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: NF16408_low_5 (Length: 431)

Name: NF16408_low_5
Description: NF16408
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF16408_low_5
NF16408_low_5
[»] chr4 (12 HSPs)
chr4 (159-336)||(21228389-21228566)
chr4 (21-148)||(7885275-7885402)
chr4 (335-423)||(21228591-21228679)
chr4 (187-336)||(7884922-7885071)
chr4 (23-126)||(4320525-4320628)
chr4 (23-109)||(6753032-6753118)
chr4 (23-108)||(6651139-6651224)
chr4 (23-102)||(4123869-4123948)
chr4 (20-126)||(4344715-4344821)
chr4 (23-109)||(6545371-6545457)
chr4 (54-109)||(6758827-6758882)
chr4 (20-126)||(4361146-4361252)
[»] chr7 (3 HSPs)
chr7 (37-148)||(18935472-18935583)
chr7 (44-148)||(34724470-34724574)
chr7 (250-336)||(34724090-34724176)
[»] chr6 (6 HSPs)
chr6 (20-102)||(5344930-5345012)
chr6 (20-100)||(5102546-5102626)
chr6 (37-108)||(5243837-5243908)
chr6 (41-126)||(5096798-5096883)
chr6 (37-102)||(5073838-5073903)
chr6 (62-102)||(5354544-5354584)
[»] scaffold0813 (1 HSPs)
scaffold0813 (23-108)||(4750-4835)
[»] chr8 (1 HSPs)
chr8 (18-102)||(31175914-31175998)
[»] chr5 (3 HSPs)
chr5 (48-103)||(8877706-8877761)
chr5 (18-102)||(20812344-20812428)
chr5 (18-102)||(20838699-20838783)
[»] chr3 (1 HSPs)
chr3 (38-102)||(32411133-32411197)


Alignment Details
Target: chr4 (Bit Score: 166; Significance: 1e-88; HSPs: 12)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 166; E-Value: 1e-88
Query Start/End: Original strand, 159 - 336
Target Start/End: Original strand, 21228389 - 21228566
Alignment:
Q  159 ctcaattgaatcaaactgtggcaagtatttgtgagggattctcaaatatcgggacttcgacatcaattgattgtcacagtcaagtttgtatttcaagctc 258  Q
    ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||    
T  21228389 ctcaattgaatcaaactgtagcaagtatttgtgagggattctcaaatatcgggacttggacatcaattgattgtcacagtcaagtttgtatttcaagctc 21228488  T
Q  259 aaaaagttccttgacatcccttttgattcaagtgggaatgagctgcgatgtcaccaacattcttacagaaaatatttt 336  Q
    ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||    
T  21228489 aaaaagttccttgacatcccttttgattcaaatgggaatgagctgcgatgtcaccaacattcttacagaaaatatttt 21228566  T

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

Target: chr4; HSP #2
Raw Score: 84; E-Value: 9e-40
Query Start/End: Original strand, 21 - 148
Target Start/End: Complemental strand, 7885402 - 7885275
Alignment:
Q  21 acactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttcc 120  Q
    ||||||||||||||  ||||||||||||| ||||||||| |||||||||||||| ||||||||| ||||| ||| |||||| ||||||||||||||||||    
T  7885402 acactgctatcacaagagtgccctttgcagtagtaagatcaaaaagcattgcatttatttctctatgtggttataaaggatctgcacgtagagtgtttcc 7885303  T
Q  121 ttctattattcagtctttgttgtctcca 148  Q
    ||||||||||||||||| | ||||||||    
T  7885302 ttctattattcagtcttggctgtctcca 7885275  T

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

Target: chr4; HSP #3
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 335 - 423
Target Start/End: Original strand, 21228591 - 21228679
Alignment:
Q  335 ttacatgtccaaacacaaacctctctatgtttgtttgtttatatatcaaacatctattgttaaaatcaagtaatctgataaagtattat 423  Q
    |||| |||||||||||||||||| ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||    
T  21228591 ttacttgtccaaacacaaacctcactatgtttgtttgtttatatatcaaacatctatagttaaaatcaagtaatctgataaagtattat 21228679  T

