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: NF6960_low_17 (Length: 271)

Name: NF6960_low_17
Description: NF6960
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF6960_low_17
NF6960_low_17
[»] chr3 (2 HSPs)
chr3 (16-263)||(20951427-20951674)
chr3 (148-233)||(10288061-10288146)
[»] chr8 (2 HSPs)
chr8 (16-250)||(29042239-29042473)
chr8 (148-226)||(13330320-13330398)
[»] scaffold0041 (1 HSPs)
scaffold0041 (16-251)||(4144-4370)
[»] chr2 (1 HSPs)
chr2 (16-197)||(27207132-27207307)
[»] chr7 (2 HSPs)
chr7 (16-197)||(11293290-11293464)
chr7 (16-251)||(20381425-20381651)
[»] chr4 (2 HSPs)
chr4 (16-196)||(38500612-38500786)
chr4 (35-233)||(9284325-9284523)
[»] chr1 (5 HSPs)
chr1 (25-145)||(8982966-8983086)
chr1 (40-234)||(21492510-21492704)
chr1 (35-233)||(33065640-33065838)
chr1 (148-222)||(19273841-19273915)
chr1 (56-94)||(19273969-19274007)
[»] scaffold0111 (1 HSPs)
scaffold0111 (40-229)||(45940-46129)
[»] chr6 (1 HSPs)
chr6 (40-235)||(13581025-13581219)
[»] scaffold0032 (1 HSPs)
scaffold0032 (40-100)||(114786-114846)


Alignment Details
Target: chr3 (Bit Score: 228; Significance: 1e-126; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 228; E-Value: 1e-126
Query Start/End: Original strand, 16 - 263
Target Start/End: Complemental strand, 20951674 - 20951427
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  20951674 catcatgcgcatcatcaatatcaagttgagttggtgacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 20951575  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacg 215  Q
    ||||||||||||||||||||||||||||||  |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  20951574 attcgaggatggatatgtctcatgtgcattctgaatccggagaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacg 20951475  T
Q  216 tcatcgtgcacatcatcaactaactccaacactggttgcacaggttct 263  Q
    ||||||| ||||||||||||||||||||||||||||||||||||||||    
T  20951474 tcatcgttcacatcatcaactaactccaacactggttgcacaggttct 20951427  T

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Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 148 - 233
Target Start/End: Original strand, 10288061 - 10288146
Alignment:
Q  148 gaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcacatcatca 233  Q
    ||||| |||| ||| |||||||||||| || |||  | || || |||||||||||||||||||||| | || |||||| |||||||    
T  10288061 gaatctggggtatcaccaactcctcccatgattcaaattttacttgttccacatcatccgaaagcatgacagcgtgcaaatcatca 10288146  T

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Target: chr8 (Bit Score: 191; Significance: 1e-104; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 191; E-Value: 1e-104
Query Start/End: Original strand, 16 - 250
Target Start/End: Complemental strand, 29042473 - 29042239
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    |||| |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||     
T  29042473 catcgtgcgcatcatcaatatcaagttgagttggtgacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgttcataaacatgggc 29042374  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacg 215  Q
    || ||||||||||| |||||||||||||||  |||| ||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||    
T  29042373 atccgaggatggatttgtctcatgtgcattctgaattcggggaatctccaactcctcccgtggttccgaattaacatgttccacatcatccgaaagcacg 29042274  T
Q  216 tcatcgtgcacatcatcaactaactccaacactgg 250  Q
    |||| ||||||||||||||||||||||||||||||    
T  29042273 tcattgtgcacatcatcaactaactccaacactgg 29042239  T

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

Target: chr8; HSP #2
Raw Score: 32; E-Value: 0.000000006
Query Start/End: Original strand, 148 - 226
Target Start/End: Original strand, 13330320 - 13330398
Alignment:
Q  148 gaatccggggaatctccaactcctcccgtggt-tctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcac 226  Q
    |||||||||||||||||||||||||||    | || || ||| |||||||| || |||||||||||||||||||||||||    
T  13330320 gaatccggggaatctccaactcctcccaaattatcggactta-catgttcctcaacatccgaaagcacgtcatcgtgcac 13330398  T

