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.

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 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-9 (Length: 847)

Name: F9331-LTR4-TNT-insertion-9
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-9
F9331-LTR4-TNT-insertion-9
[»] chr1 (3 HSPs)
chr1 (10-846)||(6840781-6841617)
chr1 (15-533)||(1177585-1178100)
chr1 (744-781)||(12806690-12806727)
[»] chr6 (8 HSPs)
chr6 (640-796)||(27336354-27336510)
chr6 (640-796)||(27397094-27397250)
chr6 (365-521)||(34169167-34169323)
chr6 (369-552)||(34146730-34146913)
chr6 (369-552)||(34159346-34159529)
chr6 (428-552)||(34106057-34106181)
chr6 (366-521)||(34115059-34115214)
chr6 (428-552)||(34119571-34119695)
[»] chr3 (2 HSPs)
chr3 (640-796)||(3113218-3113374)
chr3 (645-791)||(28879569-28879705)
[»] chr8 (2 HSPs)
chr8 (640-785)||(32536020-32536154)
chr8 (640-795)||(39548722-39548880)
[»] scaffold0620 (1 HSPs)
scaffold0620 (438-552)||(6547-6661)
[»] chr2 (1 HSPs)
chr2 (740-795)||(3272796-3272851)


Alignment Details
Target: chr1 (Bit Score: 808; Significance: 0; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 808; E-Value: 0
Query Start/End: Original strand, 10 - 846
Target Start/End: Original strand, 6840781 - 6841617
Alignment:
Q  10 cgtcatgttgaagtctaacaactttgaaattatttatatccttaaaggcacaaaaaccatacaaggaatcatcatatttagatcagagaatgagggtgca 109  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6840781 cgtcatgttgaagtctaacaactttgaaattatttatatccttaaaggcacaaaaaccatacaaggaatcatcatatttagatcagagaatgagggtgca 6840880  T
Q  110 ggaggggatacggtgaacttgtttaactgttgggttccatagaatcaagtgaccaagatttgttgaatgccaataaaaagcttttaaaaagaaaacacca 209  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6840881 ggaggggatacggtgaacttgtttaactgttgggttccatagaatcaagtgaccaagatttgttgaatgccaataaaaagcttttaaaaagaaaacacca 6840980  T
Q  210 ttgcaattgccatatgattcaatcttgagtatggttttattgttagcaggaaagagggagtagaagcagatgcgctccacctcctcatggtcgaggtcgt 309  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6840981 ttgcaattgccatatgattcaatcttgagtatggttttattgttagcaggaaagagggagtagaagcagatgcgctccacctcctcatggtcgaggtcgt 6841080  T
Q  310 cacaggagagaagagcgatatagggaggtctgaattcaatgggtctgggaatgatcatgagactatggcctttacggttttcagaattgtgcagtttcca 409  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6841081 cacaggagagaagagcgatatagggaggtctgaattcaatgggtctgggaatgatcatgagactatggcctttacggttttcagaattgtgcagtttcca 6841180  T
Q  410 cctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagatttgaaacgcatcaatgattttaccggtagatgaaatagtatctct 509  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6841181 cctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagatttgaaacgcatcaatgattttaccggtagatgaaatagtatctct 6841280  T
Q  510 atctgtaaatctgagtttaaactcgaccagttcattctctctgcacacaaatccatcacaaattggatactagggttacgagcaagaggtagagaaccaa 609  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6841281 atctgtaaatctgagtttaaactcgaccagttcattctctctgcacacaaatccatcacaaattggatactagggttacgagcaagaggtagagaaccaa 6841380  T
Q  610 agttttatttgnnnnnnnggtaacaaaagggggagcagattccctcccgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacat 709  Q
    |||||||||||       ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6841381 agttttatttgtttttttggtaacaaaagggggagcagattccctcctgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacat 6841480  T
Q  710 tatctctcttcattttgacatttaatttctatttaattcctcacatgtatttatcatttaatggctaggattccaccggactctccattttaccccgggg 809  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6841481 tatctctcttcattttgacatttaatttctatttaattcctcacatgtatttatcatttaatggctaggattccaccggactctccattttaccccgggg 6841580  T
Q  810 tccaattatataagaggtaaacaccaacggaagatta 846  Q
    |||||||||||||||| ||||||||||||||||||||    
T  6841581 tccaattatataagagataaacaccaacggaagatta 6841617  T

