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: NF8905A_low_135 (Length: 273)

Name: NF8905A_low_135
Description: NF8905A
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF8905A_low_135
NF8905A_low_135
[»] chr4 (6 HSPs)
chr4 (1-271)||(39337104-39337374)
chr4 (86-221)||(35785838-35785973)
chr4 (86-219)||(55018560-55018693)
chr4 (86-219)||(38157823-38157956)
chr4 (86-212)||(23703163-23703289)
chr4 (97-221)||(7107710-7107834)
[»] chr8 (1 HSPs)
chr8 (87-221)||(21143275-21143409)
[»] chr1 (2 HSPs)
chr1 (86-221)||(52794436-52794570)
chr1 (86-195)||(9627130-9627237)
[»] chr5 (3 HSPs)
chr5 (86-221)||(13374493-13374628)
chr5 (170-221)||(9671540-9671591)
chr5 (86-140)||(9671603-9671657)
[»] scaffold0060 (1 HSPs)
scaffold0060 (86-206)||(12587-12707)
[»] chr3 (1 HSPs)
chr3 (123-222)||(47151152-47151251)
[»] chr2 (1 HSPs)
chr2 (86-140)||(42929731-42929785)


Alignment Details
Target: chr4 (Bit Score: 251; Significance: 1e-139; HSPs: 6)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 251; E-Value: 1e-139
Query Start/End: Original strand, 1 - 271
Target Start/End: Original strand, 39337104 - 39337374
Alignment:
Q  1 gtgttgaaggtgtcaattgggtttctagagtttgtgctcattatgggttttctactttgaccactgttcttgctgttaactactttgatagattcgttac 100  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||    
T  39337104 gtgttgaaggtgtcaattgggtttctagagtttgtgctcattatgggttttctactttgaccactgttcttgctgtcaactactttgatagattcgttac 39337203  T
Q  101 tagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaaacccatgtgccactt 200  Q
    |||||||||||||||||||||||||||||||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  39337204 tagtttgaagtttcaaaaggataagccttggatgactcagctcactgctgttgcttgtttgtctcttgctgctaaaatggaagaaacccatgtgccactt 39337303  T
Q  201 cttttggattttcaagtatgttaatcaagtagtctatgtgttcgttgaaatgccataaagttttgtttttt 271  Q
    |||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| ||||||    
T  39337304 cttttggattttcaagtatgttaatcaagtagtctatgtgtttgttgaaatgccataaagttttttttttt 39337374  T

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

Target: chr4; HSP #2
Raw Score: 104; E-Value: 6e-52
Query Start/End: Original strand, 86 - 221
Target Start/End: Complemental strand, 35785973 - 35785838
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||||||||||||  ||||||||||||||||| ||||| ||||||  ||||| |||||||||||||||||||||||||||||||||||||    
T  35785973 tgatagattcgttactagtttgatatttcaaaaggataagccatggatcactcagattactgttgttgcttgtttgtctcttgctgctaaaatggaagaa 35785874  T
Q  186 acccatgtgccacttcttttggattttcaagtatgt 221  Q
    | ||||||||||||||||||||||||||||||||||    
T  35785873 atccatgtgccacttcttttggattttcaagtatgt 35785838  T

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

Target: chr4; HSP #3
Raw Score: 102; E-Value: 1e-50
Query Start/End: Original strand, 86 - 219
Target Start/End: Original strand, 55018560 - 55018693
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||| ||||||||  ||||||||||||||||| ||||| ||||||| ||||| |||||||||||||||||||||||||||||||||||||    
T  55018560 tgatagattcgttattagtttgatatttcaaaaggataagccatggatcactcagcttactgttgttgcttgtttgtctcttgctgctaaaatggaagaa 55018659  T
Q  186 acccatgtgccacttcttttggattttcaagtat 219  Q
    |||||||| |||||||||||||||||||||||||    
T  55018660 acccatgtaccacttcttttggattttcaagtat 55018693  T

