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: Tnk446-LTR4-TNT-insertion-8 (Length: 777)

Name: Tnk446-LTR4-TNT-insertion-8
Description: Tnk446-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Tnk446-LTR4-TNT-insertion-8
Tnk446-LTR4-TNT-insertion-8
[»] chr2 (3 HSPs)
chr2 (52-777)||(16698142-16698860)
chr2 (647-697)||(35732417-35732467)
chr2 (656-697)||(41508543-41508584)
[»] chr3 (2 HSPs)
chr3 (397-514)||(1366422-1366539)
chr3 (647-696)||(53791954-53792003)
[»] chr1 (2 HSPs)
chr1 (400-514)||(19860759-19860873)
chr1 (651-695)||(32722234-32722278)
[»] scaffold0221 (1 HSPs)
scaffold0221 (400-514)||(21543-21657)
[»] chr4 (4 HSPs)
chr4 (397-490)||(55781640-55781733)
chr4 (397-490)||(55845820-55845913)
chr4 (477-514)||(55781305-55781342)
chr4 (477-514)||(55845485-55845522)
[»] scaffold0455 (1 HSPs)
scaffold0455 (417-457)||(9751-9791)
[»] chr6 (4 HSPs)
chr6 (417-457)||(28131846-28131886)
chr6 (647-702)||(9617436-9617491)
chr6 (636-677)||(9026506-9026547)
chr6 (647-692)||(32908375-32908420)
[»] chr7 (1 HSPs)
chr7 (397-448)||(10571812-10571863)
[»] scaffold0581 (1 HSPs)
scaffold0581 (397-448)||(2789-2840)
[»] scaffold0208 (1 HSPs)
scaffold0208 (397-448)||(15145-15196)
[»] chr8 (2 HSPs)
chr8 (649-704)||(43534924-43534979)
chr8 (647-696)||(29447112-29447161)
[»] chr5 (3 HSPs)
chr5 (8-60)||(36918090-36918142)
chr5 (642-691)||(19625928-19625977)
chr5 (640-697)||(29013001-29013058)


Alignment Details
Target: chr2 (Bit Score: 644; Significance: 0; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 644; E-Value: 0
Query Start/End: Original strand, 52 - 777
Target Start/End: Original strand, 16698142 - 16698860
Alignment:
Q  52 tttcttagttgctgacattatattttcctgttacagcataacatatacagacttcactcagcaaatatgacattgaaaaagtgaacttcaagggaaaagt 151  Q
    |||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||| |    
T  16698142 tttcttagttgctgacattatattttcctgttacagcataacatatgcagacttcactcagcaaatatgacattgaaaaagtgaacttcaagggtaaaat 16698241  T
Q  152 ttcaaagttactccctccatttcatcttttgtaatttaaggtttctggtcatagtacaagaaatcatttaaaagatgtatattttcaccaaaatatcctt 251  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  16698242 ttcaaagttactccctccatttcatcttttgtaatttaaggtttctggtcatagtacaagaaatcatttaaaagatgtatattttcaccaaaatatcctt 16698341  T
Q  252 aacttactttatcattaattgttttacaagttctcactttttaatgaagagtgcataaatacttagatttggattgcacactgtcaacatctatgcattc 351  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  16698342 aacttactttatcattaattgttttacaagttctcactttttaatgaagagtgcataaatacttagatttggattgcacactgtcaacatctatgcattc 16698441  T
Q  352 acacaatcggtacattggttgtggttggatgttgatcggatgatctagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactga 451  Q
    || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  16698442 acgcaatcggtacattggttgtggttggatgttgatcggatgatctagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactga 16698541  T
Q  452 ctgcgtgggattacggacagcatgcgtttcaaattctaaatactacaaaattattacaaaataaatgtcgattatatcttggatttctaaaacatcagtt 551  Q
     ||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  16698542 ttgcgtgggattacggactgcatgcgtttcaaattctaaatactacaaaattattacaaaataaatgtcgattatatcttggatttctaaaacatcagtt 16698641  T
Q  552 gatttgaagcacatataaatgttgaaatttatgtagtactgacactttagattgaatgtgtctccagtgtgcagcacatgtcattgtccaacaccacacc 651  Q
    ||||||||||| |||||||||||||||||||||||| |||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||    
T  16698642 gatttgaagcatatataaatgttgaaatttatgtagcactgacactttagattgaatgtgtctccggtgtgcagcacatgtcactgtccaacaccacacc 16698741  T
Q  652 gacacatgtagttacattcaattattagattttctcaaaatattaccggtatcggttaaaattagcaaatatttagaatgtanggactagggagcaacaa 751  Q
    |||||||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||       |||||||||||||    
T  16698742 gacacatgcagttacattcaattattagattttctaaaaatattaccagtatcggttaaaattagcaaatatttagaatg-------tagggagcaacaa 16698834  T
Q  752 gccaaaaagacttgacagatgattag 777  Q
    |||||||| |||||||||||||||||    
T  16698835 gccaaaaaaacttgacagatgattag 16698860  T

