ID:

dsi_261

Coordinate:

3R:20748124-20748189 -

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-30.2

Flybase annnotation

intron [Dsim\GD18236-in]

No Repeatable elements found

Sense Strand Reads

TGTAGAGTCTCGTAGAGAGTTGGCTATAATGCGATTCCATATGGCCGTAATGCTACCACTACTCGCATTGCCAGCATGTAAATGCGGATAATTCCCAGCGAGTAGTTGCCTTTTTTTGGCCATCAAATAACATATTTAGCCATATTATATCGATTTAGGGCACTGT *********************************.....(((((((..........(((((((((((((((.((((....)))))).)))).....)))))))))..........)))))))........*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	O002 Head	O001 Testis
..................................................TGCTACCACTACTCGCAT..................................................................................................	18	0	1	17.00	17	16	1
....................................................................................................................................GATTTGGCCATACTATATCGAT............	22	3	1	2.00	2	0	0
TGAAGAGTCTCGTCGAGAGAT.................................................................................................................................................	21	3	1	1.00	1	0	0
..................................................TGCTACCACTACTCGCATT.................................................................................................	19	0	1	1.00	1	1	0
.............................................................................................................................................ATATTATATCGATTTAGT.......	18	1	2	0.50	1	0	0
.CTAGAGTCTTGTAGAG.....................................................................................................................................................	16	2	12	0.17	2	0	0
..........................................................CTTCTCGCATTGCCAGCT..........................................................................................	18	2	8	0.13	1	0	0
.CTAGAGTCTTGTAGAGGG...................................................................................................................................................	18	3	16	0.13	2	0	0
.GTAGAGACTCGTTGAGAGG..................................................................................................................................................	19	3	10	0.10	1	0	0
.......................................................................................ATAATTCCCACCGAG................................................................	15	1	11	0.09	1	0	0
TGTAGAGTCTCGTAAAA.....................................................................................................................................................	17	2	12	0.08	1	0	0
.......................................................................................ATAATTCTCAGCGTGTA..............................................................	17	2	15	0.07	1	0	0
.CTAGAGTCTTGTAGAGG....................................................................................................................................................	17	3	20	0.05	1	0	0
......................................................................................................................................TTTAGCCATGTTATAGTGA.............	19	3	20	0.05	1	0	0

