dmo_953

Name	Class	Family	Strand
(TA)n	Simple_repeat	Simple_repeat	+

----------------------------------------------####--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CGAATCGAGATCGATAGATCTAGAACCTACGCATACAATAAACAAAATGGGTAAGGAGTTGAGCAAAGGATTACAATCACATGAACTAGATTGAATGGATTATACCAGTGCGAATATATATATATATATATATATATATCAACAATATCTTGAGTTAAATCTGAAAAGTTTTTAAGTAAAAACAGTGACCTATAAAAATATGACTAAGAGACTATAAGAGTATCTGTTATACATACAAGTTTTTCGAAGTG ************************************************.(((((.((((.(((..((..((.((((.(((............))))))).))))..)))..(((((((((((....)))))))))))...)))).)))))...**********************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M046 female body	V110 male body	V049 head
...........CGATAGATCTAGAACCTACGC...........................................................................................................................................................................................................................	21	0	1	6.00	6	6	0	0
CGAATCGAGATCGATAGAT........................................................................................................................................................................................................................................	19	0	1	6.00	6	5	1	0
...........CGATAGATCTAGAACCTACGCATACA......................................................................................................................................................................................................................	26	0	1	3.00	3	3	0	0
.................ATCTAGAACCTACGCATACAAT....................................................................................................................................................................................................................	22	0	1	3.00	3	3	0	0
...................CTAGAACCTACGCATACAAT....................................................................................................................................................................................................................	20	0	1	2.00	2	2	0	0
...........CGATAGATCTAGAACCTACGCATA........................................................................................................................................................................................................................	24	0	1	1.00	1	1	0	0
...........CGATAGATCTAGAACCTACGCAT.........................................................................................................................................................................................................................	23	0	1	1.00	1	1	0	0
...............AGATCTAGAACCTACGCATACA......................................................................................................................................................................................................................	22	0	1	1.00	1	1	0	0
...............................................................................................................................................................................................ATAAAAATATGACTAAGAG.........................................	19	0	1	1.00	1	0	1	0
..................................................GTAAGGAGTTGAGCAAAGG......................................................................................................................................................................................	19	0	1	1.00	1	0	1	0
.......................................................................TACAATCACATGAACTAGATTGAATG..........................................................................................................................................................	26	0	1	1.00	1	1	0	0
.......................................................................................................................................ATATCAACAATATCTTGAGT................................................................................................	20	0	1	1.00	1	1	0	0
...................CTAGAACCTACGCATACAATAA..................................................................................................................................................................................................................	22	0	1	1.00	1	0	0	1
...........................................................................ATCACATGAACTAGATTGAAT...........................................................................................................................................................	21	0	1	1.00	1	1	0	0
..................................................................AGGATTACAATCACATGAACT....................................................................................................................................................................	21	0	1	1.00	1	1	0	0
...............AGATCTAGAACCTACGCATACAAT....................................................................................................................................................................................................................	24	0	1	1.00	1	1	0	0
...............AGATCTAGAACCTACGCATA........................................................................................................................................................................................................................	20	0	1	1.00	1	1	0	0
................GATCTAGAACCTACGCATAC.......................................................................................................................................................................................................................	20	0	1	1.00	1	1	0	0
....................TAGAACCTACGCATACAAT....................................................................................................................................................................................................................	19	0	1	1.00	1	1	0	0
....................TAGAACCTACGCATACAATAAAC................................................................................................................................................................................................................	23	0	1	1.00	1	1	0	0
...........................................................................................TGAATGGATTATACCAGTGCGAA.........................................................................................................................................	23	0	1	1.00	1	1	0	0
....................................................................................................TATACCAGTGCGAATATATATAT................................................................................................................................	23	0	1	1.00	1	0	1	0
...............................................................................................................................................................................................................GAGACTATAAGAGTATCTGTTATAC...................	25	0	1	1.00	1	0	1	0
...............AGATCTAGAACCTACGCATACAATAAACA...............................................................................................................................................................................................................	29	0	1	1.00	1	1	0	0
.........................................................................................................................................................................TTTTAAGTAAAAACAGTGACCT............................................................	22	0	1	1.00	1	0	1	0
...................................................................................................................................................................................AAACAGTGACCTATAAAAATATGACTAAG...........................................	29	0	1	1.00	1	1	0	0
.GAATCGAGATCAATAGAT........................................................................................................................................................................................................................................	18	1	1	1.00	1	1	0	0
...........CGATAGATCTAGAACCTACG............................................................................................................................................................................................................................	20	0	1	1.00	1	1	0	0
...............AGATCTAGAACCTACGCATAC.......................................................................................................................................................................................................................	21	0	1	1.00	1	1	0	0
...ATCGAGATCGATAGATCTAGAACCTACGC...........................................................................................................................................................................................................................	29	0	1	1.00	1	1	0	0
..............TAGATCTAGAACCTACGC...........................................................................................................................................................................................................................	18	0	1	1.00	1	1	0	0
............................................................................................................................................................................................................TAAGAGACTATAAGAGTATC...........................	20	0	1	1.00	1	1	0	0
...........CGATAGATCTAGAACCTA..............................................................................................................................................................................................................................	18	0	1	1.00	1	1	0	0
.................................................................................................................................................................................................................GACTATAAGAGTATCTGTTAT.....................	21	0	1	1.00	1	0	1	0
.................................................................................................................................................................................................................GACTATAAGAGTATCTGTT.......................	19	0	1	1.00	1	0	1	0
............GATAGATCTAGAACCTACGCATACAATA...................................................................................................................................................................................................................	28	0	1	1.00	1	1	0	0
............................................................................................GAATGGATTATACCAGTGCGAATATATAT..................................................................................................................................	29	0	1	1.00	1	1	0	0
.....................................ATAAACAAAATGGGTAAGGAGTTGAGC...........................................................................................................................................................................................	27	0	1	1.00	1	0	1	0
.........................................................................................................................................................................................................GACTAAGAGACTATAAGAGT..............................	20	0	1	1.00	1	0	1	0
..................................................................................GAACTAGATTGAATGGATTATACC.................................................................................................................................................	24	0	1	1.00	1	1	0	0
.....................TGAACCAGCGCATACAATAA..................................................................................................................................................................................................................	20	3	4	0.25	1	1	0	0
........................................................................................GATGGAATGGATTGTACCT................................................................................................................................................	19	3	20	0.05	1	0	0	1

