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: Solexa-NF5859-27 (Length: 40)

Name: Solexa-NF5859-27
Description: NF5859
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5859-27
Solexa-NF5859-27
[»] scaffold0281 (1 HSPs)
scaffold0281 (1-39)||(296-334)
[»] scaffold0024 (2 HSPs)
scaffold0024 (1-39)||(106411-106449)
scaffold0024 (1-39)||(108778-108816)
[»] chr8 (5 HSPs)
chr8 (1-39)||(4860867-4860905)
chr8 (1-39)||(9881965-9882003)
chr8 (1-36)||(40387233-40387268)
chr8 (4-39)||(42145035-42145070)
chr8 (4-37)||(17289218-17289251)
[»] chr7 (4 HSPs)
chr7 (1-39)||(11510193-11510231)
chr7 (1-39)||(18149182-18149220)
chr7 (1-39)||(34705394-34705432)
chr7 (3-39)||(11316644-11316680)
[»] chr4 (7 HSPs)
chr4 (1-39)||(11150043-11150081)
chr4 (1-39)||(15703154-15703192)
chr4 (1-39)||(23972561-23972599)
chr4 (4-39)||(13885603-13885638)
chr4 (4-39)||(25127745-25127780)
chr4 (1-39)||(19613469-19613507)
chr4 (1-39)||(14644339-14644377)
[»] chr3 (6 HSPs)
chr3 (1-39)||(39729210-39729248)
chr3 (1-38)||(18539672-18539709)
chr3 (1-36)||(3473357-3473392)
chr3 (4-37)||(19595443-19595476)
chr3 (4-39)||(18695119-18695154)
chr3 (4-39)||(18710638-18710673)
[»] chr5 (3 HSPs)
chr5 (4-39)||(29497616-29497651)
chr5 (8-39)||(39437525-39437556)
chr5 (1-39)||(32039366-32039404)
[»] chr1 (5 HSPs)
chr1 (4-39)||(89604-89639)
chr1 (4-39)||(52272372-52272407)
chr1 (1-39)||(23633796-23633834)
chr1 (4-39)||(18515265-18515300)
chr1 (1-39)||(29447297-29447335)
[»] scaffold0498 (1 HSPs)
scaffold0498 (1-39)||(11744-11782)
[»] chr6 (4 HSPs)
chr6 (1-39)||(19565699-19565737)
chr6 (1-39)||(19568334-19568372)
chr6 (1-37)||(19770572-19770608)
chr6 (4-39)||(9547353-9547388)
[»] chr2 (5 HSPs)
chr2 (1-39)||(34891966-34892004)
chr2 (4-39)||(32625900-32625935)
chr2 (1-38)||(16091964-16092001)
chr2 (4-39)||(24534553-24534588)
chr2 (6-32)||(20265229-20265255)
[»] scaffold0048 (1 HSPs)
scaffold0048 (6-34)||(69546-69574)
[»] scaffold0005 (1 HSPs)
scaffold0005 (1-39)||(172915-172953)


Alignment Details
Target: scaffold0281 (Bit Score: 39; Significance: 0.00000000000004; HSPs: 1)
Name: scaffold0281
Description:

Target: scaffold0281; HSP #1
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 334 - 296
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
334 atctcttatgttgaatatattctcaccctctagtggcgg 296  T

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Target: scaffold0024 (Bit Score: 39; Significance: 0.00000000000004; HSPs: 2)
Name: scaffold0024
Description:

Target: scaffold0024; HSP #1
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 106449 - 106411
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
106449 atctcttatgttgaatatattctcaccctctagtggcgg 106411  T

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Target: scaffold0024; HSP #2
Raw Score: 35; E-Value: 0.000000000009
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 108816 - 108778
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||| |||||||||||||||||    
108816 atctcttatgttgaatatattatcaccctctagtggcgg 108778  T

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Target: chr8 (Bit Score: 39; Significance: 0.00000000000004; HSPs: 5)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 4860867 - 4860905
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
4860867 atctcttatgttgaatatattctcaccctctagtggcgg 4860905  T

