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: F9091J-LTR4-TNT-insertion-3 (Length: 55)

Name: F9091J-LTR4-TNT-insertion-3
Description: F9091J-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9091J-LTR4-TNT-insertion-3
F9091J-LTR4-TNT-insertion-3
[»] scaffold0007 (1 HSPs)
scaffold0007 (8-48)||(223638-223678)
[»] chr5 (2 HSPs)
chr5 (15-48)||(41630128-41630161)
chr5 (15-45)||(7861017-7861047)
[»] chr1 (2 HSPs)
chr1 (17-48)||(11871845-11871876)
chr1 (15-45)||(16033466-16033496)
[»] scaffold0038 (1 HSPs)
scaffold0038 (15-45)||(31938-31968)
[»] scaffold0016 (1 HSPs)
scaffold0016 (15-45)||(99052-99082)
[»] chr8 (1 HSPs)
chr8 (15-45)||(22948097-22948127)
[»] chr6 (1 HSPs)
chr6 (15-45)||(28231441-28231471)
[»] chr4 (1 HSPs)
chr4 (15-45)||(43702345-43702375)
[»] chr3 (2 HSPs)
chr3 (15-45)||(1111857-1111887)
chr3 (15-45)||(12976618-12976648)
[»] chr2 (1 HSPs)
chr2 (15-45)||(27244672-27244702)


Alignment Details
Target: scaffold0007 (Bit Score: 41; Significance: 0.000000000000004; HSPs: 1)
Name: scaffold0007
Description:

Target: scaffold0007; HSP #1
Raw Score: 41; E-Value: 0.000000000000004
Query Start/End: Original strand, 8 - 48
Target Start/End: Original strand, 223638 - 223678
Alignment:
Q  8 cggggttccttgcatatattatggattgtccctatcaattg 48  Q
    |||||||||||||||||||||||||||||||||||||||||    
T  223638 cggggttccttgcatatattatggattgtccctatcaattg 223678  T

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Target: chr5 (Bit Score: 30; Significance: 0.00000001; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.00000001
Query Start/End: Original strand, 15 - 48
Target Start/End: Original strand, 41630128 - 41630161
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaattg 48  Q
    |||||||||||||||| |||||||||||||||||    
T  41630128 ccttgcatatattatgcattgtccctatcaattg 41630161  T

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Target: chr5; HSP #2
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 7861017 - 7861047
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  7861017 ccttgcatatattatgcattgtccctatcaa 7861047  T

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Target: chr1 (Bit Score: 28; Significance: 0.0000002; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 28; E-Value: 0.0000002
Query Start/End: Original strand, 17 - 48
Target Start/End: Original strand, 11871845 - 11871876
Alignment:
Q  17 ttgcatatattatggattgtccctatcaattg 48  Q
    ||||||||||||||||||||||||| ||||||    
T  11871845 ttgcatatattatggattgtccctaacaattg 11871876  T

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Target: chr1; HSP #2
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 16033466 - 16033496
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  16033466 ccttgcatatattatgcattgtccctatcaa 16033496  T

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Target: scaffold0038 (Bit Score: 27; Significance: 0.0000009; HSPs: 1)
Name: scaffold0038
Description:

Target: scaffold0038; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 31938 - 31968
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  31938 ccttgcatatattatgcattgtccctatcaa 31968  T

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Target: scaffold0016 (Bit Score: 27; Significance: 0.0000009; HSPs: 1)
Name: scaffold0016
Description:

Target: scaffold0016; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Complemental strand, 99082 - 99052
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  99082 ccttgcatatattatgcattgtccctatcaa 99052  T

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Target: chr8 (Bit Score: 27; Significance: 0.0000009; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 22948097 - 22948127
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  22948097 ccttgcatatattatgcattgtccctatcaa 22948127  T

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Target: chr6 (Bit Score: 27; Significance: 0.0000009; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 28231441 - 28231471
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  28231441 ccttgcatatattatgcattgtccctatcaa 28231471  T

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Target: chr4 (Bit Score: 27; Significance: 0.0000009; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 43702345 - 43702375
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  43702345 ccttgcatatattatgtattgtccctatcaa 43702375  T

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Target: chr3 (Bit Score: 27; Significance: 0.0000009; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 1111857 - 1111887
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  1111857 ccttgcatatattatgtattgtccctatcaa 1111887  T

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Target: chr3; HSP #2
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Original strand, 12976618 - 12976648
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  12976618 ccttgcatatattatgcattgtccctatcaa 12976648  T

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Target: chr2 (Bit Score: 27; Significance: 0.0000009; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 27; E-Value: 0.0000009
Query Start/End: Original strand, 15 - 45
Target Start/End: Complemental strand, 27244702 - 27244672
Alignment:
Q  15 ccttgcatatattatggattgtccctatcaa 45  Q
    |||||||||||||||| ||||||||||||||    
T  27244702 ccttgcatatattatgcattgtccctatcaa 27244672  T

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