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: F9306-LTR4-TNT-insertion-4 (Length: 706)
Name: F9306-LTR4-TNT-insertion-4
Description: F9306-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] F9306-LTR4-TNT-insertion-4 |
 | |
|
| [»] scaffold0413 (1 HSPs) |
| | |
|
Alignment Details
Target: chr3 (Bit Score: 658; Significance: 0; HSPs: 1)
Name: chr3
Description:
Target: chr3; HSP #1
Raw Score: 658; E-Value: 0
Query Start/End: Original strand, 9 - 698
Target Start/End: Original strand, 11968311 - 11969000
Alignment:
| Q |
9 |
caggtttgaagaaaacaaaaatgacttaaattagaatttgatgaagtgagacaagggataaattagaagaacatatacgaaaaggacttgcacgaaaatt |
108 |
Q |
| |
|
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| |
|
|
| T |
11968311 |
caggtttgaagaaaacaaaaatgacttaaattagaatttgatgaagtgagacaagggataaattagaagaacatatatgaaaaggacttgcacgaaaatt |
11968410 |
T |
|
| Q |
109 |
attgacaagatgatagcatagggattgatcgatggggaaattatttgtatacaacatgtaaatcaatggaatgttggagatgaattcttacaaaggctat |
208 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
11968411 |
attgacaagatgatagcatagggattgatcgatggggaaattatttgtatacaacatgtaaatcaatggaatgttggagatgaattcttacaaaggctat |
11968510 |
T |
|
| Q |
209 |
ggaaaataataagagaacattgtgataaggaatgatgtgtgatagatataagagaggcagtatatcgtacacatgatagtgagagaccggcaaggacacc |
308 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
11968511 |
ggaaaataataagagaacattgtgataaggaatgatgtgtgatagatataagagaggcagtatatcgtacacatgatagtgagagaccggcaaggacacc |
11968610 |
T |
|
| Q |
309 |
gttttgagagtcagagaaataaacaactaggagattttacatgtgatagaatgaaatagctaattagtagaactttgctccaactccatcaaattttaaa |
408 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
11968611 |
gttttgagagtcagagaaataaacaactaggagattttacatgtgatagaatgaaatagctaattagtagaactttgctccaactccatcaaattttaaa |
11968710 |
T |
|
| Q |
409 |
cgtgggtgaattgtggagaaaccgtaaccactaactactctagtcggtcaaagttattattacctaaaagataggaacaaatgaatataaataaccatca |
508 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
11968711 |
cgtgggtgaattgtggagaaaccgtaaccactaactactctagtcggtcaaagttattattacctaaaagataggaacaaatgaatataaataaccatca |
11968810 |
T |
|
| Q |
509 |
ttcaacgtggctggcatctttttagaaaaaacgtgggtagtannnnnnnncttcaatgtatattagttctattaacaagaataacaactatagtttcttg |
608 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||| |||||| ||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
11968811 |
ttcaacgtggctggcatctttttagaaaaaacgtgggtagtattttttttcttcaaggtatattagttctattaacaagaataacaactatagtttcttg |
11968910 |
T |
|
| Q |
609 |
ttctaattttcattgactacacatatttttatttatttattgttaaaaacaattcaagctatttcttaatataaaaatttcccttaatta |
698 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
|
|
| T |
11968911 |
ttctaattttcattgactacacatatttttatttatttattgttaaaaacaattcaagctatttcttaatataaaaatttcccttaatta |
11969000 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2 (Bit Score: 52; Significance: 2e-20; HSPs: 2)
Name: chr2
Description:
Target: chr2; HSP #1
Raw Score: 52; E-Value: 2e-20
Query Start/End: Original strand, 88 - 238
Target Start/End: Complemental strand, 22403471 - 22403318
Alignment:
| Q |
88 |
aaaaggacttgcacgaaaattatt-gacaagatgatagcatagggattgatcgatgg----ggaaattatttgtatacaacatgtaaatcaatggaatgt |
182 |
Q |
| |
|
|||||||||| ||||||||||||| |||||||||| || |||| |||||||||||| |||| |||||||||||||||||| |||||||||||||| |
|
|
| T |
22403471 |
aaaaggacttacacgaaaattatttgacaagatgagggcttaggaattgatcgatggacttggaagatatttgtatacaacatgtgaatcaatggaatgt |
22403372 |
T |
|
| Q |
183 |
tggagatgaattcttacaaaggctatggaaaataataagagaacattgtgataagg |
238 |
Q |
| |
|
|||||||| || || ||||| | || ||||||||||||||| || |||||||| |
|
|
| T |
22403371 |
tggagatgtatgct--caaagaccataagaaataataagagaactttttgataagg |
22403318 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #2
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 11 - 76
Target Start/End: Original strand, 41341032 - 41341098
Alignment:
| Q |
11 |
ggtttgaagaaaacaaaaatgacttaaattagaa-tttgatgaagtgagacaagggataaattagaa |
76 |
Q |
| |
|
||||||| |||||| |||||||||||||| |||| ||| ||||||||| ||||| |||||||||||| |
|
|
| T |
41341032 |
ggtttgaggaaaacgaaaatgacttaaatcagaattttcatgaagtgaaacaagagataaattagaa |
41341098 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: scaffold0413 (Bit Score: 46; Significance: 7e-17; HSPs: 1)
Name: scaffold0413
Description:
Target: scaffold0413; HSP #1
Raw Score: 46; E-Value: 7e-17
Query Start/End: Original strand, 37 - 143
Target Start/End: Complemental strand, 8668 - 8562
Alignment:
| Q |
37 |
aattagaatttgatgaagtgagacaagggataaattagaagaacatatacg-aaaaggacttgcacgaaaattatt-gacaagatgatagcatagggatt |
134 |
Q |
| |
