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: F9301-LTR4-TNT-insertion-11 (Length: 654)

Name: F9301-LTR4-TNT-insertion-11
Description: F9301-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9301-LTR4-TNT-insertion-11
F9301-LTR4-TNT-insertion-11
[»] chr6 (4 HSPs)
chr6 (9-458)||(33615784-33616233)
chr6 (561-644)||(33615598-33615681)
chr6 (561-640)||(11658847-11658923)
chr6 (564-627)||(32361287-32361346)
[»] chr1 (5 HSPs)
chr1 (563-634)||(10925658-10925725)
chr1 (564-640)||(31915468-31915541)
chr1 (564-640)||(10927113-10927185)
chr1 (606-634)||(9199319-9199347)
chr1 (561-593)||(16261499-16261531)
[»] chr7 (2 HSPs)
chr7 (561-639)||(35814787-35814861)
chr7 (564-634)||(6451854-6451920)
[»] chr2 (3 HSPs)
chr2 (561-594)||(21772290-21772323)
chr2 (606-644)||(19582067-19582105)
chr2 (561-640)||(23457560-23457637)
[»] chr4 (2 HSPs)
chr4 (606-644)||(10494860-10494898)
chr4 (606-634)||(13990781-13990809)
[»] chr3 (1 HSPs)
chr3 (564-602)||(365725-365763)


Alignment Details
Target: chr6 (Bit Score: 442; Significance: 0; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 442; E-Value: 0
Query Start/End: Original strand, 9 - 458
Target Start/End: Complemental strand, 33616233 - 33615784
Alignment:
Q  9 tcgtcacttcaaaccccattgtccatataattgaaaatatgataataagatacgttaatgagtctcactttgaaagaaaatttgtctgaaataagtgttt 108  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33616233 tcgtcacttcaaaccccattgtccatataattgaaaatatgataataagatacgttaatgagtctcactttgaaagaaaatttgtctgaaataagtgttt 33616134  T
Q  109 tataagttaatgttatcttcactttacaaatcggttttgtaatgataagttagggcatttgctaggtcatttgtagtgtccatcaaaattaggtcaaatc 208  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33616133 tataagttaatgttatcttcactttacaaatcggttttgtaatgataagttagggcatttgctaggtcatttgtagtgtccatcaaaattaggtcaaatc 33616034  T
Q  209 gtttttataagttaattcgcattgcagtctccaacaaaatttgttaggtcatttcctataatgttttctaatcaggtcatctatcatttatatccacaca 308  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33616033 gtttttataagttaattcgcattgcagtctccaacaaaatttgttaggtcatttcctataatgttttctaatcaggtcatctatcatttatatccacaca 33615934  T
Q  309 ttaagcttatatataatattggatatggttgagtgtgctagagtttcgggatgaaaaatggtcccaacaagtgtttacaagtgatggtaattctcggtcc 408  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||| |    
T  33615933 ttaagcttatatataatattggatatggttgagtgtgctagagtttcgggatgaaaaatggtctcaacaagtgtttacaagtgatggtaattctcggttc 33615834  T
Q  409 atataccgaccgatttagtggagttgtgatgtaggagggtttccctagta 458  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33615833 atataccgaccgatttagtggagttgtgatgtaggagggtttccctagta 33615784  T

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Target: chr6; HSP #2
Raw Score: 84; E-Value: 1e-39
Query Start/End: Original strand, 561 - 644
Target Start/End: Complemental strand, 33615681 - 33615598
Alignment:
Q  561 agtttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttttcaatttatggtgaatt 644  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33615681 agtttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttttcaatttatggtgaatt 33615598  T

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Target: chr6; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 561 - 640
Target Start/End: Original strand, 11658847 - 11658923
Alignment:
Q  561 agtttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttt-tcaatttatggtg 640  Q
    |||||||||||| || | ||||||| |||||||| ||||||    |||||||||||||||||||||| ||||||| |||||    
T  11658847 agtttaacagttataacctaagagaaaacttttattcaatc----aataatattttagagagtttttctcaatttttggtg 11658923  T

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Target: chr6; HSP #4
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 564 - 627
Target Start/End: Original strand, 32361287 - 32361346
Alignment:
Q  564 ttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttt 627  Q
    |||| ||||||||||||||||| |||||||| ||| ||    ||||||||||||||||||||||    
T  32361287 ttaaaagttgtagcttaagagacaacttttattcattc----aataatattttagagagttttt 32361346  T

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Target: chr1 (Bit Score: 39; Significance: 0.000000000001; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 39; E-Value: 0.000000000001
Query Start/End: Original strand, 563 - 634
Target Start/End: Original strand, 10925658 - 10925725
Alignment:
Q  563 tttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttttcaattt 634  Q
    ||||||||||||||||||||||  |||||||| ||| |||    ||||||||||||||||||||||||||||    
T  10925658 tttaacagttgtagcttaagaggaaacttttattcattca----ataatattttagagagttttttcaattt 10925725  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 564 - 640
Target Start/End: Original strand, 31915468 - 31915541
Alignment:
Q  564 ttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttt-tcaatttatggtg 640  Q
    ||||||| |||||| |||||||||||||||| ||||||||||     ||||||||||||||||| ||||||| |||||    
T  31915468 ttaacagatgtagcctaagagataacttttattcaatcagtag----tattttagagagtttttctcaatttctggtg 31915541  T