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Target: scaffold0041 (Bit Score: 112; Significance: 1e-56; HSPs: 1)
Name: scaffold0041
Description:

Target: scaffold0041; HSP #1
Raw Score: 112; E-Value: 1e-56
Query Start/End: Original strand, 16 - 251
Target Start/End: Original strand, 4144 - 4370
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    |||| |||||||||||||||| ||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||||||| ||||| |||     
T  4144 catcgtgcgcatcatcaatattaagttgagttggtgacatctccctagcagaagcagaggcctccaaatcaacagtcaaagaatgctcacaaacaagggc 4243  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacg 215  Q
    || ||||||||||| |||||||||||||||| |||      |||||||||||||||||||||||||  |||||||||||         ||||||||||||    
T  4244 atccgaggatggatgtgtctcatgtgcattatgaa------gaatctccaactcctcccgtggttccaaattaacatgt---------tccgaaagcacg 4328  T
Q  216 tcatcgtgcacatcatc------aactaactccaacactggt 251  Q
    ||||| |||||||||||      |||||||||||||||||||    
T  4329 tcatcatgcacatcatcaggggaaactaactccaacactggt 4370  T

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Target: chr2 (Bit Score: 107; Significance: 1e-53; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 107; E-Value: 1e-53
Query Start/End: Original strand, 16 - 197
Target Start/End: Original strand, 27207132 - 27207307
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    |||| |||||||||||||||| ||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||| |||     
T  27207132 catcgtgcgcatcatcaatattaagttgagttggtgacatctccctagcagaagcagaggcctccaaatcaacagtcaaagaatgctcataaacaagggc 27207231  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttcc 197  Q
    || |||| |||||| ||||||| |||||||  |||      ||||||||||||||||||||||||| |||||||||||||||    
T  27207232 atccgagcatggatgtgtctcaagtgcattctgaa------gaatctccaactcctcccgtggttccgaattaacatgttcc 27207307  T

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Target: chr7 (Bit Score: 103; Significance: 3e-51; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 103; E-Value: 3e-51
Query Start/End: Original strand, 16 - 197
Target Start/End: Original strand, 11293290 - 11293464
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    |||||||||||||||||| || ||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||| |||     
T  11293290 catcatgcgcatcatcaa-attaagttgagttggtgacatctccctagcagaagcagaggcctccaaatcaacagtcaaagaatgctcataaacaagggc 11293388  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttcc 197  Q
    || |||| |||||| |||||||||||||||  |||      ||||||||||||||||||||||||| ||||||| |||||||    
T  11293389 atccgagcatggatgtgtctcatgtgcattctgaa------gaatctccaactcctcccgtggttccgaattaatatgttcc 11293464  T

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Target: chr7; HSP #2
Raw Score: 100; E-Value: 2e-49
Query Start/End: Original strand, 16 - 251
Target Start/End: Complemental strand, 20381651 - 20381425
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    |||| ||| |||||||||||| | ||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||| |||     
T  20381651 catcgtgcacatcatcaatattatgttgagttggtgacatctccctagcagaagcagaggcctccaaatcaacagtcaaagaatgctcataaacaagggc 20381552  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacg 215  Q
    || |||| |||||| |||||||||||||||  |||      |||||||||||||||| |||||||| ||||||||||||         ||||||||||||    
T  20381551 atccgagcatggatgtgtctcatgtgcattttgaa------gaatctccaactcctctcgtggttccgaattaacatgt---------tccgaaagcacg 20381467  T
Q  216 tcatcgtgcacatcatc------aactaactccaacactggt 251  Q
    ||||| |||||||||||      |||||||||||||||||||    
T  20381466 tcatcatgcacatcatcaggggaaactaactccaacactggt 20381425  T

