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: F9516H-LTR4-TNT-insertion-3 (Length: 286)

Name: F9516H-LTR4-TNT-insertion-3
Description: F9516H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9516H-LTR4-TNT-insertion-3
F9516H-LTR4-TNT-insertion-3
[»] chr2 (4 HSPs)
chr2 (8-276)||(12624594-12624862)
chr2 (206-276)||(33734187-33734257)
chr2 (206-249)||(22839686-22839729)
chr2 (9-44)||(33735908-33735943)
[»] chr5 (7 HSPs)
chr5 (9-205)||(17008591-17008787)
chr5 (206-276)||(32667843-32667913)
chr5 (206-276)||(36518055-36518125)
chr5 (206-276)||(17005985-17006055)
chr5 (206-266)||(20031722-20031782)
chr5 (206-276)||(14486436-14486506)
chr5 (218-276)||(17937595-17937653)
[»] chr4 (4 HSPs)
chr4 (9-130)||(49945647-49945768)
chr4 (74-130)||(49945589-49945645)
chr4 (206-269)||(49943404-49943467)
chr4 (206-276)||(17524726-17524792)
[»] chr6 (4 HSPs)
chr6 (9-130)||(16727612-16727733)
chr6 (206-276)||(20516006-20516076)
chr6 (206-276)||(33290964-33291034)
chr6 (9-50)||(22473382-22473423)
[»] chr8 (2 HSPs)
chr8 (9-130)||(25041455-25041576)
chr8 (206-276)||(26864553-26864623)
[»] chr7 (3 HSPs)
chr7 (57-205)||(7222373-7222518)
chr7 (206-276)||(27285527-27285597)
chr7 (206-241)||(22941907-22941942)
[»] scaffold0089 (1 HSPs)
scaffold0089 (206-276)||(36990-37060)
[»] chr3 (1 HSPs)
chr3 (206-276)||(13369070-13369140)
[»] chr1 (1 HSPs)
chr1 (206-276)||(18501910-18501980)


Alignment Details
Target: chr2 (Bit Score: 269; Significance: 1e-150; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 269; E-Value: 1e-150
Query Start/End: Original strand, 8 - 276
Target Start/End: Complemental strand, 12624862 - 12624594
Alignment:
Q  8 cgagtgtgttttcaatttaccaaatttggacttggaataaagtcggagcttcaaagttgttatgactggattttagagtgttttaaggttaaacaataag 107  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12624862 cgagtgtgttttcaatttaccaaatttggacttggaataaagtcggagcttcaaagttgttatgactggattttagagtgttttaaggttaaacaataag 12624763  T
Q  108 gattgtatgcatagatagatagctggttactagttaatgatagtgcttgaatataagataagtatttaaaatgtgagtgtatgtgattcttgattgtgtt 207  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12624762 gattgtatgcatagatagatagctggttactagttaatgatagtgcttgaatataagataagtatttaaaatgtgagtgtatgtgattcttgattgtgtt 12624663  T
Q  208 ttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12624662 ttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 12624594  T

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Target: chr2; HSP #2
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 33734257 - 33734187
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||| | ||||||||||| |||||||| |||||||||||    
T  33734257 ttttcatttgcgttttttaattgagttattttaaattgcaattggttgtgctggaaattttatgttaatta 33734187  T

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Target: chr2; HSP #3
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 206 - 249
Target Start/End: Original strand, 22839686 - 22839729
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattg 249  Q
    |||||||||| |||||||||||||||||||||||| ||||||||    
T  22839686 ttttcatttgtgttttttaattgagttattttaaaccgtaattg 22839729  T

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Target: chr2; HSP #4
Raw Score: 32; E-Value: 0.000000006
Query Start/End: Original strand, 9 - 44
Target Start/End: Complemental strand, 33735943 - 33735908
Alignment:
Q  9 gagtgtgttttcaatttaccaaatttggacttggaa 44  Q
    ||||||||||||||||||||||| ||||||||||||    
T  33735943 gagtgtgttttcaatttaccaaacttggacttggaa 33735908  T

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Target: chr5 (Bit Score: 157; Significance: 2e-83; HSPs: 7)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 157; E-Value: 2e-83
Query Start/End: Original strand, 9 - 205
Target Start/End: Complemental strand, 17008787 - 17008591
Alignment:
Q  9 gagtgtgttttcaatttaccaaatttggacttggaataaagtcggagcttcaaagttgttatgactggattttagagtgttttaaggttaaacaataagg 108  Q
    ||||||||||||||||||||||| ||||| |||||| ||||||  || |||||||||||||| |||||||||||||||||||||||||||||||||| ||    
T  17008787 gagtgtgttttcaatttaccaaacttggatttggaaaaaagtcctagtttcaaagttgttataactggattttagagtgttttaaggttaaacaatacgg 17008688  T
Q  109 attgtatgcatagatagatagctggttactagttaatgatagtgcttgaatataagataagtatttaaaatgtgagtgtatgtgattcttgattgtg 205  Q
    ||||||||||||||||||||||| |||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||    
T  17008687 attgtatgcatagatagatagctagttactagttaatgatagtgcttgaatataagattagtatttaaaatgtgagtgtatgtgattcttgattgtg 17008591  T

