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: NF1999_high_59 (Length: 247)

Name: NF1999_high_59
Description: NF1999
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF1999_high_59
NF1999_high_59
[»] chr1 (7 HSPs)
chr1 (1-237)||(49683104-49683340)
chr1 (14-237)||(49710713-49710937)
chr1 (1-237)||(49688010-49688244)
chr1 (20-237)||(49215376-49215593)
chr1 (20-237)||(49714355-49714571)
chr1 (20-231)||(49728558-49728769)
chr1 (1-235)||(49725132-49725366)
[»] chr6 (3 HSPs)
chr6 (119-222)||(31189573-31189676)
chr6 (125-226)||(31201386-31201487)
chr6 (140-221)||(31214205-31214286)
[»] chr7 (4 HSPs)
chr7 (86-180)||(31572844-31572938)
chr7 (98-174)||(33305159-33305235)
chr7 (86-180)||(31618400-31618494)
chr7 (101-162)||(31608405-31608466)
[»] scaffold0394 (1 HSPs)
scaffold0394 (104-180)||(2090-2166)
[»] chr4 (1 HSPs)
chr4 (104-180)||(15063368-15063444)


Alignment Details
Target: chr1 (Bit Score: 181; Significance: 6e-98; HSPs: 7)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 181; E-Value: 6e-98
Query Start/End: Original strand, 1 - 237
Target Start/End: Complemental strand, 49683340 - 49683104
Alignment:
Q  1 catcatgctatagctgtagacatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgcca 100  Q
    |||||| | ||| ||||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||||||||||||| |||||||| |||    
T  49683340 catcattccataactgtagacatctgatttgtgtgacaccccaccaaaatgtctagagaacagctctggagcaatatatcctggtgtcccccttgcacca 49683241  T
Q  101 aatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggtt 200  Q
    ||||| |||||||| ||||||||||||||||||||||||||||||||||||||||||||||| || || ||||| || ||||||||||||||||||||||    
T  49683240 aatattgatacaatgctttcttttcttggacatattttagcaagtccaaaatctgaaatttttggacacaaatcatcgtcaagtaatatattatgaggtt 49683141  T
Q  201 ttatgtcaaaatgtaagattctagtgttgcagcctct 237  Q
    |||||||||||||||||||||||||||||||||||||    
T  49683140 ttatgtcaaaatgtaagattctagtgttgcagcctct 49683104  T

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

Target: chr1; HSP #2
Raw Score: 165; E-Value: 2e-88
Query Start/End: Original strand, 14 - 237
Target Start/End: Complemental strand, 49710937 - 49710713
Alignment:
Q  14 ctgtagacatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgccaaatatggatacaa 113  Q
    |||||||||||||| |||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||||||    
T  49710937 ctgtagacatctgacttatgtgacaccccaccaaaatttctagagaacaactctggagcaatatatcctggtgttccccttgcaccaaatattgatacaa 49710838  T
Q  114 tactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaa-tcctcatcaagtaatatattatgaggttttatgtcaaaat 212  Q
    | |||||||||||| |||||||||||||||||||||||||||||||||| || || ||| |  ||||| |||||||||||||||||||||||||||||||    
T  49710837 tgctttcttttcttagacatattttagcaagtccaaaatctgaaatttttggacaaaaattaatcatctagtaatatattatgaggttttatgtcaaaat 49710738  T
Q  213 gtaagattctagtgttgcagcctct 237  Q
    | |||||||||||||||||||||||    
T  49710737 gcaagattctagtgttgcagcctct 49710713  T

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

Target: chr1; HSP #3
Raw Score: 162; E-Value: 1e-86
Query Start/End: Original strand, 1 - 237
Target Start/End: Complemental strand, 49688244 - 49688010
Alignment:
Q  1 catcatgctatagctgtagacatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgcca 100  Q
    |||||| | ||| |||||||||||||||||||| |||||||||||||||| ||  ||||||||||||||||||||||  ||||| ||||||||||| |||    
T  49688244 catcattccataactgtagacatctgatttatgggacaccccaccaaaatttcgggagaacaactctggagcaatat--cctggcgttccccttgcacca 49688147  T
Q  101 aatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggtt 200  Q
    |||||||||||||| |||||||||||  ||||||||||||||||||||||||| ||| |||| |||||||||| ||||||||||||||||||||||||||    
T  49688146 aatatggatacaatgctttcttttctcagacatattttagcaagtccaaaatcagaattttttgggcagaaattctcatcaagtaatatattatgaggtt 49688047  T
Q  201 ttatgtcaaaatgtaagattctagtgttgcagcctct 237  Q
    |||||||||||||||||||||||||||||||||||||    
T  49688046 ttatgtcaaaatgtaagattctagtgttgcagcctct 49688010  T

