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: NF20539_low_18 (Length: 503)

Name: NF20539_low_18
Description: NF20539
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF20539_low_18
NF20539_low_18
[»] chr6 (14 HSPs)
chr6 (12-485)||(5100262-5100734)
chr6 (12-287)||(5135559-5135835)
chr6 (121-343)||(5351846-5352065)
chr6 (129-259)||(5242120-5242249)
chr6 (325-468)||(2939463-2939605)
chr6 (134-279)||(5398520-5398660)
chr6 (21-96)||(5351780-5351855)
chr6 (134-198)||(5687599-5687661)
chr6 (121-195)||(5334567-5334640)
chr6 (195-287)||(5155662-5155755)
chr6 (194-243)||(2939370-2939419)
chr6 (196-226)||(5098691-5098721)
chr6 (325-395)||(5155594-5155663)
chr6 (298-342)||(5427325-5427369)
[»] chr3 (4 HSPs)
chr3 (134-225)||(47985060-47985151)
chr3 (134-225)||(47994347-47994438)
chr3 (134-225)||(48003634-48003725)
chr3 (134-225)||(48012919-48013010)
[»] scaffold1476 (1 HSPs)
scaffold1476 (13-58)||(183-228)


Alignment Details
Target: chr6 (Bit Score: 395; Significance: 0; HSPs: 14)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 395; E-Value: 0
Query Start/End: Original strand, 12 - 485
Target Start/End: Complemental strand, 5100734 - 5100262
Alignment:
Q  12 atgaatcaatgaaagatagtaaagcgatggccgagcaaaaatcaattttatgatgactgctaacaattgttttccacttatggcttacaggtcgctctgt 111  Q
    |||||||||||||||||||||| || |||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||| |  ||| |||    
T  5100734 atgaatcaatgaaagatagtaatgcaatggccgagcaaaaatcaattttatgatgactgctaacaattgttttccatttttggcttacaagctgctttgt 5100635  T
Q  112 cattgtctgatttttggtctgtagtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaatt 211  Q
    ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5100634 cattgtctgatttttggtctgtagtttctagattttatccttggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaatt 5100535  T
Q  212 cttccatgtcatataccatttaaatgtcttttaacaaaatggactcaaatag-tatagcatttaaatgtttagcaaaacttctgtagtcctaaataatag 310  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| |||||||||||||||||||||||||    
T  5100534 cttccatgtcatataccatttaaatgtcttttaacaaaatggactcaaatagttatagcatttaaatgtttagc-aaacttctgtagtcctaaataatag 5100436  T
Q  311 gatatatagctgccaagaataaactctgatttgaacaatgagcatttttacctcagcatcagattttatagttatatggctcaagctcatttcctttgct 410  Q
    ||||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||||||||||||||||    
T  5100435 gatatatagctgccaagaagaaactctgatttgaacaatgagca-ttttacctcagcatcaggttttatagttatatggctcaagctcatttcctttgct 5100337  T
Q  411 gcagaaaccttcataactttatctttgagttaacatttatttttgtccctaacggtgtaaggcgctctcattata 485  Q
    |||||||||||||||||||||| ||| ||| ||||||||||||||||||||||||||||||||||||||||||||    
T  5100336 gcagaaaccttcataactttattttttagtaaacatttatttttgtccctaacggtgtaaggcgctctcattata 5100262  T

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

Target: chr6; HSP #2
Raw Score: 225; E-Value: 1e-124
Query Start/End: Original strand, 12 - 287
Target Start/End: Complemental strand, 5135835 - 5135559
Alignment:
Q  12 atgaatcaatgaaagatagtaaagcgatggccgagcaaaaatcaattttatgatgactgctaacaattgttttccacttatggcttacaggtcgctctgt 111  Q
    ||||||||||| ||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||| |  |||||||    
T  5135835 atgaatcaatggaagatagtaaagcaatggccgagcaaaaatcaattttatgatgactgctaacaattgttttccatttttggcttacaagctgctctgt 5135736  T
Q  112 cattgtctgatttttggtctgtagtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaatt 211  Q
    |||||||||||||||||||||||||||||||||||||| || |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||    
T  5135735 cattgtctgatttttggtctgtagtttctagattttattcttggtgaatttttgtattcaaaaagagttctgaaagattctaatttgttctgttacaatt 5135636  T
Q  212 cttccatgtcatataccatttaaatgtcttttaacaaaatggactcaaatag-tatagcatttaaatgtttagcaaa 287  Q
    ||||||||| |||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||    
T  5135635 cttccatgttatataccatttaaatgtcttttaacaaaatggactcaaatagttatagcatttaaatgtttagcaaa 5135559  T

