ID:

dsi_142

Coordinate:

chr2R_Mrandom_244:1509-1560 +

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-33.0	-32.1	-32.1

Flybase annnotation

Antisense to CDS [Dsim\GD15282-cds]; Antisense to exon [dsim_GLEANR_15397:1]

No Repeatable elements found

Sense Strand Reads

-------------------------------------------------------------------------------------------------------------------------------------################### AAGCTTGTGATTTCTGGTGGTGAAGGGCTTGCCGTTGAGGACTTTGATCTCTGTTGGAATTTCTGTCACATATGTATGGTGTTTCAGAAATTCCAGCGAAGACCAGAGTTACTATAACCTTCGACTATGGACTTCATGTTCCCCTGGAAGTA *********************************....(((((((.(((.((((((((((((((..((((.......))))..)))))))))))))).))).))))))).......*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M023 head	O002 Head
..................................................CTGTTGGAATTTCTGTCACA..................................................................................	20	0	2	3.50	7	7	0
..................................................CTGTTGGAATTTCTGTCACAT.................................................................................	21	0	2	2.00	4	2	2
...................................................TGTTGGAATTTCTGTCACATAT...............................................................................	22	0	2	1.00	2	0	2
................CTGGCGAAGGGCTGGCCGTTGA..................................................................................................................	22	3	2	0.50	1	0	0
.................................................TCTGTTGGAATTTCTGTCACAT.................................................................................	22	0	2	0.50	1	1	0
..................................................CTGTTGGAATTTCTGTCACATA................................................................................	22	0	2	0.50	1	1	0
...........................CTAGCCGTTGGGGCCTTTGA.........................................................................................................	20	3	5	0.40	2	0	0
..............................................................CTGTCACTTATGTATGG.........................................................................	17	1	4	0.25	1	0	0
...................................................TGTTGGAATTTTTGTC.....................................................................................	16	1	10	0.10	1	0	0
............................................................GTCTGTCACTTATGGATGG.........................................................................	19	3	15	0.07	1	0	0
...........TTCCGGTGGTGAAGG..............................................................................................................................	15	1	16	0.06	1	0	0
...................................................TGTTGGAATTTCTATC.....................................................................................	16	1	20	0.05	1	0	0

Anti-sense strand reads

-------------------------------------------------------------------------------------------------------------------------------------################### TACTTCCAGGGGAACATGAAGTCCATAGTCGAAGGTTATAGTAACTCTGGTCTTCGCTGGAATTTCTGAAACACCATACATATGTGACAGAAATTCCAACAGAGATCAAAGTCCTCAACGGCAAGCCCTTCACCACCAGAAATCACAAGCTT *********************************.......(((((((.(((.((((((((((((((..((((.......))))..)))))))))))))).))).)))))))....*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
.............................................................................................................AGTCCTCAACGGCAAC...........................	16	1	7	0.14	1
.....................GCCGTAGGCGAAGGTTAT.................................................................................................................	18	3	20	0.10	2
......................................................CGCTGGAATTCCTGAAACAG..............................................................................	20	2	15	0.07	1
..................................................................................................ACAGAGATCAAAGTT.......................................	15	1	16	0.06	1
......................CCGTAGGCGAAGGTTA..................................................................................................................	16	2	18	0.06	1
.............................................................................................................GGCCCTGAACGGCAAGCC.........................	18	3	20	0.05	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	chr2R_Mrandom_244:1459-1610 +	dsi_142	AAGC-------------TTGTGATTTCTGGTGGTGAAGGGCTTGCC---GTTGAGGACTTTGATCTCTGTTGGAATTTCTGTCACATATGTATGGTGTTTCAGAAATTCCAGCGAAGACCAGAGTTACTATAACCTTCGACTA---T---GGACT------TCATGTTCCCCTGGAAGTA
droSec2	scaffold_1:1894610-1894757 +		AAGT-------------TTGTGATTTCTGGTGAAGAAGGGCTTGCC---GGTGAGGACTTTGGTCTCTGTTGGAATTTCTGTTACATA----TGGTGTTTCAGAAATTCCAGCGAAGACCAGAGTTACTATAACCTTCGACTA---T---GGACT------TCATGTTCCCCTGGAAGTA
dm3	chr2R:4248603-4248747 +		AGGT-------------TTATGATTTCTGGTGAA---GGGCTTGCC---GTTCAGGACTTTGGTCTCTGTTGGAATTTTTGTTACATT----TTGTGTTACAAAAATTCCAGCGAAGACCCCAGTTACTATAACCCTGGGATA---C---GGTCT------TCATCTTCCCCTGGAAGTA
droEre2	scaffold_4929:18384492-18384614 -		AAGG-------------TAC----------------------------------CACCTTTGGTCTCCGTAGGGATTTCTGTTACATG----AGGGGTTTCAGAAATCCCAACGGAGACCACAGTTACCGGAACCATCAGTTG---T---GGTCTTCATCTTCACGATCCCCTGGAGGAA
droYak3	2L:16904578-16904728 +		AAGG-------------TTATGATTTTTGGTGAG---TGGCTTGTT---GCTCGGGACTTTGGTCTCTGCAGGGATCTCTGTAACATA----AGGTGTTTCAGAAATCCCAGCGGAGACCACAGTTACTGTAGCCATCGGTTG---T---GGTCTTCATCTTCACGATCCCCTGCGAAAA
droEug1	scf7180000407691:115548-115701 +		TCT---------TAGCTGTTTGGTTTCTGATGAAGATAAGCTT--------CTGATACTGTGGTTTCTGTTGGAGTATCTGTAACATT----AGCTACCTCAGATATTCTAGCAGATATCACAGTCAAGATAAGCCCTGTTTA---G--TCCTGTCAGTCTTCATCGCTTGGAGCGACAA
droBia1	scf7180000302291:2117395-2117549 +		AAGA-------------ATATGGTTTCTGCTGAA---GGGGTTGCC---C-AAAAGTCTGTGCGCTCTGCTGGGATTTCTGTTGAACA----AGATGTTTCAGAGATCTCAGCAGAGATCACAGCGGAGATGGCACTTGATCCTTATCGTAATC-TCATTCTCATGAGCCGCGATAACAG
droTak1	scf7180000415627:123357-123494 +		AAACCATAGAGGTAGAAATATGATTTCTGGTGAT---GGGATTTTCCCATTTTTTTACTGTAGGCTCTGTTGGGATATCTATTACATA----TGGCGTTTTAGAGATCCCAGCAGAGATCACAGG--------------A---------------------TCATGGACTGCGTGCGGAG
droEle1	scf7180000491240:1074028-1074082 +		--------------------------------------------------------------------------------------------------TTCAGAGATCCTAGCAGAGATTACAGA---------------------------TCGCAATCTTCATGGACTCTGGGAAAAA
droRho1	scf7180000770177:369659-369789 +		GC---------------CTATGTTCTCTAATG-------------------------CTATGGGCTCTGTTGGGATATCTGTTACAAA----AACTGTTCCAGAGATCCTAGCAGAGATCACAGATGAGAAAACCCTAGCTTA---A---GATACCAATCTTCATGGGCTGCGGCGACAA

