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: NF16618_low_1 (Length: 997)

Name: NF16618_low_1
Description: NF16618
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF16618_low_1
NF16618_low_1
[»] chr1 (17 HSPs)
chr1 (45-516)||(12534981-12535452)
chr1 (506-981)||(12535468-12535945)
chr1 (730-981)||(12533190-12533441)
chr1 (697-904)||(12540193-12540400)
chr1 (261-414)||(12540795-12540948)
chr1 (41-154)||(12541135-12541244)
chr1 (821-873)||(676928-676980)
chr1 (469-516)||(12540669-12540716)
chr1 (297-375)||(12532772-12532850)
chr1 (462-516)||(14508736-14508790)
chr1 (469-513)||(12532927-12532971)
chr1 (468-516)||(14470551-14470599)
chr1 (815-946)||(28238726-28238857)
chr1 (542-584)||(12540578-12540620)
chr1 (554-596)||(47569165-47569207)
chr1 (106-139)||(14508394-14508427)
chr1 (109-150)||(47569738-47569779)
[»] chr6 (3 HSPs)
chr6 (273-419)||(384373-384519)
chr6 (83-139)||(384135-384191)
chr6 (468-516)||(384622-384670)
[»] chr5 (2 HSPs)
chr5 (540-596)||(1717895-1717951)
chr5 (462-506)||(1718005-1718049)
[»] chr2 (1 HSPs)
chr2 (469-507)||(9066403-9066441)


Alignment Details
Target: chr1 (Bit Score: 444; Significance: 0; HSPs: 17)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 444; E-Value: 0
Query Start/End: Original strand, 45 - 516
Target Start/End: Original strand, 12534981 - 12535452
Alignment:
Q  45 gttattttctagtgcacacacttggaagcaaacctacatatagaaatgcaagtaaaaacagaagcatagtcctttaattagaaaactagaaagcaagtag 144  Q
    ||||||||||||||||||||||||||||||||| ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12534981 gttattttctagtgcacacacttggaagcaaacttacatatagaaatgcgagtaaaaacagaagcatagtcctttaattagaaaactagaaagcaagtag 12535080  T
Q  145 tctacaatatgctacatgagaagtagctcctttgtttttggcacatccttatttcctgtatcatacagctaacttccacaataatggtattattccagaa 244  Q
    |||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||  |||||||||||||||||||||||||||||||||||||    
T  12535081 tctacaatattctacatgagaagtagctcctttgtttttggcacatccttatttcttgtattgtacagctaacttccacaataatggtattattccagaa 12535180  T
Q  245 aaggtttgcaaaattgcaaactcagctcttccacttttcttgcaaccttaattcttccacctttgtatagtccaccaaccacagattgatagctagcgag 344  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  12535181 aaggtttgcaaaattgcaaactcagctcttccacttttcttgcaaccttaactcttccacctttgtatagtccaccaaccacagattgatagctagcgag 12535280  T
Q  345 atgaggttggacaccacgttttatcagcacacacaaggctcgtttagcagctttgacctcatgttctgtacctaattctaaagtgggaatacaagtactt 444  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12535281 atgaggttggacaccacgttttatcagcacacacaaggctcgtttagcagctttgacctcatgttctgtacctaattctaaagtgggaatacaagtactt 12535380  T
Q  445 gtgttgatgttttctattgccttcaattctctaaacatggcaattgcttgtttaaattgaccggtgatgcaa 516  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12535381 gtgttgatgttttctattgccttcaattctctaaacatggcaattgcttgtttaaattgaccggtgatgcaa 12535452  T

