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: NF9040_low_9 (Length: 721)

Name: NF9040_low_9
Description: NF9040
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9040_low_9
NF9040_low_9
[»] chr1 (10 HSPs)
chr1 (11-455)||(16437719-16438157)
chr1 (484-692)||(16438158-16438368)
chr1 (470-616)||(16499281-16499427)
chr1 (495-632)||(16419719-16419856)
chr1 (504-614)||(16416558-16416668)
chr1 (504-620)||(16427471-16427587)
chr1 (505-616)||(16443069-16443180)
chr1 (518-620)||(16432826-16432922)
chr1 (308-356)||(16420002-16420050)
chr1 (641-690)||(16499470-16499519)
[»] chr3 (1 HSPs)
chr3 (92-215)||(49929077-49929200)
[»] chr8 (8 HSPs)
chr8 (535-584)||(2053869-2053918)
chr8 (535-600)||(10767261-10767326)
chr8 (541-584)||(2032628-2032671)
chr8 (535-581)||(2021933-2021979)
chr8 (535-580)||(1950865-1950910)
chr8 (535-580)||(2028086-2028131)
chr8 (535-580)||(2036677-2036722)
chr8 (535-580)||(2046054-2046099)


Alignment Details
Target: chr1 (Bit Score: 333; Significance: 0; HSPs: 10)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 333; E-Value: 0
Query Start/End: Original strand, 11 - 455
Target Start/End: Original strand, 16437719 - 16438157
Alignment:
Q  11 cagagaataaaagattgcatgttggaagggtataggtaaatcatgaaagttatacaagttacgacttgcatcggtcggtatc-tgagtttgaagtactta 109  Q
    |||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| |||||||||    
T  16437719 cagagaataaaatattgcatgttggaagggtataggtaaatcatgaaagttatacaagttacgacttgcatcggtcggtatcctgagtttaaagtactta 16437818  T
Q  110 tttgaccaaaaggagttatgcatgaggcaaacaagatggatgaatttcataaatgattacgattttgcagtacaatatcattccggaaagacaaaaatag 209  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||    
T  16437819 tttgaccaaaaggagttatgcatgaggcaaacaagatggatgaatttcataaatgattacaattttgcagtacaatatcattccgaaaagacaaaaatag 16437918  T
Q  210 ttgcaaatgctgagtagaaatattacatatgacaacaatgctttgaatagttgcaaatactctatctgtgaacagagcttggtcaatgnnnnnnngtcaa 309  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       |||||    
T  16437919 ttgcaaatgctgagtagaaatattacatatgacaacaatgctttgaatagttgcaaatactctatctgtgaacagagcttggtcaatgtatttttgtcaa 16438018  T
Q  310 gttgatattatttgttttattgctcgacctttgtgtcaaatttaatataatgttttatattaaaatgtgagtcttcctcacttaatttgttttattgctc 409  Q
    ||||||||||||||||||||||||||||||||||||||||            ||||||||||||||||||||||||||||||||||||| ||||||||||    
T  16438019 gttgatattatttgttttattgctcgacctttgtgtcaaa------------ttttatattaaaatgtgagtcttcctcacttaatttgctttattgctc 16438106  T
Q  410 aacctttg-----atgaaacattcagtgtagaaaaagtccataaggctatt 455  Q
    ||||||||     |  |||||||||||||||||||||||||||||||||||    
T  16438107 aacctttgtgtccaaaaaacattcagtgtagaaaaagtccataaggctatt 16438157  T

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

Target: chr1; HSP #2
Raw Score: 156; E-Value: 2e-82
Query Start/End: Original strand, 484 - 692
Target Start/End: Original strand, 16438158 - 16438368
Alignment:
Q  484 agtgaaaagtaagagaaa--gccatggcagattcagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgc 581  Q
    |||||||| ||||||| |  |||||| || ||||||||||| |||||  ||||||||||||||||||||||||| | |||||||||||||||||||||||    
T  16438158 agtgaaaaataagagacaaggccatgacaaattcagaaagaataaaaacactaaaagcttttgatgaaacaaaattgggtgttaaaggacttgttgatgc 16438257  T
Q  582 agggattaccaagatccctcgtatgttctatcatccacccgatcacaccaaagagtccggggatgcaacaaattatactattccttttatagatcttgct 681  Q
    ||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  16438258 agggattaccaagatccctcgtatgttctatcatccacctgatcacaccaacgagtccggggatgcaacaaattatactattccttttatagatcttgct 16438357  T
Q  682 aacattgataa 692  Q
    |||||||||||    
T  16438358 aacattgataa 16438368  T

