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: NF12960_high_1 (Length: 677)

Name: NF12960_high_1
Description: NF12960
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF12960_high_1
NF12960_high_1
[»] chr3 (17 HSPs)
chr3 (104-551)||(2484968-2485415)
chr3 (521-664)||(2495724-2495869)
chr3 (248-521)||(2495430-2495697)
chr3 (521-664)||(2634153-2634293)
chr3 (248-387)||(749947-750082)
chr3 (53-128)||(7436740-7436814)
chr3 (248-387)||(675348-675483)
chr3 (290-344)||(1429638-1429692)
chr3 (589-663)||(2447036-2447109)
chr3 (627-664)||(2485414-2485451)
chr3 (598-666)||(675073-675141)
chr3 (598-666)||(749669-749737)
chr3 (614-666)||(9564422-9564474)
chr3 (129-184)||(751393-751448)
chr3 (118-169)||(2632345-2632396)
chr3 (109-194)||(2494486-2494571)
chr3 (290-338)||(7332205-7332253)
[»] scaffold0019 (2 HSPs)
scaffold0019 (291-430)||(2135-2274)
scaffold0019 (523-664)||(2395-2533)


Alignment Details
Target: chr3 (Bit Score: 404; Significance: 0; HSPs: 17)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 404; E-Value: 0
Query Start/End: Original strand, 104 - 551
Target Start/End: Original strand, 2484968 - 2485415
Alignment:
Q  104 tagtttagtttatggctcactcttagaaacacctttaccatggaattggctcactcttgtgctcccacatatacagttctcacctctgcaagtgatcttg 203  Q
    ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||    
T  2484968 tagtttagtttttggctcactcttagaaacacctttaccatggaattggctcactcttgtgctcccacatatatagttctcacctctgcaagtgatcttg 2485067  T
Q  204 tacaggatcgatgattacaatcttatgatttaaatcgtgacttggatagtattcacaaattcaaattgacaataaccttggctacagtttttatgtttta 303  Q
    |||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||    
T  2485068 tacaggatcgatgattacgatcttatgatttaaatcgtgacttggatagtattcacaaattcaaattgacaataaccttggctacagtttttttgtttta 2485167  T
Q  304 tctctttccttttgatagtgtttaatggattacaagataactgattattcttgtcgaatgtttaatgcgaaattgaaagttttgtatcttttatactttt 403  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||| ||| |||||||||||||| ||||||||||||    
T  2485168 tctctttccttttgatagtgtttaatggattacaagataactgattattcttgttgaatgtttaatgcaaaaatgaaagttttgtatattttatactttt 2485267  T
Q  404 atttgcgtgaaatttaaagttgttttgctgctaagatatttgtatattgttttgtaaatgatattattgaattcctagacgcacacatcagtgtacaatt 503  Q
    |||||| |||||||||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  2485268 atttgcatgaaatttaaagttgttttgctgctaagatatatgtatattgttgtgtaaatgatattattgaattcctagacgcacacatcagtgtacaatt 2485367  T
Q  504 ccatagcaatggtgaaatgagattgtaatgaagttcatttccatgtgt 551  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||    
T  2485368 ccatagcaatggtgaaatgagattgtaatgaagttcatttccatgtgt 2485415  T

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

Target: chr3; HSP #2
Raw Score: 72; E-Value: 2e-32
Query Start/End: Original strand, 521 - 664
Target Start/End: Original strand, 2495724 - 2495869
Alignment:
Q  521 tgagattgtaatgaagttcatttccat----gtgtgtttgccttacaatatgcctcagtattttaatttgaattgcacataaagcctcaacataggctta 616  Q
    ||||||||||| |||||||||||||||    |||||||||||||| ||| |  |||| |||||| |||| |||||||| | ||||||||| |||| ||||    
T  2495724 tgagattgtaaggaagttcatttccatatgtgtgtgtttgccttataatgt--ctcaatatttttattttaattgcacctgaagcctcaaaatagactta 2495821  T
Q  617 taacatcatagttgaaatgtcactttttcaggttgattgtgtttgttc 664  Q
    ||||||||||||||||||||| ||||||||||||| ||||||||||||    
T  2495822 taacatcatagttgaaatgtctctttttcaggttggttgtgtttgttc 2495869  T

