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: NF3425_low_83 (Length: 236)

Name: NF3425_low_83
Description: NF3425
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3425_low_83
NF3425_low_83
[»] chr4 (5 HSPs)
chr4 (1-223)||(46321447-46321665)
chr4 (1-56)||(31846903-31846958)
chr4 (1-53)||(31012121-31012173)
chr4 (1-51)||(15031969-15032019)
chr4 (4-56)||(33380728-33380780)
[»] chr5 (4 HSPs)
chr5 (1-56)||(29385397-29385452)
chr5 (1-57)||(1839961-1840017)
chr5 (1-56)||(19417436-19417491)
chr5 (1-56)||(4376455-4376510)
[»] chr2 (5 HSPs)
chr2 (1-56)||(39819054-39819109)
chr2 (1-55)||(5095825-5095878)
chr2 (1-56)||(5913516-5913570)
chr2 (1-44)||(12918536-12918579)
chr2 (12-52)||(9402285-9402325)
[»] chr3 (4 HSPs)
chr3 (4-56)||(49159493-49159545)
chr3 (1-56)||(48342208-48342262)
chr3 (1-51)||(20286900-20286950)
chr3 (1-54)||(29081592-29081645)
[»] chr1 (9 HSPs)
chr1 (1-56)||(6539671-6539726)
chr1 (1-56)||(718982-719037)
chr1 (1-44)||(44381921-44381964)
chr1 (1-56)||(9379809-9379864)
chr1 (1-56)||(9884832-9884887)
chr1 (1-44)||(49200070-49200113)
chr1 (2-56)||(23332854-23332908)
chr1 (1-41)||(44291160-44291200)
chr1 (4-44)||(49515276-49515316)
[»] chr8 (2 HSPs)
chr8 (1-44)||(31470856-31470899)
chr8 (1-43)||(16687526-16687568)
[»] chr6 (1 HSPs)
chr6 (13-50)||(11448180-11448217)


Alignment Details
Target: chr4 (Bit Score: 178; Significance: 4e-96; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 178; E-Value: 4e-96
Query Start/End: Original strand, 1 - 223
Target Start/End: Original strand, 46321447 - 46321665
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacctcaaatcgagctatttatatgggactggtttacgaatttgttca 100  Q
    |||||||||| |||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||    
T  46321447 ttgtggttggtcaatgtcaccaatatcaccaaccacaatgtcactcaagtgctacctcaaatcgaactatttatatgggactgatttacgaatttgttca 46321546  T
Q  101 taaaaaagaaaggtgaaatatttaaatctagagtgatgtaagtattattttttccaacttctgtcaagaaaattcactttttagtttcgctaacaaactc 200  Q
    ||||||||    |||||||||||||||||||||||||||||||||||||||||||||||||| |||| |||||||||||||||||||||||||||||||     
T  46321547 taaaaaag----gtgaaatatttaaatctagagtgatgtaagtattattttttccaacttctatcaaaaaaattcactttttagtttcgctaacaaacta 46321642  T
Q  201 taatgaaattggatatactatat 223  Q
    |||||||||||||||||||||||    
T  46321643 taatgaaattggatatactatat 46321665  T

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Target: chr4; HSP #2
Raw Score: 40; E-Value: 0.00000000000009
Query Start/End: Original strand, 1 - 56
Target Start/End: Original strand, 31846903 - 31846958
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||||||||| |||||||  ||||||||||||||||||| |||||||||||    
T  31846903 ttgtggttggccaatatcaccaatgtcaccaaccacaatgtcacccaagtgctacc 31846958  T

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Target: chr4; HSP #3
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 1 - 53
Target Start/End: Complemental strand, 31012173 - 31012121
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgct 53  Q
    |||||||||| |||||||||||  |||||||||||||||||||| ||||||||    
T  31012173 ttgtggttggtcaatgtcaccattatcaccaaccacaatgtcacacaagtgct 31012121  T

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Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 1 - 51
Target Start/End: Complemental strand, 15032019 - 15031969
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtg 51  Q
    |||||||||| ||||||||| || |||| ||||||||||||||| ||||||    
T  15032019 ttgtggttggtcaatgtcacgaatatcatcaaccacaatgtcacccaagtg 15031969  T

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Target: chr4; HSP #5
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 4 - 56
Target Start/End: Original strand, 33380728 - 33380780
Alignment:
Q  4 tggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    |||||| | |||||||| || |||||||||||||||||||  |||||||||||    
T  33380728 tggttgacaaatgtcacaaatatcaccaaccacaatgtcatccaagtgctacc 33380780  T

