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: F9482H-LTR4-TNT-insertion-9 (Length: 567)

Name: F9482H-LTR4-TNT-insertion-9
Description: F9482H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9482H-LTR4-TNT-insertion-9
F9482H-LTR4-TNT-insertion-9
[»] chr3 (2 HSPs)
chr3 (8-557)||(41569843-41570392)
chr3 (285-332)||(45903307-45903354)
[»] chr2 (1 HSPs)
chr2 (285-334)||(38992699-38992748)
[»] chr6 (2 HSPs)
chr6 (288-332)||(26377803-26377847)
chr6 (291-332)||(23594682-23594723)
[»] chr1 (5 HSPs)
chr1 (284-332)||(19596131-19596179)
chr1 (291-334)||(46336308-46336351)
chr1 (292-332)||(32495887-32495927)
chr1 (290-332)||(38953659-38953700)
chr1 (288-334)||(43632841-43632887)
[»] chr7 (2 HSPs)
chr7 (291-332)||(4926264-4926305)
chr7 (291-332)||(14792500-14792541)
[»] chr5 (2 HSPs)
chr5 (291-332)||(39305621-39305662)
chr5 (291-328)||(9625598-9625635)
[»] chr4 (2 HSPs)
chr4 (291-332)||(12240563-12240604)
chr4 (291-334)||(49620580-49620623)


Alignment Details
Target: chr3 (Bit Score: 550; Significance: 0; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 550; E-Value: 0
Query Start/End: Original strand, 8 - 557
Target Start/End: Complemental strand, 41570392 - 41569843
Alignment:
Q  8 agtaacacggcgaggagtgagaggaaaatgatcttcttctttgaagatctaggtttggtagtgtttattataggttgggagggtgtcgagccaccagggt 107  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41570392 agtaacacggcgaggagtgagaggaaaatgatcttcttctttgaagatctaggtttggtagtgtttattataggttgggagggtgtcgagccaccagggt 41570293  T
Q  108 cggatagtcctaaccttccgtactccattgtgaagtgtgaagtgttaagtgaaaaaataagagtgaggaagtaatggacttatagaagtagtagtagttt 207  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41570292 cggatagtcctaaccttccgtactccattgtgaagtgtgaagtgttaagtgaaaaaataagagtgaggaagtaatggacttatagaagtagtagtagttt 41570193  T
Q  208 gctaattatgaagtttgttgtgatgagtaatgtgtaatgaatgatagctttttatataaatgacggtgcttagttaggggtgaggatttcctgctgtaat 307  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41570192 gctaattatgaagtttgttgtgatgagtaatgtgtaatgaatgatagctttttatataaatgacggtgcttagttaggggtgaggatttcctgctgtaat 41570093  T
Q  308 atttacacgcagttgcacgctgtagttagtagtactagtaatctagtatagtgaaagagtgaagaacagtgtaatgtgtatgtggttgtttttagtgagg 407  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41570092 atttacacgcagttgcacgctgtagttagtagtactagtaatctagtatagtgaaagagtgaagaacagtgtaatgtgtatgtggttgtttttagtgagg 41569993  T
Q  408 ttggtgtgaagtctatgtctactgaggaatgagctggctactactttgagacttttcacttccactattacccactgaactcaaaacttattatagactg 507  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41569992 ttggtgtgaagtctatgtctactgaggaatgagctggctactactttgagacttttcacttccactattacccactgaactcaaaacttattatagactg 41569893  T
Q  508 ggggcttcttgtttctatttgatcccacttgctttgctcattcattatta 557  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41569892 ggggcttcttgtttctatttgatcccacttgctttgctcattcattatta 41569843  T

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Target: chr3; HSP #2
Raw Score: 48; E-Value: 4e-18
Query Start/End: Original strand, 285 - 332
Target Start/End: Original strand, 45903307 - 45903354
Alignment:
Q  285 gggtgaggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||    
T  45903307 gggtgaggatttcctgctgtaatatttacacgcagttgcacgctgtag 45903354  T

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Target: chr2 (Bit Score: 50; Significance: 2e-19; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 285 - 334
Target Start/End: Original strand, 38992699 - 38992748
Alignment:
Q  285 gggtgaggatttcctgctgtaatatttacacgcagttgcacgctgtagtt 334  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  38992699 gggtgaggatttcctgctgtaatatttacacgcagttgcacgctgtagtt 38992748  T

