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: F9340-LTR4-TNT-insertion-4 (Length: 216)

Name: F9340-LTR4-TNT-insertion-4
Description: F9340-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9340-LTR4-TNT-insertion-4
F9340-LTR4-TNT-insertion-4
[»] chr6 (2 HSPs)
chr6 (9-206)||(10312563-10312760)
chr6 (9-75)||(29333231-29333297)
[»] chr8 (2 HSPs)
chr8 (9-68)||(15884648-15884707)
chr8 (9-77)||(17981390-17981458)
[»] chr4 (5 HSPs)
chr4 (8-75)||(34667694-34667761)
chr4 (9-75)||(1940867-1940933)
chr4 (9-75)||(52950034-52950100)
chr4 (9-75)||(13073490-13073556)
chr4 (10-75)||(41339489-41339554)
[»] chr3 (5 HSPs)
chr3 (9-68)||(47471786-47471845)
chr3 (9-75)||(54261173-54261239)
chr3 (9-68)||(6462366-6462425)
chr3 (12-75)||(48341967-48342030)
chr3 (9-75)||(46529964-46530030)
[»] scaffold0006 (1 HSPs)
scaffold0006 (9-75)||(68467-68533)
[»] scaffold0002 (1 HSPs)
scaffold0002 (9-68)||(527-586)
[»] chr2 (1 HSPs)
chr2 (34-77)||(24179516-24179559)
[»] chr5 (2 HSPs)
chr5 (13-75)||(20692881-20692943)
chr5 (9-70)||(35403605-35403666)
[»] chr1 (1 HSPs)
chr1 (9-69)||(30927821-30927881)


Alignment Details
Target: chr6 (Bit Score: 194; Significance: 1e-105; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 194; E-Value: 1e-105
Query Start/End: Original strand, 9 - 206
Target Start/End: Complemental strand, 10312760 - 10312563
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgacttagccacatgcttaaagggtctaaatctcttacc 108  Q
    ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  10312760 atcgaacccggtatttcccaggtttgtccttggaaggagctctttaccactagagcccaaacgacttagccacatgcttaaagggtctaaatctcttacc 10312661  T
Q  109 actcggaacaatagcctagttaaccgtttttctataatgggatgtacataacaatttttggctgcattttatatacttttcaactaaattccatatta 206  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  10312660 actcggaacaatagcctagttaaccgtttttctataatgggatgtacataacaatttttggctgcattttatatacttttcaactaaattccatatta 10312563  T

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Target: chr6; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 9 - 75
Target Start/End: Original strand, 29333231 - 29333297
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    ||||||||||||||| ||  |||  |||||||| |||||||| || |||||||||||||||| ||||    
T  29333231 atcgaacccggtattccctgggtacgtccttggaaggagctcattgccactagagcccaaacaactt 29333297  T

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Target: chr8 (Bit Score: 36; Significance: 0.00000000002; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 9 - 68
Target Start/End: Original strand, 15884648 - 15884707
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaa 68  Q
    ||||||||||||||| |||||||  |||||||| |||||||| |||||||| ||||||||    
T  15884648 atcgaacccggtattccccaggtacgtccttggaaggagctccttaccactggagcccaa 15884707  T

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Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 9 - 77
Target Start/End: Complemental strand, 17981458 - 17981390
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgacttag 77  Q
    ||||||||||||||||||| |||   ||||||| |||||||| || ||||| |||||||| | ||||||    
T  17981458 atcgaacccggtatttcccgggtacatccttggaaggagctccttgccactggagcccaagcaacttag 17981390  T

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Target: chr4 (Bit Score: 36; Significance: 0.00000000002; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 8 - 75
Target Start/End: Original strand, 34667694 - 34667761
Alignment:
Q  8 gatcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    |||||||||||||||| ||| |||  |||||||| |||||||| || |||||||||||||||| ||||    
T  34667694 gatcgaacccggtattccccgggtacgtccttggaaggagctccttgccactagagcccaaacaactt 34667761  T

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Target: chr4; HSP #2
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 9 - 75
Target Start/End: Original strand, 1940867 - 1940933
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    |||||||||| |||||||| |||  |||||||| |||||||| || |||||||||||||||| ||||    
T  1940867 atcgaacccgatatttcccgggtacgtccttggaaggagctccttgccactagagcccaaacaactt 1940933  T

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Target: chr4; HSP #3
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 9 - 75
Target Start/End: Complemental strand, 52950100 - 52950034
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    |||||||||| |||| |||||||  |||||||| |||||||| || |||||||||||||||| ||||    
T  52950100 atcgaacccgatattccccaggtacgtccttggaaggagctccttgccactagagcccaaacaactt 52950034  T

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Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 9 - 75
Target Start/End: Complemental strand, 13073556 - 13073490
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    ||||||| |||||||  ||||||  |||||||| |||||||| || |||||||||||||||| ||||    
T  13073556 atcgaactcggtattctccaggtacgtccttggaaggagctcattgccactagagcccaaacaactt 13073490  T

