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: NF15449_low_62 (Length: 240)

Name: NF15449_low_62
Description: NF15449
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF15449_low_62
NF15449_low_62
[»] chr3 (5 HSPs)
chr3 (1-86)||(27372932-27373017)
chr3 (1-57)||(27346251-27346308)
chr3 (156-222)||(27373193-27373259)
chr3 (1-43)||(18713786-18713828)
chr3 (105-133)||(18712921-18712949)
[»] scaffold0836 (4 HSPs)
scaffold0836 (1-82)||(784-865)
scaffold0836 (1-90)||(4294-4387)
scaffold0836 (156-222)||(4166-4232)
scaffold0836 (156-222)||(542-608)
[»] scaffold0043 (1 HSPs)
scaffold0043 (1-57)||(70485-70541)
[»] scaffold1026 (2 HSPs)
scaffold1026 (156-222)||(859-925)
scaffold1026 (105-133)||(806-834)
[»] scaffold1236 (1 HSPs)
scaffold1236 (1-58)||(2216-2272)
[»] chr4 (1 HSPs)
chr4 (162-194)||(33653085-33653117)


Alignment Details
Target: chr3 (Bit Score: 74; Significance: 4e-34; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 74; E-Value: 4e-34
Query Start/End: Original strand, 1 - 86
Target Start/End: Original strand, 27372932 - 27373017
Alignment:
Q  1 ttattccaataaggtacccacatgatctttccatttatttctattaatgtttgtgaaagtagtctctccatcacaaaataatgaat 86  Q
    ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||| |||| |||||||||||||    
T  27372932 ttattccaataaggtacccacctgatctttccatttatttctattaatgtttgtgaaagtagtctcttcatcccaaaataatgaat 27373017  T

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

Target: chr3; HSP #2
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 1 - 57
Target Start/End: Original strand, 27346251 - 27346308
Alignment:
Q  1 ttattccaataaggtaccc-acatgatctttccatttatttctattaatgtttgtgaa 57  Q
    ||||||||||||||||||| || |||||||||||||||||||||||||||||||||||    
T  27346251 ttattccaataaggtaccccacctgatctttccatttatttctattaatgtttgtgaa 27346308  T

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

Target: chr3; HSP #3
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 156 - 222
Target Start/End: Original strand, 27373193 - 27373259
Alignment:
Q  156 gaaactatttatgaaatccttaatatgtgccataagagcccatgatatcacgaccctatgtttaatc 222  Q
    ||||||||||||||||||||||||||||||||||||||  |||| ||||| || ||||| |||||||    
T  27373193 gaaactatttatgaaatccttaatatgtgccataagaggacatgttatcatgatcctatctttaatc 27373259  T

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

Target: chr3; HSP #4
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 1 - 43
Target Start/End: Complemental strand, 18713828 - 18713786
Alignment:
Q  1 ttattccaataaggtacccacatgatctttccatttatttcta 43  Q
    |||||||||||||| |||||| |||||||||||||||||||||    
T  18713828 ttattccaataagggacccacctgatctttccatttatttcta 18713786  T

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

Target: chr3; HSP #5
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 105 - 133
Target Start/End: Complemental strand, 18712949 - 18712921
Alignment:
Q  105 tcattaaatactaactatttatgaaatcc 133  Q
    |||||||||||||||||||||||||||||    
T  18712949 tcattaaatactaactatttatgaaatcc 18712921  T

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

Target: scaffold0836 (Bit Score: 62; Significance: 6e-27; HSPs: 4)
Name: scaffold0836
Description:

Target: scaffold0836; HSP #1
Raw Score: 62; E-Value: 6e-27
Query Start/End: Original strand, 1 - 82
Target Start/End: Complemental strand, 865 - 784
Alignment:
Q  1 ttattccaataaggtacccacatgatctttccatttatttctattaatgtttgtgaaagtagtctctccatcacaaaataat 82  Q
    ||||||||||||||||| ||| ||||||||||||||||||||||||||||||||||||||||||||| ||||  ||||||||    
T  865 ttattccaataaggtacgcacctgatctttccatttatttctattaatgtttgtgaaagtagtctcttcatcctaaaataat 784  T

