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: NF9889_low_25 (Length: 289)

Name: NF9889_low_25
Description: NF9889
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9889_low_25
NF9889_low_25
[»] chr4 (7 HSPs)
chr4 (9-271)||(26720691-26720953)
chr4 (29-179)||(8541278-8541428)
chr4 (190-267)||(52528719-52528796)
chr4 (96-180)||(37618670-37618754)
chr4 (190-267)||(52525532-52525609)
chr4 (12-66)||(44161950-44162004)
chr4 (94-140)||(44161166-44161212)
[»] chr1 (5 HSPs)
chr1 (9-193)||(45117971-45118155)
chr1 (13-91)||(19769218-19769296)
chr1 (217-271)||(45118144-45118198)
chr1 (96-180)||(6919885-6919971)
chr1 (96-180)||(38239906-38239992)
[»] chr2 (4 HSPs)
chr2 (12-181)||(2985921-2986090)
chr2 (217-271)||(2985839-2985893)
chr2 (9-118)||(10495988-10496097)
chr2 (148-193)||(2985882-2985927)
[»] chr8 (3 HSPs)
chr8 (29-179)||(23820613-23820763)
chr8 (29-179)||(40172843-40172993)
chr8 (190-232)||(13863433-13863475)
[»] chr7 (1 HSPs)
chr7 (190-267)||(37978833-37978910)
[»] scaffold0036 (1 HSPs)
scaffold0036 (13-97)||(98110-98194)
[»] chr3 (2 HSPs)
chr3 (96-158)||(53537276-53537338)
chr3 (107-147)||(53689636-53689676)
[»] scaffold0004 (1 HSPs)
scaffold0004 (13-73)||(246442-246502)
[»] scaffold0275 (1 HSPs)
scaffold0275 (80-150)||(23003-23073)


Alignment Details
Target: chr4 (Bit Score: 239; Significance: 1e-132; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 239; E-Value: 1e-132
Query Start/End: Original strand, 9 - 271
Target Start/End: Complemental strand, 26720953 - 26720691
Alignment:
Q  9 tggtgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtc 108  Q
    |||||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||    
T  26720953 tggtgttggtgttgaatgaacgggaatcaaaagaggcaacgggatgaagagacctagagaggtggtcgcaagagaaaattcactactgacggtggaggtc 26720854  T
Q  109 gagtcgacgaaggcgagggataagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaaagcttcttctccgcttcaattcctccgat 208  Q
    ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||    
T  26720853 gagtcgacgaaggcgagggataagaggagaaatacaactgtgaaagtagagaagacatggaagagagtgaaagcttcttctccgcttcaattcctccgat 26720754  T
Q  209 gcttcttccttcttctccgcctccacatctgtctccacctccgcaatgttcagaagatcagaa 271  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||    
T  26720753 gcttcttccttcttctccgcctccacatctgtctccacctccgcaatgttcaaaagatcagaa 26720691  T

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

Target: chr4; HSP #2
Raw Score: 75; E-Value: 1e-34
Query Start/End: Original strand, 29 - 179
Target Start/End: Complemental strand, 8541428 - 8541278
Alignment:
Q  29 cgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtcgagtcgacgaaggcgaggga 128  Q
    |||||| || |||||||||| ||| | ||||| |||||||||||| |||| |||||||| |||  ||||||||||||||||||||||||| |||||  ||    
T  8541428 cgggaaacggaagaggcaactggacggagagagctagagaggaggccgcaggagaaaatccaccgctgacggtggaggtcgagtcgacgacggcgaaaga 8541329  T
Q  129 taagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaa 179  Q
    | ||| ||||||||||||||||||||| || ||||||| ||||||||||||    
T  8541328 tgagaagagaaatacgactgtgaaagtggaaaagacatggaagagagtgaa 8541278  T

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

Target: chr4; HSP #3
Raw Score: 62; E-Value: 8e-27
Query Start/End: Original strand, 190 - 267
Target Start/End: Original strand, 52528719 - 52528796
Alignment:
Q  190 ccgcttcaattcctccgatgcttcttccttcttctccgcctccacatctgtctccacctccgcaatgttcagaagatc 267  Q
    |||||||| |||||||||||||||||||||||||||||||||| || |||||||||||||||| ||||||||||||||    
T  52528719 ccgcttcagttcctccgatgcttcttccttcttctccgcctccgcacctgtctccacctccgccatgttcagaagatc 52528796  T

