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: NF3949_low_48 (Length: 219)

Name: NF3949_low_48
Description: NF3949
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3949_low_48
NF3949_low_48
[»] chr2 (9 HSPs)
chr2 (14-201)||(41996727-41996913)
chr2 (136-173)||(21088969-21089006)
chr2 (127-179)||(26533461-26533513)
chr2 (136-179)||(27187101-27187144)
chr2 (136-179)||(27187373-27187416)
chr2 (136-179)||(27836643-27836686)
chr2 (136-179)||(27836915-27836958)
chr2 (136-179)||(27837187-27837230)
chr2 (142-186)||(3736231-3736275)
[»] chr4 (4 HSPs)
chr4 (127-186)||(18936300-18936359)
chr4 (103-185)||(18930664-18930746)
chr4 (124-179)||(19987828-19987883)
chr4 (142-186)||(45015570-45015614)
[»] scaffold0007 (1 HSPs)
scaffold0007 (124-179)||(262007-262062)
[»] chr6 (2 HSPs)
chr6 (126-179)||(30045333-30045386)
chr6 (124-173)||(5467005-5467054)
[»] chr1 (3 HSPs)
chr1 (126-179)||(32025133-32025186)
chr1 (126-179)||(32025429-32025482)
chr1 (137-180)||(33283637-33283680)
[»] chr3 (3 HSPs)
chr3 (126-173)||(13843795-13843842)
chr3 (125-179)||(2706389-2706443)
chr3 (148-180)||(25315329-25315361)
[»] scaffold1212 (1 HSPs)
scaffold1212 (126-172)||(1961-2007)
[»] chr5 (2 HSPs)
chr5 (50-180)||(10321677-10321807)
chr5 (136-178)||(22587156-22587198)
[»] chr8 (4 HSPs)
chr8 (145-186)||(15938009-15938050)
chr8 (142-180)||(22576805-22576843)
chr8 (142-171)||(21008318-21008347)
chr8 (140-173)||(34373792-34373825)
[»] chr7 (2 HSPs)
chr7 (127-180)||(25194169-25194222)
chr7 (143-179)||(23071937-23071973)


Alignment Details
Target: chr2 (Bit Score: 152; Significance: 1e-80; HSPs: 9)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 152; E-Value: 1e-80
Query Start/End: Original strand, 14 - 201
Target Start/End: Original strand, 41996727 - 41996913
Alignment:
Q  14 cacagaggtcttatctagctactagtttagtttgttatgtgtgactcctaacattgctacgtcctttaagaactgatttttaggatggtttttactctat 113  Q
    |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||| ||||| ||| |||||||||||||    
T  41996727 cacagaggtcttatctagctactattttagtttgttatgtgtgactcctaacattgctacgtcctttaaaaactgacttttatgatagtttttactctat 41996826  T
Q  114 aagcgatgatctgatggtagttctttcttttttggcggcttcactcacctatcagtattcagtggagtacctttccgtggtccaactt 201  Q
    ||||||||||||||||||||||||||| ||||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||    
T  41996827 aagcgatgatctgatggtagttctttc-tttttggcggcttcattcacctatcagtattcagtagagtacctttccgtggtccaactt 41996913  T

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

Target: chr2; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 136 - 173
Target Start/End: Complemental strand, 21089006 - 21088969
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattc 173  Q
    ||||| ||||||||||||||||||||||||||||||||    
T  21089006 ctttcctttttggcggcttcactcacctatcagtattc 21088969  T

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

Target: chr2; HSP #3
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 127 - 179
Target Start/End: Complemental strand, 26533513 - 26533461
Alignment:
Q  127 atggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    |||||||  ||||| ||||||| |||||||||||||||||||||||| |||||    
T  26533513 atggtagccctttcctttttggtggcttcactcacctatcagtattcggtgga 26533461  T

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

Target: chr2; HSP #4
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 136 - 179
Target Start/End: Original strand, 27187101 - 27187144
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||| ||||||||||||||| |||||||||||||||| |||||    
T  27187101 ctttcctttttggcggcttcaatcacctatcagtattcggtgga 27187144  T

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

Target: chr2; HSP #5
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 136 - 179
Target Start/End: Original strand, 27187373 - 27187416
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||| ||||||||||||||| |||||||||||||||| |||||    
T  27187373 ctttcctttttggcggcttcaatcacctatcagtattcggtgga 27187416  T

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

Target: chr2; HSP #6
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 136 - 179
Target Start/End: Original strand, 27836643 - 27836686
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||| ||||||||||||||| |||||||||||||||| |||||    
T  27836643 ctttcctttttggcggcttcaatcacctatcagtattcggtgga 27836686  T

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

Target: chr2; HSP #7
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 136 - 179
Target Start/End: Original strand, 27836915 - 27836958
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||| ||||||||||||||| |||||||||||||||| |||||    
T  27836915 ctttcctttttggcggcttcaatcacctatcagtattcggtgga 27836958  T

