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: NF11729_low_1 (Length: 789)

Name: NF11729_low_1
Description: NF11729
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11729_low_1
NF11729_low_1
[»] chr3 (5 HSPs)
chr3 (200-650)||(765520-765970)
chr3 (38-163)||(765278-765418)
chr3 (502-589)||(7408499-7408586)
chr3 (257-413)||(2626163-2626331)
chr3 (206-242)||(2625751-2625787)
[»] chr5 (2 HSPs)
chr5 (651-762)||(424769-424881)
chr5 (650-707)||(18113827-18113884)
[»] chr1 (3 HSPs)
chr1 (654-709)||(18431702-18431757)
chr1 (651-709)||(6154642-6154700)
chr1 (84-145)||(12704673-12704735)
[»] chr4 (1 HSPs)
chr4 (648-706)||(8903204-8903262)
[»] chr6 (1 HSPs)
chr6 (654-709)||(5014160-5014215)
[»] chr2 (1 HSPs)
chr2 (654-709)||(16916433-16916488)


Alignment Details
Target: chr3 (Bit Score: 395; Significance: 0; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 395; E-Value: 0
Query Start/End: Original strand, 200 - 650
Target Start/End: Original strand, 765520 - 765970
Alignment:
Q  200 tttggcttgtttggtaactttgaaaactggaagtttttgagtatcggcataatattgaacaaaagacacttgtgcttgaagaatctactgagccaaatac 299  Q
    ||||| ||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||| |||||||||    
T  765520 tttggtttgtttggtaactttgaaaactggaagtttttgagtatcggcataatatcgaacaaaagacacttgtgcttgaagaatctactgcgccaaatac 765619  T
Q  300 actgaacttctttattaattgttcctttgatggcaggttgaaattcttgttcagaaatgtagaacaaatgggcacatgtgattttgattcctctccaact 399  Q
    ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||    
T  765620 actgaacttctttattaattgttcctttgatggtaggttgaaattcttgttcagaaatgtagaacaaatgggcacatgtgattttgattgctctccaact 765719  T
Q  400 tttaaactgaatattgaacaagtaacatattgataggaaactatactctctaacaaacgatccccggaaatatgaattggaaaggagcagtgcannnnnn 499  Q
    |||||||||||||||||| ||| | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||          
T  765720 tttaaactgaatattgaagaagcagcatattgataggaaactatactctctaacaaacgatccccggaaatatgaattggaaaggagcagtgcatttttt 765819  T
Q  500 nnggataaacaacagcgttttctcttttgattatgcagattttaacctgttttgtaaataaaaaattgttaagagggagctttgatgcacgctaaagttg 599  Q
      ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  765820 ttggataaacaacagcgttttctcttttgattatgcagattttaacctgttttgtaaataaaaaattgttaagagggagctttgatgcacgctaaagttg 765919  T
Q  600 ttgtccaccatgagtgacaggtctaaaaataggataaagcagtgttatgcc 650  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||    
T  765920 ttgtccaccatgagtgacaggtctaaaaataggataaagcagtgttatgcc 765970  T

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Target: chr3; HSP #2
Raw Score: 91; E-Value: 1e-43
Query Start/End: Original strand, 38 - 163
Target Start/End: Original strand, 765278 - 765418
Alignment:
Q  38 gaaatcatcctctatttaatttaagtgaaagtaacatcaataa---------------ttcttataaattaagtaaaagtaagtttgtagtaagaaacta 122  Q
    |||||||||||||||||||||||||||||||||||||||||||               ||||||||||||||||||||||||||||||||||||||||||    
T  765278 gaaatcatcctctatttaatttaagtgaaagtaacatcaataacctaataactagtcattcttataaattaagtaaaagtaagtttgtagtaagaaacta 765377  T
Q  123 actaaattgtgttgaggttcactgaattcaaattgttctta 163  Q
    |||||||||||||||||||||||||||||||||||||||||    
T  765378 actaaattgtgttgaggttcactgaattcaaattgttctta 765418  T

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Target: chr3; HSP #3
Raw Score: 64; E-Value: 1e-27
Query Start/End: Original strand, 502 - 589
Target Start/End: Original strand, 7408499 - 7408586
Alignment:
Q  502 ggataaacaacagcgttttctcttttgattatgcagattttaacctgttttgtaaataaaaaattgttaagagggagctttgatgcac 589  Q
    ||||||||||||| |||||||||||||| ||||||||||| ||||||||| ||||||||||||||||||||| |||||||||| ||||    
T  7408499 ggataaacaacagtgttttctcttttgaatatgcagatttaaacctgtttagtaaataaaaaattgttaagaaggagctttgacgcac 7408586  T