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

Target: chr1; HSP #4
Raw Score: 158; E-Value: 3e-84
Query Start/End: Original strand, 20 - 237
Target Start/End: Complemental strand, 49215593 - 49215376
Alignment:
Q  20 acatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgccaaatatggatacaatacttt 119  Q
    ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||| ||||||||||||| |||| |||||||||    
T  49215593 acatctgatttatgtgacaccccaccaaaatgtctggagaacaactctggagcaatatatcctggcgttcctcttgcgccaaatacggatgcaatacttt 49215494  T
Q  120 cttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggttttatgtcaaaatgtaagat 219  Q
    |||||||||| |||||||||||||||||||||||||||||||| || || ||||| ||| | |||||||||||||||||| ||||||||||||| |||||    
T  49215493 cttttcttgggcatattttagcaagtccaaaatctgaaattttcggacaaaaatcatcagctagtaatatattatgaggtcttatgtcaaaatgcaagat 49215394  T
Q  220 tctagtgttgcagcctct 237  Q
    ||||||||| ||||||||    
T  49215393 tctagtgttacagcctct 49215376  T

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

Target: chr1; HSP #5
Raw Score: 154; E-Value: 8e-82
Query Start/End: Original strand, 20 - 237
Target Start/End: Complemental strand, 49714571 - 49714355
Alignment:
Q  20 acatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgccaaatatggatacaatacttt 119  Q
    |||||||||||||||||||||||  |||||| ||| |||||||||||||||||||||||||||||||||||||  ||  |||||||||||||||| ||||    
T  49714571 acatctgatttatgtgacaccccgtcaaaatttctggagaacaactctggagcaatatatcctggtgttccccc-gcaacaaatatggatacaatgcttt 49714473  T
Q  120 cttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggttttatgtcaaaatgtaagat 219  Q
    ||||||||||||||| |||||||||||| ||||||||||||||||| |||||||| |||||||||||||||||||||||||| |||||||||||||||||    
T  49714472 cttttcttggacatactttagcaagtccgaaatctgaaattttaggacagaaatcttcatcaagtaatatattatgaggtttaatgtcaaaatgtaagat 49714373  T
Q  220 tctagtgttgcagcctct 237  Q
    ||||||||| ||||||||    
T  49714372 tctagtgttacagcctct 49714355  T

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

Target: chr1; HSP #6
Raw Score: 76; E-Value: 3e-35
Query Start/End: Original strand, 20 - 231
Target Start/End: Complemental strand, 49728769 - 49728558
Alignment:
Q  20 acatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgccaaatatggatacaatacttt 119  Q
    ||||| ||||| || || || |||||||||| |||||||||||  ||||||||||| |||||||  || || || || || |||| |||||  |||||||    
T  49728769 acatcagatttgtgagagacgccaccaaaatttctagagaacacttctggagcaatgtatcctgcagtacctctagcacctaataaggatatgatacttt 49728670  T
Q  120 cttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggttttatgtcaaaatgtaagat 219  Q
    ||||||||||||||| ||| |||||||||||||| ||||  ||||| || ||||| || || || |||||||||||||||||||| ||||||||||| ||    
T  49728669 cttttcttggacatacttttgcaagtccaaaatccgaaaccttaggacaaaaatcatcgtctagcaatatattatgaggttttatatcaaaatgtaaaat 49728570  T
Q  220 tctagtgttgca 231  Q
    | |||| |||||    
T  49728569 tttagtattgca 49728558  T

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

Target: chr1; HSP #7
Raw Score: 71; E-Value: 3e-32
Query Start/End: Original strand, 1 - 235
Target Start/End: Complemental strand, 49725366 - 49725132
Alignment:
Q  1 catcatgctatagctgtagacatctgatttatgtgacaccccaccaaaatgtctagagaacaactctggagcaatatatcctggtgttccccttgcgcca 100  Q
    |||||| | ||| ||||| |||||||| |||||||||||  |||||||||  ||||| || | ||| || |||||||| ||||  ||||| || || |||    
T  49725366 catcattccataactgtaaacatctgacttatgtgacactgcaccaaaattcctagaaaatacctcgggggcaatatagcctgccgttcctctcgcacca 49725267  T
Q  101 aatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggtt 200  Q
    ||||| ||||| ||||||||||||||||  || ||||| |||||||||||||| |||||| | |||  ||||| |||||| |  |  || ||||||||||    
T  49725266 aatattgataccatactttcttttcttgtgcaaatttttgcaagtccaaaatccgaaattctggggttgaaattctcatccaaaagaatgttatgaggtt 49725167  T
Q  201 ttatgtcaaaatgtaagattctagtgttgcagcct 235  Q
    ||||||||||||| || |||||||| |||||||||    
T  49725166 ttatgtcaaaatgcaaaattctagtattgcagcct 49725132  T

