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: F9364-LTR4-TNT-insertion-1 (Length: 505)

Name: F9364-LTR4-TNT-insertion-1
Description: F9364-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9364-LTR4-TNT-insertion-1
F9364-LTR4-TNT-insertion-1
[»] chr8 (3 HSPs)
chr8 (7-495)||(15232359-15232847)
chr8 (438-495)||(40098850-40098907)
chr8 (439-495)||(13228864-13228920)
[»] chr5 (7 HSPs)
chr5 (437-495)||(3851355-3851413)
chr5 (437-495)||(6763787-6763845)
chr5 (353-392)||(36824461-36824500)
chr5 (57-91)||(4067269-4067303)
chr5 (438-475)||(8803289-8803326)
chr5 (438-495)||(23914834-23914891)
chr5 (439-495)||(36895031-36895087)
[»] chr2 (1 HSPs)
chr2 (438-495)||(1980978-1981035)
[»] chr4 (3 HSPs)
chr4 (437-493)||(19934630-19934686)
chr4 (438-493)||(54164806-54164861)
chr4 (439-493)||(29006927-29006981)
[»] chr3 (2 HSPs)
chr3 (439-495)||(51617421-51617477)
chr3 (439-495)||(51617325-51617381)
[»] chr1 (6 HSPs)
chr1 (438-493)||(1035880-1035935)
chr1 (440-495)||(1035977-1036032)
chr1 (438-495)||(48022588-48022645)
chr1 (439-495)||(6065455-6065511)
chr1 (439-495)||(33604081-33604137)
chr1 (439-495)||(37734863-37734919)
[»] chr7 (4 HSPs)
chr7 (438-491)||(4407713-4407766)
chr7 (439-495)||(22106757-22106813)
chr7 (439-495)||(40529538-40529594)
chr7 (443-495)||(46943942-46943994)
[»] scaffold0024 (1 HSPs)
scaffold0024 (439-495)||(120139-120195)
[»] chr6 (2 HSPs)
chr6 (439-495)||(21506457-21506513)
chr6 (439-495)||(30397719-30397775)


Alignment Details
Target: chr8 (Bit Score: 437; Significance: 0; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 437; E-Value: 0
Query Start/End: Original strand, 7 - 495
Target Start/End: Complemental strand, 15232847 - 15232359
Alignment:
Q  7 agttctttatttagttttgttcatcaagaaaaaatgttaccnnnnnnnnacaaaatgttatatttcttttgtcaaataaaaaaccaattggtttcctcgt 106  Q
    |||||||||||||||||||||||||||||||||||||||||        |||||||||||||||||||||||||||||||||||||||||||||||||||    
T  15232847 agttctttatttagttttgttcatcaagaaaaaatgttaccttttttttacaaaatgttatatttcttttgtcaaataaaaaaccaattggtttcctcgt 15232748  T
Q  107 tcaataaaaaatcctataaatgaagaaaacgaatcaagatgtaaccccaagatttcgaggaaaatgataaggacgattgtgataacaaaacgaagaannn 206  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||       
T  15232747 tcaataaaaaatcctataaatgaagaaaacgaatcaagatgtaaccccaagatttcgaggaaaatgataagaacgattgtgataacaaaacgaagaattt 15232648  T
Q  207 nnnnngaacgaaatcaaagacacgaatgaggaaagaataaccgagaattgatttttctcagaaaaatcgtagcgcaagtgtgattcaagaagaaaaccat 306  Q
         |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  15232647 tttttgaacgaaatcaaagacacgaatgaggaaagaataaccgagaattgatttttctcagaaaaatcgtagcgcaagtgtgattcaagaagaaaaccat 15232548  T
Q  307 ggctcttataccatattgagattttatgatatcaaaggaaaaagagataaaagcttaagaaatgttttattggaaacattgagaattatttaagggagca 406  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  15232547 ggctcttataccatattgagattttatgatatcaaaggaaaaagagataaaagcttaagaaatgttttattggaaacattgagaattatttaagggagca 15232448  T
Q  407 tgttgggtacaaataaatccaccttctaccttatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  15232447 tgttgggtacaaataaatccaccttctaccttatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 15232359  T

