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: NF9839A_low_114 (Length: 343)

Name: NF9839A_low_114
Description: NF9839A
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9839A_low_114
NF9839A_low_114
[»] chr4 (7 HSPs)
chr4 (10-245)||(41205878-41206113)
chr4 (303-343)||(3130496-3130536)
chr4 (303-343)||(5817698-5817738)
chr4 (248-295)||(41205810-41205860)
chr4 (303-343)||(47540508-47540548)
chr4 (303-339)||(23279194-23279230)
chr4 (303-343)||(8655590-8655630)
[»] chr8 (1 HSPs)
chr8 (303-343)||(19385227-19385267)
[»] chr7 (1 HSPs)
chr7 (303-343)||(9546320-9546360)
[»] chr5 (1 HSPs)
chr5 (303-343)||(10487423-10487463)
[»] chr3 (3 HSPs)
chr3 (303-343)||(49732450-49732490)
chr3 (303-343)||(32004563-32004603)
chr3 (303-339)||(13448066-13448102)
[»] chr1 (7 HSPs)
chr1 (303-343)||(4644596-4644636)
chr1 (303-343)||(14366141-14366181)
chr1 (303-343)||(21527744-21527784)
chr1 (303-343)||(52336245-52336285)
chr1 (303-341)||(47115873-47115911)
chr1 (303-343)||(9528270-9528310)
chr1 (303-339)||(48266235-48266271)
[»] scaffold0220 (1 HSPs)
scaffold0220 (303-343)||(22730-22770)
[»] scaffold0029 (1 HSPs)
scaffold0029 (303-343)||(135153-135193)
[»] scaffold0002 (2 HSPs)
scaffold0002 (303-343)||(312980-313020)
scaffold0002 (303-343)||(328434-328474)
[»] chr6 (2 HSPs)
chr6 (303-343)||(33629681-33629721)
chr6 (303-341)||(1682625-1682663)


Alignment Details
Target: chr4 (Bit Score: 198; Significance: 1e-108; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 198; E-Value: 1e-108
Query Start/End: Original strand, 10 - 245
Target Start/End: Complemental strand, 41206113 - 41205878
Alignment:
Q  10 gtgttcagcttgtgagaaacaggcacgtattcctccattttggtacaatttgttgtttcactattttgttttaccacatcagatgtttcagactcatggt 109  Q
    ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41206113 gtgttcagcttgtgagaaacaggcacgcattcctccattttggtacaatttgttgtttcactattttgttttaccacatcagatgtttcagactcatggt 41206014  T
Q  110 tctgcctcatcctcatcac---catcgttatgtgcatcctcttcacaaggatactatcatttacatcattatgaacatgcccctcatcaccaatgtgtta 206  Q
    |||| ||||||||||||||   |||||||||||||||||||||||||||| |||  ||||||||||||||||||||||||||||||||||||||||||||    
T  41206013 tctg-ctcatcctcatcaccatcatcgttatgtgcatcctcttcacaaggctac--tcatttacatcattatgaacatgcccctcatcaccaatgtgtta 41205917  T
Q  207 cgtctcctcatgcccttcatccatgattagtggttgttt 245  Q
    |||||||||||||||||||||||||||||||||||||||    
T  41205916 cgtctcctcatgcccttcatccatgattagtggttgttt 41205878  T

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Target: chr4; HSP #2
Raw Score: 41; E-Value: 0.00000000000003
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 3130496 - 3130536
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||||||||||||||||||||||||    
T  3130496 agtggtggtcttgccctcttgtgtgtttgggtataggctga 3130536  T

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Target: chr4; HSP #3
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 5817698 - 5817738
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||| ||||||||||||||||||||    
T  5817698 agtggtggtcttgccctcttatgtgtttgggtataggctga 5817738  T

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Target: chr4; HSP #4
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 248 - 295
Target Start/End: Complemental strand, 41205860 - 41205810
Alignment:
Q  248 agggacaacagcgggcttct---tgccattgtccaccttcaattgtaaaaa 295  Q
    ||||||||||||||||||||   ||||||||||||||||||||||||||||    
T  41205860 agggacaacagcgggcttctaattgccattgtccaccttcaattgtaaaaa 41205810  T

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Target: chr4; HSP #5
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 47540548 - 47540508
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||||||||||||||||||||||    
T  47540548 agtggtggtcatgccctcttgtgtgtttgggtataggctga 47540508  T

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Target: chr4; HSP #6
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 339
Target Start/End: Complemental strand, 23279230 - 23279194
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtatagg 339  Q
    |||||||||||||||||||||| ||||||||||||||    
T  23279230 agtggtggtcttgccctcttgtttgtttgggtatagg 23279194  T

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Target: chr4; HSP #7
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 8655590 - 8655630
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||| ||||||  ||||||||||||||||||||    
T  8655590 agtggtggtcttaccctctcatgtgtttgggtataggctga 8655630  T