GCTTAGCTCTAGCTATCTAGATCTTGGATGCGTATGTTATTTGTTTTACCCATTCCTCAACTCGTTTCCTAATGTTAGTGTACTTGATCTAACTTACCTAATATGGTCACGCTTATATATATATATATATATATATATAGTTGTTATAGAACTCAATTTAGACTTTTCAAAAATTCATTTTTGTCACTGGATATTTTTATACTGATTCTCTGATATTCTCATAGACAATATGTATGTTCAAAAAGCTTCAC **********************************************************************************************.(((((.((((.(((..((..((.((((.(((............))))))).))))..)))..(((((((((((....)))))))))))...)))).)))))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V049 head	M046 female body	V110 male body	V056 head
................................................................................................................................................................................................................................ACAATTAGTATGTTCAAAAA.......	20	2	4	0.25	1	1	0	0	0
............................................................................................................................................TTGTTGTAGAACTCCATT.............................................................................................	18	2	9	0.11	1	0	1	0	0
...............................................................................................ACCTATTTTGGTCACGCTAA........................................................................................................................................	20	3	9	0.11	1	0	0	0	1
.................TGGGTCTTGGATGCGGATG.......................................................................................................................................................................................................................	19	3	15	0.07	1	0	0	1	0
..........................................................................................................................................CCTTGTTATAGAACTCCAT..............................................................................................	19	3	20	0.05	1	0	1	0	0
.............................................................................................................................................CGATATAGAACTTAATTTAG..........................................................................................	20	3	20	0.05	1	0	0	1	0