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

Target: chr2; HSP #2
Raw Score: 31; E-Value: 0.00000007
Query Start/End: Original strand, 647 - 697
Target Start/End: Complemental strand, 35732467 - 35732417
Alignment:
Q  647 acaccgacacatgtagttacattcaattattagattttctcaaaatattac 697  Q
    |||||||||| ||||||||||||||| |||| || ||||||||| ||||||    
T  35732467 acaccgacacttgtagttacattcaaatatttgactttctcaaattattac 35732417  T

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Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 656 - 697
Target Start/End: Complemental strand, 41508584 - 41508543
Alignment:
Q  656 catgtagttacattcaattattagattttctcaaaatattac 697  Q
    ||||||||||||||||||||||  ||||||||||| ||||||    
T  41508584 catgtagttacattcaattattctattttctcaaattattac 41508543  T

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

Target: chr3 (Bit Score: 86; Significance: 1e-40; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 86; E-Value: 1e-40
Query Start/End: Original strand, 397 - 514
Target Start/End: Original strand, 1366422 - 1366539
Alignment:
Q  397 tagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactgactgcgtgggattacggacagcatgcgtttcaaattctaaatacta 496  Q
    ||||||| |||||||||| |||||||||||||||||||||||||||||||||||||| ||| ||||| | ||| ||||||||||||||||||||||||||    
T  1366422 tagatttggagttagacctatctcgatcaaacaaccaccgatgtacatgtactgactacgtcggatttcagactgcatgcgtttcaaattctaaatacta 1366521  T
Q  497 caaaattattacaaaata 514  Q
    |||||| |||||||||||    
T  1366522 caaaataattacaaaata 1366539  T

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Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 647 - 696
Target Start/End: Original strand, 53791954 - 53792003
Alignment:
Q  647 acaccgacacatgtagttacattcaattattagattttctcaaaatatta 696  Q
    |||||||||||||| ||||||||||||||||   |||||||||| |||||    
T  53791954 acaccgacacatgtggttacattcaattattcctttttctcaaattatta 53792003  T

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Target: chr1 (Bit Score: 75; Significance: 4e-34; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 75; E-Value: 4e-34
Query Start/End: Original strand, 400 - 514
Target Start/End: Complemental strand, 19860873 - 19860759
Alignment:
Q  400 atttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactgactgcgtgggattacggacagcatgcgtttcaaattctaaatactacaa 499  Q
    |||| |||||||||| |||||||||||||||||||||||||||||||||||||||||| |||||  ||||  |||| |||||||||||||||||||| ||    
T  19860873 atttggagttagacctatctcgatcaaacaaccaccgatgtacatgtactgactgcgtcggattttggacttcatgtgtttcaaattctaaatactagaa 19860774  T
Q  500 aattattacaaaata 514  Q
    ||| |||||||||||    
T  19860773 aataattacaaaata 19860759  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 651 - 695
Target Start/End: Original strand, 32722234 - 32722278
Alignment:
Q  651 cgacacatgtagttacattcaattattagattttctcaaaatatt 695  Q
    |||||||||||||||||||||||||||  ||||||| ||||||||    
T  32722234 cgacacatgtagttacattcaattattttattttcttaaaatatt 32722278  T

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Target: scaffold0221 (Bit Score: 71; Significance: 9e-32; HSPs: 1)
Name: scaffold0221
Description:

