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: NF5439_low_1 (Length: 471)

Name: NF5439_low_1
Description: NF5439
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5439_low_1
NF5439_low_1
[»] chr1 (8 HSPs)
chr1 (163-471)||(34479035-34479344)
chr1 (1-47)||(34479462-34479508)
chr1 (4-45)||(50377301-50377342)
chr1 (185-271)||(34483910-34483996)
chr1 (1-45)||(10776536-10776580)
chr1 (1-45)||(21686846-21686890)
chr1 (199-271)||(34491896-34491968)
chr1 (1-45)||(47132873-47132917)
[»] chr7 (4 HSPs)
chr7 (199-273)||(3333087-3333161)
chr7 (201-270)||(3313984-3314053)
chr7 (1-45)||(39328865-39328909)
chr7 (1-33)||(45349874-45349906)
[»] chr4 (4 HSPs)
chr4 (212-270)||(9596180-9596238)
chr4 (1-43)||(52944300-52944342)
chr4 (4-45)||(19853590-19853631)
chr4 (1-42)||(37030254-37030295)
[»] chr6 (3 HSPs)
chr6 (14-45)||(28981145-28981176)
chr6 (1-45)||(13546738-13546782)
chr6 (1-45)||(23128589-23128633)
[»] scaffold0009 (1 HSPs)
scaffold0009 (11-45)||(58164-58198)
[»] scaffold0445 (1 HSPs)
scaffold0445 (1-45)||(1314-1358)
[»] chr3 (2 HSPs)
chr3 (1-45)||(3606742-3606786)
chr3 (1-45)||(45568520-45568564)


Alignment Details
Target: chr1 (Bit Score: 273; Significance: 1e-152; HSPs: 8)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 273; E-Value: 1e-152
Query Start/End: Original strand, 163 - 471
Target Start/End: Complemental strand, 34479344 - 34479035
Alignment:
Q  163 cgtccctcctcgatgaactggacatgtacaattctcactaatttctagtttttcatccaaatggggaactcatccaaaaatgaagtttaaattgcatgat 262  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||    
T  34479344 cgtccctcctcgatgaactggacatgtacaattctcactaatttctagtttttcatccaaatggggaactcatccaaaactgaagtttaaattgcatgat 34479245  T
Q  263 aaatgagatggcnnnnnnnaa-cggatacctatattagtttatgtttgtaggcaagaaaaaattatttatatttttataaataaaaatatgaaggataaa 361  Q
    ||||||||||||       || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34479244 aaatgagatggctttgtttaaacggatacctatattagtttatgtttgtaggcaagaaaaaattatttatatttttataaataaaaatatgaaggataaa 34479145  T
Q  362 tcaaatgcatgtaaggtgaaggcttgtggacttaagtgtataaataaagagtgacaagacatacataacaaacaacttgtcaacaacacagattctacaa 461  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||    
T  34479144 tcaaatgcatgtaaggtgaaggcttgtggacttaagtgtataaataaagagtaacaagacatacataacaaacaacttgtcaacaacacagattctacaa 34479045  T
Q  462 attcatacac 471  Q
    ||||||||||    
T  34479044 attcatacac 34479035  T

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Target: chr1; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 1 - 47
Target Start/End: Complemental strand, 34479508 - 34479462
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacgagg 47  Q
    |||||||||||| ||||||||||| |||||||| |||||||||||||    
T  34479508 aacgccacataagacgacgaacaatacaacgccatactcagacgagg 34479462  T

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Target: chr1; HSP #3
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 4 - 45
Target Start/End: Complemental strand, 50377342 - 50377301
Alignment:
Q  4 gccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||| |||||||||||||||||||||||||||| ||||||    
T  50377342 gccacaaaaaacgacgaacaacacaacgccgtacttagacga 50377301  T

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Target: chr1; HSP #4
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 185 - 271
Target Start/End: Complemental strand, 34483996 - 34483910
Alignment:
Q  185 catgtacaattctcactaatttctagtttttcatccaaatggggaactcatccaaaaatgaagtttaaattgcatgataaatgagat 271  Q
    |||||||||||  ||||||||| |||||||||| | ||| | ||||||||||   |||||||||  | |||| ||||||||||||||    
T  34483996 catgtacaatttacactaatttatagtttttcacctaaacgcggaactcatcttgaaatgaagtcgagattgaatgataaatgagat 34483910  T

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Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Original strand, 10776536 - 10776580
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||| ||||| ||||||||||||||||||||| ||| ||||||    
T  10776536 aacgccgcataagacgacgaacaacacaacgccgcacttagacga 10776580  T

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Target: chr1; HSP #6
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Complemental strand, 21686890 - 21686846
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||| || || ||||||||||||||||||||||||| ||||||    
T  21686890 aacgccgcacaagacgacgaacaacacaacgccgtacttagacga 21686846  T

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Target: chr1; HSP #7
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 199 - 271
Target Start/End: Complemental strand, 34491968 - 34491896
Alignment:
Q  199 actaatttctagtttttcatccaaatggggaactcatccaaaaatgaagtttaaattgcatgataaatgagat 271  Q
    |||||||| || ||||||| | ||||| | ||||||||||||||| ||||| |||||  |||| |||||||||    
T  34491968 actaatttttaatttttcacctaaatgagaaactcatccaaaaataaagttgaaattatatgaaaaatgagat 34491896  T

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Target: chr1; HSP #8
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Complemental strand, 47132917 - 47132873
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||| || |||||||||||||||||||||||  ||||||||||    
T  47132917 aacgccgcacaaaacgacgaacaacacaacgccccactcagacga 47132873  T

