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: NF6682_2D_low_21 (Length: 487)

Name: NF6682_2D_low_21
Description: NF6682_2D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF6682_2D_low_21
NF6682_2D_low_21
[»] chr3 (2 HSPs)
chr3 (1-472)||(44683242-44683719)
chr3 (371-431)||(39651164-39651222)
[»] scaffold0003 (2 HSPs)
scaffold0003 (1-72)||(20173-20245)
scaffold0003 (277-334)||(20267-20324)
[»] chr7 (3 HSPs)
chr7 (1-72)||(16430191-16430263)
chr7 (277-334)||(16430285-16430342)
chr7 (359-403)||(33692881-33692925)
[»] chr1 (2 HSPs)
chr1 (327-420)||(5828618-5828712)
chr1 (370-430)||(2259143-2259203)
[»] chr2 (1 HSPs)
chr2 (384-431)||(36097681-36097728)
[»] chr8 (1 HSPs)
chr8 (341-421)||(29143874-29143955)
[»] chr6 (1 HSPs)
chr6 (344-420)||(10500649-10500723)


Alignment Details
Target: chr3 (Bit Score: 394; Significance: 0; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 394; E-Value: 0
Query Start/End: Original strand, 1 - 472
Target Start/End: Complemental strand, 44683719 - 44683242
Alignment:
Q  1 atgagatcagttcatagactaaccaaataaaattggtttatcctttcccattagttgagtacagtactgttttggatccaaagtaatggnnnnnnntata 100  Q
    ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||| ||||||||||        | |    
T  44683719 atgagatcagttcatagactaaccaaataaaattggtttattctttcccattagttgagtacagtactgttttggatcaaaagtaatggaaaaaaaaaaa 44683620  T
Q  101 ta------tattgttcgtattcaagtgtgaatggtattcctacattgactatgattgagtttaatgctggatatgttttgtcaaagtgggcatttatacc 194  Q
     |      ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  44683619 aaaaaaagtattgttcgtattcaagtgtgaatggtattcctacattgactatgattgagtttaatgctggatatgttttgtcaaagtgggcatttatacc 44683520  T
Q  195 taattaatagaagtgaagggtgattataaatatgaagggtgagttttcttcagcacaataactttagtcttttggatgtactttgggtagttgtgtgtca 294  Q
    ||||||||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  44683519 taattaatagaagtgaagggtgattataactatgaagagtgagttttcttcagcacaataactttagtcttttggatgtactttgggtagttgtgtgtca 44683420  T
Q  295 tgagagagagtgcaattttgtccaggcaaaaattatatgagaaaccttgcaattttctccttgtaaaaattacatgttgagtaataaaatattttgttga 394  Q
    |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  44683419 tgagagagagtgcaattttgtccatgcaaaaattatatgagaaaccttgcaattttctccttgtaaaaattacatgttgagtaataaaatattttgttga 44683320  T
Q  395 gagattgtagatgtaggtatgaagtgttgaatcacaaccaattcgtgagttgtatttttgtttcttttgtggatgtcc 472  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||| |||||    
T  44683319 gagattgtagatgtaggtatgaagtgttgaatcacaaccaattcgtgagttgtatatttgtttcttttgtgggtgtcc 44683242  T

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

Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 371 - 431
Target Start/End: Complemental strand, 39651222 - 39651164
Alignment:
Q  371 ttgagtaataaaatattttgttgagagattgtagatgtaggtatgaagtgttgaatcacaa 431  Q
    ||||||| |||||||||||||||| |  ||||  ||||||||||||||||||||| |||||    
T  39651222 ttgagtactaaaatattttgttgaaa--ttgtgaatgtaggtatgaagtgttgaaccacaa 39651164  T

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

Target: scaffold0003 (Bit Score: 45; Significance: 2e-16; HSPs: 2)
Name: scaffold0003
Description:

Target: scaffold0003; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 1 - 72
Target Start/End: Original strand, 20173 - 20245
Alignment:
Q  1 atgagatcagttcatagact-aaccaaataaaattggtttatcctttcccattagttgagtacagtactgttt 72  Q
    ||||||||||||| |||||| ||| ||||||||||||||||| |||||| ||||||||| |||||||||||||    
T  20173 atgagatcagttcgtagactcaacaaaataaaattggtttattctttccaattagttgaatacagtactgttt 20245  T