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Target: chr8; HSP #2
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 9882003 - 9881965
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
9882003 atctcttatgttgaatatattctcaccctctagtggcgg 9881965  T

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Target: chr8; HSP #3
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 1 - 36
Target Start/End: Complemental strand, 40387268 - 40387233
Alignment:
1 atctcttatgttgaatatattctcaccctctagtgg 36  Q
    ||||||||||||||||||||||||||||||||||||    
40387268 atctcttatgttgaatatattctcaccctctagtgg 40387233  T

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Target: chr8; HSP #4
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 4 - 39
Target Start/End: Complemental strand, 42145070 - 42145035
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||||||    
42145070 tcttatgttgaatatattctcaccctctagtggcgg 42145035  T

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Target: chr8; HSP #5
Raw Score: 34; E-Value: 0.00000000003
Query Start/End: Original strand, 4 - 37
Target Start/End: Complemental strand, 17289251 - 17289218
Alignment:
4 tcttatgttgaatatattctcaccctctagtggc 37  Q
    ||||||||||||||||||||||||||||||||||    
17289251 tcttatgttgaatatattctcaccctctagtggc 17289218  T

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Target: chr7 (Bit Score: 39; Significance: 0.00000000000004; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 11510193 - 11510231
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
11510193 atctcttatgttgaatatattctcaccctctagtggcgg 11510231  T

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Target: chr7; HSP #2
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 18149182 - 18149220
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
18149182 atctcttatgttgaatatattctcaccctctagtggcgg 18149220  T

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Target: chr7; HSP #3
Raw Score: 31; E-Value: 0.000000002
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 34705432 - 34705394
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||| ||||| |||||||||||||||||||||||||    
34705432 atctcttgtgttggatatattctcaccctctagtggcgg 34705394  T

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Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.00000003
Query Start/End: Original strand, 3 - 39
Target Start/End: Complemental strand, 11316680 - 11316644
Alignment:
3 ctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||| |||||||||||||||||| |||||    
11316680 ctcttatgttgagtatattctcaccctctagaggcgg 11316644  T

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Target: chr4 (Bit Score: 39; Significance: 0.00000000000004; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 11150081 - 11150043
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
11150081 atctcttatgttgaatatattctcaccctctagtggcgg 11150043  T

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Target: chr4; HSP #2
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 15703192 - 15703154
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
15703192 atctcttatgttgaatatattctcaccctctagtggcgg 15703154  T

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Target: chr4; HSP #3
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 23972599 - 23972561
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
23972599 atctcttatgttgaatatattctcaccctctagtggcgg 23972561  T

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Target: chr4; HSP #4
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 13885603 - 13885638
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||||||    
13885603 tcttatgttgaatatattctcaccctctagtggcgg 13885638  T

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Target: chr4; HSP #5
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 25127745 - 25127780
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||||||    
25127745 tcttatgttgaatatattctcaccctctagtggcgg 25127780  T

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Target: chr4; HSP #6
Raw Score: 31; E-Value: 0.000000002
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 19613469 - 19613507
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||| ||||| |||||||||||||||||||||||||    
19613469 atctcttgtgttggatatattctcaccctctagtggcgg 19613507  T

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Target: chr4; HSP #7
Raw Score: 27; E-Value: 0.0000005
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 14644377 - 14644339
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||| |||||||||| ||||||| |||||||||||    
14644377 atctcttacgttgaatatagtctcaccatctagtggcgg 14644339  T

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Target: chr3 (Bit Score: 39; Significance: 0.00000000000004; HSPs: 6)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 39; E-Value: 0.00000000000004
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 39729210 - 39729248
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||||||||||||||||    
39729210 atctcttatgttgaatatattctcaccctctagtggcgg 39729248  T

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Target: chr3; HSP #2
Raw Score: 38; E-Value: 0.0000000000001
Query Start/End: Original strand, 1 - 38
Target Start/End: Original strand, 18539672 - 18539709
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcg 38  Q
    ||||||||||||||||||||||||||||||||||||||    
18539672 atctcttatgttgaatatattctcaccctctagtggcg 18539709  T

