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: NF9839A_low_160 (Length: 301)

Name: NF9839A_low_160
Description: NF9839A
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9839A_low_160
NF9839A_low_160
[»] chr3 (13 HSPs)
chr3 (9-295)||(8455323-8455609)
chr3 (9-290)||(8590403-8590684)
chr3 (4-295)||(6479051-6479342)
chr3 (9-295)||(6736659-6736945)
chr3 (9-295)||(6553512-6553798)
chr3 (38-295)||(6947938-6948195)
chr3 (19-295)||(6519246-6519522)
chr3 (21-149)||(5281466-5281594)
chr3 (42-108)||(8479979-8480045)
chr3 (18-105)||(5299587-5299674)
chr3 (14-149)||(5250981-5251116)
chr3 (14-69)||(4388025-4388080)
chr3 (14-69)||(5268948-5269003)
[»] scaffold0425 (1 HSPs)
scaffold0425 (9-295)||(6551-6837)
[»] chr4 (2 HSPs)
chr4 (22-90)||(41068416-41068482)
chr4 (243-282)||(41068553-41068592)
[»] chr5 (1 HSPs)
chr5 (61-108)||(19936185-19936232)


Alignment Details
Target: chr3 (Bit Score: 227; Significance: 1e-125; HSPs: 13)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 227; E-Value: 1e-125
Query Start/End: Original strand, 9 - 295
Target Start/End: Complemental strand, 8455609 - 8455323
Alignment:
Q  9 agcatagataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||| |||||||||||||| ||| || |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  8455609 agcagagataaagcagtaccaaaacaaatatgtgaagaagtggcttgatgatcttaaacatgttgtttatgaagcagaccaactattagatgagatttct 8455510  T
Q  109 accgatgcaatgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatcta 208  Q
    || ||||||||||||||||| |||||||| ||||||||||||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||||    
T  8455509 actgatgcaatgctaaataacctgaaagcagaatctgaaccacttaccaccaatttattgggcttggtttcagctttatctagaaatccatttgaatcta 8455410  T
Q  209 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    ||||||||||||||||||||||||||||| ||||||||||| ||| |||| ||||| ||||||||||||||||||||||||||||||    
T  8455409 ggctcaatgaacaactggataaactagaatttcttgcaaagaaaaggaaagagttgagattgggagaaggtccttgtgctaggaatg 8455323  T

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Target: chr3; HSP #2
Raw Score: 226; E-Value: 1e-124
Query Start/End: Original strand, 9 - 290
Target Start/End: Complemental strand, 8590684 - 8590403
Alignment:
Q  9 agcatagataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||| ||||||||||||||  ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  8590684 agcagagataaagcagtaccgaagcaaatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 8590585  T
Q  109 accgatgcaatgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatcta 208  Q
    || ||||||||||||||||| ||||||||| ||||||||||||||| || ||||||||||||| |||||||||||||||||| ||||||||||||| | |    
T  8590584 actgatgcaatgctaaataagctgaaagctaaatctgaaccacttagcagcaatttattgggcttggtttcagctttaactacaaatccatttgaaacca 8590485  T
Q  209 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctag 290  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||    
T  8590484 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccctgtgctag 8590403  T

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Target: chr3; HSP #3
Raw Score: 212; E-Value: 1e-116
Query Start/End: Original strand, 4 - 295
Target Start/End: Original strand, 6479051 - 6479342
Alignment:
Q  4 gaagtagcatagataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgaga 103  Q
    |||| |||| |||||||||||||| ||| ||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||    
T  6479051 gaagaagcagagataaagcagtaccaaatcatatatgtgaagaagtggcttgataaacttaaacatgttgtttatgaagcagaccaactattagatgaga 6479150  T
Q  104 tttctaccgatgcaatgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttga 203  Q
    | ||||| ||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| ||||||||||||    
T  6479151 tatctactgatgcaatgctaaataagctgaaagctgaatctgaaccacttaccaccaatttattgggcgtggtttcagctttaactacaaatccatttga 6479250  T
Q  204 atctaggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    |||||||||||||||||||||||||||||||||| ||||||||| ||||||| |   ||||||||||| |||||||||  ||||||| ||||    
T  6479251 atctaggctcaatgaacaactggataaactagaatttcttgcaatgcaaaagtaggtgttgggattggcagaaggtcccagtgctagtaatg 6479342  T

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Target: chr3; HSP #4
Raw Score: 211; E-Value: 1e-115
Query Start/End: Original strand, 9 - 295
Target Start/End: Complemental strand, 6736945 - 6736659
Alignment:
Q  9 agcatagataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||| |||||||||||||| ||| || ||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| ||||||||||||    
T  6736945 agcagagataaagcagtaccaaaacaaatatgtgaagaagtggcttgatgaacttaaacatgttctttatgaagcagaccaactattggatgagatttct 6736846  T
Q  109 accgatgcaatgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatcta 208  Q
    || |||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||||||||| ||    
T  6736845 actgatgcaatgctaaataaggtgaaagctgaatctgaaccacttaccaccaatttattgggcttggtttcagctttaactacaaatccatttgaatgta 6736746  T
Q  209 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    ||||||||||||| || ||||||||||||||||||||||||||||||||| | ||| ||||||||||||||||| ||||||| ||||    
T  6736745 ggctcaatgaacagctcgataaactagaacttcttgcaaagcaaaagaaagatttgagattgggagaaggtcctagtgctagtaatg 6736659  T

