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: SO5945A-LTR4-TNT-insertion-5 (Length: 754)
Name: SO5945A-LTR4-TNT-insertion-5
Description: SO5945A-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] SO5945A-LTR4-TNT-insertion-5 |
 | |
|
| [»] chr7 (15 HSPs) |
| |
|
Alignment Details
Target: chr7 (Bit Score: 718; Significance: 0; HSPs: 15)
Name: chr7
Description:
Target: chr7; HSP #1
Raw Score: 718; E-Value: 0
Query Start/End: Original strand, 9 - 754
Target Start/End: Original strand, 42854923 - 42855668
Alignment:
| Q |
9 |
atacaatataatatgtgcataagatatatcatggtattctttctcattcttgtcgatccgcaataatagatattttacattttaacttccagctttgtga |
108 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42854923 |
atacaatataatatgtgcataagatatatcatggtattctttctcattcttgtcgatccgcaataatagatattttacattttaacttccagctttgtga |
42855022 |
T |
|
| Q |
109 |
tcttaatgcaacggcatcagcagccaattaatgaaatgcagaaaaggaggattaagaatctttcaaaacacttggaggagggcatgttaaaagcttctct |
208 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42855023 |
tcttaatgcaacggcatcagcagccaattaatgaaatgcagaaaaggaggattaagaatctttcaaaacacttggaggagggcatgttaaaagcttctct |
42855122 |
T |
|
| Q |
209 |
cactatggttttttctggatctcattttcannnnnnnncactattgggagggatttaagtcttctttaattttaatcttcttttcactattgggagggat |
308 |
Q |
| |
|
|||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| |
|
|
| T |
42855123 |
cactatggttttttctggatctcattttcattttttttcactattgggagggatttaagtcttctttaattttaattttcttttcactattgggagggat |
42855222 |
T |
|
| Q |
309 |
ttaagtcttccttaatttaaattttctaatactcagatttatgtttctagaagtaataaattacaaggtgctttcaaacttcttcctccttaatttcaaa |
408 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42855223 |
ttaagtcttccttaatttaaattttctaatactcagatttatgtttctagaagtaataaattacaaggtgctttcaaacttcttcctccttaatttcaaa |
42855322 |
T |
|
| Q |
409 |
gactattattgtgttgaacatgttttcgactcgtattgtagaaggactacatgagcttgcgtacactagagagtcatttatccattttcctccgacgagc |
508 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42855323 |
gactattattgtgttgaacatgttttcgactcgtattgtagaaggactacatgagcttgcgtacactagagagtcatttatccattttcctccgacgagc |
42855422 |
T |
|
| Q |
509 |
aactatgcttggaagttccaaagcccacaacgatgtaagcaccaaggtgtggtgtaacgcattactcttattttctgtttctgcatatttttcactctcc |
608 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42855423 |
aactatgcttggaagttccaaagcccacaacgatgtaagcaccaaggtgtggtgtaacgcattactcttattttctgtttctgcatatttttcactctcc |
42855522 |
T |
|
| Q |
609 |
cattaggtgaatttcaggccattgctgttgtgaaacctctattcttgcattccccaaagatataacttgattaggcttataactctttcccttctttact |
708 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42855523 |
cattaggtgaatttcaggccattgctgttgtgaaacctctattcttgcattccccaaagatataacttgattaggcttataactctttcccttctttact |
42855622 |
T |
|
| Q |
709 |
aggaattgtcaattcattgcgtgtctttcttttttgcagaaggtgt |
754 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42855623 |
aggaattgtcaattcattgcgtgtctttcttttttgcagaaggtgt |
42855668 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #2
Raw Score: 180; E-Value: 8e-97
Query Start/End: Original strand, 277 - 675
Target Start/End: Original strand, 42856784 - 42857182
Alignment:
| Q |
277 |
attttaatcttcttttcactattgggagggatttaagtcttccttaatttaaattttctaatactca-gatttatgtttctagaagtaataaattacaag |
