ID:

dsi_259

Coordinate:

2L:10397897-10397943 -

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-19.0	-18.9	-18.8

Flybase annnotation

Antisense to intron [Dsim\GD23717-in]

No Repeatable elements found

Sense Strand Reads

GACACTTTTTCCTTTGACAGTCGACGACGTTGGAAAAGCGAGACACAAGCGCCACATGTGTGTGTCGCCTTCACTTCTGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGGCAAAGAGTGTAGGCACTTTTTCCTTTTTCGCCATTA *********************************....((((((((..((((...((.(((.((((.....((....)))))).))).))))))..)))))).))......*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O002 Head	SRR618934 Ovary
..................................................GCCACATGTGTGTGTCGC...............................................................................	18	0	1	27.00	27	27	0
...................................................CCACATGTGTGTGTCGCC..............................................................................	18	0	1	6.00	6	6	0
..................................................GCCACATGTGTGTGTCGCC..............................................................................	19	0	1	5.00	5	5	0
.............................................................................TGTGGATTCAGTAAGGCGGCT.................................................	21	3	2	0.50	1	0	0
.............GTGAAAGTCGACGACGT.....................................................................................................................	17	2	11	0.09	1	0	0
......................................................................................................CGTCAAAGGCAAAGA..............................	15	0	11	0.09	1	0	1

Anti-sense strand reads

TAATGGCGAAAAAGGAAAAAGTGCCTACACTCTTTGCCTTTGACGACACAGCCGCCTAAATGAATCAACAGAAGTGAAGGCGACACACACATGTGGCGCTTGTGTCTCGCTTTTCCAACGTCGTCGACTGTCAAAGGAAAAAGTGTC *********************************......((.((((((..((((((.(((.((((((....)).....)))).))).))...))))..))))))))....*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
.......................................................................................................................GTCGGCGACTGGCTAAGGAA........	20	3	6	0.17	1
..................................................................................................................CCCACGTCGTCGTCTGT................	17	2	11	0.09	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	2L:10397847-10397993 -	dsi_259	GACACTTTTTCCTTTGACAGTCGACGA-------------------------------CGTTGGAAAAGCGAGACACAAGCGCCACATGTGTG------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGGCAAAG--------------AGTGTAGGCACTTTTTCCTTTT---------------TCG-C-------CATTA
droSec2	scaffold_3:6019315-6019461 -		GACACTTTTTCCTTTGACAGTCGACGA-------------------------------CGTTGGAAAAGCGAGACACAAGCGCCCCATGTGTG------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------TGTGTAGGCACTTTTTCCCTTT---------------TCG-C-------CATTA
dm3	chr2L:10601102-10601247 -		GACACTTTTTCCTTTGACAGTCGACGA-------------------------------CGTTGGAAAAGCGAGACATAAGCGCCACATGTGTG------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGTAGGCACTTTT-CCTTTT---------------TCG-C-------ATTTA
droEre2	scaffold_4929:14834035-14834183 +		GGCACTTTGTCCTTTGACAGTCGACGA-------------------------------CGCTGGAAAAGCGAGAC--AAGCGCCACATGTG--------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGTAGGCACTTTT-CCTTTT----------------CGCATTCACGCATTTA
droYak3	2L:7003252-7003411 -		GACACTTTTTCCTTTGACAGCCGACGACG--A--------------------------CGTTGGAAAAGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTTCACTTCACTTCTGTTCTGTTCTGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGTAGGCACTTTT-CCTTTT---------------TCG-C-------ATTTA
droEug1	scf7180000409554:4315960-4316105 +		GACACTTTTTCCTTTGACAG------------------------------------------------GCGAGAC--AAGCGCCACATGTGTGTGTGTACGTCGCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGGAGGCACTTTT-CCTTTCATACATATACACTTTTCC-C--------A-TT
droBia1	scf7180000302422:8528300-8528435 -		GACA-TTTTTCCTTTGACAGCCGACGA-------------------------------CGCTGGG-AGGCGAGAC--AAGCGCCACATGTG--------T---GCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------CGCGGAGGGACTTTT-CCTTTCTT---------------A-T--------TTTC
droTak1	scf7180000415160:247027-247165 -		GACACTTTTTCTTTTGACAGCCGACGA-------------------------------CGTTGGAAGGGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGGAGATACTTTT-CCTTTCTT---------------A-----------TTT
droEle1	scf7180000490971:290743-290884 +		GACACTTTTTCCTTTGACAGCCGACGA-------------------------------CGTTGGAAAAGCGAAAC--AAGCGCCACATGTG--------CGTCGCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCCATATCGTCAAAGTCAAAG--------------AGTGGAGGTACTTTT-CCTTTC---------------TGC-C-------CCCGT
droRho1	scf7180000780147:17626-17763 +		GACACTTTTTCCTTTGACAGCCGACGACG--A--------------------------CGTTGGAAGGGCGAGAC--AAGCGCCACATGTG--------TGTCGCCTCCACTTC---------------TCTTGATTCATTTAGGCGGCTCTATCGTCAAAGTCAAAG--------------AGTGGAGGTACTTTT-CCTTTCCT------------------------------
droFic1	scf7180000453838:862608-862749 -		GACACTTTTTCCTTTGACAGCCGACGA-------------------------------CATTCGAGGGGCGAGGA--AAGCGCCACATGTG--------CGTCGCCTCCACTTT---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCGAAG--------------ACTGGAGTTACTTTT-CCTTTC---------------TCA-T-------TTTTC
droKik1	scf7180000302472:2730651-2730839 +		GACACTT-TTCCTTTGACAGCCGACGACAAAAGGGAAGGAATGGAATGGAG---G---CAAAGGAAAATCGAGAC--AAGCGCCACATGTGAGT-TGC-TGCCGCCGCCACTTT--------TCTTTCTTGTTGATTCATTTAGGCGGCTGCGTCGTCAAAGTCAAAGTCAATGC------TATTGGAGGTATTTTT-CTTTATT-----------TTTTCT----------CTCC
droAna3	scaffold_12916:14441041-14441202 -		GACACTTTTTCCTTTGACAGCCGACGAA--AAGGAAAAAAAAAGAAAGCCG--------GCAGGAGAAGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTTCGATTC--------------TTGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAGAGTCAGAGTCAGCCAAAGTGAAGGCATTTA----------------------------------------
droBip1	scf7180000396572:2533905-2534072 +		GACACTTTTTCCTTTGACAGCCGACGAA--AAGGAAAAA--AAGACAGACAGAAGCCTTCTCGGAGAAGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTCCGATTC--------------TTGTTGATTCATTTAGGCGGCAGTGTCGTCAAAGTCAGAGTCAGA------CAAAGCTAAGGCATTTATTTCCT----------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

