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: F9542H-LTR4-TNT-insertion-7 (Length: 484)

Name: F9542H-LTR4-TNT-insertion-7
Description: F9542H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9542H-LTR4-TNT-insertion-7
F9542H-LTR4-TNT-insertion-7
[»] chr8 (1 HSPs)
chr8 (10-442)||(31367043-31367476)
[»] chr6 (1 HSPs)
chr6 (436-477)||(4103278-4103319)
[»] chr2 (2 HSPs)
chr2 (436-475)||(45468354-45468393)
chr2 (436-475)||(45701391-45701430)
[»] chr5 (1 HSPs)
chr5 (436-473)||(9194742-9194779)


Alignment Details
Target: chr8 (Bit Score: 381; Significance: 0; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 381; E-Value: 0
Query Start/End: Original strand, 10 - 442
Target Start/End: Original strand, 31367043 - 31367476
Alignment:
Q  10 gtatatgctcttatttaactattgttctaaatatgtaactattaattgactacagtatacattnnnnnnnggctatgagtcatacacactcttctctttt 109  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       ||||||||||||||||||||||||||||||    
T  31367043 gtatatgctcttatttaactattgttctaaatatgtaactattaattgactacagtatacattaaaaaaaggctatgagtcatacacactcttctctttt 31367142  T
Q  110 cttaatcatatgatataatccatcccttgacaatcaatccaacaatagcaaggaaacataaacttatatgcagatcttttagcaagaattaatatctgat 209  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  31367143 cttaatcatatgatataatccatcccttgacaatcaatccaacaatagcaaggaaacataaacttatatgcagatcttttagcaagaattaatatctgat 31367242  T
Q  210 agcttgagacaatgatttgaatctaatgcctcaagatttaaaacagtgcatataagtaaaactgagtagaatcatttgaaattgtggaactatttgatca 309  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  31367243 agcttgagacaatgatttgaatctaatgcctcaagatttaaaacagtgcatataagtaaaactgagtagaatcatttgaaattgtggaactatttgatca 31367342  T
Q  310 aaaatgaagcatagatgagaatattaacaat-nnnnnnnntatgtctgactatttaaattttgaaataatctaactaatatgccatcaatatttcactca 408  Q
    |||||||||||||||||||||||||||||||         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  31367343 aaaatgaagcatagatgagaatattaacaataaaaaaaaatatgtctgactatttaaattttgaaataatctaactaatatgccatcaatatttcactca 31367442  T
Q  409 taaaattgttaactctatgtagttccttgaattc 442  Q
    ||||||||||||||||||||||||||||||||||    
T  31367443 taaaattgttaactctatgtagttccttgaattc 31367476  T

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

Target: chr6 (Bit Score: 38; Significance: 0.000000000003; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 436 - 477
Target Start/End: Complemental strand, 4103319 - 4103278
Alignment:
Q  436 tgaattccttcttatggctttcgtcaaattttgtaccaattg 477  Q
    ||||||||||||||||||||||||| ||||||||||||||||    
T  4103319 tgaattccttcttatggctttcgtcgaattttgtaccaattg 4103278  T

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

Target: chr2 (Bit Score: 32; Significance: 0.00000001; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 436 - 475
Target Start/End: Complemental strand, 45468393 - 45468354
Alignment:
Q  436 tgaattccttcttatggctttcgtcaaattttgtaccaat 475  Q
    ||||||| || |||||||||||||||||||||||||||||    
T  45468393 tgaattcttttttatggctttcgtcaaattttgtaccaat 45468354  T

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

Target: chr2; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 436 - 475
Target Start/End: Complemental strand, 45701430 - 45701391
Alignment:
Q  436 tgaattccttcttatggctttcgtcaaattttgtaccaat 475  Q
    ||||||| || |||||||||||||||||||||||||||||    
T  45701430 tgaattcttttttatggctttcgtcaaattttgtaccaat 45701391  T

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

Target: chr5 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 436 - 473
Target Start/End: Complemental strand, 9194779 - 9194742
Alignment:
Q  436 tgaattccttcttatggctttcgtcaaattttgtacca 473  Q
    |||||||||| |||||||||||||| ||||||||||||    
T  9194779 tgaattcctttttatggctttcgtcgaattttgtacca 9194742  T

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



© Oklahoma State University

This website was viewed 685 times since January 2019
Visitors: 6765