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: NF11654_low_4 (Length: 818)

Name: NF11654_low_4
Description: NF11654
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11654_low_4
NF11654_low_4
[»] chr4 (5 HSPs)
chr4 (23-300)||(166948-167225)
chr4 (16-130)||(106814-106928)
chr4 (493-616)||(167262-167384)
chr4 (304-483)||(2306647-2306827)
chr4 (732-815)||(167481-167564)
[»] chr8 (12 HSPs)
chr8 (301-485)||(21538084-21538269)
chr8 (20-106)||(5718267-5718353)
chr8 (20-109)||(5656649-5656738)
chr8 (20-106)||(5686120-5686206)
chr8 (22-115)||(5602663-5602756)
chr8 (22-115)||(5602925-5603018)
chr8 (22-115)||(5632352-5632445)
chr8 (22-115)||(5638186-5638279)
chr8 (22-115)||(5651384-5651477)
chr8 (35-115)||(5602090-5602170)
chr8 (35-115)||(5638450-5638530)
chr8 (436-485)||(37633313-37633362)
[»] scaffold0013 (1 HSPs)
scaffold0013 (20-126)||(88553-88659)
[»] chr7 (2 HSPs)
chr7 (310-485)||(13332658-13332834)
chr7 (18-130)||(13055239-13055351)
[»] chr1 (2 HSPs)
chr1 (299-485)||(35840678-35840875)
chr1 (299-379)||(41570406-41570487)
[»] chr3 (1 HSPs)
chr3 (16-92)||(12134943-12135019)
[»] chr6 (1 HSPs)
chr6 (406-485)||(4087928-4088006)


Alignment Details
Target: chr4 (Bit Score: 232; Significance: 1e-128; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 232; E-Value: 1e-128
Query Start/End: Original strand, 23 - 300
Target Start/End: Original strand, 166948 - 167225
Alignment:
Q  23 caggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttccattgcc 122  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  166948 caggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttccattgcc 167047  T
Q  123 ttccactgtgactaccctttaaagaatcaggcaaataaaaccaatcaagttgataagttaatttttcttatgctggatgtgttcttgcacgttttcattt 222  Q
    ||||||||||||||| ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  167048 ttccactgtgactacactttaaa-aatcaggcaaataaaaccaatcaagttgataagttaatttttcttatgctggatgtgttcttgcacgttttcattt 167146  T
Q  223 ccaaaaggaatgagttcaaataaccggaag-nnnnnnnnngaaataagttggccaattttggcgttgggatatatacat 300  Q
    ||||||||||||||||||||||||||||||          |||||||||||||||||||||||||||||||||||||||    
T  167147 ccaaaaggaatgagttcaaataaccggaagaaaaaagaaagaaataagttggccaattttggcgttgggatatatacat 167225  T

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Target: chr4; HSP #2
Raw Score: 95; E-Value: 5e-46
Query Start/End: Original strand, 16 - 130
Target Start/End: Original strand, 106814 - 106928
Alignment:
Q  16 gaaatcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||| |||||||||||| ||||||||||||||| |||||    
T  106814 gaaatcacaggagtattcatgaaaaattgtatgttgcattacccaatgtatagagatatttaccccttgtgggctctagccgagtatcgtagacgggttc 106913  T
Q  116 cattgccttccactg 130  Q
    |||||||||||||||    
T  106914 cattgccttccactg 106928  T

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Target: chr4; HSP #3
Raw Score: 80; E-Value: 4e-37
Query Start/End: Original strand, 493 - 616
Target Start/End: Original strand, 167262 - 167384
Alignment:
Q  493 atcaagtgattaatgactaaatattcaccacactgcgattagtaagtggagaatgaattcgagattacacatacaaattatttgtaatgtctctaccaat 592  Q
    ||||||||||||||||||||||||||||| |||   | ||| |||||||||||||||||||||||| |||||||||||||||||||||||||||| ||||    
T  167262 atcaagtgattaatgactaaatattcaccgcacaagg-ttaataagtggagaatgaattcgagattgcacatacaaattatttgtaatgtctctatcaat 167360  T
Q  593 caagttatgttcactaagacaatg 616  Q
    | |||||||||||||| |||||||    
T  167361 cgagttatgttcactaggacaatg 167384  T

