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: SO5928A-LTR4-TNT-insertion-3 (Length: 498)
Name: SO5928A-LTR4-TNT-insertion-3
Description: SO5928A-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] SO5928A-LTR4-TNT-insertion-3 |
 | |
|
Alignment Details
Target: chr8 (Bit Score: 228; Significance: 1e-125; HSPs: 2)
Name: chr8
Description:
Target: chr8; HSP #1
Raw Score: 228; E-Value: 1e-125
Query Start/End: Original strand, 12 - 260
Target Start/End: Original strand, 39577437 - 39577685
Alignment:
| Q |
12 |
ggacaatgtttctcggaatacatgttgtcattgtattctctattataatacaatattgaaatttagaaagaagaagaaagnnnnnnnccgaacgtgctcc |
111 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||| |
|
|
| T |
39577437 |
ggacaatgtttctcggaatacatgttgtcattgtattctctattataatacaatattgaaatttagaaagaagaagaaagaaaaaaaccgaacgtgctcc |
39577536 |
T |
|
| Q |
112 |
atcatcgctcttaagtgagacaccatgctccatctcacctatacctcacaaaacctccatttttgagcaattgaagttttgcatgtatctttttcttctc |
211 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
39577537 |
atcatcgctcttaagtgagacaccatgctccatctcacctatacctcacaaaacctccatttttgagcaattgaagttttgcatgtatctttttcttctc |
39577636 |
T |
|
| Q |
212 |
aaaccctttaagagaagctaaaagaatcaaggtgagttgacattcttca |
260 |
Q |
| |
|
||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
39577637 |
aaaccctttaagagaagctaaaagaatcaaggtgagttgacattcttca |
39577685 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr8; HSP #2
Raw Score: 123; E-Value: 6e-63
Query Start/End: Original strand, 366 - 488
Target Start/End: Original strand, 39577791 - 39577913
Alignment:
| Q |
366 |
aaattggttagtggattataggccgaagatacttatttttcgtggtagttcttatcttagagaatgggattatgcaaggtttaggaagattgctgataag |
465 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
39577791 |
aaattggttagtggattataggccgaagatacttatttttcgtggtagttcttatcttagagaatgggattatgcaaggtttaggaagattgctgataag |
39577890 |
T |
|
| Q |
466 |
gaaattgcgagtccatttgatta |
488 |
Q |
| |
|
||||||||||||||||||||||| |
|
|
| T |
39577891 |
gaaattgcgagtccatttgatta |
39577913 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3 (Bit Score: 181; Significance: 1e-97; HSPs: 4)
Name: chr3
Description:
Target: chr3; HSP #1
Raw Score: 181; E-Value: 1e-97
Query Start/End: Original strand, 12 - 260
Target Start/End: Complemental strand, 33239825 - 33239573
Alignment:
| Q |
12 |
ggacaatgtttctcggaatacatgttgtcattgtattctctattata--atacaatattgaaatttagaaagaagaagaaagnnnnnnncc-gaacgtgc |
108 |
Q |
| |
|
||||||||||||||||||||||||||||||||||||||| ||||| | ||||||||||||||||||||||||||||||||| | |||||||| |
|
|
| T |
33239825 |
ggacaatgtttctcggaatacatgttgtcattgtattctttattacatgatacaatattgaaatttagaaagaagaagaaagaaaaaaaactgaacgtgc |
33239726 |
T |
|
| Q |
109 |
tccatcatcgctcttaagtgagacaccatgctccatctcacctatacctcacaaaacctccatttttgagcaattgaagttttgcatgtatctttttctt |
208 |
Q |
| |
|
||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| |
|
|
| T |
33239725 |
tccatcatctctcttaagtgagacaccatgctccatctcacctatacctcacaaaacctccagttttgagcaattgaagttttgcatgtatctttttctt |
33239626 |
T |
|
| Q |
209 |
ctcaaaccctttaagagaagct-aaaagaatcaaggtgagttgacattcttca |
260 |
Q |
| |
|
|||||||||||||| ||||||| |||||||||||||||||||||||||||||| |
|
|
| T |
33239625 |
ctcaaaccctttaatagaagctaaaaagaatcaaggtgagttgacattcttca |
33239573 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #2
Raw Score: 107; E-Value: 2e-53
Query Start/End: Original strand, 366 - 488
Target Start/End: Complemental strand, 33239467 - 33239345
Alignment:
| Q |
366 |
aaattggttagtggattataggccgaagatacttatttttcgtggtagttcttatcttagagaatgggattatgcaaggtttaggaagattgctgataag |
465 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||| |||||||||||||||| |||||||||||||||| |
