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: NF0235_2D_low_52 (Length: 222)

Name: NF0235_2D_low_52
Description: NF0235_2D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF0235_2D_low_52
NF0235_2D_low_52
[»] chr1 (14 HSPs)
chr1 (1-222)||(34309704-34309924)
chr1 (115-218)||(45525799-45525902)
chr1 (115-218)||(45531909-45532012)
chr1 (144-222)||(35190670-35190748)
chr1 (144-222)||(35295645-35295723)
chr1 (144-222)||(35147656-35147734)
chr1 (148-222)||(35205252-35205326)
chr1 (176-222)||(35476645-35476691)
chr1 (155-222)||(35200239-35200306)
chr1 (148-222)||(35212294-35212368)
chr1 (144-222)||(35219398-35219476)
chr1 (146-222)||(35252395-35252471)
chr1 (144-222)||(35225241-35225319)
chr1 (177-219)||(35248598-35248640)
[»] chr2 (1 HSPs)
chr2 (99-222)||(33138357-33138480)
[»] chr3 (5 HSPs)
chr3 (87-222)||(899409-899545)
chr3 (112-221)||(23332094-23332203)
chr3 (96-221)||(19246711-19246836)
chr3 (96-221)||(17664304-17664433)
chr3 (160-219)||(53924101-53924160)
[»] chr7 (2 HSPs)
chr7 (112-219)||(38632188-38632295)
chr7 (142-222)||(38634921-38635001)


Alignment Details
Target: chr1 (Bit Score: 182; Significance: 1e-98; HSPs: 14)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 182; E-Value: 1e-98
Query Start/End: Original strand, 1 - 222
Target Start/End: Complemental strand, 34309924 - 34309704
Alignment:
Q  1 ttattatatctacacttgtataaataatacttcatatgtgataatatgaatcactttcaacnnnnnnnncacagttcttgtattctttgtctttgcaatt 100  Q
    |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||        |||||||||||||||||||||||||||||||    
T  34309924 ttattatatctacacttgtataaata-tacttcatatgtgataatatgaatcactttcaacttttttttcacagttcttgtattctttgtctttgcaatt 34309826  T
Q  101 tttacctgtttcctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgc 200  Q
    ||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||    
T  34309825 tttacatgtttcctgaagttgctaagctttgtcttgtgtactcgcttgaaattcgtgggatgattaacactctttccttgtccccaaatactcagtatgc 34309726  T
Q  201 ggcttatctcgtgttcaagatg 222  Q
    ||||||||||||||||||||||    
T  34309725 ggcttatctcgtgttcaagatg 34309704  T

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

Target: chr1; HSP #2
Raw Score: 60; E-Value: 9e-26
Query Start/End: Original strand, 115 - 218
Target Start/End: Complemental strand, 45525902 - 45525799
Alignment:
Q  115 gaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgt 214  Q
    ||||||||||| ||| |||||||||  | ||| |||||| ||||||||||||||| |||| ||||||| ||||||||||||||||| |||||||||||||    
T  45525902 gaagttgctaatcttcgtcttgtgtggtggctcgaaattcgtgggatgattaacaatcttgccttgtctccaaatactcagtatgcagcttatctcgtgt 45525803  T
Q  215 tcaa 218  Q
    ||||    
T  45525802 tcaa 45525799  T

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

Target: chr1; HSP #3
Raw Score: 60; E-Value: 9e-26
Query Start/End: Original strand, 115 - 218
Target Start/End: Complemental strand, 45532012 - 45531909
Alignment:
Q  115 gaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgt 214  Q
    ||||||||||| |||||||||||||  | ||| |||||| ||||||||||||||| |||| ||||||||||||||||||| ||||| |||||||| ||||    
T  45532012 gaagttgctaaactttgtcttgtgtggtggctcgaaattcgtgggatgattaacaatcttgccttgtccccaaatactcaatatgcagcttatcttgtgt 45531913  T
Q  215 tcaa 218  Q
    ||||    
T  45531912 tcaa 45531909  T

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

Target: chr1; HSP #4
Raw Score: 47; E-Value: 5e-18
Query Start/End: Original strand, 144 - 222
Target Start/End: Complemental strand, 35190748 - 35190670
Alignment:
Q  144 gcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||| ||| |||||||||| || || ||| |||||||||||||||| ||||||||||||||||| ||||||||||||    
T  35190748 gcttgatattcgtgggatgataaatacccttgccttgtccccaaatacccagtatgcggcttatcttgtgttcaagatg 35190670  T

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

Target: chr1; HSP #5
Raw Score: 47; E-Value: 5e-18
Query Start/End: Original strand, 144 - 222
Target Start/End: Original strand, 35295645 - 35295723
Alignment:
Q  144 gcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||||||| |||||||||| ||||| | | ||||||||||||||||||| ||||| |||||||| ||||||||||||    
T  35295645 gcttgaaattcgtgggatgataaacacccctgccttgtccccaaatactcaatatgcagcttatcttgtgttcaagatg 35295723  T