Target: scaffold0221; HSP #1
Raw Score: 71; E-Value: 9e-32
Query Start/End: Original strand, 400 - 514
Target Start/End: Original strand, 21543 - 21657
Alignment:
Q  400 atttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactgactgcgtgggattacggacagcatgcgtttcaaattctaaatactacaa 499  Q
    |||| |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||| | ||| | || | |||||||||||||| |||||||    
T  21543 atttggagttagacctatctcgatcaaacaaccaccgatgtacatgtactgactgcgtgggatttcagactgaattcatttcaaattctaaaaactacaa 21642  T
Q  500 aattattacaaaata 514  Q
     || |||||||||||    
T  21643 cataattacaaaata 21657  T

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Target: chr4 (Bit Score: 54; Significance: 1e-21; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 397 - 490
Target Start/End: Complemental strand, 55781733 - 55781640
Alignment:
Q  397 tagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactgactgcgtgggattacggacagcatgcgtttcaaattctaa 490  Q
    ||||||| |||||||||| || || |||||||||||||||||||||||||||||||||||| ||||| |||||  |||  ||||||||||||||    
T  55781733 tagatttggagttagacctatttcaatcaaacaaccaccgatgtacatgtactgactgcgtcggatttcggactacatatgtttcaaattctaa 55781640  T

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Target: chr4; HSP #2
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 397 - 490
Target Start/End: Complemental strand, 55845913 - 55845820
Alignment:
Q  397 tagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtactgactgcgtgggattacggacagcatgcgtttcaaattctaa 490  Q
    ||||||| |||||||||| || || |||||||||||||||||||||||||||||||||||| ||||| |||||  |||  ||||||||||||||    
T  55845913 tagatttggagttagacctatttcaatcaaacaaccaccgatgtacatgtactgactgcgtcggatttcggactacatatgtttcaaattctaa 55845820  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 477 - 514
Target Start/End: Complemental strand, 55781342 - 55781305
Alignment:
Q  477 gtttcaaattctaaatactacaaaattattacaaaata 514  Q
    |||||||||||||||||||| ||||| |||||||||||    
T  55781342 gtttcaaattctaaatactagaaaataattacaaaata 55781305  T

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Target: chr4; HSP #4
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 477 - 514
Target Start/End: Complemental strand, 55845522 - 55845485
Alignment:
Q  477 gtttcaaattctaaatactacaaaattattacaaaata 514  Q
    |||||||||||||||||||| ||||| |||||||||||    
T  55845522 gtttcaaattctaaatactagaaaataattacaaaata 55845485  T

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Target: scaffold0455 (Bit Score: 41; Significance: 0.00000000000008; HSPs: 1)
Name: scaffold0455
Description:

Target: scaffold0455; HSP #1
Raw Score: 41; E-Value: 0.00000000000008
Query Start/End: Original strand, 417 - 457
Target Start/End: Complemental strand, 9791 - 9751
Alignment:
Q  417 tctcgatcaaacaaccaccgatgtacatgtactgactgcgt 457  Q
    |||||||||||||||||||||||||||||||||||||||||    
T  9791 tctcgatcaaacaaccaccgatgtacatgtactgactgcgt 9751  T

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Target: chr6 (Bit Score: 41; Significance: 0.00000000000008; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 41; E-Value: 0.00000000000008
Query Start/End: Original strand, 417 - 457
Target Start/End: Complemental strand, 28131886 - 28131846
Alignment:
Q  417 tctcgatcaaacaaccaccgatgtacatgtactgactgcgt 457  Q
    |||||||||||||||||||||||||||||||||||||||||    
T  28131886 tctcgatcaaacaaccaccgatgtacatgtactgactgcgt 28131846  T

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

Target: chr6; HSP #2
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 647 - 702
Target Start/End: Complemental strand, 9617491 - 9617436
Alignment:
Q  647 acaccgacacatgtagttacattcaattattagattttctcaaaatattaccggta 702  Q
    |||||||||||| || ||||||| ||||||  |||||||||||| |||||||||||    
T  9617491 acaccgacacatataattacattgaattatgtgattttctcaaattattaccggta 9617436  T

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

Target: chr6; HSP #3
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 636 - 677
Target Start/End: Complemental strand, 9026547 - 9026506
Alignment:
Q  636 tgtccaacaccacaccgacacatgtagttacattcaattatt 677  Q
    ||||||||||||||||||||||||| |||||| |||| ||||    
T  9026547 tgtccaacaccacaccgacacatgtggttacagtcaaatatt 9026506  T

