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: NF9090_low_29 (Length: 488)

Name: NF9090_low_29
Description: NF9090
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9090_low_29
NF9090_low_29
[»] chr3 (4 HSPs)
chr3 (141-471)||(38917922-38918247)
chr3 (68-142)||(44655870-44655945)
chr3 (28-112)||(51312048-51312132)
chr3 (69-139)||(53150491-53150563)
[»] chr7 (4 HSPs)
chr7 (7-140)||(37331932-37332067)
chr7 (67-141)||(11915922-11915996)
chr7 (59-140)||(26839930-26840013)
chr7 (90-142)||(41114836-41114888)
[»] chr6 (1 HSPs)
chr6 (23-142)||(20481404-20481524)
[»] chr4 (3 HSPs)
chr4 (27-139)||(38837547-38837661)
chr4 (23-124)||(22278617-22278718)
chr4 (68-120)||(17708364-17708416)
[»] chr8 (2 HSPs)
chr8 (23-113)||(17004745-17004835)
chr8 (23-113)||(17572413-17572503)
[»] chr1 (3 HSPs)
chr1 (44-119)||(50469933-50470008)
chr1 (45-81)||(961420-961456)
chr1 (64-139)||(41405894-41405971)
[»] scaffold0027 (1 HSPs)
scaffold0027 (68-141)||(143670-143746)
[»] chr2 (1 HSPs)
chr2 (76-113)||(28548500-28548537)


Alignment Details
Target: chr3 (Bit Score: 200; Significance: 1e-109; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 200; E-Value: 1e-109
Query Start/End: Original strand, 141 - 471
Target Start/End: Original strand, 38917922 - 38918247
Alignment:
Q  141 ttaaaacaaacaacttctttaattcttatgttttttcttcttttaaaatggtcttatatttagaaacgagaaagtatttaactttttgaaattaattgga 240  Q
    ||||||||||||||||||||||||||| ||||| ||||||||||||||||| ||||||||||||||||||||||||||| ||||||||||||||||||||    
T  38917922 ttaaaacaaacaacttctttaattcttgtgtttcttcttcttttaaaatggccttatatttagaaacgagaaagtatttgactttttgaaattaattgga 38918021  T
Q  241 taaatacacactacctgataaatgaaatgaatctcaattaccacaaaaaatcagtttctaccccctcatatattagtaataagnnnnnnngaagggactc 340  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||   |||||||       ||||||||||    
T  38918022 taaatacacactacctgataaatgaaatgaatctcaattaccacaaaaaatcagtctctaccccctcatatat---taataag-ttttttgaagggactc 38918117  T
Q  341 acatatttataagttgtaacttaaatgtgttttaaaattaacccgagactcatccgatactcatatctttgtccaa----------gaatcattattaac 430  Q
    ||||||||||||||  |||||||||||||||||||||||||||||||           ||||||||||||||||||          ||||||||||||||    
T  38918118 acatatttataagtgataacttaaatgtgttttaaaattaacccgag-----------actcatatctttgtccaagaatcaaaatgaatcattattaac 38918206  T
Q  431 tttcacaaattttgtttatgctcttcatatatactaatagt 471  Q
    |||||||||||||||||||||||||||||||||||||||||    
T  38918207 tttcacaaattttgtttatgctcttcatatatactaatagt 38918247  T

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

Target: chr3; HSP #2
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 68 - 142
Target Start/End: Original strand, 44655870 - 44655945
Alignment:
Q  68 tttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaa-tttgtttagttatcatttctctt 142  Q
    ||||||||||||| ||||||||| ||||||||||||  |||||||| ||||| | ||| || ||||||||||||||    
T  44655870 tttaaggttgaaaagtctaaattgcccatggtgtctatattgtgtcaaaaaagtgtgtctatttatcatttctctt 44655945  T

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

Target: chr3; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 28 - 112
Target Start/End: Complemental strand, 51312132 - 51312048
Alignment:
Q  28 gaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgt 112  Q
    ||||||||||| ||| |||||||||||  | |||||||| || |||| |||||| || |||||||||||| |||||  |||||||    
T  51312132 gaaaaagatggttgtggtgtatttacaaaattgcccctgtttaaagggtgaaatatccaaattacccatgctgtctttattgtgt 51312048  T

