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: NF12305_high_9 (Length: 417)

Name: NF12305_high_9
Description: NF12305
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF12305_high_9
NF12305_high_9
[»] chr3 (13 HSPs)
chr3 (1-401)||(24691377-24691777)
chr3 (168-401)||(24675442-24675680)
chr3 (169-396)||(24640344-24640572)
chr3 (223-347)||(24718956-24719080)
chr3 (205-401)||(24713763-24713960)
chr3 (196-363)||(24652352-24652519)
chr3 (288-401)||(24686296-24686410)
chr3 (10-158)||(24640055-24640202)
chr3 (222-355)||(24632644-24632778)
chr3 (170-249)||(24686216-24686295)
chr3 (232-360)||(24654561-24654689)
chr3 (183-333)||(24682890-24683041)
chr3 (208-274)||(24717081-24717148)
[»] chr4 (1 HSPs)
chr4 (171-218)||(4037570-4037617)


Alignment Details
Target: chr3 (Bit Score: 362; Significance: 0; HSPs: 13)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 362; E-Value: 0
Query Start/End: Original strand, 1 - 401
Target Start/End: Original strand, 24691377 - 24691777
Alignment:
Q  1 cctaaccacccaatatgtatcggttgcttgcacacgttaattaccattccacaacaagtgtttccaaaatgcgttaataatcatnnnnnnnnnctcttga 100  Q
    ||||||||||||||||||||| ||||||||||||| | ||||||||||||||||||||||||||||||||||||||||||||||         |||||||    
T  24691377 cctaaccacccaatatgtatcagttgcttgcacacttgaattaccattccacaacaagtgtttccaaaatgcgttaataatcataaaaaaaaactcttga 24691476  T
Q  101 tctttccagaaagaaatactaaagcaagtggaaacatgaaaaacaacattaagatatgagaaaaacattaaaaagaatcatcccagcgatatgagaaaaa 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  24691477 tctttccagaaagaaatactaaagcaagtggaaacatgaaaaacaacattaagatatgagaaaaacattaaaaagaatcatcccagcgatatgagaaaaa 24691576  T
Q  201 cagattgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaactaccatatttcgaaacagttgcaatgaattgtaagttcttca 300  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  24691577 cagattgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaactaccatatttcgaaacagttgcaatgaattgtaagttcttca 24691676  T
Q  301 tgctccttaagtacaatgacagaccaattattaaatccataaattgtgagaaaagaaaaacataattgtaaaatatacatgaaaaatgaccagatatgtg 400  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  24691677 tgctccttaagtacaatgacagaccaattattaaatccataaattgtgagaaaagaaaaacataattgtaaaatatacatgaaaaatgaccagatatgtg 24691776  T
Q  401 a 401  Q
    |    
T  24691777 a 24691777  T

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

Target: chr3; HSP #2
Raw Score: 146; E-Value: 9e-77
Query Start/End: Original strand, 168 - 401
Target Start/End: Original strand, 24675442 - 24675680
Alignment:
Q  168 ttaaaaagaatcatcccagcgatatgagaaaaacagattgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaactaccatatt 267  Q
    |||||||||||||||||||| |||||||||||||||  |||||||||||||||||||||||| ||||||||||||||||||| |||||||||||||| ||    
T  24675442 ttaaaaagaatcatcccagctatatgagaaaaacaggctgcataatgtggcttcaggtttgctgaactctgcaaataatacacgtattaactaccatttt 24675541  T
Q  268 tcgaaacagttgcaatgaattgtaagttcttcatgctccttaagtacaatgacagaccaattattaaatccataaattgtgag----aaaagaaaaacat 363  Q
    ||||||||||| ||||||||||||||||||||| |||||| ||||||||||||| | |||||||||||||| |||||||||||    |||| ||||||||    
T  24675542 tcgaaacagtttcaatgaattgtaagttcttcacgctcctcaagtacaatgacaaatcaattattaaatccctaaattgtgagacaaaaaaaaaaaacat 24675641  T
Q  364 -aattgtaaaatatacatgaaaaatgaccagatatgtga 401  Q
     ||||| || | |||||||||||||||||||||| ||||    
T  24675642 gaattgcaagaaatacatgaaaaatgaccagataagtga 24675680  T

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

Target: chr3; HSP #3
Raw Score: 141; E-Value: 8e-74
Query Start/End: Original strand, 169 - 396
Target Start/End: Original strand, 24640344 - 24640572
Alignment:
Q  169 taaaaagaatcatcccagcgatatgagaaaaacagattgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaactaccatattt 268  Q
    ||||||||||||||||  ||||| | ||||||||| ||||||||||| ||||||||||||| ||||||||||||||||||| |||||||||||||| |||    
T  24640344 taaaaagaatcatccctacgataggtgaaaaacaggttgcataatgtcgcttcaggtttgctgaactctgcaaataatacatgtattaactaccattttt 24640443  T
Q  269 cgaaacagttgcaatgaattgtaagttcttcatgctccttaagtacaatgacagaccaattattaaatccataaattgtgagaaaagaaaaacat-aatt 367  Q
    ||||||||||| ||| |||||||| ||||||| |||||||||||||| ||||| |||| ||||||||||| |||||||||| ||||||||||||| ||||    
T  24640444 cgaaacagttggaattaattgtaaattcttcacgctccttaagtacagtgacaaaccacttattaaatccctaaattgtgataaaagaaaaacatgaatt 24640543  T
Q  368 gtaaaatatacatgaaaaatgaccagata 396  Q
    | |||||||||||||||| ||||||||||    
T  24640544 gcaaaatatacatgaaaactgaccagata 24640572  T

