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: NF9937_high_3 (Length: 501)

Name: NF9937_high_3
Description: NF9937
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9937_high_3
NF9937_high_3
[»] chr4 (6 HSPs)
chr4 (129-486)||(55203143-55203500)
chr4 (1-128)||(55203569-55203696)
chr4 (180-251)||(55205844-55205915)
chr4 (227-283)||(10032286-10032342)
chr4 (233-283)||(1856676-1856726)
chr4 (55-107)||(15995475-15995527)
[»] chr2 (3 HSPs)
chr2 (1-123)||(10257972-10258096)
chr2 (41-128)||(33669249-33669338)
chr2 (227-283)||(18259213-18259270)
[»] chr1 (7 HSPs)
chr1 (21-99)||(48990561-48990641)
chr1 (21-118)||(19874187-19874285)
chr1 (21-89)||(25491655-25491725)
chr1 (230-279)||(48990904-48990953)
chr1 (230-275)||(25491998-25492043)
chr1 (230-279)||(48986045-48986094)
chr1 (230-283)||(52433030-52433083)
[»] chr7 (5 HSPs)
chr7 (21-89)||(46168977-46169047)
chr7 (345-413)||(46466492-46466560)
chr7 (230-279)||(46164460-46164509)
chr7 (181-254)||(46513512-46513583)
chr7 (230-279)||(46169318-46169367)
[»] chr3 (2 HSPs)
chr3 (225-260)||(34374786-34374821)
chr3 (225-283)||(34374007-34374065)
[»] scaffold0060 (1 HSPs)
scaffold0060 (230-283)||(11167-11221)
[»] chr6 (1 HSPs)
chr6 (227-283)||(6356377-6356433)


Alignment Details
Target: chr4 (Bit Score: 305; Significance: 1e-171; HSPs: 6)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 305; E-Value: 1e-171
Query Start/End: Original strand, 129 - 486
Target Start/End: Complemental strand, 55203500 - 55203143
Alignment:
Q  129 ggcggcgccggcaggaggcatggcgatgagtgagatacgcttgagaaagaggaagcgcgtgtttctcctctattttgttttttaattnnnnnnngctgat 228  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       ||||||    
T  55203500 ggcggcgccggcaggaggcatggcgatgagtgagatacgcttgagaaagaggaagcgcgtgtttctcctctattttgttttttaattaaaaaa-gctgat 55203402  T
Q  229 gttttgtttatttttaatctgaaccattgaatccctttcttccacatgtcattcaataaacgaat-cacacggtcgccttctccctgaaataatcctatt 327  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||||    
T  55203401 gttttgtttatttttaatctgaaccattgaatccctttcttccacatgtcattcaataaacgaattcacacggtcgccttctccctgaaatgatcctatt 55203302  T
Q  328 ctgtgaaggtctccgtcgcaatcttcaatcccctaacgaattcatgcccagtgtaactctccgttttcttagccgcatcaatgaatacaagatcctcgaa 427  Q
    |||||||||||||||||||||| |||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  55203301 ctgtgaaggtctccgtcgcaatattcaatcccctaacgaattcatgcgcggtgtaactctccgttttcttagccgcatcaatgaatacaagatcctcgaa 55203202  T
Q  428 caccatcaccctttcgttcgtcgcagtgcaattctcgcagttatgtctgtttacaagct 486  Q
    ||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||    
T  55203201 caccatcaccctttcgttcgtcgcaatgcaattctcgcagttatgtctgtttacaagct 55203143  T

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Target: chr4; HSP #2
Raw Score: 124; E-Value: 1e-63
Query Start/End: Original strand, 1 - 128
Target Start/End: Complemental strand, 55203696 - 55203569
Alignment:
Q  1 atattttacagtcttgtagttgttgtcatgagtatttagaaattggcaagggtaaaagtgggtaaatgaatcgtctggtgtggaagagaggagaaacaat 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||    
T  55203696 atattttacagtcttgtagttgttgtcatgagtatttagaaattggcaagggtaaaagtgggtaaatgaatcgtctggtgtggaagagaagagaaacaat 55203597  T
Q  101 ggtggtttggtacgtgagagcggcagtg 128  Q
    ||||||||||||||||||||||||||||    
T  55203596 ggtggtttggtacgtgagagcggcagtg 55203569  T

