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: NF9549_low_14 (Length: 350)

Name: NF9549_low_14
Description: NF9549
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9549_low_14
NF9549_low_14
[»] chr5 (3 HSPs)
chr5 (135-289)||(36560704-36560858)
chr5 (192-281)||(9991881-9991971)
chr5 (286-326)||(9991665-9991705)
[»] chr3 (2 HSPs)
chr3 (162-291)||(36432590-36432719)
chr3 (288-326)||(36433082-36433120)
[»] chr6 (3 HSPs)
chr6 (135-285)||(33582724-33582876)
chr6 (17-128)||(6622902-6623014)
chr6 (286-326)||(33582515-33582555)
[»] chr7 (5 HSPs)
chr7 (233-289)||(28755919-28755975)
chr7 (134-237)||(47535402-47535505)
chr7 (233-289)||(28755651-28755707)
chr7 (180-281)||(37127117-37127218)
chr7 (286-326)||(28756142-28756182)
[»] scaffold0006 (2 HSPs)
scaffold0006 (134-261)||(148081-148213)
scaffold0006 (286-331)||(148340-148385)
[»] chr2 (2 HSPs)
chr2 (169-285)||(32983466-32983574)
chr2 (178-237)||(24489510-24489569)
[»] chr1 (3 HSPs)
chr1 (134-261)||(13658320-13658452)
chr1 (286-331)||(13658579-13658624)
chr1 (135-237)||(42138592-42138694)
[»] scaffold0014 (2 HSPs)
scaffold0014 (89-135)||(90629-90675)
scaffold0014 (17-45)||(90600-90628)


Alignment Details
Target: chr5 (Bit Score: 98; Significance: 3e-48; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 98; E-Value: 3e-48
Query Start/End: Original strand, 135 - 289
Target Start/End: Complemental strand, 36560858 - 36560704
Alignment:
Q  135 cagtggcggatcttgatttannnnnnngggggtgccaaacagttatggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttggt 234  Q
    ||||||||||||||||||||        ||||| ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||| | ||    
T  36560858 cagtggcggatcttgatttattttcttaggggtaccaaacagttatggaatatatattaaaatgattcaaataatagcaatagaagtcaagtgctctagt 36560759  T
Q  235 ggtatgtattgctgcaaacatacctggttgatgcaggtttgagtcccatgtggga 289  Q
    ||||||||||||| |||| ||||||||||| ||||||||||||| ||||||||||    
T  36560758 ggtatgtattgcttcaaaaatacctggttggtgcaggtttgagtgccatgtggga 36560704  T

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

Target: chr5; HSP #2
Raw Score: 39; E-Value: 0.0000000000005
Query Start/End: Original strand, 192 - 281
Target Start/End: Complemental strand, 9991971 - 9991881
Alignment:
Q  192 taaaatgattcaaataatagcaatagaagtcaagtgctttggtggtatgtattgctgcaaacatacct-ggttgatgcaggtttgagtccc 281  Q
    ||||||||||||||||||||| | |||||| ||||||| ||||||| |||||| | | |||||||| | || || ||||||||||||||||    
T  9991971 taaaatgattcaaataatagctaaagaagttaagtgctctggtggtttgtattcccgtaaacatacttgggctggtgcaggtttgagtccc 9991881  T

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

Target: chr5; HSP #3
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 286 - 326
Target Start/End: Complemental strand, 9991705 - 9991665
Alignment:
Q  286 gggatgccatggcacctgcttgcccttgagaagatccgccc 326  Q
    ||||||||||||||| ||| |||||| ||||||||||||||    
T  9991705 gggatgccatggcacttgcctgccctagagaagatccgccc 9991665  T