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Target: chr4; HSP #4
Raw Score: 69; E-Value: 2e-30
Query Start/End: Original strand, 304 - 483
Target Start/End: Complemental strand, 2306827 - 2306647
Alignment:
Q  304 caatgctattaaccacgaatgaaaataaaccaaaaccacgaattgtactaaa-tgattttcacaaacattattttaatatnnnnnnnnnnnnnnnnnnnn 402  Q
    ||||||||||| |||||||||||| ||||| |||| |||||||| ||||||| |||||||||||||||||||||||||||                        
T  2306827 caatgctattatccacgaatgaaagtaaacgaaaatcacgaattctactaaagtgattttcacaaacattattttaatataaaaataaaaaacaaaagaa 2306728  T
Q  403 gtagcatttggtggaatacacgccatggtataatgtaattcgtatttcccgtagattcagtttcgtgggaaatggcatttc 483  Q
    || |||||||||||||||||||| || ||||| |||||||||||||| |||| ||||||||||||||||||||||||||||    
T  2306727 gttgcatttggtggaatacacgctatcgtatagtgtaattcgtattttccgtggattcagtttcgtgggaaatggcatttc 2306647  T

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Target: chr4; HSP #5
Raw Score: 48; E-Value: 5e-18
Query Start/End: Original strand, 732 - 815
Target Start/End: Original strand, 167481 - 167564
Alignment:
Q  732 atgacattttatgcgtcactgaatggataatattcttcataatataacnnnnnnnnttatgctattactttttccaccctatgc 815  Q
    |||||||||||||   ||||||||||||||||||||||||||||||||        ||||||||||||||||||||||||||||    
T  167481 atgacattttatggaccactgaatggataatattcttcataatataacaaaaaaaattatgctattactttttccaccctatgc 167564  T

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Target: chr8 (Bit Score: 86; Significance: 1e-40; HSPs: 12)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 86; E-Value: 1e-40
Query Start/End: Original strand, 301 - 485
Target Start/End: Original strand, 21538084 - 21538269
Alignment:
Q  301 cagcaatgctattaaccacgaatgaaaataaaccaaaaccacgaattgtactaaa-tgattttcacaaacattattttaatatnnnnnnnnnnnnnnnnn 399  Q
    ||||||||||||||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||| |||||||||||||                     
T  21538084 cagcaatgctattaaccacgaatgaaaataaacgaaaaccacgaattgtactaaagtgattttcacaaatattattttaatataaaaataaaaaacaaaa 21538183  T
Q  400 nnngtagcatttggtggaatacacgccatggtataatgtaattcgtatttcccgtagattcagtttcgtgggaaatggcatttccc 485  Q
       |||||||||||||||||||||||||  ||||| |||||||||||||| |||| |||||||||||||||||||||| |||||||    
T  21538184 aaagtagcatttggtggaatacacgccagcgtatattgtaattcgtattttccgtggattcagtttcgtgggaaatggtatttccc 21538269  T

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Target: chr8; HSP #2
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 20 - 106
Target Start/End: Complemental strand, 5718353 - 5718267
Alignment:
Q  20 tcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgta 106  Q
    |||||| || |||||||||||| || ||| |||||||| |||||| ||||||||| |||||| ||||||||||| | || |||||||    
T  5718353 tcacagcagtattcatgaaaaactgcatgctgcattacgcaatgtttagagatatattcccaatgtgggctctagctgaatatcgta 5718267  T

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Target: chr8; HSP #3
Raw Score: 38; E-Value: 0.000000000005
Query Start/End: Original strand, 20 - 109
Target Start/End: Complemental strand, 5656738 - 5656649
Alignment:
Q  20 tcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagac 109  Q
    |||| |||| |||||||||||| || ||| |||||||| | |||||||||||||| || ||| ||||||||||| | || ||||||||||    
T  5656738 tcacgggagtattcatgaaaaactgcatgctgcattacgctatgtatagagatatatttccaatgtgggctctagctgaatatcgtagac 5656649  T

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Target: chr8; HSP #4
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 20 - 106
Target Start/End: Complemental strand, 5686206 - 5686120
Alignment:
Q  20 tcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgta 106  Q
    |||||| || |||||||||||| || ||| |||||||| | |||| ||||||||| |||||| ||||||||||| | || |||||||    
T  5686206 tcacagcagtattcatgaaaaactgcatgctgcattacgccatgtttagagatatattcccaatgtgggctctagctgaatatcgta 5686120  T

