA.........	19	1	2.00	2	2	0
.......................................................................................................................................................................................................................TCAACGGTGTCTGCCGAGATTGCA..............	24	1	2.00	2	2	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATT.................	19	1	2.00	2	2	0
..................................................................................................................................................................................................................................TGCCGAGATTGCACTCCACC.......	20	1	2.00	2	2	0
........................................................................................................................................................................................................................CAACGGTGTCTGCCGAGATTGCACTCC..........	27	1	2.00	2	1	1
................GTCTGCGCTTTG---TTTGCC........................................................................................................................................................................................................................	18	1	2.00	2	2	0
..........................................................................................................................................................................................................................ACGGTGTCTGCCGAGATTGCA..............	21	1	2.00	2	1	1
..........................................................................................................................................................................................................................ACGGTGTCTGCCGAGATTGCACTCCA.........	26	1	2.00	2	2	0
.......................................................................................................................................................................................................GCTGGCACCGTTGTCATC....................................	18	1	2.00	2	2	0
................GTCTGCGCTTTG---TTTGCCAT......................................................................................................................................................................................................................	20	1	2.00	2	2	0
..........................................................................................................................................................................................................................ACGGTGTCTGCCGAGATTG................	19	1	2.00	2	2	0
..................................................................................................................................................................................................................TGTCATCAACGGTGTCTGCC.......................	20	1	2.00	2	2	0
...........................G---TTTGCCATCCTTGTGGCCCTGGCAGC------C.............................................................................................................................................................................................	28	1	2.00	2	2	0
...................................................................................................................................................................................................................................GCCGAGATTGCACTCCACC.......	19	1	2.00	2	2	0
................................................................................................................................................................................................................GTTGTCATCAACGGTGTCTGCCGA.....................	24	1	2.00	2	2	0
.......................................................................................................................................................................................................................................AGATTGCACTCCACCAGACG..	20	1	2.00	2	2	0
...................................................................................................................................................................................................................GTCATCAACGGTGTCTGCC.......................	19	1	2.00	2	2	0
...........................G---TTTGCCATCCTTGTGGCCCTGGCA......................................................................................................................................................................................................	25	1	2.00	2	2	0
.............................................................................................................................................................................................................................GTGTCTGCCGAGATTGCACTCCA.........	23	1	2.00	2	2	0
...............................TTTGCCATCCTTGTGGCCCT..........................................................................................................................................................................................................	20	1	2.00	2	2	0
...................................CCATCCTTGTGGCCCTGGCA......................................................................................................................................................................................................	20	1	2.00	2	2	0
....................................CATCCTTGTGGCCCTGGCAGC------..............................................................................................................................................................................................	21	1	2.00	2	2	0
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACTCCACCAGAC...	27	1	1.00	1	1	0
...................................................................................................................................................................................................................................GCCGAGATTGCACTCCACCA......	20	1	1.00	1	1	0
.......................................................................................................................................................................................................................TCAACGGTGTCTGCCGAGATTGCACTCC..........	28	1	1.00	1	1	0
.......................CTTTG---TTTGCCATCCTTGTGGC.............................................................................................................................................................................................................	22	1	1.00	1	1	0
..................................GCCATCCTTGTGGCCCTGGCA......................................................................................................................................................................................................	21	1	1.00	1	1	0
.....TGT---TT---GTCTGCGCTTTG---TTTGCCA.......................................................................................................................................................................................................................	24	1	1.00	1	1	0
AT---TGT---TT---GTCTGCGCTTT..................................................................................................................................................................................................................................	18	1	1.00	1	1	0
.....................................................................................................................................................................................................................................CGAGATTGCACTCCACCA......	18	1	1.00	1	1	0
..........................................................................................................................................................................................................................................TTGCACTCCACCAGACGCT	19	1	1.00	1	1	0
................................................................................................................................................................................................................GTTGTCATCAACGGTGTCT..........................	19	1	1.00	1	1	0
................GTCTGCGCTTTG---TTTGCCATC.....................................................................................................................................................................................................................	21	1	1.00	1	1	0
...............................TTTGCCATCCTTGTGGCCCTG.........................................................................................................................................................................................................	21	1	1.00	1	1	0
..................................................................................................................................................................................................................TGTCATCAACGGTGTCTGCCGAGATT.................	26	1	1.00	1	1	0
AT---TGT---TT---GTCTGCGCTTTG---TTTGCCAT......................................................................................................................................................................................................................	27	1	1.00	1	1	0
..........................................................................................................................................................................................................................ACGGTGTCTGCCGAGATTGC...............	20	1	1.00	1	1	0
............T---GTCTGCGCTTTG---TTTGCC........................................................................................................................................................................................................................	19	1	1.00	1	1	0
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACTCCACCAGA....	26	1	1.00	1	1	0
..........................TG---TTTGCCATCCTTGTGGCCCTG.........................................................................................................................................................................................................	23	1	1.00	1	1	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATTGCACT............	24	1	1.00	1	1	0
.......T---TT---GTCTGCGCTTTG---TTTGCCAT......................................................................................................................................................................................................................	23	1	1.00	1	1	0
........................................................................................................................................................................................................................................GATTGCACTCCACCAGAC...	18	1	1.00	1	1	0
...................................................................................................................................................................................................................GTCATCAACGGTGTCTGCCGAGATTGC...............	27	1	1.00	1	1	0
AT---TGT---TT---GTCTGCGCTTTG---TTTGCC........................................................................................................................................................................................................................	25	1	1.00	1	1	0
...................TGCGCTTTG---TTTGCCATCCT...................................................................................................................................................................................................................	20	1	1.00	1	1	0
...........................................................................................................................................................................................................................CGGTGTCTGCCGAGATTGCAC.............	21	1	1.00	1	1	0
..........................................................................................................................................................................................................................ACGGTGTCTGCCGAGATTGCACTCC..........	25	1	1.00	1	1	0
