Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 171 of 290
Found at i:55806005 original size:11 final size:10
Alignment explanation
Indices: 55805977--55806010 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
55805967 AGCCTGTAAG
55805977 TATTCTGAAT
1 TATTCTGAAT
*
55805987 TTTTCTGAAT
1 TATTCTGAAT
55805997 ATATTCTGAAT
1 -TATTCTGAAT
55806008 TAT
1 TAT
55806011 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:55812532 original size:28 final size:28
Alignment explanation
Indices: 55812500--55812564 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
55812490 ATTTACTAGA
*
55812500 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
55812528 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
55812556 ATACCCCTA
1 ATACCCCTA
55812565 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:55812770 original size:29 final size:28
Alignment explanation
Indices: 55812670--55812759 Score: 130
Period size: 27 Copynumber: 3.2 Consensus size: 28
55812660 AGGAAGCGTC
55812670 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
55812698 CTGGTGGCCCTGCCAC-AATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
55812725 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
55812754 CTGGTG
1 CTGGTG
55812760 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 26 0.46
28 23 0.41
29 7 0.12
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:55812778 original size:55 final size:56
Alignment explanation
Indices: 55812670--55812784 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
55812660 AGGAAGCGTC
* *
55812670 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
* * *
55812725 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGTAT
55812781 CTGG
1 CTGG
55812785 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 32 0.62
56 19 0.37
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
Found at i:55813247 original size:19 final size:19
Alignment explanation
Indices: 55813223--55813261 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
55813213 TTTTAATTAT
* *
55813223 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
55813242 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
55813261 T
1 T
55813262 ATGATGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:55820095 original size:39 final size:39
Alignment explanation
Indices: 55820051--55820171 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
55820041 AATTATGTTA
*
55820051 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55820090 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
55820129 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55820168 CCAG
1 CCAG
55820172 TGTCTTGCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:55823276 original size:39 final size:40
Alignment explanation
Indices: 55823199--55823345 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
55823189 TAGCTCCTCG
* * *
55823199 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
55823239 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
55823278 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
55823318 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
55823346 ATTAGTATCT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:55823294 original size:40 final size:40
Alignment explanation
Indices: 55823242--55823464 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
55823232 TAACTCATTC
* *
55823242 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCGCACA
* *
55823282 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
* * *
55823322 AAGGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
*
55823362 AAGGCCTTC-GGACTTAACCCGGAATTA-ATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGA-AACTCGCACA
* ** ** *
55823401 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGAAAC-TCGCACA
*
55823442 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55823465 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 42 0.26
40 106 0.67
41 11 0.07
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
Found at i:55823304 original size:79 final size:80
Alignment explanation
Indices: 55823205--55823464 Score: 219
Period size: 79 Copynumber: 3.3 Consensus size: 80
55823195 CTCGTTCAAG
* * * ** * *
55823205 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
55823268 TTA-AAACTCGCACGAA
64 TTAGAAACTCGCACAAA
* *
55823284 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
* *
55823349 AGTATCTCGCACAAA
66 AGAAACTCGCACAAA
* * * ** **
55823364 GGCCTTC-GGACTTAACCCGGAATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGG-AT
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGA-CTTAACCCGGAAT
** *
55823426 ATAGTCACTTAGCACAAA
65 -TAGAAAC-TCGCACAAA
*
55823444 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
55823465 CAGCATTCAA
Statistics
Matches: 151, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 5 0.03
79 85 0.56
80 61 0.40
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AGAAACTCGCACAAA
Found at i:55823378 original size:119 final size:120
Alignment explanation
Indices: 55823245--55823464 Score: 290
Period size: 119 Copynumber: 1.8 Consensus size: 120
55823235 CTCATTCAAT
* * *
55823245 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA
*
55823307 TTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
64 -TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
**
55823365 GCCTTC-GGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
*
55823429 GTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
66 GTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
55823465 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 7 0.08
119 64 0.73
120 16 0.18
121 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:55831159 original size:39 final size:40
Alignment explanation
Indices: 55831082--55831228 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
55831072 TAGCTCCTCG
* * *
55831082 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
55831122 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
55831161 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
55831201 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
55831229 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:55831187 original size:79 final size:80
Alignment explanation
Indices: 55831088--55831306 Score: 193
Period size: 79 Copynumber: 2.8 Consensus size: 80
55831078 CTCGTTCAAG
* * ** * *
55831088 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
55831151 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACGAA
* * *
55831167 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
55831232 AATAACTCGCAC-AA
66 AATAACTCGCACGAA
* * ** * * *
55831246 -ACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
55831307 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
77 5 0.04
78 39 0.33
79 40 0.34
80 33 0.28
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACGAA
Found at i:55831266 original size:38 final size:39
Alignment explanation
Indices: 55831128--55831306 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 39
55831118 CTCATTCAAT
* *
55831128 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCAC-AAA
* *
55831168 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
55831207 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
** * * *
55831247 -CCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACAAA
*
55831286 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
55831307 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
37 5 0.04
38 18 0.15
39 13 0.11
40 80 0.67
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
Found at i:55831305 original size:78 final size:80
Alignment explanation
Indices: 55831128--55831306 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
55831118 CTCATTCAAT
* *
55831128 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTA
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACGAATACCTTCGGGACTTAACCCGGAATTA
*
55831193 GTATCTCGCACAAAG
66 GTATCTAGCACAAAG
**
55831208 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCAC-AA-ACCTTC-GGATCTTAGTCCGG-AT
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACGAATACCTTCGGGA-CTTAACCCGGAAT
55831268 ATAGTCA-CTTAGCACAAA-
64 -TAGT-ATC-TAGCACAAAG
*
55831286 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
55831307 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
77 5 0.06
78 38 0.43
79 15 0.17
80 30 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACGAATACCTTCGGGACTTAACCCGGAATTA
GTATCTAGCACAAAG
Found at i:55837222 original size:39 final size:39
Alignment explanation
Indices: 55837178--55837337 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
55837168 AATTATGTTA
*
55837178 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
55837217 CCAGCACGAAGCTTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
55837256 CCAGCACGAAGCCTGCGGGTCTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
55837295 CCAGCACGAAGCCTGCAGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