|
||||||||||| || ||||||||||| ||||| | |||||||||||| | |||||||||| ||||||||||||| |||||||||||||||||| |||| |
|
|
| T |
8668 |
aattagaatttcat--agtgagacaagaaataaaatggaagaacatatatgcaaaaggacttacacgaaaattatttgacaagatgatagcatagagatt |
8571 |
T |
|
| Q |
135 |
gatcgatgg |
143 |
Q |
| |
|
| ||||||| |
|
|
| T |
8570 |
ggtcgatgg |
8562 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6 (Bit Score: 42; Significance: 0.00000000000002; HSPs: 3)
Name: chr6
Description:
Target: chr6; HSP #1
Raw Score: 42; E-Value: 0.00000000000002
Query Start/End: Original strand, 37 - 143
Target Start/End: Original strand, 10751840 - 10751946
Alignment:
| Q |
37 |
aattagaatttgatgaagtgagacaagggataaattagaagaacatatacg-aaaaggacttgcacgaaaattattga-caagatgatagcatagggatt |
134 |
Q |
| |
|
||||||||||| || ||||||||||| ||||| | |||||||||||| | |||||||||||||| ||||||||| | |||||||||||||||| |||| |
|
|
| T |
10751840 |
aattagaatttcat--agtgagacaagaaataaaatggaagaacatatatgcaaaaggacttgcacaaaaattatttaacaagatgatagcatagagatt |
10751937 |
T |
|
| Q |
135 |
gatcgatgg |
143 |
Q |
| |
|
| ||||||| |
|
|
| T |
10751938 |
ggtcgatgg |
10751946 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6; HSP #2
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 150 - 244
Target Start/End: Complemental strand, 194501 - 194411
Alignment:
| Q |
150 |
tatttgtatacaacatgtaaatcaatggaatgttggagatgaattcttacaaaggctatggaaaataataagagaacattgtgataaggaatgat |
244 |
Q |
| |
|
|||||||||||||||| | ||||||||||| |||||||||| || || ||||| | ||| ||||||||||||| |||||||||| || ||||| |
|
|
| T |
194501 |
tatttgtatacaacatatgaatcaatggaacgttggagatgtatgct--caaagac--tgggaaataataagagagcattgtgatatgggatgat |
194411 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6; HSP #3
Raw Score: 29; E-Value: 0.000001
Query Start/End: Original strand, 637 - 698
Target Start/End: Complemental strand, 20555113 - 20555050
Alignment:
| Q |
637 |
ttatttatttattgttaaaaaca--attcaagctatttcttaatataaaaatttcccttaatta |
698 |
Q |
| |
|
||||||||||||||| ||||| | ||||| |||||||||| ||||| ||||||||||||||| |
|
|
| T |
20555113 |
ttatttatttattgtaaaaaaaaccattcatcctatttcttactataagaatttcccttaatta |
20555050 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr4 (Bit Score: 40; Significance: 0.0000000000003; HSPs: 1)
Name: chr4
Description:
Target: chr4; HSP #1
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 144 - 238
Target Start/End: Complemental strand, 40458571 - 40458479
Alignment:
| Q |
144 |
ggaaattatttgtatacaacatgtaaatcaatggaatgttggagatgaattcttacaaaggctatggaaaataataagagaacattgtgataagg |
238 |
Q |
| |
|
||||| |||||||||||||||||| || |||||||||| || ||||| || || | ||| ||||| ||||||||||||||||||||||||||| |
|
|
| T |
40458571 |
ggaaaatatttgtatacaacatgtgaaccaatggaatgatgaagatgtatgct--cgaagactatgagaaataataagagaacattgtgataagg |
40458479 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1 (Bit Score: 40; Significance: 0.0000000000003; HSPs: 3)
Name: chr1
Description:
Target: chr1; HSP #1
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 144 - 238
Target Start/End: Original strand, 43408341 - 43408433
Alignment:
| Q |
144 |
ggaaattatttgtatacaacatgtaaatcaatggaatgttggagatgaattcttacaaaggctatggaaaataataagagaacattgtgataagg |
238 |
Q |
| |
|
||||| |||||||||||||||||| || |||||||||| || ||||| || || | ||| ||||| ||||||||||||||||||||||||||| |
|
|
| T |
43408341 |
ggaaaatatttgtatacaacatgtgaaccaatggaatgatgaagatgtatgct--cgaagactatgagaaataataagagaacattgtgataagg |
43408433 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1; HSP #2
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 640 - 698
Target Start/End: Original strand, 36387606 - 36387664
Alignment:
| Q |
640 |
tttatttattgttaaaaacaattcaagctatttcttaatataaaaatttcccttaatta |
698 |
Q |
| |
|
|||||||||| |||||||||||||| |||||||||| ||||| ||||||||||||||| |
|
|
| T |
36387606 |
tttatttatttttaaaaacaattcatcctatttcttactataagaatttcccttaatta |
36387664 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1; HSP #3
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 144 - 238
Target Start/End: Original strand, 37667732 - 37667824
Alignment:
| Q |
144 |
ggaaattatttgtatacaacatgtaaatcaatggaatgttggagatgaattcttacaaaggctatggaaaataataagagaacattgtgataagg |
238 |
Q |
| |
|
||||| ||||| | |||||||||| || |||||||||| || ||||| || || | ||| |||| |||||||||| |||||||||||||||||| |
|
|
| T |
37667732 |
ggaaaatatttttctacaacatgtgaaccaatggaatgatgaagatgtatgct--cgaagactatagaaaataataggagaacattgtgataagg |
37667824 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
© Oklahoma State University
This website was viewed 3382 times since January 2019
Visitors: 6052