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: NF10225_low_25 (Length: 278)

Name: NF10225_low_25
Description: NF10225
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF10225_low_25
NF10225_low_25
[»] chr3 (1 HSPs)
chr3 (1-256)||(535074-535330)
[»] chr1 (4 HSPs)
chr1 (105-220)||(40652523-40652637)
chr1 (14-101)||(40643478-40643565)
chr1 (105-220)||(40643853-40643967)
chr1 (14-62)||(35594885-35594933)
[»] chr5 (2 HSPs)
chr5 (14-62)||(25055781-25055829)
chr5 (226-259)||(4533718-4533751)
[»] chr6 (1 HSPs)
chr6 (14-62)||(12350969-12351017)
[»] chr4 (2 HSPs)
chr4 (14-62)||(1834492-1834540)
chr4 (226-259)||(56113179-56113212)
[»] scaffold1303 (1 HSPs)
scaffold1303 (14-62)||(1810-1858)
[»] chr8 (1 HSPs)
chr8 (14-62)||(22220756-22220804)
[»] chr2 (1 HSPs)
chr2 (226-259)||(27848923-27848956)


Alignment Details
Target: chr3 (Bit Score: 233; Significance: 1e-129; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 233; E-Value: 1e-129
Query Start/End: Original strand, 1 - 256
Target Start/End: Complemental strand, 535330 - 535074
Alignment:
Q  1 aaggcaatcaattgttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgacaaactactaaccaaatttcaatattacatcattacatta 100  Q
    |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||    
T  535330 aaggtaatcaattgttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgacaaactactaaccaaatttcattattacatcattacatta 535231  T
Q  101 gacca-ttctccaccgtttctaaagactgcagcgatttggcaaagcctacacgcatcaaacaacacggacttgcttctatcacctttaacctctgatggt 199  Q
    ||||| ||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||    
T  535230 gaccaattctccaccgtttctaaagaccgcagcgatttggcaaagcctacacgcatcaaacaacacggacttgcttttatcacctttaacctctgatggt 535131  T
Q  200 ggaatatatgtattcactctattcgacgcggtggtgatgctttccggtgcggtggtc 256  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  535130 ggaatatatgtattcactctattcgacgcggtggtgatgctttccggtgcggtggtc 535074  T

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

Target: chr1 (Bit Score: 80; Significance: 1e-37; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 80; E-Value: 1e-37
Query Start/End: Original strand, 105 - 220
Target Start/End: Original strand, 40652523 - 40652637
Alignment:
Q  105 attctccaccgtttctaaagactgcagcgatttggcaaagcctacacgcatcaaacaacacggacttgcttctatcacctttaacctctgatggtggaat 204  Q
    ||||||| ||||||||||||||||||| |||||||||| ||||||| |||||||||||||| || |||||||||||||||||||||||||||||| ||||    
T  40652523 attctcctccgtttctaaagactgcagtgatttggcaa-gcctacatgcatcaaacaacacagatttgcttctatcacctttaacctctgatggtagaat 40652621  T
Q  205 atatgtattcactcta 220  Q
    || |||||||||||||    
T  40652622 atctgtattcactcta 40652637  T

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

Target: chr1; HSP #2
Raw Score: 72; E-Value: 8e-33
Query Start/End: Original strand, 14 - 101
Target Start/End: Original strand, 40643478 - 40643565
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgacaaactactaaccaaatttcaatattacatcattacattag 101  Q
    |||||| |||||||||||||||||||||||||||||| ||||||| |||||||||||||||||||||||||||||||||| |||||||    
T  40643478 gttcatcattttaaagtgtcttacacaaccaggttttacatatgcaacaaactactaaccaaatttcaatattacatcatcacattag 40643565  T