55837334 CCAG
1 CCAG
55837338 TGTCTTGCTT
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:55842573 original size:19 final size:19
Alignment explanation
Indices: 55842549--55842588 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
55842539 GGTAACAGGC
55842549 TCCACTTCTCAAATGACAT
1 TCCACTTCTCAAATGACAT
55842568 TCCACTTCTCAAATGACAT
1 TCCACTTCTCAAATGACAT
55842587 TC
1 TC
55842589 TCCAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.33
Consensus pattern (19 bp):
TCCACTTCTCAAATGACAT
Found at i:55847546 original size:19 final size:19
Alignment explanation
Indices: 55847522--55847562 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
55847512 ATCACTTCAC
55847522 TTTTTTTTATAACTTCGTA
1 TTTTTTTTATAACTTCGTA
*
55847541 TTTTTTTTATAATTTCGTA
1 TTTTTTTTATAACTTCGTA
55847560 TTT
1 TTT
55847563 CCTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTTTTATAACTTCGTA
Found at i:55854711 original size:46 final size:46
Alignment explanation
Indices: 55854645--55854814 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
55854635 TATCTCGACG
55854645 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATA
* * * *
55854691 CCGATGCATGTCCCAAACATGTCTTACACAAGCTTTCGTCTTAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATA
* * * * *
55854737 CTGATGCATGTCCCAGATATGTCTTACACTAGGTCT--T-ATAATGTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAA--T-A
*
55854783 CCGATGCATGTCCTAGACATGTCTTACACTAG
1 CCGATGCATGTCCCAGACATGTCTTACACTAG
55854815 TACACATATC
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 1 0.01
46 102 0.95
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATA
Found at i:55856074 original size:22 final size:21
Alignment explanation
Indices: 55856044--55856084 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
55856034 ATCATTTATA
*
55856044 ATTCATACAATCACATAACAC
1 ATTCATACAAGCACATAACAC
*
55856065 ATTCAATACAAGCATATAAC
1 ATTC-ATACAAGCACATAAC
55856085 TATACACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
ATTCATACAAGCACATAACAC
Found at i:55856234 original size:21 final size:22
Alignment explanation
Indices: 55856209--55856257 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
55856199 TAAATAAATG
*
55856209 AATTTAATCA-TCAATTTAATTC
1 AATTTAAT-ATTCAATTGAATTC
*
55856231 -ATTTCATATTCAATTGAATTC
1 AATTTAATATTCAATTGAATTC
55856252 AATTTA
1 AATTTA
55856258 CACCCTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTTAATATTCAATTGAATTC
Found at i:55858597 original size:24 final size:24
Alignment explanation
Indices: 55858573--55858658 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
55858563 GGTAACACAG
* *
55858573 AATAAGCCACAAAGGCATTTACAG
1 AATATGCCACAAAGGCATTTACAA
* ** *
55858597 AATACGCCAGTAGGGCATTTACAA
1 AATATGCCACAAAGGCATTTACAA
* **
55858621 AATATGCCATAAAGGTGTTTACAA
1 AATATGCCACAAAGGCATTTACAA
55858645 AATATGCCACAAAG
1 AATATGCCACAAAG
55858659 ACATCATAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (24 bp):
AATATGCCACAAAGGCATTTACAA
Found at i:55865905 original size:42 final size:42
Alignment explanation
Indices: 55865827--55865907 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
55865817 GTGTAGGTTT
* *
55865827 CACACGGCCGAGACACACGCCCATGTTCTAGGCCGTGTAGCA
1 CACACGGCCGAGACACACACCCATGTTCTAGCCCGTGTAGCA
** *
55865869 CACACGGTTGAGACACACACCCGTG-TCTATGCCCGTGTA
1 CACACGGCCGAGACACACACCCATGTTCTA-GCCCGTGTA
55865908 CTCAATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (42 bp):
CACACGGCCGAGACACACACCCATGTTCTAGCCCGTGTAGCA
Found at i:55867888 original size:38 final size:38
Alignment explanation
Indices: 55867845--55867917 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
55867835 AAATTAACAT
*
55867845 GTATAACCTTGGCATATCCACTTAGAACCACGTTACAC
1 GTATAACCGTGGCATATCCACTTAGAACCACGTTACAC
* *
55867883 GTATAACCGTGGTATATCCACTTAGCACCACGTTA
1 GTATAACCGTGGCATATCCACTTAGAACCACGTTA
55867918 ATGAATCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (38 bp):
GTATAACCGTGGCATATCCACTTAGAACCACGTTACAC
Found at i:55867996 original size:48 final size:47
Alignment explanation
Indices: 55867890--55868019 Score: 172
Period size: 48 Copynumber: 2.7 Consensus size: 47
55867880 CACGTATAAC
*
55867890 CGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAA
1 CGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAA
* * * * *
55867936 CTGTGGCATATCCATTTACCACCACGTTACATGTATCAGTATGTGTAA
1 C-GTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAA
*
55867984 TCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 -CGTGGTATATCCACTTAGCACCACGTTACATGTAT
55868020 AACCATGATA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
46 1 0.01
47 24 0.34
48 45 0.63
49 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (47 bp):
CGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAA
Found at i:55873176 original size:46 final size:46
Alignment explanation
Indices: 55873008--55873183 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
55872998 TGTAACTCGC
* * * * * **
55873008 CCATAAGTGAACTCGGACTCAACTCAATGATCTTGGGCATTCATGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
55873054 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
* * * *
55873104 -C-TCA-CGAACTCGCACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
55873147 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55873184 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:55873618 original size:30 final size:30
Alignment explanation
Indices: 55873584--55873641 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
55873574 CCCAAGAACG
*
55873584 AACTTTGACAAAATTAC-CATTTTGCCCCTA
1 AACTTTCACAAAATTACAC-TTTTGCCCCTA
* *
55873614 AACTTTCACATATTTACACTTTTGCCCC
1 AACTTTCACAAAATTACACTTTTGCCCC
55873642 AAAGCTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.36
Consensus pattern (30 bp):
AACTTTCACAAAATTACACTTTTGCCCCTA
Found at i:55887878 original size:6 final size:6
Alignment explanation
Indices: 55887860--55887947 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
55887850 AAGAAACATT
* *
55887860 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
55887909 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
55887948 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:55887905 original size:31 final size:31
Alignment explanation
Indices: 55887869--55887947 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
55887859 TATCAGAACT
* *
55887869 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
55887900 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
55887931 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
55887948 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:55888132 original size:27 final size:26
Alignment explanation
Indices: 55888084--55888185 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
55888074 GCTCAGTTAT
* *
55888084 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
55888111 CAGATATTGTGGCGGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
55888137 CAAATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
55888165 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
55888186 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.80
28 7 0.11
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:55888372 original size:22 final size:21
Alignment explanation
Indices: 55888344--55888408 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
55888334 GCAAATATGT
*
55888344 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCAT-ATCAGG
* *
55888366 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
*
55888388 TTGACACAAAGCCATGATCAG
1 TTGGCACAAAGCCAT-ATCAG
55888409 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:55888892 original size:27 final size:27
Alignment explanation
Indices: 55888836--55889049 Score: 236
Period size: 27 Copynumber: 8.0 Consensus size: 27
55888826 GGGCAAAATG
* * * * *
55888836 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
55888862 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
55888889 GTAATTGTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
55888915 GATAATTCTATCCTATAGGGGTATTGC-
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
55888942 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
55888970 GTAATTCTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
55888997 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
55889024 GTATTTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
55889050 GATAATTTTG
Statistics
Matches: 161, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
26 14 0.09
27 146 0.91
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:55889050 original size:54 final size:54
Alignment explanation
Indices: 55888835--55889056 Score: 266
Period size: 54 Copynumber: 4.1 Consensus size: 54
55888825 GGGGCAAAAT
* * * * * *
55888835 GGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * * *
55888888 AGTAATTGTACCCTACAGGGGTATTTCGATAATTCTATCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
55888942 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