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Target: chr3; HSP #5
Raw Score: 207; E-Value: 1e-113
Query Start/End: Original strand, 9 - 295
Target Start/End: Original strand, 6553512 - 6553798
Alignment:
Q  9 agcatagataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||| |||||||||||||| ||| || ||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  6553512 agcagagataaagcagtaccaaaacaaatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaggcagaccaactattagatgagatttct 6553611  T
Q  109 accgatgcaatgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatcta 208  Q
    || ||||||||| ||||||| |  ||||||||||||||||||||||||||||||||||||||  | |||||||||||||||| |||||||||||||| ||    
T  6553612 actgatgcaatgataaataagcaaaaagctgaatctgaaccacttaccaccaatttattgggtttcgtttcagctttaactacaaatccatttgaatgta 6553711  T
Q  209 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| | ||| ||||||||||||||||| ||||||| ||||    
T  6553712 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaagatttgagattgggagaaggtcctagtgctagtaatg 6553798  T

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Target: chr3; HSP #6
Raw Score: 198; E-Value: 1e-108
Query Start/End: Original strand, 38 - 295
Target Start/End: Complemental strand, 6948195 - 6947938
Alignment:
Q  38 atgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttctaccgatgcaatgctaaataatctgaaagc 137  Q
    ||||||||||||||||||||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||||||||||||||| ||||||||    
T  6948195 atgtgaagaagtggcttgatgaacttaaacatgttgtctatgaggcagaccaactgttagatgagatttctactgatgcaatgctaaataagctgaaagc 6948096  T
Q  138 tgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatctaggctcaatgaacaactggataaactagaa 237  Q
    |||||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||||||||| ||||||||||||||| || ||||||||||||    
T  6948095 tgaatctgaaccacttaccaccaatttattgggcttggtttcagctttaactacaaatccatttgaatgtaggctcaatgaacagctcgataaactagaa 6947996  T
Q  238 cttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    |||||||||||| |||||||| ||||||||||||||||| ||||||| ||||| ||||    
T  6947995 cttcttgcaaagaaaaagaaagagttgggattgggagaaagtccttgcgctagtaatg 6947938  T

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Target: chr3; HSP #7
Raw Score: 169; E-Value: 1e-90
Query Start/End: Original strand, 19 - 295
Target Start/End: Original strand, 6519246 - 6519522
Alignment:
Q  19 aagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttctaccgatgcaa 118  Q
    ||||||||| ||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||    
T  6519246 aagcagtaccaaaacaaatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttctactgatgcaa 6519345  T
Q  119 tgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatctaggctcaatga 218  Q
    || || ||||  ||||||||||||||||||||||||||||||||||||| |||  |||||||||||||||| |||||||||||||||||||||||||| |    
T  6519346 tgatatataagttgaaagctgaatctgaaccacttaccaccaatttatttggctgggtttcagctttaactggaaatccatttgaatctaggctcaataa 6519445  T
Q  219 acaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    || |||||| | |||||||  ||||||| | |||| ||||| | ||||||||| ||  |||||||||||||| ||||    
T  6519446 actactggagacactagaatctcttgcacaacaaacgaaaaggctgggattggaagttggtccttgtgctagtaatg 6519522  T

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Target: chr3; HSP #8
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 21 - 149
Target Start/End: Complemental strand, 5281594 - 5281466
Alignment:
Q  21 gcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttctaccgatgcaatg 120  Q
    ||||||| |||||| |||||| ||||||||||||||||| |||||||||| ||| ||||| ||||||||| | || ||||||||| |||| || |||       
T  5281594 gcagtacaaaagcacatatgtaaagaagtggcttgatgatcttaaacatgctgtatatgaggcagaccaaattttcgatgagattgctactgacgcacaa 5281495  T
Q  121 ctaaataatctgaaagctgaatctgaacc 149  Q
    || ||||| ||||||| ||||||||||||    
T  5281494 ctgaataagctgaaagatgaatctgaacc 5281466  T

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Target: chr3; HSP #9
Raw Score: 51; E-Value: 3e-20
Query Start/End: Original strand, 42 - 108
Target Start/End: Original strand, 8479979 - 8480045
Alignment:
Q  42 gaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||||| || ||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||    
T  8479979 gaagaattgacttgatgaacttaaacatgttgtttatgaagcaaaccaactattacatgagatttct 8480045  T