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

Target: scaffold0003; HSP #2
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 277 - 334
Target Start/End: Original strand, 20267 - 20324
Alignment:
Q  277 ttgggtagttgtgtgtcatgagagagagtgcaattttgtccaggcaaaaattatatga 334  Q
    ||||||||||||||||| ||||||||||| ||||| |||||| |||| ||||||||||    
T  20267 ttgggtagttgtgtgtcttgagagagagtacaattatgtccatgcaataattatatga 20324  T

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

Target: chr7 (Bit Score: 45; Significance: 2e-16; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 1 - 72
Target Start/End: Original strand, 16430191 - 16430263
Alignment:
Q  1 atgagatcagttcatagact-aaccaaataaaattggtttatcctttcccattagttgagtacagtactgttt 72  Q
    ||||||||||||| |||||| ||| ||||||||||||||||| |||||| ||||||||| |||||||||||||    
T  16430191 atgagatcagttcgtagactcaacaaaataaaattggtttattctttccaattagttgaatacagtactgttt 16430263  T

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

Target: chr7; HSP #2
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 277 - 334
Target Start/End: Original strand, 16430285 - 16430342
Alignment:
Q  277 ttgggtagttgtgtgtcatgagagagagtgcaattttgtccaggcaaaaattatatga 334  Q
    ||||||||||||||||| ||||||||||| ||||| |||||| |||| ||||||||||    
T  16430285 ttgggtagttgtgtgtcttgagagagagtacaattatgtccatgcaataattatatga 16430342  T

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

Target: chr7; HSP #3
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 359 - 403
Target Start/End: Complemental strand, 33692925 - 33692881
Alignment:
Q  359 aaaaattacatgttgagtaataaaatattttgttgagagattgta 403  Q
    ||||||| || |||||||||||||||||||| ||| |||||||||    
T  33692925 aaaaattgcaagttgagtaataaaatattttattgtgagattgta 33692881  T

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

Target: chr1 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 327 - 420
Target Start/End: Original strand, 5828618 - 5828712
Alignment:
Q  327 ttatatgagaaaccttgcaattttctccttgtaaaaa-ttacatgttgagtaataaaatatttt-gttgagagattgtagatgtaggtatgaagtg 420  Q
    |||||||||| |  ||||||||||||||| ||||||| || ||  ||||||||||||||||||| ||| ||||||||| |||||||||||||||||    
T  5828618 ttatatgagagagtttgcaattttctcct-gtaaaaagttgcaatttgagtaataaaatatttttgttaagagattgtggatgtaggtatgaagtg 5828712  T

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

Target: chr1; HSP #2
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 370 - 430
Target Start/End: Original strand, 2259143 - 2259203
Alignment:
Q  370 gttgagtaataaaatattttgttgagagattgtagatgtaggtatgaagtgttgaatcaca 430  Q
    |||||||||||||||| ||||||| |||||||||||||||  |||||||| | ||||||||    
T  2259143 gttgagtaataaaataatttgttgtgagattgtagatgtaattatgaagtttagaatcaca 2259203  T

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

Target: chr2 (Bit Score: 32; Significance: 0.00000001; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 384 - 431
Target Start/End: Original strand, 36097681 - 36097728
Alignment:
Q  384 tattttgttgagagattgtagatgtaggtatgaagtgttgaatcacaa 431  Q
    ||||||||||||||||||| |||||||||||||| ||| ||| |||||    
T  36097681 tattttgttgagagattgtggatgtaggtatgaaatgtcgaaccacaa 36097728  T

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

Target: chr8 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 341 - 421
Target Start/End: Complemental strand, 29143955 - 29143874
Alignment:
Q  341 ttgcaattttctccttgtaaaaatta-catgttgagtaataaaatattttgttgagagattgtagatgtaggtatgaagtgt 421  Q
    ||||||||| |||||| ||||| | | || |||||||||||||||||| |||||| | ||| |||||| ||| |||||||||    
T  29143955 ttgcaatttcctccttttaaaattaagcaggttgagtaataaaatattatgttgaaatattatagatggaggaatgaagtgt 29143874  T

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

Target: chr6 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 344 - 420
Target Start/End: Complemental strand, 10500723 - 10500649
Alignment:
Q  344 caattttctccttgtaaaaattacatgttgagtaataaaatattttgttgagagattgtagatgtaggtatgaagtg 420  Q
    ||||||||||   ||||||||| || |||||| ||||||||||||||||  |||||||| || | ||||||||||||    
T  10500723 caattttctcaccgtaaaaatttcaggttgagcaataaaatattttgtt--gagattgtggaagcaggtatgaagtg 10500649  T

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



© Oklahoma State University