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

Target: chr3 (Bit Score: 90; Significance: 2e-43; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 90; E-Value: 2e-43
Query Start/End: Original strand, 162 - 291
Target Start/End: Original strand, 36432590 - 36432719
Alignment:
Q  162 gggggtgccaaacagttatggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttggtggtatgtattgctgcaaacatacctgg 261  Q
    |||||| ||||||||||||| | |||||||||||||||||||||  ||| |||||||||||||||||| || |||||||||||||||||||||||| |||    
T  36432590 gggggtaccaaacagttatgaaatatatattaaaatgattcaaagtataccaatagaagtcaagtgctatgctggtatgtattgctgcaaacatacatgg 36432689  T
Q  262 ttgatgcaggtttgagtcccatgtgggatg 291  Q
    ||| ||||||||||||||||||||||||||    
T  36432690 ttggtgcaggtttgagtcccatgtgggatg 36432719  T

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

Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 288 - 326
Target Start/End: Original strand, 36433082 - 36433120
Alignment:
Q  288 gatgccatggcacctgcttgcccttgagaagatccgccc 326  Q
    ||||||||||||||||| |||||||||||||||| ||||    
T  36433082 gatgccatggcacctgcctgcccttgagaagatctgccc 36433120  T

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

Target: chr6 (Bit Score: 85; Significance: 2e-40; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 85; E-Value: 2e-40
Query Start/End: Original strand, 135 - 285
Target Start/End: Complemental strand, 33582876 - 33582724
Alignment:
Q  135 cagtggcggatcttgatttannnnnnngggggtgccaaacagttatggagtatatat--taaaatgattcaaataatagcaatagaagtcaagtgctttg 232  Q
    ||||||||||||||||||||       |||||||||||||||||||||| |||||||  |||||||||||||  ||||||||||||| ||||||||| ||    
T  33582876 cagtggcggatcttgatttatttttttgggggtgccaaacagttatggaatatatatattaaaatgattcaacaaatagcaatagaactcaagtgctatg 33582777  T
Q  233 gtggtatgtattgctgcaaacatacctggttgatgcaggtttgagtcccatgt 285  Q
    |||||||||||||||||||| | |||||| || ||||||||||||||||||||    
T  33582776 gtggtatgtattgctgcaaaaacacctggctgttgcaggtttgagtcccatgt 33582724  T

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

Target: chr6; HSP #2
Raw Score: 69; E-Value: 6e-31
Query Start/End: Original strand, 17 - 128
Target Start/End: Complemental strand, 6623014 - 6622902
Alignment:
Q  17 gatttcaggttcacaagctatcaagcaaccaagtttcacgcgtgaaaatacggtttggaa-tgtctaacatttggagaagttgccacagtactacgctac 115  Q
    ||||||||||||| ||||| |||||||||||||||  | || |||||||||||||||||| |||||||||||||||||||||||   |||||||||||||    
T  6623014 gatttcaggttcagaagctttcaagcaaccaagttctaagcttgaaaatacggtttggaaatgtctaacatttggagaagttgctgtagtactacgctac 6622915  T
Q  116 ttctgtgatgttt 128  Q
    |||||||||||||    
T  6622914 ttctgtgatgttt 6622902  T

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

Target: chr6; HSP #3
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 286 - 326
Target Start/End: Complemental strand, 33582555 - 33582515
Alignment:
Q  286 gggatgccatggcacctgcttgcccttgagaagatccgccc 326  Q
    ||||||||||||||||||| |||||||||||||||||||||    
T  33582555 gggatgccatggcacctgcctgcccttgagaagatccgccc 33582515  T

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

Target: chr7 (Bit Score: 49; Significance: 6e-19; HSPs: 5)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 49; E-Value: 6e-19
Query Start/End: Original strand, 233 - 289
Target Start/End: Original strand, 28755919 - 28755975
Alignment:
Q  233 gtggtatgtattgctgcaaacatacctggttgatgcaggtttgagtcccatgtggga 289  Q
    ||||||||||||||||||||||| |||||||| ||||||||||||||||||||||||    
T  28755919 gtggtatgtattgctgcaaacatgcctggttggtgcaggtttgagtcccatgtggga 28755975  T