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

Target: chr1; HSP #2
Raw Score: 439; E-Value: 0
Query Start/End: Original strand, 506 - 981
Target Start/End: Original strand, 12535468 - 12535945
Alignment:
Q  506 cggtgatgcaagccacgatcacgcataactcgtttgttcttaacaactatttcagaaaataaagcataggcttcgtttacaagtctatcttcgccg--cc 603  Q
    ||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |  ||    
T  12535468 cggtgatgcaagccacgattacgcataactcgtttgttcttaacaactatttcagaaaataaagcataggcttcgtttacaagtctatcttcgcagagcc 12535567  T
Q  604 tagatatgacttttgcatacaccaccatgaggcgaacaaaacaagtaacagtatcatgttcacatggtctctgtctcaacaagtgtgtggccattttaat 703  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  12535568 tagatatgacttttgcatacaccaccatgaggcgaacaaaacaagtaacagtatcatgttcacatggtcgctgtctcaacaagtgtgtggccattttaat 12535667  T
Q  704 ttctcctatcccacataaacaatggattagaatatcataactacgatcgtccaactcaaaaccctttaagatggagtaattaaaaaacataattgattta 803  Q
    |||||||||||||||||||||||| ||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||| ||||    
T  12535668 ttctcctatcccacataaacaatgaattagaatatcataactacaatcgtccaactcaaaaccctttaagatggagtaattaaaaaacataattgcttta 12535767  T
Q  804 gaaatctggcctctatcacataaaccttgtaaaagataattcaaagtggaagcagtaggacgatgaccggctttaatgatattgtggaatagagagaaag 903  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||    
T  12535768 gaaatctggcctctatcacataaaccttgtaaaagataattcaaagtggaagcagtaggacgatgaccggctttaatgatattgtggaatagacagaaag 12535867  T
Q  904 ccgaggacatgttaccagtggcacaatgacagtcgatgaggattttccaagtatcaacgtttgggaaaacattattat 981  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12535868 ccgaggacatgttaccagtggcacaatgacagtcgatgaggattttccaagtatcaacgtttgggaaaacattattat 12535945  T

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

Target: chr1; HSP #3
Raw Score: 76; E-Value: 1e-34
Query Start/End: Original strand, 730 - 981
Target Start/End: Original strand, 12533190 - 12533441
Alignment:
Q  730 ttagaatatcataactacgatcgtccaactcaaaaccctttaagatggagtaattaaaaaacataattgatttagaaatctggcctctatcacataaacc 829  Q
    ||||||||  ||||||| ||| || ||||| |||||||||||  |||| ||||||| |||||||||||| |||| |||||||||||||   |||||||||    
T  12533190 ttagaatagaataactatgatggttcaactgaaaaccctttagtatggtgtaattataaaacataattgctttataaatctggcctctgagacataaacc 12533289  T
Q  830 ttgtaaaagataattcaaagtggaagcagtaggacgatgaccggctttaatgatattgtggaatagagagaaagccgaggacatgttaccagtggcacaa 929  Q
    | | ||||||| |||||| ||||||| |||||||||| |||| | || |||||| ||  |||||||  |||| || ||| |||||||||| |   |||||    
T  12533290 tcgaaaaagatcattcaatgtggaagtagtaggacgacgaccagtttcaatgattttacggaatagctagaatgctgagaacatgttacccgattcacaa 12533389  T
Q  930 tgacagtcgatgaggattttccaagtatcaacgtttgggaaaacattattat 981  Q
    |||||   | ||||||||||||||||||||| ||||||| ||| ||| ||||    
T  12533390 tgacaactggtgaggattttccaagtatcaatgtttggggaaatattgttat 12533441  T

