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: NF5388_low_2 (Length: 501)

Name: NF5388_low_2
Description: NF5388
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5388_low_2
NF5388_low_2
[»] scaffold0003 (4 HSPs)
scaffold0003 (176-499)||(41969-42297)
scaffold0003 (176-499)||(35299-35626)
scaffold0003 (130-170)||(35698-35738)
scaffold0003 (130-170)||(42369-42409)
[»] chr6 (4 HSPs)
chr6 (176-499)||(27445061-27445389)
chr6 (214-351)||(20909759-20909895)
chr6 (214-351)||(20924207-20924343)
chr6 (130-170)||(27444949-27444989)
[»] chr7 (2 HSPs)
chr7 (176-368)||(11504417-11504610)
chr7 (184-357)||(18939810-18939980)
[»] chr8 (2 HSPs)
chr8 (184-425)||(43227138-43227378)
chr8 (237-368)||(42312856-42312987)
[»] chr3 (5 HSPs)
chr3 (184-280)||(53689997-53690093)
chr3 (184-280)||(52310804-52310900)
chr3 (130-170)||(31688687-31688727)
chr3 (130-170)||(31911849-31911889)
chr3 (130-170)||(31945497-31945537)
[»] chr1 (1 HSPs)
chr1 (214-436)||(41326566-41326790)
[»] chr5 (1 HSPs)
chr5 (19-77)||(34508828-34508884)
[»] chr4 (1 HSPs)
chr4 (319-355)||(30180302-30180338)


Alignment Details
Target: scaffold0003 (Bit Score: 199; Significance: 1e-108; HSPs: 4)
Name: scaffold0003
Description:

Target: scaffold0003; HSP #1
Raw Score: 199; E-Value: 1e-108
Query Start/End: Original strand, 176 - 499
Target Start/End: Complemental strand, 42297 - 41969
Alignment:
Q  176 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttca 275  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||||||||||||     
T  42297 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaacattgagttcacttgctttttgaatcttcttagagtttggtgttct 42198  T
Q  276 atgttnnnnnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgttgtttgacaggaagatatctttgttgtcgaagatatctaa 375  Q
    |||||        ||||||||||||| ||||||||||||||| ||||||||||||||||||| ||||||||||||||| ||| ||||||||||| |||||    
T  42197 atgttaaaaaaaattaaaaccactaccataggatgaagcaatagttttagaatcaaatgttgattgacaggaagatatatttattgtcgaagatgtctaa 42098  T
Q  376 ctttcgtccc--gtgtttgttgttatgttatattaccttattagattctatgatcgattatttccttcnnnnnnnatggtcaaatctgcaatttttgttt 473  Q
    ||| |  |||  |||||||||||||||||||||||| |||||||||||||||||||||||||||||||       ||||| |||||||||||||||||||    
T  42097 cttgctgcccctgtgtttgttgttatgttatattactttattagattctatgatcgattatttccttcattctttatggttaaatctgcaatttttgttt 41998  T
Q  474 ---gattcaaaaatatcatgtttgctcct 499  Q
       ||||| ||||||||||||||||||||    
T  41997 gaggattccaaaatatcatgtttgctcct 41969  T

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

Target: scaffold0003; HSP #2
Raw Score: 178; E-Value: 8e-96
Query Start/End: Original strand, 176 - 499
Target Start/End: Complemental strand, 35626 - 35299
Alignment:
Q  176 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttca 275  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||| |||||||||||||||||||||||||  |||||||||||||     
T  35626 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaacattgagttcacttgctttttgaatcttctatgagtttggtgttct 35527  T
Q  276 atgttnnnnnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgttgtttgacaggaagatatctttgttgtcgaagatatctaa 375  Q
    |||||        ||||||||||||| ||||||||||||||| ||||||||||||||||||| ||||||||||||||| ||| ||||||||||| |||||    
T  35526 atgttaaaaaaa-ttaaaaccactaccataggatgaagcaatagttttagaatcaaatgttgattgacaggaagatatatttattgtcgaagatgtctaa 35428  T
Q  376 ctttcgtccc--gtgtttgttgttatgttatattaccttattagattctatgatcgattatttccttcnnnnnnnatggtcaaatctgcaatttttgttt 473  Q
    ||| |  |||  |||||||||||||||||||||||| |||||| ||||||||||||||||||||||||       ||||| ||||||||||||| |||||    
T  35427 cttgctgcccctgtgtttgttgttatgttatattactttattatattctatgatcgattatttccttcattctttatggttaaatctgcaatttctgttt 35328  T
Q  474 ---gattcaaaaatatcatgtttgctcct 499  Q
       ||||| ||||||||||||||||||||    
T  35327 gaggattccaaaatatcatgtttgctcct 35299  T

