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: NF9292_low_3 (Length: 449)

Name: NF9292_low_3
Description: NF9292
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9292_low_3
NF9292_low_3
[»] chr3 (6 HSPs)
chr3 (270-439)||(27023623-27023792)
chr3 (101-178)||(27023454-27023531)
chr3 (1-72)||(27023356-27023427)
chr3 (291-409)||(38215839-38215958)
chr3 (270-386)||(42898922-42899038)
chr3 (270-315)||(35345360-35345405)
[»] chr2 (3 HSPs)
chr2 (270-441)||(33945634-33945806)
chr2 (270-441)||(21649929-21650102)
chr2 (270-411)||(37128184-37128327)
[»] scaffold0048 (1 HSPs)
scaffold0048 (320-393)||(51597-51670)
[»] scaffold0160 (1 HSPs)
scaffold0160 (272-391)||(17552-17672)
[»] chr7 (3 HSPs)
chr7 (278-381)||(5859-5962)
chr7 (294-438)||(31326883-31327030)
chr7 (282-371)||(1906747-1906838)
[»] chr1 (4 HSPs)
chr1 (321-386)||(48891979-48892044)
chr1 (270-386)||(34549559-34549676)
chr1 (126-155)||(51404104-51404133)
chr1 (296-387)||(30518413-30518505)
[»] chr4 (5 HSPs)
chr4 (283-439)||(49604216-49604373)
chr4 (340-431)||(34953833-34953923)
chr4 (321-365)||(16451687-16451731)
chr4 (128-160)||(23566709-23566741)
chr4 (321-365)||(45458092-45458136)
[»] chr8 (1 HSPs)
chr8 (296-387)||(28284204-28284296)
[»] chr5 (2 HSPs)
chr5 (331-387)||(28442870-28442926)
chr5 (341-401)||(32285293-32285352)
[»] scaffold0009 (1 HSPs)
scaffold0009 (320-357)||(100296-100333)


Alignment Details
Target: chr3 (Bit Score: 162; Significance: 3e-86; HSPs: 6)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 162; E-Value: 3e-86
Query Start/End: Original strand, 270 - 439
Target Start/End: Original strand, 27023623 - 27023792
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaaagatcaaaatacccttggtttggattatataattcgaaccagattattagcatt 369  Q
    ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  27023623 actattactttttccaccatatgctattctcacgcgccctgcaaaaagatcaaaatacccttggtttggattatataattcgaaccagattattagcatt 27023722  T
Q  370 tttcggattataaaatccaaattattttgaactatgatttttatgttttctttaatgtcaaagttctctg 439  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||    
T  27023723 tttcggattataaaatccaaattattttgaactatgatttttatgttttctttaatgtcaaaggtctctg 27023792  T

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Target: chr3; HSP #2
Raw Score: 70; E-Value: 2e-31
Query Start/End: Original strand, 101 - 178
Target Start/End: Original strand, 27023454 - 27023531
Alignment:
Q  101 ccacttctcacattgtggtttggacaatgtcatataacattgacaccacaatgtcactcacgtgtttgttcgtagtta 178  Q
    |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| ||||||||    
T  27023454 ccacttctcacattgtggtttggacaatgtcatataacattgacacgacaatgtcactcacgtgtttgtccgtagtta 27023531  T

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Target: chr3; HSP #3
Raw Score: 64; E-Value: 8e-28
Query Start/End: Original strand, 1 - 72
Target Start/End: Original strand, 27023356 - 27023427
Alignment:
Q  1 tgtggtgttaatattatgtgatattgatcaatcatagtgtgttacgtgtcactctttatttaaaataataac 72  Q
    ||||||||||||||||||||||||||||||||||||| ||||||||||||| ||||||||||||||||||||    
T  27023356 tgtggtgttaatattatgtgatattgatcaatcatagcgtgttacgtgtcattctttatttaaaataataac 27023427  T

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

Target: chr3; HSP #4
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 291 - 409
Target Start/End: Original strand, 38215839 - 38215958
Alignment:
Q  291 tgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcatttttcggattataaaatcc-a 388  Q
    |||||||||||| ||||||||||||| || |||||||  |||| |||||||||||||||  || |  |||| ||| ||||||| |||||||||||||| |    
T  38215839 tgctattctcacacaccctgcaaaaaagaccaaaatattcttgatttggattatataatctgagct-gattgttaacattttttggattataaaatccga 38215937  T
Q  389 aattattttgaactatgattt 409  Q
    |||||||| ||||| ||||||    
T  38215938 aattatttcgaactgtgattt 38215958  T