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

Target: chr1; HSP #4
Raw Score: 68; E-Value: 8e-30
Query Start/End: Original strand, 697 - 904
Target Start/End: Complemental strand, 12540400 - 12540193
Alignment:
Q  697 ttttaatttctcctatcccacataaacaatggattagaatatcataactacgatcgtccaactcaaaaccctttaagatggagtaattaaaaaacataat 796  Q
    ||||| |||||||||||  |||||||| |||||||| ||||  |||| |   |  || ||||| |||||||||||  |||| ||||||| ||||||||||    
T  12540400 ttttagtttctcctatcttacataaaccatggattataatagaataagtctcaaggttcaactgaaaaccctttagtatggtgtaattataaaacataat 12540301  T
Q  797 tgatttagaaatctggcctctatcacataaaccttgtaaaagataattcaaagtggaagcagtaggacgatgaccggctttaatgatattgtggaataga 896  Q
    || |||| |||||||||||||   |||||||||| | |||| || |||||| ||||||| |||||||||||||||| ||| ||| ||  |||||||||||    
T  12540300 tgctttataaatctggcctctgagacataaacctcgaaaaatatcattcaatgtggaagtagtaggacgatgaccgtcttcaattattctgtggaataga 12540201  T
Q  897 gagaaagc 904  Q
    ||||||||    
T  12540200 gagaaagc 12540193  T

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

Target: chr1; HSP #5
Raw Score: 54; E-Value: 2e-21
Query Start/End: Original strand, 261 - 414
Target Start/End: Complemental strand, 12540948 - 12540795
Alignment:
Q  261 caaactcagctcttccacttttcttgcaaccttaattcttccacctttgtatagtccaccaaccacagattgatagctagcgagatgaggttggacacca 360  Q
    |||||||| ||||||||  ||||||| ||| |||| | ||||||| |||||||||||||||||||| |||||| | ||||| |||| ||||| ||||||     
T  12540948 caaactcaactcttccatctttcttgtaactttaactgttccaccattgtatagtccaccaaccacggattgacaactagcaagatcaggtttgacaccg 12540849  T
Q  361 cgttttatcagcacacacaaggctcgtttagcagctttgacctcatgttctgta 414  Q
    ||||||||||| |||   |  |||| |||||||||| | ||||| |||||||||    
T  12540848 cgttttatcagaacagcaactgctcttttagcagctgtcacctcttgttctgta 12540795  T

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

Target: chr1; HSP #6
Raw Score: 45; E-Value: 4e-16
Query Start/End: Original strand, 41 - 154
Target Start/End: Complemental strand, 12541244 - 12541135
Alignment:
Q  41 cattgttattttctagtgcacacacttggaagcaaacctacatatagaaatgcaagtaaaaacagaagcatagtcctttaattagaaaactagaaagcaa 140  Q
    |||| |||||||  ||||||||||||||||||||||     || ||||| || |||||||| ||||||||| |||||| ||||| ||||||||||||||     
T  12541244 cattattattttgcagtgcacacacttggaagcaaag----atgtagaagtgaaagtaaaagcagaagcatggtccttaaattaaaaaactagaaagcat 12541149  T
Q  141 gtagtctacaatat 154  Q
    ||| ||||||||||    
T  12541148 gtaatctacaatat 12541135  T

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

Target: chr1; HSP #7
Raw Score: 41; E-Value: 0.0000000000001
Query Start/End: Original strand, 821 - 873
Target Start/End: Complemental strand, 676980 - 676928
Alignment:
Q  821 acataaaccttgtaaaagataattcaaagtggaagcagtaggacgatgaccgg 873  Q
    ||||||||||| |||||||| |||||||||||||| |||||||||||||||||    
T  676980 acataaaccttttaaaagatgattcaaagtggaagtagtaggacgatgaccgg 676928  T

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

Target: chr1; HSP #8
Raw Score: 36; E-Value: 0.00000000009
Query Start/End: Original strand, 469 - 516
Target Start/End: Complemental strand, 12540716 - 12540669
Alignment:
Q  469 aattctctaaacatggcaattgcttgtttaaattgaccggtgatgcaa 516  Q
    ||||||||||||| |||||||||||| ||||||||||| |||||||||    
T  12540716 aattctctaaacaaggcaattgcttgcttaaattgaccagtgatgcaa 12540669  T