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

Target: chr2; HSP #8
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 136 - 179
Target Start/End: Original strand, 27837187 - 27837230
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||| ||||||||||||||| |||||||||||||||| |||||    
T  27837187 ctttcctttttggcggcttcaatcacctatcagtattcggtgga 27837230  T

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

Target: chr2; HSP #9
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 142 - 186
Target Start/End: Original strand, 3736231 - 3736275
Alignment:
Q  142 tttttggcggcttcactcacctatcagtattcagtggagtacctt 186  Q
    |||||| || ||||||||||||||||||||||||| ||| |||||    
T  3736231 tttttgtcgacttcactcacctatcagtattcagtagagcacctt 3736275  T

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

Target: chr4 (Bit Score: 44; Significance: 3e-16; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 127 - 186
Target Start/End: Complemental strand, 18936359 - 18936300
Alignment:
Q  127 atggtagttctttcttttttggcggcttcactcacctatcagtattcagtggagtacctt 186  Q
    ||||||| |||||| ||||||||||||||||||||||||||||||||| ||||| |||||    
T  18936359 atggtagctctttcctttttggcggcttcactcacctatcagtattcaatggagcacctt 18936300  T

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

Target: chr4; HSP #2
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 103 - 185
Target Start/End: Complemental strand, 18930746 - 18930664
Alignment:
Q  103 ttttactctataagcgatgatctgatggtagttctttcttttttggcggcttcactcacctatcagtattcagtggagtacct 185  Q
    |||||||||||  ||  ||| || |||||||  ||||| |||||||||||||||||||||||||||||||| |||||| ||||    
T  18930746 ttttactctatcggcactgacctaatggtagccctttcctttttggcggcttcactcacctatcagtattcggtggagcacct 18930664  T

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

Target: chr4; HSP #3
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 124 - 179
Target Start/End: Complemental strand, 19987883 - 19987828
Alignment:
Q  124 ctgatggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||||||||  ||||| ||||||| |||||||||||||||||||||||| |||||    
T  19987883 ctgatggtagccctttcctttttggaggcttcactcacctatcagtattcggtgga 19987828  T

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

Target: chr4; HSP #4
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 142 - 186
Target Start/End: Original strand, 45015570 - 45015614
Alignment:
Q  142 tttttggcggcttcactcacctatcagtattcagtggagtacctt 186  Q
    ||||||||||||||||||||||||| ||||| ||||||| |||||    
T  45015570 tttttggcggcttcactcacctatcggtatttagtggagcacctt 45015614  T

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

Target: scaffold0007 (Bit Score: 40; Significance: 0.00000000000008; HSPs: 1)
Name: scaffold0007
Description:

Target: scaffold0007; HSP #1
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 124 - 179
Target Start/End: Complemental strand, 262062 - 262007
Alignment:
Q  124 ctgatggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||||||||  ||||| |||||||||||||||||||||||||||||||| |||||    
T  262062 ctgatggtagccctttcctttttggcggcttcactcacctatcagtattcggtgga 262007  T

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

Target: chr6 (Bit Score: 38; Significance: 0.000000000001; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 126 - 179
Target Start/End: Complemental strand, 30045386 - 30045333
Alignment:
Q  126 gatggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||||||  ||||| |||||||||||||||||||||||||||||||| |||||    
T  30045386 gatggtagccctttcctttttggcggcttcactcacctatcagtattcggtgga 30045333  T

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

Target: chr6; HSP #2
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 124 - 173
Target Start/End: Complemental strand, 5467054 - 5467005
Alignment:
Q  124 ctgatggtagttctttcttttttggcggcttcactcacctatcagtattc 173  Q
    ||||||||||  ||||| ||||||||| ||||| ||||||||||||||||    
T  5467054 ctgatggtagccctttcctttttggcgacttcattcacctatcagtattc 5467005  T

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

Target: chr1 (Bit Score: 38; Significance: 0.000000000001; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 126 - 179
Target Start/End: Complemental strand, 32025186 - 32025133
Alignment:
Q  126 gatggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||||||  ||||| |||||||||||||||||||||||||||||||| |||||    
T  32025186 gatggtagccctttcctttttggcggcttcactcacctatcagtattcggtgga 32025133  T

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

Target: chr1; HSP #2
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 126 - 179
Target Start/End: Complemental strand, 32025482 - 32025429
Alignment:
Q  126 gatggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    ||||||||  ||||| |||||||||||||||||||||||||||||||| |||||    
T  32025482 gatggtagccctttcctttttggcggcttcactcacctatcagtattcggtgga 32025429  T

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

Target: chr1; HSP #3
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 137 - 180
Target Start/End: Original strand, 33283637 - 33283680
Alignment:
Q  137 tttcttttttggcggcttcactcacctatcagtattcagtggag 180  Q
    |||||||| | |||| ||||||||||||||||||||||||||||    
T  33283637 tttcttttgtagcggtttcactcacctatcagtattcagtggag 33283680  T

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

Target: chr3 (Bit Score: 36; Significance: 0.00000000002; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 126 - 173
Target Start/End: Original strand, 13843795 - 13843842
Alignment:
Q  126 gatggtagttctttcttttttggcggcttcactcacctatcagtattc 173  Q
    ||||||||  |||||||||||| |||||||||||||||||||||||||    
T  13843795 gatggtagccctttcttttttgacggcttcactcacctatcagtattc 13843842  T