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

Target: chr6; HSP #3
Raw Score: 88; E-Value: 4e-42
Query Start/End: Original strand, 121 - 343
Target Start/End: Original strand, 5351846 - 5352065
Alignment:
Q  121 atttttggtctgtagtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgt 220  Q
    |||||||| ||||||||||| ||||||||||  | ||||||||| ||||||||||||||  |||||||||||||||||||||||||||||| ||||||||    
T  5351846 atttttgg-ctgtagtttcttgattttatccatgttgaattttt-tattcacaaagagtggtgaaagattctaatttgttctgttacaattgttccatgt 5351943  T
Q  221 catataccatttaaatgtcttttaacaaaatggactcaaatag-tatagcatttaaatgtttagcaaaacttctgtagtcctaaataataggatatatag 319  Q
    ||| ||| ||||||| ||||||||||||||||| ||   |||| || |||||||||||||| || ||| |||||||| || | ||| |||| ||||||      
T  5351944 catgtactatttaaaagtcttttaacaaaatgggct-ttatagttacagcatttaaatgttaag-aaagcttctgtactcatgaatgatagcatatatga 5352041  T
Q  320 ctgccaagaataaactctgatttg 343  Q
    |||||||||| |||||||||||||    
T  5352042 ctgccaagaagaaactctgatttg 5352065  T

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

Target: chr6; HSP #4
Raw Score: 75; E-Value: 2e-34
Query Start/End: Original strand, 129 - 259
Target Start/End: Complemental strand, 5242249 - 5242120
Alignment:
Q  129 tctgtagtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgtcatatacc 228  Q
    |||||||||||||||||||||||  ||||||||||| |||| ||| |||||  |||||| |||||||||||| ||||| ||||||| |||||||| ||||    
T  5242249 tctgtagtttctagattttatccatggtgaattttt-tattgacagagagtggtgaaagtttctaatttgttatgttataattctttcatgtcatgtacc 5242151  T
Q  229 atttaaatgtcttttaacaaaatggactcaa 259  Q
    ||||||||||||||||||||||||| |||||    
T  5242150 atttaaatgtcttttaacaaaatgggctcaa 5242120  T

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

Target: chr6; HSP #5
Raw Score: 72; E-Value: 2e-32
Query Start/End: Original strand, 325 - 468
Target Start/End: Original strand, 2939463 - 2939605
Alignment:
Q  325 aagaataaactctgatttgaacaatgagcatttttacctcagcatcagattttatagttatatggctcaagctcatttcctttgctgcagaaaccttcat 424  Q
    ||||| |||||||||||||| || |||||||||| |||||||||||||| |  |||||||| | |||||||||||||||| ||||| ||||| |||||||    
T  2939463 aagaagaaactctgatttgagcagtgagcatttt-acctcagcatcagactccatagttatcttgctcaagctcatttccattgctacagaagccttcat 2939561  T
Q  425 aactttatctttgagttaacatttatttttgtccctaacggtgt 468  Q
    ||| |||| ||||||| |||||||||||| ||||||||| ||||    
T  2939562 aaccttatttttgagtaaacatttattttggtccctaacagtgt 2939605  T

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

Target: chr6; HSP #6
Raw Score: 70; E-Value: 2e-31
Query Start/End: Original strand, 134 - 279
Target Start/End: Original strand, 5398520 - 5398660
Alignment:
Q  134 agtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgtcatataccattta 233  Q
    ||||||||||||||||||  ||||||||||| ||||||    ||||  |||||||||||||||||||||||||||||||||||||||||| ||| |||||    
T  5398520 agtttctagattttatccatggtgaattttt-tattca----gagtggtgaaagattctaatttgttctgttacaattcttccatgtcatgtactattta 5398614  T
Q  234 aatgtcttttaacaaaatggactcaaatag-tatagcatttaaatgt 279  Q
    || |||||||||| |||||||||| ||||| |||||||||| |||||    
T  5398615 aaagtcttttaactaaatggactc-aatagttatagcatttcaatgt 5398660  T

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

Target: chr6; HSP #7
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 21 - 96
Target Start/End: Original strand, 5351780 - 5351855
Alignment:
Q  21 tgaaagatagtaaagcgatggccgagcaaaaatcaattttatgatgactgctaacaattgttttccacttatggct 96  Q
    |||||||||||||||| ||||| |||||||||||||||||||| |||| |||||||||||||||||| || |||||    
T  5351780 tgaaagatagtaaagcaatggcggagcaaaaatcaattttatggtgacggctaacaattgttttccatttttggct 5351855  T

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

Target: chr6; HSP #8
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 134 - 198
Target Start/End: Original strand, 5687599 - 5687661
Alignment:
Q  134 agtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttg 198  Q
    ||||||||||||||||||  ||||||||||||||||||||||||||| |||||||||||||||||    
T  5687599 agtttctagattttatcc--ggtgaatttttgtattcacaaagagttttgaaagattctaatttg 5687661  T

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

Target: chr6; HSP #9
Raw Score: 47; E-Value: 1e-17
Query Start/End: Original strand, 121 - 195
Target Start/End: Original strand, 5334567 - 5334640
Alignment:
Q  121 atttttggtctgtagtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaat 195  Q
    |||||||| ||| ||||||||||||||||||  ||||||||||||||||||||||||||  ||||||||||||||    
T  5334567 atttttgg-ctgaagtttctagattttatccatggtgaatttttgtattcacaaagagtggtgaaagattctaat 5334640  T

