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: F9140J-LTR4-TNT-insertion-2 (Length: 585)

Name: F9140J-LTR4-TNT-insertion-2
Description: F9140J-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9140J-LTR4-TNT-insertion-2
F9140J-LTR4-TNT-insertion-2
[»] chr3 (3 HSPs)
chr3 (10-456)||(21786380-21786826)
chr3 (504-576)||(21786874-21786946)
chr3 (84-137)||(53005333-53005386)
[»] chr8 (5 HSPs)
chr8 (10-214)||(13861456-13861660)
chr8 (307-456)||(38681991-38682131)
chr8 (307-456)||(38683244-38683384)
chr8 (504-549)||(38682169-38682214)
chr8 (504-549)||(38683422-38683467)
[»] chr4 (1 HSPs)
chr4 (10-214)||(52526752-52526956)
[»] chr2 (1 HSPs)
chr2 (10-214)||(26451685-26451889)
[»] chr1 (1 HSPs)
chr1 (282-448)||(35363952-35364121)
[»] chr7 (1 HSPs)
chr7 (318-405)||(32662660-32662747)


Alignment Details
Target: chr3 (Bit Score: 443; Significance: 0; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 443; E-Value: 0
Query Start/End: Original strand, 10 - 456
Target Start/End: Original strand, 21786380 - 21786826
Alignment:
Q  10 agattgattagtttttgtcagctgagatttggattgagacttccatccctgtgtcaacattcttctccaccttcgattatgtattttccggcgacaagat 109  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  21786380 agattgattagtttttgtcagctgagatttggattgagacttccatccctgtgtcaacattcttctccaccttcgattatgtattttccggcgacaagat 21786479  T
Q  110 gatgtcgttaagcaacattaatccaatgccttcagcgcaatggcgacaatgtatccatcctctattcaaaataattatttgctatgactaattcacattg 209  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  21786480 gatgtcgttaagcaacattaatccaatgccttcagcgcaatggcgacaatgtatccatcctctattcaaaataattatttgctatgactaattcacattg 21786579  T
Q  210 ttttccaattattcaatcttatagattgaataatggttggacagatttcttgaacgttgaagcggaggaatcgaagacagtggcggagggtgattattca 309  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  21786580 ttttccaattattcaatcttatagattgaataatggttggacagatttcttgaacgttgaagcggaggaatcgaagacagtggcggagggtgattattca 21786679  T
Q  310 atcgatacaagcaattagagggatttttaaaaattcacccgaaggtgattgtcatgatcgttgatgatctagataggtattcttcataatattcattggt 409  Q
    ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  21786680 atcgatacaagcaattagagggatttttaaaaattcaccggaaggtgattgtcatgatcgttgatgatctagataggtattcttcataatattcattggt 21786779  T
Q  410 tggattcgatgtatcggtctctctatctcatctaattatgtttctga 456  Q
    |||||||||||||||||||||||||||||||||||||||||||||||    
T  21786780 tggattcgatgtatcggtctctctatctcatctaattatgtttctga 21786826  T

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Target: chr3; HSP #2
Raw Score: 73; E-Value: 5e-33
Query Start/End: Original strand, 504 - 576
Target Start/End: Original strand, 21786874 - 21786946
Alignment:
Q  504 ggtaggattgtgtttattgaggaacgcatagcttgactgtaatacttattgtaatacttacaagttgcaattg 576  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  21786874 ggtaggattgtgtttattgaggaacgcatagcttgactgtaatacttattgtaatacttacaagttgcaattg 21786946  T

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Target: chr3; HSP #3
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 84 - 137
Target Start/End: Original strand, 53005333 - 53005386
Alignment:
Q  84 gattatgtattttccggcgacaagatgatgtcgttaagcaacattaatccaatg 137  Q
    |||||||||||||| ||| |||| ||| ||||||||||||||||||||||||||    
T  53005333 gattatgtattttctggcaacaatatgttgtcgttaagcaacattaatccaatg 53005386  T