375 |
Q |
| |
|
|||| ||| ||||||||||||||| | |||||||| |||||| |||| |||| | |||||||| |||||||| |||| |||| ||||| |||| |
|
|
| T |
42856784 |
atttcaattttcttttcactattgcaatggatttaaactttccttgattttaattattaaatactcaagatttatgattctggaagcaataa----caag |
42856879 |
T |
|
| Q |
376 |
gtgctttcaaac---ttcttcctccttaatttcaaagactattattgtgttgaacatgttttcgactcgtattgtagaaggactacatgagcttgcgtac |
472 |
Q |
| |
|
||| ||||||| |||||||||||||| |||||||||| |||||||||||| |||||||||||| || || ||| | |||||||||| |||| ||| |
|
|
| T |
42856880 |
gtgtcttcaaacaagttcttcctccttaaattcaaagactgttattgtgttgacaatgttttcgacttgtcttttaggatgactacatgaacttggatac |
42856979 |
T |
|
| Q |
473 |
actagagagtcatttatccattttcctccgacgagcaactatgcttggaagttccaaagcccacaacgatgtaagcaccaaggtgtggtgtaacgcatta |
572 |
Q |
| |
|
||||||||||| |||||| | ||||||||||| ||||||||||| ||||||||||||||| ||||| |||||||||||||||||| |||||| ||| | |
|
|
| T |
42856980 |
actagagagtcgtttatctaatttcctccgacaagcaactatgcatggaagttccaaagctcacaaaactgtaagcaccaaggtgtgttgtaacacatca |
42857079 |
T |
|
| Q |
573 |
ctcttattttctgtttctgcatatttttcactctcccattaggtgaatttcaggccattgctgttgtgaaacctctattcttgcattccccaaagatata |
672 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| || |||||||||| |
|
|
| T |
42857080 |
ctcttattttctgtttctgcatatttttcactctcccatttggtgaatttcaggccattgctgttgtgaaacctctattcttgcactcttcaaagatata |
42857179 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #3
Raw Score: 155; E-Value: 7e-82
Query Start/End: Original strand, 9 - 284
Target Start/End: Original strand, 42848374 - 42848654
Alignment:
| Q |
9 |
atacaatataatat--gtgcataagat--atatcatggtattctttctcattcttgtcgatccgcaataatagatattttacattttaacttccagcttt |
104 |
Q |
| |
|
|||||||||||||| |||||| |||| |||||||| |||||||| |||||||||||||| ||||||||| ||| ||||||||||| ||||||||||| |
|
|
| T |
42848374 |
atacaatataatatatgtgcatgagatgtatatcatgatattctttttcattcttgtcgattagcaataataaatactttacattttaccttccagcttt |
42848473 |
T |
|
| Q |
105 |
gtgatcttaatgcaacggcatcagcagccaattaatgaaatgcagaaaaggaggattaagaatctttcaaaacacttggaggagggcatgttaaaagctt |
204 |
Q |
| |
|
|||||||||||||||| |||||| ||||||| |||||||||||||| ||||||||||||| |||||||||||| |||||||||||||||||||||||||| |
|
|
| T |
42848474 |
gtgatcttaatgcaactgcatcaacagccaactaatgaaatgcagagaaggaggattaaggatctttcaaaacgcttggaggagggcatgttaaaagctt |
42848573 |
T |
|
| Q |
205 |
ctctcactatggttttttctggatctcattttca-nnnnnnnncactattgggagggatttaagtcttctttaattttaat |
284 |
Q |
| |
|
|||||||||||||||||||| ||||||||||||| ||||||||||||| ||| |||||||| ||||||||||| |
|
|
| T |
42848574 |
ctctcactatggttttttcttgatctcattttcattttcttttcactattgggaggtattcaagtcttccttaattttaat |
42848654 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #4
Raw Score: 110; E-Value: 5e-55
Query Start/End: Original strand, 577 - 734
Target Start/End: Original strand, 42848849 - 42849005
Alignment:
| Q |
577 |
tattttctgtttctgcatatttttcactctcccattaggtgaatttcaggccattgctgttgtgaaacctctattcttgcattccccaaagatataactt |
676 |
Q |
| |
|
|||||||||||||||||||||||| ||| ||| ||| ||||| ||||||||||||||||||||||||||||||||||||||||| | | |||||||||| |
|
|
| T |
42848849 |
tattttctgtttctgcatatttttgactttcctatttggtgagtttcaggccattgctgttgtgaaacctctattcttgcattctctatggatataactt |