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

Target: chr4; HSP #4
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 96 - 180
Target Start/End: Original strand, 37618670 - 37618754
Alignment:
Q  96 gacggtggaggtcgagtcgacgaaggcgagggataagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaaa 180  Q
    ||||||||  || |||||||||| |||||||||| |||||||||||||||| ||||||||||| ||||||| |||||||||||||    
T  37618670 gacggtggcagttgagtcgacgacggcgagggatgagaggagaaatacgacggtgaaagtagaaaagacatggaagagagtgaaa 37618754  T

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

Target: chr4; HSP #5
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 190 - 267
Target Start/End: Original strand, 52525532 - 52525609
Alignment:
Q  190 ccgcttcaattcctccgatgcttcttccttcttctccgcctccacatctgtctccacctccgcaatgttcagaagatc 267  Q
    |||||||| | ||||| | |||||||||||||||||||||||  | ||||||||||||||||| ||||||||||||||    
T  52525532 ccgcttcagtccctccaaggcttcttccttcttctccgcctcagcttctgtctccacctccgccatgttcagaagatc 52525609  T

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

Target: chr4; HSP #6
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 12 - 66
Target Start/End: Complemental strand, 44162004 - 44161950
Alignment:
Q  12 tgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctaga 66  Q
    |||||||||||||||||||||||||| |||| |||||||||   |||||||||||    
T  44162004 tgttggtgttgaatgaacgggaagcggaagaagcaacgggacatagagacctaga 44161950  T

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

Target: chr4; HSP #7
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 94 - 140
Target Start/End: Complemental strand, 44161212 - 44161166
Alignment:
Q  94 ctgacggtggaggtcgagtcgacgaaggcgagggataagaggagaaa 140  Q
    |||||||||| |||||||||||||| ||| |||||| ||||||||||    
T  44161212 ctgacggtggcggtcgagtcgacgacggccagggatgagaggagaaa 44161166  T

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

Target: chr1 (Bit Score: 149; Significance: 1e-78; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 149; E-Value: 1e-78
Query Start/End: Original strand, 9 - 193
Target Start/End: Original strand, 45117971 - 45118155
Alignment:
Q  9 tggtgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtc 108  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||| ||||||||||||  |||||||||||||||    
T  45117971 tggtgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggctgcaggagaaaattcaccgctgacggtggaggtc 45118070  T
Q  109 gagtcgacgaaggcgagggataagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaaagcttcttctccgc 193  Q
    ||||||||||||||||||||| ||||||||||||||| |||||||||||||||||||| ||||||||||||||||||| ||||||    
T  45118071 gagtcgacgaaggcgagggatgagaggagaaatacgattgtgaaagtagagaagacatggaagagagtgaaagcttctcctccgc 45118155  T

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

Target: chr1; HSP #2
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 13 - 91
Target Start/End: Complemental strand, 19769296 - 19769218
Alignment:
Q  13 gttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcac 91  Q
    ||||||||||||||||||||||||| |||||||||||||| | |||||||||||||||||| || | ||||||||||||    
T  19769296 gttggtgttgaatgaacgggaagcggaagaggcaacgggaaggagagacctagagaggaggccggaggagaaaattcac 19769218  T

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

Target: chr1; HSP #3
Raw Score: 47; E-Value: 7e-18
Query Start/End: Original strand, 217 - 271
Target Start/End: Original strand, 45118144 - 45118198
Alignment:
Q  217 cttcttctccgcctccacatctgtctccacctccgcaatgttcagaagatcagaa 271  Q
    ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||    
T  45118144 cttctcctccgcctccacatctgtctccacctccgcaatgttcagaagattagaa 45118198  T

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

Target: chr1; HSP #4
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 96 - 180
Target Start/End: Complemental strand, 6919971 - 6919885
Alignment:
Q  96 gacggtggaggtcgagtcgacgaaggcgagggataagaggagaaatacgactgtgaaagtagagaagac--attgaagagagtgaaa 180  Q
    |||||||| |||| ||||||||| |||||||||| |||||||||| |||| |||||||||||| |||||  || |||||||||||||    
T  6919971 gacggtggcggtcaagtcgacgacggcgagggatgagaggagaaacacgattgtgaaagtagaaaagacgtatggaagagagtgaaa 6919885  T

