View Alignment
This page shows all the targets hit by the same query that passed the project filter. Click a track to view the detailed alignment.
| Legend |
| | Query |
| | Query hiting target |
| Query hiting target's complemental strand |
| | Query's complemental strand hiting target |
| Query's complemental strand hiting target's complemental strand |
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Alignment Overview
Query: SO5590B-LTR4-TNT-insertion-2 (Length: 662)
Name: SO5590B-LTR4-TNT-insertion-2
Description: SO5590B-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] SO5590B-LTR4-TNT-insertion-2 |
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Alignment Details
Target: chr1 (Bit Score: 603; Significance: 0; HSPs: 4)
Name: chr1
Description:
Target: chr1; HSP #1
Raw Score: 603; E-Value: 0
Query Start/End: Original strand, 10 - 654
Target Start/End: Complemental strand, 49218681 - 49218037
Alignment:
| Q |
10 |
cagtgtcgtgcataacttgcgattatagtgatttgtattttgaggacaaggcataaaaatatcaaaaacatttttgtatgtttgggatcgaactagacat |
109 |
Q |
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| T |
49218681 |
cagtgtcgtgcataacttgcgattatagtgatttgtattttgaggacaaggcataaaaatatcaaaaacatttttgtatgtttgggatcgaactagacat |
49218582 |
T |
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| Q |
110 |
gtgatgtggctactcatatgcttgtcatctgaaaaacctatcttaagatatatgtggggtctttgcttctagtatttctcctgnnnnnnnattatatgct |
209 |
Q |
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| T |
49218581 |
gtgatgtggctactcatatgcttgtcatctgaaaaacctatcttaagatatatgtggggtctttgcttctagtatttctcctgtttttttattatatgct |
49218482 |
T |
|
| Q |
210 |
tatcatcaaaattgtcatctggaaaacctaaaaaccatgccaatcaatatctttgtacctctactannnnnnnacacaatcagtcgatattttgaatatg |
309 |
Q |
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| T |
49218481 |
tatcatcaaaattgtcatctggaaaacctaaaaaccatgccaatcaatatctttgtacctctactatttttttacacaatcagtcgatattttgaatatg |
49218382 |
T |
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| Q |
310 |
atgatagttgtatgtctttgtttatcccatctgttggtaaataagccattcagaattatataaaaaatcaatgtatgcatgggttgaatttataaaaact |
409 |
Q |
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| T |
49218381 |
atgatagttgtatgtctttgtttatcccatctgttggtaaataagccattcagaattatataaaaaatcaatgtatgcatgggttgaatttataaaaact |
49218282 |
T |
|
| Q |
410 |
agagttaactacatctaggtcgactcaattatttaagagttaactcatattatgtaagatgtttgtttcatggtcaagtcttctctgatattgcatccat |
509 |
Q |
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| T |
49218281 |
agagttaactacatctaggtcgactcaattatttaagagttaactcatattatgtaagatgtttgtttcatggtcaagtcttctctgatattgcatccat |
49218182 |
T |
|
| Q |
510 |
tgcaattgttgattcatgcaacagaacaacggatggatattttagaatatctttagcaattgttaccctttgtttttgtcctcctgataactgagtacct |
609 |
Q |
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| T |
49218181 |
tgcaattgttgattcatgcaacagaacaacggatggatattttagaatatctttagcaattgttaccctttgtttttgtcctcctgataactgagtacct |
49218082 |
T |
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| Q |
610 |
ctctccccaatctcagtttaacaccctttgccattctgctaatta |
654 |
Q |
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| T |
49218081 |
ctctccccaatctcagtttaacaccctttgccattctgctaatta |
49218037 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1; HSP #2
Raw Score: 36; E-Value: 0.00000000006
Query Start/End: Original strand, 491 - 602
Target Start/End: Complemental strand, 8185343 - 8185232
Alignment:
| Q |
491 |
tctctgatattgcatccattgcaattgttgattcatgcaacagaacaacggatggatattttagaatatctttagcaattgttaccctttgtttttgtcc |
590 |
Q |
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|||||||||||| |||| |||| |||||| ||||| |||||||| | |||||||| ||| ||||| || |||| || | ||| |||||||||||||| |
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| T |
8185343 |
tctctgatattgtgtccagtgcatttgttgcttcatccaacagaaggatggatggatctttcagaattgctctagcgatcgctactctttgtttttgtcc |
8185244 |
T |
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| Q |
591 |
tcctgataactg |
602 |
Q |
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|| ||||||||| |
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| T |
8185243 |
tcttgataactg |
8185232 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1; HSP #3
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 310 - 376
Target Start/End: Original strand, 48962187 - 48962253
Alignment:
| Q |
310 |
atgatagttgtatgtctttgtttatcccatctgttggtaaataagccattcagaattatataaaaaa |
376 |
Q |
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| T |
48962187 |
atgatagttgtatgtctttgttcatcccggatgtttgcaattaagctattcagaataatataaaaaa |
48962253 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 426 - 467
Target Start/End: Original strand, 48696751 - 48696792
Alignment:
| Q |
426 |
aggtcgactcaattatttaagagttaactcatattatgtaag |
467 |
Q |
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| T |
48696751 |
aggtcgactcaattatttaagagtttacttatattttgtaag |
48696792 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
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