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: F9327-LTR4-TNT-insertion-3 (Length: 381)

Name: F9327-LTR4-TNT-insertion-3
Description: F9327-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9327-LTR4-TNT-insertion-3
F9327-LTR4-TNT-insertion-3
[»] chr4 (7 HSPs)
chr4 (11-332)||(3325977-3326298)
chr4 (32-125)||(31143576-31143672)
chr4 (65-125)||(11157063-11157123)
chr4 (32-140)||(14066551-14066665)
chr4 (65-146)||(28075950-28076031)
chr4 (170-201)||(49577305-49577336)
chr4 (75-120)||(51228043-51228088)
[»] chr7 (4 HSPs)
chr7 (37-120)||(11599520-11599599)
chr7 (39-125)||(34379788-34379877)
chr7 (39-125)||(37066044-37066133)
chr7 (111-201)||(46082203-46082290)
[»] chr2 (4 HSPs)
chr2 (50-166)||(33391785-33391897)
chr2 (65-125)||(21005842-21005902)
chr2 (80-125)||(39573980-39574025)
chr2 (43-79)||(5433974-5434010)
[»] chr8 (3 HSPs)
chr8 (39-125)||(4946465-4946554)
chr8 (44-125)||(26339845-26339926)
chr8 (81-125)||(15660486-15660530)
[»] chr1 (3 HSPs)
chr1 (39-125)||(5520505-5520594)
chr1 (65-125)||(23962496-23962556)
chr1 (39-125)||(50443634-50443723)
[»] scaffold0438 (2 HSPs)
scaffold0438 (44-125)||(10006-10087)
scaffold0438 (63-125)||(7045-7107)
[»] chr6 (1 HSPs)
chr6 (64-124)||(10875567-10875627)
[»] chr3 (2 HSPs)
chr3 (37-125)||(12912929-12913020)
chr3 (39-125)||(1916022-1916111)
[»] chr5 (1 HSPs)
chr5 (80-125)||(28828197-28828242)


Alignment Details
Target: chr4 (Bit Score: 318; Significance: 1e-179; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 318; E-Value: 1e-179
Query Start/End: Original strand, 11 - 332
Target Start/End: Complemental strand, 3326298 - 3325977
Alignment:
Q  11 ctcttttggattttaagtacttaagttattttgttgtattataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttct 110  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  3326298 ctcttttggattttaagtacttaagttattttgttgtattataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttct 3326199  T
Q  111 tatgaaccgtgttacatttctcgtatttacgatccttcaacggctgacctatcctacggtcctacgtaggatctcgatcatgactacattgccttctact 210  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  3326198 tatgaaccgtgttacatttctcgtatttacgatccttcaacggctgacctatcctacggtcctacgtaggatctcgatcatgactacattgccttctact 3326099  T
Q  211 cttgttataatgcatttgacttatcaacaaaaagtgatcgtttaagatttctatgcacgtaataagttttaatcttcctatttaaaatgaaagttaagtt 310  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||    
T  3326098 cttgttataatgcatttgacttatcaacaaaaagtgatcgtttaagatttctatgcacataataagttttaatcttcctatttaaaatgaaagttaagtt 3325999  T
Q  311 ctgatccctttttaagaatcag 332  Q
    ||||||||||||||||||||||    
T  3325998 ctgatccctttttaagaatcag 3325977  T

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Target: chr4; HSP #2
Raw Score: 47; E-Value: 1e-17
Query Start/End: Original strand, 32 - 125
Target Start/End: Original strand, 31143576 - 31143672
Alignment:
Q  32 taagttattttgtt---gtattataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||||||||||||   ||||||||||||||||| || |||||||||||||||| |||||  |||  |||| |||||||||||| ||||||||||||    
T  31143576 taagttattttgtttttgtattataatttttatgtttttgtgtgtatatgtgaagttacaactttgcccttaagtgggttcttacgaaccgtgttac 31143672  T