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

Target: chr1; HSP #2
Raw Score: 129; E-Value: 3e-66
Query Start/End: Original strand, 15 - 533
Target Start/End: Complemental strand, 1178100 - 1177585
Alignment:
Q  15 tgttgaagtctaacaactttgaaattatttata------tccttaaaggcacaaaaaccatacaaggaatcatcatatttaga-tcagagaatgagggtg 107  Q
    ||||||||||||||||||||||||||| |  ||      || ||||| ||||| |||||||||| |||||||||||| ||||| | | ||||||||||||    
T  1178100 tgttgaagtctaacaactttgaaattaatgctacagtcgtcgttaaatgcacagaaaccatacagggaatcatcatacttagagtgacagaatgagggtg 1178001  T
Q  108 caggaggggatacggtgaacttgtttaactgttgggttccatagaatcaagtgaccaagatttgttgaatgccaataaaaagcttttaaaaagaaaacac 207  Q
    |||| ||| ||| |||| || ||||||  |||||||||||||||||||||||||||||||   ||||||| || ||||||||||||||| ||||||||||    
T  1178000 cagg-gggtataaggtggacctgtttagttgttgggttccatagaatcaagtgaccaaga---gttgaattcctataaaaagcttttaagaagaaaacac 1177905  T
Q  208 cattgcaattgccatatgattcaatcttgagtatggttttattgttagcaggaaagagggagtagaagcagatgcgctccacctcctcatggtcgaggtc 307  Q
    |||||||||||||||||| ||||||   |  || |  || |   | | |||||||||||||| ||||| ||||  | |||| ||||      |||    |    
T  1177904 cattgcaattgccatatgtttcaattcggtctacgaattga---tcaccaggaaagagggagcagaagtagatatgttccaactcc------tcgccacc 1177814  T
Q  308 gtcacaggagagaagagcgatatagggaggtctgaat---tcaatgggtctgggaatgatcatgagactatggcctttacggttttcagaattgtgcagt 404  Q
     || ||||||||||||| ||| ||||||||| |||||   |||||||||||| ||  ||||||||||||||||||||||  || || |||||||||  |     
T  1177813 atcgcaggagagaagagtgatgtagggaggtttgaatccatcaatgggtctgtgatagatcatgagactatggcctttatcgtatttagaattgtgacgc 1177714  T
Q  405 ttccacctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagatttgaaacgcatcaatgattttaccggtagatgaaatagta 504  Q
     ||||||||||||||||| | ||| ||||||  ||||||||||| |||||||||||| ||||||| |||||||| ||||| || || ||||||| |||||    
T  1177713 ctccacctattcacaaaagagggacttttgatcagaatgttccatgatttttcaacacatttgaatcgcatcaacgatttcactggcagatgaagtagta 1177614  T
Q  505 tctctatctgtaaatctgagtttaaactc 533  Q
    |||||||||  |||||||||  |||||||    
T  1177613 tctctatctccaaatctgagcctaaactc 1177585  T

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

Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 744 - 781
Target Start/End: Complemental strand, 12806727 - 12806690
Alignment:
Q  744 aattcctcacatgtatttatcatttaatggctaggatt 781  Q
    |||||||||||||||||||| ||||||||| |||||||    
T  12806727 aattcctcacatgtatttattatttaatggttaggatt 12806690  T

