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-NF5676-6 (Length: 237)

Name: Solexa-NF5676-6
Description: NF5676
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5676-6
Solexa-NF5676-6
[»] chr1 (3 HSPs)
chr1 (6-234)||(42837142-42837371)
chr1 (63-185)||(35598628-35598750)
chr1 (25-150)||(35599177-35599305)
[»] scaffold0368 (1 HSPs)
scaffold0368 (6-140)||(13436-13569)
[»] chr4 (6 HSPs)
chr4 (86-150)||(50234464-50234528)
chr4 (86-146)||(11658215-11658275)
chr4 (22-81)||(11658538-11658597)
chr4 (38-81)||(11658292-11658335)
chr4 (38-81)||(11658383-11658426)
chr4 (44-81)||(50234545-50234582)
[»] scaffold1463 (1 HSPs)
scaffold1463 (86-150)||(87-151)
[»] chr2 (6 HSPs)
chr2 (86-146)||(19586484-19586544)
chr2 (86-146)||(7390568-7390628)
chr2 (22-81)||(7390369-7390428)
chr2 (22-81)||(19586684-19586743)
chr2 (38-81)||(7390508-7390551)
chr2 (38-81)||(19586561-19586604)
[»] chr3 (1 HSPs)
chr3 (22-81)||(51655507-51655566)


Alignment Details
Target: chr1 (Bit Score: 161; Significance: 1e-86; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 161; E-Value: 1e-86
Query Start/End: Original strand, 6 - 234
Target Start/End: Complemental strand, 42837371 - 42837142
Alignment:
Q  6 cactttctcccaccgattcatgttcatattgattgtgtaaatttttctaatttcgaatttgacattagggtttgaaaatcgttgattttgatatgtgatt 105  Q
    |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  42837371 cactttctcccaccgattcatgttcatattgattgtgtgaatttttctaatttcgaatttgacattagggtttgaaaatcgttgattttgatatgtgatt 42837272  T
Q  106 gtgtgaattataactttttcttcattgttagaatagtttttgttcnnnnnnncatcgttcgttgttgtatttcgtttctttctctstgctyc-tccacaa 204  Q
    |||||||||||||||||||||||||||||||||||||||||||||       ||| ||| ||||||||||||||||||||||||| || | |   | |||    
T  42837271 gtgtgaattataactttttcttcattgttagaatagtttttgttctttttttcattgttagttgttgtatttcgtttctttctctgtgtttcagtctcaa 42837172  T
Q  205 ttcaataccttgcaattgtgccacttctct 234  Q
    ||||||||||||||||  ||||||||||||    
T  42837171 ttcaataccttgcaatcatgccacttctct 42837142  T

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Target: chr1; HSP #2
Raw Score: 74; E-Value: 2e-34
Query Start/End: Original strand, 63 - 185
Target Start/End: Original strand, 35598628 - 35598750
Alignment:
Q  63 tttgacattagggtttgaaaatcgttgattttgatatgtgattgtgtgaattataactttttcttcattgttagaatagtttttgttcnnnnnnncatcg 162  Q
    ||||||| |||||||||||||| ||||||||||||||||||||||||||| |||| ||||||||||||||||||| ||||||||||||       ||| |    
T  35598628 tttgacaatagggtttgaaaattgttgattttgatatgtgattgtgtgaaatatagctttttcttcattgttagattagtttttgttctttttttcattg 35598727  T
Q  163 ttcgttgttgtatttcgtttctt 185  Q
    || ||||||||||||||||||||    
T  35598728 ttagttgttgtatttcgtttctt 35598750  T

