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: F9105J-LTR4-TNT-insertion-3 (Length: 448)
Name: F9105J-LTR4-TNT-insertion-3
Description: F9105J-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] F9105J-LTR4-TNT-insertion-3 |
 | |
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Alignment Details
Target: chr3 (Bit Score: 424; Significance: 0; HSPs: 7)
Name: chr3
Description:
Target: chr3; HSP #1
Raw Score: 424; E-Value: 0
Query Start/End: Original strand, 10 - 441
Target Start/End: Complemental strand, 40596272 - 40595841
Alignment:
| Q |
10 |
atccatccctgcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtttgccttacatgcataagtggaaagatccttccg |
109 |
Q |
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|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| |
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| T |
40596272 |
atccatccctgcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtctgccttacatgcataagtggaaagatccttccg |
40596173 |
T |
|
| Q |
110 |
agcttgctggcacgtttggttccctactgcccagtccaacaacacaggaaggttcctcttctttagcttttggaggtctgtgattgcaaagcggtaggct |
209 |
Q |
| |
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|||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
40596172 |
agcttgctggcacgtttggttccctactgcccagtccaacaacacaggaaagttcctcttctttagcttttggaggtctgtgattgcaaagcggtaggct |
40596073 |
T |
|
| Q |
210 |
ccattttccaccaaaaacgtataaccacatggattgaagggctgtactaatgcctgattattgttcaatccgtgttcagaaatataggcaacttccgtaa |
309 |
Q |
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|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
40596072 |
ccattttccaccaaaaacgtataaccacatggattgaagggctgtactaatgcctgattattgttcaatccgtgttcagaaatataggcaacttccgtaa |
40595973 |
T |
|
| Q |
310 |
acacacgacctttgggtattgaaatctcacaacaacctgggccggaacaagattcattggccacaatatcactaagcctgttgcacaaggccacacatgc |
409 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
40595972 |
acacacgacctttgggtattgaaatctcacaacaacctgggccggaacaagattcattggccacaatatcactaagcctgttgcacaaggccacacatgc |
40595873 |
T |
|
| Q |
410 |
agtggtgtatgtgtttcctttagaatcaattg |
441 |
Q |
| |
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|||||||||||||||||||||||||||||||| |
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| T |
40595872 |
agtggtgtatgtgtttcctttagaatcaattg |
40595841 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #2
Raw Score: 92; E-Value: 2e-44
Query Start/End: Original strand, 60 - 427
Target Start/End: Complemental strand, 40566839 - 40566475
Alignment:
| Q |
60 |
taacatttacttttgtttgccttacatgcataagtggaaagatccttccgagcttgctggcacgtttggttccctactgcccagtccaacaacacaggaa |
159 |
Q |
| |
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|||||| |||||||| | ||||||||||||||| |||||||||| ||| |||| |||||||| ||||||||||||||||||||||| ||||||||||||| |
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|
| T |
40566839 |
taacatgtacttttgctggccttacatgcataattggaaagatcattctgagcatgctggcatgtttggttccctactgcccagtcgaacaacacaggaa |
40566740 |
T |
|
| Q |
160 |
ggttcctcttctttagcttttggaggtctgtgattgcaaagcggtaggctccattttccaccaaaaacgtataaccacatggattgaagggctgtactaa |
259 |
Q |
| |
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| | ||||||||| || ||||||||||| | | |||| ||||||||||||||| |||| ||| | ||||||||| |||||||| ||||| |
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| T |
40566739 |
actccttcttctttaactcaaggaggtctgtggattcgaagctgtaggctccattttcaaccacaaaagaataaccacagggattgaaatcatgtac--- |
40566643 |
T |
|
| Q |
260 |
tgcctga-ttattgttcaatccgtgttcagaaatataggcaacttccgtaaacacacgacctttgggtattgaaatctcacaacaacctgggccggaaca |
358 |
Q |
| |
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| |||| | |||||| ||| | ||||| ||||||| ||||| | ||||||||||||| ||||||||||||||| |||||||| | || || || |
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| T |
40566642 |
-gtctgagtgattgttgaatatacctgcagaagtataggccacttctctcaacacacgaccttggggtattgaaatctcgcaacaaccagtacctgagca |
40566544 |
T |
|
| Q |
