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: NF20880_low_1 (Length: 473)

Name: NF20880_low_1
Description: NF20880
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF20880_low_1
NF20880_low_1
[»] chr4 (22 HSPs)
chr4 (16-461)||(2391146-2391591)
chr4 (19-275)||(2381521-2381777)
chr4 (36-274)||(2380274-2380512)
chr4 (19-461)||(2382630-2383069)
chr4 (308-461)||(2380558-2380713)
chr4 (350-462)||(2381814-2381928)
chr4 (126-258)||(2533992-2534124)
chr4 (125-188)||(2621399-2621462)
chr4 (135-258)||(2547223-2547346)
chr4 (67-188)||(2525504-2525625)
chr4 (149-258)||(2367923-2368032)
chr4 (148-188)||(12124594-12124634)
chr4 (143-188)||(2361217-2361262)
chr4 (59-188)||(2467294-2467423)
chr4 (143-180)||(2486064-2486101)
chr4 (63-95)||(2376407-2376439)
chr4 (148-189)||(2373488-2373529)
chr4 (219-260)||(12124522-12124563)
chr4 (125-180)||(2393829-2393885)
chr4 (58-102)||(2477421-2477465)
chr4 (218-258)||(2625588-2625628)
chr4 (148-180)||(12126658-12126690)
[»] chr5 (1 HSPs)
chr5 (136-193)||(41900496-41900553)


Alignment Details
Target: chr4 (Bit Score: 389; Significance: 0; HSPs: 22)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 389; E-Value: 0
Query Start/End: Original strand, 16 - 461
Target Start/End: Original strand, 2391146 - 2391591
Alignment:
Q  16 caccaacctcaattacttctctcaacacaatcaccccaacacgcttcttacccaaatctccactttccctttagacctcagatcgctcattctttccaac 115  Q
    |||||||||||||||||||||||||  ||||| ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||    
T  2391146 caccaacctcaattacttctctcaatgcaatcgccccaacacgcttcttacccaaatctccactttccctttagtcctcagatcgctcattctttccaac 2391245  T
Q  116 ttctacaaaattcctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaagg 215  Q
    ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||       |||||||||||||||    
T  2391246 ttctacaaaatccctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgttccgaatttttttggatcaacaagaagg 2391345  T
Q  216 atatcttcttcattgttgattgcttccctttacttgaagaacttgttctcaaggaaacagactgcactgattacacttctgctaggaagttcgattttgt 315  Q
    |||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||    
T  2391346 atatcttcttcattgttgattgcttccctttactcgaagaacttgttctcaaggaaacagactgcagtgattacacttctgctaggaagttcgattttgt 2391445  T
Q  316 gctagatgaagataatcattttttggcacttcccaaactccgaaagattagtttgtatggttatgacatcgatagccaatttattgattatctccacagc 415  Q
    |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  2391446 gctagatgaagataataattttttggcacttcccaaactccgaaagattagtttgtatggttatgacatcgatagccaatttattgattatctccacagc 2391545  T
Q  416 aaccctcgacctttcagaggagaagaataacctagatggtgatgat 461  Q
    ||||||||||||||||||||||||||||||||||||||||||||||    
T  2391546 aaccctcgacctttcagaggagaagaataacctagatggtgatgat 2391591  T

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

Target: chr4; HSP #2
Raw Score: 152; E-Value: 3e-80
Query Start/End: Original strand, 19 - 275
Target Start/End: Original strand, 2381521 - 2381777
Alignment:
Q  19 caacctcaattacttctctcaacacaatcaccccaacacgcttcttacccaaatctccactttccctttagacctcagatcgctcattctttccaacttc 118  Q
    |||||||| |||||| |||| ||||||||||||||||| ||||||||||||||||||| |||||||||||||||||| |||||||||| | ||||| ||     
T  2381521 caacctcacttacttttctctacacaatcaccccaacatgcttcttacccaaatctccgctttccctttagacctcaaatcgctcattttctccaagttt 2381620  T
Q  119 tacaaaattcctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaaggata 218  Q
    |  ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  |||       |||||||||||||||||     
T  2381621 tttaaaatccctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgttctgaaattacttggatcaacaagaaggatt 2381720  T
Q  219 tcttcttcattgttgattgcttccctttacttgaagaacttgttctcaaggaaacag 275  Q
    |||| |||||||| ||||||||||||||||| |||||||| ||||||||| ||||||    
T  2381721 tcttattcattgtcgattgcttccctttactcgaagaactcgttctcaagaaaacag 2381777  T