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

AAGC-------------TTGTGATTTCTGGTGGTGAAGGGCTTGCC---GTTGAGGACTTTGATCTCTGTTGGAATTTCTGTCACATATGTATGGTGTTTCAGAAATTCCAGCGAAGACCAGAGTTACTATAACCTTCGACTA---T---GGACT------TCATGTTCCCCTGGAAGTA	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
..................................................................CTGTTGGAATTTCTGTCACA..............................................................................................	20	2	3.50	7	0	7	0	0	0	0	0	0	0	0	0	0
..................................................................CTGTTGGAATTTCTGTCACAT.............................................................................................	21	2	2.00	4	0	2	0	0	0	2	0	0	0	0	0	0
...................................................................TGTTGGAATTTCTGTCACATAT...........................................................................................	22	2	1.00	2	0	0	0	0	0	2	0	0	0	0	0	0
.................................................................TCTGTTGGAATTTCTGTCACAT.............................................................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0	0
..................................................................CTGTTGGAATTTCTGTCACATA............................................................................................	22	2	0.50	1	0	1	0	0	0	0	0	0	0	0	0	0

droSec2

AAGT-------------TTGTGATTTCTGGTGAAGAAGGGCTTGCC---GGTGAGGACTTTGGTCTCTGTTGGAATTTCTGTTACATA----TGGTGTTTCAGAAATTCCAGCGAAGACCAGAGTTACTATAACCTTCGACTA---T---GGACT------TCATGTTCCCCTGGAAGTA	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
No Reads

droEre2

AAGG-------------TAC----------------------------------CACCTTTGGTCTCCGTAGGGATTTCTGTTACATG----AGGGGTTTCAGAAATCCCAACGGAGACCACAGTTACCGGAACCATCAGTTG---T---GGTCTTCATCTTCACGATCCCCTGGAGGAA	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
No Reads

droYak3

AAGG-------------TTATGATTTTTGGTGAG---TGGCTTGTT---GCTCGGGACTTTGGTCTCTGCAGGGATCTCTGTAACATA----AGGTGTTTCAGAAATCCCAGCGGAGACCACAGTTACTGTAGCCATCGGTTG---T---GGTCTTCATCTTCACGATCCCCTGCGAAAA	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

TCT---------TAGCTGTTTGGTTTCTGATGAAGATAAGCTT--------CTGATACTGTGGTTTCTGTTGGAGTATCTGTAACATT----AGCTACCTCAGATATTCTAGCAGATATCACAGTCAAGATAAGCCCTGTTTA---G--TCCTGTCAGTCTTCATCGCTTGGAGCGACAA	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AAGA-------------ATATGGTTTCTGCTGAA---GGGGTTGCC---C-AAAAGTCTGTGCGCTCTGCTGGGATTTCTGTTGAACA----AGATGTTTCAGAGATCTCAGCAGAGATCACAGCGGAGATGGCACTTGATCCTTATCGTAATC-TCATTCTCATGAGCCGCGATAACAG	Size	Hit Count	Total Norm	Total
No Reads

droTak1

AAACCATAGAGGTAGAAATATGATTTCTGGTGAT---GGGATTTTCCCATTTTTTTACTGTAGGCTCTGTTGGGATATCTATTACATA----TGGCGTTTTAGAGATCCCAGCAGAGATCACAGG--------------A---------------------TCATGGACTGCGTGCGGAG	Size	Hit Count	Total Norm	Total
No Reads

droEle1

--------------------------------------------------------------------------------------------------TTCAGAGATCCTAGCAGAGATTACAGA---------------------------TCGCAATCTTCATGGACTCTGGGAAAAA	Size	Hit Count	Total Norm	Total
No Reads

droRho1

GC---------------CTATGTTCTCTAATG-------------------------CTATGGGCTCTGTTGGGATATCTGTTACAAA----AACTGTTCCAGAGATCCTAGCAGAGATCACAGATGAGAAAACCCTAGCTTA---A---GATACCAATCTTCATGGGCTGCGGCGACAA	Size	Hit Count	Total Norm	Total
No Reads

Generated: 12/06/2013 at 02:32 PM