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-NF5853-36 (Length: 120)

Name: Solexa-NF5853-36
Description: NF5853
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5853-36
Solexa-NF5853-36
[»] chr2 (6 HSPs)
chr2 (7-116)||(16657862-16657971)
chr2 (8-60)||(12234404-12234456)
chr2 (11-87)||(12258955-12259031)
chr2 (8-87)||(14703123-14703202)
chr2 (8-80)||(12245787-12245859)
chr2 (8-80)||(16662373-16662445)
[»] chr7 (20 HSPs)
chr7 (8-94)||(10494741-10494827)
chr7 (9-94)||(8654166-8654251)
chr7 (8-94)||(8667134-8667220)
chr7 (19-95)||(1301186-1301262)
chr7 (19-95)||(8659089-8659165)
chr7 (7-87)||(7878107-7878187)
chr7 (7-87)||(8590352-8590432)
chr7 (7-69)||(29582233-29582295)
chr7 (7-80)||(8616395-8616468)
chr7 (8-89)||(17267654-17267735)
chr7 (7-87)||(8537750-8537830)
chr7 (7-87)||(27831249-27831329)
chr7 (8-86)||(8102382-8102460)
chr7 (8-90)||(17259956-17260038)
chr7 (14-80)||(29578053-29578119)
chr7 (7-87)||(8609631-8609711)
chr7 (8-87)||(8383250-8383329)
chr7 (8-92)||(8636712-8636796)
chr7 (7-86)||(6789226-6789305)
chr7 (8-87)||(8570026-8570105)
[»] chr1 (2 HSPs)
chr1 (7-92)||(4678926-4679011)
chr1 (7-75)||(34467174-34467242)
[»] chr4 (3 HSPs)
chr4 (8-92)||(9336260-9336344)
chr4 (8-87)||(35132171-35132250)
chr4 (30-80)||(30774989-30775039)
[»] chr8 (1 HSPs)
chr8 (8-80)||(12528219-12528291)


Alignment Details
Target: chr2 (Bit Score: 106; Significance: 2e-53; HSPs: 6)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 106; E-Value: 2e-53
Query Start/End: Original strand, 7 - 116
Target Start/End: Complemental strand, 16657971 - 16657862
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatcaccaatgtgcatc 106  Q
    |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  16657971 atccttgcccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatcaccaatgtgcatc 16657872  T
Q  107 tttgaatcac 116  Q
    ||||||||||    
T  16657871 tttgaatcac 16657862  T

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Target: chr2; HSP #2
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 8 - 60
Target Start/End: Original strand, 12234404 - 12234456
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctaga 60  Q
    ||||||||||||||||| || |||||||| | |||||||||||||||||||||    
T  12234404 tccttccccttgaaaaaatcctgcaatagttgctgcactttgggaatcctaga 12234456  T

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Target: chr2; HSP #3
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 11 - 87
Target Start/End: Complemental strand, 12259031 - 12258955
Alignment:
Q  11 ttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||||||||| || || ||||| | |||||||||| |||||||||| || ||||| ||||| ||||| |||||    
T  12259031 ttccccttgaaaaaatcctgtaatagctgctgcactttgagaatcctagaagacccacctacaaggacaacatcatc 12258955  T

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Target: chr2; HSP #4
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 8 - 87
Target Start/End: Original strand, 14703123 - 14703202
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||||| ||||||||| || ||||  | ||| ||||||||||||| ||| || ||||| ||||||||||| |||||    
T  14703123 tccttcccctggaaaaagtcctgtaataattgctgtactttgggaatccgagaagacccaccgacaagaacaacatcatc 14703202  T

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Target: chr2; HSP #5
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 8 - 80
Target Start/End: Complemental strand, 12245859 - 12245787
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaa 80  Q
    |||||||| ||||||||||| || ||||| |  || ||||||||||||||||| || ||||| ||||| ||||    
T  12245859 tccttcccgttgaaaaagtcctgtaatagctgttggactttgggaatcctagaagatccaccaacaagtacaa 12245787  T