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Target: chr8; HSP #5
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 22 - 115
Target Start/End: Original strand, 5602663 - 5602756
Alignment:
Q  22 acaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    ||||| |||| | |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5602663 acaggggcatccttgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5602756  T

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Target: chr8; HSP #6
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 22 - 115
Target Start/End: Original strand, 5602925 - 5603018
Alignment:
Q  22 acaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    ||||| |||| | |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5602925 acaggggcatccttgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5603018  T

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Target: chr8; HSP #7
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 22 - 115
Target Start/End: Complemental strand, 5632445 - 5632352
Alignment:
Q  22 acaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    ||||| |||| | |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5632445 acaggggcatccttgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5632352  T

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Target: chr8; HSP #8
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 22 - 115
Target Start/End: Complemental strand, 5638279 - 5638186
Alignment:
Q  22 acaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    ||||| |||| | |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5638279 acaggggcatccttgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5638186  T

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Target: chr8; HSP #9
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 22 - 115
Target Start/End: Complemental strand, 5651477 - 5651384
Alignment:
Q  22 acaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    ||||| |||| | |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5651477 acaggggcatccttgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5651384  T

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Target: chr8; HSP #10
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 35 - 115
Target Start/End: Original strand, 5602090 - 5602170
Alignment:
Q  35 tgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5602090 tgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5602170  T

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Target: chr8; HSP #11
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 35 - 115
Target Start/End: Complemental strand, 5638530 - 5638450
Alignment:
Q  35 tgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttc 115  Q
    |||||| ||| ||||||||||| |||||||||||||||| ||| ||| ||| ||||||| | || ||||||| || |||||    
T  5638530 tgaaaacttgcatgttgcattatccaatgtatagagataattttccaatgttggctctagctgaatatcgtaaacgggttc 5638450  T

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Target: chr8; HSP #12
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 436 - 485
Target Start/End: Complemental strand, 37633362 - 37633313
Alignment:
Q  436 tgtaattcgtatttcccgtagattcagtttcgtgggaaatggcatttccc 485  Q
    |||||||||||||||||||  ||||| |||||| ||| ||||||||||||    
T  37633362 tgtaattcgtatttcccgtgaattcactttcgtaggatatggcatttccc 37633313  T

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Target: scaffold0013 (Bit Score: 79; Significance: 2e-36; HSPs: 1)
Name: scaffold0013
Description:

Target: scaffold0013; HSP #1
Raw Score: 79; E-Value: 2e-36
Query Start/End: Original strand, 20 - 126
Target Start/End: Complemental strand, 88659 - 88553
Alignment:
Q  20 tcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttccatt 119  Q
    ||||||||| |||||||||||||||||||||||||||||||||||||||| ||||||| ||||||||||||||  | ||||||||||||| |||||||||    
T  88659 tcacaggagtattcatgaaaaattgtatgttgcattacccaatgtatagaaatatttttccattgtgggctctggctgagtatcgtagacgggttccatt 88560  T
Q  120 gccttcc 126  Q
    |||||||    
T  88559 gccttcc 88553  T

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Target: chr7 (Bit Score: 77; Significance: 3e-35; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 77; E-Value: 3e-35
Query Start/End: Original strand, 310 - 485
Target Start/End: Original strand, 13332658 - 13332834
Alignment:
Q  310 tattaaccacgaatgaaaataaaccaaaaccacgaattgtactaaa-tgattttcacaaacattattttaatatnnnnnnnnnnnnnnnnnnnngtagca 408  Q
    |||||||||||||| ||||||||| |||||||| |||||||||||| |||||||||||||||||||||||||||                    ||||||    
T  13332658 tattaaccacgaattaaaataaacgaaaaccacaaattgtactaaagtgattttcacaaacattattttaatataaaaataaaaaacaaaaaaagtagca 13332757  T
Q  409 tttggtggaatacacgccatggtataatgtaattcgtatttcccgtagattcagtttcgtgggaaatggcatttccc 485  Q
    |||||||||||||| ||||| ||||| |||||||||||||| |||| ||||||||||||||||||||||||||||||    
T  13332758 tttggtggaatacaagccatcgtatagtgtaattcgtattttccgtggattcagtttcgtgggaaatggcatttccc 13332834  T

