dwi_3312

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- AATATTCCTTGTGTGCATGTTGGCTGCTTGTTTGGCCGCTGTTAAGCATCGTGAGTGGACTTTAAAATTATGAGAATATAAATTATTGGCATTGTTTCAGATTAGAACACAAAACCATTTTAAAATAAAACCAGAGGGCCGGGGCTAACTTTAACCACGTCAAAGTTTGAATACCTTTGCAACTTATTTGATAATTTTTTCCTTACCCATAGCCATCAAAGTGGAAAAATGTTTTATCTAAAAAGGCTAAT ************************************************.............((((((((.(((...........(((..(((((((......))).))))..)))..............((((((.........((((((.((...)).))))))......)))))).......))).))))))))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M020 head	M045 female body	V118 embryo
..........................CTTGTTTGGCCGCTGTTA...............................................................................................................................................................................................................	18	0	1	1.00	1	1	0	0
.............................................................................................................................TAAAACCAGAGGGCCGGGGCTAACTT....................................................................................................	26	0	20	0.20	4	0	4	0
......CCTTGTGTGCTTGCTGGC...................................................................................................................................................................................................................................	18	2	10	0.10	1	0	1	0
.............................................................................................................................TAAAACCAGAGGGCCGGGGCTAACT.....................................................................................................	25	0	20	0.10	2	0	0	2
......CCTTGGGTGCTTGTTGGC...................................................................................................................................................................................................................................	18	2	11	0.09	1	0	1	0
............GTGCTTGTGGACTGCTTGTT...........................................................................................................................................................................................................................	20	3	14	0.07	1	0	1	0
............GTGCTTGTTGACTGCTTGGT...........................................................................................................................................................................................................................	20	3	18	0.06	1	0	0	1
......................................................................................................................................................................................................TTCCTTACCCATAGCCATCAAAGT.............................	24	0	19	0.05	1	0	0	1
.............................................................................................................................TAAAACCAGAGGGCCGGGGCTAACTTT...................................................................................................	27	0	20	0.05	1	0	0	1
............................................................................................................................ATAAAACCAGAGGGCCGGGGC..........................................................................................................	21	0	20	0.05	1	0	1	0

TTATAAGGAACACACGTACAACCGACGAACAAACCGGCGACAATTCGTAGCACTCACCTGAAATTTTAATACTCTTATATTTAATAACCGTAACAAAGTCTAATCTTGTGTTTTGGTAAAATTTTATTTTGGTCTCCCGGCCCCGATTGAAATTGGTGCAGTTTCAAACTTATGGAAACGTTGAATAAACTATTAAAAAAGGAATGGGTATCGGTAGTTTCACCTTTTTACAAAATAGATTTTTCCGATTA ************************************************.............((((((((.(((...........(((..(((((((......))).))))..)))..............((((((.........((((((.((...)).))))))......)))))).......))).))))))))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V118 embryo	M045 female body	V117 male body
........................................................................................................................................................................................................GGAATGGGTATCGGTAGTTTCACCT..........................	25	0	18	0.11	2	2	0	0
.......................................................................................................................................................................................................................AGTTTCACCTTTTTACAAAATAGAT...........	25	0	12	0.08	1	0	1	0
.........................................................................................................................................................................................................GAATGGGTATCGGTAGTTT...............................	19	0	20	0.05	1	1	0	0
......................................................................................................................................................................................................AAGGGATGGGTATCGGTAGTT................................	21	1	20	0.05	1	0	1	0
.......................................................................................................................................................................................................AGGAATGGGTATCGGTAGTT................................	20	0	20	0.05	1	1	0	0
.......................................................................................................................................................................................................AGGAATGGGTATCGGTAGTTT...............................	21	0	20	0.05	1	0	0	1
......................................................................................................................................................................................................AAGGAATGGGTATCGGTAGTTT...............................	22	0	20	0.05	1	1	0	0