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

Target: chr1; HSP #9
Raw Score: 35; E-Value: 0.0000000004
Query Start/End: Original strand, 297 - 375
Target Start/End: Original strand, 12532772 - 12532850
Alignment:
Q  297 tcttccacctttgtatagtccaccaaccacagattgatagctagcgagatgaggttggacaccacgttttatcagcaca 375  Q
    ||||||||||||| | || ||||||  ||| |||||||| ||||| |||| ||||| |||||| |||||||||||||||    
T  12532772 tcttccacctttggacaggccaccactcacggattgataactagcaagattaggtttgacaccgcgttttatcagcaca 12532850  T

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

Target: chr1; HSP #10
Raw Score: 35; E-Value: 0.0000000004
Query Start/End: Original strand, 462 - 516
Target Start/End: Original strand, 14508736 - 14508790
Alignment:
Q  462 tgccttcaattctctaaacatggcaattgcttgtttaaattgaccggtgatgcaa 516  Q
    ||||| ||||| |||||||| |||||||||||||||||||||||||  |||||||    
T  14508736 tgcctccaattttctaaacaaggcaattgcttgtttaaattgaccgacgatgcaa 14508790  T

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

Target: chr1; HSP #11
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 469 - 513
Target Start/End: Original strand, 12532927 - 12532971
Alignment:
Q  469 aattctctaaacatggcaattgcttgtttaaattgaccggtgatg 513  Q
    |||||| |||||| ||||||||||||||||||||||||| |||||    
T  12532927 aattctttaaacaaggcaattgcttgtttaaattgaccgttgatg 12532971  T

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

Target: chr1; HSP #12
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 468 - 516
Target Start/End: Original strand, 14470551 - 14470599
Alignment:
Q  468 caattctctaaacatggcaattgcttgtttaaattgaccggtgatgcaa 516  Q
    |||||||||||||| ||||||||||| ||||||||||||  ||||||||    
T  14470551 caattctctaaacaaggcaattgcttttttaaattgaccaatgatgcaa 14470599  T

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

Target: chr1; HSP #13
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 815 - 946
Target Start/End: Complemental strand, 28238857 - 28238726
Alignment:
Q  815 tctatcacataaaccttgtaaaagataattcaaagtggaagcagtaggacgatgaccggctttaatgatattgtggaatagagagaaagccgaggacatg 914  Q
    ||||||||| ||||| | ||||||| ||| ||||||   |||||||||| |||||||||  |  ||||| || ||||| ||||||| ||| || ||||||    
T  28238857 tctatcacaaaaaccatataaaagagaatacaaagtaccagcagtaggatgatgaccggtgtcgatgatcttatggaaaagagagatagctgaagacatg 28238758  T
Q  915 ttaccagtggcacaatgacagtcgatgaggat 946  Q
    ||||||  | || ||||||| | |||||||||    
T  28238757 ttaccatcgacagaatgacatttgatgaggat 28238726  T

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

Target: chr1; HSP #14
Raw Score: 31; E-Value: 0.00000009
Query Start/End: Original strand, 542 - 584
Target Start/End: Complemental strand, 12540620 - 12540578
Alignment:
Q  542 ttcttaacaactatttcagaaaataaagcataggcttcgttta 584  Q
    ||||||||||  ||||||||||||||| |||||||||||||||    
T  12540620 ttcttaacaatcatttcagaaaataaatcataggcttcgttta 12540578  T

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

Target: chr1; HSP #15
Raw Score: 31; E-Value: 0.00000009
Query Start/End: Original strand, 554 - 596
Target Start/End: Complemental strand, 47569207 - 47569165
Alignment:
Q  554 atttcagaaaataaagcataggcttcgtttacaagtctatctt 596  Q
    ||||||||| ||||| ||||||||| |||||||||||||||||    
T  47569207 atttcagaatataaatcataggcttggtttacaagtctatctt 47569165  T

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

Target: chr1; HSP #16
Raw Score: 30; E-Value: 0.0000004
Query Start/End: Original strand, 106 - 139
Target Start/End: Original strand, 14508394 - 14508427
Alignment:
Q  106 aagcatagtcctttaattagaaaactagaaagca 139  Q
    |||||||||||||||||||||||| |||||||||    
T  14508394 aagcatagtcctttaattagaaaaatagaaagca 14508427  T

