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: NF9684_low_3 (Length: 456)

Name: NF9684_low_3
Description: NF9684
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9684_low_3
NF9684_low_3
[»] chr4 (5 HSPs)
chr4 (15-398)||(10977763-10978141)
chr4 (138-249)||(38937462-38937573)
chr4 (393-437)||(10783050-10783094)
chr4 (144-251)||(46551147-46551254)
chr4 (280-329)||(38937384-38937433)
[»] chr6 (2 HSPs)
chr6 (332-421)||(24253059-24253148)
chr6 (332-429)||(22566920-22567017)
[»] scaffold0041 (1 HSPs)
scaffold0041 (138-226)||(93605-93692)
[»] chr7 (1 HSPs)
chr7 (138-226)||(40872590-40872677)
[»] chr8 (2 HSPs)
chr8 (328-417)||(24537491-24537580)
chr8 (357-417)||(26825904-26825964)
[»] chr3 (4 HSPs)
chr3 (341-424)||(11224049-11224131)
chr3 (364-417)||(16230717-16230770)
chr3 (342-417)||(3398548-3398623)
chr3 (355-405)||(3387140-3387190)
[»] chr5 (3 HSPs)
chr5 (262-330)||(29007502-29007570)
chr5 (350-417)||(20550067-20550134)
chr5 (364-417)||(24187819-24187872)
[»] scaffold0427 (1 HSPs)
scaffold0427 (342-427)||(4736-4821)
[»] chr2 (1 HSPs)
chr2 (353-390)||(29652690-29652727)
[»] scaffold0472 (1 HSPs)
scaffold0472 (138-226)||(8705-8792)


Alignment Details
Target: chr4 (Bit Score: 313; Significance: 1e-176; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 313; E-Value: 1e-176
Query Start/End: Original strand, 15 - 398
Target Start/End: Complemental strand, 10978141 - 10977763
Alignment:
Q  15 cataggtaataatagcatttaatttagatcaaattttcattgcataatagtatttaggtcattagagtcaatcgagtcaagtaaccaatttggaatcgac 114  Q
    |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||    
T  10978141 cataggtaataatagcatttaatttagatcaaatttgcattgcataatagtatttaggtcattagagtcaatcgagtcaagtaaccaatttggaatcaac 10978042  T
Q  115 accaacctaaacaatttaaaattgagcgctgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgctt 214  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  10978041 accaacctaaacaatttaaaattgagcgctgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgctt 10977942  T
Q  215 aaaccgctcaatgaatgaaattcgggatttggtggaagnnnnnnnnnggtagcttgtattgtacggttgtgaagaattcgtgataaaagttatcgcaata 314  Q
    ||||||||||||||||||||||| |||||||||||||          ||| ||||||||||||| ||  |||||||||| |||||||||||||||| |||    
T  10977941 aaaccgctcaatgaatgaaattccggatttggtggaa-----aaaaaggttgcttgtattgtacagtcatgaagaattcctgataaaagttatcgcgata 10977847  T
Q  315 tcaagcattacgctttaaaattaagtgcaaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggt 398  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  10977846 tcaagcattacgctttaaaattaagtgcaaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggt 10977763  T

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

Target: chr4; HSP #2
Raw Score: 60; E-Value: 2e-25
Query Start/End: Original strand, 138 - 249
Target Start/End: Complemental strand, 38937573 - 38937462
Alignment:
Q  138 gagcgctgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgcttaaaccgctcaatgaatgaaattc 237  Q
    |||||| |||||||||||| ||||||||||||   ||||||||||||||| |||||||||||||||||||||||  ||||||||||||| |   ||||||    
T  38937573 gagcgccgctaaatccagccacaattcttttcccaaaaattccacgaagtgcaatattgctttaataaaacgtggctaaaccgctcaatcacctaaattc 38937474  T
Q  238 gggatttggtgg 249  Q
     |||||||||||    
T  38937473 cggatttggtgg 38937462  T

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

Target: chr4; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 393 - 437
Target Start/End: Complemental strand, 10783094 - 10783050
Alignment:
Q  393 ataggtaaccatggaagcaaccaaagacgcacaagtggtgacaat 437  Q
    |||||||||||||||| |||||||||||||| |||||||||||||    
T  10783094 ataggtaaccatggaaacaaccaaagacgcataagtggtgacaat 10783050  T

