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: NF5461_low_50 (Length: 219)

Name: NF5461_low_50
Description: NF5461
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5461_low_50
NF5461_low_50
[»] chr4 (7 HSPs)
chr4 (1-219)||(45735955-45736173)
chr4 (89-201)||(12637969-12638080)
chr4 (112-201)||(36050621-36050710)
chr4 (112-201)||(36053880-36053969)
chr4 (3-63)||(45730636-45730696)
chr4 (145-201)||(24733566-24733622)
chr4 (109-161)||(27387617-27387669)
[»] chr7 (4 HSPs)
chr7 (89-201)||(4257433-4257544)
chr7 (67-201)||(30456264-30456394)
chr7 (89-201)||(6102859-6102970)
chr7 (67-158)||(42513124-42513212)
[»] chr1 (1 HSPs)
chr1 (67-201)||(23405537-23405668)
[»] chr2 (1 HSPs)
chr2 (115-201)||(45327511-45327597)
[»] chr6 (3 HSPs)
chr6 (67-158)||(4834719-4834807)
chr6 (89-158)||(33242848-33242916)
chr6 (67-158)||(7415639-7415727)
[»] chr8 (2 HSPs)
chr8 (67-201)||(44761924-44762055)
chr8 (67-201)||(44765231-44765362)
[»] chr5 (2 HSPs)
chr5 (89-201)||(24108654-24108766)
chr5 (67-158)||(8123528-8123616)
[»] chr3 (3 HSPs)
chr3 (135-201)||(14029275-14029341)
chr3 (89-161)||(1830796-1830868)
chr3 (67-158)||(30912055-30912143)


Alignment Details
Target: chr4 (Bit Score: 203; Significance: 1e-111; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 203; E-Value: 1e-111
Query Start/End: Original strand, 1 - 219
Target Start/End: Complemental strand, 45736173 - 45735955
Alignment:
Q  1 acgtaccaaagtaactaagaacaaaagataccactaatgagaaaggttgggatttcaatttacgttgagaaagaaaattgattataattttttcattgat 100  Q
    ||||||| |||||||||||||||||||||||||||||||||||||| |||||||||||||||| ||||||||||||||||||||||| ||||||||||||    
T  45736173 acgtaccgaagtaactaagaacaaaagataccactaatgagaaagggtgggatttcaatttaccttgagaaagaaaattgattataaatttttcattgat 45736074  T
Q  101 tctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttagtaactaactaat 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  45736073 tctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttagtaactaactaat 45735974  T
Q  201 actcttttagattaagatt 219  Q
    |||||||||||||||||||    
T  45735973 actcttttagattaagatt 45735955  T

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

Target: chr4; HSP #2
Raw Score: 45; E-Value: 8e-17
Query Start/End: Original strand, 89 - 201
Target Start/End: Complemental strand, 12638080 - 12637969
Alignment:
Q  89 tttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttag 188  Q
    ||||||||||||| | ||| |||||||||||||||||| | ||   ||||| || ||||| |||| ||||||||||||| ||||||||||  ||||||||    
T  12638080 tttttcattgattattatc-atgaggcatacaatgcttttataagcttgtggatcctcattataagataactacaacggctacacaatagcgcttcttag 12637982  T
Q  189 taactaactaata 201  Q
    | |||||||||||    
T  12637981 tcactaactaata 12637969  T

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

Target: chr4; HSP #3
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 112 - 201
Target Start/End: Complemental strand, 36050710 - 36050621
Alignment:
Q  112 aggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttagtaactaactaata 201  Q
    |||||||||||| |||| |||| ||||| || | |||| |||  |||||||||||| ||| |||||| | | ||||||||||||||||||    
T  36050710 aggcatacaatgtttatatagacttgtgcatacacatagtaagctaactacaacggctacgcaatagcattgcttagtaactaactaata 36050621  T

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

Target: chr4; HSP #4
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 112 - 201
Target Start/End: Complemental strand, 36053969 - 36053880
Alignment:
Q  112 aggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttagtaactaactaata 201  Q
    |||||||||||| |||| |||| ||||| || | |||| |||  |||||||||||| ||| |||||| | | ||||||||||||||||||    
T  36053969 aggcatacaatgtttatatagacttgtgcatacacatagtaagctaactacaacggctacgcaatagcattgcttagtaactaactaata 36053880  T

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

Target: chr4; HSP #5
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 3 - 63
Target Start/End: Complemental strand, 45730696 - 45730636
Alignment:
Q  3 gtaccaaagtaactaagaacaaaagataccactaatgagaaaggttgggatttcaatttac 63  Q
    |||||| ||||| |||||||||||||||||||||| |||||||  ||| ||||||| ||||    
T  45730696 gtaccagagtaattaagaacaaaagataccactaaagagaaagagtggcatttcaagttac 45730636  T

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

Target: chr4; HSP #6
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 145 - 201
Target Start/End: Complemental strand, 24733622 - 24733566
Alignment:
Q  145 tcataataatataactacaacggttacacaatagaacttcttagtaactaactaata 201  Q
    |||| |||| |||||||||| || |||| |||||  |||||||||||||||||||||    
T  24733622 tcattataagataactacaatggctacataatagcgcttcttagtaactaactaata 24733566  T