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004943:6332216-6332466 +	dwi_3312	AATATTC-CTTGT----GTGCATGTTGGC----T------G-------------------------------------------------------------------------------------------------------------------CTTGTT----TGGCCGCTGTTAAGCATCGTGAGTGGACTTTAAAA---TTA--TGAG---AATATAAA---TTAT-----------TGGCATT-----------------------GTTTCAGATTAGAACACAAAACCATTTTAAA--ATAAAACCA------GAGGGCCG-GGGCTAACTTTAACC-ACGTCAAAGTTTGAATACC-TTTGCAACTTAT----------------TTGATAATTTT---TT------------C----CTT---ACCCATAGCCATCAAAGTGGAAAA-----------------------------------------ATGTTTTATCTAAAAAGGCTAAT
droVir3	scaffold_13049:23601273-23601532 +		CAAATTA-TTTTT-CAAGTTAATATTTACTTTTT-----------------------------------------------------------------------------------------------------------------------------GTA----TAGGCTC--CAAGATAA-TTTGACAGACTTTTCAA---TTT--GAATTATGGT--ATA---TTAT-----------TGC-TTT-----------------------TTTTCAAATTATTTTTCAAGTATATATTTAT--ATGAAATTAAAAAACGAGAAAGAAGGGCTATCTTCGGC--ACGCCAAAGATCTAATACC-CTTGCAGACCCACCCT----------T-TTCATAATGCTCATACT-----------G----C----------------------------------------TTTGCCTCTATCTAAGAAGTACCGGGAAAATAGTAAATGCC----------GA
droPer2	scaffold_1:6527123-6527178 +		GCTGCTG-CTCTG----CTGCCTGATGGC----A------A-------------------------------------------------------------------------------------------------------------------GTGCTT----TGGCCACACTCAAGTCGCGTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGT
droAna3	scaffold_12911:88070-88101 -		AATGTGG-CAAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAATT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTGCCAAAAGAGG--AAT
droBip1	scf7180000396823:13927-14008 -		TAGCATT-TGAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTCATTTTAAT--CTGAA--------ACAAGAAAGCAAAGCTAACTTCGGGCGGAGCCGAAGTTGATATACC-CTTGCAGCT--------------------------------------------------------------------------------------------------------------------------------------------------
droKik1	scf7180000302389:506520-506781 -		AATATAT-GTTCCCTGTGTTAATATTTTTGTTTTATACTAGAAATG-------------------TATGCTAAGTTTATAATATATATTTAAAAGAATCGTACTTAATCTTGTAAAATACAAAAATCAATCAAAAA------------CCA--------------------------------------------------------------------------------------------------------------------------------------------------------AGAAAAA--------ACAAGAAAGG-AAGCTAACTTCGGC--ACACCGAAGTTTGTATACC-CTTGCAGATTGTTTTT--------------GATATTTAT---ATTA---TAAATTTAAATGCTTAAAACACACACAAAACAGAGTTTCATT-----------------------------------------ACATTTTA-CCTAGACTTATTAT
droFic1	scf7180000449452:142-293 +		TAGAAAA-AAAAT--------------------------------------------------------------------------------------------------------------------------------CCTAAAAATA-------------------------------------------------------------------------------------------------------------------------------------------------TC-------CCTAA--------ACAAGAAAGG-AAGCTAGCTTCGGC--CAGCCGAACCTTATATACC-CTTGCAGTCATC---------AAATATTTCGA-------------AAATTTTATTTG--------------CTATTCAAA---------------------------------------AGTCGTTAGAAAACTCTATATTCCAAAAATCATGAT
