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: F9186J-LTR4-TNT-insertion-8 (Length: 153)

Name: F9186J-LTR4-TNT-insertion-8
Description: F9186J-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9186J-LTR4-TNT-insertion-8
F9186J-LTR4-TNT-insertion-8
[»] scaffold0246 (1 HSPs)
scaffold0246 (114-144)||(17343-17373)
[»] chr4 (3 HSPs)
chr4 (114-144)||(512337-512367)
chr4 (114-144)||(18085570-18085600)
chr4 (114-144)||(40479404-40479434)
[»] chr1 (1 HSPs)
chr1 (115-144)||(13485761-13485790)


Alignment Details
Target: scaffold0246 (Bit Score: 31; Significance: 0.00000001; HSPs: 1)
Name: scaffold0246
Description:

Target: scaffold0246; HSP #1
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 114 - 144
Target Start/End: Complemental strand, 17373 - 17343
Alignment:
114 actcatatatcgttttccgtcatatcaattg 144  Q
    |||||||||||||||||||||||||||||||    
17373 actcatatatcgttttccgtcatatcaattg 17343  T

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Target: chr4 (Bit Score: 31; Significance: 0.00000001; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 114 - 144
Target Start/End: Complemental strand, 512367 - 512337
Alignment:
114 actcatatatcgttttccgtcatatcaattg 144  Q
    |||||||||||||||||||||||||||||||    
512367 actcatatatcgttttccgtcatatcaattg 512337  T

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Target: chr4; HSP #2
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 114 - 144
Target Start/End: Original strand, 18085570 - 18085600
Alignment:
114 actcatatatcgttttccgtcatatcaattg 144  Q
    |||||||||||||||||||||||||||||||    
18085570 actcatatatcgttttccgtcatatcaattg 18085600  T

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Target: chr4; HSP #3
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 114 - 144
Target Start/End: Complemental strand, 40479434 - 40479404
Alignment:
114 actcatatatcgttttccgtcatatcaattg 144  Q
    |||||||||||||||||||||||||||||||    
40479434 actcatatatcgttttccgtcatatcaattg 40479404  T

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Target: chr1 (Bit Score: 30; Significance: 0.00000005; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 115 - 144
Target Start/End: Original strand, 13485761 - 13485790
Alignment:
115 ctcatatatcgttttccgtcatatcaattg 144  Q
    ||||||||||||||||||||||||||||||    
13485761 ctcatatatcgttttccgtcatatcaattg 13485790  T

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



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