Anti-sense strand reads

ACAGTGCCCTAAATCGATATAATATGGCTAAATATGTTATTTGATGGCCAAAAAAAGGCAACTACTCGCTGGGAATTATCCGCATTTACATGCTGGCAATGCGAGTAGTGGTAGCATTACGGCCATATGGAATCGCATTATAGCCAACTCTCTACGAGACTCTACA *********************************........(((((((..........(((((((((.....((((.((((((....)))).)))))))))))))))..........))))))).....*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
........................................................................................................GTAATGGTAGCATGACGG............................................	18	2	1	1.00	1
......................................ATTTGATGGACAAAAAAAGTC...........................................................................................................	21	2	1	1.00	1
............................................................................................................................ATATGGAATCGGACTACAGC......................	20	3	8	0.63	5
..........................................................................................TGCTGGCAGTGGGAGAAGTGGT......................................................	22	3	3	0.33	1
................................................................................................................................................CAACTCTCTACGTGA.......	15	1	6	0.17	1
........................................................................................................GTAATGGTAGCATGAC..............................................	16	2	20	0.05	1
............................................................................................................TCGCAGCATGACGGCCATA.......................................	19	3	20	0.05	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	3R:20748074-20748239 -	dsi_261	TG----------------------TAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCATA----TGGCCGTAATGCTACC----------------ACTACTCGCATT---------------------------GCCA-------------GCATGTA-AA--TGCGGATAATTCCCAGCGAGTAGTTGCCTTT---------TTTT-GGCCATCAAATAACATATTTAGCCATATTATATCGATTTAGGGCACTGT--------
droSec2	scaffold_33:179079-179245 -		TG----------------------TAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCATA----TGGCCGTAGTGCTACC----------------ACTACTCGCATT---------------------------GCCA-------------GCATGTA-AA--TGTGGATAATGCCCAGCGAGTAGTTGCCTTTT--------TTTT-GGCCATCAAATAACACATTTAGCCATATTATATCGATTTAGGGCACTGT--------
dm3	chr3R:20917934-20918108 -		TG----------------------TAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCATA----TGGCCGTAATGCTACC----------------ACTACTCGCATT---------------------------GCCA-------------GCATGTA-AA--TGCGGATAATTCCCAGCGAGTTGTTGCCTTTTTTTTTTTGTTTT-GGCCATCAAATAACATATTTAGCCATATTATATCGATTTAGGGCACTGT--------
droEre2	scaffold_4820:7132411-7132583 +		TG------------------------GAGTCTCGTAGAGAGT--GGGCTATAATG--CGATTCCAAA---GTGGCAGTAATGCTATC-----------TACCTACCACTCGCAATGAAATACTCGATGGGCATG----------CAGCATGTTAC----GTATGTA-AATGTGCGGATAATTCCCAC-----------------------------------CAAATAACATATTTAACCATATTATATCGATTTAGGGCACTGT--------
droYak3	3R:25578391-25578564 +		TGGAATTGGAGTTGGAGTTGAAGTTAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCAAA---GTGGCAGTAATGCTACC----------------AGCACTCGCAATGAAATACTCGCT--------------------------------GTATGTA-AATGCGCGGATAATTCCCAT-----------------------------------CAAATAACATATTTAGCCATATTATATCGATTTAGGGCACTGT--------
droEug1	scf7180000409692:481170-481305 +		AG-----------------------------------AGAGTTTCCAATATAACG--AGATCTTTTA----TAG------------G----------------ACTA--------------TACG-------------AT--GGTA-------------GCAAGTTTAA--TGCGTTTAATTCCCATCAAAT------------------GTTTCCGTGGACCAAATAACATATTTAGGAATATTATATCGATTTAAAACACTGTT-------
droBia1	scf7180000302136:1716222-1716421 -		AG------------------------AGGCGTCGTAGAGAGT--CGAACCCCATA--CGATTTCATATACATGGCAATGTTGTTTTA---AC--ACCTTGAGCTGCGCTCGAAATGAAATATTTTCCG-------------G--T-----GGTATGTATGCAAGTA-GA--GGCGTATAATTCCCACCAAAT------------------GTTTCAGGCGTCCAAATAACATATTTAGCCATATTATATCGATTTAAAACACTGCGTTCGAGT
droTak1	scf7180000415658:236539-236697 -		-------------------------------TCGTAGCGAGT--CGAATATAATA--CGATTTTA------GG---------------------ACCTTAAGCAACACTTGAAATGAAATATTCGATG-------------A--T-----GGTAA----GCAAGTA-AG--GGCGAATAATTCCCACCAAAT------------------ATTTCAAATTTTCAAATAACATATTTAGCAATATTATATCGATTTAAAACACTGC--------
droEle1	scf7180000491212:239659-239824 -		AG------------------------AGATATCGTAGAAAGT--CGTATATAAAC--CGATTGTACG----TAGCAATAATGGTAGCAAAAAGGTCTTTATGCTTTACTTTTATTTTAATATTTA-------------------------------------------------ATATAATTCCTATCAACT------------------TTTCC-ACAGGCCAAATAACATATTTAGCAGTATTATATCGATTTAAAACACTGT--------
droRho1	scf7180000779365:351666-351832 +		AG------------------------AGATATCGTAGAAAGT--CGAATATAAT------------------AGCAATAATGCTAAA---AT--ACCTTATGGTACATGATTGTTTAAATATTTG-------------ATAT--TA-------------ACCAGCT-AA--AGCGGATAATTCACATCGAAT------------------GTTTC-ACAGGCCAAATAACATATTTAGCAGTATTATATCGATTTAAAACACTGT--------
droFic1	scf7180000454055:817777-817936 -		CG----------------------TAGAGCGTCG-AGAGTGT--CGAGTATAATA--GGATTT----------------------------------------AGCACTCGAAACGATATATG-TACATATACACAAAAT--GGTA-------------GTAAGTA-AG--AGCGTTTAATTCCCACCAAAT------------------GTTTC-GGCGGCCAAATAACATATTTAGCAATATCATATCGATTTAGAGCACTGT--------
droKik1	scf7180000302388:996056-996224 +		TG------------------------AAGTGTCGTAGAGAGT--GGCCAGTGGTCAGTGGTCAGTCG----CGGCAATAGTGCTAAA---AAG-CCCTT--GCAATACTCGTAATTAAATATCTG-------------AAAG--TG-------------GCGAACA-TA--AGCGGATAATACCCATCACAT------------------GTTTT-AGAGGCCAAATAACATATTTAGCAGTATTATCTTGATT-------------------
droAna3	scaffold_13340:6780259-6780301 -		------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAAATAACATATTTAGCAATATTATCTTGATTTAAAATACTGT--------
droBip1	scf7180000396708:2068183-2068266 +		CG----------------------------------------------------------------------------------------------------------------------------------------------------------------TGTG-TA--AGCGGCTGATTCCCACCAAAG------------------GTCTAAAGCGTCCAAATAACATATTTAGCAATATTATCTTGATTTAAAATACTGT--------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