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

Target: chr4; HSP #4
Raw Score: 62; E-Value: 1e-26
Query Start/End: Original strand, 187 - 336
Target Start/End: Complemental strand, 7885071 - 7884922
Alignment:
Q  187 ttgtgagggattctcaaatatcgggacttcgacatcaattgattgtcacagtcaagtttgtatttcaagctcaaaaagttccttgacatcccttttgatt 286  Q
    ||||||||||||||||||||| | ||||||  |||||| |  | ||| || ||||||||||||||| |||||||||| |||  | || ||||||||||||    
T  7885071 ttgtgagggattctcaaatattgagacttcagcatcaaattttcgtcgcactcaagtttgtatttccagctcaaaaaattcagtaacttcccttttgatt 7884972  T
Q  287 caagtgggaatgagctgcgatgtcaccaacattcttacagaaaatatttt 336  Q
     || ||||| |||||||||||||| | |||||||||| ||||||||||||    
T  7884971 gaaatgggagtgagctgcgatgtcgcaaacattcttagagaaaatatttt 7884922  T

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

Target: chr4; HSP #5
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 23 - 126
Target Start/End: Complemental strand, 4320628 - 4320525
Alignment:
Q  23 actgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttcctt 122  Q
    |||| ||| ||| |||| |||||| |||||||||| | ||||||||||| || ||||||||| ||||| |||||||||||  |||||   ||||||||||    
T  4320628 actggtataacaaaagttcccttttcattagtaaggtcaaaaagcattggatttatttctctgtgtggatatgaaggattctcacgtgatgtgtttcctt 4320529  T
Q  123 ctat 126  Q
    ||||    
T  4320528 ctat 4320525  T

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

Target: chr4; HSP #6
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 23 - 109
Target Start/End: Original strand, 6753032 - 6753118
Alignment:
Q  23 actgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgt 109  Q
    |||||||| ||| ||||||||||| || |||||||||  |||||||||| |||||||||| |  |||||| |||||||||| |||||    
T  6753032 actgctataacaaaagtgcccttttcaatagtaagattgaaaagcattggatatatttcttttcgtggctttgaaggattttcacgt 6753118  T

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

Target: chr4; HSP #7
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 23 - 108
Target Start/End: Original strand, 6651139 - 6651224
Alignment:
Q  23 actgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacg 108  Q
    |||||||| ||| ||||||| ||| || ||||||||| || || ||||| |||||||||||| ||||||| |||||||||| ||||    
T  6651139 actgctataacaaaagtgccgttttcaatagtaagattaagaaacattggatatatttctctatgtggctttgaaggattttcacg 6651224  T

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

Target: chr4; HSP #8
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 23 - 102
Target Start/End: Complemental strand, 4123948 - 4123869
Alignment:
Q  23 actgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||||||| ||| ||||||||||| |  ||||||| | ||||||||||| || ||||||||| ||||| |||||||||||    
T  4123948 actgctataacaaaagtgcccttttcggtagtaaggtcaaaaagcattggatttatttctctgtgtggatatgaaggatt 4123869  T

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

Target: chr4; HSP #9
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 20 - 126
Target Start/End: Original strand, 4344715 - 4344821
Alignment:
Q  20 aacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttc 119  Q
    ||||||||||| ||| |||| |||||| || ||||||| | |||| |||||| || ||||||| | ||||| |||||||||||  |||||   |||||||    
T  4344715 aacactgctataacaaaagtacccttttcagtagtaaggtcaaaacgcattggatttatttctttgtgtggatatgaaggattctcacgtgatgtgtttc 4344814  T
Q  120 cttctat 126  Q
    |||||||    
T  4344815 cttctat 4344821  T

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

Target: chr4; HSP #10
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 23 - 109
Target Start/End: Complemental strand, 6545457 - 6545371
Alignment:
Q  23 actgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgt 109  Q
    |||||||| ||| ||||||||||| || |||| ||||  |||||||||| |||||||||| |  |||||| |||||||||| |||||    
T  6545457 actgctataacaaaagtgcccttttcaatagttagattgaaaagcattggatatatttcttttcgtggctttgaaggattttcacgt 6545371  T

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

Target: chr4; HSP #11
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 54 - 109
Target Start/End: Original strand, 6758827 - 6758882
Alignment:
Q  54 taagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgt 109  Q
    |||||| ||||||||||  || ||||||||| ||||||| ||||||||||||||||    
T  6758827 taagattaaaaagcattagatttatttctctgtgtggctttgaaggatttgcacgt 6758882  T

