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: Solexa-NF5870-18 (Length: 99)

Name: Solexa-NF5870-18
Description: NF5870
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5870-18
Solexa-NF5870-18
[»] chr1 (6 HSPs)
chr1 (1-98)||(49820334-49820431)
chr1 (6-98)||(38548846-38548939)
chr1 (6-76)||(38544525-38544596)
chr1 (6-76)||(42374386-42374457)
chr1 (8-87)||(19598848-19598929)
chr1 (1-73)||(40934093-40934163)
[»] chr4 (2 HSPs)
chr4 (6-98)||(12296376-12296470)
chr4 (6-76)||(46487494-46487566)
[»] chr5 (4 HSPs)
chr5 (6-76)||(17853841-17853912)
chr5 (6-68)||(24072055-24072117)
chr5 (6-73)||(8731143-8731211)
chr5 (9-76)||(39183976-39184044)
[»] chr7 (4 HSPs)
chr7 (9-76)||(36449315-36449383)
chr7 (6-76)||(22567899-22567970)
chr7 (6-62)||(28534298-28534355)
chr7 (6-33)||(48058452-48058479)
[»] scaffold1613 (1 HSPs)
scaffold1613 (6-76)||(804-875)
[»] chr2 (8 HSPs)
chr2 (6-76)||(13699073-13699144)
chr2 (7-77)||(2063094-2063163)
chr2 (14-75)||(22884929-22884991)
chr2 (9-76)||(27879925-27879994)
chr2 (12-76)||(4472145-4472210)
chr2 (6-73)||(25504696-25504764)
chr2 (11-72)||(43816249-43816311)
chr2 (45-76)||(20572310-20572341)
[»] chr3 (2 HSPs)
chr3 (7-41)||(32010038-32010072)
chr3 (6-85)||(823206-823286)
[»] chr6 (3 HSPs)
chr6 (6-42)||(32935112-32935148)
chr6 (6-41)||(16180685-16180720)
chr6 (6-60)||(17278271-17278326)


Alignment Details
Target: chr1 (Bit Score: 90; Significance: 5e-44; HSPs: 6)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 90; E-Value: 5e-44
Query Start/End: Original strand, 1 - 98
Target Start/End: Complemental strand, 49820431 - 49820334
Alignment:
Q  1 cacagaccaaaataaacatcaccacctaaaaaagactccttatgaaacgagcactgaaaaacgatatccataaccatccgtcgccaccacacatccca 98  Q
    |||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||    
T  49820431 cacacaccaaaataaacatcaccacctaaaaaagactccttatgaaacgagcactgaaaaacgatatccataaccacccgtcgccaccacacatccca 49820334  T

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Target: chr1; HSP #2
Raw Score: 46; E-Value: 8e-18
Query Start/End: Original strand, 6 - 98
Target Start/End: Original strand, 38548846 - 38548939
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataaccatccgtcgccaccacacatccca 98  Q
    |||||||||||||||||||||||||| |||||| || | ||||||| |||||||||||||||| |||||||| || ||| ||| || |||||||    
T  38548846 accaaaataaacatcaccacctaaaacagactctttcacgaaacgatcactgaaaaacgatattcataaccacccatcgtcactactcatccca 38548939  T

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Target: chr1; HSP #3
Raw Score: 36; E-Value: 0.000000000008
Query Start/End: Original strand, 6 - 76
Target Start/End: Original strand, 38544525 - 38544596
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    |||||||||||||||||||||||||| |||||| || | | || || ||||| |||||||||||||||||||    
T  38544525 accaaaataaacatcaccacctaaaacagactctttcacggaatgatcactggaaaacgatatccataacca 38544596  T

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Target: chr1; HSP #4
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 6 - 76
Target Start/End: Complemental strand, 42374457 - 42374386
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    ||||| |||||||||||||||||||| | | ||||| | ||||||| |||||||||||  ||||||||||||    
T  42374457 accaagataaacatcaccacctaaaacaaattccttcacgaaacgaccactgaaaaactgtatccataacca 42374386  T