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Target: chr4; HSP #3
Raw Score: 47; E-Value: 1e-17
Query Start/End: Original strand, 180 - 251
Target Start/End: Original strand, 55205844 - 55205915
Alignment:
Q  180 gaagcgcgtgtttctcctctattttgttttttaattnnnnnnngctgatgttttgtttatttttaatctgaa 251  Q
    ||||||||||||||||||||||||||||||||||||        ||||||||||||||||||||||||||||    
T  55205844 gaagcgcgtgtttctcctctattttgttttttaattaaaaaaaactgatgttttgtttatttttaatctgaa 55205915  T

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Target: chr4; HSP #4
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 227 - 283
Target Start/End: Original strand, 10032286 - 10032342
Alignment:
Q  227 atgttttgtttatttttaatctgaaccattgaatccctttcttccacatgtcattca 283  Q
    ||||||||||||||||||||||||| |||||||||| ||| |  |||||||||||||    
T  10032286 atgttttgtttatttttaatctgaatcattgaatccttttttgtcacatgtcattca 10032342  T

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Target: chr4; HSP #5
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 233 - 283
Target Start/End: Original strand, 1856676 - 1856726
Alignment:
Q  233 tgtttatttttaatctgaaccattgaatccctttcttccacatgtcattca 283  Q
    |||||||||| ||||||||||||||||||| ||| | ||||||||||||||    
T  1856676 tgtttattttaaatctgaaccattgaatccttttttgccacatgtcattca 1856726  T

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Target: chr4; HSP #6
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 55 - 107
Target Start/End: Original strand, 15995475 - 15995527
Alignment:
Q  55 aaagtgggtaaatgaatcgtctggtgtggaagagaggagaaacaatggtggtt 107  Q
    ||||||||||||||||  | ||||||||||||||| ||||| ||| |||||||    
T  15995475 aaagtgggtaaatgaaaagactggtgtggaagagaagagaagcaacggtggtt 15995527  T

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Target: chr2 (Bit Score: 62; Significance: 1e-26; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 62; E-Value: 1e-26
Query Start/End: Original strand, 1 - 123
Target Start/End: Complemental strand, 10258096 - 10257972
Alignment:
Q  1 atattttacagtcttgtagttgttgtcatgagtatttagaaattggcaagggtaaaagtgggta--aatgaatcgtctggtgtggaagagaggagaaaca 98  Q
    ||||||| |||||||||||||||||| |||| || |||||||||||||||||||||||||||||  |||||||||  |||| ||||||||| ||| | ||    
T  10258096 atattttgcagtcttgtagttgttgttatgaatacttagaaattggcaagggtaaaagtgggtaagaatgaatcgattggtttggaagagaagagcagca 10257997  T
Q  99 atggtggtttggtacgtgagagcgg 123  Q
    | |||||||||||| ||||| ||||    
T  10257996 aaggtggtttggtatgtgagggcgg 10257972  T

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Target: chr2; HSP #2
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 41 - 128
Target Start/End: Original strand, 33669249 - 33669338
Alignment:
Q  41 aattggcaagggtaaaagtgggtaa--atgaatcgtctggtgtggaagagaggagaaacaatggtggtttggtacgtgagagcggcagtg 128  Q
    |||||| ||||||||||||||||||  |||||||| | ||||||||||||| ||| |||||| | ||||||||| ||||| || ||||||    
T  33669249 aattggtaagggtaaaagtgggtaagaatgaatcgaccggtgtggaagagaagagcaacaatagcggtttggtatgtgagggcagcagtg 33669338  T

