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: NF7477_low_4 (Length: 472)

Name: NF7477_low_4
Description: NF7477
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF7477_low_4
NF7477_low_4
[»] chr1 (5 HSPs)
chr1 (16-463)||(34454982-34455421)
chr1 (328-456)||(6857261-6857387)
chr1 (328-456)||(6863471-6863597)
chr1 (179-219)||(6856772-6856812)
chr1 (179-219)||(6862982-6863022)
[»] chr2 (4 HSPs)
chr2 (328-456)||(29495583-29495709)
chr2 (328-456)||(30157770-30157896)
chr2 (178-219)||(30158345-30158386)
chr2 (179-219)||(29495093-29495133)
[»] chr3 (2 HSPs)
chr3 (17-96)||(44138426-44138503)
chr3 (392-456)||(11010887-11010951)


Alignment Details
Target: chr1 (Bit Score: 362; Significance: 0; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 362; E-Value: 0
Query Start/End: Original strand, 16 - 463
Target Start/End: Complemental strand, 34455421 - 34454982
Alignment:
Q  16 atgaatcatggccattttatgttggtgtagtagtacgaatcttagaattttgtaatataggcaagagaaagttatttaaaacaaaaaatacaaaactatg 115  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||    
T  34455421 atgaatcatggccattttatgttggtgtagtagtacgaatcttagaattttgtaatataggcaagagaaagttatttaaaacaaaaaatacaaaaccatg 34455322  T
Q  116 ttctttatttgaaatgagccatcctttcggttctccctaaagatgaatatcatcnnnnnnnngttttcaaaaaatgtaacattcatagtgacaaacattt 215  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||        |||| |||| ||||||||||        ||||||||||    
T  34455321 ttctttatttgaaatgagccatcctttcggttctccctaaagatgaatatcatcaaaaaaaagttt-caaagaatgtaacata-------acaaacattt 34455230  T
Q  216 tcttatagcctattaggacatgaactatgatgcacaattccattttaactagaaaagaaaaataaataatcacccccacattgcgtttaaacattacttg 315  Q
    |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34455229 tcttatagcctattaggacatgaactatgatgcacaattctattttaactagaaaagaaaaataaataatcacccccacattgcgtttaaacattacttg 34455130  T
Q  316 ccatcttaactcctaaaaacttaaaaatttgtatgaaattgattttgcaccattttaaaaaataatcttttacaacctgacaaacatcatactccccctt 415  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||    
T  34455129 ccatcttaactcctaaaaacttaaaaatttgtatgaaattgattttgcaccattttaaaaaataatcttttacaacccgacaaacatcatactccccctt 34455030  T
Q  416 taataagtccgcccaacgtactcttgaatggtcatctataagtattat 463  Q
    ||||||||||||||||| ||||||||||||||||||||||| ||||||    
T  34455029 taataagtccgcccaacatactcttgaatggtcatctataaatattat 34454982  T

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

Target: chr1; HSP #2
Raw Score: 54; E-Value: 8e-22
Query Start/End: Original strand, 328 - 456
Target Start/End: Original strand, 6857261 - 6857387
Alignment:
Q  328 ctaaaaacttaaaaatttgtatgaaattgattttgcaccattttaaaaaataatcttttacaacctgacaaacatcatactccccctttaataagtccgc 427  Q
    ||||| |||| || |||||| |||||||| |||||||||||| ||| |||  ||| ||||||||||||||||||||  | | ||||||||| |||| | |    
T  6857261 ctaaagactttaatatttgtttgaaattggttttgcaccattgtaataaa--atcctttacaacctgacaaacatcggatttcccctttaacaagtacac 6857358  T
Q  428 ccaacgtactcttgaatggtcatctataa 456  Q
    ||||| |||||||||||||||||||||||    
T  6857359 ccaacatactcttgaatggtcatctataa 6857387  T

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

Target: chr1; HSP #3
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 328 - 456
Target Start/End: Original strand, 6863471 - 6863597
Alignment:
Q  328 ctaaaaacttaaaaatttgtatgaaattgattttgcaccattttaaaaaataatcttttacaacctgacaaacatcatactccccctttaataagtccgc 427  Q
    ||||| |||| || |||||| |||||||| |||||||| ||| ||| |||  ||| ||||||||||||||||||||  | | ||||||||| |||| | |    
T  6863471 ctaaagactttaatatttgtttgaaattggttttgcacaattgtaataaa--atcctttacaacctgacaaacatcggatttcccctttaacaagtacac 6863568  T
Q  428 ccaacgtactcttgaatggtcatctataa 456  Q
    ||||| |||||||||||||||||||||||    
T  6863569 ccaacatactcttgaatggtcatctataa 6863597  T