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

Target: scaffold0836; HSP #2
Raw Score: 57; E-Value: 6e-24
Query Start/End: Original strand, 1 - 90
Target Start/End: Complemental strand, 4387 - 4294
Alignment:
Q  1 ttattccaataaggtacccacatgatctttccatttatttctat----taatgtttgtgaaagtagtctctccatcacaaaataatgaatcatc 90  Q
    ||||||||||||||||||||| ||||||||||||||||||||||    |||||||||| |||||| |||||||||| |||||||| ||||||||    
T  4387 ttattccaataaggtacccacctgatctttccatttatttctattaattaatgtttgttaaagtactctctccatcgcaaaataaggaatcatc 4294  T

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

Target: scaffold0836; HSP #3
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 156 - 222
Target Start/End: Complemental strand, 4232 - 4166
Alignment:
Q  156 gaaactatttatgaaatccttaatatgtgccataagagcccatgatatcacgaccctatgtttaatc 222  Q
    ||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||| |||||||    
T  4232 gaaactattgatgaaatccttaatatgtgccataagagcccatgatatcacgactctatctttaatc 4166  T

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

Target: scaffold0836; HSP #4
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 156 - 222
Target Start/End: Complemental strand, 608 - 542
Alignment:
Q  156 gaaactatttatgaaatccttaatatgtgccataagagcccatgatatcacgaccctatgtttaatc 222  Q
    ||||||||||||||||||||||||||||||||||||||| ||||  |||| || ||||| |||||||    
T  608 gaaactatttatgaaatccttaatatgtgccataagagcacatgtgatcatgatcctatctttaatc 542  T

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

Target: scaffold0043 (Bit Score: 53; Significance: 2e-21; HSPs: 1)
Name: scaffold0043
Description:

Target: scaffold0043; HSP #1
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 1 - 57
Target Start/End: Complemental strand, 70541 - 70485
Alignment:
Q  1 ttattccaataaggtacccacatgatctttccatttatttctattaatgtttgtgaa 57  Q
    ||||||||||||||||||||| |||||||||||||||||||||||||||||||||||    
T  70541 ttattccaataaggtacccacctgatctttccatttatttctattaatgtttgtgaa 70485  T

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

Target: scaffold1026 (Bit Score: 47; Significance: 6e-18; HSPs: 2)
Name: scaffold1026
Description:

Target: scaffold1026; HSP #1
Raw Score: 47; E-Value: 6e-18
Query Start/End: Original strand, 156 - 222
Target Start/End: Original strand, 859 - 925
Alignment:
Q  156 gaaactatttatgaaatccttaatatgtgccataagagcccatgatatcacgaccctatgtttaatc 222  Q
    ||||||||||||||||||||||||||||||||||||||| |||  ||||| |||||||| |||||||    
T  859 gaaactatttatgaaatccttaatatgtgccataagagcacattttatcatgaccctatctttaatc 925  T

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

Target: scaffold1026; HSP #2
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 105 - 133
Target Start/End: Original strand, 806 - 834
Alignment:
Q  105 tcattaaatactaactatttatgaaatcc 133  Q
    |||||||||||||||||||||||||||||    
T  806 tcattaaatactaactatttatgaaatcc 834  T

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

Target: scaffold1236 (Bit Score: 38; Significance: 0.000000000001; HSPs: 1)
Name: scaffold1236
Description:

Target: scaffold1236; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 1 - 58
Target Start/End: Original strand, 2216 - 2272
Alignment:
Q  1 ttattccaataaggtacccacatgatctttccatttatttctattaatgtttgtgaaa 58  Q
    |||||||| |||||||||||| ||||||||||||||| ||| ||||||||||||||||    
T  2216 ttattccattaaggtacccacctgatctttccattta-ttccattaatgtttgtgaaa 2272  T

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

Target: chr4 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 162 - 194
Target Start/End: Complemental strand, 33653117 - 33653085
Alignment:
Q  162 atttatgaaatccttaatatgtgccataagagc 194  Q
    ||||||||||||||||||||||||| |||||||    
T  33653117 atttatgaaatccttaatatgtgccctaagagc 33653085  T

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



© Oklahoma State University