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

Target: chr3; HSP #3
Raw Score: 71; E-Value: 8e-32
Query Start/End: Original strand, 248 - 521
Target Start/End: Original strand, 2495430 - 2495697
Alignment:
Q  248 gatagtattcacaaattcaaattgacaataaccttggctacagtttttatgttttatctctttccttttgatagtgtttaatggattacaagataactga 347  Q
    |||| |||||||||||||||||||||||| | | |   ||  |||||||||||||||||||| | |||||||||||||||||||      ||| ||||||    
T  2495430 gataatattcacaaattcaaattgacaatgagcctct-tatggtttttatgttttatctcttactttttgatagtgtttaatgg------agacaactga 2495522  T
Q  348 ttattcttgtcgaatgtttaatgcgaaattgaaagttttgtatcttttatacttttatttgc-gtgaaatttaaagttgttttgctgctaagatatttg- 445  Q
    ||||||||   ||||| |||||| ||||  ||||||||||||| ||||| |||||||||||| |||   ||||||||||||||||||||||||||| ||     
T  2495523 ttattctt---gaatgattaatgtgaaaacgaaagttttgtatattttagacttttatttgcagtg--ttttaaagttgttttgctgctaagatatatgg 2495617  T
Q  446 -tat---attgttttgtaaatgatattattgaattcctagacgcacacatcagtgtacaattccatagcaatggtgaaat 521  Q
      ||   |||||| || ||||||||||||||||||| || | |||  || ||||| |||||||||||||| |||||||||    
T  2495618 tcatctcattgttgtgcaaatgatattattgaattcttaaatgcatgcaacagtgcacaattccatagcattggtgaaat 2495697  T

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

Target: chr3; HSP #4
Raw Score: 65; E-Value: 3e-28
Query Start/End: Original strand, 521 - 664
Target Start/End: Original strand, 2634153 - 2634293
Alignment:
Q  521 tgagattgtaatgaagttcatttccatgtgtgtttgccttacaatatgcctcagtattttaatttgaattgcacataaagcctcaacataggcttataac 620  Q
    |||||||||| |||||||||||||||| |||||| |||||| ||| |  |||| |||||||||||  ||||||| | ||||||||| |||| ||||||||    
T  2634153 tgagattgtattgaagttcatttccatatgtgtt-gccttataatgt--ctcaatattttaatttttattgcacctcaagcctcaaaatagacttataac 2634249  T
Q  621 atcatagttgaaatgtcactttttcaggttgattgtgtttgttc 664  Q
    ||||||||| ||||||| |||||||||| || ||||||||||||    
T  2634250 atcatagttcaaatgtctctttttcaggctggttgtgtttgttc 2634293  T

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

Target: chr3; HSP #5
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 248 - 387
Target Start/End: Complemental strand, 750082 - 749947
Alignment:
Q  248 gatagtattcacaaattcaaattgacaataaccttggctacagtttttatgttttatctctttccttttgatagtgtttaatggattacaagataactga 347  Q
    |||||||| |||||||||||||||||||||||| |   || ||||||||||||||| || |||  || ||||||||  ||| ||  ||||||||||||||    
T  750082 gatagtatgcacaaattcaaattgacaataaccat---taaagtttttatgttttagct-tttgtttgtgatagtgggtaacggtctacaagataactga 749987  T
Q  348 ttattcttgtcgaatgtttaatgcgaaattgaaagttttg 387  Q
    |||||||||| ||||| |||||| |||| |||||||||||    
T  749986 ttattcttgttgaatgattaatgtgaaaatgaaagttttg 749947  T

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

Target: chr3; HSP #6
Raw Score: 48; E-Value: 4e-18
Query Start/End: Original strand, 53 - 128
Target Start/End: Complemental strand, 7436814 - 7436740
Alignment:
Q  53 tcattgttattacaagattttctttcaatcctaattaacttttagaaatagtagtttagtttatggctcactctta 128  Q
    |||||||||||||||||||||||||||||  || ||||| |||||||||| ||||||||||| |||||||||||||    
T  7436814 tcattgttattacaagattttctttcaatttta-ttaacatttagaaatactagtttagtttttggctcactctta 7436740  T