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

Target: chr7; HSP #2
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 134 - 237
Target Start/End: Complemental strand, 47535505 - 47535402
Alignment:
Q  134 tcagtggcggatcttgatttannnnnnngggggtgccaaacagttatggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttgg 233  Q
    ||||||||||||||||| |||       |||||| || |||  ||||||| |||||||||||||||||||||||||||||| | |||| |||||||||||    
T  47535505 tcagtggcggatcttgacttattttcttgggggtaccgaactattatggaatatatattaaaatgattcaaataatagcaaaataagttaagtgctttgg 47535406  T
Q  234 tggt 237  Q
    ||||    
T  47535405 tggt 47535402  T

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

Target: chr7; HSP #3
Raw Score: 45; E-Value: 1e-16
Query Start/End: Original strand, 233 - 289
Target Start/End: Original strand, 28755651 - 28755707
Alignment:
Q  233 gtggtatgtattgctgcaaacatacctggttgatgcaggtttgagtcccatgtggga 289  Q
    |||||||||||||||||||||||  ||||||| ||||||||||||||||||||||||    
T  28755651 gtggtatgtattgctgcaaacatgtctggttggtgcaggtttgagtcccatgtggga 28755707  T

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

Target: chr7; HSP #4
Raw Score: 42; E-Value: 0.000000000000008
Query Start/End: Original strand, 180 - 281
Target Start/End: Original strand, 37127117 - 37127218
Alignment:
Q  180 tggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttggtggtatgtattgctgcaaacatacctggttgatgcaggtttgagtc 279  Q
    |||| |||||||||||||||||||  ||||||||| |||||| ||||||| ||||||| ||  |||||| ||||||   | |||| ||||||||||||||    
T  37127117 tggaatatatattaaaatgattcatttaatagcaaaagaagttaagtgctctggtggtctgatttgctgtaaacatgtgtcgttggtgcaggtttgagtc 37127216  T
Q  280 cc 281  Q
    ||    
T  37127217 cc 37127218  T

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

Target: chr7; HSP #5
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 286 - 326
Target Start/End: Original strand, 28756142 - 28756182
Alignment:
Q  286 gggatgccatggcacctgcttgcccttgagaagatccgccc 326  Q
    ||||||||||||||||||| ||||||| |||||||| ||||    
T  28756142 gggatgccatggcacctgcctgccctttagaagatcagccc 28756182  T

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

Target: scaffold0006 (Bit Score: 48; Significance: 2e-18; HSPs: 2)
Name: scaffold0006
Description:

Target: scaffold0006; HSP #1
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 134 - 261
Target Start/End: Original strand, 148081 - 148213
Alignment:
Q  134 tcagtggcggatcttgatttannnnnnngggggtgccaaacagttatggagta-----tatattaaaatgattcaaataatagcaatagaagtcaagtgc 228  Q
    |||||||||||| ||||||||       |||||| ||||||||||||||| ||     ||||||||||||||||||  ||||||| ||||| |||||||     
T  148081 tcagtggcggatgttgatttattttcttgggggtaccaaacagttatggaatatatattatattaaaatgattcaataaatagcagtagaactcaagtgt 148180  T
Q  229 tttggtggtatgtattgctgcaaacatacctgg 261  Q
    | ||||||| |||||||| ||||||||||||||    
T  148181 tctggtggtttgtattgccgcaaacatacctgg 148213  T

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

Target: scaffold0006; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 286 - 331
Target Start/End: Original strand, 148340 - 148385
Alignment:
Q  286 gggatgccatggcacctgcttgcccttgagaagatccgcccttgtt 331  Q
    ||||||||||||||||||| ||||||||||||||||||||| ||||    
T  148340 gggatgccatggcacctgcctgcccttgagaagatccgcccctgtt 148385  T