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

Target: chr6 (Bit Score: 137; Significance: 4e-71; HSPs: 8)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 137; E-Value: 4e-71
Query Start/End: Original strand, 640 - 796
Target Start/End: Original strand, 27336354 - 27336510
Alignment:
Q  640 gggagcagattccctcccgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaatttct 739  Q
    ||||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||    
T  27336354 gggagcagattccctcctgtgaaaactttctccagttttctactgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaattcct 27336453  T
Q  740 atttaattcctcacatgtatttatcatttaatggctaggattccaccggactctcca 796  Q
    ||||||||| |||||||||||||||||||||||||||||||||||| ||||||||||    
T  27336454 atttaattcttcacatgtatttatcatttaatggctaggattccacaggactctcca 27336510  T

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

Target: chr6; HSP #2
Raw Score: 137; E-Value: 4e-71
Query Start/End: Original strand, 640 - 796
Target Start/End: Original strand, 27397094 - 27397250
Alignment:
Q  640 gggagcagattccctcccgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaatttct 739  Q
    ||||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||    
T  27397094 gggagcagattccctcctgtgaaaactttctccagttttctactgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaattcct 27397193  T
Q  740 atttaattcctcacatgtatttatcatttaatggctaggattccaccggactctcca 796  Q
    ||||||||| |||||||||||||||||||||||||||||||||||| ||||||||||    
T  27397194 atttaattcttcacatgtatttatcatttaatggctaggattccacaggactctcca 27397250  T

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

Target: chr6; HSP #3
Raw Score: 45; E-Value: 3e-16
Query Start/End: Original strand, 365 - 521
Target Start/End: Complemental strand, 34169323 - 34169167
Alignment:
Q  365 catgagactatggcctttacggttttcagaattgtgcagtttccacctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagat 464  Q
    ||||||||||| | |||||   ||||||||| |||||||  ||| | || | | |||| ||||||||||||| |||||||||||||||  || |||  ||    
T  34169323 catgagactataggctttatcattttcagaactgtgcagcctcctcttacttagaaaagatggagttttgaatagaatgttccaagatcgttgaacgcat 34169224  T
Q  465 ttgaaacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatct 521  Q
    ||||||||||| | ||||||||| |||||| ||| ||||||||| ||| ||| ||||    
T  34169223 ttgaaacgcattagtgattttactggtagacgaactagtatctccatccgtagatct 34169167  T

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

Target: chr6; HSP #4
Raw Score: 44; E-Value: 0.000000000000001
Query Start/End: Original strand, 369 - 552
Target Start/End: Complemental strand, 34146913 - 34146730
Alignment:
Q  369 agactatggcctttacggttttcagaattgtgcagtttccacctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagatttga 468  Q
    ||||| ||| ||||||  ||||| ||||| |||||  ||| | |||| |||||  | ||||||||||| |||||||||||||||   | |||| ||||||    
T  34146913 agactgtgggctttaccattttctgaattttgcagcatcctcttattgacaaaggaaggagttttgaatagaatgttccaagatagctgaacacatttga 34146814  T
Q  469 aacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatctgagtttaaactcgaccagttcattctctctg 552  Q
    |||||||||  ||||||   |||||| ||| |||||||||||| |||| ||||   |||||||| | ||| |||||||||||||    
T  34146813 aacgcatcagcgattttttgggtagacgaactagtatctctatttgtagatctttatttaaacttgcccaattcattctctctg 34146730  T

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

Target: chr6; HSP #5
Raw Score: 44; E-Value: 0.000000000000001
Query Start/End: Original strand, 369 - 552
Target Start/End: Complemental strand, 34159529 - 34159346
Alignment:
Q  369 agactatggcctttacggttttcagaattgtgcagtttccacctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagatttga 468  Q
    ||||| ||| ||||||  ||||| ||||| |||||  ||| | |||| |||||  | ||||||||||| |||||||||||||||   | |||| ||||||    
T  34159529 agactgtgggctttaccattttctgaattttgcagcatcctcttattgacaaaggaaggagttttgaatagaatgttccaagatagctgaacacatttga 34159430  T
Q  469 aacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatctgagtttaaactcgaccagttcattctctctg 552  Q
    |||||||||  ||||||   |||||| ||| |||||||||||| |||| ||||   |||||||| | ||| |||||||||||||    
T  34159429 aacgcatcagcgattttttgggtagacgaactagtatctctatttgtagatctttatttaaacttgcccaattcattctctctg 34159346  T