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

Target: chr4; HSP #4
Raw Score: 98; E-Value: 2e-48
Query Start/End: Original strand, 86 - 219
Target Start/End: Original strand, 38157823 - 38157956
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||||||||||||  ||||||||||||||| | ||||| ||||| | ||||| |||||||||||||||||||||||||||||||||||||    
T  38157823 tgatagattcgttactagtttgatatttcaaaaggataagtcatggatcactcatcttactgttgttgcttgtttgtctcttgctgctaaaatggaagaa 38157922  T
Q  186 acccatgtgccacttcttttggattttcaagtat 219  Q
    |||||||| |||||||||||||||||||||||||    
T  38157923 acccatgtaccacttcttttggattttcaagtat 38157956  T

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

Target: chr4; HSP #5
Raw Score: 95; E-Value: 2e-46
Query Start/End: Original strand, 86 - 212
Target Start/End: Original strand, 23703163 - 23703289
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    ||||||||| |||||||||||||  ||||||||| ||||||| ||||| ||||||  |||||||||||||||||||||||||||||||||||||||||||    
T  23703163 tgatagatttgttactagtttgatatttcaaaagaataagccatggatcactcaggttactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 23703262  T
Q  186 acccatgtgccacttcttttggatttt 212  Q
    |||||||||||||||||||||||||||    
T  23703263 acccatgtgccacttcttttggatttt 23703289  T

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

Target: chr4; HSP #6
Raw Score: 89; E-Value: 6e-43
Query Start/End: Original strand, 97 - 221
Target Start/End: Original strand, 7107710 - 7107834
Alignment:
Q  97 ttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaaacccatgtgcc 196  Q
    ||||||||||||  ||||||||||||||| | ||||| | ||||  ||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  7107710 ttactagtttgatatttcaaaaggataagtcatggatcattcagattactgttgttgcttgtttgtctcttgctgctaaaatggaagaaacccatgtgcc 7107809  T
Q  197 acttcttttggattttcaagtatgt 221  Q
    |||||||||||||||||||||||||    
T  7107810 acttcttttggattttcaagtatgt 7107834  T

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

Target: chr8 (Bit Score: 99; Significance: 6e-49; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 99; E-Value: 6e-49
Query Start/End: Original strand, 87 - 221
Target Start/End: Original strand, 21143275 - 21143409
Alignment:
Q  87 gatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaaa 186  Q
    |||||||| |||||||||||||  ||||||||||||||||| ||||| ||||||  ||||| ||||||||||||||||||||||||||||||||||||||    
T  21143275 gatagatttgttactagtttgatatttcaaaaggataagccatggatcactcagattactgttgttgcttgtttgtctcttgctgctaaaatggaagaaa 21143374  T
Q  187 cccatgtgccacttcttttggattttcaagtatgt 221  Q
    | |||||||||||||||||||||||||||||||||    
T  21143375 ctcatgtgccacttcttttggattttcaagtatgt 21143409  T

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

Target: chr1 (Bit Score: 92; Significance: 9e-45; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 92; E-Value: 9e-45
Query Start/End: Original strand, 86 - 221
Target Start/End: Complemental strand, 52794570 - 52794436
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||||||||||||  ||||||||||||||||| ||||| ||||||  | ||| |||| ||||||||||||||||||||||||||||||||    
T  52794570 tgatagattcgttactagtttgatatttcaaaaggataagccatggatcactcagattcctg-tgtttcttgtttgtctcttgctgctaaaatggaagaa 52794472  T
Q  186 acccatgtgccacttcttttggattttcaagtatgt 221  Q
    |||||||||||||||||||||||||||||| |||||    
T  52794471 acccatgtgccacttcttttggattttcaaatatgt 52794436  T