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Target: chr7 (Bit Score: 47; Significance: 1e-17; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 47; E-Value: 1e-17
Query Start/End: Original strand, 199 - 273
Target Start/End: Complemental strand, 3333161 - 3333087
Alignment:
Q  199 actaatttctagtttttcatccaaatggggaactcatccaaaaatgaagtttaaattgcatgataaatgagatgg 273  Q
    |||||||| ||||||||||  |||||| ||||||||||||||||| ||||| ||||||||||| |||||||||||    
T  3333161 actaatttttagtttttcactcaaatgaggaactcatccaaaaataaagttgaaattgcatgaaaaatgagatgg 3333087  T

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Target: chr7; HSP #2
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 201 - 270
Target Start/End: Complemental strand, 3314053 - 3313984
Alignment:
Q  201 taatttctagtttttcatccaaatggggaactcatccaaaaatgaagtttaaattgcatgataaatgaga 270  Q
    |||||| |||||||||| |  |||| ||||||| ||||||||||||||| ||||||||| | ||||||||    
T  3314053 taatttttagtttttcacctgaatgaggaactcgtccaaaaatgaagttgaaattgcataaaaaatgaga 3313984  T

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Target: chr7; HSP #3
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Original strand, 39328865 - 39328909
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||| || || ||||||||||||||||||||||||| ||||||    
T  39328865 aacgccgcacaagacgacgaacaacacaacgccgtacttagacga 39328909  T

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

Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 33
Target Start/End: Original strand, 45349874 - 45349906
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgcc 33  Q
    ||||||||| |||||||||||||||||||||||    
T  45349874 aacgccacacaaaacgacgaacaacacaacgcc 45349906  T

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Target: chr4 (Bit Score: 43; Significance: 0.000000000000003; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 43; E-Value: 0.000000000000003
Query Start/End: Original strand, 212 - 270
Target Start/End: Complemental strand, 9596238 - 9596180
Alignment:
Q  212 ttttcatccaaatggggaactcatccaaaaatgaagtttaaattgcatgataaatgaga 270  Q
    |||||||||||| | ||||||||||||||||||||||| ||||||||||| ||||||||    
T  9596238 ttttcatccaaaagaggaactcatccaaaaatgaagttgaaattgcatgaaaaatgaga 9596180  T

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Target: chr4; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 1 - 43
Target Start/End: Complemental strand, 52944342 - 52944300
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagac 43  Q
    |||||| || |||||||||||||||||||||||| ||||||||    
T  52944342 aacgccgcacaaaacgacgaacaacacaacgccgcactcagac 52944300  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 4 - 45
Target Start/End: Original strand, 19853590 - 19853631
Alignment:
Q  4 gccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    ||||||||| ||||||||||||||||||||| ||| ||||||    
T  19853590 gccacataagacgacgaacaacacaacgccgcacttagacga 19853631  T

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Target: chr4; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 1 - 42
Target Start/End: Complemental strand, 37030295 - 37030254
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcaga 42  Q
    ||||||| | || |||||||||||||||||||||||||||||    
T  37030295 aacgccatacaagacgacgaacaacacaacgccgtactcaga 37030254  T

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Target: chr6 (Bit Score: 32; Significance: 0.00000001; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 14 - 45
Target Start/End: Complemental strand, 28981176 - 28981145
Alignment:
Q  14 acgacgaacaacacaacgccgtactcagacga 45  Q
    ||||||||||||||||||||||||||||||||    
T  28981176 acgacgaacaacacaacgccgtactcagacga 28981145  T

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Target: chr6; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Original strand, 13546738 - 13546782
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||| ||||| ||||||||||||||||||||| ||||| ||||    
T  13546738 aacgccgcataagacgacgaacaacacaacgccgcactcaaacga 13546782  T

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Target: chr6; HSP #3
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Complemental strand, 23128633 - 23128589
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    ||||||||| || ||||||||||||||||||||| ||| ||||||    
T  23128633 aacgccacacaagacgacgaacaacacaacgccgcacttagacga 23128589  T

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Target: scaffold0009 (Bit Score: 31; Significance: 0.00000004; HSPs: 1)
Name: scaffold0009
Description:

Target: scaffold0009; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 11 - 45
Target Start/End: Original strand, 58164 - 58198
Alignment:
Q  11 aaaacgacgaacaacacaacgccgtactcagacga 45  Q
    |||||||||||||||||||||||| ||||||||||    
T  58164 aaaacgacgaacaacacaacgccgcactcagacga 58198  T

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Target: scaffold0445 (Bit Score: 29; Significance: 0.0000007; HSPs: 1)
Name: scaffold0445
Description:

Target: scaffold0445; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Complemental strand, 1358 - 1314
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    ||||||||| || ||||||||||||||||||||| ||| ||||||    
T  1358 aacgccacacaagacgacgaacaacacaacgccgcacttagacga 1314  T

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Target: chr3 (Bit Score: 29; Significance: 0.0000007; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Complemental strand, 3606786 - 3606742
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    ||||||||| || |||||||||||||||| |||| ||||||||||    
T  3606786 aacgccacacaagacgacgaacaacacaatgccgcactcagacga 3606742  T

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

Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 1 - 45
Target Start/End: Original strand, 45568520 - 45568564
Alignment:
Q  1 aacgccacataaaacgacgaacaacacaacgccgtactcagacga 45  Q
    ||||||||| || ||||||||||||||||||||| ||| ||||||    
T  45568520 aacgccacacaagacgacgaacaacacaacgccgcacttagacga 45568564  T

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