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: NF3711_low_3 (Length: 679)

Name: NF3711_low_3
Description: NF3711
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3711_low_3
NF3711_low_3
[»] chr2 (9 HSPs)
chr2 (14-432)||(12233635-12234051)
chr2 (461-663)||(12234080-12234282)
chr2 (463-659)||(11998504-11998700)
chr2 (461-656)||(14702370-14702565)
chr2 (461-659)||(7541187-7541385)
chr2 (465-659)||(12246415-12246609)
chr2 (465-658)||(12259583-12259779)
chr2 (39-125)||(7540668-7540754)
chr2 (484-527)||(16663133-16663176)
[»] chr1 (3 HSPs)
chr1 (461-659)||(52549938-52550136)
chr1 (108-182)||(52550439-52550512)
chr1 (498-526)||(4679690-4679718)
[»] chr3 (1 HSPs)
chr3 (123-182)||(50672096-50672154)
[»] chr7 (3 HSPs)
chr7 (484-654)||(17274580-17274750)
chr7 (486-559)||(8586812-8586885)
chr7 (484-539)||(6788502-6788557)
[»] chr4 (2 HSPs)
chr4 (123-182)||(23591125-23591183)
chr4 (68-112)||(23591015-23591059)
[»] chr8 (1 HSPs)
chr8 (485-540)||(43441270-43441325)
[»] scaffold0219 (1 HSPs)
scaffold0219 (71-112)||(22785-22826)


Alignment Details
Target: chr2 (Bit Score: 400; Significance: 0; HSPs: 9)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 400; E-Value: 0
Query Start/End: Original strand, 14 - 432
Target Start/End: Original strand, 12233635 - 12234051
Alignment:
Q  14 tgtttgcattaggaatttaagaggctttgccaagtattggtgtataaagtttactaataaattttggaagttatcattattctccaaattcagaaagaag 113  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12233635 tgtttgcattaggaatttaagaggctttgccaagtattggtgtataaagtttactaataaattttggaagttatcattattctccaaattcagaaagaag 12233734  T
Q  114 acaagaccatttttctataatactaatcctgctgaaaccttagtctaatatttttaaatttcaatacaacttttctcaagcaaaggaatatgcagcagat 213  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12233735 acaagaccatttttctataatactaatcctgctgaaaccttagtctaatatttttaaatttcaatacaacttttctcaagcaaaggaatatgcagcagat 12233834  T
Q  214 taaagtcctgaaggtaacttgaagaaattacatgtaaactaatataaagtccaaattaatcacaatggaaatagaagtgtctacatcatggtttcaacac 313  Q
    ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||    
T  12233835 taaagtcctgaagataacttgaagaaattacatgtaaactaatataaagtccaaattaatcacaatggaaatagaagtgtctacatcatggtttca--ac 12233932  T
Q  314 acactgttgttggcatgatttaagtaacagatcttcaccagaaatataacaaactttacttaacaatcaaataatgcttactactaaacagaaagaaaat 413  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||    
T  12233933 acactgttgttggcatgatttaagtaacagatcttcaccagaaatataacaaaccttacttaacaatcaaataatgcttactactaaacagaaagaaaat 12234032  T
Q  414 acctaaaatctttattgag 432  Q
    |||||||||||||||||||    
T  12234033 acctaaaatctttattgag 12234051  T

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Target: chr2; HSP #2
Raw Score: 203; E-Value: 1e-110
Query Start/End: Original strand, 461 - 663
Target Start/End: Original strand, 12234080 - 12234282
Alignment:
Q  461 cttagctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtg 560  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12234080 cttagctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtg 12234179  T
Q  561 gcagttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatgtaga 660  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12234180 gcagttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatgtaga 12234279  T
Q  661 gat 663  Q
    |||    
T  12234280 gat 12234282  T