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Target: chr8; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 438 - 495
Target Start/End: Complemental strand, 40098907 - 40098850
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  40098907 tatacaccctccggtcactaatataagcaaaaatccactttttagatacattcaatta 40098850  T

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

Target: chr8; HSP #3
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 13228864 - 13228920
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||| || ||||| |||||||||||| |||| ||| ||||| ||||||||||    
T  13228864 atacacccttcggtcactaatataaacaaaaatccattttttaaatacattcaatta 13228920  T

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Target: chr5 (Bit Score: 35; Significance: 0.0000000002; HSPs: 7)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 437 - 495
Target Start/End: Original strand, 3851355 - 3851413
Alignment:
Q  437 ttatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||||||||||| |||||| ||||| |||||||| || || ||||||||||    
T  3851355 ttatacaccctccgatcactaatataagcaaaaatccactttttagatacattcaatta 3851413  T

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Target: chr5; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 437 - 495
Target Start/End: Complemental strand, 6763845 - 6763787
Alignment:
Q  437 ttatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||||| ||||| |||||| ||||| |||| |||||| |||||||||||||    
T  6763845 ttatacaccctccggtcactaatataagcaaaaatccattttctagattcattcaatta 6763787  T

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Target: chr5; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 353 - 392
Target Start/End: Original strand, 36824461 - 36824500
Alignment:
Q  353 ataaaagcttaagaaatgttttattggaaacattgagaat 392  Q
    |||||||||||||||||||| ||||||||||| |||||||    
T  36824461 ataaaagcttaagaaatgttgtattggaaacaatgagaat 36824500  T

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Target: chr5; HSP #4
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 57 - 91
Target Start/End: Complemental strand, 4067303 - 4067269
Alignment:
Q  57 caaaatgttatatttcttttgtcaaataaaaaacc 91  Q
    ||||| |||||||||||||||||||||||||||||    
T  4067303 caaaaagttatatttcttttgtcaaataaaaaacc 4067269  T

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Target: chr5; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 438 - 475
Target Start/End: Original strand, 8803289 - 8803326
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccac 475  Q
    ||||||||||||||||||| |||||||||||| |||||    
T  8803289 tatacaccctccgatcactaatataaacaaaaatccac 8803326  T

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Target: chr5; HSP #6
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 438 - 495
Target Start/End: Original strand, 23914834 - 23914891
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  23914834 tatacaccctccggtcactaatataagcaaaaatccactttttagatacattcaatta 23914891  T

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Target: chr5; HSP #7
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 36895031 - 36895087
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||||||||||||  |||||||||||||| || || |||||| ||| |||||    
T  36895031 atacaccctccgatcactattataaacaaaattctacattttaaatttatttaatta 36895087  T

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Target: chr2 (Bit Score: 34; Significance: 0.0000000007; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 438 - 495
Target Start/End: Original strand, 1980978 - 1981035
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||||||| ||||| |||||| ||||||||||| || ||||| ||||||||||    
T  1980978 tatacaccctccggtcactaatataagcaaaattccacattttaaatacattcaatta 1981035  T

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Target: chr4 (Bit Score: 33; Significance: 0.000000003; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 437 - 493
Target Start/End: Original strand, 19934630 - 19934686
Alignment:
Q  437 ttatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaat 493  Q
    |||||||||||||| |||||  ||||| |||||||||||||| || |||||||||||    
T  19934630 ttatacaccctccggtcactattataagcaaaattccactttttagattcattcaat 19934686  T

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Target: chr4; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 438 - 493
Target Start/End: Original strand, 54164806 - 54164861
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaat 493  Q
    ||||||||||||| |||||  ||||| |||||||||||||| || |||||||||||    
T  54164806 tatacaccctccggtcactattataagcaaaattccactttttagattcattcaat 54164861  T

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Target: chr4; HSP #3
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 439 - 493
Target Start/End: Complemental strand, 29006981 - 29006927
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaat 493  Q
    ||||| |||||| |||||  ||||| |||||||||||||| ||||||||||||||    
T  29006981 atacatcctccggtcactattataagcaaaattccactttttaaattcattcaat 29006927  T

