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: NF9056_low_30 (Length: 370)

Name: NF9056_low_30
Description: NF9056
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9056_low_30
NF9056_low_30
[»] chr3 (14 HSPs)
chr3 (28-365)||(5250778-5251124)
chr3 (28-365)||(5268665-5269011)
chr3 (31-365)||(4388017-4388354)
chr3 (28-365)||(5299340-5299686)
chr3 (101-280)||(6447941-6448120)
chr3 (227-350)||(5281471-5281594)
chr3 (227-365)||(6479053-6479191)
chr3 (254-364)||(6553510-6553620)
chr3 (254-364)||(8455501-8455611)
chr3 (227-364)||(8590549-8590686)
chr3 (227-331)||(6948089-6948193)
chr3 (254-365)||(6519233-6519344)
chr3 (302-364)||(6736885-6736947)
chr3 (118-195)||(6838145-6838222)
[»] scaffold0425 (1 HSPs)
scaffold0425 (254-364)||(6549-6659)
[»] chr4 (1 HSPs)
chr4 (302-349)||(41068416-41068463)


Alignment Details
Target: chr3 (Bit Score: 271; Significance: 1e-151; HSPs: 14)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 271; E-Value: 1e-151
Query Start/End: Original strand, 28 - 365
Target Start/End: Original strand, 5250778 - 5251124
Alignment:
Q  28 attcatccaccaaagatgtagttggcaatctatctaagggtttccaaataactccaccttcactactagca---------tgtttcaatccaagcatatc 118  Q
    ||||||||||||||| ||||||||| ||||||||||||||||||||| |||| ||||||||||||||||||         ||||||||||| ||||||||    
T  5250778 attcatccaccaaagctgtagttggaaatctatctaagggtttccaactaacgccaccttcactactagcaaaagcctcatgtttcaatccgagcatatc 5250877  T
Q  119 cttttgctttgcaagaaattcaagcttctctagcaattctataatcctagactcaaatggattagtgaaagatgaaaagaagtcgaataccttgctagta 218  Q
    ||||||||||||||||||||| |||||||||||||||||| |||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  5250878 cttttgctttgcaagaaattctagcttctctagcaattctttaatcctagattcaaatggattagtgaaagatgaaaagaagtcgaataccttgctagta 5250977  T
Q  219 gaagattgagattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaa 318  Q
    |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5250978 gaaggttgagattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaa 5251077  T
Q  319 gccacttcttcacgtacatgctttggtactgcttcatctctgcttct 365  Q
    |||||||||||||||||||||||||||| ||||||||||| ||||||    
T  5251078 gccacttcttcacgtacatgctttggtattgcttcatctccgcttct 5251124  T

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

Target: chr3; HSP #2
Raw Score: 247; E-Value: 1e-137
Query Start/End: Original strand, 28 - 365
Target Start/End: Original strand, 5268665 - 5269011
Alignment:
Q  28 attcatccaccaaagatgtagttggcaatctatctaagggtttccaaataactccaccttcactactagca---------tgtttcaatccaagcatatc 118  Q
    ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||         ||||| |||||||||||||     
T  5268665 attcatccaccaaagatgtagttggcaatctatctaagggtttccaactaactccaccttcactactagcacaagcgtcttgttttaatccaagcatatg 5268764  T
Q  119 cttttgctttgcaagaaattcaagcttctctagcaattctataatcctagactcaaatggattagtgaaagatgaaaagaagtcgaataccttgctagta 218  Q
    |||||| |||||||||||||| |||||||||||||||||| | ||||||||||||||||||||||||||||| |||| ||||||||||||||||||||||    
T  5268765 cttttgttttgcaagaaattctagcttctctagcaattctttgatcctagactcaaatggattagtgaaagacgaaatgaagtcgaataccttgctagta 5268864  T
Q  219 gaagattgagattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaa 318  Q
    |||| ||||||||||  |||| ||||||||| ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5268865 gaaggttgagattcaagtttctgcttcttcaatggtgtatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaa 5268964  T
Q  319 gccacttcttcacgtacatgctttggtactgcttcatctctgcttct 365  Q
    |||||||||||||||||||||||||| ||||||||||||| ||||||    
T  5268965 gccacttcttcacgtacatgctttggaactgcttcatctcagcttct 5269011  T

