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: NF20496_low_6 (Length: 551)

Name: NF20496_low_6
Description: NF20496
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF20496_low_6
NF20496_low_6
[»] chr5 (6 HSPs)
chr5 (122-538)||(6578840-6579256)
chr5 (1-95)||(6579283-6579377)
chr5 (13-92)||(16404582-16404661)
chr5 (14-91)||(7380120-7380197)
chr5 (26-92)||(16397988-16398054)
chr5 (29-73)||(28117499-28117543)
[»] chr8 (1 HSPs)
chr8 (312-430)||(34241249-34241367)
[»] chr1 (2 HSPs)
chr1 (27-76)||(49355087-49355136)
chr1 (56-92)||(14305545-14305581)
[»] chr4 (2 HSPs)
chr4 (24-83)||(42292053-42292112)
chr4 (24-90)||(37040807-37040871)
[»] scaffold0018 (1 HSPs)
scaffold0018 (14-83)||(32131-32200)
[»] chr2 (1 HSPs)
chr2 (21-83)||(37477172-37477234)
[»] chr3 (1 HSPs)
chr3 (27-92)||(21138829-21138893)


Alignment Details
Target: chr5 (Bit Score: 401; Significance: 0; HSPs: 6)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 401; E-Value: 0
Query Start/End: Original strand, 122 - 538
Target Start/End: Complemental strand, 6579256 - 6578840
Alignment:
Q  122 taaaatcccacaacttcaactctgaatacctcatttgtttagtacatattttgctaattacttttgtttactgttgcaggttgtctttcagtttttgtct 221  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||    
T  6579256 taaaatcccacaacttcaactctgaatacctcatttgtttagtacatattttgctaactacttttgtttactgttgcaggttgtctttcagtttttgtct 6579157  T
Q  222 tctatcagtatcattcatctcatgtttgtgttagatatgttgtttccatccaactctttaatcatatacatactaatggttgagattctttgcagcatcg 321  Q
    ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6579156 tctttcagtatcattcatctcatgtttgtgttagatatgttgtttccatccaactctttaatcatatacatactaatggttgagattctttgcagcatcg 6579057  T
Q  322 cttttaaaagaaaaattgtcagtcttgggttcatctggtgtcctagcagatcatcagcttcaagctcaattgcaagaacatcatttgaaagggtgagttg 421  Q
    ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6579056 cttttaaaagaaaaattatcagtcttgggttcatctggtgtcctagcagatcatcagcttcaagctcaattgcaagaacatcatttgaaagggtgagttg 6578957  T
Q  422 aaatctgtaactgggtagatgaaaataggtaaccagtattttatggaaaactagtcgttagattatattttgtttatggaaaatatgtaactcattactt 521  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||    
T  6578956 aaatctgtaactgggtagatgaaaataggtaaccagtattttatggaaaactagtcgttagattctattttgtttatggaaaatatgtaactcattactt 6578857  T
Q  522 ttgactcttttctccct 538  Q
    |||||||||||||||||    
T  6578856 ttgactcttttctccct 6578840  T

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

Target: chr5; HSP #2
Raw Score: 91; E-Value: 8e-44
Query Start/End: Original strand, 1 - 95
Target Start/End: Complemental strand, 6579377 - 6579283
Alignment:
Q  1 ttcttgatttaaatctatgcattcctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatattcacgg 95  Q
    |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6579377 ttcttgatttaaatctatgcattcctataaataggggttagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatattcacgg 6579283  T

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

Target: chr5; HSP #3
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 13 - 92
Target Start/End: Complemental strand, 16404661 - 16404582
Alignment:
Q  13 atctatgcattcctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatattca 92  Q
    ||||||| || || ||||||||||||||||||||||| ||||| ||||||  |||||  ||| || ||||||||||||||    
T  16404661 atctatgtatccccataaatagggattagtatttagtattttgcatcaagctactattcagtcagcatcaataatattca 16404582  T

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

Target: chr5; HSP #4
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 14 - 91
Target Start/End: Original strand, 7380120 - 7380197
Alignment:
Q  14 tctatgcattcctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatattc 91  Q
    ||||||||| ||||||||||||||||||| |||||| ||| |||||| || | ||| || | | ||||||||||||||    
T  7380120 tctatgcatccctataaatagggattagtgtttagtctttggtatcaggttagtattaactcattatcaataatattc 7380197  T

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

Target: chr5; HSP #5
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 26 - 92
Target Start/End: Complemental strand, 16398054 - 16397988
Alignment:
Q  26 tataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatattca 92  Q
    |||||||||||||||||||||||| ||| | ||||||  |||||  | |||||||||| ||||||||    
T  16398054 tataaatagggattagtatttagtctttgggatcaagctactattcaattagtatcaacaatattca 16397988  T

