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: NF7559_high_1 (Length: 704)

Name: NF7559_high_1
Description: NF7559
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF7559_high_1
NF7559_high_1
[»] scaffold0256 (3 HSPs)
scaffold0256 (366-557)||(10295-10485)
scaffold0256 (554-653)||(10169-10268)
scaffold0256 (238-332)||(10534-10628)
[»] scaffold0133 (4 HSPs)
scaffold0133 (330-559)||(9673-9906)
scaffold0133 (229-559)||(14012-14335)
scaffold0133 (553-693)||(9509-9649)
scaffold0133 (585-693)||(13857-13965)
[»] chr6 (6 HSPs)
chr6 (552-693)||(16782107-16782248)
chr6 (377-469)||(16782917-16783010)
chr6 (399-468)||(16875996-16876065)
chr6 (501-559)||(16659176-16659233)
chr6 (147-193)||(16783126-16783172)
chr6 (501-554)||(16661196-16661248)
[»] chr3 (4 HSPs)
chr3 (562-682)||(38938385-38938504)
chr3 (465-523)||(38938275-38938333)
chr3 (147-201)||(38942211-38942265)
chr3 (251-297)||(38942398-38942444)
[»] chr5 (2 HSPs)
chr5 (465-556)||(11982848-11982938)
chr5 (635-681)||(11983122-11983168)


Alignment Details
Target: scaffold0256 (Bit Score: 132; Significance: 3e-68; HSPs: 3)
Name: scaffold0256
Description:

Target: scaffold0256; HSP #1
Raw Score: 132; E-Value: 3e-68
Query Start/End: Original strand, 366 - 557
Target Start/End: Complemental strand, 10485 - 10295
Alignment:
Q  366 tgcacttccggtacacttgccaacttgaaatattaaataattagtattacaattatttggtattggattctctctgatgaaatctaggccacacaagaac 465  Q
    |||||||  |||||||| |||||||||||||||||||||||||||||||||||||| |||||||||||||||| ||||||||||||||||||||||||||    
T  10485 tgcacttgaggtacact-gccaacttgaaatattaaataattagtattacaattatatggtattggattctctttgatgaaatctaggccacacaagaac 10387  T
Q  466 aaatgaatgggcatgatgttgtttcataagataagttttccaattttgttttattccccttcattgccatgtagcttcacaacttgtttttt 557  Q
    ||||||| ||||||||||||||| ||||||||||||||||||||||| |||| ||||  ||||| |||||||  ||||||||||||||||||    
T  10386 aaatgaacgggcatgatgttgttacataagataagttttccaattttttttttttccttttcatggccatgtgccttcacaacttgtttttt 10295  T

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

Target: scaffold0256; HSP #2
Raw Score: 76; E-Value: 9e-35
Query Start/End: Original strand, 554 - 653
Target Start/End: Complemental strand, 10268 - 10169
Alignment:
Q  554 ttttccatagcagccaattttgacatgttgcagaagaactacatccattgatttaatatataatctttgaaaataaatcacaacgcatatttcatcttcc 653  Q
    ||||| ||||||| |||||||||||||||||| |||||||||||||| ||||||||||||||||||||||||| |||| |||||||||||||||||||||    
T  10268 ttttctatagcagtcaattttgacatgttgcaaaagaactacatccactgatttaatatataatctttgaaaacaaataacaacgcatatttcatcttcc 10169  T

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

Target: scaffold0256; HSP #3
Raw Score: 75; E-Value: 4e-34
Query Start/End: Original strand, 238 - 332
Target Start/End: Complemental strand, 10628 - 10534
Alignment:
Q  238 ttctctctagagtattaaagaaagacaccgagaaaggatacctattattttgagataaacaatagtgcatgaaagtaacatgatagatacagttg 332  Q
    |||| ||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| |||||    
T  10628 ttctgtctagagtattaaagaaagacgccaagaaaggatacctattattttgagataaacaatagtgcatgaaagtaacataatagatatagttg 10534  T

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

Target: scaffold0133 (Bit Score: 130; Significance: 5e-67; HSPs: 4)
Name: scaffold0133
Description:

Target: scaffold0133; HSP #1
Raw Score: 130; E-Value: 5e-67
Query Start/End: Original strand, 330 - 559
Target Start/End: Complemental strand, 9906 - 9673
Alignment:
Q  330 ttgccaacttgatgccaccacaccatacttggacag--tgcacttccggtacacttgccaacttgaaatattaaataat---tagtattacaattatttg 424  Q
    ||||||||||||||||| | |||||||||||  |    |||||||| |||||||| |||||||||||||||||||||||   ||||||||||||||||||    
T  9906 ttgccaacttgatgccatcccaccatacttgatccacttgcacttcaggtacact-gccaacttgaaatattaaataataattagtattacaattatttg 9808  T
Q  425 gtattggattctctctgatgaaatctaggccacacaagaacaaatgaatgggcatgatgttgtttcataagataagttttccaattttgttttattcccc 524  Q
    |||||||||| ||| ||||||||||||||||||||||||||||||||| | |||||||||||||||||||||||||||||||||||||||||| |||||     
T  9807 gtattggattttctttgatgaaatctaggccacacaagaacaaatgaacgagcatgatgttgtttcataagataagttttccaattttgtttttttccct 9708  T
Q  525 ttcattgccatgtagcttcacaacttgttttttcc 559  Q
    ||||| |||||||  |||||  |||||||||||||    
T  9707 ttcatggccatgtgccttcaacacttgttttttcc 9673  T

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

Target: scaffold0133; HSP #2
Raw Score: 130; E-Value: 5e-67
Query Start/End: Original strand, 229 - 559
Target Start/End: Complemental strand, 14335 - 14012
Alignment:
Q  229 aagttgaagttctctctagagtattaaagaaagacaccgagaaaggatacctattattttgagataa-acaatagtgcatgaaagtaacatgatagatac 327  Q
    ||||||| ||||| ||||||||||||||||||||| || |||||||||||||||||||||||||||| || | |  ||   ||| ||          |||    
T  14335 aagttgaggttctgtctagagtattaaagaaagacgccaagaaaggatacctattattttgagataacaccaaacagct--aaatta----------tac 14248  T
Q  328 agttgccaacttgatgccaccacaccatacttggacag--tgcacttccggtacacttgccaacttgaaatattaaataat---tagtattacaattatt 422  Q
    | ||||||||||||| ||| | |||||||||||  |    |||||||| |||||||| |||||||||||||||||||||||   ||||||||||||||||    
T  14247 acttgccaacttgataccatcccaccatacttgatccacttgcacttcaggtacact-gccaacttgaaatattaaataataattagtattacaattatt 14149  T
Q  423 tggtattggattctctctgatgaaatctaggccacacaagaacaaatgaatgggcatgatgttgtttcataagataagttttccaattttgttttattcc 522  Q
    |||||||||||||||| ||| ||||||||||||||||||||||||||||| || ||||||||||||||||| ||||||||||||||||||||||| ||||    
T  14148 tggtattggattctctttgacgaaatctaggccacacaagaacaaatgaacggtcatgatgttgtttcatatgataagttttccaattttgtttttttcc 14049  T
Q  523 ccttcattgccatgtagcttcacaacttgttttttcc 559  Q
      ||||| |||||||  ||||||||||||||||||||    
T  14048 ttttcatggccatgtgccttcacaacttgttttttcc 14012  T

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

Target: scaffold0133; HSP #3
Raw Score: 105; E-Value: 4e-52
Query Start/End: Original strand, 553 - 693
Target Start/End: Complemental strand, 9649 - 9509
Alignment:
Q  553 tttttccatagcagccaattttgacatgttgcagaagaactacatccattgatttaatatataatctttgaaaataaatcacaacgcatatttcatcttc 652  Q
    |||||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||| |||| ||||| ||||||||||||||    
T  9649 tttttctatagcagccaattttgacatgttgcagaagaactacatccactgatttaatatataatctttgaaaacaaataacaactcatatttcatcttc 9550  T
Q  653 ctagaccaaagtcatctccaatccaaacctctttgattcat 693  Q
    ||||| |||| |||||||||||||||||  |||||||||||    
T  9549 ctagagcaaaatcatctccaatccaaacaactttgattcat 9509  T