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

Target: chr1; HSP #6
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 144 - 222
Target Start/End: Complemental strand, 35147734 - 35147656
Alignment:
Q  144 gcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||| ||| |||||| ||| ||||| |||  ||||||||||||||| ||||||||||||||||| ||||||||||||    
T  35147734 gcttgatattagtgggacgataaacacccttagcttgtccccaaatacccagtatgcggcttatcttgtgttcaagatg 35147656  T

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

Target: chr1; HSP #7
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 148 - 222
Target Start/End: Complemental strand, 35205326 - 35205252
Alignment:
Q  148 gaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||| ||||||||||||||| |||| | ||||| ||||||||||| ||||| |||||||| ||||||||||||    
T  35205326 gaaattcgtgggatgattaacaatcttgcattgtctccaaatactcaatatgcagcttatcttgtgttcaagatg 35205252  T

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

Target: chr1; HSP #8
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 176 - 222
Target Start/End: Complemental strand, 35476691 - 35476645
Alignment:
Q  176 ccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||||||||||||||||||||||||||||||| ||||||||||||    
T  35476691 ccttgtccccaaatactcagtatgcggcttatcttgtgttcaagatg 35476645  T

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

Target: chr1; HSP #9
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 155 - 222
Target Start/End: Complemental strand, 35200306 - 35200239
Alignment:
Q  155 gtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||||||| ||||  ||| | ||||||||||||||||||||||| |||||||| ||||||||||||    
T  35200306 gtgggatgataaacatgcttgcattgtccccaaatactcagtatgcagcttatcttgtgttcaagatg 35200239  T

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

Target: chr1; HSP #10
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 148 - 222
Target Start/End: Complemental strand, 35212368 - 35212294
Alignment:
Q  148 gaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||| ||||| ||||||||  |||| ||||||| ||||||||||  |||||||||||||| ||||||||||||    
T  35212368 gaaattcgtggggtgattaacgatcttgccttgtctccaaatactcgctatgcggcttatcttgtgttcaagatg 35212294  T

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

Target: chr1; HSP #11
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 144 - 222
Target Start/End: Complemental strand, 35219476 - 35219398
Alignment:
Q  144 gcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    ||||||||||||||| | ||| ||||| ||| ||||||| |||||||||| ||||||  ||||||| ||||||||||||    
T  35219476 gcttgaaatttgtggcaagataaacacccttaccttgtctccaaatactctgtatgcaacttatcttgtgttcaagatg 35219398  T

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

Target: chr1; HSP #12
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 146 - 222
Target Start/End: Complemental strand, 35252471 - 35252395
Alignment:
Q  146 ttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||| |||||||| ||||| |||||  || ||||||||||||||||||||||||  || ||||| ||||||||||||    
T  35252471 ttgacatttgtggtatgataaacaccattgccttgtccccaaatactcagtatgtagcgtatcttgtgttcaagatg 35252395  T

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

Target: chr1; HSP #13
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 144 - 222
Target Start/End: Complemental strand, 35225319 - 35225241
Alignment:
Q  144 gcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||||||| |||||| | | ||||| ||| |||||||||||||||||| |||||   ||||||| ||||||||||||    
T  35225319 gcttgaaattcgtgggaagttaaacacccttgccttgtccccaaatactcggtatgtaacttatcttgtgttcaagatg 35225241  T

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

Target: chr1; HSP #14
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 177 - 219
Target Start/End: Complemental strand, 35248640 - 35248598
Alignment:
Q  177 cttgtccccaaatactcagtatgcggcttatctcgtgttcaag 219  Q
    |||||||||||||||||||||||| |||||||| |||||||||    
T  35248640 cttgtccccaaatactcagtatgcagcttatcttgtgttcaag 35248598  T

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

Target: chr2 (Bit Score: 88; Significance: 2e-42; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 88; E-Value: 2e-42
Query Start/End: Original strand, 99 - 222
Target Start/End: Original strand, 33138357 - 33138480
Alignment:
Q  99 tttttacctgtttcctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtat 198  Q
    |||||||  ||||||||||||||||||||||| |||| ||||||||| ||||||| ||||||  |||||||||||||||||||||||||||||||||||     
T  33138357 tttttacaggtttcctgaagttgctaagctttctcttttgtactcgcatgaaattcgtgggactattaacactctttccttgtccccaaatactcagtac 33138456  T
Q  199 gcggcttatctcgtgttcaagatg 222  Q
    ||||||||||||||||||||||||    
T  33138457 gcggcttatctcgtgttcaagatg 33138480  T

