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: SO6003A-LTR4-TNT-insertion-5 (Length: 336)

Name: SO6003A-LTR4-TNT-insertion-5
Description: SO6003A-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] SO6003A-LTR4-TNT-insertion-5
SO6003A-LTR4-TNT-insertion-5
[»] chr4 (4 HSPs)
chr4 (120-204)||(20204499-20204583)
chr4 (245-326)||(20204624-20204705)
chr4 (8-55)||(20204387-20204434)
chr4 (120-197)||(20199640-20199717)
[»] chr5 (1 HSPs)
chr5 (282-323)||(15086730-15086770)


Alignment Details
Target: chr4 (Bit Score: 85; Significance: 2e-40; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 85; E-Value: 2e-40
Query Start/End: Original strand, 120 - 204
Target Start/End: Original strand, 20204499 - 20204583
Alignment:
Q  120 aggtgttgaggttaaggttggacaatctgtcaaagttgatcccaatgatctatgtgaaggatacattcacatttctcaggttaga 204  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  20204499 aggtgttgaggttaaggttggacaatctgtcaaagttgatcccaatgatctatgtgaaggatacattcacatttctcaggttaga 20204583  T

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Target: chr4; HSP #2
Raw Score: 82; E-Value: 1e-38
Query Start/End: Original strand, 245 - 326
Target Start/End: Original strand, 20204624 - 20204705
Alignment:
Q  245 gaatctaatctgtagcactgagacttctgattgaagctgtgtcctgtgtccgacaccatacacatgtgattacgttcaatta 326  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  20204624 gaatctaatctgtagcactgagacttctgattgaagctgtgtcctgtgtccgacaccatacacatgtgattacgttcaatta 20204705  T

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Target: chr4; HSP #3
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 8 - 55
Target Start/End: Original strand, 20204387 - 20204434
Alignment:
Q  8 atcctctcctctctatgccattttttcttcttcatttcgttgcgatag 55  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||    
T  20204387 atcctctcctctctatgccattttttcttcttcatttcgttgcgatag 20204434  T

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Target: chr4; HSP #4
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 120 - 197
Target Start/End: Original strand, 20199640 - 20199717
Alignment:
Q  120 aggtgttgaggttaaggttggacaatctgtcaaagttgatcccaatgatctatgtgaaggatacattcacatttctca 197  Q
    ||||||||||||||||| ||||||||| || ||||||||||| ||||||| ||||   ||||||||||||||||||||    
T  20199640 aggtgttgaggttaaggctggacaatcggttaaagttgatccaaatgatcaatgtacgggatacattcacatttctca 20199717  T

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Target: chr5 (Bit Score: 30; Significance: 0.0000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 282 - 323
Target Start/End: Complemental strand, 15086770 - 15086730
Alignment:
Q  282 tgtgtcctgtgtccgacaccatacacatgtgattacgttcaa 323  Q
    ||||||| ||||||||||||| ||||||||||||||||||||    
T  15086770 tgtgtccggtgtccgacacca-acacatgtgattacgttcaa 15086730  T

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