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-NF5858-5 (Length: 185)

Name: Solexa-NF5858-5
Description: NF5858
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5858-5
Solexa-NF5858-5
[»] chr3 (5 HSPs)
chr3 (1-171)||(34527826-34527996)
chr3 (29-106)||(27627524-27627601)
chr3 (29-106)||(34513313-34513390)
chr3 (95-171)||(27634001-27634080)
chr3 (95-171)||(34518819-34518898)
[»] chr6 (4 HSPs)
chr6 (29-118)||(24486465-24486555)
chr6 (29-143)||(24468169-24468286)
chr6 (29-118)||(24485746-24485835)
chr6 (29-144)||(24472475-24472595)
[»] chr2 (2 HSPs)
chr2 (29-143)||(10527955-10528072)
chr2 (41-143)||(10534867-10534972)
[»] scaffold1215 (1 HSPs)
scaffold1215 (41-143)||(2055-2160)
[»] chr1 (1 HSPs)
chr1 (33-78)||(21991125-21991170)


Alignment Details
Target: chr3 (Bit Score: 147; Significance: 9e-78; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 147; E-Value: 9e-78
Query Start/End: Original strand, 1 - 171
Target Start/End: Original strand, 34527826 - 34527996
Alignment:
Q  1 tgacccttcttagaatcctcatgtcttcttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctc 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  34527826 tgacccttcttagaatcctcatgtcttcttcattgatattagaaagttcaagattcattgaagtgaaattgtcaaaaacagaagaatcttcaggcacctc 34527925  T
Q  101 agtaggtgttgttgaagatgaactcaagttgttttcctctgtgctcctccacattgtcactcactcgacaa 171  Q
    ||||||||||||||||||||||||||||||||||||||||||||   ||  ||||||||||||||||||||    
T  34527926 agtaggtgttgttgaagatgaactcaagttgttttcctctgtgcaattcgtcattgtcactcactcgacaa 34527996  T

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Target: chr3; HSP #2
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 29 - 106
Target Start/End: Original strand, 27627524 - 27627601
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtagg 106  Q
    |||||||| || ||| |||||||||||||||||||| ||||| |||||| | ||||||||||  |||||| |||||||    
T  27627524 ttcattgaaatcagatagttcaagattcattgaagccaaattttcaaaatctgaagaatcttgtggcaccacagtagg 27627601  T

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Target: chr3; HSP #3
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 29 - 106
Target Start/End: Original strand, 34513313 - 34513390
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtagg 106  Q
    |||||||| || ||| |||||||||||||||||||| ||||| |||||| | ||||||||||  |||||| |||||||    
T  34513313 ttcattgaaatcagatagttcaagattcattgaagccaaattttcaaaatctgaagaatcttgtggcaccacagtagg 34513390  T

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Target: chr3; HSP #4
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 95 - 171
Target Start/End: Original strand, 27634001 - 27634080
Alignment:
Q  95 cacctcagtaggtgttgttgaagatgaa-ctc--aagttgttttcctctgtgctcctccacattgtcactcactcgacaa 171  Q
    |||||||||||||||||||||||||||| |||  | |||||||||||||||||   ||  ||||||||||||||| ||||    
T  27634001 cacctcagtaggtgttgttgaagatgaagctccaatgttgttttcctctgtgcagttcgtcattgtcactcactcaacaa 27634080  T

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Target: chr3; HSP #5
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 95 - 171
Target Start/End: Original strand, 34518819 - 34518898
Alignment:
Q  95 cacctcagtaggtgttgttgaagatgaa-ctc--aagttgttttcctctgtgctcctccacattgtcactcactcgacaa 171  Q
    |||||||||||||||||||||||||||| |||  | |||||| ||||||||||   ||  ||||||||||||||| ||||    
T  34518819 cacctcagtaggtgttgttgaagatgaagctccaatgttgttgtcctctgtgcagttcgtcattgtcactcactcaacaa 34518898  T

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Target: chr6 (Bit Score: 51; Significance: 2e-20; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 51; E-Value: 2e-20
Query Start/End: Original strand, 29 - 118
Target Start/End: Complemental strand, 24486555 - 24486465
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgt-caaaaacagaagaatcttcaggcacctcagtaggtgttgttgaaga 118  Q
    ||||||||||| |||||||||||| ||||||||||  ||||||| |||||||||||||| |||  |||| |||||||||||||||||||||    
T  24486555 ttcattgatatcagaaagttcaagcttcattgaagaaaaattgtacaaaaacagaagaaccttgtggcatctcagtaggtgttgttgaaga 24486465  T