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Target: chr3; HSP #10
Raw Score: 44; E-Value: 5e-16
Query Start/End: Original strand, 18 - 105
Target Start/End: Complemental strand, 5299674 - 5299587
Alignment:
Q  18 aaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatt 105  Q
    |||||| ||| |||||  ||| |||||||||||||||| ||| |||||||||||||| ||||||||||| ||||| || |||||||||    
T  5299674 aaagcaataccaaagctcatacgtgaagaagtggcttggtgatcttaaacatgttgtgtatgaagcagatcaacttttggatgagatt 5299587  T

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

Target: chr3; HSP #11
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 14 - 149
Target Start/End: Complemental strand, 5251116 - 5250981
Alignment:
Q  14 agataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttctaccga 113  Q
    |||| ||||| ||| ||||||| || |||||||||||||||||||| |||||||||  ||  ||||| |  ||||| || |||||||||||| | || ||    
T  5251116 agatgaagcaataccaaagcatgtacgtgaagaagtggcttgatgatcttaaacattatgcatatgaggttgaccagctgttagatgagattgcaactga 5251017  T
Q  114 tgcaatgctaaataatctgaaagctgaatctgaacc 149  Q
    ||||   || || || ||||||||||||||| ||||    
T  5251016 tgcaccactgaagaagctgaaagctgaatctcaacc 5250981  T

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Target: chr3; HSP #12
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 14 - 69
Target Start/End: Original strand, 4388025 - 4388080
Alignment:
Q  14 agataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacat 69  Q
    |||| ||||||||| ||||||| |  |||||||||||||||||||| |||||||||    
T  4388025 agatgaagcagtaccaaagcatgtccgtgaagaagtggcttgatgatcttaaacat 4388080  T

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

Target: chr3; HSP #13
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 14 - 69
Target Start/End: Complemental strand, 5269003 - 5268948
Alignment:
Q  14 agataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacat 69  Q
    |||| ||||||| | ||||||| || |||||||||||||||||||| |||||||||    
T  5269003 agatgaagcagttccaaagcatgtacgtgaagaagtggcttgatgatcttaaacat 5268948  T

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Target: scaffold0425 (Bit Score: 211; Significance: 1e-115; HSPs: 1)
Name: scaffold0425
Description:

Target: scaffold0425; HSP #1
Raw Score: 211; E-Value: 1e-115
Query Start/End: Original strand, 9 - 295
Target Start/End: Original strand, 6551 - 6837
Alignment:
Q  9 agcatagataaagcagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||| |||||||||||||| ||| || ||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  6551 agcagagataaagcagtaccaaaacaaatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaggcagaccaactattagatgagatttct 6650  T
Q  109 accgatgcaatgctaaataatctgaaagctgaatctgaaccacttaccaccaatttattgggcatggtttcagctttaactagaaatccatttgaatcta 208  Q
    || ||||||||| ||||||| |  ||||||||||||||||||||||||||||||||||||||  |||||||||||||||||| |||||||||||||| ||    
T  6651 actgatgcaatgataaataagcaaaaagctgaatctgaaccacttaccaccaatttattgggtttggtttcagctttaactacaaatccatttgaatgta 6750  T
Q  209 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaaaagttgggattgggagaaggtccttgtgctaggaatg 295  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| | ||| ||||||||||||||||| ||||||| ||||    
T  6751 ggctcaatgaacaactggataaactagaacttcttgcaaagcaaaagaaagatttgagattgggagaaggtcctagtgctagtaatg 6837  T

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Target: chr4 (Bit Score: 50; Significance: 1e-19; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 22 - 90
Target Start/End: Original strand, 41068416 - 41068482
Alignment:
Q  22 cagtacgaaagcatatatgtgaagaagtggcttgatgaacttaaacatgttgtttatgaagcagaccaa 90  Q
    |||||| ||||||||||||||||||| |||||||||||||||||||||||||||  |||||||||||||    
T  41068416 cagtaccaaagcatatatgtgaagaattggcttgatgaacttaaacatgttgtt--tgaagcagaccaa 41068482  T

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Target: chr4; HSP #2
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 243 - 282
Target Start/End: Original strand, 41068553 - 41068592
Alignment:
Q  243 tgcaaagcaaaagaaaaagttgggattgggagaaggtcct 282  Q
    |||||||||||||||| |||||||||||||||||||||||    
T  41068553 tgcaaagcaaaagaaagagttgggattgggagaaggtcct 41068592  T

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

Target: chr5 (Bit Score: 40; Significance: 0.0000000000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 40; E-Value: 0.0000000000001
Query Start/End: Original strand, 61 - 108
Target Start/End: Complemental strand, 19936232 - 19936185
Alignment:
Q  61 cttaaacatgttgtttatgaagcagaccaactattagatgagatttct 108  Q
    |||||||||||||||||||||||| ||||||||||| |||||||||||    
T  19936232 cttaaacatgttgtttatgaagcaaaccaactattacatgagatttct 19936185  T

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