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: NF20534_low_4 (Length: 415)

Name: NF20534_low_4
Description: NF20534
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF20534_low_4
NF20534_low_4
[»] chr3 (2 HSPs)
chr3 (87-409)||(29117455-29117777)
chr3 (1-56)||(29117347-29117402)
[»] chr5 (1 HSPs)
chr5 (90-406)||(32777432-32777748)
[»] chr6 (3 HSPs)
chr6 (162-393)||(28783869-28784100)
chr6 (162-393)||(28799558-28799789)
chr6 (162-385)||(28777862-28778085)
[»] scaffold0419 (1 HSPs)
scaffold0419 (162-393)||(12906-13137)
[»] scaffold0277 (2 HSPs)
scaffold0277 (162-393)||(8205-8436)
scaffold0277 (159-393)||(16946-17186)
[»] chr2 (1 HSPs)
chr2 (279-388)||(19152820-19152929)


Alignment Details
Target: chr3 (Bit Score: 295; Significance: 1e-165; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 295; E-Value: 1e-165
Query Start/End: Original strand, 87 - 409
Target Start/End: Original strand, 29117455 - 29117777
Alignment:
Q  87 ccttaccattcattaatgctctgcaatcctgccgctgaaatcatgttccaatgtgccgaatccactttacatttttcaaagaaatcagcaattttgttac 186  Q
    ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29117455 ccttaccattcattaatgcgctgcaatcctgccgctgaaatcatgttccaatgtgccgaatccactttacatttttcaaagaaatcagcaattttgttac 29117554  T
Q  187 ttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccatggttagtagcaaaagtaggcaaacc 286  Q
    ||||||||||||||||||||||||| | |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| ||||||||    
T  29117555 ttgattcgtctccattgagaggatcaatatggaaaccagaaacaccatcaacaataatttctgctggaccaccatggttagtagcaaaagttggcaaacc 29117654  T
Q  287 acagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtcggcaatgaatcgataaagctctccg 386  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||    
T  29117655 acagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaatgctccctttgtgtcggcaataaatcgataaagctctccg 29117754  T
Q  387 ttgcgatgtctatcggtctgtgc 409  Q
    |||||||||||||||||||||||    
T  29117755 ttgcgatgtctatcggtctgtgc 29117777  T

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

Target: chr3; HSP #2
Raw Score: 56; E-Value: 4e-23
Query Start/End: Original strand, 1 - 56
Target Start/End: Original strand, 29117347 - 29117402
Alignment:
Q  1 ttccatgtataactgaaaataaaagccatgcaatcttgattcaatgttgcaaatgt 56  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29117347 ttccatgtataactgaaaataaaagccatgcaatcttgattcaatgttgcaaatgt 29117402  T

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Target: chr5 (Bit Score: 177; Significance: 3e-95; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 177; E-Value: 3e-95
Query Start/End: Original strand, 90 - 406
Target Start/End: Complemental strand, 32777748 - 32777432
Alignment:
Q  90 taccattcattaatgctctgcaatcctgccgctgaaatcatgttccaatgtgccgaatccactttacatttttcaaagaaatcagcaattttgttacttg 189  Q
    ||||||||||| |||| ||||||||| |||   ||||||| |||||||| ||  |  |||||||| |||||||| |||||||||| ||||||||| ||||    
T  32777748 taccattcatttatgcgctgcaatccggccatagaaatcacgttccaatatgatgggtccactttgcatttttcgaagaaatcagaaattttgttgcttg 32777649  T
Q  190 attcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccatggttagtagcaaaagtaggcaaaccaca 289  Q
    |||| ||||||||||||||||| | |||||| || || |||||||||||||| ||||||||||||||||| || |||||||||||||| ||||| |||||    
T  32777648 attcatctccattgagaggatcaatatggaatcctgagacaccatcaacaattatttctgctggacctccttgattagtagcaaaagttggcaagccaca 32777549  T
Q  290 gttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtcggcaatgaatcgataaagctctccgttg 389  Q
    |||||||||||||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| |||||||||||     
T  32777548 gttcattgcttcaatgacagttaagccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtcggcaatgcatcgatagagctctccgtta 32777449  T
Q  390 cgatgtctatcggtctg 406  Q
    |||| || ||| |||||    
T  32777448 cgatatcgatcagtctg 32777432  T

