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: F9313-LTR4-TNT-insertion-2 (Length: 121)

Name: F9313-LTR4-TNT-insertion-2
Description: F9313-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9313-LTR4-TNT-insertion-2
F9313-LTR4-TNT-insertion-2
[»] chr7 (9 HSPs)
chr7 (8-111)||(34399055-34399158)
chr7 (8-88)||(6746610-6746689)
chr7 (13-88)||(23466038-23466112)
chr7 (38-89)||(46745627-46745677)
chr7 (39-89)||(44720080-44720130)
chr7 (38-87)||(7181753-7181801)
chr7 (8-81)||(41471410-41471482)
chr7 (29-85)||(34652095-34652150)
chr7 (29-88)||(28437583-28437641)
[»] chr5 (3 HSPs)
chr5 (10-89)||(6491148-6491225)
chr5 (16-83)||(1978175-1978241)
chr5 (9-88)||(32824625-32824702)
[»] chr2 (5 HSPs)
chr2 (8-89)||(4003389-4003469)
chr2 (8-86)||(5322162-5322238)
chr2 (11-88)||(35812311-35812387)
chr2 (11-89)||(26599289-26599366)
chr2 (10-89)||(36030777-36030854)
[»] chr1 (7 HSPs)
chr1 (7-51)||(50587007-50587051)
chr1 (8-87)||(15426304-15426382)
chr1 (8-89)||(36269704-36269784)
chr1 (29-85)||(2925978-2926033)
chr1 (29-89)||(51246603-51246662)
chr1 (9-84)||(2494007-2494082)
chr1 (38-89)||(50476529-50476579)
[»] chr4 (3 HSPs)
chr4 (8-111)||(49936476-49936578)
chr4 (8-65)||(22845269-22845326)
chr4 (21-90)||(54205813-54205881)
[»] chr3 (3 HSPs)
chr3 (8-111)||(40118902-40119004)
chr3 (25-85)||(24588327-24588386)
chr3 (21-89)||(32858804-32858871)
[»] chr6 (2 HSPs)
chr6 (24-86)||(13380517-13380579)
chr6 (8-89)||(26713824-26713904)
[»] chr8 (3 HSPs)
chr8 (20-89)||(40985114-40985182)
chr8 (25-89)||(28169855-28169918)
chr8 (25-87)||(37388251-37388311)


Alignment Details
Target: chr7 (Bit Score: 104; Significance: 3e-52; HSPs: 9)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 104; E-Value: 3e-52
Query Start/End: Original strand, 8 - 111
Target Start/End: Complemental strand, 34399158 - 34399055
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggaggactttgaagggtttttatg 107  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34399158 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggaggactttgaagggtttttatg 34399059  T
Q  108 aatt 111  Q
    ||||    
T  34399058 aatt 34399055  T

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Target: chr7; HSP #2
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 8 - 88
Target Start/End: Complemental strand, 6746689 - 6746610
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagg 88  Q
    |||||||||||| |||||| ||||||| |||||||||||||      |||||| |||||||||||||||||| ||||||||    
T  6746689 gggagggctttggggggttaatttttctttataatacaaaactttcctcattt-gggggaactcaaaaattgtattggagg 6746610  T

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Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 13 - 88
Target Start/End: Complemental strand, 23466112 - 23466038
Alignment:
Q  13 ggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagg 88  Q
    ||||||| |||||||||||||| ||||||||||||| ||   |||||| | ||||||||| |||||| ||||||||    
T  23466112 ggctttggggggttcatttttctttataatacaaaaccctcctcattt-gagggaactcacaaattgtattggagg 23466038  T

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Target: chr7; HSP #4
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 38 - 89
Target Start/End: Complemental strand, 46745677 - 46745627
Alignment:
Q  38 ataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    ||||| |||||||||| ||||||||||| ||||||||||||| |||||||||    
T  46745677 ataatgcaaaatccctctcatttggggg-aactcaaaaattgtattggagga 46745627  T

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Target: chr7; HSP #5
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 39 - 89
Target Start/End: Original strand, 44720080 - 44720130
Alignment:
Q  39 taatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    ||||| |||||| || ||||||| ||||||||||||||||| |||||||||    
T  44720080 taataaaaaatctctctcatttgaggggaactcaaaaattgtattggagga 44720130  T

