ID:

dsi_90

Coordinate:

3L:477892-477956 +

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-23.4	-23.1	-23.0

Flybase annnotation

intergenic

No Repeatable elements found

Sense Strand Reads

AAGGGGCTAAATGTTACATTCATTTTGACATTTAGTAGTGCTTGAATAATCACAGAAATCACGTTGATGTATTGAAGTTTGGAAAGATCACTCAGCAACGTCGCTTTCTGTAGAATTCAAGTAGATTTGACTTCATTACCTTTTCACAGATTCTAAAGAATTATA *********************************...(((((((((..(((((((((..((((((.((...(((..((....))..)))..)).))))))...))))))).)))))))))))......**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M023 head	SRR618934 Ovary	M024 male body	M025 embryo	O002 Head
..................................................CACAGAAATCACGTTGATGTATTG...........................................................................................	24	0	1	8.00	8	5	0	1	1	1
..........................................................................................CTCAGCAACGTCGCTTTCTGTAGA...................................................	24	0	1	7.00	7	5	2	0	0	0
..........................................................................................CTCAGCAACGTCGCTTTCTGTAG....................................................	23	0	1	5.00	5	3	2	0	0	0
..........................................................................................CTCAGCAACGTCGCTTTCTGTA.....................................................	22	0	1	3.00	3	3	0	0	0	0
....................................................CAGAAATCACGTTGATGTATT............................................................................................	21	0	1	1.00	1	0	1	0	0	0
.....................................................AGAAATCACGTTGATGTATTGAAGT.......................................................................................	25	0	1	1.00	1	0	1	0	0	0
................................................ATCACAGAAATCACGTTGATGT...............................................................................................	22	0	1	1.00	1	0	1	0	0	0
..........................................................................................CTCAGCGACGTCGCCTTGTGT......................................................	21	3	4	0.25	1	0	1	0	0	0
.................................AGAAGGGCTTGAATAATCGC................................................................................................................	20	3	6	0.17	1	0	0	0	0	0

Anti-sense strand reads

TATAATTCTTTAGAATCTGTGAAAAGGTAATGAAGTCAAATCTACTTGAATTCTACAGAAAGCGACGTTGCTGAGTGATCTTTCCAAACTTCAATACATCAACGTGATTTCTGTGATTATTCAAGCACTACTAAATGTCAAAATGAATGTAACATTTAGCCCCTT **********************************......(((((((((((.(((((((...((((((.((..(((..((....))..)))...)).))))))..)))))))))..)))))))))...*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
...............TCTGTCAAAAGGTAACG.....................................................................................................................................	17	2	9	0.44	4
..............ATCTGTCAAAAGGTAACGCA...................................................................................................................................	20	3	8	0.25	2
..............ATCTGTCAAAAGGTA........................................................................................................................................	15	1	15	0.20	3
.................TGTGAAAAGTTAATGAAGTAG...............................................................................................................................	21	3	6	0.17	1
...............TCTGTCAAAAGGTAACGCAG..................................................................................................................................	20	3	7	0.14	1
...............TCTGTTAAAAGGTAACG.....................................................................................................................................	17	2	12	0.08	1
.............................................................GCGACGTCGCTAAGCGATC.....................................................................................	19	3	13	0.08	1
.........................................................GAAAGCGACGTCGCT.............................................................................................	15	1	20	0.05	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	3L:477842-478006 +	dsi_90	AAGGGGC-----------------TAAATGTTACATTCATTTT----------------------------------------------------------GACATTTAGTAGTGCTTGAATAATCACAGAAATCACGTTGATGTATTGAAGTTTGGAAAGATCACTCAGCAACGTCGCTTTCTGTAGAATTCA-----------------------------AGTAGATTTGA----------CTT---------------CAT-TAC---------CTTTTCACAGATTCTAAAGAATTATA
droSec2	scaffold_2:852355-852496 +		TAGGTGC-----------------TAAATGTTATATTCATTTT----------------------------------------------------------GACGTTTATTAGTGCTT---------------------TGATCTATTGAAGTTTGGAAAGATCCCTCGGCAACGTCTCTTTCTGAAGAATTCA-----------------------------AGTAAATCTGA----------TTT---------------GAT-TAC---------CTTGTCACAGTCTCTAAAGAATTC--
dm3	chr3L:824561-824716 +		TATGTTG-----------------CTCATTTTACATTCATTTT----------------------------------------------------------GACATTGAACAGTGCTTAAATAATCATAGAAATCAC-------TATTGAAGTTCGGAAAGATCCCTCAGCAAC-----TGTGTGAAAAATTC-------------------------GTTTAAGTAGATTTCA----------TTT---------------GGT-TTC---------ATTTTAGGAGTTTCCAAAGAATT-TC
droEre2	scaffold_4784:840100-840255 +		T------------------------------TATATACCTTTT----------------------------------------------------------AAC-------------------------------------------------TCGAAAATACGCACCGGCCGCGTCGCGTTCTGAAGAATTCGCGTGCCATCTCTGCTTGACTATTCATTTGAAGCGCTCTCTCTAAATTTGTCACTTCTATGAAATCTCTGAT-TGC-----------TTCTACAGATTCTAAAGAACTCGC
droYak3	3L:820097-820223 +		TGTGTTC-----------------TAATTG---TACATTTTTC----------------------------------------------------------AGT-----------------TATTCTAAG--------------------------GAAT-----------GATGTTCCTTTCTCTA--GTTCA-----------------------------AGTTGCTTTGG----------CACTACTATCAAATCTCTGAT-TGTTTCTATGCTGCTTTCACAGTTGCTAAATAATT---
droEug1	scf7180000409184:858498-858574 +		ACTTTGA-----------------TA---------------------------TTATTTCGGAAATAAGAAACACTAATTATTGTATAATCCACTCATTACTTCGCTGATAATT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCTCTA
droKik1	scf7180000302383:193742-193859 +		TGGGGATGATCTTGAGGCTTTAGATATACATAATATCAAATCTTATATATGTATTTGTTTTGAAAT-GGAAAT------------------------------------------------------------------------------------------------------------------------------------------------------------TTTGA----------TGATTTTATAGAATTTCTAATCTATATTTTTG-------------------ATACTTAAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

