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: SO5590B-LTR4-TNT-insertion-5 (Length: 86)

Name: SO5590B-LTR4-TNT-insertion-5
Description: SO5590B-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] SO5590B-LTR4-TNT-insertion-5
SO5590B-LTR4-TNT-insertion-5
[»] chr4 (5 HSPs)
chr4 (8-76)||(31185651-31185719)
chr4 (8-76)||(31194478-31194546)
chr4 (17-60)||(30719901-30719944)
chr4 (17-60)||(30881415-30881458)
chr4 (17-60)||(30892498-30892541)
[»] chr5 (1 HSPs)
chr5 (14-60)||(8899027-8899073)
[»] chr2 (1 HSPs)
chr2 (14-60)||(31727185-31727231)


Alignment Details
Target: chr4 (Bit Score: 69; Significance: 1e-31; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 69; E-Value: 1e-31
Query Start/End: Original strand, 8 - 76
Target Start/End: Complemental strand, 31185719 - 31185651
Alignment:
Q  8 tccctctcagaacaagagctagtagattgtgacacaaaaggtgaagaccaaggatgcgaaggaggatta 76  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  31185719 tccctctcagaacaagagctagtagattgtgacacaaaaggtgaagaccaaggatgcgaaggaggatta 31185651  T

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Target: chr4; HSP #2
Raw Score: 53; E-Value: 5e-22
Query Start/End: Original strand, 8 - 76
Target Start/End: Complemental strand, 31194546 - 31194478
Alignment:
Q  8 tccctctcagaacaagagctagtagattgtgacacaaaaggtgaagaccaaggatgcgaaggaggatta 76  Q
    |||||||||||||||||| |||| ||||||||||||||||||||||| |||||||| ||||||||||||    
T  31194546 tccctctcagaacaagagttagttgattgtgacacaaaaggtgaagatcaaggatgtgaaggaggatta 31194478  T

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Target: chr4; HSP #3
Raw Score: 28; E-Value: 0.0000004
Query Start/End: Original strand, 17 - 60
Target Start/End: Complemental strand, 30719944 - 30719901
Alignment:
Q  17 gaacaagagctagtagattgtgacacaaaaggtgaagaccaagg 60  Q
    |||||||| || || ||||||||||||||||||| |||||||||    
T  30719944 gaacaagaacttgttgattgtgacacaaaaggtgtagaccaagg 30719901  T

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Target: chr4; HSP #4
Raw Score: 28; E-Value: 0.0000004
Query Start/End: Original strand, 17 - 60
Target Start/End: Original strand, 30881415 - 30881458
Alignment:
Q  17 gaacaagagctagtagattgtgacacaaaaggtgaagaccaagg 60  Q
    |||||||| || || ||||||||||||||||||| |||||||||    
T  30881415 gaacaagaacttgttgattgtgacacaaaaggtgtagaccaagg 30881458  T

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Target: chr4; HSP #5
Raw Score: 28; E-Value: 0.0000004
Query Start/End: Original strand, 17 - 60
Target Start/End: Original strand, 30892498 - 30892541
Alignment:
Q  17 gaacaagagctagtagattgtgacacaaaaggtgaagaccaagg 60  Q
    |||||||| || || ||||||||||||||||||| |||||||||    
T  30892498 gaacaagaacttgttgattgtgacacaaaaggtgtagaccaagg 30892541  T

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Target: chr5 (Bit Score: 31; Significance: 0.000000006; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 31; E-Value: 0.000000006
Query Start/End: Original strand, 14 - 60
Target Start/End: Original strand, 8899027 - 8899073
Alignment:
Q  14 tcagaacaagagctagtagattgtgacacaaaaggtgaagaccaagg 60  Q
    ||||||||||| || || ||||||||||||||||||| |||||||||    
T  8899027 tcagaacaagaacttgttgattgtgacacaaaaggtgtagaccaagg 8899073  T

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Target: chr2 (Bit Score: 31; Significance: 0.000000006; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.000000006
Query Start/End: Original strand, 14 - 60
Target Start/End: Original strand, 31727185 - 31727231
Alignment:
Q  14 tcagaacaagagctagtagattgtgacacaaaaggtgaagaccaagg 60  Q
    ||||||||||| || || |||||||||||||| ||||||||||||||    
T  31727185 tcagaacaagaacttgttgattgtgacacaaatggtgaagaccaagg 31727231  T

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