Species	Coordinate	ID	Alignment
droMoj3	scaffold_6496:3587009-3587259 +	dmo_953	CGAATCGA--------------GATCGATAGATCTAGAACCTACGCATACAATAAACAAAATGGGTAAG----------------GAGTTGAGCAAAGGATTACA--ATCACATGAACT----AGATTGAATGGATTAT---ACCAGTGCGAAT-----AT----ATATATATATATATATATATATCAACAATATCTTGAGTTAAATCTGAAAAGTTTTTAAGTAAAAACAGTGACCTATAAAAATATGACTAAGAGACTATAAGAGTATCTGTTATACATACAAGTTTTTCGAAGTG---
droVir3	scaffold_12875:582664-582840 +		CCGTCAGATACTTCAGTTCAGCTACAGATATAACTATAAGC-AGACACACAACA-ACAAAATGGGTA-----------AGCGCAGGATTCAAGTGAAGGATTACAAAACTC--TAAAAAAGAAAAAAAAAATGGAATAT---ACCAGTGAAAATTGAAGAT----A---------------------------------------AAT------------------------ACGATCTATAAAAAT----------------------------------------TTTCCTGAAAAGTTT
droGri2	scaffold_15110:8481642-8481756 -		TACA----------------------------------A------------------------------------------------------------------TCTATATATAAAAT----AGATTTAGATATAGATTATATACATATATAT-----ATACATATATATATATATATATATATATGAACAGTATATTGATTTATATATAAATAGTTGT---------------------------------------------------------------------------AAGG---
droKik1	scf7180000302461:279471-279589 +		AC------------------------------------------------GACAACCAAAACGGGCAAAAAATGAATGAGCACA---------TAAAATATTGCATAAATAAATGAAAT----GAATTGAAATGAAAAT---GGCAATGTGAAT-----AT----ATATATATATATATATATATATAAATA--------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droMoj3

