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: NF8208_1D_low_17 (Length: 373)

Name: NF8208_1D_low_17
Description: NF8208_1D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF8208_1D_low_17
NF8208_1D_low_17
[»] chr3 (6 HSPs)
chr3 (14-373)||(3175993-3176352)
chr3 (305-373)||(3175807-3175875)
chr3 (306-373)||(3175624-3175691)
chr3 (278-372)||(3175904-3175998)
chr3 (278-354)||(3175736-3175812)
chr3 (278-326)||(3175581-3175629)
[»] chr1 (4 HSPs)
chr1 (28-369)||(24541195-24541537)
chr1 (305-373)||(24541002-24541070)
chr1 (278-352)||(24540933-24541007)
chr1 (278-354)||(24541114-24541190)
[»] chr5 (4 HSPs)
chr5 (38-369)||(20963741-20964058)
chr5 (305-373)||(20964186-20964254)
chr5 (296-372)||(20964081-20964157)
chr5 (278-352)||(20964249-20964323)
[»] chr2 (6 HSPs)
chr2 (22-285)||(41525197-41525460)
chr2 (305-373)||(41524590-41524658)
chr2 (276-354)||(41524863-41524941)
chr2 (305-363)||(41524764-41524822)
chr2 (305-373)||(41524934-41525002)
chr2 (305-363)||(41524431-41524489)
[»] chr6 (2 HSPs)
chr6 (138-252)||(14675143-14675257)
chr6 (314-369)||(14675026-14675081)
[»] chr4 (2 HSPs)
chr4 (307-366)||(16591879-16591938)
chr4 (302-368)||(35335715-35335781)


Alignment Details
Target: chr3 (Bit Score: 324; Significance: 0; HSPs: 6)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 324; E-Value: 0
Query Start/End: Original strand, 14 - 373
Target Start/End: Complemental strand, 3176352 - 3175993
Alignment:
Q  14 tggacatcagctcttataaatagatcaactatcacactctctcaacacaccaacatcactcatctccctctctctcaaggttaccttctcttaaaccaaa 113  Q
    ||||||| |||||||||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||| |||||||||| |||||||||||||||    
T  3176352 tggacattagctcttataaatagatcaactctcacactctctcaacacaccaacatcactcaactccctctctttcaaggttacattctcttaaaccaaa 3176253  T
Q  114 aaatggccaaaactttagtattagtttttctctttctcgaaataacctctttcatagctttagctgaagagctagaaacttttcatcacaaaccatcaag 213  Q
    |||||||||||||||||||||| ||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  3176252 aaatggccaaaactttagtattggtttttctctttctccaaataacctctttcatagctttagctgaagagctagaaacttttcatcacaaaccatcaag 3176153  T
Q  214 tccacttcatcccccaactaagtcaccgattcataaaccattagctagcccacctcaccacaaccactcaccatcacatgcaccttctcatgttcacact 313  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  3176152 tccacttcatcccccaactaagtcaccgattcataaaccattagctagcccacctcaccacaaccactcaccatcacatgcaccttctcatgttcacact 3176053  T
Q  314 cctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    |||||||||||||||||||||||||||||||| |||||||||| ||||||||||||||||    
T  3176052 cctttacatcctccccaccctgctaaacccccgacccatcaccgccaccaacatcactca 3175993  T

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

Target: chr3; HSP #2
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 305 - 373
Target Start/End: Complemental strand, 3175875 - 3175807
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    ||||||||||||||||||||||| |||||||| ||||| ||||| ||||||||||||||||||||||||    
T  3175875 gttcacactcctttacatcctcctcaccctgccaaacctccaactcatcaccaccaccaacatcactca 3175807  T

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

Target: chr3; HSP #3
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 306 - 373
Target Start/End: Complemental strand, 3175691 - 3175624
Alignment:
Q  306 ttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    |||||||||||||||||||||| |||||||| ||||| ||||| ||||||||||||||||||||||||    
T  3175691 ttcacactcctttacatcctcctcaccctgccaaacctccaacacatcaccaccaccaacatcactca 3175624  T

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Target: chr3; HSP #4
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 278 - 372
Target Start/End: Complemental strand, 3175998 - 3175904
Alignment:
Q  278 cactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactc 372  Q
    ||||||||||| | ||| |||||||||||||||||||||||||||||||  || ||||| ||||| ||||||||||| || || || ||||||||    
T  3175998 cactcaccatcccttgctccttctcatgttcacactcctttacatcctcgtcatcctgcaaaacctccaacccatcatcatcatcatcatcactc 3175904  T