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

Target: scaffold0003; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 130 - 170
Target Start/End: Complemental strand, 35738 - 35698
Alignment:
Q  130 tatgcgattatgtcttttttgcgtgtttgttcatgatgttt 170  Q
    |||||||||||||||||||||| ||||| ||||||||||||    
T  35738 tatgcgattatgtcttttttgcatgtttcttcatgatgttt 35698  T

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

Target: scaffold0003; HSP #4
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 130 - 170
Target Start/End: Complemental strand, 42409 - 42369
Alignment:
Q  130 tatgcgattatgtcttttttgcgtgtttgttcatgatgttt 170  Q
    |||||||||||||||||||||| ||||| ||||||||||||    
T  42409 tatgcgattatgtcttttttgcatgttttttcatgatgttt 42369  T

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

Target: chr6 (Bit Score: 199; Significance: 1e-108; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 199; E-Value: 1e-108
Query Start/End: Original strand, 176 - 499
Target Start/End: Original strand, 27445061 - 27445389
Alignment:
Q  176 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttca 275  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||||||||||||     
T  27445061 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaacattgagttcacttgctttttgaatcttcttagagtttggtgttct 27445160  T
Q  276 atgttnnnnnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgttgtttgacaggaagatatctttgttgtcgaagatatctaa 375  Q
    |||||        ||||||||||||| ||||||||||||||| ||||||||||||||||||| ||||||||||||||| ||| ||||||||||| |||||    
T  27445161 atgttaaaaaaaattaaaaccactaccataggatgaagcaatagttttagaatcaaatgttgattgacaggaagatatatttattgtcgaagatgtctaa 27445260  T
Q  376 ctttcgtccc--gtgtttgttgttatgttatattaccttattagattctatgatcgattatttccttcnnnnnnnatggtcaaatctgcaatttttgttt 473  Q
    ||| |  |||  |||||||||||||||||||||||| |||||||||||||||||||||||||||||||       ||||| |||||||||||||||||||    
T  27445261 cttgctgcccctgtgtttgttgttatgttatattactttattagattctatgatcgattatttccttcattctttatggttaaatctgcaatttttgttt 27445360  T
Q  474 ---gattcaaaaatatcatgtttgctcct 499  Q
       ||||| ||||||||||||||||||||    
T  27445361 gaggattccaaaatatcatgtttgctcct 27445389  T

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

Target: chr6; HSP #2
Raw Score: 46; E-Value: 5e-17
Query Start/End: Original strand, 214 - 351
Target Start/End: Complemental strand, 20909895 - 20909759
Alignment:
Q  214 aaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgttnnnnnnnnttaaaaccactactataggatgaag 313  Q
    ||||| |||| ||||| ||| | ||||||||||||||||||||||||| |||||||||||| | |||        || |||||||| | ||| |||||||    
T  20909895 aaagaggctacgagaacattgaattcacttgctttttgaatcttcttatagtttggtgttctaagttagaaaaaatt-aaaccactgccatatgatgaag 20909797  T
Q  314 caatcgttttagaatcaaatgttgtttgacaggaagat 351  Q
    |||  ||||||||||||| ||||||| |||||||||||    
T  20909796 caagagttttagaatcaagtgttgttcgacaggaagat 20909759  T

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

Target: chr6; HSP #3
Raw Score: 46; E-Value: 5e-17
Query Start/End: Original strand, 214 - 351
Target Start/End: Complemental strand, 20924343 - 20924207
Alignment:
Q  214 aaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgttnnnnnnnnttaaaaccactactataggatgaag 313  Q
    ||||| |||| ||||| ||| | ||||||||||||||||||||||||| |||||||||||| | |||        || |||||||| | ||| |||||||    
T  20924343 aaagaggctacgagaacattgaattcacttgctttttgaatcttcttatagtttggtgttctaagttagaaaaaatt-aaaccactgccatatgatgaag 20924245  T
Q  314 caatcgttttagaatcaaatgttgtttgacaggaagat 351  Q
    |||  ||||||||||||| ||||||| |||||||||||    
T  20924244 caagagttttagaatcaagtgttgttcgacaggaagat 20924207  T

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

Target: chr6; HSP #4
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 130 - 170
Target Start/End: Original strand, 27444949 - 27444989
Alignment:
Q  130 tatgcgattatgtcttttttgcgtgtttgttcatgatgttt 170  Q
    |||||||||||||||||||||| ||||||||||||||||||    
T  27444949 tatgcgattatgtcttttttgcatgtttgttcatgatgttt 27444989  T