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

Target: chr3; HSP #4
Raw Score: 85; E-Value: 2e-40
Query Start/End: Original strand, 223 - 347
Target Start/End: Original strand, 24718956 - 24719080
Alignment:
Q  223 ggtttgccgaactctgcaaataatacaagtattaactaccatatttcgaaacagttgcaatgaattgtaagttcttcatgctccttaagtacaatgacag 322  Q
    ||||||| |||||||||| |||||||| |||||||||||||| ||| |||| |||||||||||||||||| |||||||||||||| |||||||||||||     
T  24718956 ggtttgctgaactctgcatataatacatgtattaactaccattttttgaaatagttgcaatgaattgtaaattcttcatgctcctcaagtacaatgacaa 24719055  T
Q  323 accaattattaaatccataaattgt 347  Q
    |||||||||||||||| ||||||||    
T  24719056 accaattattaaatccctaaattgt 24719080  T

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

Target: chr3; HSP #5
Raw Score: 74; E-Value: 8e-34
Query Start/End: Original strand, 205 - 401
Target Start/End: Original strand, 24713763 - 24713960
Alignment:
Q  205 ttgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaactaccatatttcgaaacagttgcaatgaattgtaagttcttcatgct 304  Q
    ||||||||| | |||| | |||||| |||||||||| || |||||||||| ||||||||| |||||||||  ||||| | || ||||| |||||| ||||    
T  24713763 ttgcataatattgcttgatgtttgctgaactctgcatattatacaagtatcaactaccatttttcgaaacccttgcactaaaatgtaaattcttcctgct 24713862  T
Q  305 ccttaagtacaatgacagaccaattattaaatccataaattgtgagaaaagaaaaacat-aattgtaaaatatacatgaaaaatgaccagatatgtga 401  Q
    | ||||| | |||| || |||||||||||||||| |||||||||||||||||| || || ||| | |||| ||||||||||| |||||||||| ||||    
T  24713863 cattaagaataatggcaaaccaattattaaatccctaaattgtgagaaaagaataagatgaatagcaaaaaatacatgaaaagtgaccagataagtga 24713960  T

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

Target: chr3; HSP #6
Raw Score: 60; E-Value: 2e-25
Query Start/End: Original strand, 196 - 363
Target Start/End: Original strand, 24652352 - 24652519
Alignment:
Q  196 aaaaacagattgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaactaccatatttcgaaacagttgcaatgaattgtaagtt 295  Q
    |||||||| ||||||||| | |||| |  ||||| ||||||||||||||||||| ||||||||||| || || ||||||||||||||||||| |||  ||    
T  24652352 aaaaacaggttgcataatattgcttgatttttgctgaactctgcaaataatacatgtattaactacaattttacgaaacagttgcaatgaatcgtacatt 24652451  T
Q  296 cttcatgctccttaagtacaatgacagaccaattattaaatccataaattgtgagaaaagaaaaacat 363  Q
    ||||  |||| | ||| ||| ||| | ||||| |||| || || |||||||||||||||||| |||||    
T  24652452 cttctggctcatcaagaacagtgaaaaaccaactattcaacccctaaattgtgagaaaagaataacat 24652519  T

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

Target: chr3; HSP #7
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 288 - 401
Target Start/End: Original strand, 24686296 - 24686410
Alignment:
Q  288 tgtaagttcttcatgctccttaagtacaatgacagaccaattattaaatccataaattgtgagaaaagaaaaacat-aattgtaaaatatacatgaaaaa 386  Q
    ||||| |||||||||||| | ||| ||||||||| |||||| |||||| || ||||||||||||||||||||||||  |||| ||||  |||||||||||    
T  24686296 tgtaaattcttcatgctcgtcaagaacaatgacaaaccaataattaaaaccctaaattgtgagaaaagaaaaacatgtattgcaaaaagtacatgaaaaa 24686395  T
Q  387 tgaccagatatgtga 401  Q
    |||||||||| ||||    
T  24686396 tgaccagataagtga 24686410  T