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Target: chr2; HSP #6
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 8 - 80
Target Start/End: Complemental strand, 16662445 - 16662373
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaa 80  Q
    |||||||| ||||| ||||   ||||||  ||||||||||| ||||||||||| ||||| || ||||||||||    
T  16662445 tccttcccattgaagaagttacgcaataattcctgcacttttggaatcctagacgagcccccgacaagaacaa 16662373  T

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Target: chr7 (Bit Score: 67; Significance: 3e-30; HSPs: 20)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 67; E-Value: 3e-30
Query Start/End: Original strand, 8 - 94
Target Start/End: Complemental strand, 10494827 - 10494741
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatca 94  Q
    ||||||||||||||||| ||| ||||||||||||||||||||||||||||||| |||||||||||||||||||  ||||||||||||    
T  10494827 tccttccccttgaaaaattctagcaatagatcctgcactttgggaatcctagacgagccacccacaagaacaatatcatcaatatca 10494741  T

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Target: chr7; HSP #2
Raw Score: 62; E-Value: 3e-27
Query Start/End: Original strand, 9 - 94
Target Start/End: Original strand, 8654166 - 8654251
Alignment:
Q  9 ccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatca 94  Q
    |||||||||||||||| ||| ||||||||||||||||||||||||||||||| ||||||||||| || ||||| ||||||||||||    
T  8654166 ccttccccttgaaaaactctagcaatagatcctgcactttgggaatcctagacgagccacccacgagtacaacatcatcaatatca 8654251  T

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Target: chr7; HSP #3
Raw Score: 51; E-Value: 1e-20
Query Start/End: Original strand, 8 - 94
Target Start/End: Original strand, 8667134 - 8667220
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatca 94  Q
    ||||||||||||||| | ||| ||||| | ||||||||||||||||||||||| |||||||| ||||| ||||| ||||||||||||    
T  8667134 tccttccccttgaaatattctagcaattgttcctgcactttgggaatcctagacgagccaccgacaagtacaacatcatcaatatca 8667220  T

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Target: chr7; HSP #4
Raw Score: 49; E-Value: 2e-19
Query Start/End: Original strand, 19 - 95
Target Start/End: Original strand, 1301186 - 1301262
Alignment:
Q  19 gaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatcac 95  Q
    ||||| ||||||||||| ||| |||||||||||||||||||| |||||||||||||||||||  ||||| |||||||    
T  1301186 gaaaatgtcttgcaatatatcttgcactttgggaatcctagacgagccacccacaagaacaatatcatcgatatcac 1301262  T

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Target: chr7; HSP #5
Raw Score: 49; E-Value: 2e-19
Query Start/End: Original strand, 19 - 95
Target Start/End: Original strand, 8659089 - 8659165
Alignment:
Q  19 gaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatatcac 95  Q
    ||||| ||||||||||||||| |||||||||||||||||||| || ||||||||||||||||  || ||||||||||    
T  8659089 gaaaaggtcttgcaatagatcttgcactttgggaatcctagacgaaccacccacaagaacaatatcgtcaatatcac 8659165  T

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Target: chr7; HSP #6
Raw Score: 45; E-Value: 4e-17
Query Start/End: Original strand, 7 - 87
Target Start/End: Complemental strand, 7878187 - 7878107
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||||||| |||||||| |||||||| | |||||||||| ||||||||||||| ||||| ||||| ||||| |||||    
T  7878187 atccttccccttaaaaaagtcctgcaatagctgctgcactttgagaatcctagatgatccaccaacaagtacaacatcatc 7878107  T

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Target: chr7; HSP #7
Raw Score: 45; E-Value: 4e-17
Query Start/End: Original strand, 7 - 87
Target Start/End: Original strand, 8590352 - 8590432
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||||| | ||||||||||||||||| | ||||||||||||||||||||| || ||||| ||||| ||||| |||||    
T  8590352 atccttccccataaaaaagtcttgcaatagctgctgcactttgggaatcctagaagaaccaccaacaagtacaacatcatc 8590432  T

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Target: chr7; HSP #8
Raw Score: 39; E-Value: 0.0000000000002
Query Start/End: Original strand, 7 - 69
Target Start/End: Complemental strand, 29582295 - 29582233
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacc 69  Q
    |||||||||||||||||| ||||||||||| |  |||||||||||||| ||||| ||||||||    
T  29582295 atccttccccttgaaaaattcttgcaatagctgatgcactttgggaattctagaagagccacc 29582233  T