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

Target: chr4; HSP #7
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 109 - 161
Target Start/End: Complemental strand, 27387669 - 27387617
Alignment:
Q  109 atgaggcatacaatgcttatgtagatttgtgaatgctcataataatataacta 161  Q
    |||||||||||||||||||| |||| ||||| || ||| |||||| |||||||    
T  27387669 atgaggcatacaatgcttatatagacttgtgcatcctcgtaataagataacta 27387617  T

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

Target: chr7 (Bit Score: 49; Significance: 3e-19; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 49; E-Value: 3e-19
Query Start/End: Original strand, 89 - 201
Target Start/End: Original strand, 4257433 - 4257544
Alignment:
Q  89 tttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttag 188  Q
    ||||||||||||| ||||| |||||||||||||| ||| | |||  ||||| || ||||| |||| ||||||||||| | ||||||||||  ||||||||    
T  4257433 tttttcattgattttaatc-atgaggcatacaatacttttataggcttgtggatcctcattataagataactacaacagctacacaatagcgcttcttag 4257531  T
Q  189 taactaactaata 201  Q
    |||||||||||||    
T  4257532 taactaactaata 4257544  T

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

Target: chr7; HSP #2
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 67 - 201
Target Start/End: Complemental strand, 30456394 - 30456264
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacg 166  Q
    ||||||||||||| ||||||  |||||||||  |||||||| || ||||||| ||||||||| |||| || || || |||||||||| |||||||||||     
T  30456394 gagaaagaaaattcattata--tttttcattcgttctaatc-ataaggcatataatgcttatatagactt-tgcatactcataataagataactacaaca 30456299  T
Q  167 gttacacaatagaacttcttagtaactaactaata 201  Q
      |||||||||| ||| || | |||| ||||||||    
T  30456298 actacacaatagcactgctcaataacaaactaata 30456264  T

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

Target: chr7; HSP #3
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 89 - 201
Target Start/End: Complemental strand, 6102970 - 6102859
Alignment:
Q  89 tttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttag 188  Q
    ||||||||||||||||||| ||||   ||||||||||||| ||| |||| | ||| | || |||| ||||||| || || |||| |||||  ||||||||    
T  6102970 tttttcattgattctaatc-atgaaagatacaatgcttatataggtttggggatgtttattataagataactaaaatggctacataatagcgcttcttag 6102872  T
Q  189 taactaactaata 201  Q
    |||||| ||||||    
T  6102871 taactacctaata 6102859  T

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

Target: chr7; HSP #4
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 67 - 158
Target Start/End: Original strand, 42513124 - 42513212
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataa 158  Q
    ||||||||||||| ||||||  ||||||||||||||| ||  || | ||||||||||||||| |||| ||||| || |||||||||| ||||    
T  42513124 gagaaagaaaattcattata--tttttcattgattctcata-ataaagcatacaatgcttatatagacttgtgcatactcataataagataa 42513212  T

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

Target: chr1 (Bit Score: 48; Significance: 1e-18; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 67 - 201
Target Start/End: Original strand, 23405537 - 23405668
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacg 166  Q
    ||||||||||||| ||||||  ||||||||||||||| ||  || |||||||||||| |||  |||| ||||| || | |||| ||| ||||||||||||    
T  23405537 gagaaagaaaattcattata--tttttcattgattctcata-ataaggcatacaatgtttagatagacttgtgcatacacatagtaagataactacaacg 23405633  T
Q  167 gttacacaatagaacttcttagtaactaactaata 201  Q
    | |||||||||| | | ||||||||||||||||||    
T  23405634 gctacacaatagtattgcttagtaactaactaata 23405668  T

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

Target: chr2 (Bit Score: 43; Significance: 0.000000000000001; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 115 - 201
Target Start/End: Original strand, 45327511 - 45327597
Alignment:
Q  115 catacaatgcttatgtagatttgtgaatgctcataataatataactacaacggttacacaatagaacttcttagtaactaactaata 201  Q
    |||||||||||||| |||| ||||| || | |||| ||| ||||||||||||| |||||||||| | | ||||||||||||||||||    
T  45327511 catacaatgcttatatagacttgtgcatacacatagtaagataactacaacggctacacaatagtattgcttagtaactaactaata 45327597  T

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

Target: chr6 (Bit Score: 41; Significance: 0.00000000000002; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 67 - 158
Target Start/End: Complemental strand, 4834807 - 4834719
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataa 158  Q
    ||||||||||||| ||||||  ||||||||||||||||||  |||||||||||||||||||| |||| || || || |||||||||| ||||    
T  4834807 gagaaagaaaattcattata--tttttcattgattctaata-atgaggcatacaatgcttatatagacttatgcatactcataataagataa 4834719  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, 89 - 158
Target Start/End: Complemental strand, 33242916 - 33242848
Alignment:
Q  89 tttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataa 158  Q
    ||||||||||||||| ||  || ||||||||||||||||| |||| ||||| || |||||||||| ||||    
T  33242916 tttttcattgattctcata-ataaggcatacaatgcttatatagacttgtgcatactcataataagataa 33242848  T