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Target: chr6 (Bit Score: 45; Significance: 2e-16; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 288 - 332
Target Start/End: Original strand, 26377803 - 26377847
Alignment:
Q  288 tgaggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    |||||||||||||||||||||||||||||||||||||||||||||    
T  26377803 tgaggatttcctgctgtaatatttacacgcagttgcacgctgtag 26377847  T

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Target: chr6; HSP #2
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 291 - 332
Target Start/End: Complemental strand, 23594723 - 23594682
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    ||||||||||||||||||||||||||||||||||||||||||    
T  23594723 ggatttcctgctgtaatatttacacgcagttgcacgctgtag 23594682  T

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Target: chr1 (Bit Score: 45; Significance: 2e-16; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 284 - 332
Target Start/End: Complemental strand, 19596179 - 19596131
Alignment:
Q  284 ggggtgaggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    |||||||||||||||||||||||||||||||||||||| ||||||||||    
T  19596179 ggggtgaggatttcctgctgtaatatttacacgcagttacacgctgtag 19596131  T

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Target: chr1; HSP #2
Raw Score: 44; E-Value: 9e-16
Query Start/End: Original strand, 291 - 334
Target Start/End: Original strand, 46336308 - 46336351
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtagtt 334  Q
    ||||||||||||||||||||||||||||||||||||||||||||    
T  46336308 ggatttcctgctgtaatatttacacgcagttgcacgctgtagtt 46336351  T

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Target: chr1; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 292 - 332
Target Start/End: Complemental strand, 32495927 - 32495887
Alignment:
Q  292 gatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    ||||| || ||||||||||||||||||||||||||||||||    
T  32495927 gattttctactgtaatatttacacgcagttgcacgctgtag 32495887  T

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Target: chr1; HSP #4
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 290 - 332
Target Start/End: Complemental strand, 38953700 - 38953659
Alignment:
Q  290 aggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    ||||||| ||||||||| |||||||||||||||||||||||||    
T  38953700 aggatttgctgctgtaa-atttacacgcagttgcacgctgtag 38953659  T

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Target: chr1; HSP #5
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 288 - 334
Target Start/End: Original strand, 43632841 - 43632887
Alignment:
Q  288 tgaggatttcctgctgtaatatttacacgcagttgcacgctgtagtt 334  Q
    ||||||||| |||||||||   |||||||||||||||||||||||||    
T  43632841 tgaggattttctgctgtaaatattacacgcagttgcacgctgtagtt 43632887  T

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Target: chr7 (Bit Score: 38; Significance: 0.000000000003; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 291 - 332
Target Start/End: Complemental strand, 4926305 - 4926264
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    |||||||||||||||||||||||||||||||| |||||||||    
T  4926305 ggatttcctgctgtaatatttacacgcagttgtacgctgtag 4926264  T

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Target: chr7; HSP #2
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 291 - 332
Target Start/End: Complemental strand, 14792541 - 14792500
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    |||||| |||||||||||||||||||||||||||||||||||    
T  14792541 ggatttgctgctgtaatatttacacgcagttgcacgctgtag 14792500  T

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Target: chr5 (Bit Score: 38; Significance: 0.000000000003; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 291 - 332
Target Start/End: Complemental strand, 39305662 - 39305621
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    ||||||||||||||||||||||||||||||||||||| ||||    
T  39305662 ggatttcctgctgtaatatttacacgcagttgcacgccgtag 39305621  T

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Target: chr5; HSP #2
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 291 - 328
Target Start/End: Complemental strand, 9625635 - 9625598
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgct 328  Q
    |||||| |||||||||||||||||||||||||||||||    
T  9625635 ggatttactgctgtaatatttacacgcagttgcacgct 9625598  T

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Target: chr4 (Bit Score: 38; Significance: 0.000000000003; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 291 - 332
Target Start/End: Original strand, 12240563 - 12240604
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtag 332  Q
    |||||||||||||||||||||||||||||||||||| |||||    
T  12240563 ggatttcctgctgtaatatttacacgcagttgcacgttgtag 12240604  T

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

Target: chr4; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 291 - 334
Target Start/End: Original strand, 49620580 - 49620623
Alignment:
Q  291 ggatttcctgctgtaatatttacacgcagttgcacgctgtagtt 334  Q
    |||||||||||||||||||||||| ||||||| ||| |||||||    
T  49620580 ggatttcctgctgtaatatttacatgcagttgtacgttgtagtt 49620623  T

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



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