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Target: chr1; HSP #3
Raw Score: 66; E-Value: 2e-29
Query Start/End: Original strand, 25 - 150
Target Start/End: Original strand, 35599177 - 35599305
Alignment:
Q  25 atgttcatattgattgtgtaaatttttctaatttcgaat--ttgacattagggtttgaaaatcgttgattttgatatgtgattgtgtgaattata-actt 121  Q
    |||||||||||||||||||  |||||  |||||| ||||  |||||| |||||||||||||||||||||||||||||||||||||||||||||||  |||    
T  35599177 atgttcatattgattgtgtgcattttgataattttgaatccttgacaatagggtttgaaaatcgttgattttgatatgtgattgtgtgaattatagtctt 35599276  T
Q  122 tttcttcattgttagaatagtttttgttc 150  Q
    ||| |  ||||||||| ||||||||||||    
T  35599277 tttttctattgttagattagtttttgttc 35599305  T

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Target: scaffold0368 (Bit Score: 111; Significance: 2e-56; HSPs: 1)
Name: scaffold0368
Description:

Target: scaffold0368; HSP #1
Raw Score: 111; E-Value: 2e-56
Query Start/End: Original strand, 6 - 140
Target Start/End: Original strand, 13436 - 13569
Alignment:
Q  6 cactttctcccaccgattcatgttcatattgattgtgtaaatttttctaatttcgaatttgacattagggtttgaaaatcgttgattttgatatgtgatt 105  Q
    |||||||||||||||||||||||||||||||||||||| ||||||||||||||| ||||||||||||||||||| |||||||||||||||||||||||||    
T  13436 cactttctcccaccgattcatgttcatattgattgtgtgaatttttctaatttccaatttgacattagggtttg-aaatcgttgattttgatatgtgatt 13534  T
Q  106 gtgtgaattataactttttcttcattgttagaata 140  Q
    ||||||||||||  |||||||||||||||||||||    
T  13535 gtgtgaattatacttttttcttcattgttagaata 13569  T

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Target: chr4 (Bit Score: 61; Significance: 2e-26; HSPs: 6)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 61; E-Value: 2e-26
Query Start/End: Original strand, 86 - 150
Target Start/End: Complemental strand, 50234528 - 50234464
Alignment:
Q  86 gttgattttgatatgtgattgtgtgaattataactttttcttcattgttagaatagtttttgttc 150  Q
    |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||    
T  50234528 gttgattttgatatgtgattgtgtgaattacaactttttcttcattgttagaatagtttttgttc 50234464  T

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Target: chr4; HSP #2
Raw Score: 53; E-Value: 1e-21
Query Start/End: Original strand, 86 - 146
Target Start/End: Complemental strand, 11658275 - 11658215
Alignment:
Q  86 gttgattttgatatgtgattgtgtgaattataactttttcttcattgttagaatagttttt 146  Q
    |||||||||||||||||||||||||||||| | ||||||||||||||||||||||||||||    
T  11658275 gttgattttgatatgtgattgtgtgaattacagctttttcttcattgttagaatagttttt 11658215  T

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Target: chr4; HSP #3
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 22 - 81
Target Start/End: Complemental strand, 11658597 - 11658538
Alignment:
Q  22 ttcatgttcatattgattgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    |||||||||||||||||||||| |||||| ||||||| ||||||||||||||||||||||    
T  11658597 ttcatgttcatattgattgtgtgaattttgctaattttgaatttgacattagggtttgaa 11658538  T

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Target: chr4; HSP #4
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 38 - 81
Target Start/End: Complemental strand, 11658335 - 11658292
Alignment:
Q  38 ttgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    ||||||||||||| ||||||| ||||||||||||||||| ||||    
T  11658335 ttgtgtaaattttgctaattttgaatttgacattagggtgtgaa 11658292  T

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Target: chr4; HSP #5
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 38 - 81
Target Start/End: Complemental strand, 11658426 - 11658383
Alignment:
Q  38 ttgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    ||||||||||||| ||||||| ||||||||||||||||| ||||    
T  11658426 ttgtgtaaattttgctaattttgaatttgacattagggtgtgaa 11658383  T

