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: F9348-LTR4-TNT-insertion-1 (Length: 161)

Name: F9348-LTR4-TNT-insertion-1
Description: F9348-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9348-LTR4-TNT-insertion-1
F9348-LTR4-TNT-insertion-1
[»] chr5 (1 HSPs)
chr5 (12-138)||(1718099-1718225)
[»] chr1 (9 HSPs)
chr1 (12-130)||(14508565-14508683)
chr1 (38-103)||(28231738-28231803)
chr1 (38-91)||(28326563-28326616)
chr1 (38-77)||(28239431-28239470)
chr1 (17-91)||(14470403-14470477)
chr1 (15-81)||(47569342-47569408)
chr1 (38-78)||(24621574-24621614)
chr1 (38-81)||(6326535-6326578)
chr1 (39-78)||(23787262-23787301)
[»] chr2 (2 HSPs)
chr2 (42-138)||(9066529-9066625)
chr2 (38-81)||(16375426-16375469)
[»] chr3 (1 HSPs)
chr3 (50-133)||(47924651-47924734)


Alignment Details
Target: chr5 (Bit Score: 123; Significance: 2e-63; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 123; E-Value: 2e-63
Query Start/End: Original strand, 12 - 138
Target Start/End: Original strand, 1718099 - 1718225
Alignment:
Q  12 aagctgctaaaagtacaactgctcttatgataaaaggtggtgtcaaacctattgttgctggttatcactcggtgattgatgaaccatacaaaggagaagg 111  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||    
T  1718099 aagctgctaaaagtacaactgctcttatgataaaaggtggtgtcaaacctattgttgctggttatcactcggtgattggtgaaccatacaaaggagaagg 1718198  T
Q  112 acaaatcgataagattgcacaattggt 138  Q
    |||||||||||||||||||||||||||    
T  1718199 acaaatcgataagattgcacaattggt 1718225  T

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Target: chr1 (Bit Score: 83; Significance: 1e-39; HSPs: 9)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 83; E-Value: 1e-39
Query Start/End: Original strand, 12 - 130
Target Start/End: Complemental strand, 14508683 - 14508565
Alignment:
Q  12 aagctgctaaaagtacaactgctcttatgataaaaggtggtgtcaaacctattgttgctggttatcactcggtgattgatgaaccatacaaaggagaagg 111  Q
    ||||||||||||||||||  ||||| ||||||||||||||||||||||||||||||||| ||| |||||||||||||||||||| |||||||||||||||    
T  14508683 aagctgctaaaagtacaatcgctctaatgataaaaggtggtgtcaaacctattgttgctagttttcactcggtgattgatgaactatacaaaggagaagg 14508584  T
Q  112 acaaatcgataagattgca 130  Q
    || | | ||||||||||||    
T  14508583 acgagttgataagattgca 14508565  T

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Target: chr1; HSP #2
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 38 - 103
Target Start/End: Original strand, 28231738 - 28231803
Alignment:
Q  38 atgataaaaggtggtgtcaaacctattgttgctggttatcactcggtgattgatgaaccatacaaa 103  Q
    |||||||||||||||||||||||||  |||||| |||| ||||| || ||||||| || |||||||    
T  28231738 atgataaaaggtggtgtcaaacctaacgttgctagttaccactcagttattgatggactatacaaa 28231803  T

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Target: chr1; HSP #3
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 38 - 91
Target Start/End: Original strand, 28326563 - 28326616
Alignment:
Q  38 atgataaaaggtggtgtcaaacctattgttgctggttatcactcggtgattgat 91  Q
    ||||||||||||||| ||| ||||| ||||||| ||||||||||||| ||||||    
T  28326563 atgataaaaggtggtctcagacctaatgttgctagttatcactcggttattgat 28326616  T

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Target: chr1; HSP #4
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 38 - 77
Target Start/End: Original strand, 28239431 - 28239470
Alignment:
Q  38 atgataaaaggtggtgtcaaacctattgttgctggttatc 77  Q
    ||||||||||||||||||||||||| ||||||| ||||||    
T  28239431 atgataaaaggtggtgtcaaacctaatgttgcttgttatc 28239470  T