GACACTTTTTCCTTTGACAGTCGACGA-------------------------------CGTTGGAAAAGCGAGACACAAGCGCCACATGTGTG------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGGCAAAG--------------AGTGTAGGCACTTTTTCCTTTT---------------TCG-C-------CATTA	Size	Hit Count	Total Norm	Total	V044 Embryo	M023 Head	M024 Male-body	M025 Embryo	O001 Testis	O002 Head	M053 Female-body	SRR553485 Ovary	SRR553486 Ovary	SRR553487 Ovary	SRR553488 Ovary	SRR618934 Ovary
.................................................................................GCCACATGTGTG------TGTCGC...................................................................................................................................	18	1	27.00	27	0	0	0	0	0	27	0	0	0	0	0	0
..................................................................................CCACATGTGTG------TGTCGCC..................................................................................................................................	18	1	6.00	6	0	0	0	0	0	6	0	0	0	0	0	0
.................................................................................GCCACATGTGTG------TGTCGCC..................................................................................................................................	19	1	5.00	5	0	0	0	0	0	5	0	0	0	0	0	0
..........................................................................................................................................................CGTCAAAGGCAAAG--------------A.....................................................	15	11	0.09	1	0	0	0	0	0	0	0	0	0	0	0	1

droSec2

GACACTTTTTCCTTTGACAGTCGACGA-------------------------------CGTTGGAAAAGCGAGACACAAGCGCCCCATGTGTG------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------TGTGTAGGCACTTTTTCCCTTT---------------TCG-C-------CATTA	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
No Reads