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

Target: chr6; HSP #4
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 647 - 692
Target Start/End: Complemental strand, 32908420 - 32908375
Alignment:
Q  647 acaccgacacatgtagttacattcaattattagattttctcaaaat 692  Q
    ||||||||||| || ||||||||||||||||  |||||||||||||    
T  32908420 acaccgacacacgtggttacattcaattattctattttctcaaaat 32908375  T

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

Target: chr7 (Bit Score: 40; Significance: 0.0000000000003; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 397 - 448
Target Start/End: Complemental strand, 10571863 - 10571812
Alignment:
Q  397 tagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtac 448  Q
    ||||||| |||||||||| ||||||||||||||||||||| |||||||||||    
T  10571863 tagatttggagttagacctatctcgatcaaacaaccaccgttgtacatgtac 10571812  T

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Target: scaffold0581 (Bit Score: 36; Significance: 0.00000000007; HSPs: 1)
Name: scaffold0581
Description:

Target: scaffold0581; HSP #1
Raw Score: 36; E-Value: 0.00000000007
Query Start/End: Original strand, 397 - 448
Target Start/End: Complemental strand, 2840 - 2789
Alignment:
Q  397 tagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtac 448  Q
    |||||||  ||||||||| |||| ||||||||||||||||||||||||||||    
T  2840 tagatttgaagttagacctatcttgatcaaacaaccaccgatgtacatgtac 2789  T

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

Target: scaffold0208 (Bit Score: 36; Significance: 0.00000000007; HSPs: 1)
Name: scaffold0208
Description:

Target: scaffold0208; HSP #1
Raw Score: 36; E-Value: 0.00000000007
Query Start/End: Original strand, 397 - 448
Target Start/End: Original strand, 15145 - 15196
Alignment:
Q  397 tagatttagagttagaccaatctcgatcaaacaaccaccgatgtacatgtac 448  Q
    |||||||  ||||||||| |||||||||||||||||||||||||| ||||||    
T  15145 tagatttgaagttagacctatctcgatcaaacaaccaccgatgtatatgtac 15196  T

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

Target: chr8 (Bit Score: 32; Significance: 0.00000002; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 649 - 704
Target Start/End: Complemental strand, 43534979 - 43534924
Alignment:
Q  649 accgacacatgtagttacattcaattattagattttctcaaaatattaccggtatc 704  Q
    |||||||||||||||||||||||| ||||  ||||||||||| ||||  |||||||    
T  43534979 accgacacatgtagttacattcaaatatttcattttctcaaattatttacggtatc 43534924  T

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

Target: chr8; HSP #2
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 647 - 696
Target Start/End: Original strand, 29447112 - 29447161
Alignment:
Q  647 acaccgacacatgtagttacattcaattattagattttctcaaaatatta 696  Q
    |||||||||| |||||||||||| ||||||  |||||||||||| |||||    
T  29447112 acaccgacacttgtagttacattgaattatgtgattttctcaaattatta 29447161  T

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

Target: chr5 (Bit Score: 32; Significance: 0.00000002; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 8 - 60
Target Start/End: Original strand, 36918090 - 36918142
Alignment:
Q  8 aaaacaaggtaattgtaacaccnnnnnnncttttcatcatgatgtttcttagt 60  Q
    ||||||||||||||||||||||       ||||||||||||||||||||||||    
T  36918090 aaaacaaggtaattgtaacacctttttttcttttcatcatgatgtttcttagt 36918142  T

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

Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 642 - 691
Target Start/End: Original strand, 19625928 - 19625977
Alignment:
Q  642 acaccacaccgacacatgtagttacattcaattattagattttctcaaaa 691  Q
    |||| |||| ||||||||| ||||||||||||||||  ||||||||||||    
T  19625928 acacaacactgacacatgtggttacattcaattattccattttctcaaaa 19625977  T

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

Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 640 - 697
Target Start/End: Original strand, 29013001 - 29013058
Alignment:
Q  640 caacaccacaccgacacatgtagttacattcaattattagattttctcaaaatattac 697  Q
    |||||| |||| ||||||||| |||||| |||||||||  ||||||||||| ||||||    
T  29013001 caacacgacacggacacatgtcgttacactcaattattttattttctcaaactattac 29013058  T

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



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