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Target: chr4; HSP #5
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 10 - 75
Target Start/End: Original strand, 41339489 - 41339554
Alignment:
Q  10 tcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    ||||||||||||||  || |||  |||||||| |||||||| || |||||||||||||||| ||||    
T  41339489 tcgaacccggtattctccgggtacgtccttggaaggagctccttgccactagagcccaaacaactt 41339554  T

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Target: chr3 (Bit Score: 36; Significance: 0.00000000002; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 9 - 68
Target Start/End: Complemental strand, 47471845 - 47471786
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaa 68  Q
    ||||||||||||||| || ||||  |||||||| ||||||||||| ||||||||||||||    
T  47471845 atcgaacccggtattccctaggtacgtccttggaaggagctctttgccactagagcccaa 47471786  T

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Target: chr3; HSP #2
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 9 - 75
Target Start/End: Complemental strand, 54261239 - 54261173
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    ||||||||||||||| |||||||  |||||||| |||||||| || ||||| |||||||||| ||||    
T  54261239 atcgaacccggtattccccaggtacgtccttggaaggagctccttgccactggagcccaaacaactt 54261173  T

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Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 9 - 68
Target Start/End: Complemental strand, 6462425 - 6462366
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaa 68  Q
    ||||||||||||||| ||||| |  |||||||| |||||||| || ||||||||||||||    
T  6462425 atcgaacccggtattccccagatacgtccttggaaggagctccttgccactagagcccaa 6462366  T

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Target: chr3; HSP #4
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 12 - 75
Target Start/End: Complemental strand, 48342030 - 48341967
Alignment:
Q  12 gaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    |||||||||||| |||||||  |||||||| |||||||| || ||||| |||||||||| ||||    
T  48342030 gaacccggtattccccaggtacgtccttggaaggagctccttgccactggagcccaaacaactt 48341967  T

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Target: chr3; HSP #5
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 9 - 75
Target Start/End: Original strand, 46529964 - 46530030
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    ||||||||||||||| |||||||  |||||||  |||||||| || ||||| |||||||||| ||||    
T  46529964 atcgaacccggtattccccaggtacgtccttgaaaggagctccttgccactggagcccaaacaactt 46530030  T

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Target: scaffold0006 (Bit Score: 35; Significance: 0.00000000008; HSPs: 1)
Name: scaffold0006
Description:

Target: scaffold0006; HSP #1
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 9 - 75
Target Start/End: Complemental strand, 68533 - 68467
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    |||||||||| |||||||| |||  |||||||| |||||||| || |||||||||||||||| ||||    
T  68533 atcgaacccgatatttcccgggtacgtccttggaaggagctccttgccactagagcccaaacaactt 68467  T

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Target: scaffold0002 (Bit Score: 32; Significance: 0.000000005; HSPs: 1)
Name: scaffold0002
Description:

Target: scaffold0002; HSP #1
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 9 - 68
Target Start/End: Complemental strand, 586 - 527
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaa 68  Q
    ||||||||||||||| ||| |||  |||||||| |||||||| || ||||||||||||||    
T  586 atcgaacccggtattccccgggtacgtccttggaaggagctccttgccactagagcccaa 527  T

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Target: chr2 (Bit Score: 32; Significance: 0.000000005; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 34 - 77
Target Start/End: Complemental strand, 24179559 - 24179516
Alignment:
Q  34 gtccttgggaggagctctttaccactagagcccaaacgacttag 77  Q
    |||||||| ||||||||||| |||||||||||||||| ||||||    
T  24179559 gtccttggaaggagctctttgccactagagcccaaacaacttag 24179516  T

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Target: chr5 (Bit Score: 31; Significance: 0.00000002; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 13 - 75
Target Start/End: Complemental strand, 20692943 - 20692881
Alignment:
Q  13 aacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaacgactt 75  Q
    ||||||||||| ||| |||  |||||||| || |||||||| |||||||||||||||| ||||    
T  20692943 aacccggtattccccgggtacgtccttggaagaagctctttgccactagagcccaaacaactt 20692881  T

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Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 9 - 70
Target Start/End: Original strand, 35403605 - 35403666
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaac 70  Q
    |||||||||||||||||||  ||  |||||||| |||||||| || ||||| ||||||||||    
T  35403605 atcgaacccggtatttcccgagtacgtccttggaaggagctccttgccactggagcccaaac 35403666  T

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Target: chr1 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 9 - 69
Target Start/End: Original strand, 30927821 - 30927881
Alignment:
Q  9 atcgaacccggtatttcccaggtttgtccttgggaggagctctttaccactagagcccaaa 69  Q
    |||||||||| ||||||||||||  |||||||| |||||||| || ||||| ||| |||||    
T  30927821 atcgaacccgatatttcccaggtacgtccttggaaggagctccttgccactggagtccaaa 30927881  T

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