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

Target: chr3; HSP #3
Raw Score: 186; E-Value: 1e-100
Query Start/End: Original strand, 31 - 365
Target Start/End: Complemental strand, 4388354 - 4388017
Alignment:
Q  31 catccaccaaagatgtagttggcaatct-atctaagggtttccaaataactccaccttcactactagca---------tgtttcaatccaagcatatcct 120  Q
    |||||||||||||||||||||| ||||| ||| |||||||||||| | | |||||||||||||||||||         ||||||| ||| ||||||||||    
T  4388354 catccaccaaagatgtagttggaaatcttatc-aagggtttccaactgagtccaccttcactactagcacaggtgtcttgtttcagtccgagcatatcct 4388256  T
Q  121 tttgctttgcaagaaattcaagcttctctagcaattctataatcctagactcaaatggattagtgaaagatgaaaagaagtcgaataccttgctagtaga 220  Q
    ||||||| ||||||||||| | |||||||||||||||| | |||||||| |||||||||||| |||||||||||||||||| ||||||||||||||||||    
T  4388255 tttgcttcgcaagaaattctaacttctctagcaattctttgatcctagattcaaatggattaatgaaagatgaaaagaagttgaataccttgctagtaga 4388156  T
Q  221 agattgagattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagc 320  Q
    || || | |||      || ||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||    
T  4388155 aggttcaaatt------tctgcttcttcaatggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcattatgtttaagatcatcaagc 4388062  T
Q  321 cacttcttcacgtacatgctttggtactgcttcatctctgcttct 365  Q
    |||||||||||| ||||||||||||||||||||||||| ||||||    
T  4388061 cacttcttcacggacatgctttggtactgcttcatctccgcttct 4388017  T

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

Target: chr3; HSP #4
Raw Score: 103; E-Value: 4e-51
Query Start/End: Original strand, 28 - 365
Target Start/End: Original strand, 5299340 - 5299686
Alignment:
Q  28 attcatccaccaaagatgtagttggcaatctatctaagggtttccaaataactccaccttcactactagca---------tgtttcaatccaagcatatc 118  Q
    |||||||||||||||||||| |||||||||| | ||| | |||||||   ||| |||||||| ||||||||         ||||| || || | ||||||    
T  5299340 attcatccaccaaagatgtacttggcaatctttttaaagctttccaaccgacttcaccttcattactagcacaaatttcttgttttaaccctaacatatc 5299439  T
Q  119 cttttgctttgcaagaaattcaagcttctctagcaattctataatcctagactcaaatggattagtgaaagatgaaaagaagtcgaataccttgctagta 218  Q
    |||||||||||| |||||||| | |||||||||||||||| | |||||||||||||| |||| |||  | ||||||||||||||||||||||||||||||    
T  5299440 cttttgctttgctagaaattctaacttctctagcaattctttgatcctagactcaaagggatcagtacacgatgaaaagaagtcgaataccttgctagta 5299539  T
Q  219 gaagattgagattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaa 318  Q
    |||| |||||| ||| |||||||||||||   |||||  |  |||||||||||||| || || || ||  | |||||  ||  ||||||||||||| |||    
T  5299540 gaaggttgagaatcaactttcagcttcttgtttggtgtgtaggttgcaatctcatccaaaagttgatctgcttcatacacaacatgtttaagatcaccaa 5299639  T
Q  319 gccacttcttcacgtacatgctttggtactgcttcatctctgcttct 365  Q
    ||||||||||||||||   ||||||||| |||||  |||| ||||||    
T  5299640 gccacttcttcacgtatgagctttggtattgctttgtctccgcttct 5299686  T