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

Target: chr3; HSP #5
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 270 - 386
Target Start/End: Original strand, 42898922 - 42899038
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcat 368  Q
    ||||||| ||||  ||||||||||| |||| |||| ||||| ||||| ||  ||||||  |||||||| |||||||||||  |||||||||| ||||| |    
T  42898922 actattatttttctcaccatatgctgttcttacgcgccctgtaaaaaagacgaaaatattcttggtttagattatataatctgaaccagattgttagc-t 42899020  T
Q  369 ttttcggattataaaatc 386  Q
    |||| |||||||||||||    
T  42899021 tttttggattataaaatc 42899038  T

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Target: chr3; HSP #6
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 270 - 315
Target Start/End: Original strand, 35345360 - 35345405
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaa 315  Q
    |||||||||||||||||| ||| | |||||||||||||||| ||||    
T  35345360 actattactttttccaccctatccaattctcacgcaccctgtaaaa 35345405  T

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Target: chr2 (Bit Score: 62; Significance: 1e-26; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 62; E-Value: 1e-26
Query Start/End: Original strand, 270 - 441
Target Start/End: Original strand, 33945634 - 33945806
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcat 368  Q
    |||||||||||||||||||||||||||| ||| ||  | |||||||| ||  ||||||||| ||||| |||||||||||||||||||||||| |||||      
T  33945634 actattactttttccaccatatgctattttcatgcgtc-tgcaaaaatgacaaaaatacccatggttcggattatataattcgaaccagattgttagcga 33945732  T
Q  369 ttttcggattataaaatccaaattattttgaactatgattttta-tgttttctttaatgtcaaagttctctgct 441  Q
    ||| | |||||||||||||||||| ||| ||||| ||| ||||| |||| | ||| ||||||||| | ||||||    
T  33945733 tttcccgattataaaatccaaattttttcgaactgtgacttttagtgttgtatttgatgtcaaaggtatctgct 33945806  T

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

Target: chr2; HSP #2
Raw Score: 58; E-Value: 3e-24
Query Start/End: Original strand, 270 - 441
Target Start/End: Complemental strand, 21650102 - 21649929
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcat 368  Q
    ||||||||| |||||| | |  |||||||||| || ||||||||||| ||  ||||||||  ||||| ||||||||||||  |||||||||| |||||||    
T  21650102 actattactatttccatccttagctattctcatgcgccctgcaaaaatgacaaaaatacctctggttcggattatataatctgaaccagattgttagcat 21650003  T
Q  369 ttttcggattataaaatccaaattattttgaactatgattttta-tgttttctttaatgtcaaagttctctgct 441  Q
    ||||||||||||||||| | ||||| |||||||| |||| |||| |||| | ||| ||||||||| ||| ||||    
T  21650002 ttttcggattataaaattcgaattaatttgaactgtgatctttagtgttgtatttgatgtcaaaggtctttgct 21649929  T

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Target: chr2; HSP #3
Raw Score: 49; E-Value: 7e-19
Query Start/End: Original strand, 270 - 411
Target Start/End: Complemental strand, 37128327 - 37128184
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaaagat--caaaatacccttggtttggattatataattcgaaccagattattagca 367  Q
    ||||||| |||||||||| |||| |||||| |||| || |||||||| ||  ||||||||   ||||| |||||||||||| ||||| | ||| |||| |    
T  37128327 actattattttttccaccctatgttattctgacgcgccttgcaaaaaaataccaaaatacttatggttcggattatataatccgaactatattgttagta 37128228  T
Q  368 tttttcggattataaaatccaaattattttgaactatgattttt 411  Q
    | ||||| |||||||||||| || ||||||||||| ||||||||    
T  37128227 tatttcgaattataaaatccgaactattttgaactgtgattttt 37128184  T

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Target: scaffold0048 (Bit Score: 50; Significance: 2e-19; HSPs: 1)
Name: scaffold0048
Description:

Target: scaffold0048; HSP #1
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 320 - 393
Target Start/End: Original strand, 51597 - 51670
Alignment:
Q  320 caaaatacccttggtttggattatataattcgaaccagattattagcatttttcggattataaaatccaaatta 393  Q
    |||||||| |||||||| ||||||||||||||||| ||||| |||| ||||||||||||||||||||| |||||    
T  51597 caaaatactcttggtttagattatataattcgaactagattgttagtatttttcggattataaaatccgaatta 51670  T

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Target: scaffold0160 (Bit Score: 49; Significance: 7e-19; HSPs: 1)
Name: scaffold0160
Description:

Target: scaffold0160; HSP #1
Raw Score: 49; E-Value: 7e-19
Query Start/End: Original strand, 272 - 391
Target Start/End: Complemental strand, 17672 - 17552
Alignment:
Q  272 tattactttttccaccatatgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcattt 370  Q
    ||||| |||| ||||| ||||||||||||||| |||||||||||| ||  ||||||| | | ||| ||||||||||||||||||   ||| ||||||  |    
T  17672 tattatttttcccaccctatgctattctcacggaccctgcaaaaaagacgaaaatactcctagttcggattatataattcgaactgaattgttagcacat 17573  T
Q  371 ttcggattataaaatccaaat 391  Q
    |||||||||||||||||||||    
T  17572 ttcggattataaaatccaaat 17552  T