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

Target: chr1; HSP #2
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 86 - 195
Target Start/End: Original strand, 9627130 - 9627237
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||||||||||||  ||||||||||||||||| || || |||||   ||| | |||| ||| ||||||||||||||||||||||| ||||    
T  9627130 tgatagattcgttactagtttgatatttcaaaaggataagccatgaatcactcatattaccg-tgtttcttatttgtctcttgctgctaaaatgg-agaa 9627227  T
Q  186 acccatgtgc 195  Q
    ||||||||||    
T  9627228 acccatgtgc 9627237  T

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

Target: chr5 (Bit Score: 88; Significance: 2e-42; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 88; E-Value: 2e-42
Query Start/End: Original strand, 86 - 221
Target Start/End: Complemental strand, 13374628 - 13374493
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||||||||||||  |||||||||||| || | ||||| ||||||  ||||| |||||||||||||||||||||| ||||||||||||||    
T  13374628 tgatagattcgttactagtttgatatttcaaaaggatgagtcatggatcactcagattactgttgttgcttgtttgtctcttgctactaaaatggaagaa 13374529  T
Q  186 acccatgtgccacttcttttggattttcaagtatgt 221  Q
    || |||||| ||||||||||||||||||||||||||    
T  13374528 acacatgtgtcacttcttttggattttcaagtatgt 13374493  T

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

Target: chr5; HSP #2
Raw Score: 52; E-Value: 7e-21
Query Start/End: Original strand, 170 - 221
Target Start/End: Complemental strand, 9671591 - 9671540
Alignment:
Q  170 tgctaaaatggaagaaacccatgtgccacttcttttggattttcaagtatgt 221  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9671591 tgctaaaatggaagaaacccatgtgccacttcttttggattttcaagtatgt 9671540  T

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

Target: chr5; HSP #3
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 86 - 140
Target Start/End: Complemental strand, 9671657 - 9671603
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcag 140  Q
    ||||| |||||||||||||||||  ||||||||||||||||| ||||| ||||||    
T  9671657 tgatatattcgttactagtttgatatttcaaaaggataagccatggatcactcag 9671603  T

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

Target: scaffold0060 (Bit Score: 69; Significance: 5e-31; HSPs: 1)
Name: scaffold0060
Description:

Target: scaffold0060; HSP #1
Raw Score: 69; E-Value: 5e-31
Query Start/End: Original strand, 86 - 206
Target Start/End: Original strand, 12587 - 12707
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaa 185  Q
    |||||||||||||||||||||||  ||||||||||||||| | ||||| |||||   ||||  |||||||||||||||| ||||| ||||||||||||||    
T  12587 tgatagattcgttactagtttgatatttcaaaaggataagtcatggatcactcaaattactattgttgcttgtttgtctgttgctactaaaatggaagaa 12686  T
Q  186 acccatgtgccacttcttttg 206  Q
    || ||||||||||||||||||    
T  12687 actcatgtgccacttcttttg 12707  T

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

Target: chr3 (Bit Score: 44; Significance: 4e-16; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 123 - 222
Target Start/End: Original strand, 47151152 - 47151251
Alignment:
Q  123 aagccttggatgactcagcatactgctgttgcttgtttgtctcttgctgctaaaatggaagaaacccatgtgccacttcttttggattttcaagtatgtt 222  Q
    ||||| ||||||||||||| | | |||||||||||| | ||||||||||||||||||||||| |||||||| || ||| |  | ||| ||||||||||||    
T  47151152 aagccatggatgactcagcttgcagctgttgcttgtctttctcttgctgctaaaatggaagagacccatgttcctcttttgctagatcttcaagtatgtt 47151251  T

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

Target: chr2 (Bit Score: 31; Significance: 0.00000002; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 86 - 140
Target Start/End: Original strand, 42929731 - 42929785
Alignment:
Q  86 tgatagattcgttactagtttgaagtttcaaaaggataagccttggatgactcag 140  Q
    ||||||||||||||||||||  |  ||||||||||||||||| ||||| ||||||    
T  42929731 tgatagattcgttactagttatatatttcaaaaggataagccatggatcactcag 42929785  T

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



© Oklahoma State University