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Target: chr2; HSP #3
Raw Score: 117; E-Value: 3e-59
Query Start/End: Original strand, 463 - 659
Target Start/End: Original strand, 11998504 - 11998700
Alignment:
Q  463 tagctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtggc 562  Q
    |||||||||| |||||||| ||||||||||||||||||||||||||||| |||||||||||||||||||||   |||||||||||||||| |||||||||    
T  11998504 tagctataatttgttccatcctactctcaagccctttcagatgatcctcgagaacatctatttcaacttgccacttattctcatcaaccagatttgtggc 11998603  T
Q  563 agttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatgtag 659  Q
    |||||| ||  || | ||||| |||| ||||||||||||||||||||||||| |||||||| |   ||| |||||||||||||||||||||||||||    
T  11998604 agttgcgattgcatactcaattttctaaatttcttctgaggagagctttataataatatcctttgactttaaagcatttctcattttgtaaatgtag 11998700  T

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Target: chr2; HSP #4
Raw Score: 93; E-Value: 6e-45
Query Start/End: Original strand, 461 - 656
Target Start/End: Original strand, 14702370 - 14702565
Alignment:
Q  461 cttagctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtg 560  Q
    ||||||||||||||||||||||||| | | |||||  |||| ||||||||| ||||||||||||||||| ||||||||||||||||||| ||||||||||    
T  14702370 cttagctataatgtgttccatgctattattaagcctcttcaaatgatcctccagaacatctatttcaacctgctggttattctcatcaatcaaatttgtg 14702469  T
Q  561 gcagttgcaa-tcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatg 656  Q
    ||    |||| | ||| |||||||||||| ||||||   ||||| ||||||||||||||||||| | ||||||||||| ||||||||||||||||||    
T  14702470 gccacagcaattgaca-attcaatcttcttaatttccaatgaggtgagctttatattaatatcctttttcttcaaagcgtttctcattttgtaaatg 14702565  T

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Target: chr2; HSP #5
Raw Score: 91; E-Value: 1e-43
Query Start/End: Original strand, 461 - 659
Target Start/End: Original strand, 7541187 - 7541385
Alignment:
Q  461 cttagctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtg 560  Q
    |||||||||||||| |||||| | ||||| |||||| |  | ||||||||| |||||||||||||||||||| |||||||||||||||| |||||| |||    
T  7541187 cttagctataatgtattccatccaactcttaagcccctctacatgatcctccagaacatctatttcaacttgttggttattctcatcaatcaaattcgtg 7541286  T
Q  561 gcagttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatgtag 659  Q
    ||  | |||||   ||||||||||||||||||||||||||||||||| || | |||||||||  | ||||| |||||| ||| ||||||||||||||||    
T  7541287 gccttagcaattgtagattcaatcttctcaatttcttctgaggagagtttcaaattaatatcatttttctttaaagcagttcccattttgtaaatgtag 7541385  T

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Target: chr2; HSP #6
Raw Score: 83; E-Value: 6e-39
Query Start/End: Original strand, 465 - 659
Target Start/End: Complemental strand, 12246609 - 12246415
Alignment:
Q  465 gctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtggcag 564  Q
    |||||||| |||||||| |||||||||| ||| || |||| |||||| | ||||||||||||||| |||||||| |||||||||| ||||||||||||      
T  12246609 gctataatctgttccattctactctcaatcccctttagataatcctccaaaacatctatttcaacctgctggtttttctcatcaagcaaatttgtggcca 12246510  T
Q  565 ttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatgtag 659  Q
      |||||  ||||||| |||||||| ||||||| ||| |||||||| | || ||||||| | ||||| |||||||||| ||||||||||||||||    
T  12246509 cagcaattgcagattcgatcttctcgatttcttgtgaagagagcttcacatcaatatcctttttctttaaagcatttcccattttgtaaatgtag 12246415  T