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

Target: chr7 (Bit Score: 86; Significance: 7e-41; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 86; E-Value: 7e-41
Query Start/End: Original strand, 176 - 368
Target Start/End: Original strand, 11504417 - 11504610
Alignment:
Q  176 tgagtttagtgttacaaagtgagcttgaaaatctatacaaagatgctatgaga-aaatttagttcacttgctttttgaatcttcttagagtttggtgttc 274  Q
    |||||| |||||| ||||||||||||||||||||||| ||||| |||||||||  |||  | |||||||||||||||||| ||| |||||||||||||||    
T  11504417 tgagttcagtgtttcaaagtgagcttgaaaatctatagaaagaggctatgagaccaatacaattcacttgctttttgaattttcctagagtttggtgttc 11504516  T
Q  275 aatgttnnnnnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgttgtttgacaggaagatatctttgttgtcgaaga 368  Q
     |||||        ||||||||||||| ||| ||||||||||  ||||||||||||| |||||||||||| ||||||||||||||  |||||||    
T  11504517 tatgttaaaaaaatttaaaaccactaccatatgatgaagcaagagttttagaatcaagtgttgtttgacatgaagatatctttgtaatcgaaga 11504610  T

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

Target: chr7; HSP #2
Raw Score: 44; E-Value: 8e-16
Query Start/End: Original strand, 184 - 357
Target Start/End: Complemental strand, 18939980 - 18939810
Alignment:
Q  184 gtgttacaaagtgagcttgaaaatctatacaaagatgctatgaga-aaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgttnn 282  Q
    ||||| ||||||||||||||||||||||| ||||| |||||||||  ||   | |||||||||||||||||| ||||||||| || |||||| |||||      
T  18939980 gtgtttcaaagtgagcttgaaaatctatagaaagaggctatgagaccaaaacaattcacttgctttttgaattttcttagaggtttgtgttctatgttaa 18939881  T
Q  283 nnnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgttgtttgacaggaagatatcttt 357  Q
            |||| |||||  ||| |||||| |||  ||||||||||||| |||||||||  ||||||||||||||    
T  18939880 aaaa----aaaaacactaacatatgatgaatcaagagttttagaatcaagtgttgtttggaaggaagatatcttt 18939810  T

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

Target: chr8 (Bit Score: 78; Significance: 4e-36; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 78; E-Value: 4e-36
Query Start/End: Original strand, 184 - 425
Target Start/End: Original strand, 43227138 - 43227378
Alignment:
Q  184 gtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgttnnn 283  Q
    |||||||||||||||||||| ||| |||| |||||||||||||||| ||| | |||||||| |||||||||| || | ||||||||||||| |||||       
T  43227138 gtgttacaaagtgagcttgagaatatatagaaagatgctatgagaacattgaattcacttgatttttgaatc-tcattgagtttggtgttctatgtt-aa 43227235  T
Q  284 nnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgttgtttgacaggaagatatctttgttgtcgaagatatctaactt-tcgt 382  Q
         ||||||| ||||| ||||||||||||||  ||||||||||||| |||| |||||||||||||||||| | | || ||||| || | ||||  |||    
T  43227236 aaaaattaaaactactaccataggatgaagcaagagttttagaatcaagtgttctttgacaggaagatatctctatagttgaagacatgttacttgacgt 43227335  T
Q  383 cccgtgtttgttgttatgttatattaccttattagattctatg 425  Q
      |||||||||| |||||||||||||| |||| ||||| ||||    
T  43227336 agcgtgtttgttattatgttatattactttatcagattttatg 43227378  T

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

Target: chr8; HSP #2
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 237 - 368
Target Start/End: Complemental strand, 42312987 - 42312856
Alignment:
Q  237 ttcacttgctttttgaatcttcttagagtttggtgttcaatgttnnnnnnnnttaaaaccactactataggatgaagcaatcgttttagaatcaaatgtt 336  Q
    ||||||||||||||| ||||||||| |||||||||||| |||||         | |||||||| | ||| ||||||||||  || |||||||||| ||||    
T  42312987 ttcacttgctttttgtatcttcttatagtttggtgttctatgttagaaaaaaattaaaccactgccatacgatgaagcaagagtattagaatcaagtgtt 42312888  T
Q  337 gtttgacaggaagatatctttgttgtcgaaga 368  Q
    ||| ||||||||||| ||| |||  |||||||    
T  42312887 gttcgacaggaagatctctctgtaatcgaaga 42312856  T