AAGGGGC-----------------TAAATGTTACATTCATTTT----------------------------------------------------------GACATTTAGTAGTGCTTGAATAATCACAGAAATCACGTTGATGTATTGAAGTTTGGAAAGATCACTCAGCAACGTCGCTTTCTGTAGAATTCA-----------------------------AGTAGATTTGA----------CTT---------------CAT-TAC---------CTTTTCACAGATTCTAAAGAATTATA	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
.............................................................................................................................CACAGAAATCACGTTGATGTATTG...........................................................................................................................................................	24	1	8.00	8	0	5	1	1	0	1	0	0	0	0	0	0
.....................................................................................................................................................................CTCAGCAACGTCGCTTTCTGTAGA...................................................................................................................	24	1	7.00	7	0	5	0	0	0	0	0	0	0	0	0	2
.....................................................................................................................................................................CTCAGCAACGTCGCTTTCTGTAG....................................................................................................................	23	1	5.00	5	0	3	0	0	0	0	0	0	0	0	0	2
.....................................................................................................................................................................CTCAGCAACGTCGCTTTCTGTA.....................................................................................................................	22	1	3.00	3	0	3	0	0	0	0	0	0	0	0	0	0
...............................................................................................................................CAGAAATCACGTTGATGTATT............................................................................................................................................................	21	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
................................................................................................................................AGAAATCACGTTGATGTATTGAAGT.......................................................................................................................................................	25	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1
...........................................................................................................................ATCACAGAAATCACGTTGATGT...............................................................................................................................................................	22	1	1.00	1	0	0	0	0	0	0	0	0	0	0	0	1

droSec2

TAGGTGC-----------------TAAATGTTATATTCATTTT----------------------------------------------------------GACGTTTATTAGTGCTT---------------------TGATCTATTGAAGTTTGGAAAGATCCCTCGGCAACGTCTCTTTCTGAAGAATTCA-----------------------------AGTAAATCTGA----------TTT---------------GAT-TAC---------CTTGTCACAGTCTCTAAAGAATTC--	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
No Reads

droEre2

T------------------------------TATATACCTTTT----------------------------------------------------------AAC-------------------------------------------------TCGAAAATACGCACCGGCCGCGTCGCGTTCTGAAGAATTCGCGTGCCATCTCTGCTTGACTATTCATTTGAAGCGCTCTCTCTAAATTTGTCACTTCTATGAAATCTCTGAT-TGC-----------TTCTACAGATTCTAAAGAACTCGC	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
No Reads

droYak3

TGTGTTC-----------------TAATTG---TACATTTTTC----------------------------------------------------------AGT-----------------TATTCTAAG--------------------------GAAT-----------GATGTTCCTTTCTCTA--GTTCA-----------------------------AGTTGCTTTGG----------CACTACTATCAAATCTCTGAT-TGTTTCTATGCTGCTTTCACAGTTGCTAAATAATT---	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

ACTTTGA-----------------TA---------------------------TTATTTCGGAAATAAGAAACACTAATTATTGTATAATCCACTCATTACTTCGCTGATAATT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GCTCTA	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TGGGGATGATCTTGAGGCTTTAGATATACATAATATCAAATCTTATATATGTATTTGTTTTGAAAT-GGAAAT------------------------------------------------------------------------------------------------------------------------------------------------------------TTTGA----------TGATTTTATAGAATTTCTAATCTATATTTTTG-------------------ATACTTAAA	Size	Hit Count	Total Norm	Total
No Reads

Generated: 12/06/2013 at 02:30 PM