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: NF0397_high_4 (Length: 445)

Name: NF0397_high_4
Description: NF0397
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF0397_high_4
NF0397_high_4
[»] scaffold0003 (1 HSPs)
scaffold0003 (55-188)||(238319-238452)
[»] chr5 (2 HSPs)
chr5 (75-196)||(38303659-38303780)
chr5 (139-187)||(7829461-7829509)
[»] scaffold0038 (2 HSPs)
scaffold0038 (264-411)||(116228-116374)
scaffold0038 (206-262)||(116254-116310)
[»] chr6 (2 HSPs)
chr6 (264-411)||(28324913-28325059)
chr6 (206-262)||(28324939-28324995)
[»] chr8 (3 HSPs)
chr8 (280-398)||(43590885-43591003)
chr8 (206-265)||(43590934-43590993)
chr8 (140-184)||(26921348-26921392)
[»] chr3 (4 HSPs)
chr3 (280-411)||(47863902-47864034)
chr3 (73-187)||(40210817-40210930)
chr3 (206-265)||(47863924-47863983)
chr3 (128-181)||(44306741-44306794)
[»] chr1 (2 HSPs)
chr1 (352-411)||(52334953-52335013)
chr1 (229-265)||(52334953-52334989)


Alignment Details
Target: scaffold0003 (Bit Score: 90; Significance: 2e-43; HSPs: 1)
Name: scaffold0003
Description:

Target: scaffold0003; HSP #1
Raw Score: 90; E-Value: 2e-43
Query Start/End: Original strand, 55 - 188
Target Start/End: Original strand, 238319 - 238452
Alignment:
Q  55 tttattaggcgacaagcaaatggtagtgctcatgctttagcacaagcatctatcaattacgctattcgcaaaacttttacaagcattcctcattgtattt 154  Q
    |||| ||| ||||||| ||||||||||||||| ||| ||||| |||||||||||||||||| |||||||||||||||||||||||||| |||||||||||    
T  238319 tttactagacgacaagtaaatggtagtgctcacgctctagcataagcatctatcaattacgttattcgcaaaacttttacaagcattcttcattgtattt 238418  T
Q  155 ggaatattatcatgaatgaaatgtgttaaatttt 188  Q
    ||||||||||||| ||| ||||||||| ||||||    
T  238419 ggaatattatcataaataaaatgtgttgaatttt 238452  T

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

Target: chr5 (Bit Score: 86; Significance: 6e-41; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 86; E-Value: 6e-41
Query Start/End: Original strand, 75 - 196
Target Start/End: Complemental strand, 38303780 - 38303659
Alignment:
Q  75 tggtagtgctcatgctttagcacaagcatctatcaattacgctattcgcaaaacttttacaagcattcctcattgtatttggaatattatcatgaatgaa 174  Q
    |||||||| ||||||| ||||| ||||||||||||||||| ||||||||||||||||||||| |||| ||||||||||||| ||||||||||||||| ||    
T  38303780 tggtagtgttcatgctctagcataagcatctatcaattacactattcgcaaaacttttacaaacatttctcattgtatttgaaatattatcatgaataaa 38303681  T
Q  175 atgtgttaaattttattcgagt 196  Q
    |||||||||||||| |||||||    
T  38303680 atgtgttaaattttgttcgagt 38303659  T

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

Target: chr5; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 139 - 187
Target Start/End: Complemental strand, 7829509 - 7829461
Alignment:
Q  139 attcctcattgtatttggaatattatcatgaatgaaatgtgttaaattt 187  Q
    ||||||||||||||||| || |||||||||||| |||||| || |||||    
T  7829509 attcctcattgtatttgaaacattatcatgaataaaatgtcttgaattt 7829461  T

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

Target: scaffold0038 (Bit Score: 72; Significance: 1e-32; HSPs: 2)
Name: scaffold0038
Description:

Target: scaffold0038; HSP #1
Raw Score: 72; E-Value: 1e-32
Query Start/End: Original strand, 264 - 411
Target Start/End: Complemental strand, 116374 - 116228
Alignment:
Q  264 atctatatctataaacaattgcaaatgttttacattaacttgtattaaatgttgtttctctaataggctctccacatatgcgttgtgccacttgttaaat 363  Q
    |||||||| |||| ||||||||||| ||| |||||| || | ||||||||| || || ||||||||||||||||||||||| ||||||||||||  ||||    
T  116374 atctatat-tatatacaattgcaaaagttatacattgacctttattaaatgctgcttttctaataggctctccacatatgcattgtgccacttggcaaat 116276  T
Q  364 gatgattaaatttcccaagtttcttaacactatatgtaaggcaatgtt 411  Q
    |||||||||||||||||| |||  | ||||||||| ||||||||||||    
T  116275 gatgattaaatttcccaatttttattacactatatataaggcaatgtt 116228  T

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

Target: scaffold0038; HSP #2
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 206 - 262
Target Start/End: Complemental strand, 116310 - 116254
Alignment:
Q  206 ggctctccacatatgcattgtgccacttggcaaatgatgattaaatttcccaatttt 262  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  116310 ggctctccacatatgcattgtgccacttggcaaatgatgattaaatttcccaatttt 116254  T

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

Target: chr6 (Bit Score: 72; Significance: 1e-32; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 72; E-Value: 1e-32
Query Start/End: Original strand, 264 - 411
Target Start/End: Complemental strand, 28325059 - 28324913
Alignment:
Q  264 atctatatctataaacaattgcaaatgttttacattaacttgtattaaatgttgtttctctaataggctctccacatatgcgttgtgccacttgttaaat 363  Q
    |||||||| |||| ||||||||||| ||| |||||| || | ||||||||| || || ||||||||||||||||||||||| ||||||||||||  ||||    
T  28325059 atctatat-tatatacaattgcaaaagttatacattgacctttattaaatgctgcttttctaataggctctccacatatgcattgtgccacttggcaaat 28324961  T
Q  364 gatgattaaatttcccaagtttcttaacactatatgtaaggcaatgtt 411  Q
    |||||||||||||||||| |||  | ||||||||| ||||||||||||    
T  28324960 gatgattaaatttcccaatttttattacactatatataaggcaatgtt 28324913  T

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

Target: chr6; HSP #2
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 206 - 262
Target Start/End: Complemental strand, 28324995 - 28324939
Alignment:
Q  206 ggctctccacatatgcattgtgccacttggcaaatgatgattaaatttcccaatttt 262  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  28324995 ggctctccacatatgcattgtgccacttggcaaatgatgattaaatttcccaatttt 28324939  T

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

Target: chr8 (Bit Score: 71; Significance: 5e-32; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 71; E-Value: 5e-32
Query Start/End: Original strand, 280 - 398
Target Start/End: Original strand, 43590885 - 43591003
Alignment:
Q  280 aattgcaaatgttttacattaacttgtattaaatgttgtttctctaataggctctccacatatgcgttgtgccacttgttaaatgatgattaaatttccc 379  Q
    |||||||||||||||||||| || | ||||||||| || || ||||||||||||||||||||||| |||||||| |||  ||||||||||||||||||||    
T  43590885 aattgcaaatgttttacattgacctttattaaatggtgcttttctaataggctctccacatatgcattgtgccatttggcaaatgatgattaaatttccc 43590984  T
Q  380 aagtttcttaacactatat 398  Q
    || |||| |||||||||||    
T  43590985 aattttcataacactatat 43591003  T

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

Target: chr8; HSP #2
Raw Score: 56; E-Value: 5e-23
Query Start/End: Original strand, 206 - 265
Target Start/End: Original strand, 43590934 - 43590993
Alignment:
Q  206 ggctctccacatatgcattgtgccacttggcaaatgatgattaaatttcccaattttcat 265  Q
    ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||    
T  43590934 ggctctccacatatgcattgtgccatttggcaaatgatgattaaatttcccaattttcat 43590993  T

