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: NF6864A_low_45 (Length: 408)

Name: NF6864A_low_45
Description: NF6864A
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF6864A_low_45
NF6864A_low_45
[»] chr2 (2 HSPs)
chr2 (3-402)||(11330392-11330779)
chr2 (349-402)||(7178122-7178175)
[»] scaffold0288 (1 HSPs)
scaffold0288 (159-277)||(9860-9979)
[»] chr1 (2 HSPs)
chr1 (176-260)||(5362811-5362893)
chr1 (196-257)||(35409005-35409066)
[»] chr5 (5 HSPs)
chr5 (195-273)||(41658759-41658837)
chr5 (195-285)||(41685853-41685942)
chr5 (232-277)||(37097872-37097917)
chr5 (193-286)||(864411-864501)
chr5 (177-250)||(38646660-38646732)
[»] chr4 (2 HSPs)
chr4 (228-278)||(6861263-6861313)
chr4 (196-256)||(33827450-33827509)


Alignment Details
Target: chr2 (Bit Score: 298; Significance: 1e-167; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 298; E-Value: 1e-167
Query Start/End: Original strand, 3 - 402
Target Start/End: Original strand, 11330392 - 11330779
Alignment:
Q  3 tatgttgagcaggttagcctagatattaccctaagtagagtgcctacttagattatagcagtaaaattcatcaaactctaaagggaagtgaaattggaca 102  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  11330392 tatgttgagcaggttagcctagatattaccctaagtagagtgcctacttagattatagcagtaaaattcatcaaactctaaagggaagtgaaattggaca 11330491  T
Q  103 ttcatgaagcaacttcaatcaataattataacttttttctataggaatatgttagttgttacttgtaagtaatttgttagagggaagggggaaatgttag 202  Q
    |||||| |||||||||||||||||| ||||||||||||||||||| | |||||||||||||||||| ||||| || |||||||||||||||             
T  11330492 ttcatgcagcaacttcaatcaataagtataacttttttctataggcaaatgttagttgttacttgttagtaaatttttagagggaaggggg--------- 11330582  T
Q  203 tttccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttagctccccgaccgagctacctatgtgggactataacccaatttaact 302  Q
       ||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||    
T  11330583 ---ccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttagctcaccaaccgagctacctatgtgggactataacccaatttaact 11330679  T
Q  303 gaagctattagcctaaagnnnnnnnattttcctctactgtactcatttaatatccgaattcttttgttgcaggtccgaaacattgctttgggaattgtat 402  Q
    ||||||||||||||||||       |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||    
T  11330680 gaagctattagcctaaagtttttttattttcctctactgtactcatttaatatccgaattcttttgttgcaggtccggaacattgctttgggaattgtat 11330779  T

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

Target: chr2; HSP #2
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 349 - 402
Target Start/End: Complemental strand, 7178175 - 7178122
Alignment:
Q  349 ttaatatccgaattcttttgttgcaggtccgaaacattgctttgggaattgtat 402  Q
    |||||||||  ||| |||||||||||||||| |||||||| |||||||||||||    
T  7178175 ttaatatcctgattattttgttgcaggtccggaacattgcattgggaattgtat 7178122  T

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

Target: scaffold0288 (Bit Score: 48; Significance: 3e-18; HSPs: 1)
Name: scaffold0288
Description:

Target: scaffold0288; HSP #1
Raw Score: 48; E-Value: 3e-18
Query Start/End: Original strand, 159 - 277
Target Start/End: Complemental strand, 9979 - 9860
Alignment:
Q  159 tgttacttgtaagtaatttgtta-gagggaagggggaaatgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttag 257  Q
    ||||| |||| ||||| |||||| ||| | ||||||||||||||||||| |||  || ||| ||| ||||||||||||||||||||||||| ||||| ||    
T  9979 tgttagttgttagtaaattgttaagagaggagggggaaatgttagtttctgggagtcaaacccgggacctccttcttaaatctccttcaacatccctgag 9880  T
Q  258 ctccccgaccgagctaccta 277  Q
    ||| || || ||||||||||    
T  9879 ctcaccaactgagctaccta 9860  T