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Target: chr1; HSP #5
Raw Score: 30; E-Value: 0.00000003
Query Start/End: Original strand, 8 - 87
Target Start/End: Complemental strand, 19598929 - 19598848
Alignment:
Q  8 caaaataaacatcaccacctaaaaa-agactcctt-atgaaacgagcactgaaaaacgatatccataaccatccgtcgccac 87  Q
    |||||| |||||||||||||||||| ||| ||||| | ||||| | |||| |||||| | |||||||||||||| |||||||    
T  19598929 caaaatgaacatcaccacctaaaaatagattccttcacgaaaccaccactaaaaaacaaaatccataaccatccatcgccac 19598848  T

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Target: chr1; HSP #6
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 1 - 73
Target Start/End: Complemental strand, 40934163 - 40934093
Alignment:
Q  1 cacagaccaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataa 73  Q
    |||| ||||||||||||||||||   ||||| ||||||||| | |||| || || |||||||||||||||||||    
T  40934163 cacacaccaaaataaacatcacc---taaaagagactccttcacgaaatgatcattgaaaaacgatatccataa 40934093  T

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Target: chr4 (Bit Score: 47; Significance: 2e-18; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 47; E-Value: 2e-18
Query Start/End: Original strand, 6 - 98
Target Start/End: Complemental strand, 12296470 - 12296376
Alignment:
Q  6 accaaaataaacatcaccacctaaaaa-agactccttat-gaaacgagcactgaaaaacgatatccataaccatccgtcgccaccacacatccca 98  Q
    ||||||||||||||||||||||||||| |||||||||   ||| ||| ||||||||||||||||||||||||| || ||||||| || |||||||    
T  12296470 accaaaataaacatcaccacctaaaaacagactcctttccgaagcgaccactgaaaaacgatatccataaccacccatcgccactactcatccca 12296376  T

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Target: chr4; HSP #2
Raw Score: 41; E-Value: 0.000000000000008
Query Start/End: Original strand, 6 - 76
Target Start/End: Complemental strand, 46487566 - 46487494
Alignment:
Q  6 accaaaataaacatcaccacctaaaaa-agactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    |||||||||||||||||| |||||||| ||||||||| ||||| ||| |||||||||||||||| ||||||||    
T  46487566 accaaaataaacatcacctcctaaaaacagactccttcatgaagcgaccactgaaaaacgatattcataacca 46487494  T

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Target: chr5 (Bit Score: 44; Significance: 1e-16; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 44; E-Value: 1e-16
Query Start/End: Original strand, 6 - 76
Target Start/End: Original strand, 17853841 - 17853912
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    ||||||||||||||||||  |||||| ||||||||| | ||||||| |||||||||||||||||||||||||    
T  17853841 accaaaataaacatcaccttctaaaacagactcctttacgaaacgatcactgaaaaacgatatccataacca 17853912  T

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Target: chr5; HSP #2
Raw Score: 35; E-Value: 0.00000000003
Query Start/End: Original strand, 6 - 68
Target Start/End: Original strand, 24072055 - 24072117
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactccttatgaaacgagcactgaaaaacgatatc 68  Q
    |||||||||||||||||||| ||||| || ||||| | ||||||| |||| ||||||||||||    
T  24072055 accaaaataaacatcaccacataaaacagtctcctcacgaaacgaccactaaaaaacgatatc 24072117  T

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Target: chr5; HSP #3
Raw Score: 33; E-Value: 0.0000000005
Query Start/End: Original strand, 6 - 73
Target Start/End: Complemental strand, 8731211 - 8731143
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataa 73  Q
    |||||||||||||||||||||||||| ||| || || | ||||||| |||||||||||| |||| ||||    
T  8731211 accaaaataaacatcaccacctaaaacagagtctttcacgaaacgaccactgaaaaacggtatcaataa 8731143  T

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Target: chr5; HSP #4
Raw Score: 33; E-Value: 0.0000000005
Query Start/End: Original strand, 9 - 76
Target Start/End: Original strand, 39183976 - 39184044
Alignment:
Q  9 aaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    |||||||| |||||||||||||| ||||||  | | ||||||| |||||||||||| ||||||||||||    
T  39183976 aaaataaagatcaccacctaaaacagactctatcacgaaacgaccactgaaaaacggtatccataacca 39184044  T