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Target: chr3 (Bit Score: 33; Significance: 0.000000003; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 439 - 495
Target Start/End: Complemental strand, 51617477 - 51617421
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| |||||||||||||| || || ||||||||||    
T  51617477 atacaccctccggtcactaatataagcaaaattccactttttagatacattcaatta 51617421  T

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Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 51617325 - 51617381
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  51617325 atacaccctccggtcactaatataaccaaaaatccactttttagatacattcaatta 51617381  T

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Target: chr1 (Bit Score: 32; Significance: 0.00000001; HSPs: 6)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 438 - 493
Target Start/End: Original strand, 1035880 - 1035935
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaat 493  Q
    |||||||| |||||||||| |||||| ||||| |||| |||||| |||||||||||    
T  1035880 tatacaccatccgatcactaatataagcaaaaatccagtttctagattcattcaat 1035935  T

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Target: chr1; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 440 - 495
Target Start/End: Complemental strand, 1036032 - 1035977
Alignment:
Q  440 tacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||||| ||||| |||||| ||||| | ||||||||| |||||||||||||    
T  1036032 tacaccctccggtcactaatataagcaaaaattcactttctagattcattcaatta 1035977  T

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Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 438 - 495
Target Start/End: Original strand, 48022588 - 48022645
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    ||||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  48022588 tatacaccctccggtcactaatataagcaaaaatccactttttagatacattcaatta 48022645  T

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

Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 6065455 - 6065511
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| |||||||| ||||| || || ||||||||||    
T  6065455 atacaccctccggtcactaatataagcaaaattctactttttagatacattcaatta 6065511  T

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

Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Complemental strand, 33604137 - 33604081
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  33604137 atacaccctccggtcactaatataagcaaaaatccactttttagatacattcaatta 33604081  T

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

Target: chr1; HSP #6
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Complemental strand, 37734919 - 37734863
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  37734919 atacaccctccggtcactaatataagcaaaaatccactttttagatacattcaatta 37734863  T

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Target: chr7 (Bit Score: 30; Significance: 0.0000002; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 438 - 491
Target Start/End: Complemental strand, 4407766 - 4407713
Alignment:
Q  438 tatacaccctccgatcactgatataaacaaaattccactttctaaattcattca 491  Q
    ||||||||||||| ||||| |||||||||||| |||||||| || || ||||||    
T  4407766 tatacaccctccggtcactaatataaacaaaaatccactttttagatacattca 4407713  T

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

Target: chr7; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Complemental strand, 22106813 - 22106757
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||| ||||||| |||||||||||||| || ||| || || ||||||||||    
T  22106813 atacaccctctgatcactaatataaacaaaatttcattttttagatacattcaatta 22106757  T

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

Target: chr7; HSP #3
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 40529538 - 40529594
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||| ||||||| |||||||||||||| || ||| || || ||||||||||    
T  40529538 atacaccctctgatcactaatataaacaaaatttcattttttagatacattcaatta 40529594  T

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

Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 443 - 495
Target Start/End: Original strand, 46943942 - 46943994
Alignment:
Q  443 accctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||| ||||| |||||||||||| |||||||| || || ||||||||||    
T  46943942 accctccggtcactaatataaacaaaaatccactttttagatacattcaatta 46943994  T

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

Target: scaffold0024 (Bit Score: 29; Significance: 0.0000007; HSPs: 1)
Name: scaffold0024
Description:

Target: scaffold0024; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 120139 - 120195
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| ||||||| |||||| || || ||||||||||    
T  120139 atacaccctccggtcactaatataagcaaaatttcactttttagatacattcaatta 120195  T

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

Target: chr6 (Bit Score: 29; Significance: 0.0000007; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 21506457 - 21506513
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||| ||||| |||||||| || || ||||||||||    
T  21506457 atacaccctccggtcactaatataagcaaaaatccactttttagatacattcaatta 21506513  T

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

Target: chr6; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 439 - 495
Target Start/End: Original strand, 30397719 - 30397775
Alignment:
Q  439 atacaccctccgatcactgatataaacaaaattccactttctaaattcattcaatta 495  Q
    |||||||||||| ||||| |||||||||||| ||||| || || || ||||||||||    
T  30397719 atacaccctccggtcactaatataaacaaaaatccacattttagatacattcaatta 30397775  T

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



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