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Target: chr7; HSP #2
Raw Score: 69; E-Value: 2e-30
Query Start/End: Original strand, 18 - 130
Target Start/End: Original strand, 13055239 - 13055351
Alignment:
Q  18 aatcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctctaaccgagtatcgtagacaggttcca 117  Q
    ||||||||||| |||| | ||||||||||||||||||||  |||||||||||||||||||||||||||||||| || | |||||||||||| | ||||||    
T  13055239 aatcacaggagtattcttcaaaaattgtatgttgcattatacaatgtatagagatattttcccattgtgggctttagctgagtatcgtagatatgttcca 13055338  T
Q  118 ttgccttccactg 130  Q
    ||| |||||||||    
T  13055339 ttgtcttccactg 13055351  T

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Target: chr1 (Bit Score: 50; Significance: 3e-19; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 50; E-Value: 3e-19
Query Start/End: Original strand, 299 - 485
Target Start/End: Original strand, 35840678 - 35840875
Alignment:
Q  299 atcagcaatgctattaaccacgaatgaaaataaaccaaaaccacgaattgtactaaa---------tgattttcacaaacattattttaatat-nnnnnn 388  Q
    ||||||||||||||||||||||||||||||||||| ||||||| |||||||||||||         ||||||||||||||||| |||||||||           
T  35840678 atcagcaatgctattaaccacgaatgaaaataaacgaaaaccatgaattgtactaaagtgaaaaagtgattttcacaaacatttttttaatataaaaata 35840777  T
Q  389 nnnnnnnnnnnnnngtagcatttggtggaatacacgccatggtataatgtaattcgtatttcccgtagattcagtttcgtgggaaat-ggcatttccc 485  Q
                  |||||||| ||||||||||| ||||| ||||| | |||||||||||| |||| |||||||||||||||||||| ||||||||||    
T  35840778 aaaaaaaataaaatgtagcattcggtggaatacatgccatcgtatagtataattcgtattttccgtggattcagtttcgtgggaaatgggcatttccc 35840875  T

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Target: chr1; HSP #2
Raw Score: 38; E-Value: 0.000000000005
Query Start/End: Original strand, 299 - 379
Target Start/End: Original strand, 41570406 - 41570487
Alignment:
Q  299 atcagcaatgctattaaccacgaatgaaaataaaccaaaaccacgaattgtactaaa-tgattttcacaaacattattttaa 379  Q
    ||||||||||||||| |||||||||  ||| |||| ||||| || || ||| ||||| ||||||||||||||||||||||||    
T  41570406 atcagcaatgctattcaccacgaatagaaacaaacgaaaacgacaaactgtgctaaagtgattttcacaaacattattttaa 41570487  T

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Target: chr3 (Bit Score: 45; Significance: 3e-16; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 45; E-Value: 3e-16
Query Start/End: Original strand, 16 - 92
Target Start/End: Complemental strand, 12135019 - 12134943
Alignment:
Q  16 gaaatcacaggagcattcatgaaaaattgtatgttgcattacccaatgtatagagatattttcccattgtgggctct 92  Q
    |||||||||||| || || |||||||||||||||||||||| |||||||||||| ||||||| ||| | ||||||||    
T  12135019 gaaatcacaggatcaatcgtgaaaaattgtatgttgcattatccaatgtatagaaatatttttccactatgggctct 12134943  T

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Target: chr6 (Bit Score: 36; Significance: 0.00000000008; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 36; E-Value: 0.00000000008
Query Start/End: Original strand, 406 - 485
Target Start/End: Complemental strand, 4088006 - 4087928
Alignment:
Q  406 gcatttggtggaatacacgccatggtataatgtaattcgtatttcccgtagattcagtttcgtgggaaatggcatttccc 485  Q
    ||||||||||||||||||||||| ||||  ||||||||||||||||| | || ||||||| || |||||||  |||||||    
T  4088006 gcatttggtggaatacacgccatcgtattgtgtaattcgtatttcccttgga-tcagtttagtaggaaatgatatttccc 4087928  T

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