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: F9340-LTR4-TNT-insertion-5 (Length: 372)

Name: F9340-LTR4-TNT-insertion-5
Description: F9340-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9340-LTR4-TNT-insertion-5
F9340-LTR4-TNT-insertion-5
[»] chr3 (15 HSPs)
chr3 (10-345)||(23465678-23466012)
chr3 (12-345)||(23407024-23407354)
chr3 (24-131)||(23389498-23389606)
chr3 (58-132)||(23459037-23459111)
chr3 (58-124)||(23367815-23367881)
chr3 (58-124)||(23360975-23361041)
chr3 (163-242)||(23360842-23360920)
chr3 (163-242)||(23367682-23367760)
chr3 (176-242)||(23436367-23436432)
chr3 (163-238)||(23389406-23389480)
chr3 (163-242)||(23458939-23459020)
chr3 (12-60)||(23501674-23501722)
chr3 (91-131)||(23481886-23481926)
chr3 (302-335)||(23456317-23456350)
chr3 (163-240)||(23449608-23449688)
[»] scaffold0201 (1 HSPs)
scaffold0201 (62-201)||(16168-16301)
[»] scaffold0022 (2 HSPs)
scaffold0022 (62-133)||(167024-167096)
scaffold0022 (163-203)||(167131-167171)
[»] scaffold0570 (1 HSPs)
scaffold0570 (91-131)||(8643-8683)


Alignment Details
Target: chr3 (Bit Score: 295; Significance: 1e-166; HSPs: 15)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 295; E-Value: 1e-166
Query Start/End: Original strand, 10 - 345
Target Start/End: Complemental strand, 23466012 - 23465678
Alignment:
Q  10 gaaaccacacttactattttatattttaattttgaatcattacatctatatgaagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgat 109  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  23466012 gaaaccacacttactattttatattttaattttgaatcattacatctatatgaagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgat 23465913  T
Q  110 tccagcagaagctaagccatactactgttgggatttatgactttaaagtcttcttgcatgaagcttgattctgactttggtatgatcttttttcttctta 209  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  23465912 tccagcagaagctaagccatactactgttgggatttatgactttaaagtcttcttgcatgaagcttgattctgactttggtatgatcttttttcttctta 23465813  T
Q  210 attttaatttaacaactagtttctctaattacaacgagaatgagtgtggtcaaaagtatcaagaacacaataaacattacnnnnnnnnnnnnattgtagc 309  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||            ||||||||    
T  23465812 attttaatttaacaactagtttctctaattacaacgagaatgagtgtggtcaaaagtatcaagaacacaataaacattac-tttttttttttattgtagc 23465714  T
Q  310 attgtgattagtggcttagtacaggccctgggaatt 345  Q
    ||||||||||||||||||||||||||||||||||||    
T  23465713 attgtgattagtggcttagtacaggccctgggaatt 23465678  T

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Target: chr3; HSP #2
Raw Score: 242; E-Value: 1e-134
Query Start/End: Original strand, 12 - 345
Target Start/End: Complemental strand, 23407354 - 23407024
Alignment:
Q  12 aaccacacttactattttatattttaattttgaatcattacatctatatgaagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgattc 111  Q
    ||||||||||  |||||||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||    
T  23407354 aaccacacttgttattttatattttaattttgacccattacatctatatgaagtgtttgtgtgtgtttatccttaattaattttcatccaaaattgattc 23407255  T
Q  112 cagcagaagctaagccatactactgttgggatttatgactttaaagtcttcttgcatgaagcttgattctgactttggtatgatcttttttcttcttaat 211  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||| ||||||||||||||||||||||    
T  23407254 cagcagaagctaagccatactactgttgggatttatgactttaaagtcttcttgcatgaagctggattctgactttgttatgatcttttttcttcttaat 23407155  T
Q  212 tttaatttaacaactagtttctctaattacaacgagaatgagtgtggtcaaaagtatcaagaacaca-ataaacattacnnnnnnnnnnnnattgtagca 310  Q
    ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||||||||||            |||||||||    
T  23407154 tttaatttaactactagtttctctaattacaacgagaatgagtgtggtcaaaagtatcaagaacacatttaaacattac----ttttttttattgtagca 23407059  T
Q  311 ttgtgattagtggcttagtacaggccctgggaatt 345  Q
    ||||||||||||||||||||||||| || ||||||    
T  23407058 ttgtgattagtggcttagtacaggcactcggaatt 23407024  T