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

Target: scaffold0133; HSP #4
Raw Score: 77; E-Value: 2e-35
Query Start/End: Original strand, 585 - 693
Target Start/End: Complemental strand, 13965 - 13857
Alignment:
Q  585 agaagaactacatccattgatttaatatataatctttgaaaataaatcacaacgcatatttcatcttcctagaccaaagtcatctccaatccaaacctct 684  Q
    |||||||||||||||| ||||||||||||||||||||||||| |||| ||||| ||||||||||||||||||| |||| |||||||||||||||||  ||    
T  13965 agaagaactacatccactgatttaatatataatctttgaaaacaaataacaactcatatttcatcttcctagagcaaaatcatctccaatccaaacaact 13866  T
Q  685 ttgattcat 693  Q
    |||||||||    
T  13865 ttgattcat 13857  T

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

Target: chr6 (Bit Score: 78; Significance: 6e-36; HSPs: 6)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 78; E-Value: 6e-36
Query Start/End: Original strand, 552 - 693
Target Start/End: Complemental strand, 16782248 - 16782107
Alignment:
Q  552 ttttttccatagcagccaattttgacatgttgcagaagaactacatccattgatttaatatataatctttgaaaataaatcacaacgcatatttcatctt 651  Q
    ||||||| |||||| ||||| || ||| ||||||||| ||||||||||| |||||||||| |||||||||||||| |||| ||||| |||||||||||||    
T  16782248 ttttttctatagcaaccaatattcacaagttgcagaaaaactacatccactgatttaatagataatctttgaaaacaaataacaactcatatttcatctt 16782149  T
Q  652 cctagaccaaagtcatctccaatccaaacctctttgattcat 693  Q
    |||||| |||||||||||| |||| ||||  |||||||||||    
T  16782148 cctagagcaaagtcatctctaatctaaacaactttgattcat 16782107  T

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

Target: chr6; HSP #2
Raw Score: 46; E-Value: 7e-17
Query Start/End: Original strand, 377 - 469
Target Start/End: Complemental strand, 16783010 - 16782917
Alignment:
Q  377 tacacttgccaacttgaaatat-taaataattagtattacaattatttggtattggattctctctgatgaaatctaggccacacaagaacaaat 469  Q
    ||||||| |||||||||||||| ||||||||||||||||| ||||||||  | ||||||||||||| |||| |||||| ||| | |||||||||    
T  16783010 tacacttcccaacttgaaatatataaataattagtattactattatttgtgactggattctctctggtgaagtctaggtcaccctagaacaaat 16782917  T

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

Target: chr6; HSP #3
Raw Score: 42; E-Value: 0.00000000000002
Query Start/End: Original strand, 399 - 468
Target Start/End: Original strand, 16875996 - 16876065
Alignment:
Q  399 taaataattagtattacaattatttggtattggattctctctgatgaaatctaggccacacaagaacaaa 468  Q
    ||||||||||||||||  ||||||||  | ||||||||||| | ||||||||||||||||||||||||||    
T  16875996 taaataattagtattaatattatttgtgactggattctctccggtgaaatctaggccacacaagaacaaa 16876065  T

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

Target: chr6; HSP #4
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 501 - 559
Target Start/End: Complemental strand, 16659233 - 16659176
Alignment:
Q  501 ttttccaattttgttttattccccttcattgccatgtagcttcacaacttgttttttcc 559  Q
    |||||||| |||||||| |||||||||||||||||||| ||| ||||| ||||||||||    
T  16659233 ttttccaaatttgtttt-ttccccttcattgccatgtaccttaacaacatgttttttcc 16659176  T

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

Target: chr6; HSP #5
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 147 - 193
Target Start/End: Complemental strand, 16783172 - 16783126
Alignment:
Q  147 cagccacacaatacaaccaatgaacgtattttgtgataacttgtctg 193  Q
    ||||||||||| |||| ||||||| ||||||||||||||||||||||    
T  16783172 cagccacacaacacaatcaatgaaagtattttgtgataacttgtctg 16783126  T

