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: F9331-LTR4-TNT-insertion-2 (Length: 178)

Name: F9331-LTR4-TNT-insertion-2
Description: F9331-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9331-LTR4-TNT-insertion-2
F9331-LTR4-TNT-insertion-2
[»] chr3 (3 HSPs)
chr3 (11-168)||(29031353-29031510)
chr3 (17-116)||(51125481-51125580)
chr3 (17-108)||(52692436-52692527)
[»] chr7 (3 HSPs)
chr7 (25-116)||(37638589-37638680)
chr7 (38-116)||(10372835-10372913)
chr7 (38-116)||(12963189-12963267)
[»] chr6 (4 HSPs)
chr6 (25-116)||(16547342-16547433)
chr6 (17-116)||(30019106-30019205)
chr6 (38-116)||(17830888-17830966)
chr6 (63-116)||(21515847-21515900)
[»] chr5 (3 HSPs)
chr5 (25-116)||(22481401-22481492)
chr5 (18-116)||(7072131-7072228)
chr5 (63-116)||(33232343-33232396)
[»] chr4 (4 HSPs)
chr4 (25-116)||(16565425-16565516)
chr4 (17-116)||(24036312-24036411)
chr4 (33-116)||(15618731-15618813)
chr4 (63-116)||(56560394-56560447)
[»] chr2 (4 HSPs)
chr2 (25-116)||(5917051-5917142)
chr2 (25-116)||(36311483-36311574)
chr2 (17-116)||(14379993-14380092)
chr2 (38-116)||(14036514-14036592)
[»] chr1 (3 HSPs)
chr1 (25-116)||(35570013-35570104)
chr1 (63-116)||(35606215-35606268)
chr1 (63-116)||(46407374-46407427)
[»] scaffold0394 (1 HSPs)
scaffold0394 (38-116)||(6721-6799)
[»] chr8 (4 HSPs)
chr8 (17-116)||(193273-193372)
chr8 (17-116)||(720877-720976)
chr8 (17-116)||(881984-882083)
chr8 (63-116)||(44240008-44240061)


Alignment Details
Target: chr3 (Bit Score: 134; Significance: 5e-70; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 134; E-Value: 5e-70
Query Start/End: Original strand, 11 - 168
Target Start/End: Complemental strand, 29031510 - 29031353
Alignment:
Q  11 atacttgttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataa 110  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29031510 atacttgttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataa 29031411  T
Q  111 tacttaattatctnnnnnnnntaaagtaattatttaaatgtgacatcaagtattatta 168  Q
    |||||||||||||        |||||||||||||||||||||||||||||||||||||    
T  29031410 tacttaattatctaaaaaaaataaagtaattatttaaatgtgacatcaagtattatta 29031353  T

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Target: chr3; HSP #2
Raw Score: 40; E-Value: 0.00000000000006
Query Start/End: Original strand, 17 - 116
Target Start/End: Original strand, 51125481 - 51125580
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  51125481 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 51125580  T

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Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 17 - 108
Target Start/End: Complemental strand, 52692527 - 52692436
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaat 108  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||    
T  52692527 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaat 52692436  T

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Target: chr7 (Bit Score: 48; Significance: 1e-18; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Complemental strand, 37638680 - 37638589
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  37638680 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 37638589  T

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Target: chr7; HSP #2
Raw Score: 47; E-Value: 4e-18
Query Start/End: Original strand, 38 - 116
Target Start/End: Original strand, 10372835 - 10372913
Alignment:
Q  38 aagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  10372835 aagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 10372913  T

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Target: chr7; HSP #3
Raw Score: 35; E-Value: 0.00000000006
Query Start/End: Original strand, 38 - 116
Target Start/End: Complemental strand, 12963267 - 12963189
Alignment:
Q  38 aagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||||||| || | || ||||||||||||||||||||||  |||||| |||||||||||  ||||| || ||||||    
T  12963267 aagatgataacgtttatatctatagggaccaatgtaccctattggtgttggataatcataattcaccaagtattactta 12963189  T

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Target: chr6 (Bit Score: 48; Significance: 1e-18; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Complemental strand, 16547433 - 16547342
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  16547433 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 16547342  T

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Target: chr6; HSP #2
Raw Score: 40; E-Value: 0.00000000000006
Query Start/End: Original strand, 17 - 116
Target Start/End: Complemental strand, 30019205 - 30019106
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  30019205 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 30019106  T

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Target: chr6; HSP #3
Raw Score: 39; E-Value: 0.0000000000002
Query Start/End: Original strand, 38 - 116
Target Start/End: Original strand, 17830888 - 17830966
Alignment:
Q  38 aagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||||||| ||||||| |||| |||||||| ||||||||  |||||| |||| || |||| |||||||||||||||    
T  17830888 aagatgataacgttcacatctatatggaccaatataccctattggtgttggataaccagaatccaccaaataatactta 17830966  T

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Target: chr6; HSP #4
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 63 - 116
Target Start/End: Original strand, 21515847 - 21515900
Alignment:
Q  63 ggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  21515847 ggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 21515900  T

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Target: chr5 (Bit Score: 48; Significance: 1e-18; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Complemental strand, 22481492 - 22481401
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  22481492 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 22481401  T