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Target: chr3; HSP #3
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 1 - 36
Target Start/End: Original strand, 3473357 - 3473392
Alignment:
1 atctcttatgttgaatatattctcaccctctagtgg 36  Q
    ||||||||||||||||||||||||||||||||||||    
3473357 atctcttatgttgaatatattctcaccctctagtgg 3473392  T

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Target: chr3; HSP #4
Raw Score: 34; E-Value: 0.00000000003
Query Start/End: Original strand, 4 - 37
Target Start/End: Complemental strand, 19595476 - 19595443
Alignment:
4 tcttatgttgaatatattctcaccctctagtggc 37  Q
    ||||||||||||||||||||||||||||||||||    
19595476 tcttatgttgaatatattctcaccctctagtggc 19595443  T

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Target: chr3; HSP #5
Raw Score: 32; E-Value: 0.0000000005
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 18695119 - 18695154
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||| |||||||||||||||||    
18695119 tcttatgttgaatatattatcaccctctagtggcgg 18695154  T

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Target: chr3; HSP #6
Raw Score: 32; E-Value: 0.0000000005
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 18710638 - 18710673
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||| |||||||||||||||||    
18710638 tcttatgttgaatatattatcaccctctagtggcgg 18710673  T

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Target: chr5 (Bit Score: 36; Significance: 0.000000000002; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 29497616 - 29497651
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||||||    
29497616 tcttatgttgaatatattctcaccctctagtggcgg 29497651  T

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Target: chr5; HSP #2
Raw Score: 32; E-Value: 0.0000000005
Query Start/End: Original strand, 8 - 39
Target Start/End: Original strand, 39437525 - 39437556
Alignment:
8 atgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||    
39437525 atgttgaatatattctcaccctctagtggcgg 39437556  T

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Target: chr5; HSP #3
Raw Score: 27; E-Value: 0.0000005
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 32039404 - 32039366
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||| ||||| ||| |||||||||||||||||||||    
32039404 atctcttttgttggataaattctcaccctctagtggcgg 32039366  T

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Target: chr1 (Bit Score: 36; Significance: 0.000000000002; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 4 - 39
Target Start/End: Complemental strand, 89639 - 89604
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||||||    
89639 tcttatgttgaatatattctcaccctctagtggcgg 89604  T

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Target: chr1; HSP #2
Raw Score: 36; E-Value: 0.000000000002
Query Start/End: Original strand, 4 - 39
Target Start/End: Complemental strand, 52272407 - 52272372
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||||||||||||||||||    
52272407 tcttatgttgaatatattctcaccctctagtggcgg 52272372  T

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Target: chr1; HSP #3
Raw Score: 35; E-Value: 0.000000000009
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 23633796 - 23633834
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||||| |||||||||||||||||    
23633796 atctcttatgttgaatatattatcaccctctagtggcgg 23633834  T

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Target: chr1; HSP #4
Raw Score: 32; E-Value: 0.0000000005
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 18515265 - 18515300
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||| |||||||||||||||||    
18515265 tcttatgttgaatatattttcaccctctagtggcgg 18515300  T

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Target: chr1; HSP #5
Raw Score: 27; E-Value: 0.0000005
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 29447297 - 29447335
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||| || ||| |||||||||||||||||    
29447297 atctcttatgttgagtacattttcaccctctagtggcgg 29447335  T

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Target: scaffold0498 (Bit Score: 35; Significance: 0.000000000009; HSPs: 1)
Name: scaffold0498
Description:

Target: scaffold0498; HSP #1
Raw Score: 35; E-Value: 0.000000000009
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 11782 - 11744
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||| |||||||||||||||||||||||||||||||    
11782 atctcttctgttgaatatattctcaccctctagtggcgg 11744  T