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

Target: chr3; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 69 - 139
Target Start/End: Original strand, 53150491 - 53150563
Alignment:
Q  69 ttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtct--aaaaatttgtttagttatcatttct 139  Q
    |||| |||||||||||  ||||||||||| |||||| ||||||| |  |||||| |||| |||||||||||||    
T  53150491 ttaaagttgaaatgtcacaattacccatgatgtctgtattgtgtttgaaaaaatgtgttcagttatcatttct 53150563  T

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

Target: chr7 (Bit Score: 109; Significance: 1e-54; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 109; E-Value: 1e-54
Query Start/End: Original strand, 7 - 140
Target Start/End: Complemental strand, 37332067 - 37331932
Alignment:
Q  7 agaagcagagaaagaggaaaggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaa 106  Q
    ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||    
T  37332067 agaagaagagaaagaggaaaggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccctgatgtctgaa 37331968  T
Q  107 ttgtgtctaaaaatt--tgtttagttatcatttctc 140  Q
    ||||||| |||||||  |||||||||||||||||||    
T  37331967 ttgtgtccaaaaatttgtgtttagttatcatttctc 37331932  T

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

Target: chr7; HSP #2
Raw Score: 39; E-Value: 0.0000000000007
Query Start/End: Original strand, 67 - 141
Target Start/End: Complemental strand, 11915996 - 11915922
Alignment:
Q  67 ctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaatttgtttagttatcatttctct 141  Q
    ||||||| |||||| ||| |||||  |||||||||||| |||||||| ||||| | |||||||||||||||||||    
T  11915996 ctttaagattgaaaagtccaaattgtccatggtgtctgtattgtgtcaaaaaaatggtttagttatcatttctct 11915922  T

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

Target: chr7; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 59 - 140
Target Start/End: Complemental strand, 26840013 - 26839930
Alignment:
Q  59 tgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaa--tttgtttagttatcatttctc 140  Q
    ||||| || ||||| ||||||| |||||||||  |||||||||||| |||||||| |||||  | ||| |||||||||||||||    
T  26840013 tgcccttgttttaatgttgaaaagtctaaattgtccatggtgtctgtattgtgtcaaaaaaagtgtgtctagttatcatttctc 26839930  T

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

Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 90 - 142
Target Start/End: Complemental strand, 41114888 - 41114836
Alignment:
Q  90 tacccatggtgtctgaattgtgtctaaaaatttgtttagttatcatttctctt 142  Q
    |||||||||||||| | ||||||| |||||| ||| || ||||||||||||||    
T  41114888 tacccatggtgtcttatttgtgtcaaaaaatgtgtatatttatcatttctctt 41114836  T

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

Target: chr6 (Bit Score: 57; Significance: 1e-23; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 23 - 142
Target Start/End: Original strand, 20481404 - 20481524
Alignment:
Q  23 gaaaggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaat-t 121  Q
    |||| ||| ||||||| ||| |||||||||| ||||||||||| |||||| | |||||| |||||||||||| ||||||||  |||||||| |||||| |    
T  20481404 gaaatgaagaagatggttgttgtgtatttactttactgcccctactttaaagatgaaatatctaaattacccgtggtgtctatattgtgtccaaaaatct 20481503  T
Q  122 tgtttagttatcatttctctt 142  Q
    ||||||||||| |||||||||    
T  20481504 tgtttagttataatttctctt 20481524  T

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

Target: chr4 (Bit Score: 52; Significance: 1e-20; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 27 - 139
Target Start/End: Original strand, 38837547 - 38837661
Alignment:
Q  27 ggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaa--atttgt 124  Q
    |||| ||||||| ||| || |||||||| |||||||||| ||||||||||||||| || |||||||||||| |||||| |||||||  ||||  || |||    
T  38837547 ggaagaagatgggtgttgtatatttacaatactgcccctactttaaggttgaaatatcaaaattacccatgatgtctgtattgtgttcaaaagtatgtgt 38837646  T
Q  125 ttagttatcatttct 139  Q
    |||||||||||||||    
T  38837647 ttagttatcatttct 38837661  T

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

Target: chr4; HSP #2
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 23 - 124
Target Start/End: Complemental strand, 22278718 - 22278617
Alignment:
Q  23 gaaaggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaattt 122  Q
    |||||||| |||| || ||| |||||||||||  |||| || |||||||||  |||||| || ||||||||||||||||||| |||||||| ||||| ||    
T  22278718 gaaaggaagaagagggttgtggtgtatttacaaaactgtccatgctttaagagtgaaatatccaaattacccatggtgtctgtattgtgtcaaaaaaatt 22278619  T
Q  123 gt 124  Q
    ||    
T  22278618 gt 22278617  T