42848948 |
T |
|
| Q |
677 |
gattaggcttataactctttcccttctttactaggaattgtcaattcattgcgtgtct |
734 |
Q |
| |
|
||||||||||||| ||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
42848949 |
-attaggcttataattctttcccttctttactaggaattgtcaattcattgcgtgtct |
42849005 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #5
Raw Score: 100; E-Value: 5e-49
Query Start/End: Original strand, 69 - 235
Target Start/End: Original strand, 42860697 - 42860864
Alignment:
| Q |
69 |
caataatagatattttacattttaactt-ccagctttgtgatcttaatgcaacggcatcagcagccaattaatgaaatgcagaaaaggaggattaagaat |
167 |
Q |
| |
|
|||||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||| |||||||||| ||||||||||||| ||||||||| || |
|
|
| T |
42860697 |
caataatagatattttacattttacctttccagctttgtgatcttaatgcaacggcatcaacagccaattactgaaatgcagaaagggaggattacagat |
42860796 |
T |
|
| Q |
168 |
ctttcaaaacacttggaggagggcatgttaaaagcttctctcactatggttttttctggatctcattt |
235 |
Q |
| |
|
|||||||||| | |||| |||||| |||| |||||| ||||||| | ||||||||||||||||||||| |
|
|
| T |
42860797 |
ctttcaaaacgcctggacgagggcctgttcaaagctgctctcacgaaggttttttctggatctcattt |
42860864 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #6
Raw Score: 96; E-Value: 1e-46
Query Start/End: Original strand, 69 - 235
Target Start/End: Original strand, 42856620 - 42856787
Alignment:
| Q |
69 |
caataatagatattttacattttaactt-ccagctttgtgatcttaatgcaacggcatcagcagccaattaatgaaatgcagaaaaggaggattaagaat |
167 |
Q |
| |
|
|||||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||| |||||||||| ||||||||||||| ||| ||||| || |
|
|
| T |
42856620 |
caataatagatattttacattttacctttccagctttgtgatcttaatgcaacggcatcaacagccaattactgaaatgcagaaagggaagattacagat |
42856719 |
T |
|
| Q |
168 |
ctttcaaaacacttggaggagggcatgttaaaagcttctctcactatggttttttctggatctcattt |
235 |
Q |
| |
|
|||||||||| | |||| |||||| |||| |||||| ||||||| | ||||||||||||||||||||| |
|
|
| T |
42856720 |
ctttcaaaacgcctggatgagggcctgttcaaagctgctctcacgaaggttttttctggatctcattt |
42856787 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #7
Raw Score: 73; E-Value: 6e-33
Query Start/End: Original strand, 277 - 516
Target Start/End: Original strand, 42860861 - 42861100
Alignment:
| Q |
277 |
attttaatcttcttttcactattgggagggatttaagtcttccttaatttaaattttctaatactca-gatttatgtttctagaagtaataaattacaag |
375 |
Q |
| |
|
|||| ||| ||||||||||||||| | |||||||| |||||| |||| |||| | |||||||| |||||||| |||| |||||||||| |||| |
|
|
| T |
42860861 |
atttcaattttcttttcactattgcaatggatttaaactttccttgattttaattattaaatactcaagatttatgattctggaagtaataa----caag |
42860956 |
T |
|
| Q |
376 |
gtgctttcaaac---ttcttcctccttaatttcaaagactattattgtgttgaacatgttttcgactcgtattgtagaaggactacatgagcttgcgtac |
472 |
Q |
| |
|
||| ||||||| |||||||||||||| |||||||||| |||||||||||| |||||||||||| || || ||| | |||||||||| |||| ||| |
|
|
| T |
42860957 |
gtgtcttcaaacatgttcttcctccttaaattcaaagactgttattgtgttgacaatgttttcgacttgtcttttaggatgactacatgaacttggatac |
42861056 |
T |
|
| Q |
473 |
actagagagtcatttatccattttcctccgacgagcaactatgc |
516 |
Q |
| |
|
||||||||||| |||||| | ||||||||||| ||||||||||| |
|
|
| T |
42861057 |
actagagagtcgtttatctaatttcctccgacaagcaactatgc |
