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: NF3342_low_9 (Length: 472)

Name: NF3342_low_9
Description: NF3342
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3342_low_9
NF3342_low_9
[»] chr4 (7 HSPs)
chr4 (9-455)||(45738572-45739019)
chr4 (114-268)||(45733334-45733488)
chr4 (387-455)||(45733102-45733170)
chr4 (299-374)||(35723391-35723467)
chr4 (314-365)||(20521871-20521922)
chr4 (314-364)||(12077815-12077865)
chr4 (316-364)||(20743302-20743350)
[»] chr7 (2 HSPs)
chr7 (299-365)||(32308106-32308172)
chr7 (299-365)||(22868028-22868094)
[»] chr1 (4 HSPs)
chr1 (300-365)||(6427336-6427401)
chr1 (316-365)||(2896145-2896194)
chr1 (316-365)||(36878447-36878496)
chr1 (317-365)||(9709806-9709854)
[»] chr8 (2 HSPs)
chr8 (299-359)||(31236584-31236644)
chr8 (318-370)||(13844622-13844674)
[»] chr2 (2 HSPs)
chr2 (314-362)||(18420456-18420504)
chr2 (316-364)||(21782842-21782890)
[»] chr6 (5 HSPs)
chr6 (299-365)||(7265600-7265666)
chr6 (297-362)||(19040341-19040406)
chr6 (314-347)||(32299279-32299312)
chr6 (299-343)||(9617442-9617486)
chr6 (299-343)||(30866151-30866195)
[»] chr5 (2 HSPs)
chr5 (316-374)||(28588698-28588756)
chr5 (314-370)||(31084304-31084360)
[»] scaffold0085 (1 HSPs)
scaffold0085 (299-343)||(26401-26445)
[»] chr3 (1 HSPs)
chr3 (314-358)||(13807162-13807206)


Alignment Details
Target: chr4 (Bit Score: 407; Significance: 0; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 407; E-Value: 0
Query Start/End: Original strand, 9 - 455
Target Start/End: Complemental strand, 45739019 - 45738572
Alignment:
Q  9 acatcatcatcgaaaattgagtgagagagttgcgtgaatcagaaatcagnnnnnnn-gcaactcatgggttgggcaatagctttacacggcggcgccggc 107  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||        |||||||||||||||||||||||||||||||||||||||||||    
T  45739019 acatcatcatcgaaaattgagtgagagagttgcgtgaatcagaaatcagaaaaaaaagcaactcatgggttgggcaatagctttacacggcggcgccggc 45738920  T
Q  108 gacataccatattcacttccactggaacgccgtcaaccacgcgaagaagctctccgtcactgcctccaaatcggtgtcaaagctctcaaatccaacatgg 207  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  45738919 gacataccatattcacttccactggaacgccgtcaaccacgcgaagaagctctccgtcactgcctccaaatcggtgtcaaagctctcaaatccaacatgg 45738820  T
Q  208 cacctctagacgtcgttgagcttgttgtatgtattcatcattcacactatttatcactttcaaagcacgaacactcttcaaattagacgcagacacatac 307  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  45738819 cacctctagacgtcgttgagcttgttgtatgtattcatcattcacactatttatcactttcaaagcacgaacactcttcaaattagacgcagacacatac 45738720  T
Q  308 aatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtcatgtcgtgttgtgtatgcatccatgtttcatagctttcttct 407  Q
    |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  45738719 aatgaaattgaattatatgattttctcatattattatcagtctaggcgtgtcagtgtcatgtcgtgttgtgtatgcatccatgtttcatagctttcttct 45738620  T
Q  408 gttttgaatgtgattctgataataatcattgatcataggttcgtgagt 455  Q
    ||||||||||||||||| ||||||||||||| ||||||||||||||||    
T  45738619 gttttgaatgtgattcttataataatcattgttcataggttcgtgagt 45738572  T

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Target: chr4; HSP #2
Raw Score: 115; E-Value: 3e-58
Query Start/End: Original strand, 114 - 268
Target Start/End: Complemental strand, 45733488 - 45733334
Alignment:
Q  114 ccatattcacttccactggaacgccgtcaaccacgcgaagaagctctccgtcactgcctccaaatcggtgtcaaagctctcaaatccaacatggcacctc 213  Q
    |||| ||||||||||| ||||  |||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||| | ||||    
T  45733488 ccattttcacttccaccggaagcccgtcagccacgcgaagaagctctccgtcactgcctccaaattggtgtcaaagctctcaaatccaacatgtcccctc 45733389  T
Q  214 tagacgtcgttgagcttgttgtatgtattcatcattcacactatttatcactttc 268  Q
    |||||||||||||||||||||||||||||||||| ||||| ||||||||||||||    
T  45733388 tagacgtcgttgagcttgttgtatgtattcatcactcacaatatttatcactttc 45733334  T

