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: F9100J-LTR4-TNT-insertion-2 (Length: 147)

Name: F9100J-LTR4-TNT-insertion-2
Description: F9100J-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9100J-LTR4-TNT-insertion-2
F9100J-LTR4-TNT-insertion-2
[»] chr1 (3 HSPs)
chr1 (9-138)||(26455119-26455248)
chr1 (12-136)||(26446939-26447064)
chr1 (9-136)||(26447489-26447618)
[»] chr8 (1 HSPs)
chr8 (9-136)||(29674014-29674141)
[»] chr2 (1 HSPs)
chr2 (10-119)||(11495259-11495368)


Alignment Details
Target: chr1 (Bit Score: 130; Significance: 1e-67; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 130; E-Value: 1e-67
Query Start/End: Original strand, 9 - 138
Target Start/End: Original strand, 26455119 - 26455248
Alignment:
9 ggctttgagaaatcacactgatttgaaagttggaacgtattggggagagaaaggtgttgacaactgggatggagctatatggaaagaacaaatggagaaa 108  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
26455119 ggctttgagaaatcacactgatttgaaagttggaacgtattggggagagaaaggtgttgacaactgggatggagctatatggaaagaacaaatggagaaa 26455218  T
109 catgaggtgagagtctttgcatttcaattg 138  Q
    ||||||||||||||||||||||||||||||    
26455219 catgaggtgagagtctttgcatttcaattg 26455248  T

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Target: chr1; HSP #2
Raw Score: 82; E-Value: 4e-39
Query Start/End: Original strand, 12 - 136
Target Start/End: Original strand, 26446939 - 26447064
Alignment:
12 tttgagaaatcacactgatttgaaagttggaacgtattggggagagaaaggtgtt-gacaactgggatggagctatatggaaagaacaaatggagaaaca 110  Q
    ||||||||||||||||||||||||||||||||||||||||||||| |  | |||| |||  |||||||||||||||||||||| || ||||||||||||     
26446939 tttgagaaatcacactgatttgaaagttggaacgtattggggagacatggttgttagacttctgggatggagctatatggaaaaaaaaaatggagaaacg 26447038  T
111 tgaggtgagagtctttgcatttcaat 136  Q
    ||||||||||||||||||||||||||    
26447039 tgaggtgagagtctttgcatttcaat 26447064  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr1; HSP #3
Raw Score: 79; E-Value: 3e-37
Query Start/End: Original strand, 9 - 136
Target Start/End: Complemental strand, 26447618 - 26447489
Alignment:
9 ggctttgagaaatcacactgatttgaaagttggaacgtattggggagagaaaggtgttgacaactgggatggagctatatggaaagaacaaatggagaaa 108  Q
    ||||||||||||||||||||||||||||||||||| ||||||| |||  |  |||||||||  || |||||||||||||||||||||| |||||||||||    
26447618 ggctttgagaaatcacactgatttgaaagttggaaggtattggagagtcatgggtgttgacttctaggatggagctatatggaaagaagaaatggagaaa 26447519  T
109 c--atgaggtgagagtctttgcatttcaat 136  Q
    |  |||||||||||||||||||||||||||    
26447518 catatgaggtgagagtctttgcatttcaat 26447489  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr8 (Bit Score: 100; Significance: 8e-50; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 100; E-Value: 8e-50
Query Start/End: Original strand, 9 - 136
Target Start/End: Original strand, 29674014 - 29674141
Alignment:
9 ggctttgagaaatcacactgatttgaaagttggaacgtattggggagagaaaggtgttgacaactgggatggagctatatggaaagaacaaatggagaaa 108  Q
    ||||||||||||||||||||||||||||||||||| |||||||||||| |  |||||||||  |||||||||||||||||||||||||||||||||||||    
29674014 ggctttgagaaatcacactgatttgaaagttggaatgtattggggagacatgggtgttgacttctgggatggagctatatggaaagaacaaatggagaaa 29674113  T
109 catgaggtgagagtctttgcatttcaat 136  Q
    |||||||||||||||||| |||||||||    
29674114 catgaggtgagagtctttacatttcaat 29674141  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2 (Bit Score: 70; Significance: 6e-32; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 70; E-Value: 6e-32
Query Start/End: Original strand, 10 - 119
Target Start/End: Complemental strand, 11495368 - 11495259
Alignment:
10 gctttgagaaatcacactgatttgaaagttggaacgtattggggagagaaaggtgttgacaactgggatggagctatatggaaagaacaaatggagaaac 109  Q
    ||||||||||||||||||||||||||| |||||| |||||||||||| |  ||||||||| |||||||||||| | ||||||||| | ||||||||||||    
11495368 gctttgagaaatcacactgatttgaaaattggaatgtattggggagatatgggtgttgactactgggatggagatgtatggaaaggagaaatggagaaac 11495269  T
110 atgaggtgag 119  Q
    ||||||||||    
11495268 atgaggtgag 11495259  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]



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