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: SO5572B-LTR4-TNT-insertion-9 (Length: 423)

Name: SO5572B-LTR4-TNT-insertion-9
Description: SO5572B-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] SO5572B-LTR4-TNT-insertion-9
SO5572B-LTR4-TNT-insertion-9
[»] chr8 (8 HSPs)
chr8 (6-413)||(4442270-4442677)
chr8 (96-317)||(29585084-29585306)
chr8 (201-413)||(17478596-17478805)
chr8 (123-310)||(32848857-32849041)
chr8 (93-317)||(4426832-4427053)
chr8 (120-330)||(4409933-4410140)
chr8 (147-340)||(4432754-4432944)
chr8 (12-57)||(4444518-4444562)
[»] chr4 (3 HSPs)
chr4 (93-413)||(8366137-8366452)
chr4 (93-402)||(8382138-8382442)
chr4 (148-340)||(46839689-46839878)
[»] chr5 (2 HSPs)
chr5 (120-413)||(8341618-8341905)
chr5 (284-317)||(40586876-40586909)


Alignment Details
Target: chr8 (Bit Score: 408; Significance: 0; HSPs: 8)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 408; E-Value: 0
Query Start/End: Original strand, 6 - 413
Target Start/End: Complemental strand, 4442677 - 4442270
Alignment:
Q  6 caccttttgcttagcatgaaaataacttgttcgaagaaaatttagaaacttttgagtgtatggggtatcatgtaattccatcaaatgcagtcaaatgtaa 105  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4442677 caccttttgcttagcatgaaaataacttgttcgaagaaaatttagaaacttttgagtgtatggggtatcatgtaattccatcaaatgcagtcaaatgtaa 4442578  T
Q  106 gctgacacattcttgaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgt 205  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4442577 gctgacacattcttgaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgt 4442478  T
Q  206 ctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacg 305  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4442477 ctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacg 4442378  T
Q  306 agacatttaggagcatttggttgtggagcccatcccaaaattggtggtgactgttcctgtaggcaacaaaagacttgaataagatgcaatgttcattgta 405  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4442377 agacatttaggagcatttggttgtggagcccatcccaaaattggtggtgactgttcctgtaggcaacaaaagacttgaataagatgcaatgttcattgta 4442278  T
Q  406 atgaatta 413  Q
    ||||||||    
T  4442277 atgaatta 4442270  T

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

Target: chr8; HSP #2
Raw Score: 95; E-Value: 2e-46
Query Start/End: Original strand, 96 - 317
Target Start/End: Original strand, 29585084 - 29585306
Alignment:
Q  96 tcaaatgtaagctgacacattcttgaggcccttggcacattcgataatctttt-gagaatgtcatacttcttactttggtctaaggaaatatcagaaata 194  Q
    |||||| |||| |||||||||| ||||| |||||||||||  |||||| |||| ||||||||| | ||||||  || |||| || ||| |||||| | ||    
T  29585084 tcaaatttaagttgacacattcctgaggtccttggcacatcagataatgtttttgagaatgtcgtgcttcttctttaggtccaatgaactatcagcagta 29585183  T
Q  195 atcattattgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtca 294  Q
    ||||| ||||||| |||||| | ||||| |||||||||| ||||||||||||||||||||||||| ||||||  |||| ||||||||||||||||||| |    
T  29585184 atcatcattgtctctaaaacgagtcctttttgcaaaacaagctcaacaaatgacacctcatctggaaatccttgaaattctttaaattgaataaaggtaa 29585283  T
Q  295 gatgggatacgagacatttagga 317  Q
    | |||||||||||||| ||||||    
T  29585284 ggtgggatacgagacaattagga 29585306  T

