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: NF5316_low_6 (Length: 517)

Name: NF5316_low_6
Description: NF5316
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5316_low_6
NF5316_low_6
[»] chr3 (2 HSPs)
chr3 (1-508)||(26729891-26730398)
chr3 (383-431)||(8347806-8347854)
[»] scaffold0017 (2 HSPs)
scaffold0017 (24-226)||(182256-182458)
scaffold0017 (5-183)||(171150-171328)
[»] chr1 (5 HSPs)
chr1 (1-221)||(44614274-44614497)
chr1 (31-225)||(17809936-17810130)
chr1 (1-290)||(44783895-44784187)
chr1 (2-292)||(35900713-35901007)
chr1 (1-117)||(44146582-44146698)
[»] chr5 (1 HSPs)
chr5 (24-288)||(29505735-29505997)
[»] scaffold0061 (1 HSPs)
scaffold0061 (5-183)||(27464-27642)
[»] chr2 (4 HSPs)
chr2 (1-133)||(29227238-29227370)
chr2 (1-133)||(29340537-29340669)
chr2 (131-183)||(29218284-29218336)
chr2 (131-183)||(29331583-29331635)


Alignment Details
Target: chr3 (Bit Score: 435; Significance: 0; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 435; E-Value: 0
Query Start/End: Original strand, 1 - 508
Target Start/End: Original strand, 26729891 - 26730398
Alignment:
Q  1 atgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggata 100  Q
    ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  26729891 atgtccaggagaagagccaaccgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggata 26729990  T
Q  101 ggattcttcactagttttgttggcttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaag 200  Q
    ||||||||||||||||| ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  26729991 ggattcttcactagtttcgttggcttggtaggctcaataatgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaag 26730090  T
Q  201 ccttcatgtggtggaagcagtgaatgaacttgtctagttgctccaaagtggatgaatgatgagcaggtacttatgctctttcttacttttttgttatggt 300  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  26730091 ccttcatgtggtggaagcagtgaatgaacttgtctagttgctccaaagtggatgaatgatgagcaggtacttatgctctttcttacttttttgttatggt 26730190  T
Q  301 tcaattaaatcatgaatattttaagtcttgatgtataagctttatcattaccagtgatcattaccagtgtttccctgtgaggtttattccatggaaattg 400  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  26730191 tcaattaaatcatgaatattttaagtcttgatgtataagctttatcattaccagtgatcattaccagtgtttccctgtgaggtttattccatggaaattg 26730290  T
Q  401 cactgctttgatgttatttccaagtactaaatttaannnnnnnnnnnngcaagatctcttattcgttctgtatgggatgattgcannnnnnngctgttgt 500  Q
    ||||||||||||||||||||||||||||||||||||            ||| |||||||||||||||||||||||||||||||||       ||||||||    
T  26730291 cactgctttgatgttatttccaagtactaaatttaattttttacttttgcaggatctcttattcgttctgtatgggatgattgcatttttttgctgttgt 26730390  T
Q  501 agaataat 508  Q
    ||||||||    
T  26730391 agaataat 26730398  T

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Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 383 - 431
Target Start/End: Original strand, 8347806 - 8347854
Alignment:
Q  383 tttattccatggaaattgcactgctttgatgttatttccaagtactaaa 431  Q
    |||||||| ||||||| ||| |||||||||||| |||||||| ||||||    
T  8347806 tttattccctggaaatggcaatgctttgatgttgtttccaagaactaaa 8347854  T

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

Target: scaffold0017 (Bit Score: 123; Significance: 6e-63; HSPs: 2)
Name: scaffold0017
Description:

Target: scaffold0017; HSP #1
Raw Score: 123; E-Value: 6e-63
Query Start/End: Original strand, 24 - 226
Target Start/End: Original strand, 182256 - 182458
Alignment:
Q  24 aacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggataggattcttcactagttttgttgg 123  Q
    |||||||||||||||||||  || ||||| | || |||||| ||||||||||||| ||||| ||||||||||||||||||||||||||| ||||  ||||    
T  182256 aacatcaagtgccaacaacggatgcaggagatgaaaattcagtatttttggaagcattatatatgagcatggggataggattcttcactggtttcattgg 182355  T
Q  124 cttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaagccttcatgtggtggaagcagtga 223  Q
    |||||||||||||||||||||| || | ||||||||||||||||||||||||||||||||||| ||||| ||||||| | ||||||||||||||| ||||    
T  182356 cttggtaggctcaatattgttactaccatcttggagagaaacttactccagattcttgaacactttgatattgaaagtcatcatgtggtggaagccgtga 182455  T
Q  224 atg 226  Q
    |||    
T  182456 atg 182458  T