42861100 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #8
Raw Score: 64; E-Value: 1e-27
Query Start/End: Original strand, 9 - 281
Target Start/End: Original strand, 42853034 - 42853305
Alignment:
| Q |
9 |
atacaatataatatgtgcataagatatatcatggtattctttctcattcttgtcgatccgcaataatagatattttacattttaacttccagctttgtga |
108 |
Q |
| |
|
|||| |||||||||||||||||||||||||| | |||||||| |||||||||||||| | | || || |||||||| ||||||||| || || |
|
|
| T |
42853034 |
atacgatataatatgtgcataagatatatcacgttattctttttcattcttgtcgattttacttgacagcaata--acattttaccttccagctatgaga |
42853131 |
T |
|
| Q |
109 |
tcttaatgcaacggcat-cagcagccaattaatgaaatgcagaaaaggaggattaagaatctttcaaaacacttggaggagggcatgttaaaagcttctc |
207 |
Q |
| |
|
| ||| ||||||||||| || | ||| ||| ||||||||||||||||||||| ||| ||||||||||| | ||||||||||| ||||||||| ||||| |
|
|
| T |
42853132 |
tgttattgcaacggcatgcaata-ccagttagtgaaatgcagaaaaggaggatcaaggatctttcaaaatgcctggaggagggcctgttaaaagattctc |
42853230 |
T |
|
| Q |
208 |
tcactatggttttttctggatctcattttca-nnnnnnnncactattgggagggatttaagtcttctttaatttt |
281 |
Q |
| |
|
|| ||| ||||||||||||||| ||| || | |||||||||||||||||||| ||||| |||||||| |
|
|
| T |
42853231 |
tctctaaggttttttctggatcccatgttaattttcttttcactattgggagggatttaaatcttccttaatttt |
42853305 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #9
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 280 - 326
Target Start/End: Original strand, 42853258 - 42853304
Alignment:
| Q |
280 |
ttaatcttcttttcactattgggagggatttaagtcttccttaattt |
326 |
Q |
| |
|
||||| ||||||||||||||||||||||||||| ||||||||||||| |
|
|
| T |
42853258 |
ttaattttcttttcactattgggagggatttaaatcttccttaattt |
42853304 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #10
Raw Score: 38; E-Value: 0.000000000005
Query Start/End: Original strand, 694 - 743
Target Start/End: Original strand, 42857184 - 42857233
Alignment:
| Q |
694 |
tttcccttctttactaggaattgtcaattcattgcgtgtctttctttttt |
743 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||| |||| | |||||| |
|
|
| T |
42857184 |
tttcccttctttactaggaattgtcaattcattgcgagtctctgtttttt |
42857233 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #11
Raw Score: 37; E-Value: 0.00000000002
Query Start/End: Original strand, 277 - 333
Target Start/End: Original strand, 42848601 - 42848657
Alignment:
| Q |
277 |
attttaatcttcttttcactattgggagggatttaagtcttccttaatttaaatttt |
333 |
Q |
| |
|
||||| || |||||||||||||||||||| ||| |||||||||||||||| |||||| |
|
|
| T |
42848601 |
attttcattttcttttcactattgggaggtattcaagtcttccttaattttaatttt |
42848657 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #12
Raw Score: 37; E-Value: 0.00000000002
Query Start/End: Original strand, 619 - 698
Target Start/End: Original strand, 42861404 - 42861484
Alignment:
| Q |
619 |
atttcaggccattgctgttgtgaaacctctattcttgcattccccaaagatataacttgatt-aggcttataactctttcc |
698 |
Q |
| |
|
||||||| |||||| || |||||||||||| ||| ||||||| ||||| |||||||||||| | |||||||||||||||| |
|
|
| T |
42861404 |
atttcagcccattgttgatgtgaaacctctcttcatgcattctccaaaagtataacttgattaaagcttataactctttcc |
42861484 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #13
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 419 - 515
Target Start/End: Original strand, 42853362 - 42853458
