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: SO5822A-LTR4-TNT-insertion-1 (Length: 763)
Name: SO5822A-LTR4-TNT-insertion-1
Description: SO5822A-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] SO5822A-LTR4-TNT-insertion-1 |
 | |
|
Alignment Details
Target: chr6 (Bit Score: 659; Significance: 0; HSPs: 5)
Name: chr6
Description:
Target: chr6; HSP #1
Raw Score: 659; E-Value: 0
Query Start/End: Original strand, 9 - 754
Target Start/End: Complemental strand, 25454833 - 25454088
Alignment:
| Q |
9 |
taacgacactgcagtatcatcctctttaaacaagcatctattataccatcgtatgtagcaaagaccggccatagagatttagataaagaaccnnnnnnnn |
108 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454833 |
taacgacactgcagtatcatcctctttaaacaagcatctattataccatcgtatgtagcaaagaccggccatagagatttagataaagaaccaaaaaaaa |
25454734 |
T |
|
| Q |
109 |
nnnnnnnnnnnnnngtccataaccctgacctacacaacaagccaccatctttgtagagctttgaaatccttgtgaatacctgccatctttgtacagttca |
208 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454733 |
caaagaaaaaaaaagtccataaccctgacctacacaacaagccaccatctttgtagagctttgaaatccttgtgaatacctgccatctttgtacagttca |
25454634 |
T |
|
| Q |
209 |
agaccagaagacttgatggcaaattcctatcacagcctccataacagcaaccataacggcccctaggacttcaccttggctttatagtgatagcaggaaa |
308 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454633 |
agaccagaagacttgatggcaaattcctatcacagcctccataacagcaaccataacggcccctaggacttcaccttggctttatagtgatagcaggaaa |
25454534 |
T |
|
| Q |
309 |
atggcaacagtacagaggcatcaacttttgcattttcaccaaatcatgcattcatcaacaaatacaacttcttttccaacagcaacataagttccatgta |
408 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454533 |
atggcaacagtacagaggcatcaacttttgcattttcaccaaatcatgcattcatcaacaaatacaacttcttttccaacagcaacataagttccatgta |
25454434 |
T |
|
| Q |
409 |
aaatatgatccaaacaatgcagttcacttgcaaacagaattaggttgatcataaaatttttagattcatttgtttcttatccactaaaatttagcagtga |
508 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454433 |
aaatatgatccaaacaatgcagttcacttgcaaacagaattaggttgatcataaaatttttagattcatttgtttcttatccactaaaatttagcagtga |
25454334 |
T |
|
| Q |
509 |
ttgnnnnnnnttgaagcacgtaaagtagttcatttggaaatgggaagaaaaataatttcatgtcagaacttgaaaaactaacaagtaaacaacatatgac |
608 |
Q |
| |
|
||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454333 |
ttgaaaaaaattgaagcacgtaaagtagttcatttggaaatgggaagaaaaataatttcatgtcagaacttgaaaaactaacaagtaaacaacatatgac |
25454234 |
T |
|
| Q |
609 |
ttcaaccaaaaactacagtgatagtgaccccactgcatagtctgtcttcttttataatgtgtaaatatagtacgataggaaagactaaaaagttgtcatt |
708 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454233 |
ttcaaccaaaaactacagtgatagtgaccccactgcatagtctgtcttcttttataatgtgtaaatatagtacgataggaaagactaaaaagttgtcatt |
25454134 |
T |
|
| Q |
709 |
taaaataatattcaatcatatatttacttatatctttatgcaattg |
754 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
25454133 |
taaaataatattcaatcatatatttacttatatctttatgcaattg |
25454088 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6; HSP #2
Raw Score: 178; E-Value: 1e-95
Query Start/End: Original strand, 439 - 673
Target Start/End: Complemental strand, 26063407 - 26063173
Alignment:
| Q |
439 |
caaacagaattaggttgatcataaaatttttagattcatttgtttcttatccactaaaatttagcagtgattgnnnnnnnttgaagcacgtaaagtagtt |
538 |
Q |
| |
|
||||||||||| |||||||| |||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| |
|
|
| T |
26063407 |
caaacagaatttggttgatcgtaaattttttagattcatttgtttcttatccactaaaatttagcagtgattgaaaaaaattgaagcacgtaaagtagtt |
26063308 |
T |
|
| Q |
539 |
catttggaaatgggaagaaaaataatttcatgtcagaacttgaaaaactaacaagtaaacaacatatgacttcaaccaaaaactacagtgatagtgaccc |