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Target: chr5 (Bit Score: 44; Significance: 4e-16; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 1 - 56
Target Start/End: Original strand, 29385397 - 29385452
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    |||||||||||||||||||||||  ||||||||||||||||||| |||||||||||    
T  29385397 ttgtggttggccaatgtcaccaatgtcaccaaccacaatgtcacccaagtgctacc 29385452  T

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Target: chr5; HSP #2
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 1 - 57
Target Start/End: Complemental strand, 1840017 - 1839961
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacct 57  Q
    ||||||||||||||||||| |||  ||||||||||||||||||| ||| ||||||||    
T  1840017 ttgtggttggccaatgtcatcaatgtcaccaaccacaatgtcacccaattgctacct 1839961  T

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Target: chr5; HSP #3
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 19417491 - 19417436
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    |||| |||| |||||||||||||  ||||||||||||||||||| |||||||||||    
T  19417491 ttgtagttgaccaatgtcaccaatgtcaccaaccacaatgtcacccaagtgctacc 19417436  T

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Target: chr5; HSP #4
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 56
Target Start/End: Original strand, 4376455 - 4376510
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    |||| ||||| || |||||||||  ||| |||||||||||||||||||||||||||    
T  4376455 ttgttgttggtcattgtcaccaatgtcatcaaccacaatgtcactcaagtgctacc 4376510  T

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Target: chr2 (Bit Score: 44; Significance: 4e-16; HSPs: 5)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 39819109 - 39819054
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    |||||||||||||||||||||||  ||||||||||||||||||| |||||||||||    
T  39819109 ttgtggttggccaatgtcaccaatgtcaccaaccacaatgtcacccaagtgctacc 39819054  T

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Target: chr2; HSP #2
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 1 - 55
Target Start/End: Original strand, 5095825 - 5095878
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctac 55  Q
    ||||||||||||||||||||||| ||||||||| || |||||||| |||||||||    
T  5095825 ttgtggttggccaatgtcaccaatatcaccaactac-atgtcactaaagtgctac 5095878  T

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Target: chr2; HSP #3
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 5913570 - 5913516
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    |||||||||||||||||||| ||  ||||||||||||||||||| |||||| ||||    
T  5913570 ttgtggttggccaatgtcac-aatgtcaccaaccacaatgtcacccaagtgttacc 5913516  T

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Target: chr2; HSP #4
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 44
Target Start/End: Complemental strand, 12918579 - 12918536
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcac 44  Q
    |||||||||||||||||||||||  ||| |||||||||||||||    
T  12918579 ttgtggttggccaatgtcaccaatgtcatcaaccacaatgtcac 12918536  T

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Target: chr2; HSP #5
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 12 - 52
Target Start/End: Original strand, 9402285 - 9402325
Alignment:
Q  12 caatgtcaccaacatcaccaaccacaatgtcactcaagtgc 52  Q
    |||||||| ||| ||||| ||||||||||||||||||||||    
T  9402285 caatgtcatcaatatcacaaaccacaatgtcactcaagtgc 9402325  T

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Target: chr3 (Bit Score: 41; Significance: 0.00000000000002; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 4 - 56
Target Start/End: Original strand, 49159493 - 49159545
Alignment:
Q  4 tggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||||||||||||||  ||||||||||||||||||| |||||||||||    
T  49159493 tggttggccaatgtcaccaatgtcaccaaccacaatgtcacccaagtgctacc 49159545  T

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Target: chr3; HSP #2
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 48342262 - 48342208
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||||| |||||||| ||  ||||||||||||||||||| |||||||||||    
T  48342262 ttgtggttggctaatgtcac-aatgtcaccaaccacaatgtcacccaagtgctacc 48342208  T

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Target: chr3; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 1 - 51
Target Start/End: Complemental strand, 20286950 - 20286900
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtg 51  Q
    ||||||||||||||||||| |||  |||||||||| |||||||| ||||||    
T  20286950 ttgtggttggccaatgtcatcaatgtcaccaaccataatgtcacccaagtg 20286900  T

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Target: chr3; HSP #4
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 1 - 54
Target Start/End: Complemental strand, 29081645 - 29081592
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgcta 54  Q
    |||||||||| |||||||||| |  ||||||||||||||||||| ||| |||||    
T  29081645 ttgtggttggtcaatgtcaccgatgtcaccaaccacaatgtcacccaaatgcta 29081592  T

