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: NF9501_low_14 (Length: 367)

Name: NF9501_low_14
Description: NF9501
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9501_low_14
NF9501_low_14
[»] chr3 (7 HSPs)
chr3 (1-349)||(36419828-36420178)
chr3 (107-228)||(24671188-24671312)
chr3 (107-228)||(4579115-4579239)
chr3 (290-350)||(34489706-34489766)
chr3 (285-350)||(34470059-34470124)
chr3 (238-286)||(27630489-27630537)
chr3 (290-350)||(34523170-34523230)
[»] chr7 (4 HSPs)
chr7 (107-228)||(16183800-16183924)
chr7 (107-196)||(8140131-8140220)
chr7 (284-335)||(5103008-5103059)
chr7 (108-172)||(8138628-8138692)
[»] chr4 (1 HSPs)
chr4 (107-228)||(10427304-10427428)
[»] chr1 (3 HSPs)
chr1 (107-228)||(46191255-46191379)
chr1 (12-176)||(4130164-4130334)
chr1 (294-350)||(46191047-46191103)
[»] scaffold0074 (1 HSPs)
scaffold0074 (107-228)||(27395-27519)
[»] chr6 (2 HSPs)
chr6 (14-228)||(18967901-18968125)
chr6 (86-211)||(6174194-6174322)
[»] chr2 (1 HSPs)
chr2 (109-208)||(30397080-30397179)


Alignment Details
Target: chr3 (Bit Score: 292; Significance: 1e-164; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 292; E-Value: 1e-164
Query Start/End: Original strand, 1 - 349
Target Start/End: Complemental strand, 36420178 - 36419828
Alignment:
Q  1 aaaagaacaacacacataatatttacgtggaaatctttcaacaaatacggaaaaagacaacgaggcaaaagtagaaaacatttgctaagttggagaaatt 100  Q
    |||||||||||||||||||||||||||||||||||||||||||||||| ||||||||| ||| |||||||||||||||||||||||||||||||||||||    
T  36420178 aaaagaacaacacacataatatttacgtggaaatctttcaacaaatacagaaaaagactacggggcaaaagtagaaaacatttgctaagttggagaaatt 36420079  T
Q  101 acaagatctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctt 200  Q
    |||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||| || |||| ||||||||||    
T  36420078 acaagatctctaaatacaatgagagacaaattaccccatctcttgcaatagaagaatactaatactaggagaaactttacgagataaaccatatttcctt 36419979  T
Q  201 tctatatt--ttttccactctcaacaagctatttgtagaagaggtaaactacagccccttacatgcaacaagtcacttgtcttccatgtgaaacatgtca 298  Q
    ||||||||  |||||||||||||||||||||||||||||| ||||||||||||| ||||||||| |||||||||||||||||||||||||||||||||||    
T  36419978 tctatattttttttccactctcaacaagctatttgtagaaaaggtaaactacagtcccttacatacaacaagtcacttgtcttccatgtgaaacatgtca 36419879  T
Q  299 cttgtatatcgtgcatcttacaacttgtcaatacatgcaactaaccacttt 349  Q
    ||||||| |||||||||||||||||||||||||||||||||||||||||||    
T  36419878 cttgtatctcgtgcatcttacaacttgtcaatacatgcaactaaccacttt 36419828  T

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Target: chr3; HSP #2
Raw Score: 63; E-Value: 3e-27
Query Start/End: Original strand, 107 - 228
Target Start/End: Original strand, 24671188 - 24671312
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    ||||||||||||| ||||||||||||||||| ||||||| || || |||||||||| |||||||||||| | || ||| |||||||||||||| ||||||    
T  24671188 tctctaaatacaaggagagacaaattaccctctctcttgaaataggagaatactaacactaggagaaacctcacaggagaaactatatttcctctctata 24671287  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  24671288 tttttcctctcactctcaacaagct 24671312  T

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Target: chr3; HSP #3
Raw Score: 51; E-Value: 4e-20
Query Start/End: Original strand, 107 - 228
Target Start/End: Complemental strand, 4579239 - 4579115
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    ||||||||||||| ||||||||||||||||| |||| || || || ||||||||||  ||| ||||||| | || ||| |||||||||||||| ||||||    
T  4579239 tctctaaatacaaggagagacaaattaccctctctcgtgaaataggagaatactaactctatgagaaacctcacaggagaaactatatttcctctctata 4579140  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  4579139 tttttcctctcactctcaacaagct 4579115  T

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Target: chr3; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 290 - 350
Target Start/End: Original strand, 34489706 - 34489766
Alignment:
Q  290 aacatgtcacttgtatatcgtgcatcttacaacttgtcaatacatgcaactaaccactttg 350  Q
    |||||||||||||||| || || ||||| |||||||||||| |||||||||  ||||||||    
T  34489706 aacatgtcacttgtatctcatgtatcttgcaacttgtcaatgcatgcaactgtccactttg 34489766  T