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

Target: chr1; HSP #17
Raw Score: 30; E-Value: 0.0000004
Query Start/End: Original strand, 109 - 150
Target Start/End: Complemental strand, 47569779 - 47569738
Alignment:
Q  109 catagtcctttaattagaaaactagaaagcaagtagtctaca 150  Q
    |||||||||| |||||||||||||||||||| ||| ||||||    
T  47569779 catagtccttaaattagaaaactagaaagcatgtaatctaca 47569738  T

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

Target: chr6 (Bit Score: 51; Significance: 1e-19; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 51; E-Value: 1e-19
Query Start/End: Original strand, 273 - 419
Target Start/End: Original strand, 384373 - 384519
Alignment:
Q  273 ttccacttttcttgcaaccttaattcttccacctttgtatagtccaccaaccacagattgatagctagcgagatgaggttggacaccacgttttatcagc 372  Q
    |||||| |||||||||| ||||| ||||||||||||| | |||||||||| |||||| ||| |   ||| |||| ||||| |||||| ||||| ||||||    
T  384373 ttccacctttcttgcaatcttaactcttccacctttgaacagtccaccaatcacagactgacaagcagcaagattaggtttgacaccgcgtttaatcagc 384472  T
Q  373 acacacaaggctcgtttagcagctttgacctcatgttctgtacctaa 419  Q
    |||   | ||||| |||||||| ||||||||| ||||||||| ||||    
T  384473 acagctacggctcttttagcagatttgacctcttgttctgtaactaa 384519  T

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

Target: chr6; HSP #2
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 83 - 139
Target Start/End: Original strand, 384135 - 384191
Alignment:
Q  83 tatagaaatgcaagtaaaaacagaagcatagtcctttaattagaaaactagaaagca 139  Q
    ||||||| ||||| ||||| |||||||||||| | | ||||||||||||||||||||    
T  384135 tatagaagtgcaactaaaagcagaagcatagtgcataaattagaaaactagaaagca 384191  T

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

Target: chr6; HSP #3
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 468 - 516
Target Start/End: Original strand, 384622 - 384670
Alignment:
Q  468 caattctctaaacatggcaattgcttgtttaaattgaccggtgatgcaa 516  Q
    ||||||| |||||| |||||||||||||||||||||||  |||||||||    
T  384622 caattctttaaacaaggcaattgcttgtttaaattgacgagtgatgcaa 384670  T

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

Target: chr5 (Bit Score: 33; Significance: 0.000000006; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 540 - 596
Target Start/End: Complemental strand, 1717951 - 1717895
Alignment:
Q  540 tgttcttaacaactatttcagaaaataaagcataggcttcgtttacaagtctatctt 596  Q
    ||||||| ||||  ||||||||| ||||| ||||||||| |||||||||||||||||    
T  1717951 tgttctttacaatcatttcagaatataaatcataggcttggtttacaagtctatctt 1717895  T

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

Target: chr5; HSP #2
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 462 - 506
Target Start/End: Complemental strand, 1718049 - 1718005
Alignment:
Q  462 tgccttcaattctctaaacatggcaattgcttgtttaaattgacc 506  Q
    ||||| ||||| |||||||| ||||||||||||||||||||||||    
T  1718049 tgcctccaattttctaaacaaggcaattgcttgtttaaattgacc 1718005  T

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

Target: chr2 (Bit Score: 31; Significance: 0.00000009; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000009
Query Start/End: Original strand, 469 - 507
Target Start/End: Complemental strand, 9066441 - 9066403
Alignment:
Q  469 aattctctaaacatggcaattgcttgtttaaattgaccg 507  Q
    ||||||||||||| |||||||||| ||||||||||||||    
T  9066441 aattctctaaacaaggcaattgctggtttaaattgaccg 9066403  T

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



© Oklahoma State University