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

Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 179 - 219
Target Start/End: Original strand, 6856772 - 6856812
Alignment:
Q  179 ttttcaaaaaatgtaacattcatagtgacaaacattttctt 219  Q
    |||||||| |||||||| | |||||||||||||||||||||    
T  6856772 ttttcaaagaatgtaacgtccatagtgacaaacattttctt 6856812  T

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

Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 179 - 219
Target Start/End: Original strand, 6862982 - 6863022
Alignment:
Q  179 ttttcaaaaaatgtaacattcatagtgacaaacattttctt 219  Q
    |||||||| |||||||| | |||||||||||||||||||||    
T  6862982 ttttcaaagaatgtaacgtccatagtgacaaacattttctt 6863022  T

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

Target: chr2 (Bit Score: 54; Significance: 8e-22; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 54; E-Value: 8e-22
Query Start/End: Original strand, 328 - 456
Target Start/End: Original strand, 29495583 - 29495709
Alignment:
Q  328 ctaaaaacttaaaaatttgtatgaaattgattttgcaccattttaaaaaataatcttttacaacctgacaaacatcatactccccctttaataagtccgc 427  Q
    ||||| |||| || |||||| |||||||| |||||||||||| ||| |||  ||| ||||||||||||||||||||  | | ||||||||| |||| | |    
T  29495583 ctaaagactttaatatttgtttgaaattggttttgcaccattgtaataaa--atcctttacaacctgacaaacatcggatttcccctttaacaagtacac 29495680  T
Q  428 ccaacgtactcttgaatggtcatctataa 456  Q
    ||||| |||||||||||||||||||||||    
T  29495681 ccaacatactcttgaatggtcatctataa 29495709  T

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

Target: chr2; HSP #2
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 328 - 456
Target Start/End: Complemental strand, 30157896 - 30157770
Alignment:
Q  328 ctaaaaacttaaaaatttgtatgaaattgattttgcaccattttaaaaaataatcttttacaacctgacaaacatcatactccccctttaataagtccgc 427  Q
    ||||| |||| || ||||||  ||||||| |||||||||||| ||| |||  ||| || ||| || ||||||||||  | | ||||||||| |||| | |    
T  30157896 ctaaagacttgaatatttgttcgaaattggttttgcaccattgtaataaa--atccttaacagccagacaaacatctgatttcccctttaacaagtacac 30157799  T
Q  428 ccaacgtactcttgaatggtcatctataa 456  Q
    ||||| |||||||||||||||||| ||||    
T  30157798 ccaacatactcttgaatggtcatcgataa 30157770  T

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

Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 178 - 219
Target Start/End: Complemental strand, 30158386 - 30158345
Alignment:
Q  178 gttttcaaaaaatgtaacattcatagtgacaaacattttctt 219  Q
    ||||||||| |||||||| | |||||||||||||||||||||    
T  30158386 gttttcaaagaatgtaacgtccatagtgacaaacattttctt 30158345  T

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

Target: chr2; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 179 - 219
Target Start/End: Original strand, 29495093 - 29495133
Alignment:
Q  179 ttttcaaaaaatgtaacattcatagtgacaaacattttctt 219  Q
    |||||||| |||||||| | |||||||||||||||||||||    
T  29495093 ttttcaaagaatgtaacgtccatagtgacaaacattttctt 29495133  T

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

Target: chr3 (Bit Score: 37; Significance: 0.00000000001; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 17 - 96
Target Start/End: Complemental strand, 44138503 - 44138426
Alignment:
Q  17 tgaatcatggccattttatgttggtgtagtagtacgaatcttagaattttgtaatataggcaagagaaagttatttaaaa 96  Q
    |||||||||||||||||||||||||| || ||||| |||  |||||  |||| |||||||||||||||| | ||||||||    
T  44138503 tgaatcatggccattttatgttggtgcagaagtacaaattctagaa--ttgtgatataggcaagagaaaatcatttaaaa 44138426  T

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

Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 392 - 456
Target Start/End: Complemental strand, 11010951 - 11010887
Alignment:
Q  392 ctgacaaacatcatactccccctttaataagtccgcccaacgtactcttgaatggtcatctataa 456  Q
    ||||||||||||  | | ||||||||| ||||   |||||| |||||||||||||||||||||||    
T  11010951 ctgacaaacatctgatttcccctttaacaagtatacccaacatactcttgaatggtcatctataa 11010887  T

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



© Oklahoma State University