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Target: chr3; HSP #4
Raw Score: 60; E-Value: 4e-25
Query Start/End: Original strand, 257 - 413
Target Start/End: Original strand, 2626163 - 2626331
Alignment:
Q  257 aacaaaagacacttgtgcttgaagaatctactgagccaaatacactgaacttctttattaattgttcctttgatggcaggttgaaattcttg-------- 348  Q
    |||||||||||| |||| ||||||||||||| | |||||||||||||||||||||||| || |||||||||||||| || ||||||||||||            
T  2626163 aacaaaagacacgtgtgtttgaagaatctacagtgccaaatacactgaacttctttatcaaatgttcctttgatggtagattgaaattcttggggaactt 2626262  T
Q  349 ----ttcagaaatgtagaacaaatgggcacatgtgattttgattcctctccaacttttaaactgaatat 413  Q
        ||||||||| ||||||||||||| ||||| | || ||||| |||||  |||||| ||||||||||    
T  2626263 catgttcagaaatttagaacaaatgggaacatgagtttctgattgctctctgacttttgaactgaatat 2626331  T

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Target: chr3; HSP #5
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 206 - 242
Target Start/End: Original strand, 2625751 - 2625787
Alignment:
Q  206 ttgtttggtaactttgaaaactggaagtttttgagta 242  Q
    |||||||||||||||||||||| ||||||||||||||    
T  2625751 ttgtttggtaactttgaaaactagaagtttttgagta 2625787  T

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Target: chr5 (Bit Score: 58; Significance: 6e-24; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 58; E-Value: 6e-24
Query Start/End: Original strand, 651 - 762
Target Start/End: Complemental strand, 424881 - 424769
Alignment:
Q  651 catgggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcctaa-nnnnnnnnnatatacataataacataagacacgggaaagt 749  Q
    ||||||||||||||||||||||||||||||||||||| |||||||| ||||||||||||          |||| |||||||||||||| || ||||||||    
T  424881 catgggcggatgtacattgaaacatggtgtggcagctgccacaccagattctagcctaatttttgttttatatgcataataacataaggcaggggaaagt 424782  T
Q  750 ggaaattggaaaa 762  Q
    |||||||||||||    
T  424781 ggaaattggaaaa 424769  T

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Target: chr5; HSP #2
Raw Score: 46; E-Value: 8e-17
Query Start/End: Original strand, 650 - 707
Target Start/End: Complemental strand, 18113884 - 18113827
Alignment:
Q  650 ccatgggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcct 707  Q
    |||||||||||||||||||||||||||||||||||| | |||||||| ||||||||||    
T  18113884 ccatgggcggatgtacattgaaacatggtgtggcagttgccacaccagattctagcct 18113827  T

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Target: chr1 (Bit Score: 40; Significance: 0.0000000000003; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 654 - 709
Target Start/End: Complemental strand, 18431757 - 18431702
Alignment:
Q  654 gggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcctaa 709  Q
    ||||||||||| | |||||||||||||||||||| |||||||| ||||||||||||    
T  18431757 gggcggatgtagagtgaaacatggtgtggcagctgccacaccagattctagcctaa 18431702  T

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

Target: chr1; HSP #2
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 651 - 709
Target Start/End: Complemental strand, 6154700 - 6154642
Alignment:
Q  651 catgggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcctaa 709  Q
    ||||||||||||||| ||||||||||||||| ||||| | |||||| ||||||||||||    
T  6154700 catgggcggatgtacgttgaaacatggtgtgacagctgcaacaccagattctagcctaa 6154642  T

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Target: chr1; HSP #3
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 84 - 145
Target Start/End: Original strand, 12704673 - 12704735
Alignment:
Q  84 ttataaattaagtaaaagtaagtttgta-gtaagaaactaactaaattgtgttgaggttcact 145  Q
    |||||||||||||||||||||||||||| |  || |||||||||| |||||||||| ||||||    
T  12704673 ttataaattaagtaaaagtaagtttgtatggtaggaactaactaacttgtgttgagtttcact 12704735  T

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Target: chr4 (Bit Score: 39; Significance: 0.000000000001; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 648 - 706
Target Start/End: Original strand, 8903204 - 8903262
Alignment:
Q  648 gcccatgggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcc 706  Q
    ||||| |||||||||||||||| | ||||||||||||||| |||||||| |||||||||    
T  8903204 gcccaggggcggatgtacattgtagcatggtgtggcagctaccacaccagattctagcc 8903262  T

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Target: chr6 (Bit Score: 36; Significance: 0.00000000007; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 36; E-Value: 0.00000000007
Query Start/End: Original strand, 654 - 709
Target Start/End: Complemental strand, 5014215 - 5014160
Alignment:
Q  654 gggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcctaa 709  Q
    ||||||||||| | |||||||||||||||||||| |||||||| |||||| |||||    
T  5014215 gggcggatgtagagtgaaacatggtgtggcagctgccacaccagattctaacctaa 5014160  T

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

Target: chr2 (Bit Score: 36; Significance: 0.00000000007; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 36; E-Value: 0.00000000007
Query Start/End: Original strand, 654 - 709
Target Start/End: Complemental strand, 16916488 - 16916433
Alignment:
Q  654 gggcggatgtacattgaaacatggtgtggcagcttccacaccatattctagcctaa 709  Q
    ||||||||||| | |||||||||||||| ||||| |||||||| ||||||||||||    
T  16916488 gggcggatgtagagtgaaacatggtgtgtcagctgccacaccagattctagcctaa 16916433  T

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