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Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 227 - 283
Target Start/End: Original strand, 18259213 - 18259270
Alignment:
Q  227 atgttttgtttatttttaa-tctgaaccattgaatccctttcttccacatgtcattca 283  Q
    ||||||||||||||||||| | ||||||||||||||  ||| | ||||||||||||||    
T  18259213 atgttttgtttatttttaaatatgaaccattgaatctttttttgccacatgtcattca 18259270  T

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Target: chr1 (Bit Score: 46; Significance: 5e-17; HSPs: 7)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 46; E-Value: 5e-17
Query Start/End: Original strand, 21 - 99
Target Start/End: Original strand, 48990561 - 48990641
Alignment:
Q  21 tgttgtcatgagtatttagaaattggcaagggtaaaagtgggta--aatgaatcgtctggtgtggaagagaggagaaacaa 99  Q
    ||||||||||| |||||||||||||||||||||||| |||||||  | ||||||| ||||||||||||||| ||| |||||    
T  48990561 tgttgtcatgaatatttagaaattggcaagggtaaatgtgggtaagagtgaatcgactggtgtggaagagaagagcaacaa 48990641  T

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Target: chr1; HSP #2
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 21 - 118
Target Start/End: Original strand, 19874187 - 19874285
Alignment:
Q  21 tgttgtcatgagtatttagaaattggcaagggtaaaagtgggta--aatgaatcgtctggtgtggaagagaggagaaacaatggtggtttggtacgtgag 118  Q
    ||||||||||| |||||||||||||||||| |||||||||||||  | ||||||  |||||||||||||||  || ||||| |||||||| ||| |||||    
T  19874187 tgttgtcatgaatatttagaaattggcaagcgtaaaagtgggtaagagtgaatcaactggtgtggaagagaatagcaacaa-ggtggtttagtatgtgag 19874285  T

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Target: chr1; HSP #3
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 21 - 89
Target Start/End: Original strand, 25491655 - 25491725
Alignment:
Q  21 tgttgtcatgagtatttagaaattggcaagggtaaaagtgggta--aatgaatcgtctggtgtggaagaga 89  Q
    ||||||||||| ||||||||||||| |||||||||| |||||||  | ||||||| |||||||||||||||    
T  25491655 tgttgtcatgaatatttagaaattgacaagggtaaatgtgggtaagagtgaatcgactggtgtggaagaga 25491725  T

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Target: chr1; HSP #4
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 230 - 279
Target Start/End: Original strand, 48990904 - 48990953
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttcttccacatgtca 279  Q
    ||||||||||||||||||||||||||||||||| ||| | ||||||||||    
T  48990904 ttttgtttatttttaatctgaaccattgaatccatttttgccacatgtca 48990953  T

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Target: chr1; HSP #5
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 230 - 275
Target Start/End: Original strand, 25491998 - 25492043
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttcttccacat 275  Q
    ||||||||||||||||||||||||||||||||| ||| | ||||||    
T  25491998 ttttgtttatttttaatctgaaccattgaatccatttttgccacat 25492043  T

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Target: chr1; HSP #6
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 230 - 279
Target Start/End: Complemental strand, 48986094 - 48986045
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttcttccacatgtca 279  Q
    |||||||||||||||||||||| |||||||||| ||| | ||||||||||    
T  48986094 ttttgtttatttttaatctgaatcattgaatccatttttgccacatgtca 48986045  T

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Target: chr1; HSP #7
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 230 - 283
Target Start/End: Complemental strand, 52433083 - 52433030
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttcttccacatgtcattca 283  Q
    ||||||||||||||||||||||||||||||| | ||| | |||| |||||||||    
T  52433083 ttttgtttatttttaatctgaaccattgaattcatttgtgccacgtgtcattca 52433030  T

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Target: chr7 (Bit Score: 44; Significance: 8e-16; HSPs: 5)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 44; E-Value: 8e-16
Query Start/End: Original strand, 21 - 89
Target Start/End: Original strand, 46168977 - 46169047
Alignment:
Q  21 tgttgtcatgagtatttagaaattggcaagggtaaaagtgggta--aatgaatcgtctggtgtggaagaga 89  Q
    ||||||||||| |||||||||||||||||||||||| |||||||  | ||||||| |||||||||||||||    
T  46168977 tgttgtcatgaatatttagaaattggcaagggtaaatgtgggtaagagtgaatcgactggtgtggaagaga 46169047  T