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

Target: chr6; HSP #6
Raw Score: 41; E-Value: 0.00000000000008
Query Start/End: Original strand, 428 - 552
Target Start/End: Complemental strand, 34106181 - 34106057
Alignment:
Q  428 agttttgaaaagaatgttccaagatttttcaacagatttgaaacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatctgagttt 527  Q
    |||||| || ||||||||||||||   || ||||  ||||||||||||||||||||||  ||||||| ||| || |||||||||||||| ||||    ||    
T  34106181 agttttaaatagaatgttccaagaccgttgaacacttttgaaacgcatcaatgattttctcggtagacgaactaatatctctatctgtagatcttcagtt 34106082  T
Q  528 aaactcgaccagttcattctctctg 552  Q
    ||||| | ||| |||||||||||||    
T  34106081 aaacttgcccaattcattctctctg 34106057  T

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

Target: chr6; HSP #7
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 366 - 521
Target Start/End: Complemental strand, 34115214 - 34115059
Alignment:
Q  366 atgagactatggcctttacggttttcagaattgtgcagtttccacctattcacaaaatatggagttttgaaaagaatgttccaagatttttcaacagatt 465  Q
    |||||||||| | ||||||  |||| ||||||||||||  ||||| | ||| ||||  | |||| ||  || ||||| | |||||||| || |||  |||    
T  34115214 atgagactattggctttaccatttttagaattgtgcagcctccacttcttctcaaaggaaggagattcaaatagaatctcccaagattgttgaacgcatt 34115115  T
Q  466 tgaaacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatct 521  Q
    ||||||||||||| |||||| |||||||| ||  ||||||||||||||||| ||||    
T  34115114 tgaaacgcatcaacgatttttccggtagacgagttagtatctctatctgtagatct 34115059  T

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

Target: chr6; HSP #8
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 428 - 552
Target Start/End: Complemental strand, 34119695 - 34119571
Alignment:
Q  428 agttttgaaaagaatgttccaagatttttcaacagatttgaaacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatctgagttt 527  Q
    ||||||||| |||||||||||| ||   | |||| |||||||| ||||||  ||||||   |||||| ||| |||||||||||| |||| ||||   |||    
T  34119695 agttttgaatagaatgttccaaaatagctgaacacatttgaaatgcatcagcgattttttgggtagacgaactagtatctctatttgtagatcttcattt 34119596  T
Q  528 aaactcgaccagttcattctctctg 552  Q
    ||||| | ||| |||||||||||||    
T  34119595 aaacttgcccaattcattctctctg 34119571  T

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

Target: chr3 (Bit Score: 133; Significance: 1e-68; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 133; E-Value: 1e-68
Query Start/End: Original strand, 640 - 796
Target Start/End: Original strand, 3113218 - 3113374
Alignment:
Q  640 gggagcagattccctcccgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaatttct 739  Q
    ||||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||    
T  3113218 gggagcagattccctcctgtgaaaactttctccagttttctactgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaattcct 3113317  T
Q  740 atttaattcctcacatgtatttatcatttaatggctaggattccaccggactctcca 796  Q
    |||||||||||||||| ||||||||||||||||| ||||||||||| ||||||||||    
T  3113318 atttaattcctcacatctatttatcatttaatggttaggattccactggactctcca 3113374  T