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Target: chr8 (Bit Score: 37; Significance: 0.000000000008; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 19385227 - 19385267
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||||||||||||||||||||||    
T  19385227 agtggtggtcatgccctcttgtgtgtttgggtataggctga 19385267  T

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Target: chr7 (Bit Score: 37; Significance: 0.000000000008; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 9546360 - 9546320
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||| ||||||||||||||||||||    
T  9546360 agtggtggtcttgccctcttatgtgtttgggtataggctga 9546320  T

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Target: chr5 (Bit Score: 37; Significance: 0.000000000008; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 10487423 - 10487463
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||| ||||||||||||||||||||    
T  10487423 agtggtggtcttgccctcttatgtgtttgggtataggctga 10487463  T

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Target: chr3 (Bit Score: 37; Significance: 0.000000000008; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 49732450 - 49732490
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||||||||||||||||||||||    
T  49732450 agtggtggtcatgccctcttgtgtgtttgggtataggctga 49732490  T

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Target: chr3; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 32004603 - 32004563
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||| ||||||||||||||||||    
T  32004603 agtggtggtcatgccctcttgtatgtttgggtataggctga 32004563  T

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Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 303 - 339
Target Start/End: Complemental strand, 13448102 - 13448066
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtatagg 339  Q
    |||||||||||||| |||||||||||||| |||||||    
T  13448102 agtggtggtcttgctctcttgtgtgtttgagtatagg 13448066  T

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Target: chr1 (Bit Score: 37; Significance: 0.000000000008; HSPs: 7)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 4644636 - 4644596
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||||||||||||||||||||||    
T  4644636 agtggtggtcgtgccctcttgtgtgtttgggtataggctga 4644596  T

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Target: chr1; HSP #2
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 14366141 - 14366181
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||||||||||||||||||||||    
T  14366141 agtggtggtcatgccctcttgtgtgtttgggtataggctga 14366181  T

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Target: chr1; HSP #3
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 21527784 - 21527744
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||| ||||||||||||||||||||    
T  21527784 agtggtggtcttgccctcttatgtgtttgggtataggctga 21527744  T

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Target: chr1; HSP #4
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 52336285 - 52336245
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| ||||||||||||||||||||||||||||||    
T  52336285 agtggtggtcatgccctcttgtgtgtttgggtataggctga 52336245  T

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Target: chr1; HSP #5
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 303 - 341
Target Start/End: Complemental strand, 47115911 - 47115873
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggct 341  Q
    |||||||||| ||||||||||||||||||||||||||||    
T  47115911 agtggtggtcatgccctcttgtgtgtttgggtataggct 47115873  T

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Target: chr1; HSP #6
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 9528270 - 9528310
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    ||||||||||||| |||||| ||||||||||||||||||||    
T  9528270 agtggtggtcttgtcctcttatgtgtttgggtataggctga 9528310  T

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Target: chr1; HSP #7
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 303 - 339
Target Start/End: Original strand, 48266235 - 48266271
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtatagg 339  Q
    |||||||||| | ||||||||||||||||||||||||    
T  48266235 agtggtggtcataccctcttgtgtgtttgggtatagg 48266271  T

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Target: scaffold0220 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: scaffold0220
Description:

Target: scaffold0220; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 22730 - 22770
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||| ||| ||||||||||||||||    
T  22730 agtggtggtcttgccctcttatgtatttgggtataggctga 22770  T

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Target: scaffold0029 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: scaffold0029
Description:

Target: scaffold0029; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 135153 - 135193
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||  ||||||||||||||||||||    
T  135153 agtggtggtcttgccctctcatgtgtttgggtataggctga 135193  T

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Target: scaffold0002 (Bit Score: 33; Significance: 0.000000002; HSPs: 2)
Name: scaffold0002
Description:

Target: scaffold0002; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 312980 - 313020
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||  ||||||||||||||||||||    
T  312980 agtggtggtcttgccctctcatgtgtttgggtataggctga 313020  T

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Target: scaffold0002; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Original strand, 328434 - 328474
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||||||||||||  ||||||||||||||||||||    
T  328434 agtggtggtcttgccctctcatgtgtttgggtataggctga 328474  T

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Target: chr6 (Bit Score: 33; Significance: 0.000000002; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 303 - 343
Target Start/End: Complemental strand, 33629721 - 33629681
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggctga 343  Q
    |||||||||| |||||||||||||||||| |||||||||||    
T  33629721 agtggtggtcatgccctcttgtgtgtttgagtataggctga 33629681  T

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

Target: chr6; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 303 - 341
Target Start/End: Complemental strand, 1682663 - 1682625
Alignment:
Q  303 agtggtggtcttgccctcttgtgtgtttgggtataggct 341  Q
    |||||||||| || |||||||||||||||||||||||||    
T  1682663 agtggtggtcatgtcctcttgtgtgtttgggtataggct 1682625  T

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