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

Target: chr2 (Bit Score: 48; Significance: 2e-18; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 169 - 285
Target Start/End: Original strand, 32983466 - 32983574
Alignment:
Q  169 ccaaacagttatggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttggtggtatgtattgctgcaaacatacctggttgatgc 268  Q
    ||||||||||||| | ||||||||||||||||||||  ||||||| ||||| ||||||||        ||||||||||||||||||||||||| || |||    
T  32983466 ccaaacagttatgaaatatatattaaaatgattcaacaaatagcagtagaactcaagtgc--------tatgtattgctgcaaacatacctggctggtgc 32983557  T
Q  269 aggtttgagtcccatgt 285  Q
    |||||  ||||||||||    
T  32983558 aggttcaagtcccatgt 32983574  T

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

Target: chr2; HSP #2
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 178 - 237
Target Start/End: Complemental strand, 24489569 - 24489510
Alignment:
Q  178 tatggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttggtggt 237  Q
    |||||| |||||||||||||||||||| ||| | ||| |||||| |||||||||||||||    
T  24489569 tatggaatatatattaaaatgattcaagtaacaacaaaagaagttaagtgctttggtggt 24489510  T

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

Target: chr1 (Bit Score: 48; Significance: 2e-18; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 134 - 261
Target Start/End: Original strand, 13658320 - 13658452
Alignment:
Q  134 tcagtggcggatcttgatttannnnnnngggggtgccaaacagttatggagta-----tatattaaaatgattcaaataatagcaatagaagtcaagtgc 228  Q
    |||||||||||| ||||||||       |||||| ||||||||||||||| ||     ||||||||||||||||||  ||||||| ||||| |||||||     
T  13658320 tcagtggcggatgttgatttattttcttgggggtaccaaacagttatggaatatatattatattaaaatgattcaataaatagcagtagaactcaagtgt 13658419  T
Q  229 tttggtggtatgtattgctgcaaacatacctgg 261  Q
    | ||||||| |||||||| ||||||||||||||    
T  13658420 tctggtggtttgtattgccgcaaacatacctgg 13658452  T

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

Target: chr1; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 286 - 331
Target Start/End: Original strand, 13658579 - 13658624
Alignment:
Q  286 gggatgccatggcacctgcttgcccttgagaagatccgcccttgtt 331  Q
    ||||||||||||||||||| ||||||||||||||||||||| ||||    
T  13658579 gggatgccatggcacctgcctgcccttgagaagatccgcccctgtt 13658624  T

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

Target: chr1; HSP #3
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 135 - 237
Target Start/End: Original strand, 42138592 - 42138694
Alignment:
Q  135 cagtggcggatcttgatttannnnnnngggggtgccaaacagttatggagtatatattaaaatgattcaaataatagcaatagaagtcaagtgctttggt 234  Q
    ||||||||||||||||||||       ||||||  |||||  ||||||| ||||||||||||||||| |  | ||||||| | |||| ||||||||||||    
T  42138592 cagtggcggatcttgatttattttcttgggggtatcaaactattatggaatatatattaaaatgattaaggtgatagcaaaacaagttaagtgctttggt 42138691  T
Q  235 ggt 237  Q
    |||    
T  42138692 ggt 42138694  T

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

Target: scaffold0014 (Bit Score: 47; Significance: 9e-18; HSPs: 2)
Name: scaffold0014
Description:

Target: scaffold0014; HSP #1
Raw Score: 47; E-Value: 9e-18
Query Start/End: Original strand, 89 - 135
Target Start/End: Original strand, 90629 - 90675
Alignment:
Q  89 ggagaagttgccacagtactacgctacttctgtgatgtttcacagtc 135  Q
    |||||||||||||||||||||||||||||||||||||||||||||||    
T  90629 ggagaagttgccacagtactacgctacttctgtgatgtttcacagtc 90675  T

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

Target: scaffold0014; HSP #2
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 17 - 45
Target Start/End: Original strand, 90600 - 90628
Alignment:
Q  17 gatttcaggttcacaagctatcaagcaac 45  Q
    |||||||||||||||||||||||||||||    
T  90600 gatttcaggttcacaagctatcaagcaac 90628  T

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



© Oklahoma State University