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Target: chr4 (Bit Score: 98; Significance: 2e-48; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 98; E-Value: 2e-48
Query Start/End: Original strand, 16 - 196
Target Start/End: Original strand, 38500612 - 38500786
Alignment:
Q  16 catcatgcgcatcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatggga 115  Q
    |||| |||||||||||||||| ||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||||||| ||||| |||     
T  38500612 catcgtgcgcatcatcaatattaagttgagttggtgacatctccctagcagaagcagaggcctccaaatcaacagtcaaagaatgctcacaaacaagggc 38500711  T
Q  116 attcgaggatggatatgtctcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttc 196  Q
    || |||| |||||| ||||||| |||||||  |||      |||||||||||||||||||||||||  |||||||||||||    
T  38500712 atccgagcatggatgtgtctcaagtgcattctgaa------gaatctccaactcctcccgtggttccaaattaacatgttc 38500786  T

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Target: chr4; HSP #2
Raw Score: 87; E-Value: 9e-42
Query Start/End: Original strand, 35 - 233
Target Start/End: Complemental strand, 9284523 - 9284325
Alignment:
Q  35 atcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatgggaattcgaggatggatatgtc 134  Q
    |||| ||||||| ||| |||||||||||| ||||||||||||||||||||||||||| ||||||||||||| | |||||| ||| |||||||||| | ||    
T  9284523 atcatgttgagtcggtgacatctccctagtagaagcggaggcctccaaatcaacagttaaagaatgctcatcatcatgggcatttgaggatggatgtatc 9284424  T
Q  135 tcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcacatcatca 233  Q
     || ||||||   | |||||||| | | |||||||| |||| | |||| |||| || |||||||||||||||||||||||||||  |||||||||||||    
T  9284423 acaggtgcatcgtggatccggggtaccaccaactccccccgcgattctaaatttacttgttccacatcatccgaaagcacgtcaatgtgcacatcatca 9284325  T

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Target: chr1 (Bit Score: 89; Significance: 6e-43; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 89; E-Value: 6e-43
Query Start/End: Original strand, 25 - 145
Target Start/End: Complemental strand, 8983086 - 8982966
Alignment:
Q  25 catcatcaatatcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatgggaattcgagga 124  Q
    |||||||||||| ||||||||||||| |||||||||||| ||||||||||||||||||||||||||| |||||||||||||||||| ||| || ||||||    
T  8983086 catcatcaatattaagttgagttggtgacatctccctagtagaagcggaggcctccaaatcaacagttaaagaatgctcataaacaagggcatccgagga 8982987  T
Q  125 tggatatgtctcatgtgcatt 145  Q
    ||||| |||||||||||||||    
T  8982986 tggatgtgtctcatgtgcatt 8982966  T

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

Target: chr1; HSP #2
Raw Score: 87; E-Value: 9e-42
Query Start/End: Original strand, 40 - 234
Target Start/End: Original strand, 21492510 - 21492704
Alignment:
Q  40 gttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatgggaattcgaggatggatatgtctcatg 139  Q
    ||||||||||  || |||||||| |||||||||||||||||||||||||  ||||| ||||||||| || ||||| ||  || |||| |  |||| || |    
T  21492510 gttgagttggcgacgtctccctatcagaagcggaggcctccaaatcaacgatcaaataatgctcatcaaaatgggcatcagaagatgaaagtgtcacagg 21492609  T
Q  140 tgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcacatcatcaa 234  Q
    | ||||   |||| |||| ||||||||||||||||||| |||||||| ||| |||||||||||||||||||||||||||||||||||||||||||    
T  21492610 ttcattcgaaatctggggcatctccaactcctcccgtgattctgaataaacttgttccacatcatccgaaagcacgtcatcgtgcacatcatcaa 21492704  T

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Target: chr1; HSP #3
Raw Score: 75; E-Value: 1e-34
Query Start/End: Original strand, 35 - 233
Target Start/End: Original strand, 33065640 - 33065838
Alignment:
Q  35 atcaagttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatgggaattcgaggatggatatgtc 134  Q
    |||| |||||||| || |||||||||||||||||| ||||||||||||||||||||| ||||||||||||| | |||||||||  ||||| ||||   ||    
T  33065640 atcatgttgagtttgtgacatctccctagcagaagaggaggcctccaaatcaacagtaaaagaatgctcatcatcatgggaatctgaggacggatgcatc 33065739  T
Q  135 tcatgtgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcacatcatca 233  Q
     ||  ||||||  |||||||||| ||| | ||||||||| | | ||| || || || ||||||||  ||||||||||||||||| ||||||||||||||    
T  33065740 acagttgcattctgaatccggggtatcacaaactcctcctgcgattcagagtttacttgttccacggcatccgaaagcacgtcagcgtgcacatcatca 33065838  T