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Target: chr8 (Bit Score: 101; Significance: 9e-50; HSPs: 5)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 101; E-Value: 9e-50
Query Start/End: Original strand, 10 - 214
Target Start/End: Complemental strand, 13861660 - 13861456
Alignment:
Q  10 agattgattagtttttgtcagctgagatttggattgagacttccatccctgtgtcaacattcttctccaccttcgattatgtattttccggcgacaagat 109  Q
    |||||||| |||||||| || ||||||||| ||||||||||||||||  || || ||  ||||||||||| || ||||||||||||||||| ||||||||    
T  13861660 agattgatcagtttttgacatctgagatttagattgagacttccatctatgcgttaaatttcttctccacgtttgattatgtattttccggtgacaagat 13861561  T
Q  110 gatgtcgttaagcaacattaatccaatgccttcagcgcaatggcgacaatgtatccatcctctattcaaaataattatttgctatgactaattcacattg 209  Q
    ||||| |||||||||||||||||||||| || | |||||   |||||||| ||||| ||||||||||||||| ||| |||  ||||||||||||||||||    
T  13861560 gatgtagttaagcaacattaatccaatgtctccggcgcaccagcgacaatatatccctcctctattcaaaatcattcttttatatgactaattcacattg 13861461  T
Q  210 ttttc 214  Q
    |||||    
T  13861460 ttttc 13861456  T

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Target: chr8; HSP #2
Raw Score: 86; E-Value: 8e-41
Query Start/End: Original strand, 307 - 456
Target Start/End: Original strand, 38681991 - 38682131
Alignment:
Q  307 tcaatcgatacaagcaattagagggatttttaaaaattcacccgaaggtgattgtcatgatcgttgatgatctagataggtattcttcataatattcatt 406  Q
    ||||| |||| ||||||||||||||||||| |||| |||||| |||||||||         |||| ||||||||||||||||||||||||||||||||||    
T  38681991 tcaatagataaaagcaattagagggattttaaaaagttcaccggaaggtgat---------cgtttatgatctagataggtattcttcataatattcatt 38682081  T
Q  407 ggttggattcgatgtatcggtctctctatctcatctaattatgtttctga 456  Q
    |||||||||  |||||||||||||||||||||||||||||||||||||||    
T  38682082 ggttggattgaatgtatcggtctctctatctcatctaattatgtttctga 38682131  T

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Target: chr8; HSP #3
Raw Score: 86; E-Value: 8e-41
Query Start/End: Original strand, 307 - 456
Target Start/End: Original strand, 38683244 - 38683384
Alignment:
Q  307 tcaatcgatacaagcaattagagggatttttaaaaattcacccgaaggtgattgtcatgatcgttgatgatctagataggtattcttcataatattcatt 406  Q
    ||||| |||| ||||||||||||||||||| |||| |||||| |||||||||         |||| ||||||||||||||||||||||||||||||||||    
T  38683244 tcaatagataaaagcaattagagggattttaaaaagttcaccggaaggtgat---------cgtttatgatctagataggtattcttcataatattcatt 38683334  T
Q  407 ggttggattcgatgtatcggtctctctatctcatctaattatgtttctga 456  Q
    |||||||||  |||||||||||||||||||||||||||||||||||||||    
T  38683335 ggttggattgaatgtatcggtctctctatctcatctaattatgtttctga 38683384  T

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Target: chr8; HSP #4
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 504 - 549
Target Start/End: Original strand, 38682169 - 38682214
Alignment:
Q  504 ggtaggattgtgtttattgaggaacgcatagcttgactgtaatact 549  Q
    ||||||||||||||||| |||||| |||||||||||||||||||||    
T  38682169 ggtaggattgtgtttatagaggaatgcatagcttgactgtaatact 38682214  T

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Target: chr8; HSP #5
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 504 - 549
Target Start/End: Original strand, 38683422 - 38683467
Alignment:
Q  504 ggtaggattgtgtttattgaggaacgcatagcttgactgtaatact 549  Q
    ||||||||||||||||| |||||| |||||||||||||||||||||    
T  38683422 ggtaggattgtgtttatagaggaatgcatagcttgactgtaatact 38683467  T

