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 |
|
Alignment Overview
Query: F9493H-LTR4-TNT-insertion-1 (Length: 488)
Name: F9493H-LTR4-TNT-insertion-1
Description: F9493H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] F9493H-LTR4-TNT-insertion-1 |
 | |
|
Alignment Details
Target: chr2 (Bit Score: 447; Significance: 0; HSPs: 3)
Name: chr2
Description:
Target: chr2; HSP #1
Raw Score: 447; E-Value: 0
Query Start/End: Original strand, 11 - 478
Target Start/End: Original strand, 41030520 - 41030987
Alignment:
| Q |
11 |
cataaaatatttcagcagtttaaaagagagtgtgatttgtgctagcaatatattatgttgtaatagtaagggtaatcgtaagattcctgggagggctaag |
110 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
41030520 |
cataaaatatttcagcagtttaaaagagagtgtgatttgtgctagcaatatattatgttgtaatagtaagggtaatcgtaagattcctgggagggctaag |
41030619 |
T |
|
| Q |
111 |
catatcactcatgctgctgtgtcagtctaccataggttgctttctcgatctgataaggtccatgtggctcgtcacgatttctaatgctgcgtagttgttt |
210 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
41030620 |
catatcactcatgctgctgtgtcagtctaccataggttgctttctcgatctgataaggtccatgtggctcgtcacgatttctaatgctgcgtagttgttt |
41030719 |
T |
|
| Q |
211 |
gtttttgtggtggatcagtttccgatacgcataaggatcaaagctatagtttgtagtttctattaaatcactgttgattggcatatgaacgcgagtatag |
310 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
41030720 |
gtttttgtggtggatcagtttccgatacgcataaggatcaaagctatagtttgtagtttctattaaatcactgttgattggcatatgaacgcgagtatag |
41030819 |
T |
|
| Q |
311 |
tgagtgtggaactagtgaaatcaaacatagaggctatcatacattttctcctttaatatgtgcaagctatatttacacttacaagttatagtatctttct |
410 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
41030820 |
tgagtgtggaactagtgaaatcaaacatagaggctatcatacattttctcctttaatatgtgcaagctatatttacacttacaagttatagtatctttct |
41030919 |
T |
|
| Q |
411 |
ttcttgtaacctcnnnnnnnaaagtgaaataaatgtttgcttgcttttagttaagcatagtaatatta |
478 |
Q |
| |
|
||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
41030920 |
ttcttgtaacctctttttttaaagtgaaataaatgtttgcttgcttttagttaagcatagtaatatta |
41030987 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #2
Raw Score: 68; E-Value: 4e-30
Query Start/End: Original strand, 11 - 354
Target Start/End: Original strand, 41036122 - 41036450
Alignment:
| Q |
11 |
cataaaatatttcagcagtttaaaagagagtgtgatttgtgctagcaatatattatgttgtaatagtaagggtaatcgtaagattcctgggagggctaag |
110 |
Q |
| |
|
|||||||| |||||| ||| |||| ||| ||||| ||||||| ||||||| |||| | ||||| |||||||||| ||||||||| |||| |
|
|
| T |
41036122 |
cataaaatgtttcagaagtgtaaaggagggtgtggtttgtgccagcaatagattaaatcataatattaagggtaattgtaagattctaggga-------- |
41036213 |
T |
|
| Q |
111 |
catatcactcatgctgctgtgtcagtctaccataggttgctttctcgatctgataaggtccatgtggctcgtcacgatttctaatgctgcgtagttgttt |
210 |
Q |
| |
|
|||| ||||||||||||||||||||||| ||| ||||||||||| |||||||||||||| |||||||||| |||||||| || | | || |||| |
|
|
| T |
41036214 |
-atattactcatgctgctgtgtcagtctattgtagattgctttctcggtctgataaggtccacatggctcgtcatgatttctattgtt---tcgtggttt |
41036309 |
T |
|
| Q |
211 |
gtttttgtggtggatcagtttccgatacgcataaggatcaaagctatagtttgtagtttctattaaatcactgttgattggcatatgaacgcgagtatag |
310 |
Q |
| |
|
|||||| ||| ||||| | ||| ||| | ||||||||||||| || ||| |||||||| ||||||||| || |||||||||||||| || || |||| |
|
|
| T |
41036310 |
ctttttgcggtagatcactgtccaatatgtgtaaggatcaaagcagtattttatagtttctgttaaatcacagtcgattggcatatgaatgcaagaatag |
41036409 |
T |
|
| Q |
311 |
tgagtgtggaactagtgaaatcaaacatagaggctatcatacat |
354 |
Q |
| |
|
|||||| || |||||| ||||||| |||||||||||||| |
|
|
| T |
41036410 |
cgagtgtaga---tgtgaaactaaacatataggctatcatacat |
41036450 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #3
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 78 - 215
Target Start/End: Original strand, 41044675 - 41044816
Alignment:
| Q |
78 |
aagggtaatcgtaagattcctgggagggctaagcatatcactcatgctgctgtgtcag----tctaccataggttgctttctcgatctgataaggtccat |
173 |
Q |
| |
|
||||||||| ||||||||| |||| |||||||||| |||||||||||| |||||||| | | ||||| ||| ||||||||||||||||||| ||| |
|
|
| T |
41044675 |
aagggtaattgtaagattctagggaaggctaagcatgtcactcatgctgttgtgtcagtatttatttcatagcttgttttctcgatctgataaggttcat |
41044774 |
T |
|
| Q |
174 |
gtggctcgtcacgatttctaatgctgcgtagttgtttgtttt |
215 |
Q |
| |
|
|||||| | | ||||||||||| ||| | ||||||||||| |
|
|
| T |
41044775 |
gtggcttgctatgatttctaatgttgcacacttgtttgtttt |
41044816 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
© Oklahoma State University
This website was viewed 897 times since January 2019
Visitors: 1113