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

Target: chr8; HSP #3
Raw Score: 91; E-Value: 6e-44
Query Start/End: Original strand, 201 - 413
Target Start/End: Complemental strand, 17478805 - 17478596
Alignment:
Q  201 attgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatggg 300  Q
    ||||| |||||||| | ||| | ||||||||||| ||| |||||||||||||||||||| ||||||   | |||||||||||||||||||||||| ||||    
T  17478805 attgtttttaaaacaagtccattttgcaaaacatactcgacaaatgacacctcatctggaaatcctcgcagtcctttaaattgaataaaggtcaggtggg 17478706  T
Q  301 atacgagacatttaggagcatttggttgtggagcccatcccaaaattggtggtgactgttcctgtaggcaacaaaagacttgaataagatgcaatgttca 400  Q
    |||||||||| | |||| |  |||  |||||||||||||| |||||||||  |   |||| |||||||||||||| ||||||||||||||||||| ||||    
T  17478705 atacgagacaatcaggaacccttgtctgtggagcccatcctaaaattggtaat---tgttgctgtaggcaacaaaggacttgaataagatgcaatattca 17478609  T
Q  401 ttgtaatgaatta 413  Q
    | |||||||||||    
T  17478608 tagtaatgaatta 17478596  T

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

Target: chr8; HSP #4
Raw Score: 86; E-Value: 6e-41
Query Start/End: Original strand, 123 - 310
Target Start/End: Original strand, 32848857 - 32849041
Alignment:
Q  123 gcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgtctttaaaaccaatcctt 222  Q
    |||||||||||||| |||||||||||||||| | | ||||||||||||||||  |||||||||||||| ||||||| |   ||||||||||| | |||||    
T  32848857 gcccttggcacatttgataatcttttgagaacgccgtacttcttactttggttcaaggaaatatcagagataatcaat---gtctttaaaacaagtcctt 32848953  T
Q  223 cttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacgagaca 310  Q
     |||||||||||||||||||||||| |||||||| ||  |||||  ||||||||||||||  |||| ||| || ||||||||||||||    
T  32848954 tttgcaaaacatgctcaacaaatgaaacctcatccggagatcctctaaatcctttaaattctataacggttaggtgggatacgagaca 32849041  T

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

Target: chr8; HSP #5
Raw Score: 79; E-Value: 9e-37
Query Start/End: Original strand, 93 - 317
Target Start/End: Original strand, 4426832 - 4427053
Alignment:
Q  93 cagtcaaatgtaagctgacacattcttgaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaa 192  Q
    ||||||||| |||| |||||||||| |||||||||||||||||  |||| | ||||||||||||| |||||||   ||  ||| | ||||||||||| ||    
T  4426832 cagtcaaatttaagttgacacattcctgaggcccttggcacatcagatattgttttgagaatgtcgtacttctcctttaagtccacggaaatatcagcaa 4426931  T
Q  193 taatcattattgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggt 292  Q
    |||||| |   ||||||||||| | ||||| ||| ||||||| |||| ||||||||||||||||||  |||||   ||||||||||||||||||||| ||    
T  4426932 taatcaat---gtctttaaaacaagtcctttttgtaaaacatactcagcaaatgacacctcatctgaaaatccacgaaatcctttaaattgaataaaagt 4427028  T
Q  293 cagatgggatacgagacatttagga 317  Q
     || || ||||||||||| ||||||    
T  4427029 taggtgtgatacgagacaattagga 4427053  T

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

Target: chr8; HSP #6
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 120 - 330
Target Start/End: Complemental strand, 4410140 - 4409933
Alignment:
Q  120 gaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgtctttaaaaccaatc 219  Q
    ||||||||||||||||| ||||||||||||| |||| ||| ||||||  ||  ||| |  |||||||||||||||| |   |||||||| ||| | ||||    
T  4410140 gaggcccttggcacattagataatcttttgaaaatggcattcttcttggttatgtccaccgaaatatcagaaataacc---attgtcttcaaagcaaatc 4410044  T
Q  220 cttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacgagacatttaggagc 319  Q
    | | | |||||| || |||||||||| ||| ||||||||| | ||||  | | ||||||||||||||||| | ||  || ||||| |||||  ||||| |    
T  4410043 catttcgcaaaatatactcaacaaataacaactcatctggaagtccttgatagcctttaaattgaataaaagccaattgtgatacaagacaactaggaac 4409944  T
Q  320 atttggttgtg 330  Q
    | |||||||||    
T  4409943 acttggttgtg 4409933  T