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

Target: chr6; HSP #10
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 195 - 287
Target Start/End: Complemental strand, 5155755 - 5155662
Alignment:
Q  195 tttgttctgttacaattcttccatgtcatataccatttaaatgtc-ttttaacaaaatggactcaaatag-tatagcatttaaatgtttagcaaa 287  Q
    |||||||||||||||||| |||||||||  |||||||||||| || ||||||| |||||||||  ||||| ||||| || |||||||||||||||    
T  5155755 tttgttctgttacaattcgtccatgtcacgtaccatttaaatatctttttaaccaaatggact-gaatagctatagtatctaaatgtttagcaaa 5155662  T

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

Target: chr6; HSP #11
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 194 - 243
Target Start/End: Original strand, 2939370 - 2939419
Alignment:
Q  194 atttgttctgttacaattcttccatgtcatataccatttaaatgtctttt 243  Q
    |||||||||||||| |||| |||||||||| |||||||||||| ||||||    
T  2939370 atttgttctgttacgattcatccatgtcatgtaccatttaaatatctttt 2939419  T

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

Target: chr6; HSP #12
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 196 - 226
Target Start/End: Original strand, 5098691 - 5098721
Alignment:
Q  196 ttgttctgttacaattcttccatgtcatata 226  Q
    |||||||||||||||||||||||||||||||    
T  5098691 ttgttctgttacaattcttccatgtcatata 5098721  T

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

Target: chr6; HSP #13
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 325 - 395
Target Start/End: Complemental strand, 5155663 - 5155594
Alignment:
Q  325 aagaataaactctgatttgaacaatgagcatttttacctcagcatcagattttatagttatatggctcaag 395  Q
    ||||| ||| |||||||||| ||||||||| |||||||||||||||||| |  |||||||| | |||||||    
T  5155663 aagaagaaaatctgatttgagcaatgagca-ttttacctcagcatcagactccatagttatcttgctcaag 5155594  T

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

Target: chr6; HSP #14
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 298 - 342
Target Start/End: Original strand, 5427325 - 5427369
Alignment:
Q  298 tcctaaataataggatatatagctgccaagaataaactctgattt 342  Q
    |||| ||| ||||||||||| ||||||||||| ||||||||||||    
T  5427325 tcctgaatgataggatatatggctgccaagaagaaactctgattt 5427369  T

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

Target: chr3 (Bit Score: 32; Significance: 0.00000001; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 134 - 225
Target Start/End: Complemental strand, 47985151 - 47985060
Alignment:
Q  134 agtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgtcatat 225  Q
    |||||||||||||||| |  ||| |||||||||| ||  |||||    |||||||||  |||||||| |||||||||||||||| |||||||    
T  47985151 agtttctagattttattcatggtaaatttttgtaatcctaaagataggtgaaagattacaatttgttatgttacaattcttccacgtcatat 47985060  T

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

Target: chr3; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 134 - 225
Target Start/End: Complemental strand, 47994438 - 47994347
Alignment:
Q  134 agtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgtcatat 225  Q
    |||||||||||||||| |  ||| |||||||||| ||  |||||    |||||||||  |||||||| |||||||||||||||| |||||||    
T  47994438 agtttctagattttattcatggtaaatttttgtaatcctaaagataggtgaaagattacaatttgttatgttacaattcttccacgtcatat 47994347  T

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

Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 134 - 225
Target Start/End: Complemental strand, 48003725 - 48003634
Alignment:
Q  134 agtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgtcatat 225  Q
    |||||||||||||||| |  ||| |||||||||| ||  |||||    |||||||||  |||||||| |||||||||||||||| |||||||    
T  48003725 agtttctagattttattcatggtaaatttttgtaatcctaaagataggtgaaagattacaatttgttatgttacaattcttccacgtcatat 48003634  T

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

Target: chr3; HSP #4
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 134 - 225
Target Start/End: Complemental strand, 48013010 - 48012919
Alignment:
Q  134 agtttctagattttatcctgggtgaatttttgtattcacaaagagttctgaaagattctaatttgttctgttacaattcttccatgtcatat 225  Q
    |||||||||||||||| |  ||| |||||||||| ||  |||||    |||||||||  |||||||| |||||||||||||||| |||||||    
T  48013010 agtttctagattttattcatggtaaatttttgtaatcctaaagataggtgaaagattacaatttgttatgttacaattcttccacgtcatat 48012919  T

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

Target: scaffold1476 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: scaffold1476
Description:

Target: scaffold1476; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 13 - 58
Target Start/End: Original strand, 183 - 228
Alignment:
Q  13 tgaatcaatgaaagatagtaaagcgatggccgagcaaaaatcaatt 58  Q
    |||||||||||||||| ||||| | ||||| |||||||||||||||    
T  183 tgaatcaatgaaagatggtaaaacaatggcggagcaaaaatcaatt 228  T

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



© Oklahoma State University