droEle1	scf7180000491199:693460-693690 +		AATACTT-TTTGC----ATGTTTGGAGTC-----------GAA---------CA----------C--------------------------------------TTAACTTCGCGCCACCGAACCATCGCTTTAAAAGGTAT-----------------------------------------------------------------------------------AAATC-T-----------TAT---TATTTTAGAAATTAAA-TTACTTT-------------------------------AAAAAAA--------ACAAGAAAGA-AAGCAAACTTCGGC--AAGCCGAAGTTCATATACC-CTTGCAGCTATCGCAAGAATTAAATA------------------------------------------------TTTTTGAAAACATTAAAATTACGATTTACTTGCGTATAT--------------------------GTTTAAAAACATTGAA
droRho1	scf7180000777630:12937-13159 +		AATATTC-CTTAT---AGTTTATGGTGGC----T------GAAATGGGTTTACATATTACATAATATTGCCAAGATCACTAT------------------------------------AAGAATATCAAAC-----------------------------------------------------------GAAAT----AA---TATAAAAAG---GAT--GTG---ATAT-----------TGATATT-----------------------AGGCTAAATAAAAA--TAAAAC---------AAATAAA--------ACGAGGACCG-AAGCTAACTTCGGC--AAGCCGAAGTTTTAATACC-CTTGCAGACTTTGCCG-------------------------------------------------------AAATTGCTAAAAATGAAAAA-----------------------------------------GTA--------------------
droBia1	scf7180000302377:165947-166209 +		CATATTA-TTTAC--------------------------------------------------------------------------------------------------------------------------------CC-AATAATTTCCCGCTTGTTCCTATGACAGCTATATGATATAGTCGTCCGATTTTGATAAAATTT--AATTCAAAAT--GCA---GAACTAATTTAAAAATGT---TATTTCCAAGCTTAGA-AGGTTTT-------------------------------AAGTTAA--------ACAAGAAAGG-AAGTTAACTTCGGC--AAGTCGAAGTTATAAAAAAATATAAAAAATAA----------------TCAATAATTTT---ATTAAATTAAATTCG--------------AAATTCTTAAAAATATAAAA-----------------------------------------ATGTATATTCCCAATATTATAAG
droTak1	scf7180000413200:8454-8659 +		ACTTTTT-CGTAA----ATGTTTTTTAGC----T------GTA---------CA----------TTTTGCCGTTAT--TTAT------------------------------------CCGTAGATTATTCGTGAAAGAAA-----------------------------------------------------------------------------------AAATT-T-----------TGT---CGCTCTTAATTTAAGATTTATTTT-------------------------------TAAAAAA--------ACAAGAAAGG-AAGCTAGCTTCGGC--CAGCCGAAGCTTATATACC-CCTGCAGATCATTCCT--------------ATTA----------------------------------------ATTAACAAATCGCAAAA-----------------------------------------ATGTTC------AATTTTCTAAT
droSim2	2l:16565157-16565177 -		GAAAAATGTTCAT--------------------------------------------------------------------------------------------------------------------------------C----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAAT-------------------------------------------------------------------------------------------------------------------------------ATT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

