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: SO5945A-LTR4-TNT-insertion-3 (Length: 308)

Name: SO5945A-LTR4-TNT-insertion-3
Description: SO5945A-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] SO5945A-LTR4-TNT-insertion-3
SO5945A-LTR4-TNT-insertion-3
[»] chr3 (4 HSPs)
chr3 (9-298)||(9816249-9816538)
chr3 (39-141)||(2680861-2680963)
chr3 (81-136)||(53355745-53355800)
chr3 (81-137)||(43552851-43552907)
[»] chr1 (2 HSPs)
chr1 (16-158)||(11753889-11754031)
chr1 (21-141)||(30645920-30646040)
[»] chr6 (1 HSPs)
chr6 (18-140)||(15566383-15566505)
[»] chr8 (2 HSPs)
chr8 (234-298)||(33369852-33369917)
chr8 (81-137)||(41948367-41948423)
[»] chr5 (1 HSPs)
chr5 (21-158)||(15063823-15063960)
[»] chr7 (1 HSPs)
chr7 (81-136)||(13829647-13829702)
[»] chr4 (1 HSPs)
chr4 (81-137)||(31357720-31357776)


Alignment Details
Target: chr3 (Bit Score: 266; Significance: 1e-148; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 266; E-Value: 1e-148
Query Start/End: Original strand, 9 - 298
Target Start/End: Complemental strand, 9816538 - 9816249
Alignment:
Q  9 acctttaagtaatcaagtccaactttctacataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttga 108  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9816538 acctttaagtaatcaagtccaactttctacataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttga 9816439  T
Q  109 aaatccatttcacatctatagctttcttatttggtggcaaattggtgagcgagctcccatctattannnnnnnnatagctcctaactcttcaatcataga 208  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||        ||||||||||||||||||||||||||    
T  9816438 aaatccatttcacatctatagctttcttatttggtggcaaattggtgagcgagctcccatctattattttttttatagctcctaactcttcaatcataga 9816339  T
Q  209 atttttctaagcttagtaagacatatgatcctaatgaataatggtattcttgaacaagctcattttttcttggaccgttgttaattatta 298  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9816338 atttttctaagcttagtaagacatatgatcctaatgaataatggtattcttgaacaagctcattttttcttggaccgttgttaattatta 9816249  T

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Target: chr3; HSP #2
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 39 - 141
Target Start/End: Original strand, 2680861 - 2680963
Alignment:
Q  39 ataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttgaaaatccatttcacatctatagctttcttat 138  Q
    ||||||||||| |||||||  |||| || | |||||||||| || ||||||||||| ||||||| ||||||| ||||||| |||||||||||||||||||    
T  2680861 ataaaacctctagcaactaatcttgtttgaagcttagatatctctccatttggtttcaatttcaacttgaaagtccattttacatctatagctttcttat 2680960  T
Q  139 ttg 141  Q
    |||    
T  2680961 ttg 2680963  T

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Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 81 - 136
Target Start/End: Original strand, 53355745 - 53355800
Alignment:
Q  81 tcaccatttggttttaatttcagcttgaaaatccatttcacatctatagctttctt 136  Q
    ||||||||||| || || |||| |||||||||||||||||||||||| | ||||||    
T  53355745 tcaccatttggcttcaacttcaacttgaaaatccatttcacatctattggtttctt 53355800  T

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Target: chr3; HSP #4
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 81 - 137
Target Start/End: Complemental strand, 43552907 - 43552851
Alignment:
Q  81 tcaccatttggttttaatttcagcttgaaaatccatttcacatctatagctttctta 137  Q
    ||||||||||| || | ||||| |||||||||||| ||||||||||| | |||||||    
T  43552907 tcaccatttggcttcagtttcaacttgaaaatccacttcacatctattggtttctta 43552851  T

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Target: chr1 (Bit Score: 67; Significance: 9e-30; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 67; E-Value: 9e-30
Query Start/End: Original strand, 16 - 158
Target Start/End: Original strand, 11753889 - 11754031
Alignment:
Q  16 agtaatcaagtccaactttctacataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttgaaaatcca 115  Q
    ||||||||||| |||||||||||||||||||||| ||||||| |||| |||||||||||||||| || ||||||||||| || ||||  |||||||   |    
T  11753889 agtaatcaagttcaactttctacataaaacctctagcaactaacctttctttatgcttagatatttctccatttggtttcaacttcaatttgaaaacaaa 11753988  T
Q  116 tttcacatctatagctttcttatttggtggcaaattggtgagc 158  Q
    ||| ||||||||| |||||||||||| ||| || ||| |||||    
T  11753989 ttttacatctataactttcttatttgctggaaatttgatgagc 11754031  T