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Target: chr7; HSP #6
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 38 - 87
Target Start/End: Original strand, 7181753 - 7181801
Alignment:
Q  38 ataatacaaaatccctatcatttggggggaactcaaaaattgcattggag 87  Q
    |||||||||||| ||| | |||||||| ||||||||||||||||||||||    
T  7181753 ataatacaaaattcctctaatttgggg-gaactcaaaaattgcattggag 7181801  T

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Target: chr7; HSP #7
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 8 - 81
Target Start/End: Original strand, 41471410 - 41471482
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgca 81  Q
    |||||| ||||| |||||||||||||| | | ||||||||||||   |||||| ||||||||| ||||||||||    
T  41471410 gggaggactttggggggttcatttttcttaagaatacaaaatcctcctcattt-gggggaactgaaaaattgca 41471482  T

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Target: chr7; HSP #8
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 29 - 85
Target Start/End: Complemental strand, 34652150 - 34652095
Alignment:
Q  29 tttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattgg 85  Q
    ||||| ||||||||| ||||||||  ||||||| ||||||||||||||||| |||||    
T  34652150 tttttacttataataaaaaatccccctcatttg-ggggaactcaaaaattgtattgg 34652095  T

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Target: chr7; HSP #9
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 29 - 88
Target Start/End: Complemental strand, 28437641 - 28437583
Alignment:
Q  29 tttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagg 88  Q
    ||||| || |||||| ||||||||  ||||||||||| ||||||||||||| ||||||||    
T  28437641 tttttactcataataaaaaatccccctcatttggggg-aactcaaaaattgtattggagg 28437583  T

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Target: chr5 (Bit Score: 36; Significance: 0.00000000001; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 10 - 89
Target Start/End: Original strand, 6491148 - 6491225
Alignment:
Q  10 gagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||| |||||||||||||| | |||||||||||||    |||||||||| |||||||||||||| |||||||||    
T  6491148 gagggctttg-ggggttcatttttcttcataatacaaaatcttcctcatttgggg-gaactcaaaaattgtattggagga 6491225  T

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Target: chr5; HSP #2
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 16 - 83
Target Start/End: Original strand, 1978175 - 1978241
Alignment:
Q  16 tttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcatt 83  Q
    |||| ||||||||| |||| | |||||||||||||||  |||||| |||| |||||||||||||||||    
T  1978175 tttggggggttcatgtttcttcataatacaaaatccccctcattt-ggggaaactcaaaaattgcatt 1978241  T

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Target: chr5; HSP #3
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 9 - 88
Target Start/End: Original strand, 32824625 - 32824702
Alignment:
Q  9 ggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagg 88  Q
    ||||||||||| |||||||| ||||| | ||||||||||||||| || | || || ||||||||||||||| ||| ||||    
T  32824625 ggagggctttggggggttca-ttttcttcataatacaaaatccc-attaatttggaggaactcaaaaattgtatttgagg 32824702  T

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Target: chr2 (Bit Score: 34; Significance: 0.0000000002; HSPs: 5)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 8 - 89
Target Start/End: Original strand, 4003389 - 4003469
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||||| |||||| ||||||| | |||||||||||  |   |||||| |||||||||||||||||| |||||||||    
T  4003389 gggagggctttggggggttaatttttcttcataatacaaaactctcctcattt-gggggaactcaaaaattgtattggagga 4003469  T

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Target: chr2; HSP #2
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 8 - 86
Target Start/End: Complemental strand, 5322238 - 5322162
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattgga 86  Q
    ||||| |||||| |||||||||||||| | ||||||||||||||   ||||||| |||||||||||||| || ||||||    
T  5322238 gggagagctttg-ggggttcatttttcttcataatacaaaatcctcctcatttg-ggggaactcaaaaactgtattgga 5322162  T

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Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 11 - 88
Target Start/End: Original strand, 35812311 - 35812387
Alignment:
Q  11 agggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagg 88  Q
    ||||||||| || ||| ||||||| | |||||||||||||||  | |||| ||||||||||||||||||  |||||||    
T  35812311 agggctttggggagtttatttttcttgataatacaaaatcccccttattt-gggggaactcaaaaattgtgttggagg 35812387  T