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

Target: chr4; HSP #3
Raw Score: 102; E-Value: 2e-50
Query Start/End: Original strand, 36 - 274
Target Start/End: Original strand, 2380274 - 2380512
Alignment:
Q  36 ctcaacacaatcaccccaacacgcttcttacccaaatctccactttccctttagacctcagatcgctcattctttccaacttctacaaaattcctaaaga 135  Q
    ||||| ||||||||| ||||||||||||||| ||||||||| |||| |||||||| |||| |||||||||||| |||||| ||| |||||| || ||| |    
T  2380274 ctcaatacaatcacctcaacacgcttcttacacaaatctccgctttacctttagatctcaaatcgctcattctctccaacctcttcaaaatcccgaaaaa 2380373  T
Q  136 tgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaaggatatcttcttcattgttgat 235  Q
    ||| || ||| |||||||||||||||||||||||||||| ||| | |  |||||| ||       ||||||| ||||||||||| | |||||||| ||||    
T  2380374 tggattgcgacctttgtccaaaaagatgaaaaatttgacttctttcatgtgtttcaaaattacttggatcaataagaaggatatttacttcattgctgat 2380473  T
Q  236 tgcttccctttacttgaagaacttgttctcaaggaaaca 274  Q
    |||||||||| |||||||| ||| |||||||||||||||    
T  2380474 tgcttcccttcacttgaagtactcgttctcaaggaaaca 2380512  T

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

Target: chr4; HSP #4
Raw Score: 96; E-Value: 7e-47
Query Start/End: Original strand, 19 - 461
Target Start/End: Original strand, 2382630 - 2383069
Alignment:
Q  19 caacctcaattacttctctcaacacaatcaccccaacacgcttcttacccaaa-tctccactttccctttagacctcagatcgctcattctttccaactt 117  Q
    |||||||| | ||||||||||| ||||| ||| ||||||||||||||  |||| ||||   ||  |||||||| |||| ||| |||||||| |||||| |    
T  2382630 caacctcactcacttctctcaatacaattacctcaacacgcttcttatgcaaaatctctgtttcacctttagatctcaaatcactcattctctccaacct 2382729  T
Q  118 ctacaaaattcctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaaggat 217  Q
    || |||||| | || | |||| || |||||||||||||||||||||||||| ||||| ||| | | ||||||| ||         || |   ||||||||    
T  2382730 cttcaaaatccatataaatggattgcgagctttgtccaaaaagatgaaaaaattgacttctttcatttgtttcaaa---------attacgtagaaggat 2382820  T
Q  218 atcttcttcattgttgattgcttccctttacttgaagaacttgttctcaaggaaacagactgcactgat---tacacttctgctaggaagttcgattttg 314  Q
    ||||  |||||||   |||||||||||||||| || | ||| |||||||||||||||   |||   | |   ||| ||||| || |||| ||  ||||||    
T  2382821 atctatttcattgccaattgcttccctttactcgatgtactcgttctcaaggaaacatgatgcgtaggtcagtacccttctacttggaacttttattttg 2382920  T
Q  315 tgctagatgaagataatcattttttggcacttcccaaactccgaaagattagtttgtatggttatgacatcgatagccaatttattgattatctccacag 414  Q
    |||||||||| |||||||| ||||||||||||||||||||||||||||||| |||||||||| ||  ||||||||||||| ||||| ||||||| | ||     
T  2382921 tgctagatgatgataatcaatttttggcacttcccaaactccgaaagattaatttgtatggtaattccatcgatagccaaattattaattatcttcgcaa 2383020  T
Q  415 caaccctcgaccttt--cagaggagaagaataacctagatggtgatgat 461  Q
     |||| | |||||||  ||||||||||||||||| |||||||| |||||    
T  2383021 aaaccgtggacctttcacagaggagaagaataacttagatggtaatgat 2383069  T

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

Target: chr4; HSP #5
Raw Score: 69; E-Value: 9e-31
Query Start/End: Original strand, 308 - 461
Target Start/End: Original strand, 2380558 - 2380713
Alignment:
Q  308 gattttgtgctagatgaagataatcattttttggcacttcccaaactccgaaagattagtttgtatggttatgacatcgatagccaatttattgattatc 407  Q
    ||||||| ||||||||| |||||| | ||||| |||||||| ||||||||||||||||||||||||||| |   ||||||||||||| ||||| ||||||    
T  2380558 gattttgagctagatgatgataataaatttttagcacttccaaaactccgaaagattagtttgtatggtaactccatcgatagccaaattattaattatc 2380657  T
Q  408 tccacagcaaccctcgacctttca--gaggagaagaataacctagatggtgatgat 461  Q
    ||| ||  |||| | |||||||||  ||||||||||||||| |||||||| |||||    
T  2380658 tccgcaaaaaccgtggacctttcacggaggagaagaataacttagatggtaatgat 2380713  T