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

Target: chr4; HSP #3
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 68 - 120
Target Start/End: Complemental strand, 17708416 - 17708364
Alignment:
Q  68 tttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaat 120  Q
    ||||||||||||| ||||||||| |||||| |||||  |||||||| ||||||    
T  17708416 tttaaggttgaaaagtctaaattgcccatgatgtctctattgtgtcaaaaaat 17708364  T

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

Target: chr8 (Bit Score: 51; Significance: 5e-20; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 51; E-Value: 5e-20
Query Start/End: Original strand, 23 - 113
Target Start/End: Complemental strand, 17004835 - 17004745
Alignment:
Q  23 gaaaggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtc 113  Q
    |||| ||| ||||||| ||| ||||||||||| |||||||| ||||||||||||||||| |||||||||| |||| |||||| ||||||||    
T  17004835 gaaaagaagaagatgggtgttgtgtatttacaatactgcccttgctttaaggttgaaatatctaaattactcatgatgtctgtattgtgtc 17004745  T

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

Target: chr8; HSP #2
Raw Score: 51; E-Value: 5e-20
Query Start/End: Original strand, 23 - 113
Target Start/End: Original strand, 17572413 - 17572503
Alignment:
Q  23 gaaaggaaaaagatggatgtcgtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtc 113  Q
    |||| ||| ||||||| ||| ||||||||||| |||||||| ||||||||||||||||| |||||||||| |||| |||||| ||||||||    
T  17572413 gaaaagaagaagatgggtgttgtgtatttacaatactgcccttgctttaaggttgaaatatctaaattactcatgatgtctgtattgtgtc 17572503  T

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

Target: chr1 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 44 - 119
Target Start/End: Complemental strand, 50470008 - 50469933
Alignment:
Q  44 gtgtatttacattactgcccctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaa 119  Q
    |||||||||||  | | |||||||||||| ||||||| ||| |||||||| |||||||||| ||||||||||||||    
T  50470008 gtgtatttacaacaatacccctgctttaatgttgaaaagtccaaattacctatggtgtctgtattgtgtctaaaaa 50469933  T

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

Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 45 - 81
Target Start/End: Complemental strand, 961456 - 961420
Alignment:
Q  45 tgtatttacattactgcccctgctttaaggttgaaat 81  Q
    |||||||||| ||||||||||||||||||||||||||    
T  961456 tgtatttacaatactgcccctgctttaaggttgaaat 961420  T

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

Target: chr1; HSP #3
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 64 - 139
Target Start/End: Original strand, 41405894 - 41405971
Alignment:
Q  64 ctgctttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaatt--tgtttagttatcatttct 139  Q
    |||||| || ||||||||||| ||||||||||||||||   | |||||||| ||||||  ||||| ||||||||||||    
T  41405894 ctgcttaaatgttgaaatgtcaaaattacccatggtgttgtatttgtgtctcaaaatttgtgtttggttatcatttct 41405971  T

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

Target: scaffold0027 (Bit Score: 31; Significance: 0.00000004; HSPs: 1)
Name: scaffold0027
Description:

Target: scaffold0027; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 68 - 141
Target Start/End: Complemental strand, 143746 - 143670
Alignment:
Q  68 tttaaggttgaaatgtctaaattacccatggtgtctgaattgtgtctaaaaa---tttgtttagttatcatttctct 141  Q
    ||||||||||||| ||||||||| |||||| |||||  |||||||| |||||   | |||||| |||||||||||||    
T  143746 tttaaggttgaaaagtctaaattgcccatgatgtctatattgtgtcaaaaaaatgtgtgtttatttatcatttctct 143670  T

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

Target: chr2 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 76 - 113
Target Start/End: Original strand, 28548500 - 28548537
Alignment:
Q  76 tgaaatgtctaaattacccatggtgtctgaattgtgtc 113  Q
    ||||||||||||| ||||||||||||||| ||||||||    
T  28548500 tgaaatgtctaaactacccatggtgtctgtattgtgtc 28548537  T

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



© Oklahoma State University