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

Target: chr3; HSP #5
Raw Score: 68; E-Value: 3e-30
Query Start/End: Original strand, 101 - 280
Target Start/End: Complemental strand, 6448120 - 6447941
Alignment:
Q  101 tttcaatccaagcatatccttttgctttgcaagaaattcaagcttctctagcaattctataatcctagactcaaatggattagtgaaagatgaaaagaag 200  Q
    ||||||| | |||| ||||||||||| ||||||| | || || |||| |||||| ||| | |||||||| ||||||||||| |  | || || || ||||    
T  6448120 tttcaattccagcacatccttttgctctgcaagataatctagattctttagcaagtctttgatcctagattcaaatggattggcaagagttggaatgaag 6448021  T
Q  201 tcgaataccttgctagtagaagattgagattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacag 280  Q
    | ||| |  ||||||||||||| ||||||||| || ||||||||||||| ||||||||||||||||||||||||||||||    
T  6448020 ttgaaaatattgctagtagaaggttgagattcggccttcagcttcttcactggtgcatcagttgcaatctcatctaacag 6447941  T

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

Target: chr3; HSP #6
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 227 - 350
Target Start/End: Original strand, 5281471 - 5281594
Alignment:
Q  227 agattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttc 326  Q
    ||||||| |||||||||| |||||| |||| ||||| ||||||||||| || |  |||||  |||||||| ||  |||||||||||||||||||||||||    
T  5281471 agattcatctttcagcttattcagttgtgcgtcagtagcaatctcatcgaaaatttggtctgcctcatatacagcatgtttaagatcatcaagccacttc 5281570  T
Q  327 ttcacgtacatgctttggtactgc 350  Q
    || || ||  |||||| |||||||    
T  5281571 tttacatatgtgcttttgtactgc 5281594  T

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

Target: chr3; HSP #7
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 227 - 365
Target Start/End: Complemental strand, 6479191 - 6479053
Alignment:
Q  227 agattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttc 326  Q
    |||||||||||||||||| || ||   ||||||||| |  ||||||||||| || |||||  | |||||  ||  ||||||||| | |||||||||||||    
T  6479191 agattcagctttcagcttatttagcattgcatcagtagatatctcatctaatagttggtctgcttcataaacaacatgtttaagtttatcaagccacttc 6479092  T
Q  327 ttcacgtacatgctttggtactgcttcatctctgcttct 365  Q
    ||||| || ||| ||||||||||||| ||||||||||||    
T  6479091 ttcacatatatgatttggtactgctttatctctgcttct 6479053  T

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

Target: chr3; HSP #8
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 254 - 364
Target Start/End: Complemental strand, 6553620 - 6553510
Alignment:
Q  254 tgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttcttcacgtacatgctttggtactgcttc 353  Q
    ||||||||| | |||||||||||| || |||||  |||||||  ||  ||||||||| |||||||||||||||||||| ||  || |||||||||||||     
T  6553620 tgcatcagtagaaatctcatctaatagttggtctgcctcataaacaacatgtttaagttcatcaagccacttcttcacatatttgttttggtactgcttt 6553521  T
Q  354 atctctgcttc 364  Q
    |||||||||||    
T  6553520 atctctgcttc 6553510  T

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

Target: chr3; HSP #9
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 254 - 364
Target Start/End: Original strand, 8455501 - 8455611
Alignment:
Q  254 tgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttcttcacgtacatgctttggtactgcttc 353  Q
    ||||||||| | |||||||||||| || |||||  | |||||  ||  |||||||||||||||||||||||||||||| ||  || |||||||||||||     
T  8455501 tgcatcagtagaaatctcatctaatagttggtctgcttcataaacaacatgtttaagatcatcaagccacttcttcacatatttgttttggtactgcttt 8455600  T
Q  354 atctctgcttc 364  Q
    |||||||||||    
T  8455601 atctctgcttc 8455611  T

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

Target: chr3; HSP #10
Raw Score: 46; E-Value: 4e-17
Query Start/End: Original strand, 227 - 364
Target Start/End: Original strand, 8590549 - 8590686
Alignment:
Q  227 agattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttc 326  Q
    ||||| |||||||||||| || ||   ||||||||| | |||||||||||| || |||||  | |||||  ||  ||||||||| |||||||||||||||    
T  8590549 agatttagctttcagcttatttagcattgcatcagtagaaatctcatctaatagttggtctgcttcataaacaacatgtttaagttcatcaagccacttc 8590648  T
Q  327 ttcacgtacatgctttggtactgcttcatctctgcttc 364  Q
    ||||| ||  ||||| |||||||||| |||||||||||    
T  8590649 ttcacatatttgcttcggtactgctttatctctgcttc 8590686  T