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

Target: chr8; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 140 - 184
Target Start/End: Original strand, 26921348 - 26921392
Alignment:
Q  140 ttcctcattgtatttggaatattatcatgaatgaaatgtgttaaa 184  Q
    |||||||||||||||| ||||||||||| ||||||||||||||||    
T  26921348 ttcctcattgtatttgaaatattatcataaatgaaatgtgttaaa 26921392  T

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

Target: chr3 (Bit Score: 59; Significance: 8e-25; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 59; E-Value: 8e-25
Query Start/End: Original strand, 280 - 411
Target Start/End: Complemental strand, 47864034 - 47863902
Alignment:
Q  280 aattgcaaatgttttaca--ttaacttgtattaaatgttgtttctctaataggctctccacatatgcgttgtgccacttgttaaatgatgattaaatttc 377  Q
    ||||||||||||||||||  || |  | ||||||||| || || |||||||||||||| |||||||| ||||||||||||  ||||||||||||||||||    
T  47864034 aattgcaaatgttttacacattgatctttattaaatgctgcttttctaataggctctctacatatgcattgtgccacttggcaaatgatgattaaatttc 47863935  T
Q  378 ccaagtttcttaacactatatgtaaggcaatgtt 411  Q
    |||| |||| |||||| |||| ||||||||||||    
T  47863934 ccaaatttcataacac-atatataaggcaatgtt 47863902  T

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

Target: chr3; HSP #2
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 73 - 187
Target Start/End: Complemental strand, 40210930 - 40210817
Alignment:
Q  73 aatggtagtgctcatgctttagcacaagcatctatcaattacgctattcgcaaaacttttacaagcattcctcattgtatttggaatattatcatgaatg 172  Q
    |||||||||| |||  || || ||||| ||||||| ||| ||||||||||||  |||||||||| ||||||||||||||||||||| |||||||||||||    
T  40210930 aatggtagtgttcaaactctaacacaaacatctattaat-acgctattcgcagtacttttacaaacattcctcattgtatttggaacattatcatgaatg 40210832  T
Q  173 aaatgtgttaaattt 187  Q
    ||||| ||| |||||    
T  40210831 aaatgcgttgaattt 40210817  T

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

Target: chr3; HSP #3
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 206 - 265
Target Start/End: Complemental strand, 47863983 - 47863924
Alignment:
Q  206 ggctctccacatatgcattgtgccacttggcaaatgatgattaaatttcccaattttcat 265  Q
    ||||||| ||||||||||||||||||||||||||||||||||||||||||||| ||||||    
T  47863983 ggctctctacatatgcattgtgccacttggcaaatgatgattaaatttcccaaatttcat 47863924  T

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

Target: chr3; HSP #4
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 128 - 181
Target Start/End: Complemental strand, 44306794 - 44306741
Alignment:
Q  128 cttttacaagcattcctcattgtatttggaatattatcatgaatgaaatgtgtt 181  Q
    |||||||||||||||||| |||||||||||||||||||||||||||||||||||    
T  44306794 cttttacaagcattcctccttgtatttggaatattatcatgaatgaaatgtgtt 44306741  T

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

Target: chr1 (Bit Score: 33; Significance: 0.000000003; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 352 - 411
Target Start/End: Original strand, 52334953 - 52335013
Alignment:
Q  352 cacttgttaaatgatgattaaatttcccaagtttcttaacactat-atgtaaggcaatgtt 411  Q
    |||||| |||||||||||||||||| |||| |||| ||||||||| || ||||||||||||    
T  52334953 cacttggtaaatgatgattaaattttccaattttcataacactataatataaggcaatgtt 52335013  T

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

Target: chr1; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 229 - 265
Target Start/End: Original strand, 52334953 - 52334989
Alignment:
Q  229 cacttggcaaatgatgattaaatttcccaattttcat 265  Q
    ||||||| ||||||||||||||||| |||||||||||    
T  52334953 cacttggtaaatgatgattaaattttccaattttcat 52334989  T

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



© Oklahoma State University

This website was viewed 753 times since January 2019
Visitors: 3065