|
|
| T |
33239467 |
aaattggttagtggattataggccgaagatacttatttgtggtggtagttcttatcttagagaatgagattatgcaaggtttaagaagattgctgataag |
33239368 |
T |
|
| Q |
466 |
gaaattgcgagtccatttgatta |
488 |
Q |
| |
|
||||||||||||||||||||||| |
|
|
| T |
33239367 |
gaaattgcgagtccatttgatta |
33239345 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #3
Raw Score: 74; E-Value: 1e-33
Query Start/End: Original strand, 375 - 464
Target Start/End: Original strand, 33131009 - 33131098
Alignment:
| Q |
375 |
agtggattataggccgaagatacttatttttcgtggtagttcttatcttagagaatgggattatgcaaggtttaggaagattgctgataa |
464 |
Q |
| |
|
||||||||||||||||||||||||||||| | ||||||||||||||| |||||||||||||||||| ||||||||||||||||||||||| |
|
|
| T |
33131009 |
agtggattataggccgaagatacttatttgtggtggtagttcttatcctagagaatgggattatgcgaggtttaggaagattgctgataa |
33131098 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #4
Raw Score: 46; E-Value: 5e-17
Query Start/End: Original strand, 12 - 90
Target Start/End: Complemental strand, 26970687 - 26970605
Alignment:
| Q |
12 |
ggacaatgtttctcggaatacatgttgtcattgtattctctattata----atacaatattgaaatttagaaagaagaagaaa |
90 |
Q |
| |
|
|||||||||||||||||| |||||||||||||||||||||||||| | ||||||||||||| |||||||||| |||||| |
|
|
| T |
26970687 |
ggacaatgtttctcggaaaacatgttgtcattgtattctctattacatagtgtacaatattgaaacttagaaagaaaaagaaa |
26970605 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1 (Bit Score: 67; Significance: 1e-29; HSPs: 1)
Name: chr1
Description:
Target: chr1; HSP #1
Raw Score: 67; E-Value: 1e-29
Query Start/End: Original strand, 12 - 255
Target Start/End: Original strand, 41101075 - 41101334
Alignment:
| Q |
12 |
ggacaatgtttctcggaatacatgttgtcattgtattctctattataa-------tacaatattgaaatttagaaagaagaagaa----agnnnnnnncc |
100 |
Q |
| |
|
|||||||||||||||||| ||||||||||| |||||||||||||| | ||||||||||||| |||||||||| ||||| | | |
|
|
| T |
41101075 |
ggacaatgtttctcggaaaacatgttgtcactgtattctctattacatagtagtgtacaatattgaaacttagaaagaaaaagaagaaaaaaaaaaaact |
41101174 |
T |
|
| Q |
101 |
gaacgtgctccatcatcgctcttaagtgagacaccatgctccatctcacc----tatacctcacaaaacctccatttttgagcaattgaagttttgcatg |
196 |
Q |
| |
|
|||||||||||||| || |||| || || ||||||||||| ||||||| || |||||||||||||| | ||||||||||||||||||||| ||| |
|
|
| T |
41101175 |
gaacgtgctccatcttctctctcaactgggacaccatgctgtctctcacctacatacacctcacaaaaccttcctttttgagcaattgaagttttacatt |
41101274 |
T |
|
| Q |
197 |
tatctttttcttctcaaaccctttaagagaagct-aaaagaatcaaggtgagttgacatt |
255 |
Q |
| |
|
|||||||||||||||||| |||| || ||||||| |||||||||||| |||||| ||||| |
|
|
| T |
41101275 |
tatctttttcttctcaaatccttcaatagaagctaaaaagaatcaagatgagttaacatt |
41101334 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2 (Bit Score: 35; Significance: 0.0000000002; HSPs: 2)
Name: chr2
Description:
Target: chr2; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 391 - 449
Target Start/End: Original strand, 606640 - 606698
Alignment:
| Q |
391 |
aagatacttatttttcgtggtagttcttatcttagagaatgggattatgcaaggtttag |
449 |
Q |
| |
|
||||||||||||| | |||| |||||||||| | |||||||||||||||| |||||||| |
|
|
| T |
606640 |
aagatacttatttgtggtgggagttcttatcctcgagaatgggattatgctaggtttag |
606698 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 12 - 68
Target Start/End: Complemental strand, 15481077 - 15481019
Alignment:
| Q |
12 |
ggacaatgtttctcggaatacatgttgtcattgtattctctatt--ataatacaatatt |
68 |
Q |
| |
|
||||||||||| ||| || ||||||||||||| ||||||||||| ||||||||||||| |
|
|
| T |
15481077 |
ggacaatgtttttcgaaaaacatgttgtcattatattctctattacataatacaatatt |
15481019 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
© Oklahoma State University