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

Target: chr3; HSP #5
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 278 - 354
Target Start/End: Complemental strand, 3175812 - 3175736
Alignment:
Q  278 cactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccatca 354  Q
    ||||||||||| |  || ||||| |||||||||||||||||||||| ||  |||||||| |||||||||||||||||    
T  3175812 cactcaccatcccccgccccttcccatgttcacactcctttacatcatcgtcaccctgcaaaacccccaacccatca 3175736  T

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

Target: chr3; HSP #6
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 278 - 326
Target Start/End: Complemental strand, 3175629 - 3175581
Alignment:
Q  278 cactcaccatcacatgcaccttctcatgttcacactcctttacatcctc 326  Q
    |||||||| || | ||| ||||| |||||||||||||||||||||||||    
T  3175629 cactcaccttcccctgccccttcccatgttcacactcctttacatcctc 3175581  T

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Target: chr1 (Bit Score: 239; Significance: 1e-132; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 239; E-Value: 1e-132
Query Start/End: Original strand, 28 - 369
Target Start/End: Complemental strand, 24541537 - 24541195
Alignment:
Q  28 tataaatagatcaactatcacactctctcaacacaccaacatcactcatctccctctctctcaaggttaccttctcttaa-accaaaaaatggccaaaac 126  Q
    |||||||||||||||| |||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||| || |||||||||| |||||    
T  24541537 tataaatagatcaactctcacactctctcaacacatcaacatcactcatctccctctctttcaaggttaccttctcttaacacaaaaaaatggcgaaaac 24541438  T
Q  127 tttagtattagtttttctctttctcgaaataacctctttcatagctttagctgaagagctagaaacttttcatcacaaaccatcaagtccacttcatccc 226  Q
    | |  ||||  |||||||||||||| ||||||||||||||||||| || |||||| ||||||||||| |||||||||||||| ||| ||||| |||| ||    
T  24541437 tctcttattgttttttctctttctccaaataacctctttcatagcatttgctgaaaagctagaaactcttcatcacaaaccagcaactccacatcattcc 24541338  T
Q  227 ccaactaagtcaccgattcataaaccattagctagcccacctcaccacaaccactcaccatcacatgcaccttctcatgttcacactcctttacatcctc 326  Q
    ||||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||    
T  24541337 ccaactaagtcacctgttcataaaccattagctagcccacctcaccacaaccactcaccatcccatgcaccttctcatgttcacactcctttacatcctc 24541238  T
Q  327 cccaccctgctaaacccccaacccatcaccaccaccaacatca 369  Q
    | ||||||||||||||||| |||||||||||||||||||||||    
T  24541237 ctcaccctgctaaacccccgacccatcaccaccaccaacatca 24541195  T

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

Target: chr1; HSP #2
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 305 - 373
Target Start/End: Complemental strand, 24541070 - 24541002
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    ||||||||||||||||||||||| |||||||| ||||| ||||||||||||| ||||||||||||||||    
T  24541070 gttcacactcctttacatcctcctcaccctgccaaacctccaacccatcaccgccaccaacatcactca 24541002  T

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

Target: chr1; HSP #3
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 278 - 352
Target Start/End: Complemental strand, 24541007 - 24540933
Alignment:
Q  278 cactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccat 352  Q
    ||||||||||| | ||| ||||| |||||||||||||||||||||||||  |||||||| |||||||| ||||||    
T  24541007 cactcaccatcccctgccccttcccatgttcacactcctttacatcctcgtcaccctgcaaaaccccccacccat 24540933  T

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Target: chr1; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 278 - 354
Target Start/End: Complemental strand, 24541190 - 24541114
Alignment:
Q  278 cactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccatca 354  Q
    ||||||||||| | | | ||||| ||||||||| |||||||||||||||  ||||| || ||||||||||| |||||    
T  24541190 cactcaccatcccctacgccttcccatgttcaccctcctttacatcctcgtcacccagcaaaacccccaactcatca 24541114  T