...........................................................................................................................................................................................................................CGGTGTCTGCCGAGATTG................	18	1	1.00	1	1	0
.........................TTG---TTTGCCATCCTTGTGGCCCTG.........................................................................................................................................................................................................	24	1	1.00	1	1	0
...................................................................................................................................................................................................................................GCCGAGATTGCACTCCACCAGACG..	24	1	1.00	1	1	0
.......................CTTTG---TTTGCCATCCTTGTG...............................................................................................................................................................................................................	20	1	1.00	1	1	0
........................................CTTGTGGCCCTGGCAGC------CG............................................................................................................................................................................................	19	1	1.00	1	1	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATTGCA..............	22	1	1.00	1	1	0
.......................................................................................................................................................................................................................................AGATTGCACTCCACCAGACGC.	21	1	1.00	1	1	0
................................................................................................................................................................................................................GTTGTCATCAACGGTGTCTGCCGAGATGC................	29	1	1.00	1	1	0
......GT---TT---GTCTGCGCTTTG---TTTG..........................................................................................................................................................................................................................	20	1	1.00	1	1	0
.....................................................................................................................................................................................................................................CGAGATTGCACTCCACCAGAC...	21	1	1.00	1	1	0
........................................................................................................................................................................................................................................GATTGCACTCCACCAGACGCT	21	1	1.00	1	1	0
...................................................................................................................................................................................................................GTCATCAACGGTGTCTGCCG......................	20	1	1.00	1	1	0
......GT---TT---GTCTGCGCTTTG---TTTGCCATCC....................................................................................................................................................................................................................	26	1	1.00	1	1	0
.......................................................................................................................................................................................................................TCAACGGTGTCTGCCGAGATTG................	22	1	1.00	1	1	0
.T---TGT---TT---GTCTGCGCTTTG---TTTGCCATC.....................................................................................................................................................................................................................	27	1	1.00	1	1	0
...............................TTTGCCATCCTTGTGGCCCTGGCAGC------C.............................................................................................................................................................................................	27	1	1.00	1	1	0
......GT---TT---GTCTGCGCTTTG---TTTGCCAT......................................................................................................................................................................................................................	24	1	1.00	1	1	0
......GT---TT---GTCTGCGCTTTG---TTTGCC........................................................................................................................................................................................................................	22	1	1.00	1	1	0
.............................................................................................................GTCTCCTTTCA--GC-----------------ATTGAATTC.......................................................................................................	22	1	1.00	1	1	0
......................................................................................................................................................................................................................ATCAACGGTGTCTGCCGAGATTGCACT............	27	1	1.00	1	1	0
....................................CATCCTTGTGGCCCTGGCAG.....................................................................................................................................................................................................	20	1	1.00	1	1	0
.....................................ATCCTTGTGGCCCTGGCAGC------..............................................................................................................................................................................................	20	1	1.00	1	1	0
...................................................................................................................................................................................................................GTCATCAACGGTGTCTGCCGAGATT.................	25	1	1.00	1	1	0
.......................CTTTG---TTTGCCATCCTTGTGG..............................................................................................................................................................................................................	21	1	1.00	1	1	0
......................................................................................................................................................................................................................................GAGATTGCACTCCACCAGAC...	20	1	1.00	1	1	0
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACTCC..........	20	1	1.00	1	1	0
.........................................................................................................................................................................................................................................ATTGCACTCCACCAGACGCT	20	1	1.00	1	0	1
......................................................................................................................................................................................................................ATCAACGGTGTCTGCCGAGATTGCA..............	25	1	1.00	1	1	0
...................................................................................................................................................................................................................GTCATCAACGGTGTCTGC........................	18	1	1.00	1	1	0
................GTCTGCGCTTTG---TTTGCCATCCT...................................................................................................................................................................................................................	23	1	1.00	1	1	0
.................TCTGCGCTTTG---TTTGCCAT......................................................................................................................................................................................................................	19	1	1.00	1	1	0
.......................................................................................................................................................................................................................TCAACGGTGTCTGCCGAGATT.................	21	1	1.00	1	1	0
.............................................................................................................................................................................................................................GTGTCTGCCGAGATTGCAC.............	19	1	1.00	1	1	0
.......T---TT---GTCTGCGCTTTG---TTTG..........................................................................................................................................................................................................................	19	1	1.00	1	1	0
...................................CCATCCTTGTGGCCCTGGCAG.....................................................................................................................................................................................................	21	1	1.00	1	1	0
...................................................................................................................................................................................................................................GCCGAGATTGCACTCCACCAGAC...	23	1	1.00	1	1	0
...........................G---TTTGCCATCCTTGTGGCCCTGGCAGC------..............................................................................................................................................................................................	27	1	1.00	1	1	0
.......................................................................................................................................................................................................GCTGGCACCGTTGTCATCAACGGT..............................	24	1	1.00	1	1	0
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACTCCAC........	22	1	1.00	1	1	0
.......................CTTTG---TTTGCCATCCTTGTGGCCCTGGC.......................................................................................................................................................................................................	28	1	1.00	1	1	0
................GTCTGCGCTTTG---TTTGCCA.......................................................................................................................................................................................................................	19	1	1.00	1	1	0
....................................................................................................................................................................................................................................CCGAGATTGCACTCCACCAGACG..	23	1	1.00	1	1	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATTGC...............	21	1	1.00	1	1	0
.................................................................................................................................................................................................................TTGTCATCAACGGTGTCTGCCGAG....................	24	1	1.00	1	1	0
...............................................................................................................................................................................................................................GTCTGCCGAGATTGCACTC...........	19	1	1.00	1	1	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATTGCACTCCACC.......	29	1	1.00	1	1	0
.........................................................................................................................................................................................................................AACGGTGTCTGCCGAGATTGA...............	21	1	1.00	1	0	1
..................................................................................................................................................................................................................TGTCATCAACGGTGTCTGCCG......................	21	1	1.00	1	1	0