CGAATCGA--------------GATCGATAGATCTAGAACCTACGCATACAATAAACAAAATGGGTAAG----------------GAGTTGAGCAAAGGATTACA--ATCACATGAACT----AGATTGAATGGATTAT---ACCAGTGCGAAT-----AT----ATATATATATATATATATATATCAACAATATCTTGAGTTAAATCTGAAAAGTTTTTAAGTAAAAACAGTGACCTATAAAAATATGACTAAGAGACTATAAGAGTATCTGTTATACATACAAGTTTTTCGAAGTG---	Size	Hit Count	Total Norm	Total	M046 Female-body	V041 Embryo	V049 Head	V056 Head	M060 Embryo	V110 Male-body
.........................CGATAGATCTAGAACCTACGC................................................................................................................................................................................................................................................................	21	1	6.00	6	6	0	0	0	0	0
CGAATCGA--------------GATCGATAGAT.............................................................................................................................................................................................................................................................................	19	1	6.00	6	5	0	0	0	0	1
.........................CGATAGATCTAGAACCTACGCATACA...........................................................................................................................................................................................................................................................	26	1	3.00	3	3	0	0	0	0	0
...............................ATCTAGAACCTACGCATACAAT.........................................................................................................................................................................................................................................................	22	1	3.00	3	3	0	0	0	0	0
.................................CTAGAACCTACGCATACAAT.........................................................................................................................................................................................................................................................	20	1	2.00	2	2	0	0	0	0	0
.........................CGATAGATCTAGAACCTACGCATA.............................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
.........................CGATAGATCTAGAACCTACGCAT..............................................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
.............................AGATCTAGAACCTACGCATACA...........................................................................................................................................................................................................................................................	22	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................................................................................................................................ATAAAAATATGACTAAGAG............................................	19	1	1.00	1	0	0	0	0	0	1
................................................................GTAAG----------------GAGTTGAGCAAAGG...........................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1
.....................................................................................................TACA--ATCACATGAACT----AGATTGAATG.........................................................................................................................................................................	26	1	1.00	1	1	0	0	0	0	0
.......................................................................................................................................................................................ATATCAACAATATCTTGAGT...................................................................................................	20	1	1.00	1	1	0	0	0	0	0
.................................CTAGAACCTACGCATACAATAA.......................................................................................................................................................................................................................................................	22	1	1.00	1	0	0	1	0	0	0
...........................................................................................................ATCACATGAACT----AGATTGAAT..........................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
................................................................................................AGGATTACA--ATCACATGAACT----...................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
.............................AGATCTAGAACCTACGCATACAAT.........................................................................................................................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0
.............................AGATCTAGAACCTACGCATA.............................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
..............................GATCTAGAACCTACGCATAC............................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
..................................TAGAACCTACGCATACAAT.........................................................................................................................................................................................................................................................	19	1	1.00	1	1	0	0	0	0	0
..................................TAGAACCTACGCATACAATAAAC.....................................................................................................................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
...............................................................................................................................TGAATGGATTAT---ACCAGTGCGAA.....................................................................................................................................................	23	1	1.00	1	1	0	0	0	0	0
........................................................................................................................................TAT---ACCAGTGCGAAT-----AT----ATATAT...................................................................................................................................	23	1	1.00	1	0	0	0	0	0	1
...............................................................................................................................................................................................................................................................GAGACTATAAGAGTATCTGTTATAC......................	25	1	1.00	1	0	0	0	0	0	1
.............................AGATCTAGAACCTACGCATACAATAAACA....................................................................................................................................................................................................................................................	29	1	1.00	1	1	0	0	0	0	0
.........................................................................................................................................................................................................................TTTTAAGTAAAAACAGTGACCT...............................................................	22	1	1.00	1	0	0	0	0	0	1
...................................................................................................................................................................................................................................AAACAGTGACCTATAAAAATATGACTAAG..............................................	29	1	1.00	1	1	0	0	0	0	0
.........................CGATAGATCTAGAACCTACG.................................................................................................................................................................................................................................................................	20	1	1.00	1	1	0	0	0	0	0
.............................AGATCTAGAACCTACGCATAC............................................................................................................................................................................................................................................................	21	1	1.00	1	1	0	0	0	0	0
...ATCGA--------------GATCGATAGATCTAGAACCTACGC................................................................................................................................................................................................................................................................	29	1	1.00	1	1	0	0	0	0	0
............................TAGATCTAGAACCTACGC................................................................................................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0
............................................................................................................................................................................................................................................................TAAGAGACTATAAGAGTATC..............................	20	1	1.00	1	1	0	0	0	0	0
.........................CGATAGATCTAGAACCTA...................................................................................................................................................................................................................................................................	18	1	1.00	1	1	0	0	0	0	0
.................................................................................................................................................................................................................................................................GACTATAAGAGTATCTGTTAT........................	21	1	1.00	1	0	0	0	0	0	1
.................................................................................................................................................................................................................................................................GACTATAAGAGTATCTGTT..........................	19	1	1.00	1	0	0	0	0	0	1
..........................GATAGATCTAGAACCTACGCATACAATA........................................................................................................................................................................................................................................................	28	1	1.00	1	1	0	0	0	0	0
................................................................................................................................GAATGGATTAT---ACCAGTGCGAAT-----AT----ATAT.....................................................................................................................................	29	1	1.00	1	1	0	0	0	0	0
...................................................ATAAACAAAATGGGTAAG----------------GAGTTGAGC................................................................................................................................................................................................................	27	1	1.00	1	0	0	0	0	0	1
.........................................................................................................................................................................................................................................................GACTAAGAGACTATAAGAGT.................................	20	1	1.00	1	0	0	0	0	0	1
..................................................................................................................GAACT----AGATTGAATGGATTAT---ACC.............................................................................................................................................................	24	1	1.00	1	1	0	0	0	0	0