TG----------------------TAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCATA----TGGCCGTAATGCTACC----------------ACTACTCGCATT---------------------------GCCA-------------GCATGTA-AA--TGCGGATAATTCCCAGCGAGTAGTTGCCTTT---------TTTT-GGCCATCAAATAACATATTTAGCCATATTATATCGATTTAGGGCACTGT--------	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
................................................................................TGCTACC----------------ACTACTCGCAT...............................................................................................................................................................	18	1	17.00	17	0	0	0	0	1	16	0	0	0	0	0	0
................................................................................TGCTACC----------------ACTACTCGCATT---------------------------...................................................................................................................................	19	1	1.00	1	0	0	0	0	0	1	0	0	0	0	0	0

droSec2

TG----------------------TAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCATA----TGGCCGTAGTGCTACC----------------ACTACTCGCATT---------------------------GCCA-------------GCATGTA-AA--TGTGGATAATGCCCAGCGAGTAGTTGCCTTTT--------TTTT-GGCCATCAAATAACACATTTAGCCATATTATATCGATTTAGGGCACTGT--------	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
No Reads

droEre2

TG------------------------GAGTCTCGTAGAGAGT--GGGCTATAATG--CGATTCCAAA---GTGGCAGTAATGCTATC-----------TACCTACCACTCGCAATGAAATACTCGATGGGCATG----------CAGCATGTTAC----GTATGTA-AATGTGCGGATAATTCCCAC-----------------------------------CAAATAACATATTTAACCATATTATATCGATTTAGGGCACTGT--------	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
No Reads

droYak3

TGGAATTGGAGTTGGAGTTGAAGTTAGAGTCTCGTAGAGAGT--TGGCTATAATG--CGATTCCAAA---GTGGCAGTAATGCTACC----------------AGCACTCGCAATGAAATACTCGCT--------------------------------GTATGTA-AATGCGCGGATAATTCCCAT-----------------------------------CAAATAACATATTTAGCCATATTATATCGATTTAGGGCACTGT--------	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

AG-----------------------------------AGAGTTTCCAATATAACG--AGATCTTTTA----TAG------------G----------------ACTA--------------TACG-------------AT--GGTA-------------GCAAGTTTAA--TGCGTTTAATTCCCATCAAAT------------------GTTTCCGTGGACCAAATAACATATTTAGGAATATTATATCGATTTAAAACACTGTT-------	Size	Hit Count	Total Norm	Total
No Reads

droBia1

AG------------------------AGGCGTCGTAGAGAGT--CGAACCCCATA--CGATTTCATATACATGGCAATGTTGTTTTA---AC--ACCTTGAGCTGCGCTCGAAATGAAATATTTTCCG-------------G--T-----GGTATGTATGCAAGTA-GA--GGCGTATAATTCCCACCAAAT------------------GTTTCAGGCGTCCAAATAACATATTTAGCCATATTATATCGATTTAAAACACTGCGTTCGAGT	Size	Hit Count	Total Norm	Total
No Reads

droTak1

-------------------------------TCGTAGCGAGT--CGAATATAATA--CGATTTTA------GG---------------------ACCTTAAGCAACACTTGAAATGAAATATTCGATG-------------A--T-----GGTAA----GCAAGTA-AG--GGCGAATAATTCCCACCAAAT------------------ATTTCAAATTTTCAAATAACATATTTAGCAATATTATATCGATTTAAAACACTGC--------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

AG------------------------AGATATCGTAGAAAGT--CGTATATAAAC--CGATTGTACG----TAGCAATAATGGTAGCAAAAAGGTCTTTATGCTTTACTTTTATTTTAATATTTA-------------------------------------------------ATATAATTCCTATCAACT------------------TTTCC-ACAGGCCAAATAACATATTTAGCAGTATTATATCGATTTAAAACACTGT--------	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AG------------------------AGATATCGTAGAAAGT--CGAATATAAT------------------AGCAATAATGCTAAA---AT--ACCTTATGGTACATGATTGTTTAAATATTTG-------------ATAT--TA-------------ACCAGCT-AA--AGCGGATAATTCACATCGAAT------------------GTTTC-ACAGGCCAAATAACATATTTAGCAGTATTATATCGATTTAAAACACTGT--------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

CG----------------------TAGAGCGTCG-AGAGTGT--CGAGTATAATA--GGATTT----------------------------------------AGCACTCGAAACGATATATG-TACATATACACAAAAT--GGTA-------------GTAAGTA-AG--AGCGTTTAATTCCCACCAAAT------------------GTTTC-GGCGGCCAAATAACATATTTAGCAATATCATATCGATTTAGAGCACTGT--------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

TG------------------------AAGTGTCGTAGAGAGT--GGCCAGTGGTCAGTGGTCAGTCG----CGGCAATAGTGCTAAA---AAG-CCCTT--GCAATACTCGTAATTAAATATCTG-------------AAAG--TG-------------GCGAACA-TA--AGCGGATAATACCCATCACAT------------------GTTTT-AGAGGCCAAATAACATATTTAGCAGTATTATCTTGATT-------------------	Size	Hit Count	Total Norm	Total
No Reads

droAna3

------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CAAATAACATATTTAGCAATATTATCTTGATTTAAAATACTGT--------	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
No Reads

droBip1

CG----------------------------------------------------------------------------------------------------------------------------------------------------------------TGTG-TA--AGCGGCTGATTCCCACCAAAG------------------GTCTAAAGCGTCCAAATAACATATTTAGCAATATTATCTTGATTTAAAATACTGT--------	Size	Hit Count	Total Norm	Total
No Reads

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