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Target: chr4 (Bit Score: 97; Significance: 2e-47; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 97; E-Value: 2e-47
Query Start/End: Original strand, 10 - 214
Target Start/End: Complemental strand, 52526956 - 52526752
Alignment:
Q  10 agattgattagtttttgtcagctgagatttggattgagacttccatccctgtgtcaacattcttctccaccttcgattatgtattttccggcgacaagat 109  Q
    |||||||| |||||||| || ||||||||| ||||||||||||||||  || || ||  ||||||||||| || ||||||||||||||||| ||||||||    
T  52526956 agattgatcagtttttgacatctgagatttagattgagacttccatctatgcgttaaatttcttctccacgtttgattatgtattttccggtgacaagat 52526857  T
Q  110 gatgtcgttaagcaacattaatccaatgccttcagcgcaatggcgacaatgtatccatcctctattcaaaataattatttgctatgactaattcacattg 209  Q
    ||||| |||||||||||||||||||||| ||   |||||   |||||||| ||||| ||||||||||||||| ||| |||  ||||||||||||||||||    
T  52526856 gatgtagttaagcaacattaatccaatgtctctggcgcaccagcgacaatatatccctcctctattcaaaatcatttttttatatgactaattcacattg 52526757  T
Q  210 ttttc 214  Q
    |||||    
T  52526756 ttttc 52526752  T

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Target: chr2 (Bit Score: 97; Significance: 2e-47; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 97; E-Value: 2e-47
Query Start/End: Original strand, 10 - 214
Target Start/End: Original strand, 26451685 - 26451889
Alignment:
Q  10 agattgattagtttttgtcagctgagatttggattgagacttccatccctgtgtcaacattcttctccaccttcgattatgtattttccggcgacaagat 109  Q
    |||||||| |||||||| |||||||||||| ||||||||||||||||  || || ||  ||||||||||| || ||||||||||||||| | ||||||||    
T  26451685 agattgatcagtttttgacagctgagatttagattgagacttccatctatgcgttaaatttcttctccacatttgattatgtattttccagtgacaagat 26451784  T
Q  110 gatgtcgttaagcaacattaatccaatgccttcagcgcaatggcgacaatgtatccatcctctattcaaaataattatttgctatgactaattcacattg 209  Q
    | ||| |||||||||||||||||||||| || | |||||   |||||||| ||||| ||||||||||||||| ||| |||  ||||||||||||||||||    
T  26451785 gttgtagttaagcaacattaatccaatgtctccggcgcaccagcgacaatatatccctcctctattcaaaatcattctttcatatgactaattcacattg 26451884  T
Q  210 ttttc 214  Q
    |||||    
T  26451885 ttttc 26451889  T

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Target: chr1 (Bit Score: 55; Significance: 3e-22; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 55; E-Value: 3e-22
Query Start/End: Original strand, 282 - 448
Target Start/End: Complemental strand, 35364121 - 35363952
Alignment:
Q  282 gaagacagtggcggagggtgattattcaatcgatacaagcaattagagggatttttaaaaat-tcacccgaaggtgattgtcatgatcgttgatgatcta 380  Q
    |||||||||| | || ||||| | ||||||  ||| ||||||||||||||||||  |||||  |||   |||||||||||||||||||||||||||||||    
T  35364121 gaagacagtgacagaaggtgaatgttcaatacataaaagcaattagagggatttcaaaaaaaatcattggaaggtgattgtcatgatcgttgatgatcta 35364022  T
Q  381 gataggtattcttcataatattcattg--gttggattcgatgtatcggtctctctatctcatctaattat 448  Q
    ||| || |||| || ||||||||||||   ||||||| ||||||| | ||||||| || |||||||||||    
T  35364021 gatcggcattcatcgtaatattcattgattttggattggatgtattgatctctctctcccatctaattat 35363952  T

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Target: chr7 (Bit Score: 48; Significance: 4e-18; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 48; E-Value: 4e-18
Query Start/End: Original strand, 318 - 405
Target Start/End: Original strand, 32662660 - 32662747
Alignment:
Q  318 aagcaattagagggatttttaaaaattcacccgaaggtgattgtcatgatcgttgatgatctagataggtattcttcataatattcat 405  Q
    |||||||||||  |||||  ||| ||||||  ||||||||||||||||||||||| |||||||||| ||||||| |||||||||||||    
T  32662660 aagcaattagatagatttcaaaacattcactagaaggtgattgtcatgatcgttgctgatctagatcggtattcatcataatattcat 32662747  T

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



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