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

Target: chr3; HSP #7
Raw Score: 46; E-Value: 7e-17
Query Start/End: Original strand, 248 - 387
Target Start/End: Complemental strand, 675483 - 675348
Alignment:
Q  248 gatagtattcacaaattcaaattgacaataaccttggctacagtttttatgttttatctctttccttttgatagtgtttaatggattacaagataactga 347  Q
    |||||||| |||||||||||||||||||||| | |   || ||||||||||||||| || |||  || ||||||||  |||  |  ||||||||||||||    
T  675483 gatagtatgcacaaattcaaattgacaataaacat---taaagtttttatgttttagct-tttgtttgtgatagtgggtaacagtctacaagataactga 675388  T
Q  348 ttattcttgtcgaatgtttaatgcgaaattgaaagttttg 387  Q
    |||||||||| ||||| |||||| |||| |||||||||||    
T  675387 ttattcttgttgaatgattaatgtgaaaatgaaagttttg 675348  T

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

Target: chr3; HSP #8
Raw Score: 43; E-Value: 0.000000000000004
Query Start/End: Original strand, 290 - 344
Target Start/End: Complemental strand, 1429692 - 1429638
Alignment:
Q  290 gtttttatgttttatctctttccttttgatagtgtttaatggattacaagataac 344  Q
    |||||||||||||||||||| | |||||||||||||||||||||||||| |||||    
T  1429692 gtttttatgttttatctcttgctttttgatagtgtttaatggattacaaaataac 1429638  T

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

Target: chr3; HSP #9
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 589 - 663
Target Start/End: Original strand, 2447036 - 2447109
Alignment:
Q  589 ttgcacataaagcctcaacataggcttataacatcatagttgaaatgtcactttttcaggttgattgtgtttgtt 663  Q
    |||||| | ||||||||| |||| ||||||||||||||||||||||| | | ||||||||||| |||||||||||    
T  2447036 ttgcacctgaagcctcaaaatagacttataacatcatagttgaaatgcctc-ttttcaggttggttgtgtttgtt 2447109  T

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

Target: chr3; HSP #10
Raw Score: 38; E-Value: 0.000000000004
Query Start/End: Original strand, 627 - 664
Target Start/End: Original strand, 2485414 - 2485451
Alignment:
Q  627 gttgaaatgtcactttttcaggttgattgtgtttgttc 664  Q
    ||||||||||||||||||||||||||||||||||||||    
T  2485414 gttgaaatgtcactttttcaggttgattgtgtttgttc 2485451  T

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

Target: chr3; HSP #11
Raw Score: 37; E-Value: 0.00000000002
Query Start/End: Original strand, 598 - 666
Target Start/End: Complemental strand, 675141 - 675073
Alignment:
Q  598 aagcctcaacataggcttataacatcatagttgaaatgtcactttttcaggttgattgtgtttgttcat 666  Q
    |||| |||| |||| |||||||| || ||||||||||||| ||||||||||||| | ||||||||||||    
T  675141 aagcttcaaaatagacttataacttcgtagttgaaatgtctctttttcaggttggtcgtgtttgttcat 675073  T

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

Target: chr3; HSP #12
Raw Score: 37; E-Value: 0.00000000002
Query Start/End: Original strand, 598 - 666
Target Start/End: Complemental strand, 749737 - 749669
Alignment:
Q  598 aagcctcaacataggcttataacatcatagttgaaatgtcactttttcaggttgattgtgtttgttcat 666  Q
    |||| |||| |||| |||||||| || ||||||||||||| ||||||||||||| | ||||||||||||    
T  749737 aagcttcaaaatagacttataacttcgtagttgaaatgtctctttttcaggttggtcgtgtttgttcat 749669  T

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

Target: chr3; HSP #13
Raw Score: 37; E-Value: 0.00000000002
Query Start/End: Original strand, 614 - 666
Target Start/End: Complemental strand, 9564474 - 9564422
Alignment:
Q  614 ttataacatcatagttgaaatgtcactttttcaggttgattgtgtttgttcat 666  Q
    ||||||| |||||||||||||||| ||||||||||||| | ||||||||||||    
T  9564474 ttataacgtcatagttgaaatgtctctttttcaggttggtcgtgtttgttcat 9564422  T