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

Target: chr6; HSP #3
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 67 - 158
Target Start/End: Complemental strand, 7415727 - 7415639
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataa 158  Q
    ||||||||||||| ||||||  ||||||||||||||| ||  || ||||||||||||||||| |||| || ||  | |||||||||| ||||    
T  7415727 gagaaagaaaattcattata--tttttcattgattctcata-ataaggcatacaatgcttatatagacttatgtgtactcataataagataa 7415639  T

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

Target: chr8 (Bit Score: 40; Significance: 0.00000000000008; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 67 - 201
Target Start/End: Complemental strand, 44762055 - 44761924
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacg 166  Q
    |||||| |||||| ||||||  ||||||||||||| | ||  || |||||||||||| |||| |||| ||||| || | |||| |||  |||||||||||    
T  44762055 gagaaaaaaaattcattata--tttttcattgattttcata-ataaggcatacaatgtttatatagacttgtgcatacacatagtaagctaactacaacg 44761959  T
Q  167 gttacacaatagaacttcttagtaactaactaata 201  Q
    | |||||||||| | | ||||||||||||||||||    
T  44761958 gctacacaatagcattgcttagtaactaactaata 44761924  T

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

Target: chr8; HSP #2
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 67 - 201
Target Start/End: Complemental strand, 44765362 - 44765231
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataactacaacg 166  Q
    ||||||||||||| ||||||  ||||||||||||| | ||  || ||| |||||||| |||| |||| ||||| || | |||| |||  |||||||||||    
T  44765362 gagaaagaaaattcattata--tttttcattgattttcata-ataaggaatacaatgtttatatagacttgtgcatacacatagtaagctaactacaacg 44765266  T
Q  167 gttacacaatagaacttcttagtaactaactaata 201  Q
    | ||| |||||| | | ||||||||||||||||||    
T  44765265 gctacgcaatagcattgcttagtaactaactaata 44765231  T

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

Target: chr5 (Bit Score: 38; Significance: 0.000000000001; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 89 - 201
Target Start/End: Complemental strand, 24108766 - 24108654
Alignment:
Q  89 tttttcattgattctaatctatgaggcatacaatgcttatgtagatttgt-gaatgctcataataatataactacaacggttacacaatagaacttctta 187  Q
    |||||||||| |||||||| || || |||||||||||||| |||| |||| | || |||||||||| |||||||||||   |||||||||| ||| || |    
T  24108766 tttttcattggttctaatc-ataagacatacaatgcttatatagacttgttgcatactcataataaaataactacaacaactacacaatagcactgctca 24108668  T
Q  188 gtaactaactaata 201  Q
     |||||||||||||    
T  24108667 ataactaactaata 24108654  T

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

Target: chr5; HSP #2
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 67 - 158
Target Start/End: Complemental strand, 8123616 - 8123528
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataa 158  Q
    ||||||||||||| ||||||  ||||||||||||||| ||  || | ||||||||||||||| |||| ||||| || |||||||||| ||||    
T  8123616 gagaaagaaaattcattata--tttttcattgattctcata-ataaagcatacaatgcttatatagacttgtgcatactcataataagataa 8123528  T

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

Target: chr3 (Bit Score: 35; Significance: 0.00000000008; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 135 - 201
Target Start/End: Complemental strand, 14029341 - 14029275
Alignment:
Q  135 ttgtgaatgctcataataatataactacaacggttacacaatagaacttcttagtaactaactaata 201  Q
    ||||| || ||||| |||| ||||||||||||| |||||||||  ||| ||||||||||||||||||    
T  14029341 ttgtgcatactcattataagataactacaacggctacacaataacactgcttagtaactaactaata 14029275  T

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

Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 89 - 161
Target Start/End: Complemental strand, 1830868 - 1830796
Alignment:
Q  89 tttttcattgattctaatctatgaggca-tacaatgcttatgtagatttgtgaatgctcataataatataacta 161  Q
    ||||||||||||||||||| | |||||| |||||||||||| ||   | ||||||||||||||||| |||||||    
T  1830868 tttttcattgattctaatc-acgaggcaatacaatgcttatataagctggtgaatgctcataataacataacta 1830796  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, 67 - 158
Target Start/End: Complemental strand, 30912143 - 30912055
Alignment:
Q  67 gagaaagaaaattgattataattttttcattgattctaatctatgaggcatacaatgcttatgtagatttgtgaatgctcataataatataa 158  Q
    ||||||||||||| ||||||  ||||||||||||||| ||  || ||||||||||| ||||| |||| ||||| || |||| ||||| ||||    
T  30912143 gagaaagaaaattcattata--tttttcattgattctcata-ataaggcatacaatacttatatagacttgtgcatactcacaataaaataa 30912055  T

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



© Oklahoma State University