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: NF6549_low_3 (Length: 219)

Name: NF6549_low_3
Description: NF6549
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF6549_low_3
NF6549_low_3
[»] chr3 (7 HSPs)
chr3 (56-130)||(27237590-27237664)
chr3 (15-53)||(27237433-27237471)
chr3 (84-124)||(22418559-22418599)
chr3 (82-113)||(49430631-49430662)
chr3 (84-113)||(498038-498067)
chr3 (84-113)||(43055611-43055640)
chr3 (84-113)||(50385874-50385903)
[»] chr6 (3 HSPs)
chr6 (67-130)||(13850492-13850555)
chr6 (15-56)||(13850688-13850729)
chr6 (84-113)||(595544-595573)
[»] chr4 (4 HSPs)
chr4 (56-108)||(35030387-35030439)
chr4 (15-56)||(47286694-47286735)
chr4 (84-113)||(2917961-2917990)
chr4 (15-56)||(35030307-35030348)
[»] chr5 (7 HSPs)
chr5 (67-134)||(13475713-13475780)
chr5 (15-56)||(13475644-13475685)
chr5 (171-201)||(5658482-5658512)
chr5 (15-56)||(971823-971864)
chr5 (84-113)||(18113837-18113866)
chr5 (84-113)||(34225693-34225722)
chr5 (85-113)||(25981152-25981180)
[»] chr1 (6 HSPs)
chr1 (84-131)||(32940694-32940741)
chr1 (84-124)||(37187917-37187957)
chr1 (84-113)||(2123862-2123891)
chr1 (84-113)||(33403441-33403470)
chr1 (84-113)||(38741000-38741029)
chr1 (84-113)||(50158606-50158635)
[»] chr8 (5 HSPs)
chr8 (93-130)||(7351555-7351592)
chr8 (84-130)||(14442762-14442808)
chr8 (15-56)||(7351483-7351524)
chr8 (84-113)||(29247180-29247209)
chr8 (88-124)||(33619653-33619689)
[»] chr7 (5 HSPs)
chr7 (15-56)||(33081811-33081852)
chr7 (84-124)||(28998026-28998066)
chr7 (85-124)||(46457998-46458037)
chr7 (84-113)||(46913467-46913496)
chr7 (86-130)||(46358015-46358059)


Alignment Details
Target: chr3 (Bit Score: 59; Significance: 4e-25; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 59; E-Value: 4e-25
Query Start/End: Original strand, 56 - 130
Target Start/End: Original strand, 27237590 - 27237664
Alignment:
Q  56 gacgcataccgctcggctaaccatgaaactggtgtggcaactgccacaccatgtttcatattagatccgtccatg 130  Q
    |||||||||| |||||||||||||| |||||||||||||| |||||||||||||||||||||||||||| |||||    
T  27237590 gacgcataccactcggctaaccatggaactggtgtggcaattgccacaccatgtttcatattagatccgcccatg 27237664  T

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Target: chr3; HSP #2
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 15 - 53
Target Start/End: Original strand, 27237433 - 27237471
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccatt 53  Q
    ||||||||||||||||||| |||||||||||||||||||    
T  27237433 aatatagtgaaatggtataggtggaagcattttaccatt 27237471  T

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Target: chr3; HSP #3
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 84 - 124
Target Start/End: Complemental strand, 22418599 - 22418559
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttcatattagatccg 124  Q
    |||||||||||||||||||||||||||||| | ||||||||    
T  22418599 ctggtgtggcaactgccacaccatgtttcacagtagatccg 22418559  T

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Target: chr3; HSP #4
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 82 - 113
Target Start/End: Original strand, 49430631 - 49430662
Alignment:
Q  82 aactggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||||    
T  49430631 aactggtgtggcaactgccacaccatgtttca 49430662  T

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Target: chr3; HSP #5
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 498038 - 498067
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  498038 ctggtgtggcaactgccacaccatgtttca 498067  T

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Target: chr3; HSP #6
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 43055611 - 43055640
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  43055611 ctggtgtggcaactgccacaccatgtttca 43055640  T

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Target: chr3; HSP #7
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Complemental strand, 50385903 - 50385874
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  50385903 ctggtgtggcaactgccacaccatgtttca 50385874  T