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

Target: chr4; HSP #6
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 350 - 462
Target Start/End: Original strand, 2381814 - 2381928
Alignment:
Q  350 aaactccgaaagattagtttgtatggttatgacatcgatagccaatttattgattatctccacagcaaccctcgaccttt--cagaggagaagaataacc 447  Q
    |||||||||||||||||||||  ||||  | |||| ||| ||||||||||| ||||||||| || ||||| | |||||||  ||||| |||||||||||     
T  2381814 aaactccgaaagattagtttgcgtggtatttacattgatcgccaatttattaattatctccgcaacaaccgtggacctttcacagagtagaagaataact 2381913  T
Q  448 tagatggtgatgatg 462  Q
    |||||||| ||||||    
T  2381914 tagatggtaatgatg 2381928  T

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

Target: chr4; HSP #7
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 126 - 258
Target Start/End: Complemental strand, 2534124 - 2533992
Alignment:
Q  126 ttcctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaaggatatcttctt 225  Q
    ||||| || ||| |||||||||||||||||| |||||||||||||| || ||||| |||||||   ||         ||||||||||| ||| |||||||    
T  2534124 ttcctgaaaatgagttccgagctttgtccaagaagatgaaaaatttaacatctctcacttgttatcaaatgagctatatcaacaagaatgatctcttctt 2534025  T
Q  226 cattgttgattgcttccctttacttgaagaact 258  Q
     |||| |||||| ||||||||||||||||||||    
T  2534024 gattgctgattgtttccctttacttgaagaact 2533992  T

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

Target: chr4; HSP #8
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 125 - 188
Target Start/End: Original strand, 2621399 - 2621462
Alignment:
Q  125 attcctaaagatgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtt 188  Q
    ||||||| ||||||||| |||||||| |||||||| |||||||||||||| ||||| |||||||    
T  2621399 attcctacagatgggttgcgagctttctccaaaaatatgaaaaatttgacatctctcacttgtt 2621462  T

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

Target: chr4; HSP #9
Raw Score: 39; E-Value: 0.0000000000007
Query Start/End: Original strand, 135 - 258
Target Start/End: Complemental strand, 2547346 - 2547223
Alignment:
Q  135 atgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaaggatatcttcttcattgttga 234  Q
    ||||||| |||||||||||  ||||||||||||||||||| ||||| | ||||| | ||         |||| |||||| ||| | |||||||||| |||    
T  2547346 atgggttgcgagctttgtctgaaaagatgaaaaatttgacgtctctcatttgttccaaaatcacctttatcagcaagaatgatttattcttcattgctga 2547247  T
Q  235 ttgcttccctttacttgaagaact 258  Q
    ||| ||||||||||||||||||||    
T  2547246 ttgtttccctttacttgaagaact 2547223  T

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

Target: chr4; HSP #10
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 67 - 188
Target Start/End: Complemental strand, 2525625 - 2525504
Alignment:
Q  67 ccaaatctccactttccctttagacctcagatcgctcattctttccaacttctacaaaattcctaaagatgggttccgagctttgtccaaaaagatgaaa 166  Q
    ||||||||||||||||||||||||||||| |||||||| ||| | | ||  |  |||  ||||| || ||| ||| || | ||||||||| || ||||||    
T  2525625 ccaaatctccactttccctttagacctcaaatcgctcactctctaccacccccccaaggttcctcaaaatgagttgcgtgttttgtccaagaaaatgaaa 2525526  T
Q  167 aatttgacctctcttacttgtt 188  Q
    |||||||| ||||| |||||||    
T  2525525 aatttgacatctctcacttgtt 2525504  T

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

Target: chr4; HSP #11
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 149 - 258
Target Start/End: Original strand, 2367923 - 2368032
Alignment:
Q  149 ttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaannnnnnnggatcaacaagaaggatatcttcttcattgttgattgcttccctttac 248  Q
    |||||||||| ||||||||| ||||||||||||||||||| || |       | ||  ||||||  ||| |||||||||||| |||||| ||||||||||    
T  2367923 ttgtccaaaaggatgaaaaacttgacctctcttacttgttccggaatgattagtattcacaagagtgatctcttcttcattgctgattgtttccctttac 2368022  T
Q  249 ttgaagaact 258  Q
    | ||||||||    
T  2368023 tcgaagaact 2368032  T

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

Target: chr4; HSP #12
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 148 - 188
Target Start/End: Complemental strand, 12124634 - 12124594
Alignment:
Q  148 tttgtccaaaaagatgaaaaatttgacctctcttacttgtt 188  Q
    ||||||||||||||||||||||||||||||||| |||||||    
T  12124634 tttgtccaaaaagatgaaaaatttgacctctctcacttgtt 12124594  T