55888996 GGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
55889050 GATAATT
1 GGTAATT
55889057 TTGTAAATCG
Statistics
Matches: 143, Mismatches: 25, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
53 14 0.10
54 129 0.90
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:55889070 original size:27 final size:26
Alignment explanation
Indices: 55889040--55889300 Score: 89
Period size: 27 Copynumber: 9.7 Consensus size: 26
55889030 CTACCCTACA
55889040 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTT-GATAATTTTGTAAATCG
** * *
55889067 AGGGTAAAATGATAATTCTGTAAATCA
1 AGGGT-ATTTGATAATTTTGTAAATCG
* ** *
55889094 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTA-TTTGATAATTTTGTAAATCG
* ** **
55889121 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTT-GATAATTTTGTAAATCG
* ***
55889148 AGGGTATTTTAGTAATTTCACAAATC-
1 AGGGTATTTGA-TAATTTTGTAAATCG
* ** *
55889174 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTA-TTTGATAATTTTGTAAATCG
** *
55889201 AGGGTATTTTGATAATTTTACAAA-CC
1 AGGGTA-TTTGATAATTTTGTAAATCG
* ** *
55889227 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTA-TTTGATAATTTTGTAAATCG
* * *
55889254 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTA-TTTGATAATTTTGTAAATCG
*
55889282 AGGGTATTTTAGTAATTTT
1 AGGGTATTTGA-TAATTTT
55889301 ACAAACCAGG
Statistics
Matches: 193, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
26 34 0.18
27 152 0.79
28 7 0.04
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (26 bp):
AGGGTATTTGATAATTTTGTAAATCG
Found at i:55889149 original size:81 final size:80
Alignment explanation
Indices: 55889040--55889224 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 80
55889030 CTACCCTACA
** **
55889040 AGGGTATTTCGATAATTTTGTAAATCGAGGGTAAAATGA-TAA-TTCTGTAAATCAAGGGTACTT
1 AGGGTATTTCGATAATTTTACAAATCGAGGGT-AAATGAGTAATTTC-ACAAATCAAGGGTACTT
*
55889103 TGGTAATTTTACAAGTCG
64 TGGTAATTTTACAA-ACG
* ** ** * * *
55889121 AGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAAATGAGTAATTTCACAAATCAAGGGTACTTTG
*
55889186 GTAATTTTACAAACT
66 GTAATTTTACAAACG
*
55889201 AGGGTATTTTGATAATTTTACAAA
1 AGGGTATTTCGATAATTTTACAAA
55889225 CCAGGGGTAT
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
80 24 0.29
81 57 0.68
82 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTAAATGAGTAATTTCACAAATCAAGGGTACTTTG
GTAATTTTACAAACG
Found at i:55889306 original size:27 final size:27
Alignment explanation
Indices: 55889092--55889380 Score: 310
Period size: 27 Copynumber: 10.7 Consensus size: 27
55889082 TTCTGTAAAT
* **
55889092 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
55889119 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
55889146 CGAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55889173 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
55889199 CTAGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55889226 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
55889253 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55889280 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
55889307 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
55889334 TAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55889361 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
55889381 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 41, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
26 23 0.10
27 197 0.90
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:55889387 original size:27 final size:27
Alignment explanation
Indices: 55889149--55889380 Score: 322
Period size: 27 Copynumber: 8.6 Consensus size: 27
55889139 TACAGGTCGA
* * *
55889149 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55889176 GGGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55889202 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55889229 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
55889256 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55889283 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
55889310 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55889337 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
55889364 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
55889381 GGTAAACTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.14
27 153 0.86
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:55892713 original size:67 final size:68
Alignment explanation
Indices: 55892632--55892827 Score: 204
Period size: 68 Copynumber: 2.9 Consensus size: 68
55892622 AGCCAGTTTA
* * *
55892632 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACAT-
1 TCTCGTAGCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATC
55892696 AT-AT-
63 ATAATG
* *
55892700 T-TCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATA
55892764 ATG
66 ATG
** * * * ** *
55892767 TCTCGTAGCTCTCTTGTAC-ACATAATGTGCACTTAGCACCATACATGTGACCTAGCTACAT
1 TCTCGTAGCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
55892828 ACCATCTGTA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
64 29 0.27
65 2 0.02
66 2 0.02
67 26 0.24
68 49 0.45
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATA
ATG
Found at i:55893268 original size:28 final size:28
Alignment explanation
Indices: 55893226--55893285 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
55893216 ATATAAATTA
55893226 CAACATTATTGCAGTATTATTATCATAC
1 CAACATTATTGCAGTATTATTATCATAC
*
55893254 CAACATTATTTCAGTATTATTATCATAC
1 CAACATTATTGCAGTATTATTATCATAC
55893282 CAAC
1 CAAC
55893286 TTACCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (28 bp):
CAACATTATTGCAGTATTATTATCATAC
Found at i:55896309 original size:46 final size:46
Alignment explanation
Indices: 55896251--55896424 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
55896241 TTTGGGCATC
55896251 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * * * *
55896297 CGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TT
* * **
55896344 CGAGCACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*
55896389 CTAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55896425 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.55
47 25 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:55896404 original size:93 final size:93
Alignment explanation
Indices: 55896245--55896416 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
55896235 ACGATATTTG
* **
55896245 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCATTGAG
1 GGCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCATCGAACTCATTGAG
55896310 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
55896338 GGCATCCGAGCACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CATCTAAGCTCGTTGA
1 GGCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCATCGAA-CTCATTGA
55896402 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
55896417 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCATCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55899385 original size:15 final size:15
Alignment explanation
Indices: 55899347--55899389 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
55899337 GTATCTTGGG
*
55899347 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
* *
55899362 TCTCATTATTCTGGA
1 TTTCTTTATTCTGGA
55899377 TTTCTTTATTCTG
1 TTTCTTTATTCTG
55899390 TGTTTTCTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.14, C:0.19, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55904901 original size:14 final size:15
Alignment explanation
Indices: 55904840--55904908 Score: 88
Period size: 14 Copynumber: 4.7 Consensus size: 15
55904830 CGTATCTTAG
*
55904840 TTCTTTATCCTGGAT
1 TTCTTTATTCTGGAT
*
55904855 TCTCTTTATTCTAGAT
1 T-TCTTTATTCTGGAT
55904871 TTCTTTATTCTGG-T
1 TTCTTTATTCTGGAT
*
55904885 TTCTCTA-TCTGGAT
1 TTCTTTATTCTGGAT
55904899 TTCTTTATTC
1 TTCTTTATTC
55904909 GTTTTCTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
13 5 0.11
14 14 0.30
15 14 0.30
16 13 0.28
ACGTcount: A:0.13, C:0.19, G:0.10, T:0.58
Consensus pattern (15 bp):
TTCTTTATTCTGGAT
Found at i:55907457 original size:93 final size:93
Alignment explanation
Indices: 55907298--55907470 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
55907288 ACGATATTTG
* *
55907298 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAATGTCCAAACTCACTGAG
*
55907363 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTCAGTCCGAGTTCGTGAGATGTAACTA
* ** * *
55907391 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACT-TCTGAGCTCGCTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAA-TGTCCAAACTCACTGA
55907455 GTTCAGTCCGAGTTCG
65 GTTCAGTCCGAGTTCG
55907471 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAATGTCCAAACTCACTGAG
TTCAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55910338 original size:16 final size:16
Alignment explanation
Indices: 55910313--55910344 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55910303 GCACGAGAGC
*
55910313 TACCTTAGTAGCTAGT
1 TACCTCAGTAGCTAGT
55910329 TACCTCAGTAGCTAGT
1 TACCTCAGTAGCTAGT