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Target: chr4; HSP #6
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 44 - 81
Target Start/End: Complemental strand, 50234582 - 50234545
Alignment:
Q  44 aaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    ||||||| ||||||||||||||||||||||||| ||||    
T  50234582 aaattttgctaatttcgaatttgacattagggtatgaa 50234545  T

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Target: scaffold1463 (Bit Score: 57; Significance: 4e-24; HSPs: 1)
Name: scaffold1463
Description:

Target: scaffold1463; HSP #1
Raw Score: 57; E-Value: 4e-24
Query Start/End: Original strand, 86 - 150
Target Start/End: Original strand, 87 - 151
Alignment:
Q  86 gttgattttgatatgtgattgtgtgaattataactttttcttcattgttagaatagtttttgttc 150  Q
    |||||||||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||    
T  87 gttgattttgatatgtgattgtgtgaattacagctttttcttcattgttagaatagtttttgttc 151  T

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Target: chr2 (Bit Score: 57; Significance: 4e-24; HSPs: 6)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 57; E-Value: 4e-24
Query Start/End: Original strand, 86 - 146
Target Start/End: Complemental strand, 19586544 - 19586484
Alignment:
Q  86 gttgattttgatatgtgattgtgtgaattataactttttcttcattgttagaatagttttt 146  Q
    |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  19586544 gttgattttgatatgtgattgtgtgaattacaactttttcttcattgttagaatagttttt 19586484  T

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Target: chr2; HSP #2
Raw Score: 53; E-Value: 1e-21
Query Start/End: Original strand, 86 - 146
Target Start/End: Original strand, 7390568 - 7390628
Alignment:
Q  86 gttgattttgatatgtgattgtgtgaattataactttttcttcattgttagaatagttttt 146  Q
    |||||||||||||||||||||||||||||| | ||||||||||||||||||||||||||||    
T  7390568 gttgattttgatatgtgattgtgtgaattacagctttttcttcattgttagaatagttttt 7390628  T

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Target: chr2; HSP #3
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 22 - 81
Target Start/End: Original strand, 7390369 - 7390428
Alignment:
Q  22 ttcatgttcatattgattgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    |||||||||||||||||||||| |||||| ||||||| ||||||||||||||||||||||    
T  7390369 ttcatgttcatattgattgtgtgaattttgctaattttgaatttgacattagggtttgaa 7390428  T

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Target: chr2; HSP #4
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 22 - 81
Target Start/End: Complemental strand, 19586743 - 19586684
Alignment:
Q  22 ttcatgttcatattgattgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    |||||||||||||||||||||| |||||| ||||||| ||||||||||||||||||||||    
T  19586743 ttcatgttcatattgattgtgtgaattttgctaattttgaatttgacattagggtttgaa 19586684  T

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Target: chr2; HSP #5
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 38 - 81
Target Start/End: Original strand, 7390508 - 7390551
Alignment:
Q  38 ttgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    ||||||||||||| ||||||| ||||||||||||||||| ||||    
T  7390508 ttgtgtaaattttgctaattttgaatttgacattagggtgtgaa 7390551  T

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

Target: chr2; HSP #6
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 38 - 81
Target Start/End: Complemental strand, 19586604 - 19586561
Alignment:
Q  38 ttgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    ||||||||||||| ||||||| ||||||||||||||||| ||||    
T  19586604 ttgtgtaaattttgctaattttgaatttgacattagggtgtgaa 19586561  T

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Target: chr3 (Bit Score: 44; Significance: 3e-16; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 22 - 81
Target Start/End: Original strand, 51655507 - 51655566
Alignment:
Q  22 ttcatgttcatattgattgtgtaaatttttctaatttcgaatttgacattagggtttgaa 81  Q
    ||||||||||||||||| |||| |||||| ||||||| ||||||||||||||||||||||    
T  51655507 ttcatgttcatattgatagtgtgaattttgctaattttgaatttgacattagggtttgaa 51655566  T

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