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

Target: chr4; HSP #12
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 20 - 126
Target Start/End: Original strand, 4361146 - 4361252
Alignment:
Q  20 aacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttc 119  Q
    ||||||| ||| ||| |||| |||||| || | ||||||| |||| |||||| || ||||||| | ||||| |||||||||||  |||||   |||||||    
T  4361146 aacactggtataacaaaagtacccttttcaattgtaagatcaaaacgcattggatttatttctttgtgtggatatgaaggattctcacgtgatgtgtttc 4361245  T
Q  120 cttctat 126  Q
    |||||||    
T  4361246 cttctat 4361252  T

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

Target: chr7 (Bit Score: 56; Significance: 5e-23; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 56; E-Value: 5e-23
Query Start/End: Original strand, 37 - 148
Target Start/End: Original strand, 18935472 - 18935583
Alignment:
Q  37 agtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttccttctattattcagtct 136  Q
    ||||||||||||| ||||||||| ||||||||||| || |||||| || ||||| | ||||||||| |||||||  ||||||||||| ||||||||||||    
T  18935472 agtgccctttgcagtagtaagatcaaaaagcattggatttatttcactgtgtggatttgaaggattagcacgtaatgtgtttccttcaattattcagtct 18935571  T
Q  137 ttgttgtctcca 148  Q
    | | ||||||||    
T  18935572 tggatgtctcca 18935583  T

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

Target: chr7; HSP #2
Raw Score: 49; E-Value: 7e-19
Query Start/End: Original strand, 44 - 148
Target Start/End: Complemental strand, 34724574 - 34724470
Alignment:
Q  44 tttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttccttctattattcagtctttgttgt 143  Q
    |||||| ||||||||| ||||||||||| || |||||| || ||||| | |||||||||||||||||  ||||| ||||| ||||||||||||| | |||    
T  34724574 tttgcagtagtaagatcaaaaagcattggatttatttcactttgtggatttgaaggatttgcacgtaatgtgttcccttcaattattcagtcttggatgt 34724475  T
Q  144 ctcca 148  Q
    |||||    
T  34724474 ctcca 34724470  T

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

Target: chr7; HSP #3
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 250 - 336
Target Start/End: Complemental strand, 34724176 - 34724090
Alignment:
Q  250 ttcaagctcaaaaagttccttgacatcccttttgattcaagtgggaatgagctgcgatgtcaccaacattcttacagaaaatatttt 336  Q
    |||||||||| ||| |||||||||||| ||||| |||||| | ||||||| ||||  |||||| || | ||||| |||||| |||||    
T  34724176 ttcaagctcacaaaattccttgacatcactttttattcaaattggaatgaactgccgtgtcactaatactcttaaagaaaacatttt 34724090  T

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

Target: chr6 (Bit Score: 39; Significance: 0.0000000000006; HSPs: 6)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 20 - 102
Target Start/End: Original strand, 5344930 - 5345012
Alignment:
Q  20 aacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||||||| || ||| |||| ||||||  | ||||||| | ||||||||||| |||||||||||| |||||||||||||||||    
T  5344930 aacactgcaataacaaaagttccctttttagtagtaaggtcaaaaagcattggatatatttctctgtgtggctatgaaggatt 5345012  T

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

Target: chr6; HSP #2
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 20 - 100
Target Start/End: Complemental strand, 5102626 - 5102546
Alignment:
Q  20 aacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaagga 100  Q
    |||||||| || |||  |||||||||| || ||||||| | ||||||||||| |||||| ||||| |||||||||||||||    
T  5102626 aacactgcaataacaacagtgcccttttcagtagtaaggtcaaaaagcattggatatatctctctatgtggctatgaagga 5102546  T

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

Target: chr6; HSP #3
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 37 - 108
Target Start/End: Complemental strand, 5243908 - 5243837
Alignment:
Q  37 agtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacg 108  Q
    |||||||||| || ||||||| | ||||||||| | |||||||||| | |||||||||||||||||| ||||    
T  5243908 agtgcccttttcagtagtaaggtcaaaaagcatcggatatatttctttgtgtggctatgaaggattttcacg 5243837  T