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Target: chr5 (Bit Score: 173; Significance: 6e-93; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 173; E-Value: 6e-93
Query Start/End: Original strand, 38 - 369
Target Start/End: Original strand, 20963741 - 20964058
Alignment:
Q  38 tcaactatcacactctctcaacacaccaacatcactcatctccctctctctcaaggttaccttctcttaaaccaaaa--aatggccaaaactttagtatt 135  Q
    |||||| ||||||||||||||||||||||||||| || ||||||||||| |||||||| | |||||||||  |||||  ||||||||||||| | |||||    
T  20963741 tcaactctcacactctctcaacacaccaacatcaatcctctccctctctttcaaggtt-ctttctcttaacacaaaaaaaatggccaaaactctggtatt 20963839  T
Q  136 agtttttctctttctcgaaataacctctttcatagctttagctgaagagctagaaacttttcatcacaaaccatcaagtccacttcatcccccaactaag 235  Q
      |||||||||||||| ||||||||||||||||||| ||  ||||||||||||||||||||||| |||||||| ||| ||||||||||||||||||||||    
T  20963840 gttttttctctttctccaaataacctctttcatagcatttactgaagagctagaaacttttcataacaaaccagcaactccacttcatcccccaactaag 20963939  T
Q  236 tcaccgattcataaaccattagctagcccacctcaccacaaccactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctg 335  Q
    |||||| |||||||||||               |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||||||    
T  20963940 tcaccggttcataaacca---------------caccacaaccactcaccatcccatgcaccttctcatgttcacactcctttacatcctcctcaccctg 20964024  T
Q  336 ctaaacccccaacccatcaccaccaccaacatca 369  Q
    |||||||||| ||||||||||||||||| |||||    
T  20964025 ctaaacccccgacccatcaccaccaccagcatca 20964058  T

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

Target: chr5; HSP #2
Raw Score: 49; E-Value: 6e-19
Query Start/End: Original strand, 305 - 373
Target Start/End: Original strand, 20964186 - 20964254
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    ||||||||||||||||||| ||| || ||||| ||||| ||||||||||||||||||||||||||||||    
T  20964186 gttcacactcctttacatcatcctcatcctgccaaacctccaacccatcaccaccaccaacatcactca 20964254  T

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Target: chr5; HSP #3
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 296 - 372
Target Start/End: Original strand, 20964081 - 20964157
Alignment:
Q  296 ccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactc 372  Q
    ||||| ||||||||||||||| |||||||||  |||||||| ||||||||||||||||| || || || ||||||||    
T  20964081 ccttcccatgttcacactcctatacatcctcgtcaccctgcaaaacccccaacccatcatcatcatcatcatcactc 20964157  T

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Target: chr5; HSP #4
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 278 - 352
Target Start/End: Original strand, 20964249 - 20964323
Alignment:
Q  278 cactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccat 352  Q
    ||||||||||| |  || ||||| ||| |||||||||||||||||||||  |||||||| |||||||| ||||||    
T  20964249 cactcaccatcccccgccccttcacattttcacactcctttacatcctcgtcaccctgcaaaaccccccacccat 20964323  T

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Target: chr2 (Bit Score: 145; Significance: 3e-76; HSPs: 6)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 145; E-Value: 3e-76
Query Start/End: Original strand, 22 - 285
Target Start/End: Complemental strand, 41525460 - 41525197
Alignment:
Q  22 agctcttataaatagatcaactatcacactctctcaacacaccaacatcactcatctccctctctctcaaggttaccttctcttaaaccaaaaaatggcc 121  Q
    ||||| |||||||||||||||| ||||||||||||||| ||||||||| |||  ||||||||||| |||| ||| | |||||||||| ||||||||||||    
T  41525460 agctcctataaatagatcaactctcacactctctcaacccaccaacattacttctctccctctctttcaaagttgcattctcttaaaacaaaaaatggcc 41525361  T
Q  122 aaaactttagtatt-agtttttctctttctcgaaataacctctttcatagctttagctgaagagctagaaacttttcatcacaaaccatcaagtccactt 220  Q
    |||||| |||||||   |||||||||| ||| |||||||||| |||||||| || |||||||||||||||||| |||||||||||||| ||| |||||||    
T  41525360 aaaactctagtattgtttttttctcttactccaaataacctccttcatagcatttgctgaagagctagaaactcttcatcacaaaccagcaactccactt 41525261  T
Q  221 catcccccaactaagtcaccgattcataaaccattagctagcccacctcaccacaaccactcacc 285  Q
    ||| ||||||||||||||||| ||||||||||||| |||| |||||||||||||| |||||||||    
T  41525260 cat-ccccaactaagtcaccggttcataaaccattggctaacccacctcaccacagccactcacc 41525197  T

