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: NF5616_low_16 (Length: 373)

Name: NF5616_low_16
Description: NF5616
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5616_low_16
NF5616_low_16
[»] chr2 (4 HSPs)
chr2 (104-231)||(40727790-40727917)
chr2 (104-231)||(5278255-5278372)
chr2 (271-356)||(5278131-5278217)
chr2 (271-356)||(40727666-40727752)
[»] chr3 (2 HSPs)
chr3 (102-231)||(53870484-53870603)
chr3 (271-356)||(53870356-53870442)
[»] chr4 (3 HSPs)
chr4 (302-356)||(624729-624783)
chr4 (104-156)||(624425-624477)
chr4 (202-231)||(624642-624671)
[»] chr7 (1 HSPs)
chr7 (15-54)||(765462-765501)
[»] chr1 (1 HSPs)
chr1 (134-228)||(51976109-51976204)


Alignment Details
Target: chr2 (Bit Score: 108; Significance: 4e-54; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 108; E-Value: 4e-54
Query Start/End: Original strand, 104 - 231
Target Start/End: Complemental strand, 40727917 - 40727790
Alignment:
Q  104 ggtggcatttaacctggaacaatgaaaatttttcccaccatagaaaagtgacttttttcaaggcacgtggcagttgctataggttgtgaaaacaattcta 203  Q
    |||||||||||| |||| ||||||||| ||||||||||||||||||||||||||||||| ||||||||||||||||||| ||||||||||||||||||||    
T  40727917 ggtggcatttaatctgggacaatgaaattttttcccaccatagaaaagtgacttttttccaggcacgtggcagttgctacaggttgtgaaaacaattcta 40727818  T
Q  204 tttattttaaagcaatttgaaaacaatt 231  Q
    ||||||||||||||||||||||||||||    
T  40727817 tttattttaaagcaatttgaaaacaatt 40727790  T

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

Target: chr2; HSP #2
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 104 - 231
Target Start/End: Complemental strand, 5278372 - 5278255
Alignment:
Q  104 ggtggcatttaacctggaacaatgaaaatttttcccaccatagaaaagtgacttttttcaaggcacgtggcagttgctataggttgtgaaaacaattcta 203  Q
    ||||||||||||||||| ||||||||| |||||||||||||| |||||||||||||||| ||||||||||||          ||||||||||||||||||    
T  5278372 ggtggcatttaacctgggacaatgaaattttttcccaccataaaaaagtgacttttttccaggcacgtggca----------gttgtgaaaacaattcta 5278283  T
Q  204 tttattttaaagcaatttgaaaacaatt 231  Q
    ||||||||||||||||||||||||||||    
T  5278282 tttattttaaagcaatttgaaaacaatt 5278255  T

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

Target: chr2; HSP #3
Raw Score: 75; E-Value: 2e-34
Query Start/End: Original strand, 271 - 356
Target Start/End: Complemental strand, 5278217 - 5278131
Alignment:
Q  271 aactatctgtcagtatcctctatcacc-ccaccgtccactagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 356  Q
    ||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||    
T  5278217 aactatctgtcagtatcctctatcacctccaccgtccaccagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 5278131  T

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

Target: chr2; HSP #4
Raw Score: 71; E-Value: 4e-32
Query Start/End: Original strand, 271 - 356
Target Start/End: Complemental strand, 40727752 - 40727666
Alignment:
Q  271 aactatctgtcagtatcctctatcacccc-accgtccactagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 356  Q
    |||||||||||| |||||||||||||||| ||||||||| |||||||||||||||||||||||||||||||||||||||||||||||    
T  40727752 aactatctgtcactatcctctatcacccccaccgtccaccagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 40727666  T

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

Target: chr3 (Bit Score: 79; Significance: 7e-37; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 79; E-Value: 7e-37
Query Start/End: Original strand, 102 - 231
Target Start/End: Complemental strand, 53870603 - 53870484
Alignment:
Q  102 atggtggcatttaacctggaacaatgaaaatttttcccaccatagaaaagtgacttttttcaaggcacgtggcagttgctataggttgtgaaaacaattc 201  Q
    ||||||||||||||||||| ||||||||| ||||||||||||||||||||||||||||||| |||||||||||          ||||||||||||||||     
T  53870603 atggtggcatttaacctgggacaatgaaattttttcccaccatagaaaagtgacttttttccaggcacgtggc----------ggttgtgaaaacaatta 53870514  T
Q  202 tatttattttaaagcaatttgaaaacaatt 231  Q
    ||||||||||||||||||||||||||||||    
T  53870513 tatttattttaaagcaatttgaaaacaatt 53870484  T

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

Target: chr3; HSP #2
Raw Score: 75; E-Value: 2e-34
Query Start/End: Original strand, 271 - 356
Target Start/End: Complemental strand, 53870442 - 53870356
Alignment:
Q  271 aactatctgtcagtatcctctatcacc-ccaccgtccactagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 356  Q
    ||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||    
T  53870442 aactatctgtcagtatcctctatcacctccaccgtccaccagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 53870356  T

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

Target: chr4 (Bit Score: 51; Significance: 4e-20; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 51; E-Value: 4e-20
Query Start/End: Original strand, 302 - 356
Target Start/End: Original strand, 624729 - 624783
Alignment:
Q  302 cgtccactagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 356  Q
    ||||||| |||||||||||||||||||||||||||||||||||||||||||||||    
T  624729 cgtccaccagcttctcacaatagaattttctttcatttgctcttgcaaaattatt 624783  T

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

Target: chr4; HSP #2
Raw Score: 37; E-Value: 0.000000000009
Query Start/End: Original strand, 104 - 156
Target Start/End: Original strand, 624425 - 624477
Alignment:
Q  104 ggtggcatttaacctggaacaatgaaaatttttcccaccatagaaaagtgact 156  Q
    ||||||||||||  ||| ||||||||| |||||||||||||||||||||||||    
T  624425 ggtggcatttaaaatgggacaatgaaattttttcccaccatagaaaagtgact 624477  T

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

Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 202 - 231
Target Start/End: Original strand, 624642 - 624671
Alignment:
Q  202 tatttattttaaagcaatttgaaaacaatt 231  Q
    ||||||||||||||||||||||||||||||    
T  624642 tatttattttaaagcaatttgaaaacaatt 624671  T

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

Target: chr7 (Bit Score: 36; Significance: 0.00000000003; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 15 - 54
Target Start/End: Complemental strand, 765501 - 765462
Alignment:
Q  15 aacaaaattaaattcgtccccacattgtttttacctttat 54  Q
    |||||||||||||||||||||||||||||||| |||||||    
T  765501 aacaaaattaaattcgtccccacattgtttttccctttat 765462  T

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

Target: chr1 (Bit Score: 36; Significance: 0.00000000003; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 134 - 228
Target Start/End: Complemental strand, 51976204 - 51976109
Alignment:
Q  134 tttcccaccatagaaaagtgac-ttttttcaaggcacgtggcagttgctataggttgtgaaaacaattctatttattttaaagcaatttgaaaaca 228  Q
    ||||||||||||| |||||| | ||||||| ||||| ||||||||||||  |  |||||||||||||| | |||||||||||| |||  |||||||    
T  51976204 tttcccaccataggaaagtgccattttttccaggcaggtggcagttgctgcaatttgtgaaaacaattgtttttattttaaagtaataagaaaaca 51976109  T

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



© Oklahoma State University