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

Target: chr5; HSP #6
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 29 - 73
Target Start/End: Original strand, 28117499 - 28117543
Alignment:
Q  29 aaatagggattagtatttagtgttttgtatcaagtcactatcaag 73  Q
    |||||| ||||||| |||||| ||||||||||||||| |||||||    
T  28117499 aaatagagattagtgtttagtcttttgtatcaagtcaatatcaag 28117543  T

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

Target: chr8 (Bit Score: 43; Significance: 0.000000000000003; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 43; E-Value: 0.000000000000003
Query Start/End: Original strand, 312 - 430
Target Start/End: Original strand, 34241249 - 34241367
Alignment:
Q  312 tgcagcatcgcttttaaaagaaaaattgtcagtcttgggttcatctggtgtcctagcagatcatcagcttcaagctcaattgcaagaacatcatttgaaa 411  Q
    |||||||||  || |||| |||||| | |||| |||||| |||||||| ||  ||||||| |||||||||||||||||| | ||||| |||||| | |||    
T  34241249 tgcagcatctgttataaaggaaaaactttcagccttgggatcatctggggtgttagcagaccatcagcttcaagctcaactccaagagcatcatctaaaa 34241348  T
Q  412 gggtgagttgaaatctgta 430  Q
    |||||||||  ||||||||    
T  34241349 gggtgagttagaatctgta 34241367  T

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

Target: chr1 (Bit Score: 38; Significance: 0.000000000003; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 27 - 76
Target Start/End: Original strand, 49355087 - 49355136
Alignment:
Q  27 ataaatagggattagtatttagtgttttgtatcaagtcactatcaagtta 76  Q
    ||||||||||||||||||||||| |||||||| |||||| ||||||||||    
T  49355087 ataaatagggattagtatttagtcttttgtattaagtcaatatcaagtta 49355136  T

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

Target: chr1; HSP #2
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 56 - 92
Target Start/End: Original strand, 14305545 - 14305581
Alignment:
Q  56 tatcaagtcactatcaagttagtatcaataatattca 92  Q
    |||||||||| |||||||||| |||||||||||||||    
T  14305545 tatcaagtcaatatcaagttattatcaataatattca 14305581  T

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

Target: chr4 (Bit Score: 36; Significance: 0.00000000005; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 24 - 83
Target Start/End: Complemental strand, 42292112 - 42292053
Alignment:
Q  24 cctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaa 83  Q
    ||||||||||||| ||||| |||||| ||||||||| ||||| ||| |||||||||||||    
T  42292112 cctataaataggggttagtttttagtcttttgtatctagtcattattaagttagtatcaa 42292053  T

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

Target: chr4; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 24 - 90
Target Start/End: Complemental strand, 37040871 - 37040807
Alignment:
Q  24 cctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatatt 90  Q
    ||||||||||| ||||||| |||||| ||||||||||||| | ||||||  || |||||||||||||    
T  37040871 cctataaatagagattagtgtttagtcttttgtatcaagttagtatcaa--tattatcaataatatt 37040807  T

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

Target: scaffold0018 (Bit Score: 34; Significance: 0.0000000008; HSPs: 1)
Name: scaffold0018
Description:

Target: scaffold0018; HSP #1
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 14 - 83
Target Start/End: Original strand, 32131 - 32200
Alignment:
Q  14 tctatgcattcctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaa 83  Q
    |||||| || |||||||||||||||||||||| ||| |||||||||||   |||||||||| | ||||||    
T  32131 tctatgtatccctataaatagggattagtattcagttttttgtatcaacctactatcaagtcattatcaa 32200  T

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

Target: chr2 (Bit Score: 31; Significance: 0.00000005; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 21 - 83
Target Start/End: Complemental strand, 37477234 - 37477172
Alignment:
Q  21 attcctataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaa 83  Q
    ||||||||||||||| ||  ||||||||| |||||||| |||  |||||| ||||||||||||    
T  37477234 attcctataaataggaatatgtatttagtcttttgtattaagctactatccagttagtatcaa 37477172  T

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

Target: chr3 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 27 - 92
Target Start/End: Complemental strand, 21138893 - 21138829
Alignment:
Q  27 ataaatagggattagtatttagtgttttgtatcaagtcactatcaagttagtatcaataatattca 92  Q
    |||||||||||||||| || ||| ||||||||||||||  |||||||||| || ||||| ||||||    
T  21138893 ataaatagggattagt-ttcagtcttttgtatcaagtctgtatcaagttattaacaatagtattca 21138829  T

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



© Oklahoma State University