359 |
agattcattggccacaatatcactaagcctgttgcacaaggccacacatgcagtggtgtatgtgtttcc |
427 |
Q |
| |
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||||| | |||||| ||||||| |||||||||||| || ||||||||| | |||||||| ||||||| |
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| T |
40566543 |
agattgactggccataatatcatcaagcctgttgcataaagccacacatcctgtggtgtagttgtttcc |
40566475 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #3
Raw Score: 84; E-Value: 9e-40
Query Start/End: Original strand, 20 - 159
Target Start/End: Complemental strand, 40600894 - 40600755
Alignment:
| Q |
20 |
gcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtttgccttacatgcataagtggaaagatccttccgagcttgctgg |
119 |
Q |
| |
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|||||| || |||||||||||| ||| ||||| |||||| |||||| ||||||||| |||||||| ||||||||||||||||||||| ||||||| || |
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| T |
40600894 |
gcatctacaaaggtaaccagatctgtcagttgttgcatcgtaacatgtacttttgtcggccttacacgcataagtggaaagatccttctgagcttgatga |
40600795 |
T |
|
| Q |
120 |
cacgtttggttccctactgcccagtccaacaacacaggaa |
159 |
Q |
| |
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|| ||||||||||||||||||||||||||||||||||||| |
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| T |
40600794 |
caagtttggttccctactgcccagtccaacaacacaggaa |
40600755 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #4
Raw Score: 78; E-Value: 4e-36
Query Start/End: Original strand, 20 - 248
Target Start/End: Complemental strand, 40589855 - 40589624
Alignment:
| Q |
20 |
gcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtttgccttacatgcata---agtggaaagatccttccgagcttgc |
116 |
Q |
| |
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|||| |||| ||||||||||||||| ||| |||||| |||||| ||||| ||| ||||||||| ||||| | | |||||||||||| |||||||| |
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| T |
40589855 |
gcatttgcaaaggtaaccagatttgatggtttctgcatcgtaacatatacttctgtctgccttacaagcatacttacttgaaagatccttctgagcttgc |
40589756 |
T |
|
| Q |
117 |
tggcacgtttggttccctactgcccagtccaacaacacaggaaggttcctcttctttagcttttggaggtctgtgattgcaaagcggtaggctccatttt |
216 |
Q |
| |
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|| || |||||||| |||||||||||||||||||||||||||| |||| ||||||||||||| ||||||||||| |||| || |||| ||||||||| |
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|
| T |
40589755 |
tgacaggtttggtttcctactgcccagtccaacaacacaggaaagttcttcttctttagcttggggaggtctgtggttgcgaaaatgtagtctccatttt |
40589656 |
T |
|
| Q |
217 |
ccaccaaaaacgtataaccacatggattgaag |
248 |
Q |
| |
|
| || | ||| ||||||||| ||||||||| |
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| T |
40589655 |
caacaataaaaacataaccacacggattgaag |
40589624 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #5
Raw Score: 61; E-Value: 5e-26
Query Start/End: Original strand, 20 - 248
Target Start/End: Complemental strand, 40571575 - 40571347
Alignment:
| Q |
20 |
gcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtttgccttacatgcataagtggaaagatccttccgagcttgctgg |
119 |
Q |
| |
|
||||||||| |||||||||||||||| ||| || ||| |||||| ||||||| | ||||||||||||||| || |||||| |||| |||||||| || |
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| T |
40571575 |
gcatctgcaaaggtaaccagatttgttggttcctggatcgtaacatgtacttttctcggccttacatgcataattgaaaagattcttctgagcttgcagg |
40571476 |
T |
|
| Q |
120 |
cacgtttggttccctactgcccagtccaacaacacaggaaggttcctcttctttagcttttggaggtctgtgattgcaaagcggtaggctccattttcca |
219 |
Q |
| |
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|| |||||||| ||||||| ||||| |||||||||||||| | | | ||||| | ||| ||||||||| || |||| ||||| ||||||||| | |
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| T |
40571475 |
catgtttggtttcctactgtccagttcaacaacacaggaaactccttattcttcaacttgaggaggtctgatcgtgttaagctgtaggatccattttcaa |
40571376 |
T |
|
| Q |
220 |
ccaaaaacgtataaccacatggattgaag |
248 |
Q |
| |
|
|||||| | ||| ||||||||||||||| |
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|