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

Target: chr6; HSP #6
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 501 - 554
Target Start/End: Complemental strand, 16661248 - 16661196
Alignment:
Q  501 ttttccaattttgttttattccccttcattgccatgtagcttcacaacttgttt 554  Q
    |||||||||||| |||| |||||||||||||||||||| ||||||||| |||||    
T  16661248 ttttccaattttatttt-ttccccttcattgccatgtaccttcacaacatgttt 16661196  T

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

Target: chr3 (Bit Score: 73; Significance: 5e-33; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 73; E-Value: 5e-33
Query Start/End: Original strand, 562 - 682
Target Start/End: Original strand, 38938385 - 38938504
Alignment:
Q  562 agcagccaattttgacatgttgcagaagaactacatccattgatttaatatataatctttgaaaataaatcacaacgcatatttcatcttcctagaccaa 661  Q
    |||||||||| |||||| ||||||||||||||||||||| |||||||||| | |||||||||||| |||| || || ||||||||||||||||||| |||    
T  38938385 agcagccaatattgacaagttgcagaagaactacatccactgatttaatagacaatctttgaaaaaaaataactacacatatttcatcttcctagagcaa 38938484  T
Q  662 agtcatctccaatccaaacct 682  Q
    || ||||||||||||||||||    
T  38938485 ag-catctccaatccaaacct 38938504  T

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

Target: chr3; HSP #2
Raw Score: 47; E-Value: 2e-17
Query Start/End: Original strand, 465 - 523
Target Start/End: Original strand, 38938275 - 38938333
Alignment:
Q  465 caaatgaatgggcatgatgttgtttcataagataagttttccaattttgttttattccc 523  Q
    ||||||||||| ||||||||||||||||| ||||||||||||||||||||||| |||||    
T  38938275 caaatgaatggacatgatgttgtttcatatgataagttttccaattttgtttttttccc 38938333  T

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

Target: chr3; HSP #3
Raw Score: 43; E-Value: 0.000000000000004
Query Start/End: Original strand, 147 - 201
Target Start/End: Original strand, 38942211 - 38942265
Alignment:
Q  147 cagccacacaatacaaccaatgaacgtattttgtgataacttgtctgcagttagt 201  Q
    ||||||||||| |||| ||||||| ||||||||||||||||||||||||||||||    
T  38942211 cagccacacaacacaatcaatgaaagtattttgtgataacttgtctgcagttagt 38942265  T

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

Target: chr3; HSP #4
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 251 - 297
Target Start/End: Original strand, 38942398 - 38942444
Alignment:
Q  251 attaaagaaagacaccgagaaaggatacctattattttgagataaac 297  Q
    |||||||||||||||| ||||||||||| || |||||||| ||||||    
T  38942398 attaaagaaagacaccaagaaaggatacttaatattttgatataaac 38942444  T

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

Target: chr5 (Bit Score: 48; Significance: 5e-18; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 48; E-Value: 5e-18
Query Start/End: Original strand, 465 - 556
Target Start/End: Original strand, 11982848 - 11982938
Alignment:
Q  465 caaatgaatgggcatgatgttgtttcataagataagttttccaattttgttttattccccttcattgccatgtagcttcacaacttgttttt 556  Q
    ||||||||||| ||||||||||||| |   ||||||||||||||||||||||| ||||||||||||| |||||| |||  ||||||||||||    
T  11982848 caaatgaatggacatgatgttgtttgaattgataagttttccaattttgtttt-ttccccttcattgtcatgtaccttaccaacttgttttt 11982938  T

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

Target: chr5; HSP #2
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 635 - 681
Target Start/End: Original strand, 11983122 - 11983168
Alignment:
Q  635 aacgcatatttcatcttcctagaccaaagtcatctccaatccaaacc 681  Q
    |||||||||||||||||| |||| |||||||||||||||||||||||    
T  11983122 aacgcatatttcatcttcatagagcaaagtcatctccaatccaaacc 11983168  T

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



© Oklahoma State University