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Target: scaffold0017; HSP #2
Raw Score: 87; E-Value: 2e-41
Query Start/End: Original strand, 5 - 183
Target Start/End: Original strand, 171150 - 171328
Alignment:
Q  5 ccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggataggat 104  Q
    ||||||||||| ||| |  |||  ||||||||||||||  || ||||| | || |||||||||||||| ||||| ||||| |||||||||||||||||||    
T  171150 ccaggagaagaaccagcaaaaccacaagtgccaacaactgatgcaggagatgaaaattcaatattttttgaagcattatatatgagcatggggataggat 171249  T
Q  105 tcttcactagttttgttggcttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaa 183  Q
    |||||||| |||| ||||| ||||||||||||||||||||| || | |||||||||||||| ||||||| |||||||||    
T  171250 tcttcactggtttcgttggtttggtaggctcaatattgttactaccatcttggagagaaacctactccaaattcttgaa 171328  T

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Target: chr1 (Bit Score: 118; Significance: 6e-60; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 118; E-Value: 6e-60
Query Start/End: Original strand, 1 - 221
Target Start/End: Original strand, 44614274 - 44614497
Alignment:
Q  1 atgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgag---aattcaatatttttggaagctttatacatgagcatgggg 97  Q
    |||||||| |||||| ||| |  |||||||||||||||||||  || ||||| | ||    |||||||||||||||||||| ||||||||||||||||||    
T  44614274 atgtccagaagaagatccatcaaaacatcaagtgccaacaactgatgcaggagatgatgataattcaatatttttggaagcattatacatgagcatgggg 44614373  T
Q  98 ataggattcttcactagttttgttggcttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttga 197  Q
    ||||||||||||||| |||| ||||||||||| |||||||| |||||| || | ||||||||||||||||||||||||||||||||||| ||||| ||||    
T  44614374 ataggattcttcactggtttcgttggcttggtcggctcaatgttgttactaccatcttggagagaaacttactccagattcttgaacactttgatattga 44614473  T
Q  198 aagccttcatgtggtggaagcagt 221  Q
    ||| | ||||||||||||||||||    
T  44614474 aagtcatcatgtggtggaagcagt 44614497  T

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Target: chr1; HSP #2
Raw Score: 111; E-Value: 8e-56
Query Start/End: Original strand, 31 - 225
Target Start/End: Complemental strand, 17810130 - 17809936
Alignment:
Q  31 agtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggataggattcttcactagttttgttggcttggta 130  Q
    |||||||||||||||| ||||| | ||||| ||||| ||||| ||| | |||||||||||||||||| | || ||||| ||| |||| ||||||||||||    
T  17810130 agtgccaacaacaaatgcaggagatgagaactcaatgtttttagaaacattatacatgagcatggggcttgggttctttactggtttcgttggcttggta 17810031  T
Q  131 ggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaagccttcatgtggtggaagcagtgaat 225  Q
    ||||||||||||||| || ||||||||||||| ||||||||||||||||||||||| ||||| ||||||| ||||| ||||||||||||||||||    
T  17810030 ggctcaatattgttactaccgtcttggagagatacttactccagattcttgaacactttgatattgaaagtcttcacgtggtggaagcagtgaat 17809936  T

