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: NF3090_low_52 (Length: 294)

Name: NF3090_low_52
Description: NF3090
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3090_low_52
NF3090_low_52
[»] scaffold0238 (2 HSPs)
scaffold0238 (65-278)||(12618-12831)
scaffold0238 (17-49)||(12845-12877)
[»] chr2 (3 HSPs)
chr2 (65-278)||(10452776-10452995)
chr2 (17-49)||(10453007-10453039)
chr2 (226-278)||(14455914-14455966)
[»] chr1 (3 HSPs)
chr1 (65-278)||(12604113-12604314)
chr1 (17-49)||(23261552-23261584)
chr1 (188-252)||(23261413-23261477)
[»] chr6 (1 HSPs)
chr6 (223-278)||(21547848-21547903)
[»] chr4 (3 HSPs)
chr4 (17-49)||(56478363-56478395)
chr4 (214-278)||(6898330-6898394)
chr4 (188-252)||(56478470-56478534)
[»] chr7 (1 HSPs)
chr7 (214-278)||(39741872-39741936)
[»] chr5 (1 HSPs)
chr5 (65-145)||(33619228-33619307)


Alignment Details
Target: scaffold0238 (Bit Score: 198; Significance: 1e-108; HSPs: 2)
Name: scaffold0238
Description:

Target: scaffold0238; HSP #1
Raw Score: 198; E-Value: 1e-108
Query Start/End: Original strand, 65 - 278
Target Start/End: Complemental strand, 12831 - 12618
Alignment:
Q  65 ctcactgccgtagctttaagccttgatcctcccatccattgcaacatggcacatgatgcaatctaaaacctaaagtagaaatgaattaaaatccaaaatc 164  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  12831 ctcactgccgtagctttaagccttgatcctcccatccattgcaacatggcacatgatgcaatctaaaacctaaagtagaaatgaatcaaaatccaaaatc 12732  T
Q  165 aaattcaaatagtataactaatgatggaatcgtcggtcaaattgccaacgaaattgacaatcaaaatcaatatcaaatttagaaagaacgaattgaataa 264  Q
    ||||||||||||||||||||||||||||||||||||||| |||||||||||||||| ||||||||||||| |||||||||||||||||||||||||||||    
T  12731 aaattcaaatagtataactaatgatggaatcgtcggtcacattgccaacgaaattgtcaatcaaaatcaacatcaaatttagaaagaacgaattgaataa 12632  T
Q  265 gaaattgagaaaga 278  Q
    ||||||||||||||    
T  12631 gaaattgagaaaga 12618  T

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

Target: scaffold0238; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 17 - 49
Target Start/End: Complemental strand, 12877 - 12845
Alignment:
Q  17 aagagaatgaaaacaaaagagactaatagagat 49  Q
    |||||||||||||||||||||||||||||||||    
T  12877 aagagaatgaaaacaaaagagactaatagagat 12845  T

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Target: chr2 (Bit Score: 169; Significance: 1e-90; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 169; E-Value: 1e-90
Query Start/End: Original strand, 65 - 278
Target Start/End: Complemental strand, 10452995 - 10452776
Alignment:
Q  65 ctcactgccgtagctttaagccttgatcctcccatccattgcaacatggcacatgatgcaatctaaaacctaaagtagaaatgaattaaaatccaaaatc 164  Q
    ||||||| ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  10452995 ctcactgtcgtagctttaagccttgatcctcccatccattgtaacatggcacatgatgcaatctaaaacctaaagtagaaatgaataaaaatccaaaatc 10452896  T
Q  165 aaa------ttcaaatagtataactaatgatggaatcgtcggtcaaattgccaacgaaattgacaatcaaaatcaatatcaaatttagaaagaacgaatt 258  Q
    |||      ||||||||||||||||||||||||||||||  ||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||    
T  10452895 aaaataaaattcaaatagtataactaatgatggaatcgttagtcaaattgccaacgaaattgtcaatcaaaatcgatatcaaatttagaaagaacgaatt 10452796  T
Q  259 gaataagaaattgagaaaga 278  Q
    ||||||||||||||||||||    
T  10452795 gaataagaaattgagaaaga 10452776  T

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Target: chr2; HSP #2
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 17 - 49
Target Start/End: Complemental strand, 10453039 - 10453007
Alignment:
Q  17 aagagaatgaaaacaaaagagactaatagagat 49  Q
    ||||||||||||| |||||||||||||||||||    
T  10453039 aagagaatgaaaataaaagagactaatagagat 10453007  T

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Target: chr2; HSP #3
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 226 - 278
Target Start/End: Original strand, 14455914 - 14455966
Alignment:
Q  226 caaaatcaatatcaaatttagaaagaacgaattgaataagaaattgagaaaga 278  Q
    ||||||| |||| ||||  ||||||||| |||||| |||||||||||||||||    
T  14455914 caaaatcgatattaaatcgagaaagaacaaattgagtaagaaattgagaaaga 14455966  T