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Target: chr2; HSP #4
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 11 - 89
Target Start/End: Complemental strand, 26599366 - 26599289
Alignment:
Q  11 agggctttgaggggttcatttttccttataatacaaaatccct-atcatttggggggaactcaaaaattgcattggagga 89  Q
    ||||||||| |||||||||||||| | ||||||| || |||||  |||||| ||||||||||| |||||| |||||||||    
T  26599366 agggctttggggggttcatttttcttcataatac-aattccctcctcattt-gggggaactcacaaattgtattggagga 26599289  T

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Target: chr2; HSP #5
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 10 - 89
Target Start/End: Original strand, 36030777 - 36030854
Alignment:
Q  10 gagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||| |||||||||||||| | | |||||||||| |   |||||||||| |||||||||||||| | |||||||    
T  36030777 gagggctttg-ggggttcatttttcttcagaatacaaaattctcctcatttgggg-gaactcaaaaattgtaatggagga 36030854  T

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Target: chr1 (Bit Score: 33; Significance: 0.0000000006; HSPs: 7)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 7 - 51
Target Start/End: Original strand, 50587007 - 50587051
Alignment:
Q  7 agggagggctttgaggggttcatttttccttataatacaaaatcc 51  Q
    ||||||||||||| |||||||||||||| | ||||||||||||||    
T  50587007 agggagggctttggggggttcatttttcttcataatacaaaatcc 50587051  T

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Target: chr1; HSP #2
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 8 - 87
Target Start/End: Complemental strand, 15426382 - 15426304
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggag 87  Q
    |||| |||||||||||||| | ||||| | ||||| |||||||  |  |||||||||||||||||||||||| |||||||    
T  15426382 gggaaggctttgaggggtt-agttttcttcataatgcaaaatcattcacatttggggggaactcaaaaattgtattggag 15426304  T

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Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 8 - 89
Target Start/End: Original strand, 36269704 - 36269784
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||||| |||||| | ||||| | ||||||||||| ||   |||||| ||||||||| |||||||| |||||||||    
T  36269704 gggagggctttggggggttaacttttcttcataatacaaaaccctcctcattt-gggggaactaaaaaattgtattggagga 36269784  T

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Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 29 - 85
Target Start/End: Complemental strand, 2926033 - 2925978
Alignment:
Q  29 tttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattgg 85  Q
    ||||| ||||||||| ||||||||  ||||||| ||||||||||||||||| |||||    
T  2926033 tttttacttataataaaaaatccccctcatttg-ggggaactcaaaaattgtattgg 2925978  T

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Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 29 - 89
Target Start/End: Complemental strand, 51246662 - 51246603
Alignment:
Q  29 tttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    ||||| || |||||| |||||| || ||||||||||| ||||||||||||| |||||||||    
T  51246662 tttttactcataataaaaaatctctctcatttggggg-aactcaaaaattgtattggagga 51246603  T

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Target: chr1; HSP #6
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 9 - 84
Target Start/End: Complemental strand, 2494082 - 2494007
Alignment:
Q  9 ggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattg 84  Q
    |||| |||||| |||||| ||||||| |  ||||||||||| ||  ||| ||||| ||||||||| ||||||||||    
T  2494082 ggagagctttggggggttgatttttcttcctaatacaaaattcccctcaattgggtggaactcaagaattgcattg 2494007  T

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Target: chr1; HSP #7
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 38 - 89
Target Start/End: Original strand, 50476529 - 50476579
Alignment:
Q  38 ataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||||||||  ||||||| ||| ||||||||||||| |||||||||    
T  50476529 ataatacaaaatccccctcatttgaggg-aactcaaaaattgtattggagga 50476579  T

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Target: chr4 (Bit Score: 32; Significance: 0.000000002; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 8 - 111
Target Start/End: Original strand, 49936476 - 49936578
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggaggactttgaagggtttttatg 107  Q
    ||||||| |||| || ||||| ||||| | ||||||||||||||   | |||| ||||||||| |||||||| ||||||||  || ||||||||| ||||    
T  49936476 gggagggttttggggtgttcacttttcttcataatacaaaatcctcctaattt-gggggaactaaaaaattgtattggagggattagaagggtttatatg 49936574  T
Q  108 aatt 111  Q
    ||||    
T  49936575 aatt 49936578  T