55910345 GTGGGTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (16 bp):
TACCTCAGTAGCTAGT
Found at i:55915177 original size:14 final size:15
Alignment explanation
Indices: 55915138--55915179 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
55915128 AATTAAATGC
55915138 AAATTATATATGCTG
1 AAATTATATATGCTG
* *
55915153 AAATGAAATATG-TG
1 AAATTATATATGCTG
*
55915167 AATTTATATATGC
1 AAATTATATATGC
55915180 AATTGCTGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (15 bp):
AAATTATATATGCTG
Found at i:55918093 original size:15 final size:15
Alignment explanation
Indices: 55918073--55918102 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
55918063 CATGGCCCAC
55918073 AATACCAGTATTAGG
1 AATACCAGTATTAGG
55918088 AATACCAGTATTAGG
1 AATACCAGTATTAGG
55918103 CCCAGTGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
AATACCAGTATTAGG
Found at i:55919602 original size:107 final size:107
Alignment explanation
Indices: 55919370--55919590 Score: 433
Period size: 107 Copynumber: 2.1 Consensus size: 107
55919360 AACACACGAA
55919370 CGTGTGTCATGGCCGTGTGGCATAAGTCAATATACCCTACAGGTTTGGCATGGCCTAGCACACGG
1 CGTGTGTCATGGCCGTGTGGCATAAGTCAATATACCCTACAGGTTTGGCATGGCCTAGCACACGG
*
55919435 CCTGGCACACGGGCGTGTGTTGCCATTTCTAGGGTACACGGG
66 CCTGGCACACGGGCATGTGTTGCCATTTCTAGGGTACACGGG
55919477 CGTGTGTCATGGCCGTGTGGCATAAGTCAATATACCCTACAGGTTTGGCATGGCCTAGCACACGG
1 CGTGTGTCATGGCCGTGTGGCATAAGTCAATATACCCTACAGGTTTGGCATGGCCTAGCACACGG
55919542 CCTGGCACACGGGCATGTGTTGCCATTTCTAGGGTACACGGG
66 CCTGGCACACGGGCATGTGTTGCCATTTCTAGGGTACACGGG
55919584 CGTGTGT
1 CGTGTGT
55919591 GTTGGCTGTG
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 113 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (107 bp):
CGTGTGTCATGGCCGTGTGGCATAAGTCAATATACCCTACAGGTTTGGCATGGCCTAGCACACGG
CCTGGCACACGGGCATGTGTTGCCATTTCTAGGGTACACGGG
Found at i:55928531 original size:28 final size:29
Alignment explanation
Indices: 55928495--55928551 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
55928485 ATTAAACAAC
*
55928495 AATTAGACA-ACTTAAATGACACTAACTA
1 AATTAGACATACTTAAATGAAACTAACTA
* * *
55928523 AATTGGACATATTTAATTGAAACTAACTA
1 AATTAGACATACTTAAATGAAACTAACTA
55928552 GCATATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (29 bp):
AATTAGACATACTTAAATGAAACTAACTA
Found at i:55931345 original size:68 final size:67
Alignment explanation
Indices: 55931268--55931417 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 67
55931258 CATCATGTGT
* * * * *
55931268 ACAATAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55931330 ATGTAG
62 ATGTAG
** * *
55931336 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55931401 AG
66 AG
55931403 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55931418 GATAAACTGG
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.38
68 12 0.17
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55931372 original size:64 final size:64
Alignment explanation
Indices: 55931292--55931475 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55931282 AGACATTATG
* *
55931292 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55931356 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55931421 AA
63 AA
* * * *
55931423 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55931476 CGAAGTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55935461 original size:27 final size:26
Alignment explanation
Indices: 55935422--55935503 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
55935412 TGGTTGCCAA
*
55935422 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGACAGAGCCACCAG
*
55935448 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
*
55935475 AACAGATATTTGTGGCATG-GCCACCAG
1 AACAGATA-TTGTGACA-GAGCCACCAG
55935502 AA
1 AA
55935504 TGCTTCCTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
26 8 0.16
27 42 0.82
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:55944370 original size:43 final size:42
Alignment explanation
Indices: 55944323--55944416 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 42
55944313 GCTTGAAGCT
*
55944323 CGATATCATTTCACCGACATTATAGCCTACAAGGCCCAAGGCC
1 CGATATCATCTCACCGACATTATAGCCTACAAGGCCC-AGGCC
* * * * *
55944366 CGATATTATCTCACCGGCATTATAGCCTGCTAGGCCCATGCC
1 CGATATCATCTCACCGACATTATAGCCTACAAGGCCCAGGCC
55944408 CGTATATCA
1 CG-ATATCA
55944417 CATTTCGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 6 0.14
43 37 0.86
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (42 bp):
CGATATCATCTCACCGACATTATAGCCTACAAGGCCCAGGCC
Found at i:55951154 original size:43 final size:42
Alignment explanation
Indices: 55951027--55951200 Score: 163
Period size: 43 Copynumber: 4.1 Consensus size: 42
55951017 AAGTCTGAAT
* * * **
55951027 TCAT-TCACCGGCATT-TTGCCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGTATTATAGCCTACTAGGCCCGAAG-CCGATA
* * *
55951068 TCATTTCACCGGTATTATAGCCTACTAGGCTCGAGGCTCGATA
1 TCATCTCACCGGTATTATAGCCTACTAGGCCCGAAGC-CGATA
* * *
55951111 TTATCTCTCTGGTATTATAGCCTACTAGGCCCGAAGCCAGATA
1 TCATCTCACCGGTATTATAGCCTACTAGGCCCGAAGCC-GATA
* * *
55951154 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGTATA
1 TCATCTCACCGGTATTATAGCCTACTAGGCCCGAAG-CCG-ATA
55951198 TCA
1 TCA
55951201 CATTTCGATA
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.04
42 12 0.11
43 86 0.78
44 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (42 bp):
TCATCTCACCGGTATTATAGCCTACTAGGCCCGAAGCCGATA
Found at i:55952091 original size:70 final size:70
Alignment explanation
Indices: 55951974--55952108 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
55951964 TAGCACATAA
* * * *
55951974 CACCATGATTTTGTCCTAATTTGGACAACCAATAATTTACAGTATTACAGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAACCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
55952039 CTAAG
66 CTAAG
*
55952044 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAACCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
55952109 TAATAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAACCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
CTAAG
Found at i:55954241 original size:27 final size:27
Alignment explanation
Indices: 55954211--55954388 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
55954201 ATATTGAGCC
* *
55954211 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
55954238 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55954265 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
55954293 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
55954320 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55954347 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
55954374 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55954389 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55954323 original size:55 final size:54
Alignment explanation
Indices: 55954211--55954388 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
55954201 ATATTGAGCC
* * *
55954211 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
55954265 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
55954320 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
55954374 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55954389 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:55967788 original size:27 final size:27
Alignment explanation
Indices: 55967758--55967935 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
55967748 ATATTGAGCC
* *
55967758 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
55967785 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55967812 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
55967840 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
55967867 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55967894 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
55967921 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55967936 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55967870 original size:55 final size:54
Alignment explanation
Indices: 55967758--55967935 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
55967748 ATATTGAGCC
* * *
55967758 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
55967812 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
55967867 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
55967921 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55967936 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:55970561 original size:30 final size:30
Alignment explanation
Indices: 55970527--55970587 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55970517 TTCCCGAGCC
55970527 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
55970557 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
55970587 T
1 T
55970588 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:55971365 original size:68 final size:65
Alignment explanation
Indices: 55971293--55971442 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 65
55971283 CATCATGTGT
** * *
55971293 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGT-GTACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCATGATACCATGTAGGACACCAT