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

Target: chr4; HSP #3
Raw Score: 65; E-Value: 2e-28
Query Start/End: Original strand, 387 - 455
Target Start/End: Complemental strand, 45733170 - 45733102
Alignment:
Q  387 catgtttcatagctttcttctgttttgaatgtgattctgataataatcattgatcataggttcgtgagt 455  Q
    |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  45733170 catgtttcatagctttcttctgttttgaatgtgattcttataataatcattgatcataggttcgtgagt 45733102  T

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Target: chr4; HSP #4
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 299 - 374
Target Start/End: Original strand, 35723391 - 35723467
Alignment:
Q  299 gacacatacaatgaaattgaattatgtg-attttctcatattattatcagtctaggcgtgtcagtgtcatgtcgtgt 374  Q
    |||||||| ||| | ||||||||||||| ||||||||| ||||||| | || | |||||||||||||||||||||||    
T  35723391 gacacatataattacattgaattatgtgtattttctcaaattattagcggtgtcggcgtgtcagtgtcatgtcgtgt 35723467  T

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Target: chr4; HSP #5
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 314 - 365
Target Start/End: Original strand, 20521871 - 20521922
Alignment:
Q  314 attgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    |||||||||||||||||| ||| ||||||||| || | ||||||||||||||    
T  20521871 attgaattatgtgattttatcaaattattatcggtatcggcgtgtcagtgtc 20521922  T

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Target: chr4; HSP #6
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 314 - 364
Target Start/End: Complemental strand, 12077865 - 12077815
Alignment:
Q  314 attgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgt 364  Q
    |||||||||||||||||||||| ||||||| |||| | | |||||||||||    
T  12077865 attgaattatgtgattttctcaaattattaacagtattgacgtgtcagtgt 12077815  T

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

Target: chr4; HSP #7
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 316 - 364
Target Start/End: Original strand, 20743302 - 20743350
Alignment:
Q  316 tgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgt 364  Q
    |||||||||| ||||||||| ||||||||| || | |||||||||||||    
T  20743302 tgaattatgtcattttctcaaattattatccgtgtcggcgtgtcagtgt 20743350  T

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Target: chr7 (Bit Score: 35; Significance: 0.0000000002; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 299 - 365
Target Start/End: Complemental strand, 32308172 - 32308106
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    |||||||||||| | | |||||||||||||||||||| ||||||| | || | ||||||||||||||    
T  32308172 gacacatacaattacactgaattatgtgattttctcaaattattagcggtgtcggcgtgtcagtgtc 32308106  T

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Target: chr7; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 299 - 365
Target Start/End: Complemental strand, 22868094 - 22868028
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    |||||||| ||| | | ||||||||||||||||||||||||||||   || | ||||||||||||||    
T  22868094 gacacatataattacactgaattatgtgattttctcatattattagtggtgtcggcgtgtcagtgtc 22868028  T

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Target: chr1 (Bit Score: 34; Significance: 0.0000000007; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 300 - 365
Target Start/End: Complemental strand, 6427401 - 6427336
Alignment:
Q  300 acacatacaatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    ||||||| ||| | |||||||||||||||||||||| ||||||| | || | ||||||||||||||    
T  6427401 acacatataattacattgaattatgtgattttctcaaattattagcggtgttggcgtgtcagtgtc 6427336  T

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Target: chr1; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 316 - 365
Target Start/End: Original strand, 2896145 - 2896194
Alignment:
Q  316 tgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    |||||||||||||||||||| ||||||| | || | ||||||||||||||    
T  2896145 tgaattatgtgattttctcaaattattagcggtgtcggcgtgtcagtgtc 2896194  T

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Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 316 - 365
Target Start/End: Complemental strand, 36878496 - 36878447
Alignment:
Q  316 tgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    |||||||||||||||||||| ||||||| | || | ||||||||||||||    
T  36878496 tgaattatgtgattttctcaaattattagcggtgtcggcgtgtcagtgtc 36878447  T

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Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 317 - 365
Target Start/End: Complemental strand, 9709854 - 9709806
Alignment:
Q  317 gaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    ||||||||||||||||||| ||||||| | || ||||| ||||||||||    
T  9709854 gaattatgtgattttctcaaattattagcggtgtaggcatgtcagtgtc 9709806  T

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Target: chr8 (Bit Score: 33; Significance: 0.000000003; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 299 - 359
Target Start/End: Original strand, 31236584 - 31236644
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtc 359  Q
    |||||||| ||| | |||||||||||||||||||||| ||||||| |||| | ||||||||    
T  31236584 gacacatataattacattgaattatgtgattttctcaaattattagcagtgtcggcgtgtc 31236644  T