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Target: chr7; HSP #9
Raw Score: 38; E-Value: 0.0000000000006
Query Start/End: Original strand, 7 - 80
Target Start/End: Original strand, 8616395 - 8616468
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaa 80  Q
    ||||||||| | |||||||||   |||||| ||||||||||| ||||||||||| |||||||| ||||||||||    
T  8616395 atccttcccatcgaaaaagtcactcaatagttcctgcactttaggaatcctagacgagccaccgacaagaacaa 8616468  T

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Target: chr7; HSP #10
Raw Score: 38; E-Value: 0.0000000000006
Query Start/End: Original strand, 8 - 89
Target Start/End: Original strand, 17267654 - 17267735
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaa 89  Q
    |||||||||||||| ||||  |||||||| | ||||||||| ||||||||||| || ||||| ||||| ||||| |||||||    
T  17267654 tccttccccttgaagaagttctgcaatagttgctgcactttcggaatcctagaagacccaccaacaaggacaacatcatcaa 17267735  T

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Target: chr7; HSP #11
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 7 - 87
Target Start/End: Original strand, 8537750 - 8537830
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||||| ||||||||| |||||  |||  ||||||||||||||||||||| |||||||| || || ||||| |||||    
T  8537750 atccttccccctgaaaaagttttgcagcagactctgcactttgggaatcctagaagagccaccaactagtacaacatcatc 8537830  T

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Target: chr7; HSP #12
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 7 - 87
Target Start/End: Complemental strand, 27831329 - 27831249
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||| ||||||||||||||   |||||| | |||||||||||||||||| || |||||||| ||||| ||||| |||||    
T  27831329 atcctttcccttgaaaaagtccgccaatagctgctgcactttgggaatccttgaagagccaccaacaaggacaacatcatc 27831249  T

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Target: chr7; HSP #13
Raw Score: 35; E-Value: 0.00000000004
Query Start/End: Original strand, 8 - 86
Target Start/End: Original strand, 8102382 - 8102460
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcat 86  Q
    ||||| || ||||| ||||||||||| || | ||| |||||||||||||||| ||| ||||| ||||||||||| ||||    
T  8102382 tccttaccattgaagaagtcttgcaacagttgctgaactttgggaatcctagttgaaccaccaacaagaacaacatcat 8102460  T

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Target: chr7; HSP #14
Raw Score: 35; E-Value: 0.00000000004
Query Start/End: Original strand, 8 - 90
Target Start/End: Original strand, 17259956 - 17260038
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaat 90  Q
    ||||| |||||||| || || |||||||| | ||||||||| ||||||||||| || ||||| ||||| ||||| ||||||||    
T  17259956 tccttacccttgaagaaatcctgcaatagttgctgcactttcggaatcctagaagatccaccaacaaggacaacatcatcaat 17260038  T

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Target: chr7; HSP #15
Raw Score: 35; E-Value: 0.00000000004
Query Start/End: Original strand, 14 - 80
Target Start/End: Complemental strand, 29578119 - 29578053
Alignment:
Q  14 cccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaa 80  Q
    ||||||||||||||||||||||| | | ||||||||||||| |||||||| || || ||||| ||||    
T  29578119 cccttgaaaaagtcttgcaatagtttccgcactttgggaattctagatgaacctccaacaaggacaa 29578053  T

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Target: chr7; HSP #16
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 7 - 87
Target Start/End: Original strand, 8609631 - 8609711
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||| || |||||||||||||||| ||| | || |||||| ||||||||||| || || || ||||||||||| |||||    
T  8609631 atcctttccattgaaaaagtcttgcagtagctgcttcactttcggaatcctagaagaacctccaacaagaacaacatcatc 8609711  T

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Target: chr7; HSP #17
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 8 - 87
Target Start/End: Complemental strand, 8383329 - 8383250
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||  |||||||||| ||||||||| || ||||||||||||||||| || || ||||| |  |||||||| |||||    
T  8383329 tccttccaattgaaaaagtgttgcaatagctcttgcactttgggaatcctcgaagaaccaccgatgagaacaacatcatc 8383250  T