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

Target: chr4; HSP #4
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 144 - 251
Target Start/End: Original strand, 46551147 - 46551254
Alignment:
Q  144 tgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgcttaaaccgctcaatgaatgaaattcgggatt 243  Q
    |||||||||||||||||||  |||||   |||||||||||||   || | ||||||||| ||||||||| ||||| ||||||| |   ||||||  ||||    
T  46551147 tgctaaatccagcgacaatcattttcccaaaaattccacgaaccgcatttttgctttaagaaaacgtgcctaaactgctcaatcacctaaattccagatt 46551246  T
Q  244 tggtggaa 251  Q
    ||||||||    
T  46551247 tggtggaa 46551254  T

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

Target: chr4; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 280 - 329
Target Start/End: Complemental strand, 38937433 - 38937384
Alignment:
Q  280 gttgtgaagaattcgtgataaaagttatcgcaatatcaagcattacgctt 329  Q
    ||||||||  |||||||||||||||| |||| ||||||||||||| ||||    
T  38937433 gttgtgaaacattcgtgataaaagttgtcgcgatatcaagcattatgctt 38937384  T

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

Target: chr6 (Bit Score: 66; Significance: 5e-29; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 66; E-Value: 5e-29
Query Start/End: Original strand, 332 - 421
Target Start/End: Original strand, 24253059 - 24253148
Alignment:
Q  332 aaattaagtgcaaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaagacg 421  Q
    |||| ||| ||||||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||| ||||||||||||||||||||    
T  24253059 aaatcaagcgcaaccttatcattgttaggaaattttctcgaacttgtgattattgtgtgaaataggtaatcatggaagcaaccaaagacg 24253148  T

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

Target: chr6; HSP #2
Raw Score: 58; E-Value: 3e-24
Query Start/End: Original strand, 332 - 429
Target Start/End: Original strand, 22566920 - 22567017
Alignment:
Q  332 aaattaagtgcaaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaagacgcacaagtg 429  Q
    |||| ||| ||||||||||| |||||||||||||||||||| ||||| ||||||||||| ||||||||| ||  |||||||| |||||||||||||||    
T  22566920 aaatcaagagcaaccttatcattgttaggaaattttctcgagcttgtgattattgtgtgaaataggtaatcacagaagcaactaaagacgcacaagtg 22567017  T

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

Target: scaffold0041 (Bit Score: 53; Significance: 3e-21; HSPs: 1)
Name: scaffold0041
Description:

Target: scaffold0041; HSP #1
Raw Score: 53; E-Value: 3e-21
Query Start/End: Original strand, 138 - 226
Target Start/End: Original strand, 93605 - 93692
Alignment:
Q  138 gagcgctgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgcttaaaccgctcaat 226  Q
    ||||||||||||||||||||||||||||||||  |||||||||||||||| | || |||| |||||||||||||  |||||||||||||    
T  93605 gagcgctgctaaatccagcgacaattcttttcccgaaaattccacgaagtgc-attttgccttaataaaacgtggctaaaccgctcaat 93692  T

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

Target: chr7 (Bit Score: 53; Significance: 3e-21; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 53; E-Value: 3e-21
Query Start/End: Original strand, 138 - 226
Target Start/End: Complemental strand, 40872677 - 40872590
Alignment:
Q  138 gagcgctgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgcttaaaccgctcaat 226  Q
    ||||||||||||||||||||||||||||||||  |||||||||||||||| | || |||| |||||||||||||  |||||||||||||    
T  40872677 gagcgctgctaaatccagcgacaattcttttcccgaaaattccacgaagtgc-attttgccttaataaaacgtggctaaaccgctcaat 40872590  T

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

Target: chr8 (Bit Score: 46; Significance: 5e-17; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 46; E-Value: 5e-17
Query Start/End: Original strand, 328 - 417
Target Start/End: Complemental strand, 24537580 - 24537491
Alignment:
Q  328 tttaaaattaagtgcaaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaa 417  Q
    |||||||| ||  |||| |||||  |||||||||||||||||||||| ||  ||||||||||| ||||||||||||||||| ||||||||    
T  24537580 tttaaaatcaatcgcaaacttattattgttaggaaattttctcgaacctgcaattattgtgtgaaataggtaaccatggaatcaaccaaa 24537491  T

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

Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 357 - 417
Target Start/End: Original strand, 26825904 - 26825964
Alignment:
Q  357 taggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaa 417  Q
    |||||| |||| ||||| |||  ||||||||||| |||||||||| |||||| ||||||||    
T  26825904 taggaatttttttcgaagttgcaattattgtgtgaaataggtaacaatggaatcaaccaaa 26825964  T

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

Target: chr3 (Bit Score: 44; Significance: 7e-16; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 341 - 424
Target Start/End: Complemental strand, 11224131 - 11224049
Alignment:
Q  341 gcaaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaagacgcac 424  Q
    ||||| ||||||||||||||||||||  ||||||| || ||||||||||| | ||| |||||||| ||||||||||||||||||    
T  11224131 gcaacattatctttgttaggaaattta-tcgaactagtgattattgtgtgaattagctaaccatgaaagcaaccaaagacgcac 11224049  T