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Target: chr1; HSP #2
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 21 - 141
Target Start/End: Complemental strand, 30646040 - 30645920
Alignment:
Q  21 tcaagtccaactttctacataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttgaaaatccatttca 120  Q
    |||| |||| |||| | |||||| ||||| || |||| |||||  |||||||||| ||| ||||||| ||| ||   |||||| || || | ||||||||    
T  30646040 tcaattccagctttatgcataaagcctcttgctactaaccttgtcttatgcttagctatctcaccatctggcttccgtttcagtttaaatacccatttca 30645941  T
Q  121 catctatagctttcttatttg 141  Q
    |||| |||||||| |||||||    
T  30645940 catcaatagcttttttatttg 30645920  T

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Target: chr6 (Bit Score: 47; Significance: 8e-18; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 47; E-Value: 8e-18
Query Start/End: Original strand, 18 - 140
Target Start/End: Original strand, 15566383 - 15566505
Alignment:
Q  18 taatcaagtccaactttctacataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttgaaaatccatt 117  Q
    |||||||||| |||||||| | |||| ||||| ||||||| |||||| |||||||||| ||| ||||||||  |||| | |||||| ||  ||| || ||    
T  15566383 taatcaagtctaactttctgcttaaagcctctagcaactaaccttgccttatgcttagctatctcaccattcagtttcattttcagtttagaaacccgtt 15566482  T
Q  118 tcacatctatagctttcttattt 140  Q
    ||||||| |||||||||||||||    
T  15566483 tcacatcaatagctttcttattt 15566505  T

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Target: chr8 (Bit Score: 34; Significance: 0.0000000004; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 234 - 298
Target Start/End: Original strand, 33369852 - 33369917
Alignment:
Q  234 tgatcctaatgaataatggtattcttgaacaagctca-ttttttcttggaccgttgttaattatta 298  Q
    ||||||||||||||||| || ||||||||||| |||| ||||||||| ||||  ||||||||||||    
T  33369852 tgatcctaatgaataatagtgttcttgaacaaactcatttttttcttagaccactgttaattatta 33369917  T

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Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 81 - 137
Target Start/End: Complemental strand, 41948423 - 41948367
Alignment:
Q  81 tcaccatttggttttaatttcagcttgaaaatccatttcacatctatagctttctta 137  Q
    ||||||||||| || | ||||| |||||||||||| ||||||||||| | |||||||    
T  41948423 tcaccatttggcttcagtttcaacttgaaaatccacttcacatctattggtttctta 41948367  T

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Target: chr5 (Bit Score: 34; Significance: 0.0000000004; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 21 - 158
Target Start/End: Original strand, 15063823 - 15063960
Alignment:
Q  21 tcaagtccaactttctacataaaacctctcgcaactatccttgctttatgcttagatatgtcaccatttggttttaatttcagcttgaaaatccatttca 120  Q
    ||||| |||||||||| |||||| || || || |||| ||||||||| || ||   ||  ||||||||||| || ||||||| |||||| ||||||||||    
T  15063823 tcaaggccaactttctccataaagccccttgctactagccttgctttgtgttttcctacttcaccatttggcttcaatttcaacttgaatatccatttca 15063922  T
Q  121 catctatagctttcttatttggtggcaaattggtgagc 158  Q
    |||| || || ||||| || | ||| || |||||||||    
T  15063923 catcaattgccttcttgttagctggtaacttggtgagc 15063960  T

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Target: chr7 (Bit Score: 32; Significance: 0.000000007; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 81 - 136
Target Start/End: Original strand, 13829647 - 13829702
Alignment:
Q  81 tcaccatttggttttaatttcagcttgaaaatccatttcacatctatagctttctt 136  Q
    ||||||||||| || | ||||| |||||||||||||||||||||||| | ||||||    
T  13829647 tcaccatttggcttcagtttcaacttgaaaatccatttcacatctattggtttctt 13829702  T

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Target: chr4 (Bit Score: 29; Significance: 0.0000004; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 81 - 137
Target Start/End: Complemental strand, 31357776 - 31357720
Alignment:
Q  81 tcaccatttggttttaatttcagcttgaaaatccatttcacatctatagctttctta 137  Q
    ||||||||||| || |||||||  ||||||||||| ||||||||||| | |||||||    
T  31357776 tcaccatttggcttcaatttcaatttgaaaatccacttcacatctattggtttctta 31357720  T

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