droWil2

CC---TAAGCCTT---GCGTTTGTTGTC---CTCACCGCCTTGGTGGCCCAGTCAAC------AGGTATGCGATGAC-AGG------------------A--TTAA-------ACTGAAG----GCATCACCTCGCTTTATGTT----------------GCCTCTCTCTCTCTCTCTTTGTCTGTTT-T-----CCTAGCTGGTAAAGTGATTATCAATGGCAAATGCCAGAACTGCAGTCCTCCAGATGCA	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
...............................................................................................................................................................................................................................AAATGCCAGAACTGCAGTCCTCC.......	23	1	2.00	2	2	0	0	0	0
...........................................................................AC-AGG------------------A--TTAA-------ACTGAAG----GCATC............................................................................................................................	22	1	2.00	2	2	0	0	0	0
...............................................................................................................................................................................................................................AAATGCCAGAACTGCAGTCCTC........	22	1	2.00	2	2	0	0	0	0
.........CCTT---GCGTTTGTTGTC---CTCA..........................................................................................................................................................................................................................	20	1	1.00	1	0	1	0	0	0
...................................................................................................................................................................................................................................GCCAGAACTGCAGTCCTCCAGATG..	24	1	1.00	1	0	1	0	0	0
.............................................................................................................................................................................................................................GCAAATGCCAGAACTGCAGTCCTC........	24	1	1.00	1	1	0	0	0	0
............................................................................................................................................................................CTCTCTTTGTCTGTTT-T-----CCTA......................................................	21	1	1.00	1	0	0	0	0	1
......AAGCCTT---GCGTTTGTTGTC---CTCACCGCCT....................................................................................................................................................................................................................	29	1	1.00	1	0	0	1	0	0
...................................................................ATGCGATGAC-AGG------------------A--TTAA-------ACTGAAG----GCA..............................................................................................................................	28	1	1.00	1	1	0	0	0	0

dp5

TC-----------------------------GTTGCTGCT--GCCAGCCACAGCAACAGCAGCAA-C-AGCAGC-----------------------------------------------------------------------------------------------------------------------------------AACAGCAGCAACAGCAGCAACAGCAGCAACAGCAG------------C