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

Target: chr1; HSP #3
Raw Score: 115; E-Value: 5e-58
Query Start/End: Original strand, 470 - 616
Target Start/End: Original strand, 16499281 - 16499427
Alignment:
Q  470 tcactggtactacaagtgaaaagtaagagaaagccatggcagattcagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaagg 569  Q
    ||||| ||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||||    
T  16499281 tcactagtactacaagtgaaaagtaagagaaaggcatggcagattcagaaagagtaaaagaactcaaagcttttgatgatacaaaacttggtgttaaagg 16499380  T
Q  570 acttgttgatgcagggattaccaagatccctcgtatgttctatcatc 616  Q
    |||||||||||||||||||||||| ||||||| ||| || |||||||    
T  16499381 acttgttgatgcagggattaccaaaatccctcatatattttatcatc 16499427  T

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

Target: chr1; HSP #4
Raw Score: 94; E-Value: 2e-45
Query Start/End: Original strand, 495 - 632
Target Start/End: Complemental strand, 16419856 - 16419719
Alignment:
Q  495 agagaaagccatggcagattcagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaag 594  Q
    ||||||||| |||| ||||||||| ||||| |||  ||| ||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||||||    
T  16419856 agagaaagctatggaagattcagagagagtgaaaatactgaaagcttttgatgaaacaaaatttggtgtaaaaggacttgttgatgcagggattaccaag 16419757  T
Q  595 atccctcgtatgttctatcatccacccgatcacaccaa 632  Q
    ||||||| |||||||||||||||||| |||||||||||    
T  16419756 atccctcatatgttctatcatccacctgatcacaccaa 16419719  T

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

Target: chr1; HSP #5
Raw Score: 91; E-Value: 1e-43
Query Start/End: Original strand, 504 - 614
Target Start/End: Complemental strand, 16416668 - 16416558
Alignment:
Q  504 catggcagattcagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaagatccctcgt 603  Q
    ||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||    
T  16416668 catggaagatttagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgtcgatgcagggattacaaagatccctcgt 16416569  T
Q  604 atgttctatca 614  Q
    || ||||||||    
T  16416568 attttctatca 16416558  T

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

Target: chr1; HSP #6
Raw Score: 89; E-Value: 2e-42
Query Start/End: Original strand, 504 - 620
Target Start/End: Complemental strand, 16427587 - 16427471
Alignment:
Q  504 catggcagattcagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaagatccctcgt 603  Q
    ||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| ||| ||||||||    
T  16427587 catggaagatttagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttagaggacttgttgatgcagggattacaaaggtccctcgt 16427488  T
Q  604 atgttctatcatccacc 620  Q
    || |||||||| |||||    
T  16427487 attttctatcaaccacc 16427471  T

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

Target: chr1; HSP #7
Raw Score: 80; E-Value: 4e-37
Query Start/End: Original strand, 505 - 616
Target Start/End: Complemental strand, 16443180 - 16443069
Alignment:
Q  505 atggcagattcagaaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaagatccctcgta 604  Q
    |||| ||||| ||||||| ||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| ||    
T  16443180 atggaagatttagaaagaataaaagaactaaaagattttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaaaatccctcata 16443081  T
Q  605 tgttctatcatc 616  Q
    | || |||||||    
T  16443080 tattttatcatc 16443069  T

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

Target: chr1; HSP #8
Raw Score: 60; E-Value: 3e-25
Query Start/End: Original strand, 518 - 620
Target Start/End: Complemental strand, 16432922 - 16432826
Alignment:
Q  518 aaagagtaaaagaactaaaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaagatccctcgtatgttctatcatcc 617  Q
    |||||||||||||||| |||||||||||||||| ||||||||||||||||||||||||      ||||||||||||| |||||||||| |||||||| ||    
T  16432922 aaagagtaaaagaacttaaagcttttgatgaaaaaaaacttggtgttaaaggacttgt------agggattaccaaggtccctcgtatcttctatcaacc 16432829  T

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

Target: chr1; HSP #9
Raw Score: 45; E-Value: 3e-16
Query Start/End: Original strand, 308 - 356
Target Start/End: Complemental strand, 16420050 - 16420002
Alignment:
Q  308 aagttgatattatttgttttattgctcgacctttgtgtcaaatttaata 356  Q
    |||||||||||||||||||||||||||||||||||||||||| ||||||    
T  16420050 aagttgatattatttgttttattgctcgacctttgtgtcaaaattaata 16420002  T