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Target: chr1; HSP #5
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 17 - 91
Target Start/End: Complemental strand, 14470477 - 14470403
Alignment:
Q  17 gctaaaagtacaactgctcttatgataaaaggtggtgtcaaacctattgttgctggttatcactcggtgattgat 91  Q
    |||||| |||||| | |||| ||| |||||||||||||| || ||||||||| | |||||||||| | |||||||    
T  14470477 gctaaaggtacaattactctaatggtaaaaggtggtgtcgaatctattgttgttagttatcactcagagattgat 14470403  T

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Target: chr1; HSP #6
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 15 - 81
Target Start/End: Original strand, 47569342 - 47569408
Alignment:
Q  15 ctgctaaaagtacaactgctcttatgataaaaggtggtgtcaaacctattgttgctggttatcactc 81  Q
    |||||||| || || ||||| | |||||||||||| |||||||||||| || |||| ||||||||||    
T  47569342 ctgctaaatgtgcagctgctttgatgataaaaggtagtgtcaaacctaatgctgctagttatcactc 47569408  T

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Target: chr1; HSP #7
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 38 - 78
Target Start/End: Complemental strand, 24621614 - 24621574
Alignment:
Q  38 atgataaaaggtggtgtcaaacctattgttgctggttatca 78  Q
    |||||||||| |||||||||||||| ||||||| |||||||    
T  24621614 atgataaaagctggtgtcaaacctaatgttgcttgttatca 24621574  T

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Target: chr1; HSP #8
Raw Score: 28; E-Value: 0.0000008
Query Start/End: Original strand, 38 - 81
Target Start/End: Complemental strand, 6326578 - 6326535
Alignment:
Q  38 atgataaaaggtggtgtcaaacctattgttgctggttatcactc 81  Q
    ||||||||||| ||| ||||||||| ||||||| ||||||||||    
T  6326578 atgataaaaggcggtctcaaacctaatgttgctagttatcactc 6326535  T

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Target: chr1; HSP #9
Raw Score: 28; E-Value: 0.0000008
Query Start/End: Original strand, 39 - 78
Target Start/End: Original strand, 23787262 - 23787301
Alignment:
Q  39 tgataaaaggtggtgtcaaacctattgttgctggttatca 78  Q
    ||||||||| |||||||||||||| ||||||| |||||||    
T  23787262 tgataaaagctggtgtcaaacctaatgttgcttgttatca 23787301  T

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Target: chr2 (Bit Score: 53; Significance: 1e-21; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 53; E-Value: 1e-21
Query Start/End: Original strand, 42 - 138
Target Start/End: Original strand, 9066529 - 9066625
Alignment:
Q  42 taaaaggtggtgtcaaacctattgttgctggttatcactcggtgattgatgaaccatacaaaggagaaggacaaatcgataagattgcacaattggt 138  Q
    |||| ||||||||| ||||||||||||||| ||||||||||||||||||| | | || ||||| |||||||||| | ||||||||||||||| ||||    
T  9066529 taaacggtggtgtcgaacctattgttgctgtttatcactcggtgattgatcacctattcaaagtagaaggacaagttgataagattgcacaaatggt 9066625  T

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Target: chr2; HSP #2
Raw Score: 28; E-Value: 0.0000008
Query Start/End: Original strand, 38 - 81
Target Start/End: Original strand, 16375426 - 16375469
Alignment:
Q  38 atgataaaaggtggtgtcaaacctattgttgctggttatcactc 81  Q
    ||||||||||||||||||||||||| || | || ||||||||||    
T  16375426 atgataaaaggtggtgtcaaacctaatgcttctagttatcactc 16375469  T

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Target: chr3 (Bit Score: 32; Significance: 0.000000003; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 50 - 133
Target Start/End: Complemental strand, 47924734 - 47924651
Alignment:
Q  50 ggtgtcaaacctattgttgctggttatcactcggtgattgatgaaccatacaaaggagaaggacaaatcgataagattgcacaa 133  Q
    ||||||||||||| ||||||  |||||||||| ||||||||| ||| ||||| ||| || ||| || |  ||||||||||||||    
T  47924734 ggtgtcaaacctaatgttgccagttatcactcagtgattgatcaactatacagaggtgatggaaaagttaataagattgcacaa 47924651  T

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