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

Target: chr3; HSP #11
Raw Score: 45; E-Value: 1e-16
Query Start/End: Original strand, 227 - 331
Target Start/End: Original strand, 6948089 - 6948193
Alignment:
Q  227 agattcagctttcagcttcttcagtggtgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttc 326  Q
    |||||||||||||||||| || ||   ||||||||| | ||||||||||||||| |||||  |||||||  ||  ||||||||| |||||||||||||||    
T  6948089 agattcagctttcagcttatttagcattgcatcagtagaaatctcatctaacagttggtctgcctcatagacaacatgtttaagttcatcaagccacttc 6948188  T
Q  327 ttcac 331  Q
    |||||    
T  6948189 ttcac 6948193  T

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

Target: chr3; HSP #12
Raw Score: 44; E-Value: 6e-16
Query Start/End: Original strand, 254 - 365
Target Start/End: Complemental strand, 6519344 - 6519233
Alignment:
Q  254 tgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttcttcacgtacatgctttggtactgcttc 353  Q
    ||||||||| | |||||||||||| || |||||  | |||||  ||  ||||||||| |||||||||||||||||||| ||  || ||||||||||||||    
T  6519344 tgcatcagtagaaatctcatctaatagttggtctgcttcataaacaacatgtttaagttcatcaagccacttcttcacatatttgttttggtactgcttc 6519245  T
Q  354 atctctgcttct 365  Q
    | ||||||||||    
T  6519244 agctctgcttct 6519233  T

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

Target: chr3; HSP #13
Raw Score: 39; E-Value: 0.0000000000005
Query Start/End: Original strand, 302 - 364
Target Start/End: Original strand, 6736885 - 6736947
Alignment:
Q  302 atgtttaagatcatcaagccacttcttcacgtacatgctttggtactgcttcatctctgcttc 364  Q
    ||||||||| |||||||||||||||||||| ||  || ||||||||||||| |||||||||||    
T  6736885 atgtttaagttcatcaagccacttcttcacatatttgttttggtactgctttatctctgcttc 6736947  T

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

Target: chr3; HSP #14
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 118 - 195
Target Start/End: Complemental strand, 6838222 - 6838145
Alignment:
Q  118 ccttttgctttgcaagaaattcaagcttctctagcaattctataatcctagactcaaatggattagtgaaagatgaaa 195  Q
    ||||||||| ||||||| |||  |||||  ||||||| ||| | |||||||| |||||||||||||||| || |||||    
T  6838222 ccttttgctctgcaagatattttagcttgcctagcaactctttgatcctagattcaaatggattagtgatagctgaaa 6838145  T

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

Target: scaffold0425 (Bit Score: 47; Significance: 9e-18; HSPs: 1)
Name: scaffold0425
Description:

Target: scaffold0425; HSP #1
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 254 - 364
Target Start/End: Complemental strand, 6659 - 6549
Alignment:
Q  254 tgcatcagttgcaatctcatctaacagctggtcaacctcatatgcataatgtttaagatcatcaagccacttcttcacgtacatgctttggtactgcttc 353  Q
    ||||||||| | |||||||||||| || |||||  |||||||  ||  ||||||||| |||||||||||||||||||| ||  || |||||||||||||     
T  6659 tgcatcagtagaaatctcatctaatagttggtctgcctcataaacaacatgtttaagttcatcaagccacttcttcacatatttgttttggtactgcttt 6560  T
Q  354 atctctgcttc 364  Q
    |||||||||||    
T  6559 atctctgcttc 6549  T

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

Target: chr4 (Bit Score: 32; Significance: 0.000000008; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 32; E-Value: 0.000000008
Query Start/End: Original strand, 302 - 349
Target Start/End: Complemental strand, 41068463 - 41068416
Alignment:
Q  302 atgtttaagatcatcaagccacttcttcacgtacatgctttggtactg 349  Q
    ||||||||| ||||||||||| |||||||| || ||||||||||||||    
T  41068463 atgtttaagttcatcaagccaattcttcacatatatgctttggtactg 41068416  T

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



© Oklahoma State University