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Target: chr2; HSP #7
Raw Score: 79; E-Value: 1e-36
Query Start/End: Original strand, 465 - 658
Target Start/End: Complemental strand, 12259779 - 12259583
Alignment:
Q  465 gctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtggcag 564  Q
    |||||||| |||||||| |||||||||||||| || |||| |||||||||||| ||   ||| |  |||||||||||||||  || ||||||||||||      
T  12259779 gctataatttgttccatcctactctcaagcccctttagataatcctcaagaacctcagcttcgagctgctggttattctcactaagcaaatttgtggcca 12259680  T
Q  565 ttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtc---ttcttcaaagcatttctcattttgtaaatgta 658  Q
     ||||||  ||||||||||||||||||||||||||| |||||||||||  |||||||||  |   ||||| ||||||||||||||||||||||||||    
T  12259679 ctgcaattgcagattcaatcttctcaatttcttctgtggagagctttacgttaatatcctcctcattctttaaagcatttctcattttgtaaatgta 12259583  T

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Target: chr2; HSP #8
Raw Score: 43; E-Value: 0.000000000000004
Query Start/End: Original strand, 39 - 125
Target Start/End: Original strand, 7540668 - 7540754
Alignment:
Q  39 tttgccaagtattggtgtataaagtttactaataaattttggaagttatcattattctccaaattcagaaagaagacaagaccattt 125  Q
    |||| ||||||||||||  |||||||| |||||||||||||| |||||||||||| || ||||||||||| ||| | ||||| ||||    
T  7540668 tttgacaagtattggtgcttaaagttttctaataaattttgggagttatcattatcctgcaaattcagaaggaaaaaaagactattt 7540754  T

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Target: chr2; HSP #9
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 484 - 527
Target Start/End: Complemental strand, 16663176 - 16663133
Alignment:
Q  484 tactctcaagccctttcagatgatcctcaagaacatctatttca 527  Q
    ||||||||||| | ||||||||||||||||||||||||| ||||    
T  16663176 tactctcaagctccttcagatgatcctcaagaacatctacttca 16663133  T

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Target: chr1 (Bit Score: 87; Significance: 2e-41; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 87; E-Value: 2e-41
Query Start/End: Original strand, 461 - 659
Target Start/End: Complemental strand, 52550136 - 52549938
Alignment:
Q  461 cttagctataatgtgttccatgctactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtg 560  Q
    |||||||||||| |||| ||| | ||||| |||  | || | |||||| || |||||||||||||||||||||||||| |||| |||||||||||| |||    
T  52550136 cttagctataatctgtttcatccaactctgaagttcctttacatgatcttccagaacatctatttcaacttgctggtttttctgatcaaccaaattcgtg 52550037  T
Q  561 gcagttgcaatcacagattcaatcttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaatgtag 659  Q
    ||   ||||||  ||||||| ||||||||||||||||||||||||||||| | ||||||||||   ||||| ||||||||||| |||||||||||||||    
T  52550036 gccactgcaattgcagattcgatcttctcaatttcttctgaggagagcttcaaattaatatcctctttctttaaagcatttctgattttgtaaatgtag 52549938  T

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Target: chr1; HSP #2
Raw Score: 47; E-Value: 2e-17
Query Start/End: Original strand, 108 - 182
Target Start/End: Complemental strand, 52550512 - 52550439
Alignment:
Q  108 aagaagacaagaccatttttctataatactaatcctgctgaaaccttagtctaatatttttaaatttcaatacaa 182  Q
    |||||||||  |||||||||||||||||| ||| |||||||| |||||||||||| |||||||||||||||||||    
T  52550512 aagaagacatcaccatttttctataatacaaattctgctgaagccttagtctaat-tttttaaatttcaatacaa 52550439  T

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Target: chr1; HSP #3
Raw Score: 29; E-Value: 0.000001
Query Start/End: Original strand, 498 - 526
Target Start/End: Complemental strand, 4679718 - 4679690
Alignment:
Q  498 ttcagatgatcctcaagaacatctatttc 526  Q
    |||||||||||||||||||||||||||||    
T  4679718 ttcagatgatcctcaagaacatctatttc 4679690  T