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Target: chr1; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 564 - 640
Target Start/End: Original strand, 10927113 - 10927185
Alignment:
Q  564 ttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttttcaatttatggtg 640  Q
    |||||| ||||||| ||||||| |||||||| ||| |    |||||||||||||||||||||| ||||||| |||||    
T  10927113 ttaacaattgtagcctaagagacaacttttattcatt----aaataatattttagagagttttctcaatttctggtg 10927185  T

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Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 606 - 634
Target Start/End: Complemental strand, 9199347 - 9199319
Alignment:
Q  606 aataatattttagagagttttttcaattt 634  Q
    |||||||||||||||||||||||||||||    
T  9199347 aataatattttagagagttttttcaattt 9199319  T

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Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 561 - 593
Target Start/End: Original strand, 16261499 - 16261531
Alignment:
Q  561 agtttaacagttgtagcttaagagataactttt 593  Q
    ||||||||||||||||||||||||| |||||||    
T  16261499 agtttaacagttgtagcttaagagacaactttt 16261531  T

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Target: chr7 (Bit Score: 38; Significance: 0.000000000004; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 38; E-Value: 0.000000000004
Query Start/End: Original strand, 561 - 639
Target Start/End: Original strand, 35814787 - 35814861
Alignment:
Q  561 agtttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttttcaatttatggt 639  Q
    |||||||| ||||||||||||||||  ||||||| ||| |||    |||||||||||||||||||| ||||||||||||    
T  35814787 agtttaacggttgtagcttaagagacgacttttattcattca----ataatattttagagagttttctcaatttatggt 35814861  T

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Target: chr7; HSP #2
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 564 - 634
Target Start/End: Complemental strand, 6451920 - 6451854
Alignment:
Q  564 ttaacagttgtagcttaagagataacttttactcaatcagtaaataatattttagagagttttttcaattt 634  Q
    |||||||||||||| ||||||| |||||| | ||| ||    |||||||||||||||||||||||||||||    
T  6451920 ttaacagttgtagcctaagagacaactttaattcattc----aataatattttagagagttttttcaattt 6451854  T

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Target: chr2 (Bit Score: 34; Significance: 0.000000001; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 561 - 594
Target Start/End: Original strand, 21772290 - 21772323
Alignment:
Q  561 agtttaacagttgtagcttaagagataactttta 594  Q
    ||||||||||||||||||||||||||||||||||    
T  21772290 agtttaacagttgtagcttaagagataactttta 21772323  T

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Target: chr2; HSP #2
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 606 - 644
Target Start/End: Original strand, 19582067 - 19582105
Alignment:
Q  606 aataatattttagagagttttttcaatttatggtgaatt 644  Q
    ||||||||||||||||||||||||||||| | |||||||    
T  19582067 aataatattttagagagttttttcaatttctagtgaatt 19582105  T

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Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 561 - 640
Target Start/End: Original strand, 23457560 - 23457637
Alignment:
Q  561 agtttaacagttgtagcttaagaga--taacttttactcaatcagtaaataatattttagagagttttttcaatttatggtg 640  Q
    ||||||||| ||||||| |||||||  ||||||||| ||| |||    |||||||||||||||||||| ||||||| |||||    
T  23457560 agtttaacaattgtagcctaagagacttaacttttattcattca----ataatattttagagagttttctcaatttttggtg 23457637  T

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Target: chr4 (Bit Score: 31; Significance: 0.00000006; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 606 - 644
Target Start/End: Original strand, 10494860 - 10494898
Alignment:
Q  606 aataatattttagagagttttttcaatttatggtgaatt 644  Q
    ||||||||||||||||||||| ||||||| |||||||||    
T  10494860 aataatattttagagagttttctcaatttctggtgaatt 10494898  T

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

Target: chr4; HSP #2
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 606 - 634
Target Start/End: Complemental strand, 13990809 - 13990781
Alignment:
Q  606 aataatattttagagagttttttcaattt 634  Q
    |||||||||||||||||||||||||||||    
T  13990809 aataatattttagagagttttttcaattt 13990781  T

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

Target: chr3 (Bit Score: 31; Significance: 0.00000006; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 564 - 602
Target Start/End: Complemental strand, 365763 - 365725
Alignment:
Q  564 ttaacagttgtagcttaagagataacttttactcaatca 602  Q
    |||||||||||||| |||||||||||||||| |||||||    
T  365763 ttaacagttgtagcctaagagataacttttattcaatca 365725  T

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



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