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: SO5590B-LTR4-TNT-insertion-13 (Length: 776)
Name: SO5590B-LTR4-TNT-insertion-13
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-13 |
 | |
|
| [»] chr3 (6 HSPs) |
| |
|
Alignment Details
Target: chr3 (Bit Score: 662; Significance: 0; HSPs: 6)
Name: chr3
Description:
Target: chr3; HSP #1
Raw Score: 662; E-Value: 0
Query Start/End: Original strand, 10 - 776
Target Start/End: Original strand, 22264240 - 22265006
Alignment:
| Q |
10 |
actttgattttcaagaacaaaatcaagagttttgtaaaaggtttcccaatttatacgttgcgacacccaggcttttgatgtctctacaaccatattcata |
109 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264240 |
actttgattttcaagaacaaaatcaagagttttgtaaaaggtttcccaatttatacgttgcgacacccaggcttttgatgtctctacaaccatattcata |
22264339 |
T |
|
| Q |
110 |
cnnnnnnnngttgcaaccatattgatactttgattaagtgtagtttaattgagattctcttcaatattaaacatattaggcgcggccttgtttccgctag |
209 |
Q |
| |
|
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264340 |
cttttttttgttgcaaccatattgatactttgattaagtgtagtttaattgagattctcttcaatattaaacatattaggcgcggccttgtttccgctag |
22264439 |
T |
|
| Q |
210 |
aacaattacaatcttggtataacctaattgtcagatttggtctgattttcaaagagcaaattcaaaagagcnnnnnnnnnaaaagtttcgcaatttatat |
309 |
Q |
| |
|
||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| |
|
|
| T |
22264440 |
aacaattacaatcttggtataacctaattgttagatttggtctgattttcaaagagcaaattcaaaagagctttttttttaaaagtttcgcaatttatat |
22264539 |
T |
|
| Q |
310 |
gttgcgacaccagggtttttgatgtctcaagcaaaccttgatttaggtctagggttcaggttctttttggttacaatctagggttcaagttctacaaagg |
409 |
Q |
| |
|
||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264540 |
gttgcgacaccagggtttttgatgtctcaagcagaccttgatttaggtctagggttcaggttctttttggttacaatctagggttcaagttctacaaagg |
22264639 |
T |
|
| Q |
410 |
agacaaatactaacacactaacatttattattaacacttgtcnnnnnnncatttattattaacaagaagaaaggtcttgtttatctatgacaacaattaa |
509 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264640 |
agacaaatactaacacactaacatttattattaacacttgtcaaaaaaacatttattattaacaagaagaaaggtcttgtttatctatgacaacaattaa |
22264739 |
T |
|
| Q |
510 |
agcctaaattgaatatagctcttgaaaaccaacaaagttttnnnnnnntcgcaatttaagagtttttaattagtgaatattgttaccatgaagtagaaaa |
609 |
Q |
| |
|
| ||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264740 |
aacctaaattgaatatagctcttgaaaaccaacaaagttttaaaaaaatcgcaatttaagagtttttaattagtgaatattgttaccatgaagtagaaaa |
22264839 |
T |
|
| Q |
610 |
ctgaggctatgttgttgaaaagtgaagctgaggattatgtgaaaagagagagtagaatgaaccgaggttaccaaaacctaggaatgtgaagaagaatatt |
709 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264840 |
ctgaggctatgttgttgaaaagtgaagctgaggattatgtgaaaagagagagtagaatgaaccgaggttaccaaaacctaggaatgtgaagaagaatatt |
22264939 |
T |
|
| Q |
710 |
tgaacggaagtatttatacacaaattaaggagtccagttaaagtaatatttgatttgattcgcatta |
776 |
Q |
| |
|
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
22264940 |
tgaacggaagtatttatacacaaattaaggagtccagttaaagtaatatttgatttgattcgcatta |
22265006 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #2
Raw Score: 74; E-Value: 2e-33
Query Start/End: Original strand, 560 - 704
Target Start/End: Complemental strand, 22269272 - 22269130
Alignment:
| Q |
560 |
gcaatttaagagtttttaattagtgaatattgttaccatgaagtagaaaactgaggctatgttgttgaaaagtgaagctgaggattatgtgaaaagagag |
659 |
Q |
| |
|
||||||||||||||||| | ||| |||| ||||||||||||||||||||||||||||| | ||| || ||||||||| ||||||||||||||||||| |
|
|
| T |
22269272 |
gcaatttaagagtttttgaatagagaatg--gttaccatgaagtagaaaactgaggctatatcgttcaatagtgaagcttcggattatgtgaaaagagag |
22269175 |
T |
|
| Q |
660 |
agtagaatgaaccgaggttaccaaaacctaggaatgtgaagaaga |
704 |
Q |
| |
|
||| |||||||| |||||||||||| ||||||||||||| |||| |
|
|
| T |
22269174 |
agtggaatgaactgaggttaccaaatactaggaatgtgaaaaaga |
22269130 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #3
Raw Score: 58; E-Value: 5e-24
Query Start/End: Original strand, 707 - 776
Target Start/End: Complemental strand, 22269102 - 22269033
Alignment:
| Q |
707 |
atttgaacggaagtatttatacacaaattaaggagtccagttaaagtaatatttgatttgattcgcatta |
776 |
Q |
| |
|
||||||| |||||||||||||||||||||||||||| ||||||||||||||||||||||||||| ||||| |
|
|
| T |
22269102 |
atttgaatggaagtatttatacacaaattaaggagtgcagttaaagtaatatttgatttgattcacatta |
22269033 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #4
Raw Score: 52; E-Value: 2e-20
Query Start/End: Original strand, 294 - 365
Target Start/End: Complemental strand, 22269429 - 22269359
Alignment:
| Q |
294 |
gtttcgcaatttatatgttgcgacaccagggtttttgatgtctcaagcaaaccttgatttaggtctagggtt |
365 |
Q |
| |
|
||||| |||||||||||||||||||||||||||||| ||||||||| ||||||| ||||||||||||||||| |
|
|
| T |
22269429 |
gtttcccaatttatatgttgcgacaccagggttttt-atgtctcaatcaaacctcgatttaggtctagggtt |
22269359 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #5
Raw Score: 48; E-Value: 5e-18
Query Start/End: Original strand, 386 - 445
Target Start/End: Complemental strand, 22269367 - 22269308
Alignment:
| Q |
386 |
tctagggttcaagttctacaaaggagacaaatactaacacactaacatttattattaaca |
445 |
Q |
| |
|
||||||||| ||||||| ||||| |||||||||||||||||||||||||||||||||||| |
|
|
| T |
22269367 |
tctagggtttaagttctgcaaagaagacaaatactaacacactaacatttattattaaca |
22269308 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #6
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 22 - 93
Target Start/End: Complemental strand, 22269459 - 22269387
Alignment:
| Q |
22 |
aagaacaaaatcaagag--ttttgtaaaaggtttcccaatttatacgttgcgacacccaggcttttgatgtctc |
93 |
Q |
| |
|
|||||||||||||| || |||| ||||||||||||||||||||| ||||||||| ||||| |||| ||||||| |
|
|
| T |
22269459 |
aagaacaaaatcaacagacttttttaaaaggtttcccaatttatatgttgcgaca-ccagggtttttatgtctc |
22269387 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
© Oklahoma State University