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Target: chr3 (Bit Score: 40; Significance: 0.0000000000003; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 123 - 182
Target Start/End: Original strand, 50672096 - 50672154
Alignment:
Q  123 tttttctataatactaatcctgctgaaaccttagtctaatatttttaaatttcaatacaa 182  Q
    |||||||||||||| ||||||| |||||||||||||||| |||||||||||| |||||||    
T  50672096 tttttctataatacaaatcctgatgaaaccttagtctaa-atttttaaattttaatacaa 50672154  T

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Target: chr7 (Bit Score: 39; Significance: 0.000000000001; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 484 - 654
Target Start/End: Original strand, 17274580 - 17274750
Alignment:
Q  484 tactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgtggcagttgcaatcacagattcaat 583  Q
    ||||||||||| | ||||  ||| ||||||||| ||| ||||||  ||||||||  |||||||||| ||||||||||||  |||||||  |||  |  ||    
T  17274580 tactctcaagctcattcaattgagcctcaagaaaatcaatttcattttgctggtcgttctcatcaagcaaatttgtggcgattgcaattgcagtgttgat 17274679  T
Q  584 cttctcaatttcttctgaggagagctttatattaatatccgtcttcttcaaagcatttctcattttgtaaa 654  Q
    ||| |   |||||||||| |||||||||| |||||| ||| ||| ||||||   |||| ||||||||||||    
T  17274680 cttattgctttcttctgaagagagctttaaattaatgtccttctccttcaacagatttttcattttgtaaa 17274750  T

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Target: chr7; HSP #2
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 486 - 559
Target Start/End: Complemental strand, 8586885 - 8586812
Alignment:
Q  486 ctctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttattctcatcaaccaaatttgt 559  Q
    ||||||||| | |||||||||||| ||||||||||||| |||   | ||||||||||| ||||| |||||||||    
T  8586885 ctctcaagctccttcagatgatccacaagaacatctatgtcattctcctggttattcttatcaagcaaatttgt 8586812  T

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

Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 484 - 539
Target Start/End: Original strand, 6788502 - 6788557
Alignment:
Q  484 tactctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggtta 539  Q
    ||||||||||| ||||||||||| | ||||||||||| |||||||| || ||||||    
T  6788502 tactctcaagctctttcagatgaccttcaagaacatcaatttcaacctgttggtta 6788557  T

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Target: chr4 (Bit Score: 36; Significance: 0.00000000006; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 36; E-Value: 0.00000000006
Query Start/End: Original strand, 123 - 182
Target Start/End: Original strand, 23591125 - 23591183
Alignment:
Q  123 tttttctataatactaatcctgctgaaaccttagtctaatatttttaaatttcaatacaa 182  Q
    |||||||||||||| ||| ||| |||||||||||||||| |||||||||||| |||||||    
T  23591125 tttttctataatacaaattctgatgaaaccttagtctaa-atttttaaattttaatacaa 23591183  T

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Target: chr4; HSP #2
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 68 - 112
Target Start/End: Original strand, 23591015 - 23591059
Alignment:
Q  68 taataaattttggaagttatcattattctccaaattcagaaagaa 112  Q
    ||||||||||||| |||||||||||| || |||||||||||||||    
T  23591015 taataaattttgggagttatcattatcctgcaaattcagaaagaa 23591059  T

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Target: chr8 (Bit Score: 32; Significance: 0.00000002; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 485 - 540
Target Start/End: Original strand, 43441270 - 43441325
Alignment:
Q  485 actctcaagccctttcagatgatcctcaagaacatctatttcaacttgctggttat 540  Q
    |||||||||| | ||||||||||  ||||||||||||||||||  |||||||||||    
T  43441270 actctcaagctccttcagatgattttcaagaacatctatttcactttgctggttat 43441325  T

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Target: scaffold0219 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: scaffold0219
Description:

Target: scaffold0219; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 71 - 112
Target Start/End: Original strand, 22785 - 22826
Alignment:
Q  71 taaattttggaagttatcattattctccaaattcagaaagaa 112  Q
    |||||||||| |||||||||||| || |||||||||||||||    
T  22785 taaattttgggagttatcattatcctacaaattcagaaagaa 22826  T

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