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: F9049J-LTR4-TNT-insertion-9 (Length: 743)
Name: F9049J-LTR4-TNT-insertion-9
Description: F9049J-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] F9049J-LTR4-TNT-insertion-9 |
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| [»] chr1 (2 HSPs) |
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Alignment Details
Target: chr1 (Bit Score: 694; Significance: 0; HSPs: 2)
Name: chr1
Description:
Target: chr1; HSP #1
Raw Score: 694; E-Value: 0
Query Start/End: Original strand, 8 - 743
Target Start/End: Original strand, 39102328 - 39103063
Alignment:
| Q |
8 |
tcaaataattcctggtccctatttcatttacaagcaaaacaaagacagacttaacaacctacccatatggtcttcaaagatgtctctaactcaccaatgn |
107 |
Q |
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| T |
39102328 |
tcaaataattcctggtccctatttcatttacaagcaaaacaaagacagacttaacaacctacccatatggtcttcaaagatgtctctaactcaccaatga |
39102427 |
T |
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| Q |
108 |
nnnnnngaaatggatcatgccatcatggaaaagttattttaaaattaacttggaattggaactagctttattgctagtggatagagtagaggaggggaca |
207 |
Q |
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| T |
39102428 |
aaaaaagaaatggatcatgccatcatggaaaagttattttaaaattaacttggaattggaactagctttattgctagtggatagagtagaggaggggaca |
39102527 |
T |
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| Q |
208 |
ttgaaatgaaggtttcaatcatatagtactaaaatagaatggagtgttgagtggtacatagaaatgatttatgtcatatagggtagccaatgcccaccaa |
307 |
Q |
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| T |
39102528 |
ttgaaatgaaggtttcaatcatatagtactaaaatagaatggagtgttgagtggtacatagaaatgatttatgtcatatagggtagccaatgcccaccaa |
39102627 |
T |
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| Q |
308 |
aggaatgannnnnnnttagaaattagggttttgtgcggtcataatgaacgcacactttcaagctttcgtaaatctaaatcacttatagtgtgtttgaggt |
407 |
Q |
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| T |
39102628 |
aggaatgacccccccttagaaattagggttttgtgcggtcataatgaacgcacactttcaagctttcgtaaatctaaatcacttatagtgtgtttgaggt |
39102727 |
T |
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| Q |
408 |
ggtatttgtaacacaattcccgcttccgaatgtaacttcaacaccacttttatgaagttggaaatcctagcttcagcctaaacgtggttttgctgcctgt |
507 |
Q |
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| T |
39102728 |
ggtatttgtaacacaattcccgcttccgaatgtaacttcaacaccacttttatgaagttggaaatcctagcttcagcctaaacgtggttttgctgcctgt |
39102827 |
T |
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| Q |
508 |
ttaccgcaattccaaacacatgcttagtggttgtttgtcttcactttaaaatcaaagtaaactcacgtttaggccactgctacattttgtagcttctcaa |
607 |
Q |
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| T |
39102828 |
ttaccgcaattccaaacacatgcttagtggttgtttgtcttcactttaaaatcaaagtaaactcacgtttaggccactgctacattttgtagcttctcaa |
39102927 |
T |
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| Q |
608 |
atttcacgttgcaaatgctctgggatgcgagaatttggatgcagaagttgttccaaacatcctattaatcaagattaaatgttttatatttcaaccttgt |
707 |
Q |
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| T |
39102928 |
atttcacgttgcaaatgctctgggatgcgagaatttggatgcagaagttgttccaaacatcctattaatcaagattaaatgttttatatttcaaccttgt |
39103027 |
T |
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| Q |
708 |
tttttaggtttcagaaaatttaatggttattcaatc |
743 |
Q |
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| T |
39103028 |
tttttaggtttcagaaaatttaatggttattcaatc |
39103063 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1; HSP #2
Raw Score: 58; E-Value: 5e-24
Query Start/End: Original strand, 540 - 672
Target Start/End: Complemental strand, 52218458 - 52218319
Alignment:
| Q |
540 |
gtttgtcttcactttaaaatcaaagtaaactcacgtttaggccactgctacattttgtagcttctcaaatttcacgttgcaaatgct-------ctggga |
632 |
Q |
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| T |
52218458 |
gtttgttttcactttaaaatcaaagtaaagtcacgtttaggccactcttacatttcatagcttctcgaatttcacgttgcacatgctttgagagttgaga |
52218359 |
T |
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| Q |
633 |
tgcgagaatttggatgcagaagttgttccaaacatcctat |
672 |
Q |
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| T |
52218358 |
cgcgagaatttggatgcgaaagttgttccaaacatgctat |
52218319 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6 (Bit Score: 45; Significance: 3e-16; HSPs: 1)
Name: chr6
Description:
Target: chr6; HSP #1
Raw Score: 45; E-Value: 3e-16
Query Start/End: Original strand, 412 - 508
Target Start/End: Original strand, 34539755 - 34539851
Alignment:
| Q |
412 |
tttgtaacacaattcccgcttccgaatgtaacttcaacaccacttttatgaagttggaaatcctagcttcagcctaaacgtggttttgctgcctgtt |
508 |
Q |
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| T |
34539755 |
tttgtaacacaatttatgctttccaatggaacttcaacgccacttctatgaggctggaaatcctaacttcaacctaaacgtggttttgctgactgtt |
34539851 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2 (Bit Score: 43; Significance: 0.000000000000005; HSPs: 1)
Name: chr2
Description:
Target: chr2; HSP #1
Raw Score: 43; E-Value: 0.000000000000005
Query Start/End: Original strand, 535 - 605
Target Start/End: Original strand, 7824126 - 7824196
Alignment:
| Q |
535 |
tggttgtttgtcttcactttaaaatcaaagtaaactcacgtttaggccactgctacattttgtagcttctc |
605 |
Q |
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| T |
7824126 |
tggttgtttgttttcacgttgaaatcaaagtaaaattacgtttaggccactcctacatttcgtagcttctc |
7824196 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
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