| T |
40571375 |
tcaaaaaagcatagccacatggattgaag |
40571347 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #6
Raw Score: 48; E-Value: 3e-18
Query Start/End: Original strand, 20 - 159
Target Start/End: Complemental strand, 40577998 - 40577859
Alignment:
| Q |
20 |
gcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtttgccttacatgcataagtggaaagatccttccgagcttgctgg |
119 |
Q |
| |
|
||||||||| |||||||||||||||| ||| || || |||||| ||||||| | |||||||| |||||| ||||| ||| |||| |||||||| || |
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| T |
40577998 |
gcatctgcaaaggtaaccagatttgttggttcctgtttcgtaacatgtacttttaatggccttacaagcataattggaatgattcttctgagcttgcagg |
40577899 |
T |
|
| Q |
120 |
cacgtttggttccctactgcccagtccaacaacacaggaa |
159 |
Q |
| |
|
|| ||||| || |||||| |||||||||||||||||||| |
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|
| T |
40577898 |
catgtttgatttcctactttccagtccaacaacacaggaa |
40577859 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr3; HSP #7
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 300 - 440
Target Start/End: Complemental strand, 40589578 - 40589438
Alignment:
| Q |
300 |
acttccgtaaacacacgacctttgggtattgaaatctcacaacaacctgggccggaacaagattcattggccacaatatcactaagcctgttgcacaagg |
399 |
Q |
| |
|
|||||||| ||||||||||||| ||||| ||||||| |||||||| || || |||||||| |||||||| || | |||| ||||||||||| | | |
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|
| T |
40589578 |
acttccgttaacacacgaccttggggtaccgaaatctggcaacaaccaggaccagaacaagactcattggcaacgagatcagcgtgcctgttgcaccaag |
40589479 |
T |
|
| Q |
400 |
ccacacatgcagtggtgtatgtgtttcctttagaatcaatt |
440 |
Q |
| |
|
||| |||| ||| |||||| ||||||||| |||||||||| |
|
|
| T |
40589478 |
ccaaacatccagaggtgtagttgtttccttcagaatcaatt |
40589438 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2 (Bit Score: 81; Significance: 6e-38; HSPs: 1)
Name: chr2
Description:
Target: chr2; HSP #1
Raw Score: 81; E-Value: 6e-38
Query Start/End: Original strand, 20 - 427
Target Start/End: Original strand, 2016798 - 2017199
Alignment:
| Q |
20 |
gcatctgcagaggtaaccagatttgtgagttggtgcatcataacatttacttttgtttgccttacatgcataagtggaaagatccttccgagcttgctgg |
119 |
Q |
| |
|
||||||||| |||||||||||||| | || ||| || |||||| |||||||||| ||||||| |||||| | | |||||||||| ||||||||||| |
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|
| T |
2016798 |
gcatctgcaaaggtaaccagatttctcaggtgg---attgtaacatgtacttttgttgtccttacaggcataatttgcaagatccttctgagcttgctgg |
2016894 |
T |
|
| Q |
120 |
cacgtttggttccctactgcccagtccaacaacacaggaaggttcctcttctttagcttttggaggtctgt-gattgcaaagcggtaggctccattttcc |
218 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||| | | |||||| | ||| ||||||| || |||| |||| ||||||||||||||| |
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|
| T |
2016895 |
cacgtttggttccctactgcccagtccaacaacacaggaaattccttcttctccaacttgaggaggtccgtggattcgaaag-tgtaggctccattttca |
2016993 |
T |
|
| Q |
219 |
accaaaaacgtataaccacatggattgaagggctgtactaatgcctgattattgttcaatccgtgttcagaaatataggcaacttccgtaaacacacgac |
318 |
Q |
| |
|
|| ||||| | ||||||||| ||||||||| |||||| || || |||||| ||| | | ||| || | ||| |||| | |||| | ||| |
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|
| T |
2016994 |
acaaaaaaagcataaccacaaggattgaagtcatgtactgctgagtg---attgttgaatgcacctacagtaacaaaggacactttctcgaacaaatgac |
2017090 |
T |
|
| Q |
319 |
ctttgggtattgaaatctcacaacaacctgggccggaacaagattcattggccacaatatcactaagcctgttgcacaaggccacacatgcagtggtgta |
418 |
Q |
| |
|
||| ||||||||||||| ||||||||| | |||||| ||||||||||||||||| |||||| ||| |||||||||||| |||| |||| | |||||||| |
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|
| T |
2017091 |
cttgcggtattgaaatctgacaacaaccagtgccggagcaagattcattggccacgatatcattaaacctgttgcacaaagccaaacatcccgtggtgta |
2017190 |
T |
|
| Q |
419 |
tgtgtttcc |
427 |
Q |
| |
|
||||||| |
|
|
| T |
2017191 |
gttgtttcc |
2017199 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
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