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Target: chr7 (Bit Score: 37; Significance: 0.000000000002; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 9 - 76
Target Start/End: Complemental strand, 36449383 - 36449315
Alignment:
Q  9 aaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    ||||||||||||||||||||||| ||||| ||| | ||||| | | |||||||||||||||||||||||    
T  36449383 aaaataaacatcaccacctaaaatagactacttcacgaaacaaccgctgaaaaacgatatccataacca 36449315  T

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Target: chr7; HSP #2
Raw Score: 36; E-Value: 0.000000000008
Query Start/End: Original strand, 6 - 76
Target Start/End: Original strand, 22567899 - 22567970
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    ||||||||| |||||||||||||||| |||||| || | ||||| | |||||||||||| ||||||||||||    
T  22567899 accaaaatacacatcaccacctaaaacagactctttcacgaaacaaccactgaaaaacggtatccataacca 22567970  T

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Target: chr7; HSP #3
Raw Score: 34; E-Value: 0.0000000001
Query Start/End: Original strand, 6 - 62
Target Start/End: Original strand, 28534298 - 28534355
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaac 62  Q
    |||||||||||||||||||||||||| |||||| || | ||||||| |||||||||||    
T  28534298 accaaaataaacatcaccacctaaaacagactctttcacgaaacgaccactgaaaaac 28534355  T

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Target: chr7; HSP #4
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 6 - 33
Target Start/End: Original strand, 48058452 - 48058479
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaa 33  Q
    ||||||||||||||||||||||||||||    
T  48058452 accaaaataaacatcaccacctaaaaaa 48058479  T

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Target: scaffold1613 (Bit Score: 36; Significance: 0.000000000008; HSPs: 1)
Name: scaffold1613
Description:

Target: scaffold1613; HSP #1
Raw Score: 36; E-Value: 0.000000000008
Query Start/End: Original strand, 6 - 76
Target Start/End: Original strand, 804 - 875
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacca 76  Q
    |||||||||||||||||||||||||| |||||| || | | || || ||||| |||||||||||||||||||    
T  804 accaaaataaacatcaccacctaaaacagactctttcacggaatgatcactggaaaacgatatccataacca 875  T

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Target: chr2 (Bit Score: 36; Significance: 0.000000000008; HSPs: 8)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 36; E-Value: 0.000000000008
Query Start/End: Original strand, 6 - 76
Target Start/End: Original strand, 13699073 - 13699144
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactc-cttatgaaacgagcactgaaaaacgatatccataacca 76  Q
    |||||||||||||||||||||||||| | ||||  ||| ||||||| |||||||||||| ||| ||||||||    
T  13699073 accaaaataaacatcaccacctaaaacacactcttttacgaaacgaccactgaaaaacggtatacataacca 13699144  T

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Target: chr2; HSP #2
Raw Score: 35; E-Value: 0.00000000003
Query Start/End: Original strand, 7 - 77
Target Start/End: Complemental strand, 2063163 - 2063094
Alignment:
Q  7 ccaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactg-aaaaacgatatccataaccat 77  Q
    |||||||||||||||||||||||||   ||||||| | ||||||| ||||| |||||||||||||||||||||    
T  2063163 ccaaaataaacatcaccacctaaaa---actccttcaagaaacgaccactgaaaaaacgatatccataaccat 2063094  T

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Target: chr2; HSP #3
Raw Score: 35; E-Value: 0.00000000003
Query Start/End: Original strand, 14 - 75
Target Start/End: Original strand, 22884929 - 22884991
Alignment:
Q  14 aaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataacc 75  Q
    |||||||||||||||||| ||||||||| | ||||||| |||||| |||||| ||||||||||    
T  22884929 aaacatcaccacctaaaacagactccttcacgaaacgaccactgacaaacgaaatccataacc 22884991  T

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Target: chr2; HSP #4
Raw Score: 35; E-Value: 0.00000000003
Query Start/End: Original strand, 9 - 76
Target Start/End: Original strand, 27879925 - 27879994
Alignment:
Q  9 aaaataaacatcaccacctaaaaaagactccttatg--aaacgagcactgaaaaacgatatccataacca 76  Q
    ||||||||||||||||||||||| |||||||||  |  |||||| | ||||||||||| |||||||||||    
T  27879925 aaaataaacatcaccacctaaaacagactccttcaggaaaacgacctctgaaaaacgaaatccataacca 27879994  T