55971357 GTAG
62 GTAG
** * *
55971361 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCCATGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACCATGT--AGGACACCATGT
55971426 AG
64 AG
55971428 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55971443 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 26 0.37
65 3 0.04
66 2 0.03
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACCATGTAGGACACCATGTAG
Found at i:55971398 original size:64 final size:64
Alignment explanation
Indices: 55971317--55971497 Score: 197
Period size: 67 Copynumber: 2.8 Consensus size: 64
55971307 AGACATTATG
* * *
55971317 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * *
55971381 ATGTAGCTAGGTCGCATGCATGGTTCCATGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGT---GTACACCATGTAGACAAGAGAGCTACGAGAT
55971446 AA
63 AA
* * *
55971448 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAG
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAG
55971498 CCGAACTATA
Statistics
Matches: 96, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 16 0.17
64 26 0.27
66 20 0.21
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55974109 original size:27 final size:26
Alignment explanation
Indices: 55974072--55974157 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
55974062 AGCATGGTTG
*
55974072 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
55974098 CCAGATACAGATATTGTGGCGGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
*
55974125 CCAGAACAGATATTTGTGGCATG-GCCA
1 CCAGAACAGATA-TTGTGACA-GAGCCA
55974152 CCAGAA
1 CCAGAA
55974158 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
26 12 0.23
27 40 0.75
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:55977361 original size:43 final size:43
Alignment explanation
Indices: 55977292--55977383 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 43
55977282 AGTAAGTCCA
* **
55977292 TGGCATCGATTTGTGTTTACGAGTAAGACC-CAGTCTGGGACAG-
1 TGGCATCGATATGTGGCTACGAGTAAGACCAC-GTCTGGGAC-GT
55977335 TGGCATCGATATGTGGCTAC-ATGTAAGACCACGTCTGGGACGT
1 TGGCATCGATATGTGGCTACGA-GTAAGACCACGTCTGGGACGT
55977378 TGGCAT
1 TGGCAT
55977384 TGTACGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 2 0.05
43 40 0.93
44 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATGTGGCTACGAGTAAGACCACGTCTGGGACGT
Found at i:55983819 original size:28 final size:29
Alignment explanation
Indices: 55983783--55983839 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
55983773 ATTAAACAAC
*
55983783 AATTAGACA-ACTTAAATGACACTAACTA
1 AATTAGACATACTTAAATGAAACTAACTA
* * *
55983811 AATTGGACATATTTAATTGAAACTAACTA
1 AATTAGACATACTTAAATGAAACTAACTA
55983840 GCATATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (29 bp):
AATTAGACATACTTAAATGAAACTAACTA
Found at i:55984020 original size:20 final size:20
Alignment explanation
Indices: 55983970--55984023 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
55983960 AATAGTAAAA
*
55983970 GAAACAAGCTGGAAATAAGCT
1 GAAACAAGCT-CAAATAAGCT
**
55983991 -AAATTGAGCTCAAATAAGCT
1 GAAA-CAAGCTCAAATAAGCT
55984011 GAAACAAGCTCAA
1 GAAACAAGCTCAA
55984024 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAACAAGCTCAAATAAGCT
Found at i:55986033 original size:34 final size:34
Alignment explanation
Indices: 55985990--55986059 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
55985980 GCTGAAGTTA
*
55985990 GGCACAAAACGCTGATAGAAACTTGCCAATCCAT
1 GGCACAAAACGCCGATAGAAACTTGCCAATCCAT
55986024 GGCACAAAACGCCGATAGAAACTTGCCAATCCAT
1 GGCACAAAACGCCGATAGAAACTTGCCAATCCAT
55986058 GG
1 GG
55986060 AAGCTTCGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (34 bp):
GGCACAAAACGCCGATAGAAACTTGCCAATCCAT
Found at i:55987039 original size:15 final size:15
Alignment explanation
Indices: 55987006--55987090 Score: 54
Period size: 15 Copynumber: 5.7 Consensus size: 15
55986996 TTTCTATTTT
*
55987006 CTTTTTCTTGT-TCA
1 CTTTTTCTTTTCTCA
55987020 TCTTTTTCTTTTCTCA
1 -CTTTTTCTTTTCTCA
*
55987036 C--TTTCTTTTCTCT
1 CTTTTTCTTTTCTCA
* *
55987049 CTCTTTTGCTATTCT-T
1 CT-TTTT-CTTTTCTCA
*
55987065 TTTTTTCTTTTTCTCA
1 CTTTTTC-TTTTCTCA
55987081 C-TTTTCTTTT
1 CTTTTTCTTTT
55987091 TTTTTCTCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
13 12 0.21
14 5 0.09
15 25 0.45
16 8 0.14
17 6 0.11
ACGTcount: A:0.05, C:0.24, G:0.02, T:0.69
Consensus pattern (15 bp):
CTTTTTCTTTTCTCA
Found at i:55987055 original size:24 final size:24
Alignment explanation
Indices: 55987026--55987090 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
55987016 TTCATCTTTT
55987026 TCTTTTCTCACTTTCTTTTCTCTC
1 TCTTTTCTCACTTTCTTTTCTCTC
* *
55987050 TCTTTTGCT-A--TTCTTTTTTTTC
1 TCTTTT-CTCACTTTCTTTTCTCTC
55987072 T-TTTTCTCACTTTTCTTTT
1 TCTTTTCTCAC-TTTCTTTT
55987091 TTTTTCTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 2 0.06
21 5 0.15
22 11 0.32
24 14 0.41
25 2 0.06
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (24 bp):
TCTTTTCTCACTTTCTTTTCTCTC
Found at i:55989478 original size:28 final size:29
Alignment explanation
Indices: 55989442--55989498 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
55989432 ATTAAACAAC
*
55989442 AATTAGACA-ACTTAAATGACACTAACTA
1 AATTAGACATACTTAAATGAAACTAACTA
* * *
55989470 AATTGGACATATTTAATTGAAACTAACTA
1 AATTAGACATACTTAAATGAAACTAACTA
55989499 GCATATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (29 bp):
AATTAGACATACTTAAATGAAACTAACTA
Found at i:55991755 original size:27 final size:27
Alignment explanation
Indices: 55991714--55991767 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55991704 GAAAATGTGA
* *
55991714 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
55991741 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
55991768 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:55992116 original size:50 final size:49
Alignment explanation
Indices: 55992047--55992176 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 49
55992037 ATAACTTCGA
* * * *
55992047 TCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTA-CAGGATGGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATC-GGAT-AATAGG
*
55992097 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATAGG
* * * *
55992146 ACGCATGTGTAGTACTAAGTGCATGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
55992177 TGAGTACCAG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 31 0.44
50 38 0.54
51 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATAGG
Found at i:55992190 original size:49 final size:49
Alignment explanation
Indices: 55991999--55992190 Score: 154
Period size: 49 Copynumber: 3.9 Consensus size: 49
55991989 TTTGAGGTCG
* * * * *
55991999 CATGTGTAGTACTAAGAGCAAGCTACTATGCGTACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAA-TTGGA-CA
* * * * * * * *
55992050 CGTGTGTAGTATTAAGTGTAGGCTACTACGTGTA-CAGGATGGATAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCA-GAT-AATTGGACA
* * * * *
55992100 CGTGTGTAGTACTAAGTGCAGGCTACTA-CATGTATCGGATAATTGGACG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGA-GTACCAGATAATTGGACA
*
55992149 CATGTGTAGTACTAAGTGCATGCTACTATGAGTACCAGATAA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAA
55992191 CCTTGTCCAC
Statistics
Matches: 110, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
49 40 0.36
50 36 0.33
51 33 0.30
52 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAATTGGACA
Found at i:55996471 original size:163 final size:163
Alignment explanation
Indices: 55996201--55996689 Score: 951
Period size: 163 Copynumber: 3.0 Consensus size: 163
55996191 TTGAGATCCG
*
55996201 GGTTTTATGTCATGATATCATGGAAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
1 GGTTTTATGTCATGATATCATGGGAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
*
55996266 GAGTCCGTAAGCTTTCAAATCATATGATAAATTAAAGAGATGTATTGGAGGCACCACCTGAGCGA
66 GAGTCCGTAAGCTTTCAAATCATATGAGAAATTAAAGAGATGTATTGGAGGCACCACCTGAGCGA
55996331 AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
131 AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
55996364 GGTTTTATGTCATGATATCATGGGAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
1 GGTTTTATGTCATGATATCATGGGAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
55996429 GAGTCCGTAAGCTTTCAAATCATATGAGAAATTAAAGAGATGTATTGGAGGCACCACCTGAGCGA
66 GAGTCCGTAAGCTTTCAAATCATATGAGAAATTAAAGAGATGTATTGGAGGCACCACCTGAGCGA
55996494 AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
131 AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
55996527 GGTTTTATGTCATGATATCATGGGAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
1 GGTTTTATGTCATGATATCATGGGAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
*
55996592 GAGTCCGTAAGCTTTCAAATCATATGAGAAATTACAGAGATGTATTGGAGGCACCACCTGAGCGA
66 GAGTCCGTAAGCTTTCAAATCATATGAGAAATTAAAGAGATGTATTGGAGGCACCACCTGAGCGA
55996657 AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
131 AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
55996690 TCTAAGTGAA
Statistics
Matches: 323, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 323 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (163 bp):