Alignment:
| Q |
419 |
gtgttgaacatgttttcgactcgtattgtagaaggactacatgagcttgcgtacactagagagtcatttatccattttcctccgacgagcaactatg |
515 |
Q |
| |
|
||||||| ||||||| ||||||| || ||| |||||||||||| |||| ||||||| |||||| |||| | | ||||||||||| |||| ||||| |
|
|
| T |
42853362 |
gtgttgacaatgttttggactcgtcttttaggaggactacatgaacttggatacactacagagtcgtttaactaatttcctccgacaagcagctatg |
42853458 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #14
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 683 - 727
Target Start/End: Original strand, 42861513 - 42861557
Alignment:
| Q |
683 |
gcttataactctttcccttctttactaggaattgtcaattcattg |
727 |
Q |
| |
|
|||||||||| |||||||||||||||||||| || |||||||||| |
|
|
| T |
42861513 |
gcttataactatttcccttctttactaggaactgacaattcattg |
42861557 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr7; HSP #15
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 9 - 50
Target Start/End: Original strand, 42860645 - 42860686
Alignment:
| Q |
9 |
atacaatataatatgtgcataagatatatcatggtattcttt |
50 |
Q |
| |
|
|||||||||||||||||| |||||||| ||||| |||||||| |
|
|
| T |
42860645 |
atacaatataatatgtgcgtaagatatgtcatgatattcttt |
42860686 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr4 (Bit Score: 70; Significance: 4e-31; HSPs: 2)
Name: chr4
Description:
Target: chr4; HSP #1
Raw Score: 70; E-Value: 4e-31
Query Start/End: Original strand, 9 - 233
Target Start/End: Original strand, 27150 - 27383
Alignment:
| Q |
9 |
atacaatataatatgtgcataagatatatcatggtattctttctcattcttgtcgatcc---------gcaataatagatattttacattttaacttcca |
99 |
Q |
| |
|
||||||| |||||||||||||||||||||| ||||||||||| |||||||||| ||| |||||||| ||||||||||||||| || || |
|
|
| T |
27150 |
atacaatgtaatatgtgcataagatatatcgtggtattctttttcattcttgttgattttacataatggcaataattaatattttacattttacattgca |
27249 |
T |
|
| Q |
100 |
gctttgtgatcttaatgcaacggcatcagcagccaattaatgaaatgcagaaaaggaggattaagaatctttcaaaacacttggaggagggcatgttaaa |
199 |
Q |
| |
|
||| || || ||| | | |||||||||||||||||||| |||||| || ||||||||||||||| ||||| |||||| | ||||||||||||||||||| |
|
|
| T |
27250 |
gctgtgagacgttatttcgacggcatcagcagccaattagtgaaattcaaaaaaggaggattaaggatcttgcaaaacgcctggaggagggcatgttaaa |
27349 |
T |
|
| Q |
200 |
agcttctctcactatggttttttctggatctcat |
233 |
Q |
| |
|
| | ||| ||| |||||||||||||| |||| |
|
|
| T |
27350 |
aaatgctccttctaaggttttttctggatatcat |
27383 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr4; HSP #2
Raw Score: 47; E-Value: 2e-17
Query Start/End: Original strand, 390 - 515
Target Start/End: Original strand, 27482 - 27605
Alignment:
| Q |
390 |
cttcctccttaatttcaaagactattattgtgttgaacatgttttcgactcgtattgtagaaggactacatgagcttgcgtacactagagagtcatttat |
489 |
Q |
| |
|
||||||||||||||||||||||| ||||||||||| |||||||||||| || || ||| |||| ||||||| |||| ||||||||| || ||||| |
|
|
| T |
27482 |
cttcctccttaatttcaaagact--tattgtgttgacaatgttttcgacttgtcttttaggaggagtacatgaacttggaaacactagaggctcgtttat |
27579 |
T |
|
| Q |
490 |
ccattttcctccgacgagcaactatg |
515 |
Q |
| |
|
| |||||||||||| |||||||||| |
|
|
| T |
27580 |
ctcttttcctccgacaagcaactatg |
27605 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
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