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

Target: chr1; HSP #5
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 96 - 180
Target Start/End: Original strand, 38239906 - 38239992
Alignment:
Q  96 gacggtggaggtcgagtcgacgaaggcgagggataagaggagaaatacgactgtgaaagtagagaagac--attgaagagagtgaaa 180  Q
    |||||||| |||| ||||||||| |||||||||| |||||||||| |||| |||||||||||| |||||  || |||||||||||||    
T  38239906 gacggtggcggtcaagtcgacgacggcgagggatgagaggagaaacacgattgtgaaagtagaaaagacgtatggaagagagtgaaa 38239992  T

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

Target: chr2 (Bit Score: 138; Significance: 4e-72; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 138; E-Value: 4e-72
Query Start/End: Original strand, 12 - 181
Target Start/End: Complemental strand, 2986090 - 2985921
Alignment:
Q  12 tgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtcgag 111  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||| ||||||||||||  ||||||||||||||||||    
T  2986090 tgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggcagcaggagaaaattcaccgctgacggtggaggtcgag 2985991  T
Q  112 tcgacgaaggcgagggataagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaaag 181  Q
    |||||||||||||||||| ||||||||||||||| |||||||||||||||||||| ||||||||||||||    
T  2985990 tcgacgaaggcgagggatgagaggagaaatacgattgtgaaagtagagaagacatggaagagagtgaaag 2985921  T

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

Target: chr2; HSP #2
Raw Score: 51; E-Value: 3e-20
Query Start/End: Original strand, 217 - 271
Target Start/End: Complemental strand, 2985893 - 2985839
Alignment:
Q  217 cttcttctccgcctccacatctgtctccacctccgcaatgttcagaagatcagaa 271  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| ||||    
T  2985893 cttcttctccgcctccacatctgtctccacctccgcaatgttcagaagattagaa 2985839  T

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

Target: chr2; HSP #3
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 9 - 118
Target Start/End: Original strand, 10495988 - 10496097
Alignment:
Q  9 tggtgttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtc 108  Q
    ||||||| |||||||||||||||||| |  |||||||||||||||  ||||||||| |||||||| |||  |||||||||||    ||||||||| ||||    
T  10495988 tggtgttagtgttgaatgaacgggaaacagaagaggcaacgggatagagagacctatagaggaggccgcgggagaaaattcaacgttgacggtggcggtc 10496087  T
Q  109 gagtcgacga 118  Q
    ||||| ||||    
T  10496088 gagtcaacga 10496097  T

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

Target: chr2; HSP #4
Raw Score: 42; E-Value: 0.000000000000007
Query Start/End: Original strand, 148 - 193
Target Start/End: Complemental strand, 2985927 - 2985882
Alignment:
Q  148 gtgaaagtagagaagacattgaagagagtgaaagcttcttctccgc 193  Q
    ||||||||||||||||||| ||||||||||||||||||||||||||    
T  2985927 gtgaaagtagagaagacatggaagagagtgaaagcttcttctccgc 2985882  T

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

Target: chr8 (Bit Score: 71; Significance: 3e-32; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 71; E-Value: 3e-32
Query Start/End: Original strand, 29 - 179
Target Start/End: Complemental strand, 23820763 - 23820613
Alignment:
Q  29 cgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtcgagtcgacgaaggcgaggga 128  Q
    |||||| || |||||||||| ||| | ||||| |||||||||||| |||| |||||||| |||  |||||||||| |||||||||||||| |||||  ||    
T  23820763 cgggaaacggaagaggcaactggacggagagagctagagaggaggccgcaggagaaaatccaccgctgacggtggcggtcgagtcgacgacggcgaaaga 23820664  T
Q  129 taagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaa 179  Q
    | ||| ||||||||||||||||||||| || ||||||| ||||||||||||    
T  23820663 tgagaagagaaatacgactgtgaaagtggaaaagacatggaagagagtgaa 23820613  T

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

Target: chr8; HSP #2
Raw Score: 71; E-Value: 3e-32
Query Start/End: Original strand, 29 - 179
Target Start/End: Original strand, 40172843 - 40172993
Alignment:
Q  29 cgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactgacggtggaggtcgagtcgacgaaggcgaggga 128  Q
    |||||| || |||||||||| ||| | ||||| |||||||||||| |||| |||||||| |||  |||||||||| |||||||||||||| |||||  ||    
T  40172843 cgggaaacggaagaggcaactggacggagagagctagagaggaggccgcaggagaaaatccaccgctgacggtggcggtcgagtcgacgacggcgaaaga 40172942  T
Q  129 taagaggagaaatacgactgtgaaagtagagaagacattgaagagagtgaa 179  Q
    | ||| ||||||||||||||||||||| || ||||||| ||||||||||||    
T  40172943 tgagaagagaaatacgactgtgaaagtggaaaagacatggaagagagtgaa 40172993  T