AATATTC-CTTGT----GTGCATGTTGGC----T------G-------------------------------------------------------------------------------------------------------------------CTTGTT----TGGCCGCTGTTAAGCATCGTGAGTGGACTTTAAAA---TTA--TGAG---AATATAAA---TTAT-----------TGGCATT-----------------------GTTTCAGATTAGAACACAAAACCATTTTAAA--ATAAAACCA------GAGGGCCG-GGGCTAACTTTAACC-ACGTCAAAGTTTGAATACC-TTTGCAACTTAT----------------TTGATAATTTT---TT------------C----CTT---ACCCATAGCCATCAAAGTGGAAAA-----------------------------------------ATGTTTTATCTAAAAAGGCTAAT	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
............................................................................................................................................................CTTGTT----TGGCCGCTGTTA......................................................................................................................................................................................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0
..................................................................................................................................................................................................................................................................................................................TAAAACCA------GAGGGCCG-GGGCTAACTT.....................................................................................................................................................................................	26	20	0.20	4	0	4	0	0	0
..................................................................................................................................................................................................................................................................................................................TAAAACCA------GAGGGCCG-GGGCTAACT......................................................................................................................................................................................	25	20	0.10	2	0	0	0	2	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................TT------------C----CTT---ACCCATAGCCATCAAAGT......................................................................	24	19	0.05	1	0	0	0	1	0
..................................................................................................................................................................................................................................................................................................................TAAAACCA------GAGGGCCG-GGGCTAACTTT....................................................................................................................................................................................	27	20	0.05	1	0	0	0	1	0
.................................................................................................................................................................................................................................................................................................................ATAAAACCA------GAGGGCCG-GGGC...........................................................................................................................................................................................	21	20	0.05	1	0	1	0	0	0