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Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 318 - 370
Target Start/End: Original strand, 13844622 - 13844674
Alignment:
Q  318 aattatgtgattttctcatattattatcagtctaggcgtgtcagtgtcatgtc 370  Q
    |||||||||||||||||| ||||||| |||| | |||||||| ||||| ||||    
T  13844622 aattatgtgattttctcaaattattagcagtgtcggcgtgtccgtgtcgtgtc 13844674  T

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Target: chr2 (Bit Score: 33; Significance: 0.000000003; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 314 - 362
Target Start/End: Original strand, 18420456 - 18420504
Alignment:
Q  314 attgaattatgtgattttctcatattattatcagtctaggcgtgtcagt 362  Q
    |||||||||||||||||||||| ||||||| |||| | |||||||||||    
T  18420456 attgaattatgtgattttctcaaattattagcagtgttggcgtgtcagt 18420504  T

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Target: chr2; HSP #2
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 316 - 364
Target Start/End: Original strand, 21782842 - 21782890
Alignment:
Q  316 tgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgt 364  Q
    |||||||||||||||||||| ||||||| |||| | |||||||||||||    
T  21782842 tgaattatgtgattttctcaaattattagcagtgtcggcgtgtcagtgt 21782890  T

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Target: chr6 (Bit Score: 31; Significance: 0.00000004; HSPs: 5)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 299 - 365
Target Start/End: Original strand, 7265600 - 7265666
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtc 365  Q
    |||||||| ||| | | |||||||||||||||||||| ||||||| | || | ||||||||||||||    
T  7265600 gacacatataattacactgaattatgtgattttctcaaattattagcggtgttggcgtgtcagtgtc 7265666  T

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Target: chr6; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 297 - 362
Target Start/End: Complemental strand, 19040406 - 19040341
Alignment:
Q  297 cagacacatacaatgaaattgaattatgtgattttctcatattattatcagtctaggcgtgtcagt 362  Q
    |||||||||| ||| | | |||||||||||||||||||| ||||||| | || | |||||||||||    
T  19040406 cagacacatataattacactgaattatgtgattttctcaaattattagcggtgtcggcgtgtcagt 19040341  T

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Target: chr6; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 314 - 347
Target Start/End: Complemental strand, 32299312 - 32299279
Alignment:
Q  314 attgaattatgtgattttctcatattattatcag 347  Q
    |||||||||||||||||||||| |||||||||||    
T  32299312 attgaattatgtgattttctcaaattattatcag 32299279  T

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

Target: chr6; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 299 - 343
Target Start/End: Complemental strand, 9617486 - 9617442
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattatta 343  Q
    |||||||| ||| | |||||||||||||||||||||| |||||||    
T  9617486 gacacatataattacattgaattatgtgattttctcaaattatta 9617442  T

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

Target: chr6; HSP #5
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 299 - 343
Target Start/End: Original strand, 30866151 - 30866195
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattatta 343  Q
    |||||||| ||| | |||||||||||||||||||||| |||||||    
T  30866151 gacacatataattacattgaattatgtgattttctcaaattatta 30866195  T

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

Target: chr5 (Bit Score: 31; Significance: 0.00000004; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 316 - 374
Target Start/End: Original strand, 28588698 - 28588756
Alignment:
Q  316 tgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtcatgtcgtgt 374  Q
    |||||||||||||||||||| ||||||| | || | ||||||||| ||| |||||||||    
T  28588698 tgaattatgtgattttctcaaattattaccggtgtcggcgtgtcaatgttatgtcgtgt 28588756  T

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

Target: chr5; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 314 - 370
Target Start/End: Complemental strand, 31084360 - 31084304
Alignment:
Q  314 attgaattatgtgattttctcatattattatcagtctaggcgtgtcagtgtcatgtc 370  Q
    |||||||||||||||||| ||| ||||||| | || | |||||||||||||| ||||    
T  31084360 attgaattatgtgattttttcaaattattagctgtgtcggcgtgtcagtgtcgtgtc 31084304  T

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

Target: scaffold0085 (Bit Score: 29; Significance: 0.0000007; HSPs: 1)
Name: scaffold0085
Description:

Target: scaffold0085; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 299 - 343
Target Start/End: Complemental strand, 26445 - 26401
Alignment:
Q  299 gacacatacaatgaaattgaattatgtgattttctcatattatta 343  Q
    |||||||| || || |||||||||||||||||||||| |||||||    
T  26445 gacacatataacgacattgaattatgtgattttctcaaattatta 26401  T

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

Target: chr3 (Bit Score: 29; Significance: 0.0000007; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 314 - 358
Target Start/End: Complemental strand, 13807206 - 13807162
Alignment:
Q  314 attgaattatgtgattttctcatattattatcagtctaggcgtgt 358  Q
    |||||||||||||||||||||| ||| |||||||| | |||||||    
T  13807206 attgaattatgtgattttctcaaattgttatcagtgttggcgtgt 13807162  T

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



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