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Target: chr4; HSP #3
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 65 - 125
Target Start/End: Original strand, 11157063 - 11157123
Alignment:
Q  65 tgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||| |||||||||||| ||||| ||||  ||||||||||||||||||||||||||||||    
T  11157063 tgtgtatgtatatgtgaagttacaattttgcccttgagtgggttcttatgaaccgtgttac 11157123  T

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Target: chr4; HSP #4
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 32 - 140
Target Start/End: Complemental strand, 14066665 - 14066551
Alignment:
Q  32 taagttattttgtt--gtattataatttttatgattgtgtgtg----tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||||||||||||  ||||||||||||||||| || ||||||    |||||||||| ||||| |||| ||||||| ||| ||||||  ||||||| |||    
T  14066665 taagttattttgttttgtattataatttttatgtttttgtgtgtttatatatgtgaagttacaattttgtccttgattggtttcttacaaaccgtgatac 14066566  T
Q  126 atttctcgtatttac 140  Q
     || ||||| |||||    
T  14066565 gttcctcgtgtttac 14066551  T

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Target: chr4; HSP #5
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 65 - 146
Target Start/End: Original strand, 28075950 - 28076031
Alignment:
Q  65 tgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttacatttctcgtatttacgatcct 146  Q
    ||||| |||||||||||| ||||| ||||  ||||||| ||||||||| |||||||||||| || ||| | |||||| ||||    
T  28075950 tgtgtatgtatatgtgaagttacaattttgcccttgagcgggttcttacgaaccgtgttacgttcctcatgtttacgttcct 28076031  T

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Target: chr4; HSP #6
Raw Score: 32; E-Value: 0.000000008
Query Start/End: Original strand, 170 - 201
Target Start/End: Complemental strand, 49577336 - 49577305
Alignment:
Q  170 tcctacgtaggatctcgatcatgactacattg 201  Q
    ||||||||||||||||||||||||||||||||    
T  49577336 tcctacgtaggatctcgatcatgactacattg 49577305  T

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Target: chr4; HSP #7
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 75 - 120
Target Start/End: Original strand, 51228043 - 51228088
Alignment:
Q  75 tatgtgaaattacagttttttccttgagtgggttcttatgaaccgt 120  Q
    |||||||||||||| ||||  |||||| ||||||||||||||||||    
T  51228043 tatgtgaaattacaattttacccttgaatgggttcttatgaaccgt 51228088  T

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Target: chr7 (Bit Score: 47; Significance: 1e-17; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 47; E-Value: 1e-17
Query Start/End: Original strand, 37 - 120
Target Start/End: Complemental strand, 11599599 - 11599520
Alignment:
Q  37 tattttgttgtattataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgt 120  Q
    ||||||| |||||||||||||||||||||||||||    |||||||| |||| ||||| ||||||||||||||||| |||||||    
T  11599599 tattttgctgtattataatttttatgattgtgtgt----atgtgaaactacaatttttcccttgagtgggttcttacgaaccgt 11599520  T

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Target: chr7; HSP #2
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 39 - 125
Target Start/End: Complemental strand, 34379877 - 34379788
Alignment:
Q  39 ttttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||| |||||||||| |||  ||||||||||||||  | |||| ||||||||| ||||  ||||||||||||||||| ||||||||||||    
T  34379877 tttttttgtattatatattaatatgattgtgtgtgcgtgtatgagaaattacaattttgcccttgagtgggttcttacgaaccgtgttac 34379788  T

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Target: chr7; HSP #3
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 39 - 125
Target Start/End: Complemental strand, 37066133 - 37066044
Alignment:
Q  39 ttttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||| |||||||||| |||| ||||||||||||||  | |||  ||||||||| ||||  ||||||||||||||||||||| ||||||||    
T  37066133 tttttttgtattatatatttatatgattgtgtgtgcgtgtataggaaattacaattttgcccttgagtgggttcttatgaatcgtgttac 37066044  T