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Target: chr1; HSP #3
Raw Score: 103; E-Value: 5e-51
Query Start/End: Original strand, 1 - 290
Target Start/End: Complemental strand, 44784187 - 44783895
Alignment:
Q  1 atgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggata 100  Q
    ||||||||| ||||||||| |  ||||||||||||||||||   || | ||| | || |||||| ||||||||||||| |||||||||||||||||||||    
T  44784187 atgtccaggtgaagagccaccaaaacatcaagtgccaacaattgatgctggagatgacaattcagtatttttggaagcgttatacatgagcatggggata 44784088  T
Q  101 ggattcttcactagttttgttggcttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaag 200  Q
    |||||||| |||||||| ||||| ||  ||||||||||||||||| || | |||||||||||||| ||||||| ||||||||| || || || |||| |     
T  44784087 ggattctttactagtttcgttggttttataggctcaatattgttactaccatcttggagagaaacctactccaaattcttgaatactttaatattgagaa 44783988  T
Q  201 ccttcatgtggtggaagcagtga---atgaacttgtctagttgctccaaagtggatgaatgatgagcaggtacttatgctctttcttactttt 290  Q
     | |||| ||||||||||||| |   ||| || || |||| | ||| |||||||||||||||||  ||||||||| || ||||||||||||||    
T  44783987 tcatcatctggtggaagcagtaatcaatgtacctggctaggttctctaaagtggatgaatgatggtcaggtacttctgttctttcttactttt 44783895  T

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Target: chr1; HSP #4
Raw Score: 87; E-Value: 2e-41
Query Start/End: Original strand, 2 - 292
Target Start/End: Original strand, 35900713 - 35901007
Alignment:
Q  2 tgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggatag 101  Q
    |||||||| ||||||||| |  || ||||||||| ||||||  || ||||| | || |||| ||||||||||||||| |||||||||||   ||||||||    
T  35900713 tgtccaggcgaagagccaccgaaatatcaagtgcaaacaactgatgcaggagatgacaatttaatatttttggaagcattatacatgagtggggggatag 35900812  T
Q  102 gattcttcactagttttgttggcttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaagc 201  Q
    ||||||||| | | || |||||||||| |||||||||||| ||| || | |||||||||||||||| ||||| |||||||||||| ||||| ||||||      
T  35900813 gattcttcattggcttcgttggcttggcaggctcaatatttttactaccatcttggagagaaacttgctccaaattcttgaacacattgatattgaaaat 35900912  T
Q  202 cttcatgtggtggaagcagtgaatg---aacttgtctagttgctccaaagtggatga--atgatgagcaggtacttatgctctttcttactttttt 292  Q
    |||| ||||| ||||||||| ||||   | |||| |||||||||| ||  |||||||  |||||| |||||||| |||| | |||||| |||||||    
T  35900913 cttcttgtggaggaagcagtaaatgtataccttg-ctagttgctctaagttggatgaatatgatgggcaggtacctatgttatttcttgctttttt 35901007  T

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Target: chr1; HSP #5
Raw Score: 61; E-Value: 6e-26
Query Start/End: Original strand, 1 - 117
Target Start/End: Original strand, 44146582 - 44146698
Alignment:
Q  1 atgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggata 100  Q
    ||||||||||||||||||| |  ||||||||||||| || ||  || ||||| | || |||||||||||||| ||||| || ||||||||||||||||||    
T  44146582 atgtccaggagaagagccatcaaaacatcaagtgccgactactgatgcaggagatgacaattcaatatttttagaagcattctacatgagcatggggata 44146681  T
Q  101 ggattcttcactagttt 117  Q
    |||||||||||||||||    
T  44146682 ggattcttcactagttt 44146698  T

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Target: chr5 (Bit Score: 106; Significance: 8e-53; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 106; E-Value: 8e-53
Query Start/End: Original strand, 24 - 288
Target Start/End: Complemental strand, 29505997 - 29505735
Alignment:
Q  24 aacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggataggattcttcactagttttgttgg 123  Q
    ||||||||||||||| |||  || ||||| |  | | |||||||||||||||||| |||||||||||||||||| ||||||||||||||| |||||||||    
T  29505997 aacatcaagtgccaataactgatgcaggagattacagttcaatatttttggaagcattatacatgagcatggggctaggattcttcactacttttgttgg 29505898  T
Q  124 cttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaacaccttgatcttgaaagccttcatgtggtggaagcagtga 223  Q
    |||  |||| |||||||||||  || | |||||||||||||| || |||| |||||||||  | ||||| |||||||  |||||||||||||||||||||    
T  29505897 ctttatagggtcaatattgttcctaccatcttggagagaaacctattccaaattcttgaatgctttgatattgaaagtgttcatgtggtggaagcagtga 29505798  T
Q  224 atgaacttgtctagttgctccaaagtggatgaatgatgagcaggtacttatgctctttcttactt 288  Q
    ||  || |||||||||| || ||| |||||||||| | ||||||||||| || |||||| |||||    
T  29505797 at--acatgtctagttgttctaaactggatgaatgctaagcaggtacttctgttctttcctactt 29505735  T