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

Target: chr3; HSP #2
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 364 - 417
Target Start/End: Original strand, 16230717 - 16230770
Alignment:
Q  364 ttttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaa 417  Q
    ||||||||||||||  ||||||||||| ||||||||||||||||  ||||||||    
T  16230717 ttttctcgaacttgcaattattgtgtgaaataggtaaccatggactcaaccaaa 16230770  T

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

Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 342 - 417
Target Start/End: Original strand, 3398548 - 3398623
Alignment:
Q  342 caaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaa 417  Q
    |||||||||  | ||||||||||| |||| ||||||  ||||||||||| ||||||||| |||| || ||||||||    
T  3398548 caaccttattctcgttaggaaattatctcaaacttgcaattattgtgtgaaataggtaatcatgtaatcaaccaaa 3398623  T

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

Target: chr3; HSP #4
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 355 - 405
Target Start/End: Original strand, 3387140 - 3387190
Alignment:
Q  355 gttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatg 405  Q
    ||||||||||||||||||| |||  ||||||||||| ||||||||| ||||    
T  3387140 gttaggaaattttctcgaatttgaaattattgtgtgaaataggtaatcatg 3387190  T

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

Target: chr5 (Bit Score: 41; Significance: 0.00000000000004; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 262 - 330
Target Start/End: Original strand, 29007502 - 29007570
Alignment:
Q  262 ggtagcttgtattgtacggttgtgaagaattcgtgataaaagttatcgcaatatcaagcattacgcttt 330  Q
    ||||||||||| ||| | ||||||||| |||||||||||||||| |||| |||| ||||||||||||||    
T  29007502 ggtagcttgtactgtgcagttgtgaagcattcgtgataaaagttgtcgcgatattaagcattacgcttt 29007570  T

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

Target: chr5; HSP #2
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 350 - 417
Target Start/End: Original strand, 20550067 - 20550134
Alignment:
Q  350 tctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaa 417  Q
    |||||||||||||  ||||||||||||   ||||||||||| ||||||||||||||||  ||||||||    
T  20550067 tctttgttaggaatatttctcgaacttacaattattgtgtgaaataggtaaccatggactcaaccaaa 20550134  T

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

Target: chr5; HSP #3
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 364 - 417
Target Start/End: Original strand, 24187819 - 24187872
Alignment:
Q  364 ttttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaa 417  Q
    ||||||||||||||  ||||||||||| ||||||||||||| ||| ||||||||    
T  24187819 ttttctcgaacttgaaattattgtgtgaaataggtaaccattgaatcaaccaaa 24187872  T

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

Target: scaffold0427 (Bit Score: 34; Significance: 0.0000000007; HSPs: 1)
Name: scaffold0427
Description:

Target: scaffold0427; HSP #1
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 342 - 427
Target Start/End: Original strand, 4736 - 4821
Alignment:
Q  342 caaccttatctttgttaggaaattttctcgaacttgttattattgtgtggaataggtaaccatggaagcaaccaaagacgcacaag 427  Q
    ||||||||  ||||||||||||||||||||||||||  | ||| ||||| |||| || | ||||||| |||||||| | |||||||    
T  4736 caaccttaattttgttaggaaattttctcgaacttgcaactatggtgtgaaatatgttagcatggaatcaaccaaaaaggcacaag 4821  T

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

Target: chr2 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 353 - 390
Target Start/End: Original strand, 29652690 - 29652727
Alignment:
Q  353 ttgttaggaaattttctcgaacttgttattattgtgtg 390  Q
    |||||||||||||||||||||||||  |||||||||||    
T  29652690 ttgttaggaaattttctcgaacttgcaattattgtgtg 29652727  T

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

Target: scaffold0472 (Bit Score: 29; Significance: 0.0000006; HSPs: 1)
Name: scaffold0472
Description:

Target: scaffold0472; HSP #1
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 138 - 226
Target Start/End: Complemental strand, 8792 - 8705
Alignment:
Q  138 gagcgctgctaaatccagcgacaattcttttcaagaaaattccacgaagtacaatattgctttaataaaacgtgcttaaaccgctcaat 226  Q
    |||| |||||| ||||||||||||| ||||||   ||||||||| ||||| || | || || ||||||||||||  |||||||||||||    
T  8792 gagcactgctagatccagcgacaat-cttttctcaaaaattccatgaagtgcatttttactataataaaacgtggctaaaccgctcaat 8705  T

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



© Oklahoma State University