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Target: chr7; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 111 - 201
Target Start/End: Complemental strand, 46082290 - 46082203
Alignment:
Q  111 tatgaaccgtgttacatttctcgtatttacgatccttcaacggctgacctatcctacggtcctacgtaggatctcgatcatgactacattg 201  Q
    ||||||||||||||| || || || |||||| ||||||| ||||||||| |||   || |||||| |||||||| |||| |||||||||||    
T  46082290 tatgaaccgtgttacgttccttgtgtttacgttccttcaccggctgaccgatc---cgatcctacttaggatcttgatcctgactacattg 46082203  T

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Target: chr2 (Bit Score: 40; Significance: 0.0000000000001; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 40; E-Value: 0.0000000000001
Query Start/End: Original strand, 50 - 166
Target Start/End: Complemental strand, 33391897 - 33391785
Alignment:
Q  50 tataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttacatttctcgtatttacgatccttca 149  Q
    ||||||||||||| ||||||||    ||||||| ||||| ||||  |||||||||||||||||  ||||||||||| || ||||| |||||| ||| |||    
T  33391897 tataatttttatgtttgtgtgt----atgtgaagttacaattttgcccttgagtgggttcttacaaaccgtgttacgttcctcgtgtttacgttccatca 33391802  T
Q  150 acggctgacctatccta 166  Q
     |||| |||| ||||||    
T  33391801 ccggccgaccaatccta 33391785  T

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Target: chr2; HSP #2
Raw Score: 37; E-Value: 0.000000000009
Query Start/End: Original strand, 65 - 125
Target Start/End: Complemental strand, 21005902 - 21005842
Alignment:
Q  65 tgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||| |||||||||||| ||||| ||||  ||||||||||||||||| ||||||||||||    
T  21005902 tgtgtatgtatatgtgaagttacaattttgcccttgagtgggttcttacgaaccgtgttac 21005842  T

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

Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 80 - 125
Target Start/End: Complemental strand, 39574025 - 39573980
Alignment:
Q  80 gaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||||||| ||||  ||||||||||||||||| ||||||||||||    
T  39574025 gaaattacaattttgcccttgagtgggttcttacgaaccgtgttac 39573980  T

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Target: chr2; HSP #4
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 43 - 79
Target Start/End: Original strand, 5433974 - 5434010
Alignment:
Q  43 gttgtattataatttttatgattgtgtgtgtatatgt 79  Q
    |||||||||||||||||||  ||||||||||||||||    
T  5433974 gttgtattataatttttatatttgtgtgtgtatatgt 5434010  T

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Target: chr8 (Bit Score: 35; Significance: 0.0000000001; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 39 - 125
Target Start/End: Original strand, 4946465 - 4946554
Alignment:
Q  39 ttttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||| |||||||||| |||  ||||||||||||||  | |||| ||||||||| ||||  ||||||||||||||||| ||||||||||||    
T  4946465 tttttttgtattatatattaatatgattgtgtgtgcgtgtatgagaaattacaattttgcccttgagtgggttcttacgaaccgtgttac 4946554  T

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Target: chr8; HSP #2
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 44 - 125
Target Start/End: Original strand, 26339845 - 26339926
Alignment:
Q  44 ttgtattataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||||||||||||||  || || |||||||||||||||| |||||  |||  | ||||||||||||| | ||||||||||||    
T  26339845 ttgtattataattttattgtttttgtgtgtatatgtgaagttacaactttgcctttgagtgggttctcacgaaccgtgttac 26339926  T

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Target: chr8; HSP #3
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 81 - 125
Target Start/End: Original strand, 15660486 - 15660530
Alignment:
Q  81 aaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||||||| ||||  ||||||||||||||||| ||||||||||||    
T  15660486 aaattacaattttgcccttgagtgggttcttacgaaccgtgttac 15660530  T