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Target: chr7 (Bit Score: 48; Significance: 3e-18; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 48; E-Value: 3e-18
Query Start/End: Original strand, 278 - 381
Target Start/End: Complemental strand, 5962 - 5859
Alignment:
Q  278 tttttccaccatatgctattctcacgcaccctgcaaaaagatcaaaatacccttggtttggattatataattcgaaccagattattagcatttttcggat 377  Q
    |||| ||||| |||||||||||||| | || ||||||||||  ||||||||  | ||||||||||||||| |||||||||||| ||| ||||||||| ||    
T  5962 ttttcccaccctatgctattctcacccgccttgcaaaaagacgaaaatacctctagtttggattatataactcgaaccagattgttaacatttttcgaat 5863  T
Q  378 tata 381  Q
    ||||    
T  5862 tata 5859  T

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Target: chr7; HSP #2
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 294 - 438
Target Start/End: Complemental strand, 31327030 - 31326883
Alignment:
Q  294 tattctcacgcaccctgcaaaaagatcaaaataccct-tggtttggattatataattcgaaccagattattagcatttttcggattataaaatccaaatt 392  Q
    |||||||||||||||||||||||   ||||||   || | ||| |||||||||||| ||||||||||| ||||| | ||||||| |||||||||| ||      
T  31327030 tattctcacgcaccctgcaaaaatgacaaaattatctctagttcggattatataatccgaaccagattgttagcgtatttcggaatataaaatccgaaga 31326931  T
Q  393 attttgaactatga--tttttatgttttctttaatgtcaaagttctct 438  Q
    |||   |||| |||  |||||||||||||||| ||||||||| |||||    
T  31326930 attacaaactgtgatttttttatgttttctttgatgtcaaaggtctct 31326883  T

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

Target: chr7; HSP #3
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 282 - 371
Target Start/End: Complemental strand, 1906838 - 1906747
Alignment:
Q  282 tccaccatatgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcg-aaccagattattagcatttt 371  Q
    ||||||||||||||||||||||| ||||||||||| ||  |||| |||  ||||| |||||||||||  || ||||||||| ||||||||||    
T  1906838 tccaccatatgctattctcacgcgccctgcaaaaatgacaaaaacacctctggttcggattatataacccgaaaccagatttttagcatttt 1906747  T

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Target: chr1 (Bit Score: 46; Significance: 4e-17; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 46; E-Value: 4e-17
Query Start/End: Original strand, 321 - 386
Target Start/End: Original strand, 48891979 - 48892044
Alignment:
Q  321 aaaatacccttggtttggattatataattcgaaccagattattagcatttttcggattataaaatc 386  Q
    |||||| ||||||||  |||||||||||| |||||||||| |||||||||||||||||||||||||    
T  48891979 aaaatatccttggttcagattatataatttgaaccagattgttagcatttttcggattataaaatc 48892044  T

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

Target: chr1; HSP #2
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 270 - 386
Target Start/End: Original strand, 34549559 - 34549676
Alignment:
Q  270 actattactttttccaccatatgctattctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcat 368  Q
    ||||||| |||||||||| ||| |||||||||||| |||| | |||| ||  ||||||||  | ||||||||||||||||  |||||||||  ||||| |    
T  34549559 actattattttttccaccctatactattctcacgcgccctaccaaaatgacaaaaatacctctagtttggattatataatatgaaccagatggttagctt 34549658  T
Q  369 ttttcggattataaaatc 386  Q
    |||||  |||||||||||    
T  34549659 ttttcatattataaaatc 34549676  T

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

Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 126 - 155
Target Start/End: Original strand, 51404104 - 51404133
Alignment:
Q  126 aatgtcatataacattgacaccacaatgtc 155  Q
    ||||||||||||||||||||||||||||||    
T  51404104 aatgtcatataacattgacaccacaatgtc 51404133  T

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

Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 296 - 387
Target Start/End: Complemental strand, 30518505 - 30518413
Alignment:
Q  296 ttctcacgcaccctgcaaaaagatcaaaat-acccttggtttggattatataattcgaaccagattattagcatttttcggattataaaatcc 387  Q
    ||||||||||||||| |||||   |||||| |||||||||||||||| |||  | ||||||| ||| ||||   |||||||||| ||||||||    
T  30518505 ttctcacgcaccctgaaaaaatgccaaaattacccttggtttggattttattttccgaaccacattgttagtgattttcggattttaaaatcc 30518413  T