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Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 18 - 116
Target Start/End: Original strand, 7072131 - 7072228
Alignment:
Q  18 ttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||| | ||||| |||| ||||||||| | |||| |||  || |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  7072131 ttagaacgcctaaattcaagaagatgatatcgttcatattg-tatggaccaatgtaccctattcgtgttggatatccagaatctaccaaataatactta 7072228  T

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Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 63 - 116
Target Start/End: Complemental strand, 33232396 - 33232343
Alignment:
Q  63 ggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  33232396 ggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 33232343  T

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Target: chr4 (Bit Score: 48; Significance: 1e-18; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Complemental strand, 16565516 - 16565425
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  16565516 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 16565425  T

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Target: chr4; HSP #2
Raw Score: 40; E-Value: 0.00000000000006
Query Start/End: Original strand, 17 - 116
Target Start/End: Original strand, 24036312 - 24036411
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  24036312 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 24036411  T

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Target: chr4; HSP #3
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 33 - 116
Target Start/End: Complemental strand, 15618813 - 15618731
Alignment:
Q  33 tcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||| ||||||||||| ||||||| |||| ||||| ||||| |||||  |||||| |||| || |||| |||||||||||||||    
T  15618813 tcaagaagatgataacgttcacatctatatggaccgatgta-cctattggtgttggataaccaaaatccaccaaataatactta 15618731  T

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Target: chr4; HSP #4
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 63 - 116
Target Start/End: Complemental strand, 56560447 - 56560394
Alignment:
Q  63 ggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  56560447 ggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 56560394  T

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Target: chr2 (Bit Score: 48; Significance: 1e-18; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Original strand, 5917051 - 5917142
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  5917051 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 5917142  T

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

Target: chr2; HSP #2
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Complemental strand, 36311574 - 36311483
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  36311574 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 36311483  T

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Target: chr2; HSP #3
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 17 - 116
Target Start/End: Complemental strand, 14380092 - 14379993
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| ||||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  14380092 gttagaacgtctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 14379993  T

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Target: chr2; HSP #4
Raw Score: 39; E-Value: 0.0000000000002
Query Start/End: Original strand, 38 - 116
Target Start/End: Complemental strand, 14036592 - 14036514
Alignment:
Q  38 aagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  14036592 aagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 14036514  T

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Target: chr1 (Bit Score: 48; Significance: 1e-18; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 48; E-Value: 1e-18
Query Start/End: Original strand, 25 - 116
Target Start/End: Original strand, 35570013 - 35570104
Alignment:
Q  25 gtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| |||  ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  35570013 gtctaaattcaggaagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 35570104  T

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Target: chr1; HSP #2
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 63 - 116
Target Start/End: Complemental strand, 35606268 - 35606215
Alignment:
Q  63 ggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  35606268 ggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 35606215  T

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Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.00000006
Query Start/End: Original strand, 63 - 116
Target Start/End: Complemental strand, 46407427 - 46407374
Alignment:
Q  63 ggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  46407427 ggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 46407374  T

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Target: scaffold0394 (Bit Score: 47; Significance: 4e-18; HSPs: 1)
Name: scaffold0394
Description:

Target: scaffold0394; HSP #1
Raw Score: 47; E-Value: 4e-18
Query Start/End: Original strand, 38 - 116
Target Start/End: Original strand, 6721 - 6799
Alignment:
Q  38 aagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||||||| ||||||| |||| |||||||||||||||||  |||||| |||| || ||||||||||||||||||||    
T  6721 aagatgataacgttcacatctatatggaccaatgtaccctattggtgttggataaccagaatctaccaaataatactta 6799  T

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Target: chr8 (Bit Score: 40; Significance: 0.00000000000006; HSPs: 4)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 40; E-Value: 0.00000000000006
Query Start/End: Original strand, 17 - 116
Target Start/End: Complemental strand, 193372 - 193273
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  193372 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 193273  T

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Target: chr8; HSP #2
Raw Score: 40; E-Value: 0.00000000000006
Query Start/End: Original strand, 17 - 116
Target Start/End: Complemental strand, 720976 - 720877
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  720976 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 720877  T

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Target: chr8; HSP #3
Raw Score: 40; E-Value: 0.00000000000006
Query Start/End: Original strand, 17 - 116
Target Start/End: Complemental strand, 882083 - 881984
Alignment:
Q  17 gttagaatgtctaaaatcaataagatgataacattcacatttatagggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    ||||||| | ||||| |||  ||||||||| | ||||||| |||| |||||||||||||||||  |||||| |||  || ||||||||||||||||||||    
T  882083 gttagaacgcctaaattcaggaagatgatatcgttcacatctatatggaccaatgtaccctattggtgttggatagccagaatctaccaaataatactta 881984  T

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Target: chr8; HSP #4
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 63 - 116
Target Start/End: Complemental strand, 44240061 - 44240008
Alignment:
Q  63 ggaccaatgtaccctatcagtgttgaataatcataatctaccaaataatactta 116  Q
    |||||||||||||||||  |||||| |||  |||||||||||||||||||||||    
T  44240061 ggaccaatgtaccctattggtgttggatacccataatctaccaaataatactta 44240008  T

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