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Target: chr6 (Bit Score: 80; Significance: 2e-37; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 80; E-Value: 2e-37
Query Start/End: Original strand, 162 - 393
Target Start/End: Complemental strand, 28784100 - 28783869
Alignment:
Q  162 tcaaagaaatcagcaattttgttacttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccat 261  Q
    ||||| || |||| ||| |||||  ||||||| ||||||||  ||||||| | ||| ||||| || ||||||||||| |||||||| |||||||| || |    
T  28784100 tcaaaaaattcagaaatcttgttgattgattcatctccattatgaggatcaatatgaaaacctgatacaccatcaactataatttcagctggaccacctt 28784001  T
Q  262 ggttagtagcaaaagtaggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtc 361  Q
    | || || |||||||| || || |||||||||||||||||||| || ||||||||||| ||||||||||| || || || ||||||||||| ||||| ||    
T  28784000 gatttgttgcaaaagttggtaatccacagttcattgcttcaatcactgttagaccaaaagcttcatacaatgctggttgaacaaaagctccttttgtatc 28783901  T
Q  362 ggcaatgaatcgataaagctctccgttgcgat 393  Q
     || ||  |||| |||||||||||||||||||    
T  28783900 cgcgatacatcggtaaagctctccgttgcgat 28783869  T

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

Target: chr6; HSP #2
Raw Score: 80; E-Value: 2e-37
Query Start/End: Original strand, 162 - 393
Target Start/End: Complemental strand, 28799789 - 28799558
Alignment:
Q  162 tcaaagaaatcagcaattttgttacttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccat 261  Q
    ||||| || |||| ||| |||||  ||||||| ||||||||  ||||||| | ||| ||||| || ||||||||||| |||||||| |||||||| || |    
T  28799789 tcaaaaaattcagaaatcttgttgattgattcatctccattatgaggatcaatatgaaaacctgatacaccatcaactataatttcagctggaccacctt 28799690  T
Q  262 ggttagtagcaaaagtaggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtc 361  Q
    | || || |||||||| || || |||||||||||||||||||| || ||||||||||| ||||||||||| || || || ||||||||||| ||||| ||    
T  28799689 gatttgttgcaaaagttggtaatccacagttcattgcttcaatcactgttagaccaaaagcttcatacaatgctggttgaacaaaagctccttttgtatc 28799590  T
Q  362 ggcaatgaatcgataaagctctccgttgcgat 393  Q
     || ||  |||| |||||||||||||||||||    
T  28799589 cgcgatacatcggtaaagctctccgttgcgat 28799558  T

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

Target: chr6; HSP #3
Raw Score: 64; E-Value: 7e-28
Query Start/End: Original strand, 162 - 385
Target Start/End: Complemental strand, 28778085 - 28777862
Alignment:
Q  162 tcaaagaaatcagcaattttgttacttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccat 261  Q
    ||||| || |||| ||| |||||  ||||||| ||||||||  ||||||| | ||| ||||| || ||||| ||||| || ||||| |||||||| || |    
T  28778085 tcaaaaaattcagaaatcttgttgattgattcatctccattatgaggatcaatatgaaaacctgatacaccttcaactatgatttcagctggaccacctt 28777986  T
Q  262 ggttagtagcaaaagtaggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtc 361  Q
    | || || |||||||| || || |||||||||||||||||||| || ||||||||||| ||||||||||| || || || ||||||||||| ||||| ||    
T  28777985 gatttgttgcaaaagttggtaatccacagttcattgcttcaataactgttagaccaaaagcttcatacaatgctggttgaacaaaagctccttttgtatc 28777886  T
Q  362 ggcaatgaatcgataaagctctcc 385  Q
     || ||  |||| |||||||||||    
T  28777885 cgcgatacatcggtaaagctctcc 28777862  T

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Target: scaffold0419 (Bit Score: 76; Significance: 5e-35; HSPs: 1)
Name: scaffold0419
Description:

Target: scaffold0419; HSP #1
Raw Score: 76; E-Value: 5e-35
Query Start/End: Original strand, 162 - 393
Target Start/End: Complemental strand, 13137 - 12906
Alignment:
Q  162 tcaaagaaatcagcaattttgttacttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccat 261  Q
    ||||| || |||| |||||||||  ||||||| ||||||||  ||||||| | ||| ||||| || ||||| ||||| || ||||| |||||||| || |    
T  13137 tcaaaaaattcagaaattttgttgattgattcatctccattatgaggatcaatatgaaaacctgatacaccttcaactatgatttcagctggaccacctt 13038  T
Q  262 ggttagtagcaaaagtaggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtc 361  Q
    | || || |||||||| || || ||||||||||||||||||||||| ||||||||||| ||||||||||| || || || ||||||||||| ||||| ||    
T  13037 gatttgttgcaaaagttggtaatccacagttcattgcttcaatgactgttagaccaaaagcttcatacaatgctggttgaacaaaagctccttttgtatc 12938  T
Q  362 ggcaatgaatcgataaagctctccgttgcgat 393  Q
     || ||  |||| ||||||||||| |||||||    
T  12937 cgcgatacatcggtaaagctctccattgcgat 12906  T

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

Target: scaffold0277 (Bit Score: 76; Significance: 5e-35; HSPs: 2)
Name: scaffold0277
Description:

Target: scaffold0277; HSP #1
Raw Score: 76; E-Value: 5e-35
Query Start/End: Original strand, 162 - 393
Target Start/End: Original strand, 8205 - 8436
Alignment:
Q  162 tcaaagaaatcagcaattttgttacttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctccat 261  Q
    ||||| || |||| |||||||||  ||||||| ||||||||  ||||||| | ||| ||||| || ||||| ||||| || ||||| |||||||| || |    
T  8205 tcaaaaaattcagaaattttgttgattgattcatctccattatgaggatcaatatgaaaacctgatacaccttcaactatgatttcagctggaccacctt 8304  T
Q  262 ggttagtagcaaaagtaggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtc 361  Q
    | || || |||||||| || || ||||||||||||||||||||||| ||||||||||| ||||||||||| || || || ||||||||||| ||||| ||    
T  8305 gatttgttgcaaaagttggtaatccacagttcattgcttcaatgactgttagaccaaaagcttcatacaatgctggttgaacaaaagctccttttgtatc 8404  T
Q  362 ggcaatgaatcgataaagctctccgttgcgat 393  Q
     || ||  |||| ||||||||||| |||||||    
T  8405 cgcgatacatcggtaaagctctccattgcgat 8436  T

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

Target: scaffold0277; HSP #2
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 159 - 393
Target Start/End: Original strand, 16946 - 17186
Alignment:
Q  159 ttttcaaagaaatcagcaattttgttacttgattcgtctccattgagaggatcgacatggaaaccagaaacaccatcaacaataatttctgctggacctc 258  Q
    |||||||| || |||| |||||||||  ||||||| ||||||||  ||||||| | ||| ||||| || ||||| ||||  || ||||| ||||||||      
T  16946 ttttcaaaaaattcagaaattttgttgattgattcatctccattatgaggatcaatatgaaaacctgatacaccttcaattatgatttcagctggaccaa 17045  T
Q  259 ca------tggttagtagcaaaagtaggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctcc 352  Q
     |      ||||| || |||||||| || || ||||||||||||||| ||||||| ||||||||||| ||||||||||| || || || |||||||||||    
T  17046 aagttgattggtttgttgcaaaagttggtaatccacagttcattgctgcaatgactgttagaccaaaagcttcatacaatgctggttgaacaaaagctcc 17145  T
Q  353 ctttgtgtcggcaatgaatcgataaagctctccgttgcgat 393  Q
      |||| || || ||  |||| ||||||||||| |||||||    
T  17146 tgttgtatccgcgatacatcggtaaagctctccattgcgat 17186  T

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

Target: chr2 (Bit Score: 46; Significance: 4e-17; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 46; E-Value: 4e-17
Query Start/End: Original strand, 279 - 388
Target Start/End: Original strand, 19152820 - 19152929
Alignment:
Q  279 ggcaaaccacagttcattgcttcaatgacagttagaccaaatgcttcatacaaagcaggctgcacaaaagctccctttgtgtcggcaatgaatcgataaa 378  Q
    ||||| |||||  |||| |||||||  ||||| | |||||| |||||||| | |||||||||||||||||||||||||||||||  |||||  || ||||    
T  19152820 ggcaatccacaagtcatagcttcaacaacagtcaaaccaaaagcttcataaatagcaggctgcacaaaagctccctttgtgtcgcaaatgacacggtaaa 19152919  T
Q  379 gctctccgtt 388  Q
    ||||||||||    
T  19152920 gctctccgtt 19152929  T

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