GGTTTTATGTCATGATATCATGGGAAACTGAGAAGCCTTTGAAAATTTAAAAACAATTGGGAGTT
GAGTCCGTAAGCTTTCAAATCATATGAGAAATTAAAGAGATGTATTGGAGGCACCACCTGAGCGA
AGGTACTTTGGTATCAAGTATGAGATTGAGGAA
Found at i:55997945 original size:27 final size:27
Alignment explanation
Indices: 55997904--55997957 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55997894 GAAAATGTGA
* *
55997904 AATTGAATGGCAAATTAGTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
55997931 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
55997958 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:56002482 original size:60 final size:60
Alignment explanation
Indices: 56002413--56002542 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 60
56002403 AACTGGGACT
* *
56002413 TAGCCCATATCAATATTAATCTGGGCCGTAGCC-CCTTAC-AGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCGTAGCCTCATTACAAGT-TCAGA-TATATTGGGCC
* * *
56002473 TAGCCCATATCAGTATCAATCTGGGCCGTAGCCTTATTACAAGTTGAGATATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCGTAGCCTCATTACAAGTTCAGATATATTGGGCC
*
56002533 TTGCCCATAT
1 TAGCCCATAT
56002543 TAACATAGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 51 0.82
61 8 0.13
62 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCGTAGCCTCATTACAAGTTCAGATATATTGGGCC
Found at i:56006845 original size:60 final size:60
Alignment explanation
Indices: 56006732--56006861 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
56006722 AACTGGGCGT
* *
56006732 TAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAATATCAGAGTATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAATATCAGAGTATATTGGGCC
* * *
56006792 TAGCCCATATCAGTATCAATCTGGG-CAGTAGCCTTATTACAA-GTC-GAGATATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCA-TAGCC-CATTACAATATCAGAG-TATATTGGGCC
* *
56006852 TTGCCTATAT
1 TAGCCCATAT
56006862 TAACATAGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 5 0.08
60 49 0.82
61 6 0.10
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAATATCAGAGTATATTGGGCC
Found at i:56007505 original size:8 final size:8
Alignment explanation
Indices: 56007492--56007521 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56007482 AAAAATGTCA
56007492 GCTTTTCG
1 GCTTTTCG
*
56007500 GCTTTTCA
1 GCTTTTCG
56007508 GCTTTTCG
1 GCTTTTCG
56007516 GCTTTT
1 GCTTTT
56007522 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.20, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:56007510 original size:16 final size:16
Alignment explanation
Indices: 56007489--56007521 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56007479 TTCAAAAATG
56007489 TCAGCTTTTCGGCTTT
1 TCAGCTTTTCGGCTTT
56007505 TCAGCTTTTCGGCTTT
1 TCAGCTTTTCGGCTTT
56007521 T
1 T
56007522 GCCGATCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.18, T:0.52
Consensus pattern (16 bp):
TCAGCTTTTCGGCTTT
Found at i:56010112 original size:37 final size:37
Alignment explanation
Indices: 56010059--56010161 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
56010049 CGAATAGTCC
* *
56010059 CCACACGTAGTTATCGGGTCTTACCCGGGCAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
56010096 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
56010133 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
56010162 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:56010360 original size:48 final size:48
Alignment explanation
Indices: 56010302--56010546 Score: 409
Period size: 48 Copynumber: 5.0 Consensus size: 48
56010292 ATATACACAC
*
56010302 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56010350 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56010398 ATCTCATATATATATTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATAT-TTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56010447 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56010497 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56010545 AT
1 AT
56010547 ATATTTATCT
Statistics
Matches: 189, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
48 102 0.54
49 40 0.21
50 39 0.21
51 8 0.04
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:56010418 original size:97 final size:97
Alignment explanation
Indices: 56010302--56010546 Score: 411
Period size: 99 Copynumber: 2.5 Consensus size: 97
56010292 ATATACACAC
*
56010302 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTC
56010366 ACACTAGCCATTCGGCTTTACCACATATACAT
66 ACACTAGCCATTCGGCTTTACCACATATACAT
* *
56010398 ATCTCATATATATATTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATT
1 ATCTCATACATAT-TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATT
*
56010463 TCACATTAGCCATTCGGCTTTACCACATATACAT
64 TCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56010497 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
56010547 ATATTTATCT
Statistics
Matches: 139, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
96 11 0.08
97 40 0.29
98 35 0.25
99 53 0.38
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (97 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTC
ACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:56012723 original size:22 final size:23
Alignment explanation
Indices: 56012679--56012724 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
56012669 ATCACCCCTC
56012679 CCTTTTCATTATTTTATTACTAA
1 CCTTTTCATTATTTTATTACTAA
*
56012702 CCTTTT-ATT-TTATTATTTCTAA
1 CCTTTTCATTATT-TTATTACTAA
56012724 C
1 C
56012725 ATAAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 13 0.62
23 6 0.29
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (23 bp):
CCTTTTCATTATTTTATTACTAA
Found at i:56014211 original size:40 final size:40
Alignment explanation
Indices: 56014155--56014475 Score: 570
Period size: 40 Copynumber: 8.0 Consensus size: 40
56014145 GAATACACAT
* * *
56014155 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
56014195 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
56014235 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
56014275 CCCCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
56014315 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
56014355 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
56014395 CCCCAGCACAAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
56014435 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
56014475 C
1 C
56014476 TCTCAATTCT
Statistics
Matches: 268, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 268 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:56015801 original size:37 final size:37
Alignment explanation
Indices: 56015748--56015850 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
56015738 CGAATAGTCC
* *
56015748 CCACACGTAGTTATCGGGTCTTACCCGGGCAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
56015785 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
56015822 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
56015851 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:56016048 original size:48 final size:48
Alignment explanation
Indices: 56015990--56016235 Score: 384
Period size: 48 Copynumber: 5.0 Consensus size: 48
56015980 ATATACACAC
* *
56015990 ATCTCCTACATATTTCACACTAGCCATTCGGGTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56016038 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56016086 ATCTGATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCT--CATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56016136 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56016186 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56016234 AT
1 AT
56016236 ATATTTATCT
Statistics
Matches: 186, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
48 93 0.50
50 93 0.50
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:56016107 original size:98 final size:97
Alignment explanation
Indices: 56015990--56016235 Score: 386
Period size: 98 Copynumber: 2.5 Consensus size: 97
56015980 ATATACACAC
* *
56015990 ATCTCCTACATATTTCACACTAGCCATTCGGGTTTACCACATATACATATCTC-ATACATATTTC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTC
56016054 ACACTAGCCATTCGGCTTTACCACATATACAT
66 ACACTAGCCATTCGGCTTTACCACATATACAT
* * *
56016086 ATCTGATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATAT
1 ATCT--CATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATAT
*
56016151 TTCACATTAGCCATTCGGCTTTACCACATATACAT
63 TTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56016186 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
56016236 ATATTTATCT
Statistics
Matches: 136, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
96 4 0.03
98 87 0.64
100 45 0.33
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (97 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTC
ACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:56018779 original size:13 final size:13
Alignment explanation
Indices: 56018761--56018793 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
56018751 CAACCATTTG
56018761 CTATAATATATTA
1 CTATAATATATTA
56018774 CTAT-A-ATATTA