droVir3

CAAATTA-TTTTT-CAAGTTAATATTTACTTTTT-----------------------------------------------------------------------------------------------------------------------------GTA----TAGGCTC--CAAGATAA-TTTGACAGACTTTTCAA---TTT--GAATTATGGT--ATA---TTAT-----------TGC-TTT-----------------------TTTTCAAATTATTTTTCAAGTATATATTTAT--ATGAAATTAAAAAACGAGAAAGAAGGGCTATCTTCGGC--ACGCCAAAGATCTAATACC-CTTGCAGACCCACCCT----------T-TTCATAATGCTCATACT-----------G----C----------------------------------------TTTGCCTCTATCTAAGAAGTACCGGGAAAATAGTAAATGCC----------GA	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
.................................T-----------------------------------------------------------------------------------------------------------------------------GTA----TAGGCTC--CAAGATAA-TTTGACAGACT.....................................................................................................................................................................................................................................................................................................................................	30	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	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAGTACCGGGAAAATAGTAAATGCC----------..	25	20	0.20	4	0	0	0	0	0	2	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTACCGGGAAAATAGTAAATGCC----------..	23	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..................................................................................................................................................................................................................................................................................................................................................TCGGC--ACGCCAAAGATCTAATACC-CT.........................................................................................................................................................	26	20	0.15	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
........................................................................................................................................................................................................................................................................................................................................................................TACC-CTTGCAGACCCACCCT----------T-TTCAT..........................................................................................................................	26	7	0.14	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
..........................................................................................................................................................................................................................................................................................................................................................................CC-CTTGCAGACCCACCCT----------T-TTCATA.........................................................................................................................	25	7	0.14	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
........................................................................................................................................................................................................................................................................................................................................................................TACC-CTTGCAGACCCACCCT----------T-TTC............................................................................................................................	24	7	0.14	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
......................................................................................................................................................................................................................................................................................................................................................................AATACC-CTTGCAGACCCACCC............................................................................................................................................	21	8	0.13	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
.............................................................................................................................................................................................................................................................................................................................................................CAAAGATCTAATACC-CTTGC......................................................................................................................................................	20	20	0.10	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	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................T-----------G----C----------------------------------------TTTGCCTCTATCTAAGAAGT.................................	23	20	0.10	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	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
............................................................................................................................................................................................................................................................................................................................AAACGAGAAAGAAGGGCTATCTTCG...................................................................................................................................................................................	25	20	0.10	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCCTCTATCTAAGAAGTACCGGGA..........................	25	20	0.10	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	1	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
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCTCTATCTAAGAAGTACCGG............................	21	20	0.10	2	0	0	0	0	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTAAGAAGTACCGGGAAAATAGTAAA................	27	20	0.10	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	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAGAAGTACCGGGAAAATAGTAAATG..............	27	20	0.10	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	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
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGCCTCTATCTAAGAAGTACCGGGAA.........................	27	20	0.10	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	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGCCTCTATCTAAGAAGTACCGGGA..........................	27	20	0.10	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	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCCTCTATCTAAGAAGTACCGGGAA.........................	26	20	0.10	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	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGCCTCTATCTAAGAAGTACCGGG...........................	26	20	0.10	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	1	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
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAGAAGTACCGGGAAAATAGTAAA................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTATCTAAGAAGTACCGGGAAAA.......................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................ACGAGAAAGAAGGGCTATCTTCGG..................................................................................................................................................................................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................T-----------G----C----------------------------------------TTTGCCTCTATCTAAGAAGTACC..............................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................T-----------G----C----------------------------------------TTTGCCTCTATCTAAGAAGTACCG.............................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTAAGAAGTACCGGGAAAATAGT...................	24	20	0.05	1	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	0	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTATCTAAGAAGTACCGGG...........................	19	20	0.05	1	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	0	0	0	0	0	0	0
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TAAGAAGTACCGGGAAAATAGTAAAT...............	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................................................................AAAACGAGAAAGAAGGGCTATCTTCGGC--...............................................................................................................................................................................	28	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGCCTCTATCTAAGAAGTA................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TATCTAAGAAGTACCGGGAAAATAG....................	25	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGCCTCTATCTAAGAAGTACCGGG...........................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTATCTAAGAAGTACCGGGA..........................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCTATCTAAGAAGTACCGGGAAAATAG....................	27	20	0.05	1	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	0	0
................................................................................................................................................................................................................................................................................................................................................................AGATCTAATACC-CTTGCAGA...................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTATCTAAGAAGTACCGG............................	18	20	0.05	1	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	0	0	0	0	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCTCTATCTAAGAAGTACCG.............................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................................................................................GCTATCTTCGGC--ACGCCAAAGATCTAA................................................................................................................................................................	27	20	0.05	1	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	0	0	0	0	0	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTATCTAAGAAGTACCGGGAA.........................	21	20	0.05	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGCCTCTATCTAAGAAGTACCGGGAA.........................	28	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGCCTCTATCTAAGAAGTACC..............................	23	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..................................................................................................................................................................................................................................................................................................................................................TCGGC--ACGCCAAAGATCTAA................................................................................................................................................................	20	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
........................................................................................................................................................................................................................................................................................................................................AGGGCTATCTTCGGC--ACGCCAAAGATC...................................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTATCTAAGAAGTACCGGGAAAAT......................	24	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
...........................................................................................................................................................................................................................................................................................................................................................GCCAAAGATCTAATACC-CTTG.......................................................................................................................................................	21	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................................................................C--ACGCCAAAGATCTAATACC-CTTGCAG....................................................................................................................................................	27	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TACCGGGAAAATAGTAAAT...............	19	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCTAAGAAGTACCGGGAAAATAGTA..................	26	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..............................................................................................................................................................................................................................................................................................................................ACGAGAAAGAAGGGCTATCTTCGGC--ACG............................................................................................................................................................................	28	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
....................................................................................................................................................................................................................................................................................................................................AAGAAGGGCTATCTTCGG..................................................................................................................................................................................	18	20	0.05	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAGTACCGGGAAAATAGTAAATGC.............	26	20	0.05	1	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	0	0	0	0	0	0	0	0	0

