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: F9458H-LTR4-TNT-insertion-2 (Length: 111)

Name: F9458H-LTR4-TNT-insertion-2
Description: F9458H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9458H-LTR4-TNT-insertion-2
F9458H-LTR4-TNT-insertion-2
[»] chr8 (2 HSPs)
chr8 (10-65)||(41860451-41860505)
chr8 (13-64)||(12249486-12249536)
[»] chr7 (2 HSPs)
chr7 (10-51)||(46185186-46185227)
chr7 (18-62)||(36033467-36033510)
[»] chr5 (1 HSPs)
chr5 (10-63)||(18789043-18789095)
[»] chr3 (2 HSPs)
chr3 (10-51)||(28148481-28148522)
chr3 (10-63)||(42276400-42276452)
[»] chr2 (1 HSPs)
chr2 (27-62)||(28874555-28874589)


Alignment Details
Target: chr8 (Bit Score: 48; Significance: 6e-19; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 48; E-Value: 6e-19
Query Start/End: Original strand, 10 - 65
Target Start/End: Complemental strand, 41860505 - 41860451
Alignment:
Q  10 tagctcaattggtagaaataatgtataaaatatgcaaggttcnggggttcaaacac 65  Q
    |||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  41860505 tagctcaattggtagaaataatgtataaaatatgcaaggttc-ggggttcaaacac 41860451  T

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Target: chr8; HSP #2
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 13 - 64
Target Start/End: Complemental strand, 12249536 - 12249486
Alignment:
Q  13 ctcaattggtagaaataatgtataaaatatgcaaggttcnggggttcaaaca 64  Q
    ||||||||||| | ||||||||||| ||||||||||||| || |||||||||    
T  12249536 ctcaattggtaaagataatgtataatatatgcaaggttc-ggtgttcaaaca 12249486  T

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Target: chr7 (Bit Score: 30; Significance: 0.00000003; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 30; E-Value: 0.00000003
Query Start/End: Original strand, 10 - 51
Target Start/End: Complemental strand, 46185227 - 46185186
Alignment:
Q  10 tagctcaattggtagaaataatgtataaaatatgcaaggttc 51  Q
    ||||||||||||||| || |||| ||||||||||||||||||    
T  46185227 tagctcaattggtaggaacaatgcataaaatatgcaaggttc 46185186  T

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Target: chr7; HSP #2
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 18 - 62
Target Start/End: Complemental strand, 36033510 - 36033467
Alignment:
Q  18 ttggtagaaataatgtataaaatatgcaaggttcnggggttcaaa 62  Q
    ||||||| |||||||||||| ||||||||||||| ||||||||||    
T  36033510 ttggtaggaataatgtataatatatgcaaggttc-ggggttcaaa 36033467  T

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Target: chr5 (Bit Score: 30; Significance: 0.00000003; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.00000003
Query Start/End: Original strand, 10 - 63
Target Start/End: Original strand, 18789043 - 18789095
Alignment:
Q  10 tagctcaattggtagaaataatgtataaaatatgcaaggttcnggggttcaaac 63  Q
    ||||||| |||||||| | |||| |||||||||||||||||| |||||||||||    
T  18789043 tagctcagttggtagagacaatgcataaaatatgcaaggttc-ggggttcaaac 18789095  T

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Target: chr3 (Bit Score: 30; Significance: 0.00000003; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 30; E-Value: 0.00000003
Query Start/End: Original strand, 10 - 51
Target Start/End: Complemental strand, 28148522 - 28148481
Alignment:
Q  10 tagctcaattggtagaaataatgtataaaatatgcaaggttc 51  Q
    ||||||| ||||||  ||||||||||||||||||||||||||    
T  28148522 tagctcagttggtaagaataatgtataaaatatgcaaggttc 28148481  T

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Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.00000003
Query Start/End: Original strand, 10 - 63
Target Start/End: Complemental strand, 42276452 - 42276400
Alignment:
Q  10 tagctcaattggtagaaataatgtataaaatatgcaaggttcnggggttcaaac 63  Q
    ||||||||||| ||   ||||||||||||||||||||||||| |||||||||||    
T  42276452 tagctcaattgctaaggataatgtataaaatatgcaaggttc-ggggttcaaac 42276400  T

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Target: chr2 (Bit Score: 28; Significance: 0.0000005; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 28; E-Value: 0.0000005
Query Start/End: Original strand, 27 - 62
Target Start/End: Complemental strand, 28874589 - 28874555
Alignment:
Q  27 ataatgtataaaatatgcaaggttcnggggttcaaa 62  Q
    ||||||||||||||||||||||||| ||||||||||    
T  28874589 ataatgtataaaatatgcaaggttc-ggggttcaaa 28874555  T

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



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