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Target: chr1; HSP #4
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 148 - 222
Target Start/End: Complemental strand, 19273915 - 19273841
Alignment:
Q  148 gaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgt 222  Q
    |||||||||||||||||||||||||||| | |   ||| | ||||||||| || ||||| |||||| ||||||||    
T  19273915 gaatccggggaatctccaactcctcccgagttatcgaacttacatgttcctcaacatccaaaagcatgtcatcgt 19273841  T

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Target: chr1; HSP #5
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 56 - 94
Target Start/End: Complemental strand, 19274007 - 19273969
Alignment:
Q  56 ctccctagcagaagcggaggcctccaaatcaacagtcaa 94  Q
    ||||||||||||||||||||  |||||||||||||||||    
T  19274007 ctccctagcagaagcggaggaatccaaatcaacagtcaa 19273969  T

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

Target: scaffold0111 (Bit Score: 78; Significance: 2e-36; HSPs: 1)
Name: scaffold0111
Description:

Target: scaffold0111; HSP #1
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 40 - 229
Target Start/End: Original strand, 45940 - 46129
Alignment:
Q  40 gttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatgggaattcgaggatggatatgtctcatg 139  Q
    ||||| ||||| |||||| |||| ||||||||||||||||||||||||| |||||||||||||||| || || || ||   | |||| |  |||| ||||    
T  45940 gttgaattggtgacatctacctatcagaagcggaggcctccaaatcaacggtcaaagaatgctcatcaaaataggcatcataagatgaaagtgtcacatg 46039  T
Q  140 tgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcacatc 229  Q
    | || |   ||||| ||| ||||||||||||||||||| |||||||| ||| ||||||||||||||| ||||||||||||||||||||||    
T  46040 ttcagtcaaaatccagggtatctccaactcctcccgtgattctgaataaacttgttccacatcatccaaaagcacgtcatcgtgcacatc 46129  T

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Target: chr6 (Bit Score: 76; Significance: 3e-35; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 76; E-Value: 3e-35
Query Start/End: Original strand, 40 - 235
Target Start/End: Original strand, 13581025 - 13581219
Alignment:
Q  40 gttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatgctcataaacatgggaattcgaggatggatatgtctcatg 139  Q
    |||||| |||| ||| |||||||| ||||||||||| |||||||||||||||||||||||||| || | |||||| ||  |||||||||| |||| || |    
T  13581025 gttgaggtggtgacacctccctagaagaagcggaggtctccaaatcaacagtcaaagaatgcttatcatcatgggcatctgaggatggatgtgtcacaag 13581124  T
Q  140 tgcattacgaatccggggaatctccaactcctcccgtggttctgaattaacatgttccacatcatccgaaagcacgtcatcgtgcacatcatcaac 235  Q
    ||||    |||||||||| | ||||||||||| ||||| || || | ||||  ||||||||||||||||||||||| || ||||||||||||||||    
T  13581125 tgcaccctgaatccgggg-acctccaactccttccgtgattatggactaactcgttccacatcatccgaaagcacgccagcgtgcacatcatcaac 13581219  T

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Target: scaffold0032 (Bit Score: 33; Significance: 0.000000001; HSPs: 1)
Name: scaffold0032
Description:

Target: scaffold0032; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 40 - 100
Target Start/End: Complemental strand, 114846 - 114786
Alignment:
Q  40 gttgagttggtaacatctccctagcagaagcggaggcctccaaatcaacagtcaaagaatg 100  Q
    ||||||| ||| |||||||| |||| ||||||||||||||||| |||||| |||| |||||    
T  114846 gttgagtcggtgacatctccgtagctgaagcggaggcctccaagtcaacaatcaaggaatg 114786  T

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



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