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

Target: chr3 (Bit Score: 77; Significance: 7e-36; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 77; E-Value: 7e-36
Query Start/End: Original strand, 87 - 222
Target Start/End: Original strand, 899409 - 899545
Alignment:
Q  87 ttgtctttgcaatt-tttacctgtttcctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtcccc 185  Q
    |||||||||||||| |||||  |||||||||||| | ||||||||||||||||| ||||||||||||| |||| || ||||||||| ||||||||||||     
T  899409 ttgtctttgcaattatttacaggtttcctgaagtcgttaagctttgtcttgtgttctcgcttgaaattcgtggaataattaacactttttccttgtccca 899508  T
Q  186 aaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||||  ||||||||||||||| ||||||||||||    
T  899509 aaatacttggtatgcggcttatcttgtgttcaagatg 899545  T

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

Target: chr3; HSP #2
Raw Score: 74; E-Value: 4e-34
Query Start/End: Original strand, 112 - 221
Target Start/End: Complemental strand, 23332203 - 23332094
Alignment:
Q  112 cctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcg 211  Q
    |||||||||||||||||| ||||| ||| ||||| ||||||||||||||| |||||||||||||| ||||||||||||||||||||||| ||||| ||||    
T  23332203 cctgaagttgctaagcttcgtcttttgttctcgcatgaaatttgtgggattattaacactctttcattgtccccaaatactcagtatgcagcttacctcg 23332104  T
Q  212 tgttcaagat 221  Q
    |||| |||||    
T  23332103 tgtttaagat 23332094  T

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

Target: chr3; HSP #3
Raw Score: 70; E-Value: 1e-31
Query Start/End: Original strand, 96 - 221
Target Start/End: Original strand, 19246711 - 19246836
Alignment:
Q  96 caatttttacctgtttcctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcag 195  Q
    ||||||||||  ||| || ||||||||||||||  ||||||||| ||||| ||||||| |||| || ||||| |||||||||||||||||||||||||||    
T  19246711 caatttttacaggttcccggaagttgctaagctcagtcttgtgttctcgcatgaaattcgtggtattattaagactctttccttgtccccaaatactcag 19246810  T
Q  196 tatgcggcttatctcgtgttcaagat 221  Q
    ||||| ||||||||||| ||||||||    
T  19246811 tatgcagcttatctcgtcttcaagat 19246836  T

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

Target: chr3; HSP #4
Raw Score: 53; E-Value: 1e-21
Query Start/End: Original strand, 96 - 221
Target Start/End: Original strand, 17664304 - 17664433
Alignment:
Q  96 caatttttacctgtttcctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaac----actctttccttgtccccaaatac 191  Q
    ||||||||||  ||| || ||||||||||||||  ||||||||| ||||| ||||||| |||| || |||||     |||||||| ||||||||||||||    
T  17664304 caatttttacaggttcccggaagttgctaagctcagtcttgtgttctcgcatgaaattcgtggtattattaattaagactctttcattgtccccaaatac 17664403  T
Q  192 tcagtatgcggcttatctcgtgttcaagat 221  Q
    ||||||||| ||||||||||| ||||||||    
T  17664404 tcagtatgcagcttatctcgtcttcaagat 17664433  T

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

Target: chr3; HSP #5
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 160 - 219
Target Start/End: Original strand, 53924101 - 53924160
Alignment:
Q  160 atgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaag 219  Q
    ||||| ||||| |||  ||||||||||||||||| ||||||||||||||| |||||||||    
T  53924101 atgataaacacccttgtcttgtccccaaatactcggtatgcggcttatcttgtgttcaag 53924160  T

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

Target: chr7 (Bit Score: 40; Significance: 0.00000000000008; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 112 - 219
Target Start/End: Complemental strand, 38632295 - 38632188
Alignment:
Q  112 cctgaagttgctaagctttgtcttgtgtactcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcg 211  Q
    |||||||||||| ||||| ||  |||||  |||||||||||| |||| | |||  |||||||| ||||||| | ||||||||||||||  |||||||| |    
T  38632295 cctgaagttgctgagcttcgtgatgtgttttcgcttgaaattcgtggaaggatagacactcttgccttgtctcgaaatactcagtatgtagcttatcttg 38632196  T
Q  212 tgttcaag 219  Q
    ||||||||    
T  38632195 tgttcaag 38632188  T

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

Target: chr7; HSP #2
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 142 - 222
Target Start/End: Complemental strand, 38635001 - 38634921
Alignment:
Q  142 tcgcttgaaatttgtgggatgattaacactctttccttgtccccaaatactcagtatgcggcttatctcgtgttcaagatg 222  Q
    |||||||||||| |||| |  || |||||||||| |||||||| ||||||||||||||  |||||||| |||||| |||||    
T  38635001 tcgcttgaaattcgtggaagaataaacactctttacttgtcccgaaatactcagtatgtagcttatcttgtgttccagatg 38634921  T

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



© Oklahoma State University

This website was viewed 2692 times since January 2019
Visitors: 2402