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

Target: chr1; HSP #10
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 641 - 690
Target Start/End: Original strand, 16499470 - 16499519
Alignment:
Q  641 gggatgcaacaaattatactattccttttatagatcttgctaacattgat 690  Q
    |||| ||| |||||||||||||| || | |||||||||||||||||||||    
T  16499470 gggacgcatcaaattatactattgctgtgatagatcttgctaacattgat 16499519  T

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

Target: chr3 (Bit Score: 64; Significance: 1e-27; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 64; E-Value: 1e-27
Query Start/End: Original strand, 92 - 215
Target Start/End: Original strand, 49929077 - 49929200
Alignment:
Q  92 ctgagtttgaagtacttatttgaccaaaaggagttatgcatgaggcaaacaagatggatgaatttcataaatgattacgattttgcagtacaatatcatt 191  Q
    ||||||| ||||||||| ||||||||||| ||||||  || |||||||| ||||||||||||||||||||||||||| ||||||||| |||||||||||     
T  49929077 ctgagttggaagtacttgtttgaccaaaatgagttaaacacgaggcaaagaagatggatgaatttcataaatgattatgattttgcactacaatatcatc 49929176  T
Q  192 ccggaaagacaaaaatagttgcaa 215  Q
      | |||| |||| ||||||||||    
T  49929177 tggtaaaggcaaatatagttgcaa 49929200  T

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

Target: chr8 (Bit Score: 34; Significance: 0.000000001; HSPs: 8)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 535 - 584
Target Start/End: Original strand, 2053869 - 2053918
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagg 584  Q
    ||||| |||||||||||||||  |||||| ||||||||||||||||||||    
T  2053869 aaagcatttgatgaaacaaaagctggtgtaaaaggacttgttgatgcagg 2053918  T

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

Target: chr8; HSP #2
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 535 - 600
Target Start/End: Original strand, 10767261 - 10767326
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgcagggattaccaagatccct 600  Q
    ||||| |||||||||||||||  |||||| |||||||||||||||| |||  ||| ||||||||||    
T  10767261 aaagcatttgatgaaacaaaagctggtgtaaaaggacttgttgatggaggacttaacaagatccct 10767326  T

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

Target: chr8; HSP #3
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 541 - 584
Target Start/End: Original strand, 2032628 - 2032671
Alignment:
Q  541 tttgatgaaacaaaacttggtgttaaaggacttgttgatgcagg 584  Q
    |||||||||||||||  |||||| ||||||||||||||||||||    
T  2032628 tttgatgaaacaaaagctggtgtaaaaggacttgttgatgcagg 2032671  T

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

Target: chr8; HSP #4
Raw Score: 31; E-Value: 0.00000007
Query Start/End: Original strand, 535 - 581
Target Start/End: Original strand, 2021933 - 2021979
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatgc 581  Q
    ||||| |||||||||||||||  |||||| |||||||||||||||||    
T  2021933 aaagcatttgatgaaacaaaagatggtgtcaaaggacttgttgatgc 2021979  T

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

Target: chr8; HSP #5
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 535 - 580
Target Start/End: Complemental strand, 1950910 - 1950865
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatg 580  Q
    ||||| |||||||||||||||  |||||| ||||||||||||||||    
T  1950910 aaagcatttgatgaaacaaaagctggtgtaaaaggacttgttgatg 1950865  T

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

Target: chr8; HSP #6
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 535 - 580
Target Start/End: Original strand, 2028086 - 2028131
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatg 580  Q
    ||||| |||||||||||||||  |||||| ||||||||||||||||    
T  2028086 aaagcatttgatgaaacaaaagctggtgtaaaaggacttgttgatg 2028131  T

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

Target: chr8; HSP #7
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 535 - 580
Target Start/End: Original strand, 2036677 - 2036722
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatg 580  Q
    ||||| |||||||||||||||  |||||| ||||||||||||||||    
T  2036677 aaagcatttgatgaaacaaaatctggtgtgaaaggacttgttgatg 2036722  T

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

Target: chr8; HSP #8
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 535 - 580
Target Start/End: Original strand, 2046054 - 2046099
Alignment:
Q  535 aaagcttttgatgaaacaaaacttggtgttaaaggacttgttgatg 580  Q
    ||||| |||||||||||||||  |||||| ||||||||||||||||    
T  2046054 aaagcatttgatgaaacaaaatctggtgtgaaaggacttgttgatg 2046099  T

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



© Oklahoma State University