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Target: chr1 (Bit Score: 161; Significance: 7e-86; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 161; E-Value: 7e-86
Query Start/End: Original strand, 65 - 278
Target Start/End: Original strand, 12604113 - 12604314
Alignment:
Q  65 ctcactgccgtagctttaagccttgatcctcccatccattgcaacatggcacatgatgcaatctaaaacctaaagtagaaatgaattaaaatccaaaatc 164  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  12604113 ctcactgccgtagctttaagccttgatcctcccatccattgcaacatggcacatgatgcaatctaaaacctaaagtagaaatgaatcaaaatccaaaatc 12604212  T
Q  165 aaattcaaatagtataactaatgatggaatcgtcggtcaaattgccaacgaaattgacaatcaaaatcaatatcaaatttagaaagaacgaattgaataa 264  Q
    |||||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||            |||||||||||||||||||||||||||||    
T  12604213 aaattcaaatagtataactaatgatggaatggtcggtcaaattgccaacgaaattgtca------------atcaaatttagaaagaacgaattgaataa 12604300  T
Q  265 gaaattgagaaaga 278  Q
    ||||||||||||||    
T  12604301 gaaattgagaaaga 12604314  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 17 - 49
Target Start/End: Complemental strand, 23261584 - 23261552
Alignment:
Q  17 aagagaatgaaaacaaaagagactaatagagat 49  Q
    |||||||||||||||||||||||||||||||||    
T  23261584 aagagaatgaaaacaaaagagactaatagagat 23261552  T

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Target: chr1; HSP #3
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 188 - 252
Target Start/End: Complemental strand, 23261477 - 23261413
Alignment:
Q  188 atggaatcgtcggtcaaattgccaacgaaattgacaatcaaaatcaatatcaaatttagaaagaa 252  Q
    ||||||| ||| |||||||||| || ||||| |  |||||||||| || ||||||||||||||||    
T  23261477 atggaattgtcagtcaaattgcaaatgaaatcgttaatcaaaatcgatgtcaaatttagaaagaa 23261413  T

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Target: chr6 (Bit Score: 36; Significance: 0.00000000003; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 223 - 278
Target Start/End: Original strand, 21547848 - 21547903
Alignment:
Q  223 aatcaaaatcaatatcaaatttagaaagaacgaattgaataagaaattgagaaaga 278  Q
    |||||||||| |||||||||| ||||||||  || |||||||||||||||||||||    
T  21547848 aatcaaaatcgatatcaaattgagaaagaaaaaactgaataagaaattgagaaaga 21547903  T

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Target: chr4 (Bit Score: 33; Significance: 0.000000002; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 17 - 49
Target Start/End: Original strand, 56478363 - 56478395
Alignment:
Q  17 aagagaatgaaaacaaaagagactaatagagat 49  Q
    |||||||||||||||||||||||||||||||||    
T  56478363 aagagaatgaaaacaaaagagactaatagagat 56478395  T

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Target: chr4; HSP #2
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 214 - 278
Target Start/End: Original strand, 6898330 - 6898394
Alignment:
Q  214 gaaattgacaatcaaaatcaatatcaaatttagaaagaacgaattgaataagaaattgagaaaga 278  Q
    |||||||  |||||||||  |||||||||  ||||||||  |||||||| |||||||||||||||    
T  6898330 gaaattgtaaatcaaaattgatatcaaatcgagaaagaagaaattgaatgagaaattgagaaaga 6898394  T

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Target: chr4; HSP #3
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 188 - 252
Target Start/End: Original strand, 56478470 - 56478534
Alignment:
Q  188 atggaatcgtcggtcaaattgccaacgaaattgacaatcaaaatcaatatcaaatttagaaagaa 252  Q
    ||||||| ||| |||||||||| || ||||| |  |||||||||| || ||||||||||||||||    
T  56478470 atggaattgtcagtcaaattgcaaatgaaatcgttaatcaaaatcgatgtcaaatttagaaagaa 56478534  T

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Target: chr7 (Bit Score: 29; Significance: 0.0000004; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 214 - 278
Target Start/End: Original strand, 39741872 - 39741936
Alignment:
Q  214 gaaattgacaatcaaaatcaatatcaaatttagaaagaacgaattgaataagaaattgagaaaga 278  Q
    |||||||  |||||||||  |||||||||  ||||||||  |||||||| |||||||||||||||    
T  39741872 gaaattgtaaatcaaaattgatatcaaatcgagaaagaagaaattgaatgagaaattgagaaaga 39741936  T

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Target: chr5 (Bit Score: 29; Significance: 0.0000004; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 65 - 145
Target Start/End: Original strand, 33619228 - 33619307
Alignment:
Q  65 ctcactgccgtagctttaagccttgatcctcccatccattgcaacatggcacatgatgcaatctaaaacctaaagtagaaa 145  Q
    ||||||||  || |||| |||||| ||||||||||| | | |||||||| |||||||| | ||||||||||| ||||||||    
T  33619228 ctcactgcactaactttcagcctt-atcctcccatcaactacaacatggtacatgatggattctaaaacctatagtagaaa 33619307  T

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