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Target: chr3; HSP #5
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 285 - 350
Target Start/End: Original strand, 34470059 - 34470124
Alignment:
Q  285 tgtgaaacatgtcacttgtatatcgtgcatcttacaacttgtcaatacatgcaactaaccactttg 350  Q
    |||| ||||||||||| |||| || |||||||| |||||||||||| || ||||||  ||||||||    
T  34470059 tgtgcaacatgtcactggtatctcatgcatcttgcaacttgtcaatgcacgcaactgtccactttg 34470124  T

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Target: chr3; HSP #6
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 238 - 286
Target Start/End: Original strand, 27630489 - 27630537
Alignment:
Q  238 agaggtaaactacagccccttacatgcaacaagtcacttgtcttccatg 286  Q
    |||||||||||| ||   ||||||||||||||| |||||||||||||||    
T  27630489 agaggtaaactatagtttcttacatgcaacaagccacttgtcttccatg 27630537  T

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Target: chr3; HSP #7
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 290 - 350
Target Start/End: Original strand, 34523170 - 34523230
Alignment:
Q  290 aacatgtcacttgtatatcgtgcatcttacaacttgtcaatacatgcaactaaccactttg 350  Q
    ||||||||| ||||||  | |||||||| |||||||||||| |||||||||  ||||||||    
T  34523170 aacatgtcatttgtatcgcatgcatcttgcaacttgtcaatgcatgcaactgtccactttg 34523230  T

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Target: chr7 (Bit Score: 63; Significance: 3e-27; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 63; E-Value: 3e-27
Query Start/End: Original strand, 107 - 228
Target Start/End: Original strand, 16183800 - 16183924
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    ||||||||||||| ||||||||||||||||| ||||||| || || |||||||||| |||||||||||| | || ||| |||||||||||||| ||||||    
T  16183800 tctctaaatacaaggagagacaaattaccctctctcttgaaataggagaatactaacactaggagaaacctcacaggagaaactatatttcctctctata 16183899  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  16183900 tttttcctctcactctcaacaagct 16183924  T

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Target: chr7; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 107 - 196
Target Start/End: Original strand, 8140131 - 8140220
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatattt 196  Q
    ||||| ||||||| ||||||||||||||||| ||||||| || || ||||||||| |||||||||| || | || | | |||||||||||    
T  8140131 tctcttaatacaaggagagacaaattaccctctctcttgaaataggagaatactattactaggagacacatcacagaagaaactatattt 8140220  T

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Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.000000008
Query Start/End: Original strand, 284 - 335
Target Start/End: Original strand, 5103008 - 5103059
Alignment:
Q  284 atgtgaaacatgtcacttgtatatcgtgcatcttacaacttgtcaatacatg 335  Q
    ||||| |||||||||||||| | || |||||||| |||||||||||||||||    
T  5103008 atgtgtaacatgtcacttgtttctcatgcatcttccaacttgtcaatacatg 5103059  T

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Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 108 - 172
Target Start/End: Original strand, 8138628 - 8138692
Alignment:
Q  108 ctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggaga 172  Q
    |||||||||||| |||||||||||||| || ||||||| |  || |||||||||  |||||||||    
T  8138628 ctctaaatacaaggagagacaaattactctctctcttgaagtaggagaatactatcactaggaga 8138692  T

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Target: chr4 (Bit Score: 63; Significance: 3e-27; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 63; E-Value: 3e-27
Query Start/End: Original strand, 107 - 228
Target Start/End: Complemental strand, 10427428 - 10427304
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    ||||||||||||| ||||||||||||||||| ||||||| || || |||||||||| |||||||||||| | || ||| |||||||||||||| ||||||    
T  10427428 tctctaaatacaaggagagacaaattaccctctctcttgaaataggagaatactaacactaggagaaacctcacaggagaaactatatttcctctctata 10427329  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  10427328 tttttcctctcactctcaacaagct 10427304  T

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Target: chr1 (Bit Score: 59; Significance: 6e-25; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 59; E-Value: 6e-25
Query Start/End: Original strand, 107 - 228
Target Start/End: Complemental strand, 46191379 - 46191255
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    |||||||||| || ||||||||||||||||| ||||||| || || |||||||||| |||||||||||| | || ||| |||||||||||||| ||||||    
T  46191379 tctctaaatagaaggagagacaaattaccctctctcttgaaataggagaatactaacactaggagaaacctcacaggagaaactatatttcctctctata 46191280  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  46191279 tttttcctctcactctcaacaagct 46191255  T