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Target: chr6; HSP #2
Raw Score: 40; E-Value: 0.00000000000007
Query Start/End: Original strand, 29 - 143
Target Start/End: Complemental strand, 24468286 - 24468169
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtaggtgttgttgaagatgaa---ctc 125  Q
    ||||||||||| | |||||||||| |||||||| || ||||||| |||||| |||||| |||   ||| ||||||| |||||||| ||||||||   |||    
T  24468286 ttcattgatatcataaagttcaagcttcattgacgcaaaattgtaaaaaacggaagaaccttgttgcatctcagtaagtgttgtttaagatgaagcgctc 24468187  T
Q  126 aagttgttttcctctgtg 143  Q
      ||||||||||||||||    
T  24468186 tcgttgttttcctctgtg 24468169  T

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Target: chr6; HSP #3
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 29 - 118
Target Start/End: Complemental strand, 24485835 - 24485746
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtaggtgttgttgaaga 118  Q
    ||||||||||| |||||||||||| ||||||||||| ||| ||| |||||| ||| |  |||  |||| || ||||||||||||||||||    
T  24485835 ttcattgatatcagaaagttcaagcttcattgaagcaaaactgtaaaaaacggaaaagccttgtggcatcttagtaggtgttgttgaaga 24485746  T

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Target: chr6; HSP #4
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 29 - 144
Target Start/End: Complemental strand, 24472595 - 24472475
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaa--aacagaagaatcttcaggcacctcagtaggtgttgttgaagatgaa---c 123  Q
    |||||||||||||||||||||||| ||||||||||  |||  || |||  ||| ||| || |||  |||| |||||||||||||||||||||  ||   |    
T  24472595 ttcattgatattagaaagttcaagcttcattgaagaaaaaccgtaaaaagaacggaaaaaccttggggcatctcagtaggtgttgttgaagacaaagcgc 24472496  T
Q  124 tcaagttgttttcctctgtgc 144  Q
    ||| |||||||||||||||||    
T  24472495 tcacgttgttttcctctgtgc 24472475  T

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Target: chr2 (Bit Score: 48; Significance: 1e-18; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 29 - 143
Target Start/End: Original strand, 10527955 - 10528072
Alignment:
Q  29 ttcattgatattagaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtaggtgttgttgaagatgaa---ctc 125  Q
    ||||| ||||| |||||||| ||| ||||| ||| | ||||||||||||||||||||| |||  ||||||||||||||||||| || |||||||   | |    
T  10527955 ttcatagatatcagaaagtttaagcttcatcgaatcaaaattgtcaaaaacagaagaaccttggggcacctcagtaggtgttgctggagatgaagtgcgc 10528054  T
Q  126 aagttgttttcctctgtg 143  Q
    | ||||||||||||||||    
T  10528055 atgttgttttcctctgtg 10528072  T

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Target: chr2; HSP #2
Raw Score: 40; E-Value: 0.00000000000007
Query Start/End: Original strand, 41 - 143
Target Start/End: Original strand, 10534867 - 10534972
Alignment:
Q  41 agaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtaggtgttgttgaagatgaa---ctcaagttgttttcc 137  Q
    |||||||| ||| ||||| ||| | ||||||| ||||||||||||| |||  | ||||||||||||||||| || |||||||   |||| ||||||||||    
T  10534867 agaaagtttaagcttcatcgaatcaaaattgttaaaaacagaagaaccttgtgtcacctcagtaggtgttggtggagatgaagagctcatgttgttttcc 10534966  T
Q  138 tctgtg 143  Q
    ||||||    
T  10534967 tctgtg 10534972  T

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Target: scaffold1215 (Bit Score: 40; Significance: 0.00000000000007; HSPs: 1)
Name: scaffold1215
Description:

Target: scaffold1215; HSP #1
Raw Score: 40; E-Value: 0.00000000000007
Query Start/End: Original strand, 41 - 143
Target Start/End: Original strand, 2055 - 2160
Alignment:
Q  41 agaaagttcaagattcattgaagcgaaattgtcaaaaacagaagaatcttcaggcacctcagtaggtgttgttgaagatgaa---ctcaagttgttttcc 137  Q
    |||||||| ||| ||||| ||| | ||||||| ||||||||||||| |||  | ||||||||||||||||| || |||||||   |||| ||||||||||    
T  2055 agaaagtttaagcttcatcgaatcaaaattgttaaaaacagaagaaccttgtgtcacctcagtaggtgttggtggagatgaagagctcatgttgttttcc 2154  T
Q  138 tctgtg 143  Q
    ||||||    
T  2155 tctgtg 2160  T

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Target: chr1 (Bit Score: 30; Significance: 0.00000006; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 33 - 78
Target Start/End: Original strand, 21991125 - 21991170
Alignment:
Q  33 ttgatattagaaagttcaagattcattgaagcgaaattgtcaaaaa 78  Q
    |||||||||||||| ||||||||||||||||  | |||||||||||    
T  21991125 ttgatattagaaagctcaagattcattgaagacagattgtcaaaaa 21991170  T

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