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Target: chr5; HSP #2
Raw Score: 67; E-Value: 8e-30
Query Start/End: Original strand, 206 - 276
Target Start/End: Original strand, 32667843 - 32667913
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||    
T  32667843 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgctggaaattctatgttaatta 32667913  T

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Target: chr5; HSP #3
Raw Score: 63; E-Value: 2e-27
Query Start/End: Original strand, 206 - 276
Target Start/End: Original strand, 36518055 - 36518125
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| || |||||||||||||||||    
T  36518055 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgatgaaaattctatgttaatta 36518125  T

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Target: chr5; HSP #4
Raw Score: 59; E-Value: 5e-25
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 17006055 - 17005985
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||||||    
T  17006055 ttttcatttgcgttttttaattgagttattttaaatcgcaattggttgtgctggaaattttatgttaatta 17005985  T

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Target: chr5; HSP #5
Raw Score: 57; E-Value: 8e-24
Query Start/End: Original strand, 206 - 266
Target Start/End: Original strand, 20031722 - 20031782
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattct 266  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||    
T  20031722 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgctggaaattct 20031782  T

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Target: chr5; HSP #6
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 206 - 276
Target Start/End: Original strand, 14486436 - 14486506
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||| | ||||||||||| |||||||| |||||||||||    
T  14486436 ttttcatttgcgttttttaattgagttattttaaattgcaattggttgtgctggaaattttatgttaatta 14486506  T

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Target: chr5; HSP #7
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 218 - 276
Target Start/End: Complemental strand, 17937653 - 17937595
Alignment:
Q  218 ttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||    
T  17937653 ttttttaattgagttattttaaatcgtaattggttgtgctggaaattctatgttaatta 17937595  T

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Target: chr4 (Bit Score: 102; Significance: 1e-50; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 102; E-Value: 1e-50
Query Start/End: Original strand, 9 - 130
Target Start/End: Complemental strand, 49945768 - 49945647
Alignment:
Q  9 gagtgtgttttcaatttaccaaatttggacttggaataaagtcggagcttcaaagttgttatgactggattttagagtgttttaaggttaaacaataagg 108  Q
    |||||||||||||||||||||||||||||||||||| ||||||  || || |||||||||||||||||||||||||||||||||||||||||||||||||    
T  49945768 gagtgtgttttcaatttaccaaatttggacttggaaaaaagtcctagttttaaagttgttatgactggattttagagtgttttaaggttaaacaataagg 49945669  T
Q  109 attgtatgcatagatagatagc 130  Q
    ||||||||||||||||||||||    
T  49945668 attgtatgcatagatagatagc 49945647  T

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Target: chr4; HSP #2
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 74 - 130
Target Start/End: Complemental strand, 49945645 - 49945589
Alignment:
Q  74 tggattttagagtgttttaaggttaaacaataaggattgtatgcatagatagatagc 130  Q
    |||||||||||||||||||||||||||||||||| ||||||||||||||||||||||    
T  49945645 tggattttagagtgttttaaggttaaacaataagaattgtatgcatagatagatagc 49945589  T

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Target: chr4; HSP #3
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 206 - 269
Target Start/End: Complemental strand, 49943467 - 49943404
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatg 269  Q
    ||||||||||| |||||||||||||||||||||||| | ||||||||||| |||||||| ||||    
T  49943467 ttttcatttgcattttttaattgagttattttaaattgcaattggttgtgctggaaattttatg 49943404  T

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Target: chr4; HSP #4
Raw Score: 37; E-Value: 0.000000000007
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 17524792 - 17524726
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    ||||||||||| ||||||||||||||||||||||| ||   ||||||||| ||||||||| ||||||||||    
T  17524792 ttttcatttgcattttttaattgagttattttaaaccg---ttggttgtgctggaaattc-atgttaatta 17524726  T

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Target: chr6 (Bit Score: 98; Significance: 3e-48; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 98; E-Value: 3e-48
Query Start/End: Original strand, 9 - 130
Target Start/End: Complemental strand, 16727733 - 16727612
Alignment:
Q  9 gagtgtgttttcaatttaccaaatttggacttggaataaagtcggagcttcaaagttgttatgactggattttagagtgttttaaggttaaacaataagg 108  Q
    ||||||||||||||||||||||| |||||||||||| ||||||  || |||||| |||||||||||||||||||||||||||||||||||||||||||||    
T  16727733 gagtgtgttttcaatttaccaaacttggacttggaaaaaagtcctagtttcaaatttgttatgactggattttagagtgttttaaggttaaacaataagg 16727634  T
Q  109 attgtatgcatagatagatagc 130  Q
    ||||||||||||||||||||||    
T  16727633 attgtatgcatagatagatagc 16727612  T

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Target: chr6; HSP #2
Raw Score: 67; E-Value: 8e-30
Query Start/End: Original strand, 206 - 276
Target Start/End: Original strand, 20516006 - 20516076
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||    
T  20516006 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgctggaaattctatgttaatta 20516076  T