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Target: chr6 (Bit Score: 56; Significance: 2e-23; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 56; E-Value: 2e-23
Query Start/End: Original strand, 67 - 130
Target Start/End: Complemental strand, 13850555 - 13850492
Alignment:
Q  67 ctcggctaaccatgaaactggtgtggcaactgccacaccatgtttcatattagatccgtccatg 130  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||    
T  13850555 ctcggctaaccatgaaactggtgtggcaactgccacaccatgtttcatattaaatccgcccatg 13850492  T

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Target: chr6; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 15 - 56
Target Start/End: Complemental strand, 13850729 - 13850688
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    ||||||||||| ||||||| ||||||||||||||||||||||    
T  13850729 aatatagtgaattggtataggtggaagcattttaccattgtg 13850688  T

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Target: chr6; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Complemental strand, 595573 - 595544
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  595573 ctggtgtggcaactgccacaccatgtttca 595544  T

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Target: chr4 (Bit Score: 49; Significance: 3e-19; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 49; E-Value: 3e-19
Query Start/End: Original strand, 56 - 108
Target Start/End: Original strand, 35030387 - 35030439
Alignment:
Q  56 gacgcataccgctcggctaaccatgaaactggtgtggcaactgccacaccatg 108  Q
    |||||||||| ||||||||||||||||||||||||||||||||||||||||||    
T  35030387 gacgcataccactcggctaaccatgaaactggtgtggcaactgccacaccatg 35030439  T

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Target: chr4; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 15 - 56
Target Start/End: Original strand, 47286694 - 47286735
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    |||||||||||||| |||| ||||||||||||||||||||||    
T  47286694 aatatagtgaaatgatataggtggaagcattttaccattgtg 47286735  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 2917961 - 2917990
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  2917961 ctggtgtggcaactgccacaccatgtttca 2917990  T

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Target: chr4; HSP #4
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 15 - 56
Target Start/End: Original strand, 35030307 - 35030348
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    ||||||| |||||||||||  |||||||||||||||||||||    
T  35030307 aatatagcgaaatggtatagttggaagcattttaccattgtg 35030348  T

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Target: chr5 (Bit Score: 44; Significance: 3e-16; HSPs: 7)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 67 - 134
Target Start/End: Original strand, 13475713 - 13475780
Alignment:
Q  67 ctcggctaaccatgaaactggtgtggcaactgccacaccatgtttcatattagatccgtccatgagta 134  Q
    |||||||| ||||| |||||||||||||  ||||||||||| |||||||||||||||| |||||||||    
T  13475713 ctcggctatccatggaactggtgtggcagttgccacaccatatttcatattagatccgcccatgagta 13475780  T

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Target: chr5; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 15 - 56
Target Start/End: Original strand, 13475644 - 13475685
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    ||||||| ||||||||||| ||||||||||||||||||||||    
T  13475644 aatatagcgaaatggtataggtggaagcattttaccattgtg 13475685  T

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Target: chr5; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 171 - 201
Target Start/End: Complemental strand, 5658512 - 5658482
Alignment:
Q  171 accacagttaataaggatgaagaattacatt 201  Q
    |||||||||||||||||||||||||||||||    
T  5658512 accacagttaataaggatgaagaattacatt 5658482  T

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Target: chr5; HSP #4
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 15 - 56
Target Start/End: Original strand, 971823 - 971864
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    |||||||| |||||| ||| ||||||||||||||||||||||    
T  971823 aatatagtaaaatggcataggtggaagcattttaccattgtg 971864  T

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Target: chr5; HSP #5
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 18113837 - 18113866
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  18113837 ctggtgtggcaactgccacaccatgtttca 18113866  T

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Target: chr5; HSP #6
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Complemental strand, 34225722 - 34225693
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  34225722 ctggtgtggcaactgccacaccatgtttca 34225693  T

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Target: chr5; HSP #7
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 85 - 113
Target Start/End: Complemental strand, 25981180 - 25981152
Alignment:
Q  85 tggtgtggcaactgccacaccatgtttca 113  Q
    |||||||||||||||||||||||||||||    
T  25981180 tggtgtggcaactgccacaccatgtttca 25981152  T