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

Target: chr4; HSP #13
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 143 - 188
Target Start/End: Original strand, 2361217 - 2361262
Alignment:
Q  143 cgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtt 188  Q
    ||||||||||||||||| |||||||||||||| ||||| |||||||    
T  2361217 cgagctttgtccaaaaaaatgaaaaatttgacatctctcacttgtt 2361262  T

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

Target: chr4; HSP #14
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 59 - 188
Target Start/End: Complemental strand, 2467423 - 2467294
Alignment:
Q  59 cttcttacccaaatctccactttccctttagacctcagatcgctcattctttccaacttctacaaaattcctaaagatgggttccgagctttgtccaaaa 158  Q
    ||||||||| ||||||||||||||||||| ||||||| ||| |||| ||| | | ||  |   |   |||||  ||||||||| |||||||| ||||||     
T  2467423 cttcttaccaaaatctccactttccctttggacctcaaatccctcactctctaccaccccataacggttcctgcagatgggttgcgagctttctccaaag 2467324  T
Q  159 agatgaaaaatttgacctctcttacttgtt 188  Q
    |||||||||||||||| || || |||||||    
T  2467323 agatgaaaaatttgacatcactcacttgtt 2467294  T

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

Target: chr4; HSP #15
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 143 - 180
Target Start/End: Complemental strand, 2486101 - 2486064
Alignment:
Q  143 cgagctttgtccaaaaagatgaaaaatttgacctctct 180  Q
    |||||||||||||||||||||||||||||||| |||||    
T  2486101 cgagctttgtccaaaaagatgaaaaatttgacatctct 2486064  T

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

Target: chr4; HSP #16
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 63 - 95
Target Start/End: Original strand, 2376407 - 2376439
Alignment:
Q  63 ttacccaaatctccactttccctttagacctca 95  Q
    |||||||||||||||||||||||||||||||||    
T  2376407 ttacccaaatctccactttccctttagacctca 2376439  T

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

Target: chr4; HSP #17
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 148 - 189
Target Start/End: Original strand, 2373488 - 2373529
Alignment:
Q  148 tttgtccaaaaagatgaaaaatttgacctctcttacttgttt 189  Q
    ||||||| ||||||||||| ||||||||||||| ||||||||    
T  2373488 tttgtccgaaaagatgaaatatttgacctctctcacttgttt 2373529  T

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

Target: chr4; HSP #18
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 219 - 260
Target Start/End: Complemental strand, 12124563 - 12124522
Alignment:
Q  219 tcttcttcattgttgattgcttccctttacttgaagaacttg 260  Q
    |||||||||||| |||||| ||||||||||| ||||||||||    
T  12124563 tcttcttcattgctgattgtttccctttactagaagaacttg 12124522  T

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

Target: chr4; HSP #19
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 125 - 180
Target Start/End: Original strand, 2393829 - 2393885
Alignment:
Q  125 attcctaaagatgggttccgagctttgtccaaaaagatg-aaaaatttgacctctct 180  Q
    |||| |||| ||||||| |||||||||||| |||||||| ||||||||||| |||||    
T  2393829 attcataaaaatgggttgcgagctttgtcccaaaagatgaaaaaatttgacatctct 2393885  T

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

Target: chr4; HSP #20
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 58 - 102
Target Start/End: Complemental strand, 2477465 - 2477421
Alignment:
Q  58 gcttcttacccaaatctccactttccctttagacctcagatcgct 102  Q
    ||||||||||||||| ||||||||  || ||||||||||||||||    
T  2477465 gcttcttacccaaatatccactttagctatagacctcagatcgct 2477421  T

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

Target: chr4; HSP #21
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 218 - 258
Target Start/End: Original strand, 2625588 - 2625628
Alignment:
Q  218 atcttcttcattgttgattgcttccctttacttgaagaact 258  Q
    |||||||| ||||||||||| ||||||||||| ||||||||    
T  2625588 atcttctttattgttgattgtttccctttactcgaagaact 2625628  T

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

Target: chr4; HSP #22
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 148 - 180
Target Start/End: Complemental strand, 12126690 - 12126658
Alignment:
Q  148 tttgtccaaaaagatgaaaaatttgacctctct 180  Q
    |||||||||| ||||||||||||||||||||||    
T  12126690 tttgtccaaacagatgaaaaatttgacctctct 12126658  T

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

Target: chr5 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 136 - 193
Target Start/End: Original strand, 41900496 - 41900553
Alignment:
Q  136 tgggttccgagctttgtccaaaaagatgaaaaatttgacctctcttacttgtttcgaa 193  Q
    |||||| |||||||| ||||||||||| | || |||||||||||| ||||||| ||||    
T  41900496 tgggtttcgagctttttccaaaaagattacaactttgacctctctcacttgttacgaa 41900553  T

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



© Oklahoma State University