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Target: chr1 (Bit Score: 40; Significance: 0.00000000000009; HSPs: 9)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 40; E-Value: 0.00000000000009
Query Start/End: Original strand, 1 - 56
Target Start/End: Original strand, 6539671 - 6539726
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||| ||||||||||||| |||| ||||||||||||||| |||||||||||    
T  6539671 ttgtggttgaccaatgtcaccaatatcatcaaccacaatgtcacccaagtgctacc 6539726  T

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Target: chr1; HSP #2
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 719037 - 718982
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||| |||||| | ||||  |||||||||||||||||||||||||||||||    
T  719037 ttgtggttgtccaatgccgccaatgtcaccaaccacaatgtcactcaagtgctacc 718982  T

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Target: chr1; HSP #3
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 1 - 44
Target Start/End: Complemental strand, 44381964 - 44381921
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcac 44  Q
    |||||||||| |||||||||||| ||||||||||||||||||||    
T  44381964 ttgtggttggtcaatgtcaccaatatcaccaaccacaatgtcac 44381921  T

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

Target: chr1; HSP #4
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 9379864 - 9379809
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||||||||| |||||||  ||||||||||| || |||| |||||||||||    
T  9379864 ttgtggttggccaatatcaccaatgtcaccaaccacgatatcacccaagtgctacc 9379809  T

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Target: chr1; HSP #5
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 56
Target Start/End: Complemental strand, 9884887 - 9884832
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||| |||||||||||||  ||||||||||| |||||||  ||||||||||    
T  9884887 ttgtggttgaccaatgtcaccaatgtcaccaaccactatgtcaccaaagtgctacc 9884832  T

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Target: chr1; HSP #6
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 44
Target Start/End: Original strand, 49200070 - 49200113
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcac 44  Q
    |||||||||| |||||||| ||| ||||||||||||||||||||    
T  49200070 ttgtggttggtcaatgtcatcaatatcaccaaccacaatgtcac 49200113  T

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Target: chr1; HSP #7
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 2 - 56
Target Start/End: Complemental strand, 23332908 - 23332854
Alignment:
Q  2 tgtggttggccaatgtcaccaacatcaccaaccacaatgtcactcaagtgctacc 56  Q
    ||||||||| | |||||| |||  ||| |||||||||||||||||||||||||||    
T  23332908 tgtggttggtcgatgtcatcaaagtcatcaaccacaatgtcactcaagtgctacc 23332854  T

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

Target: chr1; HSP #8
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 1 - 41
Target Start/End: Original strand, 44291160 - 44291200
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgt 41  Q
    ||||||||| ||||||||||||| || ||||||||||||||    
T  44291160 ttgtggttgaccaatgtcaccaatataaccaaccacaatgt 44291200  T

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

Target: chr1; HSP #9
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 4 - 44
Target Start/End: Complemental strand, 49515316 - 49515276
Alignment:
Q  4 tggttggccaatgtcaccaacatcaccaaccacaatgtcac 44  Q
    ||||||| ||||||||| || ||||||||||||||||||||    
T  49515316 tggttggtcaatgtcactaatatcaccaaccacaatgtcac 49515276  T

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Target: chr8 (Bit Score: 32; Significance: 0.000000005; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 44
Target Start/End: Original strand, 31470856 - 31470899
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtcac 44  Q
    ||||||||||||||||||||||| | ||||||||||||| ||||    
T  31470856 ttgtggttggccaatgtcaccaataccaccaaccacaatatcac 31470899  T

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

Target: chr8; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 1 - 43
Target Start/End: Complemental strand, 16687568 - 16687526
Alignment:
Q  1 ttgtggttggccaatgtcaccaacatcaccaaccacaatgtca 43  Q
    |||||||| || ||||||||||| |||||||||||||||||||    
T  16687568 ttgtggttagctaatgtcaccaatatcaccaaccacaatgtca 16687526  T

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

Target: chr6 (Bit Score: 30; Significance: 0.00000008; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 13 - 50
Target Start/End: Original strand, 11448180 - 11448217
Alignment:
Q  13 aatgtcaccaacatcaccaaccacaatgtcactcaagt 50  Q
    ||||||||||| |||||||||||||||||||| |||||    
T  11448180 aatgtcaccaatatcaccaaccacaatgtcacccaagt 11448217  T

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



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