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: F9645H-LTR4-TNT-insertion-1 (Length: 307)

Name: F9645H-LTR4-TNT-insertion-1
Description: F9645H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9645H-LTR4-TNT-insertion-1
F9645H-LTR4-TNT-insertion-1
[»] chr5 (2 HSPs)
chr5 (11-155)||(42681072-42681216)
chr5 (199-297)||(19854983-19855081)
[»] chr6 (1 HSPs)
chr6 (199-297)||(6841260-6841358)
[»] chr1 (2 HSPs)
chr1 (199-297)||(22424824-22424922)
chr1 (199-297)||(22861902-22862000)
[»] chr4 (3 HSPs)
chr4 (199-260)||(17088640-17088701)
chr4 (199-260)||(17096615-17096676)
chr4 (199-260)||(49708084-49708145)
[»] chr2 (1 HSPs)
chr2 (199-260)||(5141913-5141974)


Alignment Details
Target: chr5 (Bit Score: 145; Significance: 2e-76; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 145; E-Value: 2e-76
Query Start/End: Original strand, 11 - 155
Target Start/End: Original strand, 42681072 - 42681216
Alignment:
Q  11 acatgacaaattatcaagggtaatttataagcaaatttgcttttgcttttcttactttattgatttattaatacagctgaaatcttttagtgaaagtgtc 110  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  42681072 acatgacaaattatcaagggtaatttataagcaaatttgcttttgcttttcttactttattgatttattaatacagctgaaatcttttagtgaaagtgtc 42681171  T
Q  111 ttaaaatccgttgatcttgtctttcccctttctcaactgtcttaa 155  Q
    |||||||||||||||||||||||||||||||||||||||||||||    
T  42681172 ttaaaatccgttgatcttgtctttcccctttctcaactgtcttaa 42681216  T

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Target: chr5; HSP #2
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 199 - 297
Target Start/End: Original strand, 19854983 - 19855081
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcnnnnnnntactttcctatgatggggaatt 297  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       ||||||||||||||||||||||    
T  19854983 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcaaaaaaatactttcctatgatggggaatt 19855081  T

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Target: chr6 (Bit Score: 78; Significance: 2e-36; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 199 - 297
Target Start/End: Complemental strand, 6841358 - 6841260
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcnnnnnnntactttcctatgatggggaatt 297  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       ||||||||||||||||||||||    
T  6841358 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcaaaaaaatactttcctatgatggggaatt 6841260  T

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Target: chr1 (Bit Score: 78; Significance: 2e-36; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 199 - 297
Target Start/End: Complemental strand, 22424922 - 22424824
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcnnnnnnntactttcctatgatggggaatt 297  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       ||||||||||||||||||||||    
T  22424922 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcaaaaaaatactttcctatgatggggaatt 22424824  T

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Target: chr1; HSP #2
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 199 - 297
Target Start/End: Complemental strand, 22862000 - 22861902
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcnnnnnnntactttcctatgatggggaatt 297  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       ||||||||||||||||||||||    
T  22862000 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatccaatggtcaaaaaaatactttcctatgatggggaatt 22861902  T

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Target: chr4 (Bit Score: 46; Significance: 3e-17; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 199 - 260
Target Start/End: Original strand, 17088640 - 17088701
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatc 260  Q
    |||||||||||||||||||||||||||| ||| ||||| |||| ||||||||||||||||||    
T  17088640 gggaggtggaagtgtaatttagtgttgaaagtgtatgataataaggtgctcttattttgatc 17088701  T

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Target: chr4; HSP #2
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 199 - 260
Target Start/End: Original strand, 17096615 - 17096676
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatc 260  Q
    |||||||||||||||||||||||||||| ||| ||||| |||| ||||||||||||||||||    
T  17096615 gggaggtggaagtgtaatttagtgttgaaagtgtatgataataaggtgctcttattttgatc 17096676  T

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Target: chr4; HSP #3
Raw Score: 42; E-Value: 0.000000000000007
Query Start/End: Original strand, 199 - 260
Target Start/End: Complemental strand, 49708145 - 49708084
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatc 260  Q
    ||||||||||||||||||| ||||||||||||  |||| | |||||||||||||||||||||    
T  49708145 gggaggtggaagtgtaattcagtgttgagagtgcatgatattagggtgctcttattttgatc 49708084  T

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Target: chr2 (Bit Score: 42; Significance: 0.000000000000007; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 42; E-Value: 0.000000000000007
Query Start/End: Original strand, 199 - 260
Target Start/End: Complemental strand, 5141974 - 5141913
Alignment:
Q  199 gggaggtggaagtgtaatttagtgttgagagtatatgacaatagggtgctcttattttgatc 260  Q
    ||||||||||||||||||| ||||||||||||  |||| | |||||||||||||||||||||    
T  5141974 gggaggtggaagtgtaattcagtgttgagagtgcatgatattagggtgctcttattttgatc 5141913  T

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