638 |
Q |
| |
|
|| |||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||| |
|
|
| T |
26063307 |
cagctggaaatgggaagaaaaataatatcatgtcagaacttgaaaaaccaacaagtaaacaacatatgacttcaaccaaaaactacggtgatagtgaccc |
26063208 |
T |
|
| Q |
639 |
cactgcatagtctgtcttcttttataatgtgtaaa |
673 |
Q |
| |
|
||||||||||| ||||||||||||||||||||||| |
|
|
| T |
26063207 |
cactgcatagtttgtcttcttttataatgtgtaaa |
26063173 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6; HSP #3
Raw Score: 178; E-Value: 1e-95
Query Start/End: Original strand, 439 - 673
Target Start/End: Complemental strand, 26083376 - 26083142
Alignment:
| Q |
439 |
caaacagaattaggttgatcataaaatttttagattcatttgtttcttatccactaaaatttagcagtgattgnnnnnnnttgaagcacgtaaagtagtt |
538 |
Q |
| |
|
||||||||||| |||||||| |||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| |
|
|
| T |
26083376 |
caaacagaatttggttgatcgtaaattttttagattcatttgtttcttatccactaaaatttagcagtgattgaaaaaaattgaagcacgtaaagtagtt |
26083277 |
T |
|
| Q |
539 |
catttggaaatgggaagaaaaataatttcatgtcagaacttgaaaaactaacaagtaaacaacatatgacttcaaccaaaaactacagtgatagtgaccc |
638 |
Q |
| |
|
|| |||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||| |
|
|
| T |
26083276 |
cagctggaaatgggaagaaaaataatatcatgtcagaacttgaaaaaccaacaagtaaacaacatatgacttcaaccaaaaactacggtgatagtgaccc |
26083177 |
T |
|
| Q |
639 |
cactgcatagtctgtcttcttttataatgtgtaaa |
673 |
Q |
| |
|
||||||||||| ||||||||||||||||||||||| |
|
|
| T |
26083176 |
cactgcatagtttgtcttcttttataatgtgtaaa |
26083142 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6; HSP #4
Raw Score: 141; E-Value: 2e-73
Query Start/End: Original strand, 439 - 647
Target Start/End: Complemental strand, 26147473 - 26147262
Alignment:
| Q |
439 |
caaacagaattaggttgatcataaaatttttagattcatttgtttcttatccactaaaatttagcagtgattgnnnnnnnttgaagcacgtaaagtagtt |
538 |
Q |
| |
|
|||| |||||| |||||||| |||| |||||||||||||||||||||| |||||||||||||||||||||||| |||||||||||||||||||| |
|
|
| T |
26147473 |
caaatagaatttggttgatcgtaaattttttagattcatttgtttcttctccactaaaatttagcagtgattgaaaaaaattgaagcacgtaaagtagtt |
26147374 |
T |
|
| Q |
539 |
cat---ttggaaatgggaagaaaaataatttcatgtcagaacttgaaaaactaacaagtaaacaacatatgacttcaaccaaaaactacagtgatagtga |
635 |
Q |
| |
|
|| ||||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| |||||||||| |
|
|
| T |
26147373 |
gatcagttggaaatgggaagaaaaataatatcatgtcagaacttgaaaaaccaacaagtaaacaacatatgacttcaaccaaaaactacggtgatagtga |
26147274 |
T |
|
| Q |
636 |
ccccactgcata |
647 |
Q |
| |
|
|||||||||||| |
|
|
| T |
26147273 |
ccccactgcata |
26147262 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6; HSP #5
Raw Score: 91; E-Value: 1e-43
Query Start/End: Original strand, 209 - 399
Target Start/End: Complemental strand, 26148153 - 26147965
Alignment:
| Q |
209 |
agaccagaagacttgatggcaaattcctatcacagcctccataacagcaaccataacggcccctaggacttcaccttggctttatagtgatagcaggaaa |
308 |
Q |
| |
|
||||||||||| ||| |||||||||||||||||||||| | ||||||| |||||||| |||||| |||||| | || ||||| || ||||||||||||| |
|
|
| T |
26148153 |
agaccagaagatttgttggcaaattcctatcacagccttcgtaacagccaccataacagcccctgggactttgctttcgcttt-taatgatagcaggaaa |
26148055 |
T |
|
| Q |
309 |
atggcaacagtacagaggcatcaacttttgcattttcaccaaatcatgcattcatcaacaaatacaacttcttttccaacagcaacataag |
399 |
Q |
| |
|
||||| ||| || ||| |||||||||| ||||||||||||||||||||||||||||||| || ||| |||||||||||| |||||||||| |
|
|
| T |
26148054 |
gtggcagcaggacggagacatcaacttt-gcattttcaccaaatcatgcattcatcaacagatccaatttcttttccaactgcaacataag |
26147965 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
© Oklahoma State University