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

Target: chr3; HSP #2
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 125 - 179
Target Start/End: Original strand, 2706389 - 2706443
Alignment:
Q  125 tgatggtagttctttcttttttggcggcttcactcacctatcagtattcagtgga 179  Q
    |||||||||  ||||||||||||||||||| ||||||||||| |||||| |||||    
T  2706389 tgatggtagccctttcttttttggcggctttactcacctatcggtattcggtgga 2706443  T

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

Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 148 - 180
Target Start/End: Complemental strand, 25315361 - 25315329
Alignment:
Q  148 gcggcttcactcacctatcagtattcagtggag 180  Q
    |||||||||||||||||||| ||||||||||||    
T  25315361 gcggcttcactcacctatcaatattcagtggag 25315329  T

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

Target: scaffold1212 (Bit Score: 35; Significance: 0.00000000008; HSPs: 1)
Name: scaffold1212
Description:

Target: scaffold1212; HSP #1
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 126 - 172
Target Start/End: Complemental strand, 2007 - 1961
Alignment:
Q  126 gatggtagttctttcttttttggcggcttcactcacctatcagtatt 172  Q
    |||||||| |||||| |||||||||||||||||||||||| ||||||    
T  2007 gatggtagctctttcctttttggcggcttcactcacctattagtatt 1961  T

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

Target: chr5 (Bit Score: 35; Significance: 0.00000000008; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 50 - 180
Target Start/End: Original strand, 10321677 - 10321807
Alignment:
Q  50 atgtgtgactcctaacattgctacgtcctttaagaactgatttttaggatggtttttactctataagcgatgatctgatggtagttctttcttttttggc 149  Q
    ||||| ||||||||||||||| ||| ||||||||||| ||| |  | ||   |||| |||||||  ||  | | |||||||||| ||| || ||||||||    
T  10321677 atgtgggactcctaacattgccacgccctttaagaacagatgtccacgacaattttcactctatcggcactaacctgatggtagctctatcctttttggc 10321776  T
Q  150 ggcttcactcacctatcagtattcagtggag 180  Q
    |||| |||||||||||||||| || ||||||    
T  10321777 ggctacactcacctatcagtaatcggtggag 10321807  T

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

Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 136 - 178
Target Start/End: Original strand, 22587156 - 22587198
Alignment:
Q  136 ctttcttttttggcggcttcactcacctatcagtattcagtgg 178  Q
    ||||| |||||||| ||||||||||||||||||||||| ||||    
T  22587156 ctttcctttttggcagcttcactcacctatcagtattcggtgg 22587198  T

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

Target: chr8 (Bit Score: 34; Significance: 0.0000000003; HSPs: 4)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 145 - 186
Target Start/End: Original strand, 15938009 - 15938050
Alignment:
Q  145 ttggcggcttcactcacctatcagtattcagtggagtacctt 186  Q
    |||| ||||||||||||||||||||||||||||||| |||||    
T  15938009 ttggtggcttcactcacctatcagtattcagtggagcacctt 15938050  T

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

Target: chr8; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 142 - 180
Target Start/End: Original strand, 22576805 - 22576843
Alignment:
Q  142 tttttggcggcttcactcacctatcagtattcagtggag 180  Q
    ||||||||| |||||||||||||||||||||| ||||||    
T  22576805 tttttggcgacttcactcacctatcagtattcggtggag 22576843  T

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

Target: chr8; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 142 - 171
Target Start/End: Original strand, 21008318 - 21008347
Alignment:
Q  142 tttttggcggcttcactcacctatcagtat 171  Q
    ||||||||||||||||||||||||||||||    
T  21008318 tttttggcggcttcactcacctatcagtat 21008347  T

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

Target: chr8; HSP #4
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 140 - 173
Target Start/End: Original strand, 34373792 - 34373825
Alignment:
Q  140 cttttttggcggcttcactcacctatcagtattc 173  Q
    ||||||||| ||||||||||||||||||||||||    
T  34373792 cttttttggtggcttcactcacctatcagtattc 34373825  T

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

Target: chr7 (Bit Score: 34; Significance: 0.0000000003; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 127 - 180
Target Start/End: Complemental strand, 25194222 - 25194169
Alignment:
Q  127 atggtagttctttcttttttggcggcttcactcacctatcagtattcagtggag 180  Q
    |||||||  ||||| ||||||| |||||||||||||||||||||||| ||||||    
T  25194222 atggtagccctttcctttttggaggcttcactcacctatcagtattcggtggag 25194169  T

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

Target: chr7; HSP #2
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 143 - 179
Target Start/End: Complemental strand, 23071973 - 23071937
Alignment:
Q  143 ttttggcggcttcactcacctatcagtattcagtgga 179  Q
    |||||||||||||||||||||||||||| || |||||    
T  23071973 ttttggcggcttcactcacctatcagtactcggtgga 23071937  T

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



© Oklahoma State University