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Target: chr6 (Bit Score: 35; Significance: 0.000000000009; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 35; E-Value: 0.000000000009
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 19565699 - 19565737
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||| ||||||||||||||||||||||||    
19565699 atctcttatgttgagtatattctcaccctctagtggcgg 19565737  T

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Target: chr6; HSP #2
Raw Score: 35; E-Value: 0.000000000009
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 19568334 - 19568372
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||| ||||||||||||||||||||||||    
19568334 atctcttatgttgagtatattctcaccctctagtggcgg 19568372  T

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Target: chr6; HSP #3
Raw Score: 33; E-Value: 0.0000000001
Query Start/End: Original strand, 1 - 37
Target Start/End: Original strand, 19770572 - 19770608
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggc 37  Q
    ||||||||||||||||||||||||||| |||||||||    
19770572 atctcttatgttgaatatattctcaccttctagtggc 19770608  T

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Target: chr6; HSP #4
Raw Score: 32; E-Value: 0.0000000005
Query Start/End: Original strand, 4 - 39
Target Start/End: Complemental strand, 9547388 - 9547353
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||||||||||||||||||||| |||||||||    
9547388 tcttatgttgaatatattctcaccctatagtggcgg 9547353  T

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Target: chr2 (Bit Score: 35; Significance: 0.000000000009; HSPs: 5)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 35; E-Value: 0.000000000009
Query Start/End: Original strand, 1 - 39
Target Start/End: Complemental strand, 34892004 - 34891966
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||| ||||||||||||||||||||||||||||||||||    
34892004 atctattatgttgaatatattctcaccctctagtggcgg 34891966  T

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Target: chr2; HSP #2
Raw Score: 32; E-Value: 0.0000000005
Query Start/End: Original strand, 4 - 39
Target Start/End: Original strand, 32625900 - 32625935
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    ||||||||||||||||||| ||||||||||||||||    
32625900 tcttatgttgaatatattcccaccctctagtggcgg 32625935  T

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Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.000000008
Query Start/End: Original strand, 1 - 38
Target Start/End: Complemental strand, 16092001 - 16091964
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcg 38  Q
    ||||||| ||||| ||||||||||||||||||||||||    
16092001 atctcttgtgttggatatattctcaccctctagtggcg 16091964  T

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Target: chr2; HSP #4
Raw Score: 28; E-Value: 0.0000001
Query Start/End: Original strand, 4 - 39
Target Start/End: Complemental strand, 24534588 - 24534553
Alignment:
4 tcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||| |||||||||||||||||||||| ||||    
24534588 tcttatgtcgaatatattctcaccctctagttgcgg 24534553  T

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Target: chr2; HSP #5
Raw Score: 27; E-Value: 0.0000005
Query Start/End: Original strand, 6 - 32
Target Start/End: Original strand, 20265229 - 20265255
Alignment:
6 ttatgttgaatatattctcaccctcta 32  Q
    |||||||||||||||||||||||||||    
20265229 ttatgttgaatatattctcaccctcta 20265255  T

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Target: scaffold0048 (Bit Score: 29; Significance: 0.00000003; HSPs: 1)
Name: scaffold0048
Description:

Target: scaffold0048; HSP #1
Raw Score: 29; E-Value: 0.00000003
Query Start/End: Original strand, 6 - 34
Target Start/End: Original strand, 69546 - 69574
Alignment:
6 ttatgttgaatatattctcaccctctagt 34  Q
    |||||||||||||||||||||||||||||    
69546 ttatgttgaatatattctcaccctctagt 69574  T

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Target: scaffold0005 (Bit Score: 27; Significance: 0.0000005; HSPs: 1)
Name: scaffold0005
Description:

Target: scaffold0005; HSP #1
Raw Score: 27; E-Value: 0.0000005
Query Start/End: Original strand, 1 - 39
Target Start/End: Original strand, 172915 - 172953
Alignment:
1 atctcttatgttgaatatattctcaccctctagtggcgg 39  Q
    |||||||| |||||||||| ||||||| |||||||||||    
172915 atctcttacgttgaatatagtctcaccatctagtggcgg 172953  T

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



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