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

Target: chr3; HSP #2
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 645 - 791
Target Start/End: Original strand, 28879569 - 28879705
Alignment:
Q  645 cagattccctcccgtgaaaactttctccagttttctaccgtttaa-atctaaaccattaaatacattatctctcttcattttgacatttaatttctattt 743  Q
    |||||| ||||  ||||| ||||||| ||||||||||| |||||| |||||||||||||| |||||||||||| ||||||||||           |||||    
T  28879569 cagatttcctcttgtgaatactttctgcagttttctacggtttaacatctaaaccattaagtacattatctctattcattttga-----------tattt 28879657  T
Q  744 aattcctcacatgtatttatcatttaatggctaggattccaccggact 791  Q
    ||||||||||||||| |||| ||||||||||||||||| ||| |||||    
T  28879658 aattcctcacatgtaattattatttaatggctaggattacactggact 28879705  T

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

Target: chr8 (Bit Score: 96; Significance: 1e-46; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 96; E-Value: 1e-46
Query Start/End: Original strand, 640 - 785
Target Start/End: Complemental strand, 32536154 - 32536020
Alignment:
Q  640 gggagcagattccctcccgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaatttct 739  Q
    ||||||| ||||||||| ||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||           
T  32536154 gggagcatattccctcctgtgaaaactttctccagttttctactgtttaaatctaaaccattaaatacattatctctcttcattttgacattt------- 32536062  T
Q  740 atttaattcctcacatgtatttatcatttaatggctaggattccac 785  Q
        ||||||||||||||||||||||||||||||||||||||||||    
T  32536061 ----aattcctcacatgtatttatcatttaatggctaggattccac 32536020  T

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

Target: chr8; HSP #2
Raw Score: 71; E-Value: 1e-31
Query Start/End: Original strand, 640 - 795
Target Start/End: Complemental strand, 39548880 - 39548722
Alignment:
Q  640 gggagcagattccctcccgtgaaaactttctccagttttctaccgtttaaatctaaaccattaaatacattatctctcttcattttgacatttaatttct 739  Q
    ||||||||||| || ||  |||||||||| ||||||||||||| ||||||||||||||||||||||| ||||| |||||||||||||| ||||||| ||     
T  39548880 gggagcagatttccacctctgaaaactttttccagttttctactgtttaaatctaaaccattaaatatattatttctcttcattttgatatttaatgtca 39548781  T
Q  740 attt----aattcctcacatgtatttatcatttaatggctaggattccaccggactctcc 795  Q
    | ||    || |  |||||||||||||| ||||||||||||||||||||| |||||||||    
T  39548780 aattcaacaaat-atcacatgtatttattatttaatggctaggattccactggactctcc 39548722  T

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Target: scaffold0620 (Bit Score: 39; Significance: 0.000000000001; HSPs: 1)
Name: scaffold0620
Description:

Target: scaffold0620; HSP #1
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 438 - 552
Target Start/End: Complemental strand, 6661 - 6547
Alignment:
Q  438 agaatgttccaagatttttcaacagatttgaaacgcatcaatgattttaccggtagatgaaatagtatctctatctgtaaatctgagtttaaactcgacc 537  Q
    |||||||||||||||  || ||||  |||| |||||||||||||||||  ||||||| ||| || |||||||||||||| ||||    ||||||| | ||    
T  6661 agaatgttccaagatcgttgaacacttttgtaacgcatcaatgattttttcggtagacgaactaatatctctatctgtagatcttcacttaaacttgccc 6562  T
Q  538 agttcattctctctg 552  Q
    | |||||||||||||    
T  6561 aattcattctctctg 6547  T

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Target: chr2 (Bit Score: 36; Significance: 0.00000000008; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 36; E-Value: 0.00000000008
Query Start/End: Original strand, 740 - 795
Target Start/End: Original strand, 3272796 - 3272851
Alignment:
Q  740 atttaattcctcacatgtatttatcatttaatggctaggattccaccggactctcc 795  Q
    |||||||||||||||| ||||||| ||| ||||||| ||||| |||||||||||||    
T  3272796 atttaattcctcacatttatttattattcaatggcttggattacaccggactctcc 3272851  T

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