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: Solexa-NF5889-10 (Length: 158)

Name: Solexa-NF5889-10
Description: NF5889
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5889-10
Solexa-NF5889-10
[»] chr3 (2 HSPs)
chr3 (3-46)||(5151740-5151783)
chr3 (113-156)||(5151584-5151627)
[»] chr2 (2 HSPs)
chr2 (6-46)||(25891228-25891268)
chr2 (6-46)||(16285672-16285712)
[»] chr5 (1 HSPs)
chr5 (3-46)||(14806082-14806125)
[»] scaffold0349 (1 HSPs)
scaffold0349 (4-46)||(1486-1528)
[»] chr7 (3 HSPs)
chr7 (4-46)||(28392018-28392060)
chr7 (6-46)||(17212561-17212601)
chr7 (3-46)||(34143873-34143916)
[»] chr6 (3 HSPs)
chr6 (4-46)||(27741319-27741361)
chr6 (4-46)||(27750500-27750542)
chr6 (6-46)||(21876019-21876059)
[»] scaffold0021 (1 HSPs)
scaffold0021 (6-46)||(163790-163830)
[»] chr8 (2 HSPs)
chr8 (6-46)||(29863749-29863789)
chr8 (6-46)||(33273161-33273201)
[»] chr1 (1 HSPs)
chr1 (5-46)||(29702135-29702176)
[»] scaffold0378 (4 HSPs)
scaffold0378 (6-46)||(4000-4040)
scaffold0378 (6-46)||(16480-16520)
scaffold0378 (90-150)||(3826-3890)
scaffold0378 (90-150)||(16306-16370)


Alignment Details
Target: chr3 (Bit Score: 44; Significance: 2e-16; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 44; E-Value: 2e-16
Query Start/End: Original strand, 3 - 46
Target Start/End: Complemental strand, 5151783 - 5151740
Alignment:
Q  3 agaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    ||||||||||||||||||||||||||||||||||||||||||||    
T  5151783 agaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 5151740  T

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

Target: chr3; HSP #2
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 113 - 156
Target Start/End: Complemental strand, 5151627 - 5151584
Alignment:
Q  113 atctcttttcattttagcaatatcacacacttcacaattattat 156  Q
    ||||||||||||||||||||||||||||| | || |||||||||    
T  5151627 atctcttttcattttagcaatatcacacattacataattattat 5151584  T

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

Target: chr2 (Bit Score: 37; Significance: 0.000000000003; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 37; E-Value: 0.000000000003
Query Start/End: Original strand, 6 - 46
Target Start/End: Complemental strand, 25891268 - 25891228
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||| ||||||||||||||||||||||||||||    
T  25891268 ggtgaaaagaaataaattgtatagatcaaggaagtgatcta 25891228  T

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

Target: chr2; HSP #2
Raw Score: 33; E-Value: 0.0000000008
Query Start/End: Original strand, 6 - 46
Target Start/End: Original strand, 16285672 - 16285712
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||| ||||||||||||||| ||||||||||    
T  16285672 ggtgaaaagaaagatattgtatagatcaagtaagtgatcta 16285712  T

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

Target: chr5 (Bit Score: 36; Significance: 0.00000000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 3 - 46
Target Start/End: Original strand, 14806082 - 14806125
Alignment:
Q  3 agaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    ||||||||||||||||| ||||||||||||||| ||||||||||    
T  14806082 agaggtgaaaagaaagatattgtatagatcaagtaagtgatcta 14806125  T

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

Target: scaffold0349 (Bit Score: 35; Significance: 0.00000000005; HSPs: 1)
Name: scaffold0349
Description:

Target: scaffold0349; HSP #1
Raw Score: 35; E-Value: 0.00000000005
Query Start/End: Original strand, 4 - 46
Target Start/End: Complemental strand, 1528 - 1486
Alignment:
Q  4 gaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||||| ||||||||||||||| ||||||||||    
T  1528 gaggtgaaaagaaagatattgtatagatcaagtaagtgatcta 1486  T

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

Target: chr7 (Bit Score: 35; Significance: 0.00000000005; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 35; E-Value: 0.00000000005
Query Start/End: Original strand, 4 - 46
Target Start/End: Original strand, 28392018 - 28392060
Alignment:
Q  4 gaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||||| ||||||||||||||| ||||||||||    
T  28392018 gaggtgaaaagaaagatattgtatagatcaagtaagtgatcta 28392060  T

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

Target: chr7; HSP #2
Raw Score: 33; E-Value: 0.0000000008
Query Start/End: Original strand, 6 - 46
Target Start/End: Complemental strand, 17212601 - 17212561
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||| |||||||||||||||||||||||| |||||    
T  17212601 ggtgaaaagagagaaattgtatagatcaaggaagttatcta 17212561  T