droPer2

GCTGCTG-CTCTG----CTGCCTGATGGC----A------A-------------------------------------------------------------------------------------------------------------------GTGCTT----TGGCCACACTCAAGTCGCGTA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGT	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
No Reads

droAna3

AATGTGG-CAAA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AAATT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTGCCAAAAGAGG--AAT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
No Reads

droBip1

TAGCATT-TGAA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CTCATTTTAAT--CTGAA--------ACAAGAAAGCAAAGCTAACTTCGGGCGGAGCCGAAGTTGATATACC-CTTGCAGCT--------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

AATATAT-GTTCCCTGTGTTAATATTTTTGTTTTATACTAGAAATG-------------------TATGCTAAGTTTATAATATATATTTAAAAGAATCGTACTTAATCTTGTAAAATACAAAAATCAATCAAAAA------------CCA--------------------------------------------------------------------------------------------------------------------------------------------------------AGAAAAA--------ACAAGAAAGG-AAGCTAACTTCGGC--ACACCGAAGTTTGTATACC-CTTGCAGATTGTTTTT--------------GATATTTAT---ATTA---TAAATTTAAATGCTTAAAACACACACAAAACAGAGTTTCATT-----------------------------------------ACATTTTA-CCTAGACTTATTAT	Size	Hit Count	Total Norm	Total
No Reads

droFic1

TAGAAAA-AAAAT--------------------------------------------------------------------------------------------------------------------------------CCTAAAAATA-------------------------------------------------------------------------------------------------------------------------------------------------TC-------CCTAA--------ACAAGAAAGG-AAGCTAGCTTCGGC--CAGCCGAACCTTATATACC-CTTGCAGTCATC---------AAATATTTCGA-------------AAATTTTATTTG--------------CTATTCAAA---------------------------------------AGTCGTTAGAAAACTCTATATTCCAAAAATCATGAT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AATACTT-TTTGC----ATGTTTGGAGTC-----------GAA---------CA----------C--------------------------------------TTAACTTCGCGCCACCGAACCATCGCTTTAAAAGGTAT-----------------------------------------------------------------------------------AAATC-T-----------TAT---TATTTTAGAAATTAAA-TTACTTT-------------------------------AAAAAAA--------ACAAGAAAGA-AAGCAAACTTCGGC--AAGCCGAAGTTCATATACC-CTTGCAGCTATCGCAAGAATTAAATA------------------------------------------------TTTTTGAAAACATTAAAATTACGATTTACTTGCGTATAT--------------------------GTTTAAAAACATTGAA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AATATTC-CTTAT---AGTTTATGGTGGC----T------GAAATGGGTTTACATATTACATAATATTGCCAAGATCACTAT------------------------------------AAGAATATCAAAC-----------------------------------------------------------GAAAT----AA---TATAAAAAG---GAT--GTG---ATAT-----------TGATATT-----------------------AGGCTAAATAAAAA--TAAAAC---------AAATAAA--------ACGAGGACCG-AAGCTAACTTCGGC--AAGCCGAAGTTTTAATACC-CTTGCAGACTTTGCCG-------------------------------------------------------AAATTGCTAAAAATGAAAAA-----------------------------------------GTA--------------------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CATATTA-TTTAC--------------------------------------------------------------------------------------------------------------------------------CC-AATAATTTCCCGCTTGTTCCTATGACAGCTATATGATATAGTCGTCCGATTTTGATAAAATTT--AATTCAAAAT--GCA---GAACTAATTTAAAAATGT---TATTTCCAAGCTTAGA-AGGTTTT-------------------------------AAGTTAA--------ACAAGAAAGG-AAGTTAACTTCGGC--AAGTCGAAGTTATAAAAAAATATAAAAAATAA----------------TCAATAATTTT---ATTAAATTAAATTCG--------------AAATTCTTAAAAATATAAAA-----------------------------------------ATGTATATTCCCAATATTATAAG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ACTTTTT-CGTAA----ATGTTTTTTAGC----T------GTA---------CA----------TTTTGCCGTTAT--TTAT------------------------------------CCGTAGATTATTCGTGAAAGAAA-----------------------------------------------------------------------------------AAATT-T-----------TGT---CGCTCTTAATTTAAGATTTATTTT-------------------------------TAAAAAA--------ACAAGAAAGG-AAGCTAGCTTCGGC--CAGCCGAAGCTTATATACC-CCTGCAGATCATTCCT--------------ATTA----------------------------------------ATTAACAAATCGCAAAA-----------------------------------------ATGTTC------AATTTTCTAAT	Size	Hit Count	Total Norm	Total
No Reads

droSim2

GAAAAATGTTCAT--------------------------------------------------------------------------------------------------------------------------------C----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAAT-------------------------------------------------------------------------------------------------------------------------------ATT

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

No Reads

dwi_3312

scf2_1100000004943:6332266-6332416 +

Candidate

Unknown

Predicted structure

Flybase annnotation

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads

-17.0	-17.0	-17.0