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

Target: chr1; HSP #3
Raw Score: 60; E-Value: 1e-25
Query Start/End: Original strand, 105 - 220
Target Start/End: Original strand, 40643853 - 40643967
Alignment:
Q  105 attctccaccgtttctaaagactgcagcgatttggcaaagcctacacgcatcaaacaacacggacttgcttctatcacctttaacctctgatggtggaat 204  Q
    ||||||| | ||||||||||| ||||  ||||| |||| ||||||| |||||||||| ||| ||||||||||| |||||||||||||||||||| |||||    
T  40643853 attctcctctgtttctaaagattgcaatgatttagcaa-gcctacatgcatcaaacagcacagacttgcttctgtcacctttaacctctgatggcggaat 40643951  T
Q  205 atatgtattcactcta 220  Q
    | ||||||||||||||    
T  40643952 agatgtattcactcta 40643967  T

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

Target: chr1; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 14 - 62
Target Start/End: Original strand, 35594885 - 35594933
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgaca 62  Q
    |||||| |||||||| ||||||||||||||||||||| |||||| ||||    
T  35594885 gttcatcattttaaaatgtcttacacaaccaggttttacatatgtgaca 35594933  T

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

Target: chr5 (Bit Score: 41; Significance: 0.00000000000003; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 41; E-Value: 0.00000000000003
Query Start/End: Original strand, 14 - 62
Target Start/End: Complemental strand, 25055829 - 25055781
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgaca 62  Q
    |||||| |||||||||||||||||||||||||||||| |||||||||||    
T  25055829 gttcatcattttaaagtgtcttacacaaccaggttttacatatgcgaca 25055781  T

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

Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 226 - 259
Target Start/End: Complemental strand, 4533751 - 4533718
Alignment:
Q  226 cgcggtggtgatgctttccggtgcggtggtcgtc 259  Q
    ||||||||||||| ||||||||||||||||||||    
T  4533751 cgcggtggtgatgttttccggtgcggtggtcgtc 4533718  T

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

Target: chr6 (Bit Score: 37; Significance: 0.000000000006; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 37; E-Value: 0.000000000006
Query Start/End: Original strand, 14 - 62
Target Start/End: Complemental strand, 12351017 - 12350969
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgaca 62  Q
    |||||| |||||| ||||||||||||||||||||||| |||||||||||    
T  12351017 gttcatcattttagagtgtcttacacaaccaggttttacatatgcgaca 12350969  T

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

Target: chr4 (Bit Score: 37; Significance: 0.000000000006; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 37; E-Value: 0.000000000006
Query Start/End: Original strand, 14 - 62
Target Start/End: Complemental strand, 1834540 - 1834492
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgaca 62  Q
    |||||| |||||||||||||||||||||||||||||| |||||| ||||    
T  1834540 gttcatcattttaaagtgtcttacacaaccaggttttacatatgtgaca 1834492  T

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

Target: chr4; HSP #2
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 226 - 259
Target Start/End: Original strand, 56113179 - 56113212
Alignment:
Q  226 cgcggtggtgatgctttccggtgcggtggtcgtc 259  Q
    ||||||||||||| ||||||||||||||||||||    
T  56113179 cgcggtggtgatgttttccggtgcggtggtcgtc 56113212  T

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

Target: scaffold1303 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: scaffold1303
Description:

Target: scaffold1303; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 14 - 62
Target Start/End: Complemental strand, 1858 - 1810
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgaca 62  Q
    |||||| |||||||| ||||||||||||||||||||| |||||| ||||    
T  1858 gttcatcattttaaattgtcttacacaaccaggttttacatatgtgaca 1810  T

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

Target: chr8 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 14 - 62
Target Start/End: Complemental strand, 22220804 - 22220756
Alignment:
Q  14 gttcatgattttaaagtgtcttacacaaccaggttttgcatatgcgaca 62  Q
    |||||| |||||||||||||||||||||| ||||||| | |||||||||    
T  22220804 gttcatcattttaaagtgtcttacacaactaggttttacgtatgcgaca 22220756  T

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

Target: chr2 (Bit Score: 30; Significance: 0.00000009; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 226 - 259
Target Start/End: Complemental strand, 27848956 - 27848923
Alignment:
Q  226 cgcggtggtgatgctttccggtgcggtggtcgtc 259  Q
    ||||||||||||| ||||||||||||||||||||    
T  27848956 cgcggtggtgatgttttccggtgcggtggtcgtc 27848923  T

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



© Oklahoma State University