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Target: chr4; HSP #2
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 8 - 65
Target Start/End: Complemental strand, 22845326 - 22845269
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggg 65  Q
    ||||||||||||||||||| | ||||| | |||||||||||||||  | |||||||||    
T  22845326 gggagggctttgaggggtttagttttcttcataatacaaaatccccctaatttggggg 22845269  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 21 - 90
Target Start/End: Original strand, 54205813 - 54205881
Alignment:
Q  21 ggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggaggac 90  Q
    |||||||||||||| | |||| |||||||||   |||||| |||||||||||||||||| || |||||||    
T  54205813 ggggttcatttttcttcataaaacaaaatcctcctcattt-gggggaactcaaaaattgtataggaggac 54205881  T

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Target: chr3 (Bit Score: 32; Significance: 0.000000002; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 8 - 111
Target Start/End: Complemental strand, 40119004 - 40118902
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggaggactttgaagggtttttatg 107  Q
    |||||||||||| |||||| ||||||| | || | |||||| ||   |||||| ||||||||| |||||||| ||||||||  |||| ||||||| ||||    
T  40119004 gggagggctttggggggttaatttttcttcattaaacaaaaccctcctcattt-gggggaactaaaaaattgtattggagggttttggagggtttgtatg 40118906  T
Q  108 aatt 111  Q
    ||||    
T  40118905 aatt 40118902  T

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Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 25 - 85
Target Start/End: Complemental strand, 24588386 - 24588327
Alignment:
Q  25 ttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattgg 85  Q
    |||||||||| | |||||||||||||||  |||||| || ||||||||||||||| |||||    
T  24588386 ttcatttttcttcataatacaaaatccccctcattt-ggaggaactcaaaaattgtattgg 24588327  T

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Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 21 - 89
Target Start/End: Original strand, 32858804 - 32858871
Alignment:
Q  21 ggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||||||| | |||||| |||||||   |||||| |||||||||||||||||| ||| |||||    
T  32858804 ggggttcatttttcttcataatataaaatcctcctcattt-gggggaactcaaaaattgtattcgagga 32858871  T

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Target: chr6 (Bit Score: 31; Significance: 0.00000001; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 24 - 86
Target Start/End: Original strand, 13380517 - 13380579
Alignment:
Q  24 gttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattgga 86  Q
    ||||||||||| | |||||| ||||||    ||||||||||||||||||||||||| ||||||    
T  13380517 gttcatttttcttcataatataaaatcatcctcatttggggggaactcaaaaattgtattgga 13380579  T

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Target: chr6; HSP #2
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 8 - 89
Target Start/End: Original strand, 26713824 - 26713904
Alignment:
Q  8 gggagggctttgaggggttcatttttccttataat-acaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    ||||||||||||||||||| ||||||| | || || | |||||||   ||||||  ||||||||||||||||| |||||||||    
T  26713824 gggagggctttgaggggttaatttttcttcatgataagaaaatcctcctcattt--ggggaactcaaaaattgtattggagga 26713904  T

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Target: chr8 (Bit Score: 30; Significance: 0.00000004; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 20 - 89
Target Start/End: Complemental strand, 40985182 - 40985114
Alignment:
Q  20 aggggttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||| |||||||||  | ||||||||||||||   ||||||||||| ||||||||||||| |||||||||    
T  40985182 agggcttcatttttattcataatacaaaatcctcctcatttggggg-aactcaaaaattgtattggagga 40985114  T

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Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 25 - 89
Target Start/End: Original strand, 28169855 - 28169918
Alignment:
Q  25 ttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggagga 89  Q
    |||||||||| | |||||||||||||| | | |||| ||||||||||||||| || |||||||||    
T  28169855 ttcatttttcttcataatacaaaatccttctaattt-gggggaactcaaaaaatgtattggagga 28169918  T

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

Target: chr8; HSP #3
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 25 - 87
Target Start/End: Original strand, 37388251 - 37388311
Alignment:
Q  25 ttcatttttccttataatacaaaatccctatcatttggggggaactcaaaaattgcattggag 87  Q
    |||||||||| |||||||| ||||||  | |||||||||||  |||||||||||| |||||||    
T  37388251 ttcatttttctttataataaaaaatctttttcatttggggg--actcaaaaattgtattggag 37388311  T

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



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