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

Target: chr6 (Bit Score: 36; Significance: 0.00000000002; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 119 - 222
Target Start/End: Original strand, 31189573 - 31189676
Alignment:
Q  119 tcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggttttatgtcaaaatgtaaga 218  Q
    |||||| ||||||| | ||| ||||||||||||||||||||||| || || |||| |||||| |  |  || ||||| ||||||||||| |||||||| |    
T  31189573 tctttttttggacagagttttgcaagtccaaaatctgaaatttttggacataaattctcatctaaaagaatgttatgtggttttatgtcgaaatgtaaaa 31189672  T
Q  219 ttct 222  Q
    ||||    
T  31189673 ttct 31189676  T

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

Target: chr6; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 125 - 226
Target Start/End: Original strand, 31201386 - 31201487
Alignment:
Q  125 cttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggttttatgtcaaaatgtaagattctag 224  Q
    |||||||| | ||| |||||||||||||||||||| || || || |||| |||||| |  |  |||||||| ||||||||||| |||||||| |||| ||    
T  31201386 cttggacaaagttttgcaagtccaaaatctgaaatctttggacaaaaattctcatctaaaagaatattatgtggttttatgtcgaaatgtaaaattcgag 31201485  T
Q  225 tg 226  Q
    ||    
T  31201486 tg 31201487  T

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

Target: chr6; HSP #3
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 140 - 221
Target Start/End: Complemental strand, 31214286 - 31214205
Alignment:
Q  140 gcaagtccaaaatctgaaattttagggcagaaatcctcatcaagtaatatattatgaggttttatgtcaaaatgtaagattc 221  Q
    ||||||||||||||||| || || || || ||||  ||||| | ||| |||||||| |||||||| ||||||||||| ||||    
T  31214286 gcaagtccaaaatctgatatctttggacaaaaattttcatctaataaaatattatgtggttttatatcaaaatgtaaaattc 31214205  T

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

Target: chr7 (Bit Score: 35; Significance: 0.00000000009; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 35; E-Value: 0.00000000009
Query Start/End: Original strand, 86 - 180
Target Start/End: Complemental strand, 31572938 - 31572844
Alignment:
Q  86 gttccccttgcgccaaatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatc 180  Q
    |||||||||| ||||| |||||| |||||||| || || ||| | ||||||| ||| ||||||||||| || ||||| ||||| ||||| |||||    
T  31572938 gttccccttgtgccaagtatggacacaatactatccttcctttggcatatttgagctagtccaaaatcagagatttttgggcaaaaatcttcatc 31572844  T

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

Target: chr7; HSP #2
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 98 - 174
Target Start/End: Complemental strand, 33305235 - 33305159
Alignment:
Q  98 ccaaatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatc 174  Q
    |||| |||||||||||| || || || ||| ||||||||| ||| |||||||||||||| ||||| ||||| |||||    
T  33305235 ccaagtatggatacaatgctatccttcctttgacatatttgagctagtccaaaatctgagatttttgggcaaaaatc 33305159  T

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

Target: chr7; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 86 - 180
Target Start/End: Original strand, 31618400 - 31618494
Alignment:
Q  86 gttccccttgcgccaaatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatc 180  Q
    ||||| ||||| || ||||| || |||||||| || || ||| | ||||||||||| |||||||||||||| ||||| || || ||||| |||||    
T  31618400 gttcctcttgcccctaatattgacacaatactatccttcctttggcatattttagctagtccaaaatctgagatttttggacaaaaatcttcatc 31618494  T

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

Target: chr7; HSP #4
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 101 - 162
Target Start/End: Original strand, 31608405 - 31608466
Alignment:
Q  101 aatatggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaatttt 162  Q
    ||||| || |||||||| || || ||| ||||||||||||||||||||||||| || |||||    
T  31608405 aatattgacacaatactgtccttcctttgacatattttagcaagtccaaaatcagatatttt 31608466  T

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

Target: scaffold0394 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: scaffold0394
Description:

Target: scaffold0394; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 104 - 180
Target Start/End: Original strand, 2090 - 2166
Alignment:
Q  104 atggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatc 180  Q
    ||||| |||| ||| |||||  || |||||||||||||||| |||||||| || ||||| ||||| ||||| |||||    
T  2090 atggacacaacactctctttcttttgacatattttagcaagaccaaaatcagatatttttgggcaaaaatcttcatc 2166  T

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

Target: chr4 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 104 - 180
Target Start/End: Complemental strand, 15063444 - 15063368
Alignment:
Q  104 atggatacaatactttcttttcttggacatattttagcaagtccaaaatctgaaattttagggcagaaatcctcatc 180  Q
    ||||| |||| ||| |||||  || |||||||||||||||| |||||||| || ||||| ||||| ||||| |||||    
T  15063444 atggacacaacactctctttcttttgacatattttagcaagaccaaaatcagatatttttgggcaaaaatcttcatc 15063368  T

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



© Oklahoma State University