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: NF8233_low_9 (Length: 445)

Name: NF8233_low_9
Description: NF8233
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF8233_low_9
NF8233_low_9
[»] chr3 (1 HSPs)
chr3 (22-426)||(52248107-52248515)
[»] chr1 (3 HSPs)
chr1 (281-414)||(12804526-12804659)
chr1 (371-417)||(36989315-36989361)
chr1 (353-417)||(28496193-28496257)
[»] chr4 (2 HSPs)
chr4 (280-404)||(22085520-22085644)
chr4 (371-417)||(30518253-30518299)
[»] chr8 (2 HSPs)
chr8 (266-417)||(33186710-33186861)
chr8 (370-411)||(5788827-5788868)
[»] chr2 (1 HSPs)
chr2 (280-417)||(40040764-40040901)


Alignment Details
Target: chr3 (Bit Score: 323; Significance: 0; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 323; E-Value: 0
Query Start/End: Original strand, 22 - 426
Target Start/End: Original strand, 52248107 - 52248515
Alignment:
Q  22 caaagtaggagagaccattactgatgatattgttgatggagtgagtggtggcgtagccggtgaagaagaagaagtagaaaccacaacaacagcnnnnnnn 121  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |           
T  52248107 caaagtaggagagaccattactgatgatattgttgatggagtgagtggtggcgtagccggtgaagaagaagaagtagaaaccacaacaacaacattatta 52248206  T
Q  122 nnnnnnnnnnnnctctcattcaccattccatcgcagaaccttctgtgcgtaacaaaattatccttcctataaacaaatagataacattaacaaaacagaa 221  Q
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||    
T  52248207 ttattattattactctcattcaccattccatcgcagaaccttctgtgcgtaacaaaattatccttcctataaacaaataaataacattaacaaaacagaa 52248306  T
Q  222 aatgatcaatattttgagagataattaaagat----ggaaaagaaattaacctagaaaacactgtgccacaatcacatttatactctctagttccacagc 317  Q
    ||| ||||||||||||||||||||||||||||    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  52248307 aataatcaatattttgagagataattaaagatcgatggaaaagaaattaacctagaaaacactgtgccacaatcacatttatactctctagttccacagc 52248406  T
Q  318 tcttcatatgaactttcaaatcacatttcgcagcgtattttttagaacaacgttcacatttccatttcttctcaccatgctttctacaaaagtgcttttt 417  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  52248407 tcttcatatgaactttcaaatcacatttcgcagcgtattttttagaacaacgttcacatttccatttcttctcaccatgctttctacaaaagtgcttttt 52248506  T
Q  418 cactcctgt 426  Q
    |||||||||    
T  52248507 cactcctgt 52248515  T

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Target: chr1 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 281 - 414
Target Start/End: Original strand, 12804526 - 12804659
Alignment:
Q  281 gtgccacaatcacatttatactctctagttccacagctcttcatatgaactttcaaatcacatttcgcagcgtattttttagaacaacgttcacatttcc 380  Q
    |||||||| |||||| ||||||| ||||| |||||  ||||   |||| ||||| ||||| |||   |||| ||||| ||||||||   |||||||||||    
T  12804526 gtgccacagtcacatctatactccctagtaccacaagtcttagaatgagctttccaatcagattgaacagcatatttcttagaacacttttcacatttcc 12804625  T
Q  381 atttcttctcaccatgctttctacaaaagtgctt 414  Q
    | || |||||||||||||||||| ||||||||||    
T  12804626 actttttctcaccatgctttctagaaaagtgctt 12804659  T

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Target: chr1; HSP #2
Raw Score: 39; E-Value: 0.0000000000007
Query Start/End: Original strand, 371 - 417
Target Start/End: Complemental strand, 36989361 - 36989315
Alignment:
Q  371 tcacatttccatttcttctcaccatgctttctacaaaagtgcttttt 417  Q
    ||||||||||| || ||||||||||||||||||||||||||||||||    
T  36989361 tcacatttccactttttctcaccatgctttctacaaaagtgcttttt 36989315  T