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

Target: chr1 (Bit Score: 35; Significance: 0.0000000001; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 39 - 125
Target Start/End: Original strand, 5520505 - 5520594
Alignment:
Q  39 ttttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||| |||||||||| |||  ||||||||||||||  | |||| ||||||||| ||||  ||||||||||||||||| ||||||||||||    
T  5520505 tttttttgtattatatattaatatgattgtgtgtgcgtgtatgagaaattacaattttgcccttgagtgggttcttacgaaccgtgttac 5520594  T

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

Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 65 - 125
Target Start/End: Complemental strand, 23962556 - 23962496
Alignment:
Q  65 tgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||| |||||||||||| ||| | ||||| |||||||||||||||||  |||||||||||    
T  23962556 tgtgtatgtatatgtgaagttagaatttttcccttgagtgggttcttacaaaccgtgttac 23962496  T

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

Target: chr1; HSP #3
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 39 - 125
Target Start/End: Original strand, 50443634 - 50443723
Alignment:
Q  39 ttttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||| |||||||||| |||| ||||||||||||||  | |||| ||||||||| ||||  | ||||||||||||||| ||| ||||||||    
T  50443634 tttttttgtattatatatttatatgattgtgtgtgcgtgtatgggaaattacaattttgcctttgagtgggttcttacgaatcgtgttac 50443723  T

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Target: scaffold0438 (Bit Score: 34; Significance: 0.0000000005; HSPs: 2)
Name: scaffold0438
Description:

Target: scaffold0438; HSP #1
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 44 - 125
Target Start/End: Original strand, 10006 - 10087
Alignment:
Q  44 ttgtattataatttttatgattgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||||||||||||||  || || |||||||||||||||| |||||  |||  | ||||||||||||| | ||||||||||||    
T  10006 ttgtattataattttattgtttttgtgtgtatatgtgaagttacaactttgcctttgagtgggttctcacgaaccgtgttac 10087  T

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Target: scaffold0438; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 63 - 125
Target Start/End: Original strand, 7045 - 7107
Alignment:
Q  63 attgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||||||||||||||||||| |||||  |||  | ||||||||||||| | ||||||||||||    
T  7045 attgtgtgtgtatatgtgaagttacaactttgcctttgagtgggttctcacgaaccgtgttac 7107  T

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

Target: chr6 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 64 - 124
Target Start/End: Original strand, 10875567 - 10875627
Alignment:
Q  64 ttgtgtgtgtatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgtta 124  Q
    |||||| |||||||||||| ||| | ||||  ||||||||||||||||| |||||||||||    
T  10875567 ttgtgtatgtatatgtgaagttataattttgcccttgagtgggttcttacgaaccgtgtta 10875627  T

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

Target: chr3 (Bit Score: 33; Significance: 0.000000002; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 37 - 125
Target Start/End: Original strand, 12912929 - 12913020
Alignment:
Q  37 tattttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||||| |||||||||| |||  ||||||||||||||  | ||||  |||||||| ||||  ||||||||||||||||| ||||||||||||    
T  12912929 tatttttttgtattatatattaatatgattgtgtgtgcgtttatgataaattacaattttgcccttgagtgggttcttacgaaccgtgttac 12913020  T

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

Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 39 - 125
Target Start/End: Original strand, 1916022 - 1916111
Alignment:
Q  39 ttttgttgtattata-atttttatgattgtgtgtg--tatatgtgaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    |||| |||||||||| |||| ||||||||||||||  | |||| |||| |||| ||||  ||||||||||||||||| ||| ||||||||    
T  1916022 tttttttgtattatatatttatatgattgtgtgtgcgtgtatgggaaactacaattttgcccttgagtgggttcttacgaatcgtgttac 1916111  T

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

Target: chr5 (Bit Score: 30; Significance: 0.0000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 80 - 125
Target Start/End: Original strand, 28828197 - 28828242
Alignment:
Q  80 gaaattacagttttttccttgagtgggttcttatgaaccgtgttac 125  Q
    ||||||||| ||||  ||||||||||||||||| ||||||||||||    
T  28828197 gaaattacaattttgcccttgagtgggttcttacgaaccgtgttac 28828242  T

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



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