1 CTATAATATATTA
56018785 CTATAATAT
1 CTATAATAT
56018794 TTATGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 10 0.56
12 2 0.11
13 6 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (13 bp):
CTATAATATATTA
Found at i:56018784 original size:11 final size:11
Alignment explanation
Indices: 56018768--56018794 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
56018758 TTGCTATAAT
56018768 ATATTACTATA
1 ATATTACTATA
56018779 ATATTACTATA
1 ATATTACTATA
56018790 ATATT
1 ATATT
56018795 TATGGATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (11 bp):
ATATTACTATA
Found at i:56020889 original size:70 final size:72
Alignment explanation
Indices: 56020770--56020925 Score: 217
Period size: 71 Copynumber: 2.2 Consensus size: 72
56020760 GAATCGGGGA
* * *
56020770 ATCATCACTTCGCAACCCCTCGGGGGAATCAACACATAGCAACCCCCTTT-TCATTTCAAATATA
1 ATCA-CACTTAGCAACCCCTCGGGGGAATCAACACATAGCAACCCCCTTTCACATTTCAAAGATA
56020834 AAATGGAT
65 AAATGGAT
* *
56020842 ATCACACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
1 ATCACACTTAGCAACCCCTCGGGGGAATCAACACATAGCAACCCCCTTTCACATTTCAAAGATAA
**
56020906 GGTGGAT
66 AATGGAT
*
56020913 ATCGCACTTAGCA
1 ATCACACTTAGCA
56020926 CCACCAATGA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
70 27 0.36
71 44 0.59
72 4 0.05
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (72 bp):
ATCACACTTAGCAACCCCTCGGGGGAATCAACACATAGCAACCCCCTTTCACATTTCAAAGATAA
AATGGAT
Found at i:56021029 original size:104 final size:103
Alignment explanation
Indices: 56020842--56021067 Score: 366
Period size: 104 Copynumber: 2.2 Consensus size: 103
56020832 TAAAATGGAT
56020842 ATCA-CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
1 ATCAGCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
* *
56020906 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGA
66 GGTGGATATCGCACATAGCACCACCAATAAACCGGGGA
56020944 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
1 ATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
56021009 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGA
65 TGGTGGAT-ATCGCACATAGCACCACCAATAAACCGGGGA
**
56021048 ATCAGCACACAGCAACCCCT
1 ATCAGCACTTAGCAACCCCT
56021068 TTTATATACA
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
102 4 0.03
103 16 0.14
104 94 0.82
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
ATCAGCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
GGTGGATATCGCACATAGCACCACCAATAAACCGGGGA
Found at i:56021429 original size:29 final size:29
Alignment explanation
Indices: 56021396--56021459 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
56021386 TAATCCACCA
56021396 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
56021425 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
56021455 CCCAA
1 CCCAA
56021460 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:56021433 original size:30 final size:30
Alignment explanation
Indices: 56021403--56021459 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56021393 CCACCCAACT
56021403 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
56021432 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
56021460 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:56028353 original size:26 final size:26
Alignment explanation
Indices: 56028317--56028368 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
56028307 CACCACTGAA
* *
56028317 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
56028343 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
56028369 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:56028445 original size:70 final size:71
Alignment explanation
Indices: 56028329--56028479 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
56028319 GGGGAATCAT
*
56028329 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
56028393 ATATCG
66 ATATCG
* ***
56028399 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
56028464 GATATCG
65 GATATCG
56028471 CACTTAGCA
1 CACTTAGCA
56028480 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:56028522 original size:104 final size:104
Alignment explanation
Indices: 56028398--56028621 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
56028388 AATGGATATC
56028398 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
56028463 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
56028502 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
56028567 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
56028606 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
56028622 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:56028982 original size:29 final size:29
Alignment explanation
Indices: 56028949--56029012 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
56028939 TAATCCACCA
56028949 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
56028978 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
56029008 CCCAA
1 CCCAA
56029013 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:56028986 original size:30 final size:30
Alignment explanation
Indices: 56028956--56029012 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56028946 CCACCCAACT
56028956 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
56028985 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
56029013 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:56038234 original size:25 final size:25
Alignment explanation
Indices: 56038205--56038252 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56038195 TTATAATATG
* * *
56038205 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56038230 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56038253 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56038317 original size:20 final size:20
Alignment explanation
Indices: 56038288--56038334 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
56038278 ATTTTGATAA
*
56038288 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
56038308 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56038328 ACATGAT
1 ACATGAT
56038335 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56038442 original size:24 final size:24
Alignment explanation
Indices: 56038383--56038503 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
56038373 GGAGGAAGTG
*
56038383 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
56038407 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
56038432 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
56038456 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
56038479 TGAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
56038504 ATGAAAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 18 0.20
24 40 0.45
25 30 0.34
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:56038455 original size:49 final size:47
Alignment explanation
Indices: 56038383--56038503 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 47
56038373 GGAGGAAGTG
*
56038383 TAAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGA-AAAGGGCTT-TGCCCCAGTTAT
*
56038432 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
* *
56038479 TGAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
56038504 ATGAAAAAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
47 22 0.33
48 20 0.30
49 24 0.36
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
Found at i:56038751 original size:31 final size:31
Alignment explanation
Indices: 56038697--56038757 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
56038687 CTTTTACAGT
* * *
56038697 AAAGGCTTTGGCCCAGTAATATGAGATATGG
1 AAAGGCTTCGACCCAGTAATATGAAATATGG
**
56038728 AAAGGCTTCGACCCAGTGTTATGAAATATG
1 AAAGGCTTCGACCCAGTAATATGAAATATG
56038758 AAATATGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGG
Found at i:56050836 original size:47 final size:47
Alignment explanation
Indices: 56050718--56050893 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 47
56050708 GGATGGTTGA
*
56050718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
56050766 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
* *
56050809 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC--TGA-GGATGCGAAT
*
56050861 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
56050894 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 30 0.28
47 29 0.27
48 30 0.28
50 4 0.04
52 4 0.04
53 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:56050888 original size:95 final size:93
Alignment explanation
Indices: 56050718--56050890 Score: 301
Period size: 95 Copynumber: 1.8 Consensus size: 93
56050708 GGATGGTTGA
* *
56050718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56050783 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56050811 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC--TTATGGATGCGAACGCCCGAACTCGTTGA
56050876 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
56050891 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 34 0.45
95 41 0.55
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56051156 original size:18 final size:19