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

Target: chr1 (Bit Score: 45; Significance: 2e-16; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 176 - 260
Target Start/End: Complemental strand, 5362893 - 5362811
Alignment:
Q  176 ttgttagagggaagggggaaatgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttagctc 260  Q
    ||||| ||||||||||| |||||||||||||| || || |||| ||| ||||||||||||||||||||||||| |||||||||||    
T  5362893 ttgttggagggaagggg-aaatgttagtttccagg-attgaacacgggacctccttcttaaatctccttcaacctcccttagctc 5362811  T

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

Target: chr1; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 196 - 257
Target Start/End: Original strand, 35409005 - 35409066
Alignment:
Q  196 atgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttag 257  Q
    ||||||||||| || |||  ||||||||||||||| ||| || ||||||||||| |||||||    
T  35409005 atgttagtttctggagatgaaactcggaacctcctcctttaaactccttcaacgacccttag 35409066  T

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

Target: chr5 (Bit Score: 39; Significance: 0.0000000000006; HSPs: 5)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 195 - 273
Target Start/End: Original strand, 41658759 - 41658837
Alignment:
Q  195 aatgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttagctccccgaccgagcta 273  Q
    |||||||||||||||| ||| ||  ||| | |||||||||||| ||||||| |||||||||||||| || |||||||||    
T  41658759 aatgttagtttccgggaatcaaatccgggaactccttcttaaacctccttcgacgtcccttagctcaccaaccgagcta 41658837  T

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

Target: chr5; HSP #2
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 195 - 285
Target Start/End: Original strand, 41685853 - 41685942
Alignment:
Q  195 aatgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtcccttagctccccgaccgagctacctatgtgggac 285  Q
    |||||||||||||||| || |||| | | |||||||||| ||||||||||  ||||||||||  || ||||| ||||||||||||||||||    
T  41685853 aatgttagtttccggg-atggaacccaggacctccttctcaaatctcctttgacgtcccttatatcaccgactgagctacctatgtgggac 41685942  T

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

Target: chr5; HSP #3
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 232 - 277
Target Start/End: Complemental strand, 37097917 - 37097872
Alignment:
Q  232 cttaaatctccttcaacgtcccttagctccccgaccgagctaccta 277  Q
    |||||||||||||||| |||||||||||| || |||||||||||||    
T  37097917 cttaaatctccttcaatgtcccttagctcaccaaccgagctaccta 37097872  T

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

Target: chr5; HSP #4
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 193 - 286
Target Start/End: Complemental strand, 864501 - 864411
Alignment:
Q  193 gaaatgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtccc-ttagctccccgaccgagctacctatgtgggact 286  Q
    |||||||||||||||||||||| ||| ||| | ||||| ||| || |||||| | |||||| |||||||    |||||||||| |||||||||||    
T  864501 gaaatgttagtttccggggatcaaacccgggatctcctccttcaaactccttgatcgtccctttagctc----accgagctacatatgtgggact 864411  T

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

Target: chr5; HSP #5
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 177 - 250
Target Start/End: Complemental strand, 38646732 - 38646660
Alignment:
Q  177 tgttagagggaagggggaaatgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgt 250  Q
    |||||||||  |||| ||||||||||||| || |||||||||||  ||| ||| || |||||||||||||||||    
T  38646732 tgttagaggagagggagaaatgttagttttcgaggatcgaactcaaaacatccatc-taaatctccttcaacgt 38646660  T

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

Target: chr4 (Bit Score: 31; Significance: 0.00000004; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 228 - 278
Target Start/End: Complemental strand, 6861313 - 6861263
Alignment:
Q  228 ccttcttaaatctccttcaacgtcccttagctccccgaccgagctacctat 278  Q
    |||||||||||||| ||||| |||||||||||| || ||||| ||||||||    
T  6861313 ccttcttaaatctctttcaatgtcccttagctcaccaaccgaactacctat 6861263  T

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

Target: chr4; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 196 - 256
Target Start/End: Complemental strand, 33827509 - 33827450
Alignment:
Q  196 atgttagtttccggggatcgaactcggaacctccttcttaaatctccttcaacgtccctta 256  Q
    ||||||||||||||| ||||||| ||  ||||||| |||||| |||||||||||| |||||    
T  33827509 atgttagtttccggg-atcgaacccgagacctcctccttaaagctccttcaacgttcctta 33827450  T

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



© Oklahoma State University