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: F9516H-LTR4-TNT-insertion-5 (Length: 269)

Name: F9516H-LTR4-TNT-insertion-5
Description: F9516H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9516H-LTR4-TNT-insertion-5
F9516H-LTR4-TNT-insertion-5
[»] chr3 (4 HSPs)
chr3 (8-262)||(1575464-1575718)
chr3 (77-138)||(27516304-27516365)
chr3 (77-138)||(4986993-4987054)
chr3 (130-174)||(40687009-40687053)
[»] chr5 (4 HSPs)
chr5 (77-138)||(29801656-29801717)
chr5 (129-174)||(26647765-26647810)
chr5 (129-174)||(26919350-26919395)
chr5 (77-138)||(38503512-38503573)
[»] chr7 (1 HSPs)
chr7 (130-175)||(40786341-40786386)
[»] chr6 (1 HSPs)
chr6 (130-174)||(10365011-10365055)
[»] chr4 (1 HSPs)
chr4 (77-121)||(22422737-22422781)


Alignment Details
Target: chr3 (Bit Score: 251; Significance: 1e-139; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 251; E-Value: 1e-139
Query Start/End: Original strand, 8 - 262
Target Start/End: Original strand, 1575464 - 1575718
Alignment:
Q  8 ataacatggtttggagtaatttatacctttcttacaaatattcataaattcctttatctatttaagagggggtgtatttggtttggaagaaaagttgaga 107  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  1575464 ataacatggtttggagtaatttatacctttcttacaaatattcataaattcctttatctatttaagagggggtgtatttggtttggaagaaaagttgaga 1575563  T
Q  108 atggagaaataggtaatagagaatgtgagaaataaagtatatttcatttattgtttggtataagagagcggaagtgttgtacagcacgagatcaaaggta 207  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||    
T  1575564 atggagaaataggtaatagagaatgtgagaaataaagtatatttcatttattgtttggtataagagaacggaagtgttgtacagcacgagatcaaaggta 1575663  T
Q  208 acgagtggaaatcatgtgatggagagttaaacatgggagagggaattcaattggt 262  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  1575664 acgagtggaaatcatgtgatggagagttaaacatgggagagggaattcaattggt 1575718  T

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Target: chr3; HSP #2
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 77 - 138
Target Start/End: Complemental strand, 27516365 - 27516304
Alignment:
Q  77 gggtgtatttggtttggaagaaaagttgagaatggagaaataggtaatagagaatgtgagaa 138  Q
    |||||| |||||||||||||| ||||||||||  ||||||||||||| ||||| | ||||||    
T  27516365 gggtgtgtttggtttggaagagaagttgagaagagagaaataggtaagagagagtatgagaa 27516304  T

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Target: chr3; HSP #3
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 77 - 138
Target Start/End: Complemental strand, 4987054 - 4986993
Alignment:
Q  77 gggtgtatttggtttggaagaaaagttgagaatggagaaataggtaatagagaatgtgagaa 138  Q
    |||||| |||||||||||||| ||||||||||  ||||| ||||||| ||||| | ||||||    
T  4987054 gggtgtgtttggtttggaagagaagttgagaagagagaagtaggtaagagagagtatgagaa 4986993  T

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Target: chr3; HSP #4
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 130 - 174
Target Start/End: Complemental strand, 40687053 - 40687009
Alignment:
Q  130 atgtgagaaataaagtatatttcatttattgtttggtataagaga 174  Q
    |||||||||||| |||| |||| || |||||||||||||||||||    
T  40687053 atgtgagaaatatagtagatttgatgtattgtttggtataagaga 40687009  T

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Target: chr5 (Bit Score: 34; Significance: 0.0000000004; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 77 - 138
Target Start/End: Original strand, 29801656 - 29801717
Alignment:
Q  77 gggtgtatttggtttggaagaaaagttgagaatggagaaataggtaatagagaatgtgagaa 138  Q
    |||||| |||||||||||||||||||||||||  ||||| ||||||| ||||| | ||||||    
T  29801656 gggtgtgtttggtttggaagaaaagttgagaagagagaagtaggtaagagagagtatgagaa 29801717  T

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Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 129 - 174
Target Start/End: Complemental strand, 26647810 - 26647765
Alignment:
Q  129 aatgtgagaaataaagtatatttcatttattgtttggtataagaga 174  Q
    ||||||||||||||||||||||| ||  ||||||||||| ||||||    
T  26647810 aatgtgagaaataaagtatatttgatggattgtttggtagaagaga 26647765  T

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Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 129 - 174
Target Start/End: Complemental strand, 26919395 - 26919350
Alignment:
Q  129 aatgtgagaaataaagtatatttcatttattgtttggtataagaga 174  Q
    ||||||||||||||||||||||| ||  ||||||||||| ||||||    
T  26919395 aatgtgagaaataaagtatatttgatggattgtttggtagaagaga 26919350  T

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Target: chr5; HSP #4
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 77 - 138
Target Start/End: Original strand, 38503512 - 38503573
Alignment:
Q  77 gggtgtatttggtttggaagaaaagttgagaatggagaaataggtaatagagaatgtgagaa 138  Q
    |||||| |||||||||||||| ||||||||||  ||||| ||||||| ||||| | ||||||    
T  38503512 gggtgtgtttggtttggaagagaagttgagaagagagaagtaggtaagagagagtatgagaa 38503573  T

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Target: chr7 (Bit Score: 30; Significance: 0.00000009; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 130 - 175
Target Start/End: Complemental strand, 40786386 - 40786341
Alignment:
Q  130 atgtgagaaataaagtatatttcatttattgtttggtataagagag 175  Q
    |||||||||||| |||| |||| || ||||||||||||||||||||    
T  40786386 atgtgagaaatagagtagatttgatgtattgtttggtataagagag 40786341  T

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Target: chr6 (Bit Score: 29; Significance: 0.0000004; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 130 - 174
Target Start/End: Original strand, 10365011 - 10365055
Alignment:
Q  130 atgtgagaaataaagtatatttcatttattgtttggtataagaga 174  Q
    ||||||||||||||||| |||| ||  ||||||||||||||||||    
T  10365011 atgtgagaaataaagtagatttgatggattgtttggtataagaga 10365055  T

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Target: chr4 (Bit Score: 29; Significance: 0.0000004; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 77 - 121
Target Start/End: Original strand, 22422737 - 22422781
Alignment:
Q  77 gggtgtatttggtttggaagaaaagttgagaatggagaaataggt 121  Q
    |||||| ||||||||||||||||||||| |||  |||||||||||    
T  22422737 gggtgtgtttggtttggaagaaaagttgtgaagagagaaataggt 22422781  T

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



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