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

Target: scaffold0061 (Bit Score: 87; Significance: 2e-41; HSPs: 1)
Name: scaffold0061
Description:

Target: scaffold0061; HSP #1
Raw Score: 87; E-Value: 2e-41
Query Start/End: Original strand, 5 - 183
Target Start/End: Complemental strand, 27642 - 27464
Alignment:
Q  5 ccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggataggat 104  Q
    ||||||||||| ||| |  |||  ||||||||||||||  || ||||| | || |||||||||||||| ||||| ||||| |||||||||||||||||||    
T  27642 ccaggagaagaaccagcaaaaccacaagtgccaacaactgatgcaggagatgaaaattcaatattttttgaagcattatatatgagcatggggataggat 27543  T
Q  105 tcttcactagttttgttggcttggtaggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaa 183  Q
    |||||||| |||| ||||| ||||||||||||||||||||| || | |||||||||||||| ||||||| |||||||||    
T  27542 tcttcactggtttcgttggtttggtaggctcaatattgttactaccatcttggagagaaacctactccaaattcttgaa 27464  T

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

Target: chr2 (Bit Score: 57; Significance: 1e-23; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 1 - 133
Target Start/End: Complemental strand, 29227370 - 29227238
Alignment:
Q  1 atgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggata 100  Q
    ||||||||||||||||| | |  |||  ||||||||||||||  ||  |||| | || |||||||||||| ||||||| || ||||||||||||||| ||    
T  29227370 atgtccaggagaagagcaatcaaaaccacaagtgccaacaactgatgtaggagatgacaattcaatatttctggaagcattctacatgagcatggggcta 29227271  T
Q  101 ggattcttcactagttttgttggcttggtaggc 133  Q
    |||||||||||| |||| |||||||||||||||    
T  29227270 ggattcttcactggtttcgttggcttggtaggc 29227238  T

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

Target: chr2; HSP #2
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 1 - 133
Target Start/End: Complemental strand, 29340669 - 29340537
Alignment:
Q  1 atgtccaggagaagagccaactgaacatcaagtgccaacaacaaattcaggaaacgagaattcaatatttttggaagctttatacatgagcatggggata 100  Q
    ||||||||||||||||| | |  |||  ||||||||||||||  ||  |||| | || |||||||||||| ||||||| || ||||||||||||||| ||    
T  29340669 atgtccaggagaagagcaatcaaaaccacaagtgccaacaactgatgtaggagatgacaattcaatatttctggaagcattctacatgagcatggggcta 29340570  T
Q  101 ggattcttcactagttttgttggcttggtaggc 133  Q
    |||||||||||| |||| |||||||||||||||    
T  29340569 ggattcttcactggtttcgttggcttggtaggc 29340537  T

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

Target: chr2; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 131 - 183
Target Start/End: Complemental strand, 29218336 - 29218284
Alignment:
Q  131 ggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaa 183  Q
    ||||||||||||||| || ||||||||| |||||| ||||||| |||||||||    
T  29218336 ggctcaatattgttactaccgtcttggaaagaaacctactccaaattcttgaa 29218284  T

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

Target: chr2; HSP #4
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 131 - 183
Target Start/End: Complemental strand, 29331635 - 29331583
Alignment:
Q  131 ggctcaatattgttaatatcgtcttggagagaaacttactccagattcttgaa 183  Q
    ||||||||||||||| || ||||||||| |||||| ||||||| |||||||||    
T  29331635 ggctcaatattgttactaccgtcttggaaagaaacctactccaaattcttgaa 29331583  T

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



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