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

Target: chr3 (Bit Score: 69; Significance: 9e-31; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 69; E-Value: 9e-31
Query Start/End: Original strand, 184 - 280
Target Start/End: Original strand, 53689997 - 53690093
Alignment:
Q  184 gtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgtt 280  Q
    ||||| ||||||||||||||||||||||| |||||||||||||||| ||| | ||||||| |||||||||||||||||||||||||||||| |||||    
T  53689997 gtgtttcaaagtgagcttgaaaatctatagaaagatgctatgagaacattgaattcactttctttttgaatcttcttagagtttggtgttctatgtt 53690093  T

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

Target: chr3; HSP #2
Raw Score: 65; E-Value: 2e-28
Query Start/End: Original strand, 184 - 280
Target Start/End: Complemental strand, 52310900 - 52310804
Alignment:
Q  184 gtgttacaaagtgagcttgaaaatctatacaaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgtt 280  Q
    ||||| ||||||||||||||||||||||| ||||| |||||||||| ||| | ||||||| |||||||||||||||||||||||||||||| |||||    
T  52310900 gtgtttcaaagtgagcttgaaaatctatagaaagaggctatgagaacattaaattcactttctttttgaatcttcttagagtttggtgttctatgtt 52310804  T

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

Target: chr3; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 130 - 170
Target Start/End: Original strand, 31688687 - 31688727
Alignment:
Q  130 tatgcgattatgtcttttttgcgtgtttgttcatgatgttt 170  Q
    |||||||||||||||||||||| ||||||||||||||||||    
T  31688687 tatgcgattatgtcttttttgcatgtttgttcatgatgttt 31688727  T

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

Target: chr3; HSP #4
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 130 - 170
Target Start/End: Complemental strand, 31911889 - 31911849
Alignment:
Q  130 tatgcgattatgtcttttttgcgtgtttgttcatgatgttt 170  Q
    |||||||||||||||||||||| ||||||||||||||||||    
T  31911889 tatgcgattatgtcttttttgcatgtttgttcatgatgttt 31911849  T

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

Target: chr3; HSP #5
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 130 - 170
Target Start/End: Complemental strand, 31945537 - 31945497
Alignment:
Q  130 tatgcgattatgtcttttttgcgtgtttgttcatgatgttt 170  Q
    |||||||||||||||||||||| ||||||||||||||||||    
T  31945537 tatgcgattatgtcttttttgcatgtttgttcatgatgttt 31945497  T

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

Target: chr1 (Bit Score: 50; Significance: 2e-19; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 214 - 436
Target Start/End: Complemental strand, 41326790 - 41326566
Alignment:
Q  214 aaagatgctatgagaaaatttagttcacttgctttttgaatcttcttagagtttggtgttcaatgttnnnnnnnnttaaaaccactactataggatgaag 313  Q
    ||||| ||||| |||| ||| | ||||||||||||||||||||||||| |||||||||||| |||||         | |||||||| | ||| |||||||    
T  41326790 aaagaggctataagaacattgaattcacttgctttttgaatcttcttatagtttggtgttctatgttagaaaaaaattaaaccactgccatatgatgaag 41326691  T
Q  314 caatcgttttagaatcaaatgttgtttgacaggaagatatctttgttgtcgaagatatctaactt--tcgtcccgtgtttgttgttatgttatattacct 411  Q
    |||  ||||||||||||| | ||||| ||||||||||| ||| |||  |||||||  ||| ||||  |    | |||||| ||||||||||||||||| |    
T  41326690 caagagttttagaatcaagttttgttcgacaggaagatctctctgtaatcgaagacgtcttacttgatgccactgtgtttattgttatgttatattactt 41326591  T
Q  412 tattagattctatgatcgattattt 436  Q
    ||| | ||||||||||  |||||||    
T  41326590 tatcatattctatgattaattattt 41326566  T

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

Target: chr5 (Bit Score: 32; Significance: 0.00000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 19 - 77
Target Start/End: Complemental strand, 34508884 - 34508828
Alignment:
Q  19 gttcgtgagttttttcttaaggattcatgaggttcataagttaacattaaattgcttaa 77  Q
    |||||||||||||||  ||||||| || ||| ||||| |||||||||||||||||||||    
T  34508884 gttcgtgagtttttt--taaggatccacgagattcatgagttaacattaaattgcttaa 34508828  T

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

Target: chr4 (Bit Score: 29; Significance: 0.0000007; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 319 - 355
Target Start/End: Original strand, 30180302 - 30180338
Alignment:
Q  319 gttttagaatcaaatgttgtttgacaggaagatatct 355  Q
    ||||||||||||| |||||||||||| ||||||||||    
T  30180302 gttttagaatcaattgttgtttgacaagaagatatct 30180338  T

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



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