droEre2

GGCACTTTGTCCTTTGACAGTCGACGA-------------------------------CGCTGGAAAAGCGAGAC--AAGCGCCACATGTG--------TGTCGCCTTCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGTAGGCACTTTT-CCTTTT----------------CGCATTCACGCATTTA	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
No Reads

droYak3

GACACTTTTTCCTTTGACAGCCGACGACG--A--------------------------CGTTGGAAAAGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTTCACTTCACTTCTGTTCTGTTCTGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGTAGGCACTTTT-CCTTTT---------------TCG-C-------ATTTA	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
No Reads

droEug1

GACACTTTTTCCTTTGACAG------------------------------------------------GCGAGAC--AAGCGCCACATGTGTGTGTGTACGTCGCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGGAGGCACTTTT-CCTTTCATACATATACACTTTTCC-C--------A-TT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

GACA-TTTTTCCTTTGACAGCCGACGA-------------------------------CGCTGGG-AGGCGAGAC--AAGCGCCACATGTG--------T---GCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------CGCGGAGGGACTTTT-CCTTTCTT---------------A-T--------TTTC	Size	Hit Count	Total Norm	Total
No Reads

droTak1

GACACTTTTTCTTTTGACAGCCGACGA-------------------------------CGTTGGAAGGGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAAAG--------------AGTGGAGATACTTTT-CCTTTCTT---------------A-----------TTT	Size	Hit Count	Total Norm	Total
No Reads

droEle1

GACACTTTTTCCTTTGACAGCCGACGA-------------------------------CGTTGGAAAAGCGAAAC--AAGCGCCACATGTG--------CGTCGCCTCCACTTC---------------TGTTGATTCATTTAGGCGGCCATATCGTCAAAGTCAAAG--------------AGTGGAGGTACTTTT-CCTTTC---------------TGC-C-------CCCGT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GACACTTTTTCCTTTGACAGCCGACGACG--A--------------------------CGTTGGAAGGGCGAGAC--AAGCGCCACATGTG--------TGTCGCCTCCACTTC---------------TCTTGATTCATTTAGGCGGCTCTATCGTCAAAGTCAAAG--------------AGTGGAGGTACTTTT-CCTTTCCT------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

GACACTTTTTCCTTTGACAGCCGACGA-------------------------------CATTCGAGGGGCGAGGA--AAGCGCCACATGTG--------CGTCGCCTCCACTTT---------------TGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCGAAG--------------ACTGGAGTTACTTTT-CCTTTC---------------TCA-T-------TTTTC	Size	Hit Count	Total Norm	Total
No Reads

droKik1

GACACTT-TTCCTTTGACAGCCGACGACAAAAGGGAAGGAATGGAATGGAG---G---CAAAGGAAAATCGAGAC--AAGCGCCACATGTGAGT-TGC-TGCCGCCGCCACTTT--------TCTTTCTTGTTGATTCATTTAGGCGGCTGCGTCGTCAAAGTCAAAGTCAATGC------TATTGGAGGTATTTTT-CTTTATT-----------TTTTCT----------CTCC	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GACACTTTTTCCTTTGACAGCCGACGAA--AAGGAAAAAAAAAGAAAGCCG--------GCAGGAGAAGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTTCGATTC--------------TTGTTGATTCATTTAGGCGGCTGTGTCGTCAAAGTCAGAGTCAGAGTCAGCCAAAGTGAAGGCATTTA----------------------------------------	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
No Reads

droBip1

GACACTTTTTCCTTTGACAGCCGACGAA--AAGGAAAAA--AAGACAGACAGAAGCCTTCTCGGAGAAGCGAGAC--AAGCGCCACATGTG--------CGTCGCCTCCGATTC--------------TTGTTGATTCATTTAGGCGGCAGTGTCGTCAAAGTCAGAGTCAGA------CAAAGCTAAGGCATTTATTTCCT----------------------------------	Size	Hit Count	Total Norm	Total
No Reads

Generated: 12/06/2013 at 02:36 PM