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

Target: chr8; HSP #3
Raw Score: 39; E-Value: 0.0000000000004
Query Start/End: Original strand, 190 - 232
Target Start/End: Original strand, 13863433 - 13863475
Alignment:
Q  190 ccgcttcaattcctccgatgcttcttccttcttctccgcctcc 232  Q
    |||||||| ||||||||||||||||||||||||||||||||||    
T  13863433 ccgcttcagttcctccgatgcttcttccttcttctccgcctcc 13863475  T

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

Target: chr7 (Bit Score: 54; Significance: 5e-22; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 54; E-Value: 5e-22
Query Start/End: Original strand, 190 - 267
Target Start/End: Complemental strand, 37978910 - 37978833
Alignment:
Q  190 ccgcttcaattcctccgatgcttcttccttcttctccgcctccacatctgtctccacctccgcaatgttcagaagatc 267  Q
    |||||||| ||||| | ||| |||||||||||||||||||||| ||||||||||||||||||| ||||||||||||||    
T  37978910 ccgcttcagttccttcaatgtttcttccttcttctccgcctccgcatctgtctccacctccgccatgttcagaagatc 37978833  T

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

Target: scaffold0036 (Bit Score: 49; Significance: 5e-19; HSPs: 1)
Name: scaffold0036
Description:

Target: scaffold0036; HSP #1
Raw Score: 49; E-Value: 5e-19
Query Start/End: Original strand, 13 - 97
Target Start/End: Complemental strand, 98194 - 98110
Alignment:
Q  13 gttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggaggtcgcaagagaaaattcactactga 97  Q
    ||||||||||||||||||||||||| ||||||||||||||   |||||||||||||||||| |  | ||||||||||||| ||||    
T  98194 gttggtgttgaatgaacgggaagcggaagaggcaacgggacagagagacctagagaggaggccagaggagaaaattcactgctga 98110  T

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

Target: chr3 (Bit Score: 43; Significance: 0.000000000000002; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 96 - 158
Target Start/End: Complemental strand, 53537338 - 53537276
Alignment:
Q  96 gacggtggaggtcgagtcgacgaaggcgagggataagaggagaaatacgactgtgaaagtaga 158  Q
    |||||||| |||| ||||||||| |||||||||| |||||||||| |||||||||||||||||    
T  53537338 gacggtggcggtcaagtcgacgacggcgagggatgagaggagaaacacgactgtgaaagtaga 53537276  T

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

Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 107 - 147
Target Start/End: Complemental strand, 53689676 - 53689636
Alignment:
Q  107 tcgagtcgacgaaggcgagggataagaggagaaatacgact 147  Q
    |||||||||||| ||||||||||  ||||||||||||||||    
T  53689676 tcgagtcgacgacggcgagggatgggaggagaaatacgact 53689636  T

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

Target: scaffold0004 (Bit Score: 41; Significance: 0.00000000000003; HSPs: 1)
Name: scaffold0004
Description:

Target: scaffold0004; HSP #1
Raw Score: 41; E-Value: 0.00000000000003
Query Start/End: Original strand, 13 - 73
Target Start/End: Complemental strand, 246502 - 246442
Alignment:
Q  13 gttggtgttgaatgaacgggaagcgaaagaggcaacgggatgaagagacctagagaggagg 73  Q
    ||||||||||||||||||||||||| |||||||||| ||| | |||||||| |||||||||    
T  246502 gttggtgttgaatgaacgggaagcggaagaggcaacaggacggagagacctggagaggagg 246442  T

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

Target: scaffold0275 (Bit Score: 35; Significance: 0.0000000001; HSPs: 1)
Name: scaffold0275
Description:

Target: scaffold0275; HSP #1
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 80 - 150
Target Start/End: Complemental strand, 23073 - 23003
Alignment:
Q  80 gagaaaattcactactgacggtggaggtcgagtcgacgaaggcgagggataagaggagaaatacgactgtg 150  Q
    ||||||||||||  |||||||||| |||| |||| |||| | | |||||| ||||||||||||||||||||    
T  23073 gagaaaattcaccgctgacggtggcggtcaagtccacgacgaccagggatgagaggagaaatacgactgtg 23003  T

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



© Oklahoma State University