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Target: chr1; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 353 - 417
Target Start/End: Original strand, 28496193 - 28496257
Alignment:
Q  353 tattttttagaacaacgttcacatttccatttcttctcaccatgctttctacaaaagtgcttttt 417  Q
    |||||||| |||||   |||||||||||| ||||||||||| |||||||||| ||||||||||||    
T  28496193 tattttttggaacatttttcacatttccacttcttctcaccgtgctttctactaaagtgcttttt 28496257  T

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Target: chr4 (Bit Score: 41; Significance: 0.00000000000004; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 280 - 404
Target Start/End: Original strand, 22085520 - 22085644
Alignment:
Q  280 tgtgccacaatcacatttatactctctagttccacagctcttcatatgaactttcaaatcacatttcgcagcgtattttttagaacaacgttcacatttc 379  Q
    |||||||||||||||||| |||||||||||||||||  ||||  ||||| ||||| ||||| |||   | || ||||| || |||||   |||||| |||    
T  22085520 tgtgccacaatcacatttgtactctctagttccacaaatcttgctatgagctttccaatcagattgaactgcatatttcttggaacacttttcacacttc 22085619  T
Q  380 catttcttctcaccatgctttctac 404  Q
    || |||||||||||||| |||||||    
T  22085620 cacttcttctcaccatgttttctac 22085644  T

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Target: chr4; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 371 - 417
Target Start/End: Original strand, 30518253 - 30518299
Alignment:
Q  371 tcacatttccatttcttctcaccatgctttctacaaaagtgcttttt 417  Q
    ||||| ||||| ||||| |||||||||||||||||||||||||||||    
T  30518253 tcacacttccacttcttttcaccatgctttctacaaaagtgcttttt 30518299  T

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Target: chr8 (Bit Score: 37; Significance: 0.00000000001; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 266 - 417
Target Start/End: Complemental strand, 33186861 - 33186710
Alignment:
Q  266 aacctagaaaacactgtgccacaatcacatttatactctctagttccacagctcttcata-tgaactttcaaatcacatttcgcagcgtattttttagaa 364  Q
    ||||| ||||| || || |||||||||||||||||||||||||  |||||   ||| | | ||| ||||| ||||| |||   |||| ||||| ||||||    
T  33186861 aacctggaaaaaacggttccacaatcacatttatactctctagaaccacaaa-ctttagagtgagctttccaatcagattgaacagcatatttcttagaa 33186763  T
Q  365 caacgttcacatttccatttcttctcaccatgctttctacaaaagtgcttttt 417  Q
    ||    ||||||||||| || ||||||||||| ||||||||||||||||||||    
T  33186762 catttctcacatttccactttttctcaccatgttttctacaaaagtgcttttt 33186710  T

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Target: chr8; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 370 - 411
Target Start/End: Original strand, 5788827 - 5788868
Alignment:
Q  370 ttcacatttccatttcttctcaccatgctttctacaaaagtg 411  Q
    |||||||||||| ||||||||||||||||||||  |||||||    
T  5788827 ttcacatttccacttcttctcaccatgctttctggaaaagtg 5788868  T

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

Target: chr2 (Bit Score: 34; Significance: 0.0000000006; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 280 - 417
Target Start/End: Complemental strand, 40040901 - 40040764
Alignment:
Q  280 tgtgccacaatcacatttatactctctagttccacagctcttcatatgaactttcaaatcacatttcgcagcgtattttttagaacaacgttcacatttc 379  Q
    |||||||||||||||| | |||||| |||| |||||  ||||  ||||| | ||| ||||| |||   | || ||||| ||||||||    ||||| |||    
T  40040901 tgtgccacaatcacatctgtactctttagtgccacaaatcttactatgagccttccaatcagattgaactgcatatttcttagaacacttatcacacttc 40040802  T
Q  380 catttcttctcaccatgctttctacaaaagtgcttttt 417  Q
    || ||||||||||| |||||||||| ||||||||||||    
T  40040801 cacttcttctcaccgtgctttctactaaagtgcttttt 40040764  T

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