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

Target: chr4 (Bit Score: 39; Significance: 0.0000000000007; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 39; E-Value: 0.0000000000007
Query Start/End: Original strand, 283 - 439
Target Start/End: Original strand, 49604216 - 49604373
Alignment:
Q  283 ccaccatatgctattctcacgcaccctgc-aaaaagatcaaaatacccttggtttggattatataattcgaaccagattattagcatttttcggattata 381  Q
    ||||||||||||||||||| ||  ||||| ||||||| |||||||    ||| ||||||||||||||  ||| || ||||| ||||||||| ||||||||    
T  49604216 ccaccatatgctattctcaagcgtcctgcaaaaaagaccaaaatatttctgg-ttggattatataatctgaatcatattataagcattttttggattata 49604314  T
Q  382 aaatccaaattattttgaactatga-tttttatgttttctttaatgtcaaagttctctg 439  Q
    ||||   ||||||||  || | ||| ||||| |||||||||| ||||||||| ||||||    
T  49604315 aaatttgaattatttcaaattgtgattttttgtgttttctttgatgtcaaaggtctctg 49604373  T

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

Target: chr4; HSP #2
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 340 - 431
Target Start/End: Complemental strand, 34953923 - 34953833
Alignment:
Q  340 ttatataattcgaaccagattattagcatttttcggattataaaatccaaattattttgaactatgatttttatgttttctttaatgtcaaa 431  Q
    ||||||||| |||||||||||| || ||  |||||||  ||||||||| || ||||| ||||| |||||||| |||||||||| ||||||||    
T  34953923 ttatataatccgaaccagatta-taacaaatttcggaagataaaatccgaagtatttcgaactgtgatttttgtgttttctttgatgtcaaa 34953833  T

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

Target: chr4; HSP #3
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 321 - 365
Target Start/End: Original strand, 16451687 - 16451731
Alignment:
Q  321 aaaatacccttggtttggattatataattcgaaccagattattag 365  Q
    |||||||||||||| ||||||||||||| || |||||||| ||||    
T  16451687 aaaatacccttggtctggattatataatccggaccagattgttag 16451731  T

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

Target: chr4; HSP #4
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 128 - 160
Target Start/End: Original strand, 23566709 - 23566741
Alignment:
Q  128 tgtcatataacattgacaccacaatgtcactca 160  Q
    |||||||| ||||||||||||||||||||||||    
T  23566709 tgtcatatgacattgacaccacaatgtcactca 23566741  T

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

Target: chr4; HSP #5
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 321 - 365
Target Start/End: Original strand, 45458092 - 45458136
Alignment:
Q  321 aaaatacccttggtttggattatataattcgaaccagattattag 365  Q
    ||||||||||||||  |||||| ||||| ||||||||||||||||    
T  45458092 aaaatacccttggtccggattacataatccgaaccagattattag 45458136  T

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

Target: chr8 (Bit Score: 37; Significance: 0.00000000001; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 296 - 387
Target Start/End: Original strand, 28284204 - 28284296
Alignment:
Q  296 ttctcacgcaccctgcaaaaa-gatcaaaatacccttggtttggattatataattcgaaccagattattagcatttttcggattataaaatcc 387  Q
    ||||||||| ||||||||||| ||  ||||||||  ||||| ||||||||||||   ||||||||| |||||||||| | |||||||||||||    
T  28284204 ttctcacgcgccctgcaaaaatgacaaaaatacctctggttcggattatataatctaaaccagattgttagcattttgcagattataaaatcc 28284296  T

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Target: chr5 (Bit Score: 33; Significance: 0.000000003; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 331 - 387
Target Start/End: Original strand, 28442870 - 28442926
Alignment:
Q  331 tggtttggattatataattcgaaccagattattagcatttttcggattataaaatcc 387  Q
    ||||| ||||||||||||| ||| || ||| ||||||||||||||||| ||||||||    
T  28442870 tggttcggattatataatttgaagcaaattgttagcatttttcggattctaaaatcc 28442926  T

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Target: chr5; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 341 - 401
Target Start/End: Original strand, 32285293 - 32285352
Alignment:
Q  341 tatataattcgaaccagattattagcatttttcggattataaaatccaaattattttgaac 401  Q
    ||||||||| |||||| ||| |||| ||||| |||||||||||||||||| |||| |||||    
T  32285293 tatataatttgaaccatattgttagaatttt-cggattataaaatccaaaatattatgaac 32285352  T

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

Target: scaffold0009 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: scaffold0009
Description:

Target: scaffold0009; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 357
Target Start/End: Complemental strand, 100333 - 100296
Alignment:
Q  320 caaaatacccttggtttggattatataattcgaaccag 357  Q
    ||||||||| ||||||||||||||||||| ||||||||    
T  100333 caaaatacctttggtttggattatataatccgaaccag 100296  T

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