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

Target: chr6; HSP #4
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 41 - 126
Target Start/End: Original strand, 5096798 - 5096883
Alignment:
Q  41 ccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacgtagagtgtttccttctat 126  Q
    |||||| || ||||||| | ||||||||||| ||| |||||||| |||||| ||||||||||| |||||   |||||||| |||||    
T  5096798 cccttttcagtagtaaggtcaaaaagcattggatacatttctctatgtggccatgaaggattttcacgtgatgtgtttccgtctat 5096883  T

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

Target: chr6; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 37 - 102
Target Start/End: Complemental strand, 5073903 - 5073838
Alignment:
Q  37 agtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||||||||| || ||||||| |  |||||||||| |||||||||| | || ||||||||||||||    
T  5073903 agtgcccttttcagtagtaaggtcgaaaagcattggatatatttctttgtgcggctatgaaggatt 5073838  T

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

Target: chr6; HSP #6
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 62 - 102
Target Start/End: Complemental strand, 5354584 - 5354544
Alignment:
Q  62 aaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||||||||| |||||||||| | |||||||||||||||||    
T  5354584 aaaagcattggatatatttctttatgtggctatgaaggatt 5354544  T

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

Target: scaffold0813 (Bit Score: 38; Significance: 0.000000000003; HSPs: 1)
Name: scaffold0813
Description:

Target: scaffold0813; HSP #1
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 23 - 108
Target Start/End: Complemental strand, 4835 - 4750
Alignment:
Q  23 actgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatttgcacg 108  Q
    |||||||| ||| ||||||| ||| || ||||||||| || || ||||| |||||||||||| ||||||| |||||||||| ||||    
T  4835 actgctataacaaaagtgccgttttcaatagtaagattaagaaacattggatatatttctctatgtggctttgaaggattttcacg 4750  T

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

Target: chr8 (Bit Score: 37; Significance: 0.00000000001; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 18 - 102
Target Start/End: Original strand, 31175914 - 31175998
Alignment:
Q  18 caaacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||| |||| ||||| | ||||||||| | || ||| ||||| |||||||||||||||||| ||||| ||||| |||||||||||    
T  31175914 caaatactggtatcaaacaagtgccctattcaatagcaagatcaaaaagcattgcatatatatctctatgtggatatgaaggatt 31175998  T

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

Target: chr5 (Bit Score: 32; Significance: 0.00000001; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 48 - 103
Target Start/End: Original strand, 8877706 - 8877761
Alignment:
Q  48 cattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggattt 103  Q
    |||||||||| | ||||||||||| |||||||||| | || |||||||||||||||    
T  8877706 cattagtaaggtcaaaaagcattggatatatttctttgtgcggctatgaaggattt 8877761  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, 18 - 102
Target Start/End: Original strand, 20812344 - 20812428
Alignment:
Q  18 caaacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||| |||| ||||| | ||||||||| | || ||| ||||| |||||||||||||||||| || || ||||| || ||||||||    
T  20812344 caaatactggtatcaaacaagtgccctattcaatagcaagatcaaaaagcattgcatatatatcactatgtggatacgaaggatt 20812428  T

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

Target: chr5; HSP #3
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 18 - 102
Target Start/End: Original strand, 20838699 - 20838783
Alignment:
Q  18 caaacactgctatcacagaagtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    |||| |||| ||||| | ||||||||| | || ||| ||||| ||||||||||| |||||| || || ||||| |||||||||||    
T  20838699 caaatactggtatcaaacaagtgccctattcaatagcaagatcaaaaagcattggatatatatcactatgtggatatgaaggatt 20838783  T

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

Target: chr3 (Bit Score: 29; Significance: 0.0000006; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 38 - 102
Target Start/End: Complemental strand, 32411197 - 32411133
Alignment:
Q  38 gtgccctttgcattagtaagataaaaaagcattgcatatatttctctctgtggctatgaaggatt 102  Q
    ||||||| | || |||||||||  |||||||| |||||||| ||||| ||||| |||||||||||    
T  32411197 gtgccctgttcaatagtaagatcgaaaagcatcgcatatatatctctatgtggatatgaaggatt 32411133  T

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



© Oklahoma State University