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Target: chr7; HSP #18
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 8 - 92
Target Start/End: Complemental strand, 8636796 - 8636712
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatat 92  Q
    |||||| |||| |||| ||| || ||||| | |||||| || ||||||||||| |||||||| ||||| ||||| ||||| ||||    
T  8636796 tccttcgccttaaaaatgtcctgtaatagttgctgcacctttggaatcctagaggagccaccaacaaggacaacatcatctatat 8636712  T

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Target: chr7; HSP #19
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 7 - 86
Target Start/End: Original strand, 6789226 - 6789305
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcat 86  Q
    |||||| ||| ||||||  ||||||||||| |  |||||||||||||| ||||| || ||||| ||||| ||||| ||||    
T  6789226 atcctttcccatgaaaacttcttgcaatagttgttgcactttgggaattctagaagacccaccaacaaggacaacatcat 6789305  T

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Target: chr7; HSP #20
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 8 - 87
Target Start/End: Original strand, 8570026 - 8570105
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||||| |||||| ||||| ||||| | |  |||||| ||||||||||| || ||||| ||||| ||||| |||||    
T  8570026 tccttcccctggaaaaactcttgtaatagctgcctcactttaggaatcctagaagaaccaccaacaaggacaacatcatc 8570105  T

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Target: chr1 (Bit Score: 66; Significance: 1e-29; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 66; E-Value: 1e-29
Query Start/End: Original strand, 7 - 92
Target Start/End: Complemental strand, 4679011 - 4678926
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatat 92  Q
    |||||||| ||| |||||||||||||||||||||||||||||||||||||| ||||| ||||||||||||||||| ||||||||||    
T  4679011 atccttccgcttaaaaaagtcttgcaatagatcctgcactttgggaatcctcgatgaaccacccacaagaacaacatcatcaatat 4678926  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 7 - 75
Target Start/End: Complemental strand, 34467242 - 34467174
Alignment:
Q  7 atccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaag 75  Q
    |||||| || |||||||||||  ||||||| | ||||||||||||||||||||| ||||| || |||||    
T  34467242 atccttaccattgaaaaagtcccgcaatagctgctgcactttgggaatcctagaagagcccccgacaag 34467174  T

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Target: chr4 (Bit Score: 53; Significance: 7e-22; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 53; E-Value: 7e-22
Query Start/End: Original strand, 8 - 92
Target Start/End: Complemental strand, 9336344 - 9336260
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatcaatat 92  Q
    ||||||||||||||||| ||| ||||||| || |||||||| ||||||||||| |||||||||||||||||||  ||||||||||    
T  9336344 tccttccccttgaaaaattctagcaatagttcttgcactttcggaatcctagacgagccacccacaagaacaatatcatcaatat 9336260  T

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

Target: chr4; HSP #2
Raw Score: 44; E-Value: 2e-16
Query Start/End: Original strand, 8 - 87
Target Start/End: Original strand, 35132171 - 35132250
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaacgtcatc 87  Q
    |||||||| |||||||||| ||||||||| | ||||||||||||||||||||| || || || ||||||||||| |||||    
T  35132171 tccttccctttgaaaaagttttgcaatagctgctgcactttgggaatcctagaagaccctccaacaagaacaacatcatc 35132250  T

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

Target: chr4; HSP #3
Raw Score: 35; E-Value: 0.00000000004
Query Start/End: Original strand, 30 - 80
Target Start/End: Original strand, 30774989 - 30775039
Alignment:
Q  30 gcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaa 80  Q
    ||||||| ||||||||||||||||||||||| || ||||| ||||||||||    
T  30774989 gcaatagttcctgcactttgggaatcctagaagaaccaccgacaagaacaa 30775039  T

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Target: chr8 (Bit Score: 37; Significance: 0.000000000002; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 8 - 80
Target Start/End: Original strand, 12528219 - 12528291
Alignment:
Q  8 tccttccccttgaaaaagtcttgcaatagatcctgcactttgggaatcctagatgagccacccacaagaacaa 80  Q
    ||||| ||||||||||| || |||||||| | || |||||||||||||||||| |||||||| ||||| ||||    
T  12528219 tccttgcccttgaaaaactcctgcaatagctgcttcactttgggaatcctagacgagccaccaacaagtacaa 12528291  T

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