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

Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 3 - 46
Target Start/End: Original strand, 34143873 - 34143916
Alignment:
Q  3 agaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    ||||||||||||||||| ||||||| ||||||| ||||||||||    
T  34143873 agaggtgaaaagaaagatattgtatggatcaagtaagtgatcta 34143916  T

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

Target: chr6 (Bit Score: 35; Significance: 0.00000000005; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 35; E-Value: 0.00000000005
Query Start/End: Original strand, 4 - 46
Target Start/End: Complemental strand, 27741361 - 27741319
Alignment:
Q  4 gaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||||| ||||||||||||||| ||||||||||    
T  27741361 gaggtgaaaagaaagatattgtatagatcaagtaagtgatcta 27741319  T

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

Target: chr6; HSP #2
Raw Score: 35; E-Value: 0.00000000005
Query Start/End: Original strand, 4 - 46
Target Start/End: Complemental strand, 27750542 - 27750500
Alignment:
Q  4 gaggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||||| ||||||||||||||| ||||||||||    
T  27750542 gaggtgaaaagaaagatattgtatagatcaagtaagtgatcta 27750500  T

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

Target: chr6; HSP #3
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 6 - 46
Target Start/End: Complemental strand, 21876059 - 21876019
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    ||||||||||||  |||||||||||||||||| ||||||||    
T  21876059 ggtgaaaagaaatgaattgtatagatcaaggaggtgatcta 21876019  T

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

Target: scaffold0021 (Bit Score: 33; Significance: 0.0000000008; HSPs: 1)
Name: scaffold0021
Description:

Target: scaffold0021; HSP #1
Raw Score: 33; E-Value: 0.0000000008
Query Start/End: Original strand, 6 - 46
Target Start/End: Original strand, 163790 - 163830
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||| ||||||||||||||| ||||||||||    
T  163790 ggtgaaaagaaagatattgtatagatcaagtaagtgatcta 163830  T

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

Target: chr8 (Bit Score: 33; Significance: 0.0000000008; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 33; E-Value: 0.0000000008
Query Start/End: Original strand, 6 - 46
Target Start/End: Original strand, 29863749 - 29863789
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||| ||||||||||||||| ||||||||||    
T  29863749 ggtgaaaagaaagatattgtatagatcaagtaagtgatcta 29863789  T

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

Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 6 - 46
Target Start/End: Original strand, 33273161 - 33273201
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||| ||||||||||||||  ||||||||||    
T  33273161 ggtgaaaagaaagatattgtatagatcaactaagtgatcta 33273201  T

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

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, 5 - 46
Target Start/End: Complemental strand, 29702176 - 29702135
Alignment:
Q  5 aggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||||||||||||||||| | |||||| ||||    
T  29702176 aggtgaaaagaaagaaattgtatagatcgaagaagtggtcta 29702135  T

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

Target: scaffold0378 (Bit Score: 29; Significance: 0.0000002; HSPs: 4)
Name: scaffold0378
Description:

Target: scaffold0378; HSP #1
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 6 - 46
Target Start/End: Complemental strand, 4040 - 4000
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||| ||||||||||||||| ||| ||||||    
T  4040 ggtgaaaagaaagacattgtatagatcaagtaagggatcta 4000  T

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

Target: scaffold0378; HSP #2
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 6 - 46
Target Start/End: Complemental strand, 16520 - 16480
Alignment:
Q  6 ggtgaaaagaaagaaattgtatagatcaaggaagtgatcta 46  Q
    |||||||||||||| ||||||||||||||| ||| ||||||    
T  16520 ggtgaaaagaaagacattgtatagatcaagtaagggatcta 16480  T

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

Target: scaffold0378; HSP #3
Raw Score: 28; E-Value: 0.0000008
Query Start/End: Original strand, 90 - 150
Target Start/End: Complemental strand, 3890 - 3826
Alignment:
Q  90 ttgtgtgtgattttt----ctctcaccatctcttttcattttagcaatatcacacacttcacaat 150  Q
    |||||||||||||||    ||||| |||||||||||  ||| | |||||||||||||||||||||    
T  3890 ttgtgtgtgatttttttctctctctccatctcttttactttaaacaatatcacacacttcacaat 3826  T

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

Target: scaffold0378; HSP #4
Raw Score: 28; E-Value: 0.0000008
Query Start/End: Original strand, 90 - 150
Target Start/End: Complemental strand, 16370 - 16306
Alignment:
Q  90 ttgtgtgtgattttt----ctctcaccatctcttttcattttagcaatatcacacacttcacaat 150  Q
    |||||||||||||||    ||||| |||||||||||  ||| | |||||||||||||||||||||    
T  16370 ttgtgtgtgatttttttctctctctccatctcttttactttaaacaatatcacacacttcacaat 16306  T

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



© Oklahoma State University