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Target: chr6; HSP #3
Raw Score: 55; E-Value: 1e-22
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 33291034 - 33290964
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||| | ||||||||||| |||||||| |||||||||||    
T  33291034 ttttcatttgcgttttttaattgagttattttaaattgcaattggttgtgctggaaattttatgttaatta 33290964  T

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Target: chr6; HSP #4
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 9 - 50
Target Start/End: Complemental strand, 22473423 - 22473382
Alignment:
Q  9 gagtgtgttttcaatttaccaaatttggacttggaataaagt 50  Q
    ||||||||||||||||||||||| |||||||||||| |||||    
T  22473423 gagtgtgttttcaatttaccaaacttggacttggaaaaaagt 22473382  T

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Target: chr8 (Bit Score: 90; Significance: 2e-43; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 90; E-Value: 2e-43
Query Start/End: Original strand, 9 - 130
Target Start/End: Complemental strand, 25041576 - 25041455
Alignment:
Q  9 gagtgtgttttcaatttaccaaatttggacttggaataaagtcggagcttcaaagttgttatgactggattttagagtgttttaaggttaaacaataagg 108  Q
    |||||| |||||||||||||||| |||||||||||| ||||| | || |||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  25041576 gagtgtcttttcaatttaccaaacttggacttggaaaaaagttgtagtttcaaagttgttatgactggatttgagagtgttttaaggttaaacaataagg 25041477  T
Q  109 attgtatgcatagatagatagc 130  Q
    |||||||||||||||| |||||    
T  25041476 attgtatgcatagataaatagc 25041455  T

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Target: chr8; HSP #2
Raw Score: 47; E-Value: 7e-18
Query Start/End: Original strand, 206 - 276
Target Start/End: Original strand, 26864553 - 26864623
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    ||||||||||| |||||||||||||||||||||||| | ||||||||||  |||||||| |||||||||||    
T  26864553 ttttcatttgcattttttaattgagttattttaaattgcaattggttgtactggaaattttatgttaatta 26864623  T

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Target: chr7 (Bit Score: 68; Significance: 2e-30; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 68; E-Value: 2e-30
Query Start/End: Original strand, 57 - 205
Target Start/End: Original strand, 7222373 - 7222518
Alignment:
Q  57 ttcaaagttgttatgactggattttagagtgttttaaggttaaacaataaggattgtatgcatagatagatagctggttactagttaatgatagtgcttg 156  Q
    ||||||||||||||||||||   ||| |||||||||||||||| ||||||| ||||||||||||||||||||| | |||||||| ||||||||||| |||    
T  7222373 ttcaaagttgttatgactgg---ttacagtgttttaaggttaagcaataagaattgtatgcatagatagataggtagttactag-taatgatagtgtttg 7222468  T
Q  157 aatataagataagtattta-aaatgtgagtgtatgtgattcttgattgtg 205  Q
    |||| || || ||| ||||  | ||||||| |||||||||||||||||||    
T  7222469 aatacaaaatcagtgtttacgagtgtgagtatatgtgattcttgattgtg 7222518  T

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Target: chr7; HSP #2
Raw Score: 51; E-Value: 3e-20
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 27285597 - 27285527
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||| | ||||||||||| || ||||| |||||||||||    
T  27285597 ttttcatttgcgttttttaattgagttattttaaattgcaattggttgtgctgaaaattttatgttaatta 27285527  T

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Target: chr7; HSP #3
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 206 - 241
Target Start/End: Original strand, 22941907 - 22941942
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaat 241  Q
    ||||||||||||||||||||||||||||||||||||    
T  22941907 ttttcatttgcgttttttaattgagttattttaaat 22941942  T

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Target: scaffold0089 (Bit Score: 67; Significance: 8e-30; HSPs: 1)
Name: scaffold0089
Description:

Target: scaffold0089; HSP #1
Raw Score: 67; E-Value: 8e-30
Query Start/End: Original strand, 206 - 276
Target Start/End: Original strand, 36990 - 37060
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||    
T  36990 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgctggaaattctatgttaatta 37060  T

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Target: chr3 (Bit Score: 63; Significance: 2e-27; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 63; E-Value: 2e-27
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 13369140 - 13369070
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    ||||||||||||||||||||||||||||||||||||| |||||||||||| ||||||||||||||||||||    
T  13369140 ttttcatttgcgttttttaattgagttattttaaatcataattggttgtgctggaaattctatgttaatta 13369070  T

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Target: chr1 (Bit Score: 47; Significance: 7e-18; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 47; E-Value: 7e-18
Query Start/End: Original strand, 206 - 276
Target Start/End: Complemental strand, 18501980 - 18501910
Alignment:
Q  206 ttttcatttgcgttttttaattgagttattttaaatcgtaattggttgtgttggaaattctatgttaatta 276  Q
    |||||||||||||||||| ||||||||||||||||||| ||||||| ||  |||||||| |||||||||||    
T  18501980 ttttcatttgcgtttttttattgagttattttaaatcgcaattggtggtactggaaattttatgttaatta 18501910  T

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



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