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

Target: chr2; HSP #2
Raw Score: 45; E-Value: 1e-16
Query Start/End: Original strand, 305 - 373
Target Start/End: Complemental strand, 41524658 - 41524590
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    |||||||||||||||||||||||  ||||| | ||||| ||||||||||||||||||||||| ||||||    
T  41524658 gttcacactcctttacatcctccttaccctaccaaacctccaacccatcaccaccaccaacaccactca 41524590  T

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

Target: chr2; HSP #3
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 276 - 354
Target Start/End: Complemental strand, 41524941 - 41524863
Alignment:
Q  276 accactcaccatcacatgcaccttctcatgttcacactcctttacatcctccccaccctgctaaacccccaacccatca 354  Q
    ||||||||||||| | ||| ||||| |||||||| ||||||||| ||||||  |||||||| |||||||||||||||||    
T  41524941 accactcaccatcccctgctccttcccatgttcatactcctttatatcctcgtcaccctgcaaaacccccaacccatca 41524863  T

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

Target: chr2; HSP #4
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 305 - 363
Target Start/End: Complemental strand, 41524822 - 41524764
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccacca 363  Q
    |||||||||||||||||||||||  ||||| | ||||| ||||||||||||||||||||    
T  41524822 gttcacactcctttacatcctccttaccctaccaaacctccaacccatcaccaccacca 41524764  T

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

Target: chr2; HSP #5
Raw Score: 37; E-Value: 0.000000000009
Query Start/End: Original strand, 305 - 373
Target Start/End: Complemental strand, 41525002 - 41524934
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatcactca 373  Q
    ||||||||||||||||||||||   ||| | | ||||| ||||||||||||||||||||||| ||||||    
T  41525002 gttcacactcctttacatcctctttaccataccaaacctccaacccatcaccaccaccaacaccactca 41524934  T

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Target: chr2; HSP #6
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 305 - 363
Target Start/End: Complemental strand, 41524489 - 41524431
Alignment:
Q  305 gttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccacca 363  Q
    |||||||| ||||||| |||||| |||||||| || ||||||||||| ||||| |||||    
T  41524489 gttcacacacctttacttcctcctcaccctgcaaagcccccaacccaccaccatcacca 41524431  T

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Target: chr6 (Bit Score: 51; Significance: 4e-20; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 51; E-Value: 4e-20
Query Start/End: Original strand, 138 - 252
Target Start/End: Complemental strand, 14675257 - 14675143
Alignment:
Q  138 tttttctctttctcgaaataacctctttcatagctttagctgaagagctagaaacttttcatcacaaaccatcaagtccacttcatcccccaactaagtc 237  Q
    |||||||||| ||| |||||||||||||| | |  || || |||||||| |||||| |||||||||||||| |||  ||||||||||||||||| |||||    
T  14675257 tttttctcttactccaaataacctctttcgttgtgtttgcggaagagcttgaaactcttcatcacaaaccaacaacaccacttcatcccccaacaaagtc 14675158  T
Q  238 accgattcataaacc 252  Q
    |||| | ||||||||    
T  14675157 accggtgcataaacc 14675143  T

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

Target: chr6; HSP #2
Raw Score: 40; E-Value: 0.0000000000001
Query Start/End: Original strand, 314 - 369
Target Start/End: Complemental strand, 14675081 - 14675026
Alignment:
Q  314 cctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatca 369  Q
    ||||||| ||| || |||||||||||||||| ||||||||||||||||||||||||    
T  14675081 cctttacctccacctcaccctgctaaacccctaacccatcaccaccaccaacatca 14675026  T

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Target: chr4 (Bit Score: 40; Significance: 0.0000000000001; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 40; E-Value: 0.0000000000001
Query Start/End: Original strand, 307 - 366
Target Start/End: Original strand, 16591879 - 16591938
Alignment:
Q  307 tcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaaca 366  Q
    ||||||||||||||| ||| | |||||||||||||| ||||||| |||||||||||||||    
T  16591879 tcacactcctttacacccttctcaccctgctaaacctccaacccgtcaccaccaccaaca 16591938  T

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

Target: chr4; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 302 - 368
Target Start/End: Complemental strand, 35335781 - 35335715
Alignment:
Q  302 catgttcacactcctttacatcctccccaccctgctaaacccccaacccatcaccaccaccaacatc 368  Q
    ||||||||| |||||||||| ||||| || | | |||||||||||||||||| ||| || |||||||    
T  35335781 catgttcacgctcctttacaccctcctcatcatactaaacccccaacccatcgccatcatcaacatc 35335715  T

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