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Target: chr2; HSP #5
Raw Score: 34; E-Value: 0.0000000001
Query Start/End: Original strand, 12 - 76
Target Start/End: Complemental strand, 4472210 - 4472145
Alignment:
Q  12 ataaacatcaccacctaaaaaagactcc-ttatgaaacgagcactgaaaaacgatatccataacca 76  Q
    |||||||||||||||||||| ||| ||| ||| |||| || |||||||||||| ||||||||||||    
T  4472210 ataaacatcaccacctaaaatagagtcctttaagaaatgaccactgaaaaacgttatccataacca 4472145  T

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Target: chr2; HSP #6
Raw Score: 33; E-Value: 0.0000000005
Query Start/End: Original strand, 6 - 73
Target Start/End: Original strand, 25504696 - 25504764
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataa 73  Q
    |||||||||||||||||||||||||| ||| || || | ||||||| |||||||||||| |||| ||||    
T  25504696 accaaaataaacatcaccacctaaaacagagtctttcacgaaacgaccactgaaaaacggtatcaataa 25504764  T

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Target: chr2; HSP #7
Raw Score: 31; E-Value: 0.000000008
Query Start/End: Original strand, 11 - 72
Target Start/End: Original strand, 43816249 - 43816311
Alignment:
Q  11 aataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccata 72  Q
    ||||||||||||||||||||| |||||| || | ||||| | |||||||||||| ||||||||    
T  43816249 aataaacatcaccacctaaaatagactctttcacgaaacaaccactgaaaaacggtatccata 43816311  T

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Target: chr2; HSP #8
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 45 - 76
Target Start/End: Complemental strand, 20572341 - 20572310
Alignment:
Q  45 aaacgagcactgaaaaacgatatccataacca 76  Q
    |||||| |||||||||||||||||||||||||    
T  20572341 aaacgaccactgaaaaacgatatccataacca 20572310  T

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Target: chr3 (Bit Score: 31; Significance: 0.000000008; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 31; E-Value: 0.000000008
Query Start/End: Original strand, 7 - 41
Target Start/End: Complemental strand, 32010072 - 32010038
Alignment:
Q  7 ccaaaataaacatcaccacctaaaaaagactcctt 41  Q
    ||||||||||||||||||||||||| |||||||||    
T  32010072 ccaaaataaacatcaccacctaaaacagactcctt 32010038  T

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Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 6 - 85
Target Start/End: Original strand, 823206 - 823286
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaaacgatatccataaccatccgtcgcc 85  Q
    |||||||| ||| ||||||||||||| | ||||| | |  |||| | ||||||||||||||||||||||||| || |||||    
T  823206 accaaaattaacttcaccacctaaaacaaactccatcacaaaacaaccactgaaaaacgatatccataaccacccttcgcc 823286  T

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Target: chr6 (Bit Score: 29; Significance: 0.0000001; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 6 - 42
Target Start/End: Original strand, 32935112 - 32935148
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctta 42  Q
    ||||||||||||| |||||||||||| ||||||||||    
T  32935112 accaaaataaacaccaccacctaaaatagactcctta 32935148  T

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Target: chr6; HSP #2
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 6 - 41
Target Start/End: Original strand, 16180685 - 16180720
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt 41  Q
    |||||||||||||||||||||||||| |||| ||||    
T  16180685 accaaaataaacatcaccacctaaaacagacccctt 16180720  T

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

Target: chr6; HSP #3
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 6 - 60
Target Start/End: Original strand, 17278271 - 17278326
Alignment:
Q  6 accaaaataaacatcaccacctaaaaaagactcctt-atgaaacgagcactgaaaa 60  Q
    |||||||||||||| ||||||||||  ||||||||| | ||||||| |||||||||    
T  17278271 accaaaataaacattaccacctaaatcagactccttcacgaaacgaacactgaaaa 17278326  T

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



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