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

Target: chr8; HSP #7
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 147 - 340
Target Start/End: Complemental strand, 4432944 - 4432754
Alignment:
Q  147 ttgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatg 246  Q
    ||||||||||| |||||||| ||| |||| |  |||||||||  ||||||||||   ||||| ||||| | ||||| ||||| || || |||| |||||     
T  4432944 ttgagaatgtcgtacttcttgcttaggtccactgaaatatcatcaataatcatt---gtcttcaaaacaagtcctttttgcagaatatactcagcaaata 4432848  T
Q  247 acacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacgagacatttaggagcatttggttgtggagcccatcc 340  Q
    | | ||||||||| | ||||  |||||||||||| |||||||| || || || ||||||| ||| |||||| || ||||||||| || ||||||    
T  4432847 atagctcatctggaactcctttaaatcctttaaactgaataaaagttaggtgtgatacgatacaattaggaacacttggttgtgtagtccatcc 4432754  T

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

Target: chr8; HSP #8
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 12 - 57
Target Start/End: Complemental strand, 4444562 - 4444518
Alignment:
Q  12 ttgcttagcatgaaaataacttgttcgaagaaaatttagaaacttt 57  Q
    |||| |||||||||| |||| |||||||||||||||||||||||||    
T  4444562 ttgcgtagcatgaaa-taacatgttcgaagaaaatttagaaacttt 4444518  T

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

Target: chr4 (Bit Score: 138; Significance: 5e-72; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 138; E-Value: 5e-72
Query Start/End: Original strand, 93 - 413
Target Start/End: Original strand, 8366137 - 8366452
Alignment:
Q  93 cagtcaaatgtaagctgacacattcttgaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaa 192  Q
    ||||||||||||||  ||||||||  |||||| ||||||||||||||||||||||| |||||||| |||||||||| |||||| |  |||||||||| ||    
T  8366137 cagtcaaatgtaagacgacacatttctgaggctcttggcacattcgataatctttttagaatgtcgtacttcttaccttggtccagagaaatatcagcaa 8366236  T
Q  193 taatcattattgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggt 292  Q
    |||||| |   ||||||||||| | ||||| ||||||||||||||||| |||||  | ||||||||  ||||||  ||||  ||||||||||||||||||    
T  8366237 taatcact---gtctttaaaacaagtcctttttgcaaaacatgctcaataaatgttatctcatctgaaaatccttgaaattttttaaattgaataaaggt 8366333  T
Q  293 cagatgggatacgagacatttaggagcatttggttgtggagcccatcccaaaattggtggtgactgttcctgtaggcaacaaaa-gacttgaataagatg 391  Q
     || | |||||||||||| ||||||||| |||| |||||||||||||| |||||   ||||||||||||||||||||||||||| | |||||||||||||    
T  8366334 aaggtaggatacgagacaattaggagcacttggctgtggagcccatcctaaaat---tggtgactgttcctgtaggcaacaaaaggtcttgaataagatg 8366430  T
Q  392 caatgttcattgtaatgaatta 413  Q
    |||| ||||| | |||||||||    
T  8366431 caatattcataggaatgaatta 8366452  T

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

Target: chr4; HSP #2
Raw Score: 123; E-Value: 5e-63
Query Start/End: Original strand, 93 - 402
Target Start/End: Original strand, 8382138 - 8382442
Alignment:
Q  93 cagtcaaatgtaagctgacacattcttgaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaa 192  Q
    |||||||||| |||  ||||||||  ||| || |||||||||||||||| || ||| ||||||||||||||||| | |||||||| || |||||||| ||    
T  8382138 cagtcaaatgcaagtcgacacattactgatgctcttggcacattcgatagtcattttagaatgtcatacttcttcccttggtctacggtaatatcagcaa 8382237  T
Q  193 taatcattattgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggt 292  Q
    |||||| |   ||||||||||| | ||||| ||||||||||| |||||||||||| | ||||||||  || |||  |||||||||||||| |||||||||    
T  8382238 taatcact---gtctttaaaacaagtcctttttgcaaaacatcctcaacaaatgatatctcatctgaaaaacctcgaaatcctttaaattcaataaaggt 8382334  T
Q  293 cagatgggatacgagacatttaggagcatttggttgtggagcccatcccaaaattggtggtgactgttcctgtaggcaacaaaa-gacttgaataagatg 391  Q
     || |||||||||||||| ||||||||| |||| |||||||||||||| |||||   ||||||||||| ||| |||||| |||| |||||||||||||||    
T  8382335 aaggtgggatacgagacaattaggagcagttggctgtggagcccatcctaaaat---tggtgactgtttctgcaggcaagaaaaggacttgaataagatg 8382431  T
Q  392 caatgttcatt 402  Q
    |||| ||||||    
T  8382432 caatattcatt 8382442  T