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Target: chr1 (Bit Score: 44; Significance: 3e-16; HSPs: 6)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 84 - 131
Target Start/End: Complemental strand, 32940741 - 32940694
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttcatattagatccgtccatga 131  Q
    ||||||||||||||||||||||||||||||||||||||||| ||||||    
T  32940741 ctggtgtggcaactgccacaccatgtttcatattagatccgcccatga 32940694  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 84 - 124
Target Start/End: Complemental strand, 37187957 - 37187917
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttcatattagatccg 124  Q
    |||||||||||||||||||||||||||||| | ||||||||    
T  37187957 ctggtgtggcaactgccacaccatgtttcacagtagatccg 37187917  T

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Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 2123862 - 2123891
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  2123862 ctggtgtggcaactgccacaccatgtttca 2123891  T

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Target: chr1; HSP #4
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Complemental strand, 33403470 - 33403441
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  33403470 ctggtgtggcaactgccacaccatgtttca 33403441  T

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Target: chr1; HSP #5
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Complemental strand, 38741029 - 38741000
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  38741029 ctggtgtggcaactgccacaccatgtttca 38741000  T

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Target: chr1; HSP #6
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Complemental strand, 50158635 - 50158606
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  50158635 ctggtgtggcaactgccacaccatgtttca 50158606  T

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Target: chr8 (Bit Score: 34; Significance: 0.0000000003; HSPs: 5)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 93 - 130
Target Start/End: Original strand, 7351555 - 7351592
Alignment:
Q  93 caactgccacaccatgtttcatattagatccgtccatg 130  Q
    |||||||||||||||||||||||||||||||| |||||    
T  7351555 caactgccacaccatgtttcatattagatccgcccatg 7351592  T

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Target: chr8; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 84 - 130
Target Start/End: Complemental strand, 14442808 - 14442762
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttcatattagatccgtccatg 130  Q
    ||||||||||||| |||||||||||||||||| ||| |||| |||||    
T  14442808 ctggtgtggcaacagccacaccatgtttcatagtagctccgcccatg 14442762  T

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Target: chr8; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 15 - 56
Target Start/End: Original strand, 7351483 - 7351524
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    ||||||| |||||||||||  |||||||||||||||||||||    
T  7351483 aatatagcgaaatggtatagatggaagcattttaccattgtg 7351524  T

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Target: chr8; HSP #4
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 29247180 - 29247209
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  29247180 ctggtgtggcaactgccacaccatgtttca 29247209  T

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Target: chr8; HSP #5
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 88 - 124
Target Start/End: Original strand, 33619653 - 33619689
Alignment:
Q  88 tgtggcaactgccacaccatgtttcatattagatccg 124  Q
    |||||||||||||||||||||||||| | ||||||||    
T  33619653 tgtggcaactgccacaccatgtttcacagtagatccg 33619689  T

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Target: chr7 (Bit Score: 34; Significance: 0.0000000003; HSPs: 5)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 15 - 56
Target Start/End: Complemental strand, 33081852 - 33081811
Alignment:
Q  15 aatatagtgaaatggtataagtggaagcattttaccattgtg 56  Q
    ||||||| ||||||||||| ||||||||||||||||||||||    
T  33081852 aatatagcgaaatggtataggtggaagcattttaccattgtg 33081811  T

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Target: chr7; HSP #2
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 84 - 124
Target Start/End: Complemental strand, 28998066 - 28998026
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttcatattagatccg 124  Q
    |||||||||||||||||||||||||||||| | ||||||||    
T  28998066 ctggtgtggcaactgccacaccatgtttcacagtagatccg 28998026  T

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

Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 85 - 124
Target Start/End: Original strand, 46457998 - 46458037
Alignment:
Q  85 tggtgtggcaactgccacaccatgtttcatattagatccg 124  Q
    ||||||||||||||||||||||||||||||| ||| ||||    
T  46457998 tggtgtggcaactgccacaccatgtttcatagtagctccg 46458037  T

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

Target: chr7; HSP #4
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 84 - 113
Target Start/End: Original strand, 46913467 - 46913496
Alignment:
Q  84 ctggtgtggcaactgccacaccatgtttca 113  Q
    ||||||||||||||||||||||||||||||    
T  46913467 ctggtgtggcaactgccacaccatgtttca 46913496  T

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Target: chr7; HSP #5
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 86 - 130
Target Start/End: Original strand, 46358015 - 46358059
Alignment:
Q  86 ggtgtggcaactgccacaccatgtttcatattagatccgtccatg 130  Q
    |||||||||||||||||||||||||||| | | |||||| |||||    
T  46358015 ggtgtggcaactgccacaccatgtttcaaactggatccgcccatg 46358059  T

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