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Target: chr3; HSP #3
Raw Score: 69; E-Value: 7e-31
Query Start/End: Original strand, 24 - 131
Target Start/End: Complemental strand, 23389606 - 23389498
Alignment:
Q  24 tattttatattttaattttgaatcattacatctatatgaagtgtttgtgtgtgtttat-ccttaattaattttcatctaaaattgattccagcagaagct 122  Q
    ||||||||||||| |||||||  |||||||||||||||||||||||||||||||| || | |||||||||||||||| |||||||||||||| | |||||    
T  23389606 tattttatatttttattttgacccattacatctatatgaagtgtttgtgtgtgttaatactttaattaattttcatccaaaattgattccaggaaaagct 23389507  T
Q  123 aagccatac 131  Q
    |||||||||    
T  23389506 aagccatac 23389498  T

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Target: chr3; HSP #4
Raw Score: 63; E-Value: 3e-27
Query Start/End: Original strand, 58 - 132
Target Start/End: Complemental strand, 23459111 - 23459037
Alignment:
Q  58 tatgaagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgattccagcagaagctaagccatact 132  Q
    |||||||||||||||||||||||||||||||||||||||||| ||| ||||||||| ||||||||||||||||||    
T  23459111 tatgaagtgtttgtgtgtgtttatccttaattaattttcatccaaatttgattccaccagaagctaagccatact 23459037  T

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Target: chr3; HSP #5
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 58 - 124
Target Start/End: Complemental strand, 23367881 - 23367815
Alignment:
Q  58 tatgaagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgattccagcagaagctaa 124  Q
    ||||||||||||||||||||| |||||||||||||||||||  ||||||||||||||||||||||||    
T  23367881 tatgaagtgtttgtgtgtgttcatccttaattaattttcattcaaaattgattccagcagaagctaa 23367815  T

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Target: chr3; HSP #6
Raw Score: 51; E-Value: 4e-20
Query Start/End: Original strand, 58 - 124
Target Start/End: Complemental strand, 23361041 - 23360975
Alignment:
Q  58 tatgaagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgattccagcagaagctaa 124  Q
    ||||||||||||||||||||| |||||| ||||||||||||  ||||||||||||||||||||||||    
T  23361041 tatgaagtgtttgtgtgtgttcatccttgattaattttcattcaaaattgattccagcagaagctaa 23360975  T

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Target: chr3; HSP #7
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 163 - 242
Target Start/End: Complemental strand, 23360920 - 23360842
Alignment:
Q  163 ttgcatgaagcttgattctgactttggtatgatcttttttcttcttaattttaatttaacaactagtttctctaattaca 242  Q
    |||||||||||| |||||||||||||||||||| ||||||| | |  ||||||||||||| |||||||||||||||||||    
T  23360920 ttgcatgaagctggattctgactttggtatgattttttttcct-tcgattttaatttaactactagtttctctaattaca 23360842  T

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Target: chr3; HSP #8
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 163 - 242
Target Start/End: Complemental strand, 23367760 - 23367682
Alignment:
Q  163 ttgcatgaagcttgattctgactttggtatgatcttttttcttcttaattttaatttaacaactagtttctctaattaca 242  Q
    |||||||||||| |||||||||||||||||||| ||||||| | |  ||||||||||||| |||||||||||||||||||    
T  23367760 ttgcatgaagctggattctgactttggtatgattttttttcct-tcgattttaatttaactactagtttctctaattaca 23367682  T

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Target: chr3; HSP #9
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 176 - 242
Target Start/End: Complemental strand, 23436432 - 23436367
Alignment:
Q  176 gattctgactttggtatgatcttttttcttcttaattttaatttaacaactagtttctctaattaca 242  Q
    ||||||||||||||||||||||||||||  || |||||||||||||| |||||||||||||||||||    
T  23436432 gattctgactttggtatgatcttttttcc-ctcaattttaatttaactactagtttctctaattaca 23436367  T

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Target: chr3; HSP #10
Raw Score: 44; E-Value: 6e-16
Query Start/End: Original strand, 163 - 238
Target Start/End: Complemental strand, 23389480 - 23389406
Alignment:
Q  163 ttgcatgaagcttgattctgactttggtatgatcttttttcttcttaattttaatttaacaactagtttctctaat 238  Q
    |||||||||||| ||||||||||||||||||||| ||||||  || | |||||||||||| |||||||||||||||    
T  23389480 ttgcatgaagctggattctgactttggtatgatcctttttc-cctcatttttaatttaactactagtttctctaat 23389406  T