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

CC---TCT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------GTCTCTAA-T-----CCCAGCTGGAACCGTGGTCATCAACGGAAGCTGCAAGGATTGCAGTCCCCCCGTCGCC	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
.....................................................................................................................................................................................................................CATCAACGGAAGCTGCAAGGATTGC...............	25	1	1.00	1	1	0	0	0	0	0
......................................................................................................................................................................................................AGCTGGAACCGTGGTCATCAAC.................................	22	1	1.00	1	0	0	0	0	1	0

droAna3

GTGTTTAATTTTT---GCCTTTGCCACT---GCCGTTGTCCTGGCGTCCCTGGTGAC------AGGTAACCGCACAA-AAA------------------A--A-------AA-ACACTA------TAATCCTTCCTTAGAGAACGTTTCATTCATTATTTCGTT----------------A----CAC-T-----TTCAGCCGGAAATGTGATTATTGGAGGCGCCTGTCGGGATTGCAGTCCTCCGGTGGCG	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
....................................................................................................................................................................................................................TTATTGGAGGCGCCTGTCGGGATTGC...............	26	1	3.00	3	0	0	0	0	0	3
......................................................................................................................................................................................................................ATTGGAGGCGCCTGTCGGGAA..................	21	1	1.00	1	0	0	0	0	0	1
................GCCTTTGCCACT---GCCGTTGTCCTGG.................................................................................................................................................................................................................	25	1	1.00	1	1	0	0	0	0	0
..........................................................................................................................................................................................................................GAGGCGCCTGTCGGGATTGCAGTCC..........	25	1	1.00	1	0	0	0	0	0	1
...........TT---GCCTTTGCCACT---GCCGTTG.......................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0

droBip1

TT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAGCCGGAAATGTGATTATTGGCGGCGCCTGCCGGGATTGCAGCCCTCCGGTGGCG	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TT---GT----------CCTTTGCTATT---GCCGCTGTCCTGGTGTCCCTGGCTTC------AGGTAAGCAGAC---AGGCG-CAATGGTCCTACTCCACCTTCTCCC-------GTTA--TCCCCA---------------GCATTCACTCATTATTCCAAT----------------C----C-T-C-----CATAGCCGGAACCGTGGTTATTGGCGGCCGATGCCTGGATTGCAGTCCGCCGGTGGGC	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TC---CAT-----------------------------------------------------------------------------------------------------------------------------------------------------------T----------------A----C-T-C-----CACAGCCGGAAATGTGATTATCGGCGGAACCTGCCGGGATTGCAGTCCGCCGGTGGCC	Size	Hit Count	Total Norm	Total
No Reads

droBia1

TT-----------------------------GCCGCAGTCCTGGTTTCCCAGGCCAC------AGGTAGGAATCAGATG----------G-------------------TCCCCCTTTCA--GCCGCA---------------CGTTTCCCTTATTATTCCATT----------------A----C-T-C-----CGCAGCCGGAAATGTGATTATCGGCGGAGCGTGCCGGGATTGTAGTCCGCCGGTGGCG	Size	Hit Count	Total Norm	Total
No Reads

droEug1

A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGATTATCGGCGGAGCTTGCCGGGATTGCAGTCCTCCGGTGGCG	Size	Hit Count	Total Norm	Total
No Reads

droSim2

A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGTGATTATCGGCGGAGTATGCCAGGATTGCAGTCCTCCGGTGGCG	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
................................................................................................................................................................................................................................TATGCCAGGATTGCAGTCCTCCGG.....	24	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
................................................................................................................................................................................................................GTGATTATCGGCGGAGTATGC........................	21	1	1.00	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................GAGTATGCCAGGATTGCA..............	18	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0

droEre2

TT-----------------------------GTCGCTGTCCTGGCTTTCCAGGCCAC------AGGTAGGAATCAGATG----------G-------------------GCA-CCTCTCACCGCCACA----------------ATTTCACTTATTATTTCATT----------------A----C-T-C-----CGCAGCCGGAGATGTGATTATCGGCGGAGTATGCCAGGATTGCAGTCCTCCGGTGGCG	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
TT-----------------------------GTCGCTGTCCTGGCTTTCCAGGCCAC------AG............................................................................................................................................................................................	30	1	1.00	1	0	0	0	0	0	1	0
.................................................................GTAGGAATCAGATG----------G-------------------GCA-CCTCTCACCG..................................................................................................................................	28	1	1.00	1	0	0	0	0	1	0	0

dmo_997

scaffold_6496:6192501-6192568 -

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