droVir3

CCGTCAGATACTTCAGTTCAGCTACAGATATAACTATAAGC-AGACACACAACA-ACAAAATGGGTA-----------AGCGCAGGATTCAAGTGAAGGATTACAAAACTC--TAAAAAAGAAAAAAAAAATGGAATAT---ACCAGTGAAAATTGAAGAT----A---------------------------------------AAT------------------------ACGATCTATAAAAAT----------------------------------------TTTCCTGAAAAGTTT	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
..GTCAGATACTTCAGTTCAGCT.......................................................................................................................................................................................................................................................................................	21	1	4.00	4	0	0	1	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	2	0	0	0
........................CAGATATAACTATAAGC-AGACA...............................................................................................................................................................................................................................................................	22	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	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
.CGTCAGATACTTCAGTTCAGCT.......................................................................................................................................................................................................................................................................................	22	1	2.00	2	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	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
............TCAGTTCAGCTACAGATATAACT...........................................................................................................................................................................................................................................................................	23	1	2.00	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	0	0	0	0	0	0
......GATACTTCAGTTCAGCTACAGAT.................................................................................................................................................................................................................................................................................	23	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	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
.......ATACTTCAGTTCAGCTACA....................................................................................................................................................................................................................................................................................	19	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	1	0	0	0
.........ACTTCAGTTCAGCTACAGATATAACT...........................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
CCGTCAGATACTTCAGTTCAGCTAC.....................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
..GTCAGATACTTCAGTTCAGCTACAG...................................................................................................................................................................................................................................................................................	25	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
.............................................................................................................................................................................................................................................CTATAAAAAT----------------------------------------TTTCCTGAAAAGT..	23	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................GATATAACTATAAGC-AGACACACAAC.........................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
...................................ATAAGC-AGACACACAACA-ACAAAATGGA.............................................................................................................................................................................................................................................	28	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
........TACTTCAGTTCAGCTACAGA..................................................................................................................................................................................................................................................................................	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
.CGTCAGATACTTCAGTTCAGCTACAG...................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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
.......................................................................................................................................................AATTGAAGAT----A---------------------------------------AAT------------------------ACGATCT...............................................................	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	1	0	0	0
.CGTCAGATACTTCAGTTCA..........................................................................................................................................................................................................................................................................................	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
...............GTTCAGCTACAGATATAACTATAAGC-....................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....CAGATACTTCAGTTCAGCTACAGAT.................................................................................................................................................................................................................................................................................	25	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.....AGATACTTCAGTTCAGCTACA....................................................................................................................................................................................................................................................................................	21	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
..........................................AGACACACAACA-ACAAAAT................................................................................................................................................................................................................................................	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
...........................ATATAACTATAAGC-AGACACAC............................................................................................................................................................................................................................................................	22	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
...........TTCAGTTCAGCTACAGATATAACT...........................................................................................................................................................................................................................................................................	24	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
......GATACTTCAGTTCAGCTACAG...................................................................................................................................................................................................................................................................................	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	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
...............GTTCAGCTACAGATATAACT...........................................................................................................................................................................................................................................................................	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
...............................................................................................................................................................AT----A---------------------------------------AAT------------------------ACGATCTATAAAAA........................................................	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
......GATACTTCAGTTCAGCTACA....................................................................................................................................................................................................................................................................................	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
CCGTCAGATACTTCAGTTCAGCTACA....................................................................................................................................................................................................................................................................................	26	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
..........................GATATAACTATAAGC-AGACA...............................................................................................................................................................................................................................................................	20	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
...................................ATAAGC-AGACACACAACA-AC.....................................................................................................................................................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
.......ATACTTCAGTTCAGCTACAG...................................................................................................................................................................................................................................................................................	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
..................................TATAAGC-AGACACACAACA-ACAAAATG...............................................................................................................................................................................................................................................	27	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
.................................CTATAAGC-AGACACACAAC.........................................................................................................................................................................................................................................................	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	1	0	0	0
..................................................................................................GATTACAAAACTC--TAAAAAAG.....................................................................................................................................................................................	21	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
....CAGATACTTCAGTTCAGCT.......................................................................................................................................................................................................................................................................................	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
....CAGATACTTCAGTTCAGCTAC.....................................................................................................................................................................................................................................................................................	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
......GATACTTCAGTTCAGCTAC.....................................................................................................................................................................................................................................................................................	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
CCGTCAGATACTTCAGTTCAGCT.......................................................................................................................................................................................................................................................................................	23	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	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

TACA----------------------------------A------------------------------------------------------------------TCTATATATAAAAT----AGATTTAGATATAGATTATATACATATATAT-----ATACATATATATATATATATATATATATGAACAGTATATTGATTTATATATAAATAGTTGT---------------------------------------------------------------------------AAGG---	Size	Hit Count	Total Norm	Total	M041 Female-body	V109 Male-body
No Reads

droKik1

AC------------------------------------------------GACAACCAAAACGGGCAAAAAATGAATGAGCACA---------TAAAATATTGCATAAATAAATGAAAT----GAATTGAAATGAAAAT---GGCAATGTGAAT-----AT----ATATATATATATATATATATATAAATA--------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

dmo_953

scaffold_6496:3587059-3587209 +

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

-16.3	-16.0	-15.8