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Target: chr1; HSP #2
Raw Score: 46; E-Value: 4e-17
Query Start/End: Original strand, 12 - 176
Target Start/End: Complemental strand, 4130334 - 4130164
Alignment:
Q  12 acacataatatttacgtggaaatctttcaacaaatac-ggaaaaagacaacgaggcaaaagtagaaaacatttgctaagttggaga-aattacaaga--- 106  Q
    ||||| || |||||||||||||||  ||||||||||  || |||| || ||| ||||| |||||| ||| ||  |||||| | ||| ||||||||||       
T  4130334 acacacaaaatttacgtggaaatccctcaacaaataaagggaaaaaaccacggggcaagagtagagaactttcactaagtggaagataattacaagactt 4130235  T
Q  107 -tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaact 176  Q
     ||||||||||||| ||||||||||||||||| ||||||| || || | |||||||| |||||||||||||    
T  4130234 ctctctaaatacaaggagagacaaattaccctctctcttgaaataggacaatactaacactaggagaaact 4130164  T

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Target: chr1; HSP #3
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 294 - 350
Target Start/End: Complemental strand, 46191103 - 46191047
Alignment:
Q  294 tgtcacttgtatatcgtgcatcttacaacttgtcaatacatgcaactaaccactttg 350  Q
    ||||||||| || || ||||||||||||| ||||||| |||||||| | ||||||||    
T  46191103 tgtcacttgcatctcatgcatcttacaacatgtcaatgcatgcaaccatccactttg 46191047  T

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Target: scaffold0074 (Bit Score: 55; Significance: 2e-22; HSPs: 1)
Name: scaffold0074
Description:

Target: scaffold0074; HSP #1
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 107 - 228
Target Start/End: Original strand, 27395 - 27519
Alignment:
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    ||||||||||||| ||||||||||||||| | ||||||| || ||  ||||||||| |||||||||||| | || ||| |||||||||||||| ||||||    
T  27395 tctctaaatacaaggagagacaaattaccatctctcttgaaataggtgaatactaacactaggagaaacctcacaggagaaactatatttcctctctata 27494  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  27495 tttttcctctcactctcaacaagct 27519  T

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Target: chr6 (Bit Score: 50; Significance: 1e-19; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 14 - 228
Target Start/End: Complemental strand, 18968125 - 18967901
Alignment:
Q  14 acataatattt-acgtggaaatctttcaacaaatacgga-aaaagacaacgaggcaaaagtagaaaacatttgctaagttggaga-aattacaaga---- 106  Q
    ||||||||||| ||||||||| |  |||||||||| ||  |||| || ||| ||||| |||||||||| ||  |||||| | ||| ||||||||||        
T  18968125 acataatattttacgtggaaacccctcaacaaataaggggaaaaaaccacggggcaagagtagaaaactttcactaagtggaagacaattacaagacttc 18968026  T
Q  107 tctctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctata 206  Q
    ||||||||||||| ||||||||||||| ||| |||| || || || |||||||||| |||||||||||| | ||  || |||||||||||||| | ||||    
T  18968025 tctctaaatacaaggagagacaaattagcctctctcatgaaataggagaatactaacactaggagaaacctcacaagagaaactatatttcctctttata 18967926  T
Q  207 ttttttc---cactctcaacaagct 228  Q
    ||||| |   |||||||||||||||    
T  18967925 tttttcctctcactctcaacaagct 18967901  T

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

Target: chr6; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 86 - 211
Target Start/End: Original strand, 6174194 - 6174322
Alignment:
Q  86 taagttggagaaattacaaga--tctctaaatacaatgagagacaaa-ttaccctatctcttgcaacagaagaatactaatactaggagaaactttacgg 182  Q
    ||||| |||||||||||||||  |||||||||||||  |||| |||| ||||| | ||||||| || | |  |||||||| ||||| |||| | |||  |    
T  6174194 taagtgggagaaattacaagacctctctaaatacaagtagaggcaaagttaccttctctcttgaaataaagaaatactaaaactagaagaatccttatag 6174293  T
Q  183 gaaaaactatatttcctttctatattttt 211  Q
    || ||||||||||||||||||||||||||    
T  6174294 gagaaactatatttcctttctatattttt 6174322  T

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Target: chr2 (Bit Score: 36; Significance: 0.00000000003; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 109 - 208
Target Start/End: Original strand, 30397080 - 30397179
Alignment:
Q  109 tctaaatacaatgagagacaaattaccctatctcttgcaacagaagaatactaatactaggagaaactttacgggaaaaactatatttcctttctatatt 208  Q
    |||| |||||| ||||||||||||||||| | | ||| || || |||||| ||| |||||||||||  | || ||| |||||||||||||| ||||||||    
T  30397080 tctatatacaaggagagacaaattaccctctatgttgaaataggagaatattaacactaggagaaatctcacaggagaaactatatttcctctctatatt 30397179  T

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