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

Target: chr4; HSP #3
Raw Score: 43; E-Value: 0.000000000000003
Query Start/End: Original strand, 148 - 340
Target Start/End: Original strand, 46839689 - 46839878
Alignment:
Q  148 tgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgtctttaaaaccaatccttcttgcaaaacatgctcaacaaatga 247  Q
    |||||||||  |||||||||||| |||| || |||||||||  |||||||   |||||||| ||||| | ||||| || ||||| || |||||||||| |    
T  46839689 tgagaatgttgtacttcttacttaggtccaatgaaatatcatcaataatc---attgtcttcaaaacaagtccttttttcaaaatatactcaacaaataa 46839785  T
Q  248 cacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacgagacatttaggagcatttggttgtggagcccatcc 340  Q
     | ||||||||| | ||||  | ||| |||||| |||||||| || || || |||| || ||| |||||| || ||||||||| |||||||||    
T  46839786 tagctcatctggaagtccttgatatcatttaaactgaataaaagttaggtgtgatatgatacaattaggaacacttggttgtgtagcccatcc 46839878  T

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

Target: chr5 (Bit Score: 78; Significance: 3e-36; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 78; E-Value: 3e-36
Query Start/End: Original strand, 120 - 413
Target Start/End: Complemental strand, 8341905 - 8341618
Alignment:
Q  120 gaggcccttggcacattcgataatcttttgagaatgtcatacttcttactttggtctaaggaaatatcagaaataatcattattgtctttaaaaccaatc 219  Q
    ||||||||||||||||  |||| |   |||||||||  |||||||||  || |||| ||||||||||||| ||||||||     |||||||||||   ||    
T  8341905 gaggcccttggcacatcagatactaacttgagaatgagatacttcttttttaggtccaaggaaatatcagcaataatcaac---gtctttaaaacatgtc 8341809  T
Q  220 cttcttgcaaaacatgctcaacaaatgacacctcatctggtaatcctaaaaatcctttaaattgaataaaggtcagatgggatacgagacatttaggagc 319  Q
    | | ||||||||||| |||||||||||| ||||||||||| ||||||  |||||||||||||| ||||||| |||| |||||||| ||||| ||||||      
T  8341808 cattttgcaaaacatactcaacaaatgaaacctcatctggaaatcctcgaaatcctttaaattcaataaagctcaggtgggatacaagacaattaggaat 8341709  T
Q  320 atttggttgtggagcccatcccaaaattggtggtgactgttcctgtaggcaacaaaagacttgaataagatgcaatgttcattgtaatgaatta 413  Q
    | |||| ||||||| |||| | |||||   ||| ||| ||||||||| |||||||| | | ||||||||||||||| ||| |  ||||||||||    
T  8341708 acttggctgtggagaccatgctaaaat---tggcgaccgttcctgtaagcaacaaagggcatgaataagatgcaatattcttaataatgaatta 8341618  T

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

Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 284 - 317
Target Start/End: Complemental strand, 40586909 - 40586876
Alignment:
Q  284 aataaaggtcagatgggatacgagacatttagga 317  Q
    ||||||||||| ||||||||||||||||||||||    
T  40586909 aataaaggtcaaatgggatacgagacatttagga 40586876  T

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



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