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: F9645H-LTR4-TNT-insertion-4 (Length: 205)

Name: F9645H-LTR4-TNT-insertion-4
Description: F9645H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9645H-LTR4-TNT-insertion-4
F9645H-LTR4-TNT-insertion-4
[»] scaffold0002 (1 HSPs)
scaffold0002 (89-198)||(186117-186226)
[»] chr4 (1 HSPs)
chr4 (89-197)||(491284-491392)
[»] chr3 (3 HSPs)
chr3 (89-197)||(13222783-13222891)
chr3 (7-73)||(6939218-6939284)
chr3 (118-197)||(25811063-25811141)
[»] chr5 (1 HSPs)
chr5 (89-197)||(34654612-34654720)
[»] chr1 (1 HSPs)
chr1 (89-197)||(3856363-3856471)
[»] chr2 (2 HSPs)
chr2 (93-161)||(40519221-40519289)
chr2 (91-141)||(26374858-26374908)


Alignment Details
Target: scaffold0002 (Bit Score: 110; Significance: 1e-55; HSPs: 1)
Name: scaffold0002
Description:

Target: scaffold0002; HSP #1
Raw Score: 110; E-Value: 1e-55
Query Start/End: Original strand, 89 - 198
Target Start/End: Complemental strand, 186226 - 186117
Alignment:
Q  89 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 188  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  186226 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 186127  T
Q  189 cccaattggt 198  Q
    ||||||||||    
T  186126 cccaattggt 186117  T

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Target: chr4 (Bit Score: 109; Significance: 5e-55; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 109; E-Value: 5e-55
Query Start/End: Original strand, 89 - 197
Target Start/End: Original strand, 491284 - 491392
Alignment:
Q  89 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 188  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  491284 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 491383  T
Q  189 cccaattgg 197  Q
    |||||||||    
T  491384 cccaattgg 491392  T

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Target: chr3 (Bit Score: 109; Significance: 5e-55; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 109; E-Value: 5e-55
Query Start/End: Original strand, 89 - 197
Target Start/End: Complemental strand, 13222891 - 13222783
Alignment:
Q  89 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 188  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  13222891 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 13222792  T
Q  189 cccaattgg 197  Q
    |||||||||    
T  13222791 cccaattgg 13222783  T

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Target: chr3; HSP #2
Raw Score: 67; E-Value: 6e-30
Query Start/End: Original strand, 7 - 73
Target Start/End: Complemental strand, 6939284 - 6939218
Alignment:
Q  7 aagaagaagtgatcaaaaattgaatgacatgctgccactttgttttcaaatggaattttgtcgaatt 73  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6939284 aagaagaagtgatcaaaaattgaatgacatgctgccactttgttttcaaatggaattttgtcgaatt 6939218  T

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Target: chr3; HSP #3
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 118 - 197
Target Start/End: Complemental strand, 25811141 - 25811063
Alignment:
Q  118 gtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctctcccaattgg 197  Q
    ||||||||||||||||||||||||||||||||| || |||||||| |||||||||| ||| || |||||||| |||||||    
T  25811141 gtacaatggatagttgtatgctgcgttcgggaatgacgaatcgct-ccgaaaaggattctttttattctctctcaattgg 25811063  T

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Target: chr5 (Bit Score: 101; Significance: 3e-50; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 101; E-Value: 3e-50
Query Start/End: Original strand, 89 - 197
Target Start/End: Original strand, 34654612 - 34654720
Alignment:
Q  89 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 188  Q
    ||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34654612 aggggaaacaagcacacatggagagcgcaatacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 34654711  T
Q  189 cccaattgg 197  Q
    |||||||||    
T  34654712 cccaattgg 34654720  T

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Target: chr1 (Bit Score: 89; Significance: 4e-43; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 89; E-Value: 4e-43
Query Start/End: Original strand, 89 - 197
Target Start/End: Original strand, 3856363 - 3856471
Alignment:
Q  89 aggggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgctcccgaaaaggaatctattgattctct 188  Q
    ||||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||||| ||||||||||||    
T  3856363 aggggaaacaagcacacttggagagagcagtacaatggatagttgtatgttgcgttcgggaaggatgaatcgctcccgaataggaatttattgattctct 3856462  T
Q  189 cccaattgg 197  Q
     ||||||||    
T  3856463 tccaattgg 3856471  T

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Target: chr2 (Bit Score: 69; Significance: 4e-31; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 69; E-Value: 4e-31
Query Start/End: Original strand, 93 - 161
Target Start/End: Original strand, 40519221 - 40519289
Alignment:
Q  93 gaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgc 161  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  40519221 gaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgcgttcgggaaggatgaatcgc 40519289  T

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Target: chr2; HSP #2
Raw Score: 47; E-Value: 5e-18
Query Start/End: Original strand, 91 - 141
Target Start/End: Complemental strand, 26374908 - 26374858
Alignment:
Q  91 gggaaacaagcacacttggagagcgcagtacaatggatagttgtatgctgc 141  Q
    |||||||||||||||||||||||| ||||||||||||||||||||||||||    
T  26374908 gggaaacaagcacacttggagagcacagtacaatggatagttgtatgctgc 26374858  T

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



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