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Target: chr3; HSP #11
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 163 - 242
Target Start/End: Complemental strand, 23459020 - 23458939
Alignment:
Q  163 ttgcatgaagcttgatt---ctgactttggtatgatcttttttcttcttaattttaatttaacaactagtttctctaattaca 242  Q
    |||||||||||| ||||   ||||||||||||||||||||||||  || ||||||||||||||  ||||||||||||||||||    
T  23459020 ttgcatgaagctggattgatctgactttggtatgatcttttttcc-ctcaattttaatttaactgctagtttctctaattaca 23458939  T

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Target: chr3; HSP #12
Raw Score: 37; E-Value: 0.000000000009
Query Start/End: Original strand, 12 - 60
Target Start/End: Complemental strand, 23501722 - 23501674
Alignment:
Q  12 aaccacacttactattttatattttaattttgaatcattacatctatat 60  Q
    ||||||||||| |||||||||||||||||||||  ||||||||||||||    
T  23501722 aaccacacttattattttatattttaattttgacccattacatctatat 23501674  T

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Target: chr3; HSP #13
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 91 - 131
Target Start/End: Complemental strand, 23481926 - 23481886
Alignment:
Q  91 attttcatctaaaattgattccagcagaagctaagccatac 131  Q
    ||||| ||| |||||||||||||||||||||||||||||||    
T  23481926 attttgatccaaaattgattccagcagaagctaagccatac 23481886  T

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Target: chr3; HSP #14
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 302 - 335
Target Start/End: Complemental strand, 23456350 - 23456317
Alignment:
Q  302 attgtagcattgtgattagtggcttagtacaggc 335  Q
    |||||||||||||||||||||||||||| |||||    
T  23456350 attgtagcattgtgattagtggcttagtgcaggc 23456317  T

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Target: chr3; HSP #15
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 163 - 240
Target Start/End: Complemental strand, 23449688 - 23449608
Alignment:
Q  163 ttgcatgaagcttgattctgactttggtatg----atcttttttcttcttaattttaatttaacaactagtttctctaatta 240  Q
    |||||||||||| |||||||||||||||| |    ||||||||||  || |||||||||||| | |||| ||||||||||||    
T  23449688 ttgcatgaagctggattctgactttggtacgtataatcttttttcc-ctcaattttaatttatctactactttctctaatta 23449608  T

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Target: scaffold0201 (Bit Score: 58; Significance: 3e-24; HSPs: 1)
Name: scaffold0201
Description:

Target: scaffold0201; HSP #1
Raw Score: 58; E-Value: 3e-24
Query Start/End: Original strand, 62 - 201
Target Start/End: Complemental strand, 16301 - 16168
Alignment:
Q  62 aagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgattccagcagaagctaagccatactactgttgggatttatgactttaaagtc-t 160  Q
    ||||||||||||||| | |||| ||||||||||||||| ||||||||||||| ||||||||||||       || |||||| |||| |||||| |||| |    
T  16301 aagtgtttgtgtgtgctcatccgtaattaattttcatccaaaattgattccaacagaagctaagc------tctattggga-ttataactttacagtctt 16209  T
Q  161 tcttgcatgaagcttgattctgactttggtatgatcttttt 201  Q
    | |||||||||||| ||||||||||||||||||||||||||    
T  16208 tattgcatgaagctggattctgactttggtatgatcttttt 16168  T

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Target: scaffold0022 (Bit Score: 37; Significance: 0.000000000009; HSPs: 2)
Name: scaffold0022
Description:

Target: scaffold0022; HSP #1
Raw Score: 37; E-Value: 0.000000000009
Query Start/End: Original strand, 62 - 133
Target Start/End: Original strand, 167024 - 167096
Alignment:
Q  62 aagtgtttgtgtgtgtttatccttaattaattttcatctaaaattgattccagcagaagct-aagccatacta 133  Q
    |||| |||||||||| | |||||||||||||||||||| ||||||||||| || | ||||| |||||||||||    
T  167024 aagtatttgtgtgtgctcatccttaattaattttcatccaaaattgattctagtataagctaaagccatacta 167096  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: scaffold0022; HSP #2
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 163 - 203
Target Start/End: Original strand, 167131 - 167171
Alignment:
Q  163 ttgcatgaagcttgattctgactttggtatgatcttttttc 203  Q
    |||||||||| | ||||||||||||||||| ||||||||||    
T  167131 ttgcatgaagttggattctgactttggtatcatcttttttc 167171  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: scaffold0570 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: scaffold0570
Description:

Target: scaffold0570; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 91 - 131
Target Start/End: Original strand, 8643 - 8683
Alignment:
Q  91 attttcatctaaaattgattccagcagaagctaagccatac 131  Q
    ||||| ||| |||||||||||||||||||||||||||||||    
T  8643 attttgatccaaaattgattccagcagaagctaagccatac 8683  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]



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