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

Target: chr3; HSP #14
Raw Score: 36; E-Value: 0.00000000006
Query Start/End: Original strand, 129 - 184
Target Start/End: Complemental strand, 751448 - 751393
Alignment:
Q  129 gaaacacctttaccatggaattggctcactcttgtgctcccacatatacagttctc 184  Q
    |||| |||||||| |||||||||||||||||||||||||||  ||||| |||||||    
T  751448 gaaatacctttactatggaattggctcactcttgtgctccctaatatatagttctc 751393  T

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

Target: chr3; HSP #15
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 118 - 169
Target Start/End: Original strand, 2632345 - 2632396
Alignment:
Q  118 gctcactcttagaaacacctttaccatggaattggctcactcttgtgctccc 169  Q
    ||||||||||||||| |||||||| ||| |||||||| |||| |||||||||    
T  2632345 gctcactcttagaaatacctttactatgaaattggcttactcctgtgctccc 2632396  T

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

Target: chr3; HSP #16
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 109 - 194
Target Start/End: Original strand, 2494486 - 2494571
Alignment:
Q  109 tagtttatggctcactcttagaaacacctttaccatggaattggctcactcttgtgctcccacatatacagttctcacctctgcaa 194  Q
    |||||| ||| ||||||||||||||||||| || || ||||||| | |||| ||||||| |  ||||| |||| || |||||||||    
T  2494486 tagtttttggatcactcttagaaacaccttgactatcgaattgggttactcctgtgctctctaatatatagttatctcctctgcaa 2494571  T

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

Target: chr3; HSP #17
Raw Score: 29; E-Value: 0.000001
Query Start/End: Original strand, 290 - 338
Target Start/End: Complemental strand, 7332253 - 7332205
Alignment:
Q  290 gtttttatgttttatctctttccttttgatagtgtttaatggattacaa 338  Q
    |||||||||||||| ||||| | ||||||||| ||||| ||||||||||    
T  7332253 gtttttatgttttagctcttgctttttgatagcgtttagtggattacaa 7332205  T

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

Target: scaffold0019 (Bit Score: 68; Significance: 5e-30; HSPs: 2)
Name: scaffold0019
Description:

Target: scaffold0019; HSP #1
Raw Score: 68; E-Value: 5e-30
Query Start/End: Original strand, 291 - 430
Target Start/End: Original strand, 2135 - 2274
Alignment:
Q  291 tttttatgttttatctctttccttttgatagtgtttaatggattacaagataactgattattcttgtcgaatgtttaatgcgaaattgaaagttttgtat 390  Q
    ||||||||||||| ||||| | | ||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||  ||| ||||||||||||||    
T  2135 tttttatgttttagctcttgcttcttgatagtgtttaatggattacaagataactgattattcttgttgaatgattaatgtcaaaatgaaagttttgtat 2234  T
Q  391 cttttatacttttatttgcgtgaaatttaaagttgttttg 430  Q
     ||||   |||||||||||  |   |||||||||||||||    
T  2235 attttggtcttttatttgcaagggttttaaagttgttttg 2274  T

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

Target: scaffold0019; HSP #2
Raw Score: 55; E-Value: 3e-22
Query Start/End: Original strand, 523 - 664
Target Start/End: Original strand, 2395 - 2533
Alignment:
Q  523 agattgtaatgaagttcatttccatgtgtgtttgccttacaatatgcctcagtattttaatttgaattgcacataaagcctcaacataggcttataacat 622  Q
    ||||| || |||||||||||||||| | |||| |||||||||| |  |||| ||||||||| |  ||||||| | || |||||| |||| |||||||| |    
T  2395 agattatagtgaagttcatttccatatatgtt-gccttacaatgt--ctcaatattttaatatttattgcacctcaatcctcaaaatagacttataacgt 2491  T
Q  623 catagttgaaatgtcactttttcaggttgattgtgtttgttc 664  Q
    ||||||||||||||| ||||||||||||| ||||||||||||    
T  2492 catagttgaaatgtctctttttcaggttggttgtgtttgttc 2533  T

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



© Oklahoma State University