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Target: chr7; HSP #2
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 345 - 413
Target Start/End: Original strand, 46466492 - 46466560
Alignment:
Q  345 gcaatcttcaatcccctaacgaattcatgcccagtgtaactctccgttttcttagccgcatcaatgaat 413  Q
    |||||||||||| ||||||||||||||| | |||||| ||||| ||||||||| |||| ||||||||||    
T  46466492 gcaatcttcaatgccctaacgaattcattcgcagtgttactcttcgttttctttgccgtatcaatgaat 46466560  T

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Target: chr7; HSP #3
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 230 - 279
Target Start/End: Complemental strand, 46164509 - 46164460
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttcttccacatgtca 279  Q
    ||||||||||||||||||||||||||||||||| ||| | ||||||||||    
T  46164509 ttttgtttatttttaatctgaaccattgaatccatttttgccacatgtca 46164460  T

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Target: chr7; HSP #4
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 181 - 254
Target Start/End: Original strand, 46513512 - 46513583
Alignment:
Q  181 aagcgcgtgtttctcctctattttgttttttaattnnnnnnngctgatgttttgtttatttttaatctgaacca 254  Q
    ||||||||||| |||||||||||| ||||||||||       ||||||||||||||||||||||||||||||||    
T  46513512 aagcgcgtgtt-ctcctctatttttttttttaattaaaaaa-gctgatgttttgtttatttttaatctgaacca 46513583  T

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Target: chr7; HSP #5
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 230 - 279
Target Start/End: Original strand, 46169318 - 46169367
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttcttccacatgtca 279  Q
    |||||||||||||||||||||| |||||||||| ||| | ||||||||||    
T  46169318 ttttgtttatttttaatctgaatcattgaatccatttttgccacatgtca 46169367  T

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Target: chr3 (Bit Score: 36; Significance: 0.00000000005; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 225 - 260
Target Start/End: Original strand, 34374786 - 34374821
Alignment:
Q  225 tgatgttttgtttatttttaatctgaaccattgaat 260  Q
    ||||||||||||||||||||||||||||||||||||    
T  34374786 tgatgttttgtttatttttaatctgaaccattgaat 34374821  T

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Target: chr3; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 225 - 283
Target Start/End: Complemental strand, 34374065 - 34374007
Alignment:
Q  225 tgatgttttgtttatttttaatctgaaccattgaatccctttcttccacatgtcattca 283  Q
    ||||||||| |||||||||||||| ||||||||||||  ||| | ||||||||||||||    
T  34374065 tgatgttttatttatttttaatctaaaccattgaatcattttttgccacatgtcattca 34374007  T

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Target: scaffold0060 (Bit Score: 35; Significance: 0.0000000002; HSPs: 1)
Name: scaffold0060
Description:

Target: scaffold0060; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 230 - 283
Target Start/End: Complemental strand, 11221 - 11167
Alignment:
Q  230 ttttgtttatttttaatctgaaccattgaatccctttctt-ccacatgtcattca 283  Q
    ||||| ||||||||||||||||||||||||||| ||| || ||||||||||||||    
T  11221 ttttgattatttttaatctgaaccattgaatcctttttttaccacatgtcattca 11167  T

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Target: chr6 (Bit Score: 29; Significance: 0.0000007; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 227 - 283
Target Start/End: Original strand, 6356377 - 6356433
Alignment:
Q  227 atgttttgtttatttttaatctgaaccattgaatccctttcttccacatgtcattca 283  Q
    |||||||| ||||||| ||||||||| ||||||||  ||| | ||||||||||||||    
T  6356377 atgttttgattattttaaatctgaacaattgaatcgatttttaccacatgtcattca 6356433  T

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