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

Target: chr3; HSP #8
Raw Score: 49; E-Value: 7e-19
Query Start/End: Original strand, 10 - 158
Target Start/End: Original strand, 24640055 - 24640202
Alignment:
Q  10 ccaatatgtatcggttgcttgcacacgttaattaccattccacaacaagtgtttccaaaatgcgttaataatcatnnnnnnnnnctcttgatctttccag 109  Q
    ||||| |||||  ||||||| ||||| | || |||||| |||||||||||||||| ||| || ||||||| ||||         |||||||||||||| |    
T  24640055 ccaatctgtatatgttgctttcacacttgaaataccatcccacaacaagtgtttcaaaattgtgttaatattcatcaaaaaaa-ctcttgatctttcccg 24640153  T
Q  110 aaagaaatactaaagcaagtggaaacatgaaaaacaacattaagatatg 158  Q
    |||||||  ||||||||||||||||| |||||||||||||||| |||||    
T  24640154 aaagaaaagctaaagcaagtggaaacttgaaaaacaacattaacatatg 24640202  T

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

Target: chr3; HSP #9
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 222 - 355
Target Start/End: Original strand, 24632644 - 24632778
Alignment:
Q  222 aggtttgccgaactctgcaaataatacaagtatt-aactaccatatttcgaaacagttgcaatgaattgtaagttcttcatgctccttaagtacaatga- 319  Q
    |||||||| ||||||||||||||||||| || || ||||||||| |||||||||  |||||||  | ||||| |||||||||||  | ||| ||| |||     
T  24632644 aggtttgctgaactctgcaaataatacatgtgttaaactaccatttttcgaaacccttgcaatctaatgtaaattcttcatgct-atcaagaacagtgat 24632742  T
Q  320 cagaccaattattaaatccataaattgtgagaaaag 355  Q
     | ||| |||||||||||| ||||||||||||||||    
T  24632743 aaaaccgattattaaatccctaaattgtgagaaaag 24632778  T

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

Target: chr3; HSP #10
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 170 - 249
Target Start/End: Original strand, 24686216 - 24686295
Alignment:
Q  170 aaaaagaatcatcccagcgatatgagaaaaacagattgcataatgtggcttcaggtttgccgaactctgcaaataataca 249  Q
    |||||||| ||| ||||||||| ||||||||||| ||||||||| | |||| | |||||| ||| |||||||||||||||    
T  24686216 aaaaagaaccattccagcgatacgagaaaaacaggttgcataatattgcttgatgtttgctgaattctgcaaataataca 24686295  T

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

Target: chr3; HSP #11
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 232 - 360
Target Start/End: Original strand, 24654561 - 24654689
Alignment:
Q  232 aactctgcaaataatacaagtattaa-ctaccatatttcgaaacagttgcaatgaattgtaagttcttcatgctccttaagtacaatgacagaccaatta 330  Q
    |||||||||||||||||| | ||||| ||| ||||  || |||   ||||||||||  | || |||||||||||| | ||| ||||||||| ||||||||    
T  24654561 aactctgcaaataatacatgcattaaactatcatagctccaaatcattgcaatgaaaagaaaattcttcatgctcttcaagaacaatgacaaaccaatta 24654660  T
Q  331 ttaaatccataaattgtgagaaaagaaaaa 360  Q
    |||||||| |||||||| || |||||||||    
T  24654661 ttaaatcc-taaattgtaagcaaagaaaaa 24654689  T

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

Target: chr3; HSP #12
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 183 - 333
Target Start/End: Original strand, 24682890 - 24683041
Alignment:
Q  183 ccagcgatatgagaaaaacagattgcataatgtggcttcaggtttgccgaactctgcaaataatacaagtattaa-ctaccatatttcgaaacagttgca 281  Q
    |||||||| ||||||||||||   |||||||||  ||  | ||||||  |||||||||||||||||| | ||||| ||||||||  || |||   |||||    
T  24682890 ccagcgatttgagaaaaacaggacgcataatgttactcgatgtttgcataactctgcaaataatacatgcattaaactaccatagctccaaatcattgca 24682989  T
Q  282 atgaattgtaagttcttcatgctccttaagtacaatgacagaccaattatta 333  Q
    |||||  | || |||||||||||| | ||| ||||||||| |||||||||||    
T  24682990 atgaaaagaaaattcttcatgctcatcaagaacaatgacaaaccaattatta 24683041  T

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

Target: chr3; HSP #13
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 208 - 274
Target Start/End: Original strand, 24717081 - 24717148
Alignment:
Q  208 cataatgtggcttcaggtttgccgaactctgcaaataatacaagtat-taactaccatatttcgaaac 274  Q
    |||||| | |||| |||||||| ||||||||||||||||||| ||||  ||||||||| |||||||||    
T  24717081 cataatattgcttgaggtttgctgaactctgcaaataatacatgtatcaaactaccatttttcgaaac 24717148  T

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

Target: chr4 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 171 - 218
Target Start/End: Complemental strand, 4037617 - 4037570
Alignment:
Q  171 aaaagaatcatcccagcgatatgagaaaaacagattgcataatgtggc 218  Q
    ||||||||||||||| ||||||||||||||||| ||||||||||||||    
T  4037617 aaaagaatcatcccaacgatatgagaaaaacaggttgcataatgtggc 4037570  T

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



© Oklahoma State University