Alignment explanation
Indices: 56051119--56051156 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
56051109 GATAAGGTGG
56051119 TAAGATGATGAATGATGTT
1 TAAGATGATGAATGATGTT
56051138 TAAGATG-TGATAT-ATGTT
1 TAAGATGATGA-ATGATGTT
56051156 T
1 T
56051157 TGGTGATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (19 bp):
TAAGATGATGAATGATGTT
Found at i:56058355 original size:46 final size:44
Alignment explanation
Indices: 56058305--56058474 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 44
56058295 TGGTTGAGCA
56058305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-G
* * * *
56058351 TCCGAACTCGTTGAGTTGAGTCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACT-TATG-GA-T-GCGAAG
*
56058396 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-G
* *
56058442 CCCGAGCTCGTTGAGTTGAGTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTA
56058475 GGGGGGGTTA
Statistics
Matches: 104, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 43 0.41
46 51 0.49
47 4 0.04
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAAG
Found at i:56058457 original size:91 final size:91
Alignment explanation
Indices: 56058302--56058469 Score: 300
Period size: 91 Copynumber: 1.8 Consensus size: 91
56058292 GGATGGTTGA
* *
56058302 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56058367 TGAGTCGAGTTCGTGAATGTAACTAG
66 TGAGTCGAGTTCGTGAATGTAACTAG
* *
56058393 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56058458 TGAGTCGAGTTC
66 TGAGTCGAGTTC
56058470 ACTTAGGGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAATGTAACTAG
Found at i:56058735 original size:19 final size:20
Alignment explanation
Indices: 56058698--56058735 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56058688 ATAAGGTGGT
56058698 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56058718 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56058736 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56062415 original size:29 final size:29
Alignment explanation
Indices: 56062356--56062415 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
56062346 TTTACCATGC
* *
56062356 TTACTATTACTGGCAGCTATGCTGCGTTA
1 TTACTATTACTAGCAGCTATGCTGCGATA
* *
56062385 TTACTATTACTAGCAGCTTTGCTTCGATA
1 TTACTATTACTAGCAGCTATGCTGCGATA
56062414 TT
1 TT
56062416 GGTGTGCTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
TTACTATTACTAGCAGCTATGCTGCGATA
Found at i:56062590 original size:31 final size:33
Alignment explanation
Indices: 56062555--56062644 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 33
56062545 ATGCTACTAT
56062555 ATAGGACTAAGGCCC-GACTATACTG-CACTGA
1 ATAGGACTAAGGCCCAGACTATACTGTCACTGA
* ** * *
56062586 ATAGGGCTTTGGCCCAGACTGTACTGTTACTGA
1 ATAGGACTAAGGCCCAGACTATACTGTCACTGA
* ** *
56062619 ATAGGGCTTTGGCCCAGACTGTACTG
1 ATAGGACTAAGGCCCAGACTATACTG
56062645 ATACTGTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 12 0.23
32 9 0.17
33 31 0.60
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (33 bp):
ATAGGACTAAGGCCCAGACTATACTGTCACTGA
Found at i:56062621 original size:33 final size:32
Alignment explanation
Indices: 56062565--56062650 Score: 129
Period size: 33 Copynumber: 2.7 Consensus size: 32
56062555 ATAGGACTAA
* *
56062565 GGCCC-GACTATACTGCACTGAATAGGGCTTT
1 GGCCCAGACTGTACTGTACTGAATAGGGCTTT
56062596 GGCCCAGACTGTACTGTTACTGAATAGGGCTTT
1 GGCCCAGACTGTACTG-TACTGAATAGGGCTTT
56062629 GGCCCAGACTGTACTGATACTG
1 GGCCCAGACTGTACTG-TACTG
56062651 TGTTGGTTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
31 5 0.10
32 9 0.18
33 36 0.72
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (32 bp):
GGCCCAGACTGTACTGTACTGAATAGGGCTTT
Found at i:56081594 original size:18 final size:19
Alignment explanation
Indices: 56081571--56081607 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56081561 AAGCCTCTTG
56081571 GGTATTTAT-TTTTAATTT
1 GGTATTTATCTTTTAATTT
*
56081589 GGTATTTTTCTTTTAATTT
1 GGTATTTATCTTTTAATTT
56081608 TTGGATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (19 bp):
GGTATTTATCTTTTAATTT
Found at i:56091248 original size:27 final size:27
Alignment explanation
Indices: 56091194--56091251 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56091184 TTCGATTTGT
*
56091194 AAATTACCAAAATACCCTTGTAGTGTA
1 AAATTACCAAAATACCCTTATAGTGTA
* *
56091221 AAATTACCGAAATACCTTTATGAG-GTA
1 AAATTACCAAAATACCCTTAT-AGTGTA
56091248 AAAT
1 AAAT
56091252 GATCGTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTATAGTGTA
Found at i:56099683 original size:28 final size:28
Alignment explanation
Indices: 56099651--56099756 Score: 115
Period size: 28 Copynumber: 3.8 Consensus size: 28
56099641 ACATACTTGT
* *
56099651 ATATGGCCCACTAGGCCCAATCTTTTTC
1 ATATGGCCCATTAGGCCCAATCTCTTTC
*
56099679 ATATGGCCTATTAGGCCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCTCTTTC
* * * *
56099707 ATATTGCCCATTCGGCCCATATCACATTC
1 ATATGGCCCATTAGGCCCA-ATCTCTTTC
* *
56099736 ATACGG-CCATTACGCCCAATC
1 ATATGGCCCATTAGGCCCAATC
56099757 ACATTTATAG
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 3 0.05
28 51 0.78
29 11 0.17
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCTTTC
Found at i:56099998 original size:16 final size:16
Alignment explanation
Indices: 56099977--56100011 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56099967 GTAGCCAAAC
56099977 TTTCGA-CTTTTCGGCA
1 TTTCGACCTTTT-GGCA
56099993 TTTCGACCTTTTGGCA
1 TTTCGACCTTTTGGCA
56100009 TTT
1 TTT
56100012 TGGCTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCGACCTTTTGGCA
Found at i:56105781 original size:79 final size:80
Alignment explanation
Indices: 56105650--56105797 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
56105640 TATTCGGATG
* *
56105650 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTAATTACGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATAACGGGCTAAGTCCCGAAGGCA
56105714 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
56105729 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATAA-CGGGCTAAGTCCCGAAGGC
56105793 ATTTG
65 ATTTG
56105798 AGCAAGTAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 3 0.05
79 46 0.73
80 14 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATAACGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:56105819 original size:79 final size:79
Alignment explanation
Indices: 56105650--56105820 Score: 231
Period size: 79 Copynumber: 2.2 Consensus size: 79
56105640 TATTCGGATG
* *
56105650 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTAATTACGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATAACGGGCTAAGCCCGAAGGCAT
* *
56105715 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
* *
56105729 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATAA-CGGGCTAAG-CCCGAAGGC
56105793 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
*
56105809 ATATCC-GGCTAA
1 ATAACCGGGCTAA
56105821 ATTCTGAAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
78 3 0.04
79 54 0.66
80 25 0.30
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATAACGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:56105830 original size:39 final size:40
Alignment explanation
Indices: 56105650--56105797 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
56105640 TATTCGGATG
* * *
56105650 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56105690 AATTA-CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
56105729 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
56105769 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
56105798 AGCAAGTAGC
Statistics
Matches: 100, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
38 3 0.03
39 31 0.31
40 63 0.63
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56108960 original size:143 final size:139
Alignment explanation
Indices: 56108834--56109393 Score: 840
Period size: 143 Copynumber: 3.9 Consensus size: 139
56108824 TTAGGATTCT
56108834 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56108899 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
64 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
*
56108964 ATAAGGCCTAATGGTCG
127 ATAAGG-C--AT-GCCG
* * *
56108981 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGTAAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
56109046 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
56109109 GGCCTAATGGCCG
131 GG-C--AT-GCCG
56109122 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
56109187 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
56109252 GGCCTAATGGCCG
131 GG-C--AT-GCCG
*
56109265 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * *
56109330 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
56109393 G
131 G
56109394 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 15, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
141 147 0.37
142 1 0.00
143 184 0.46
145 45 0.11
147 19 0.05
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (139 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCATGCCG
Found at i:56109023 original size:47 final size:47
Alignment explanation
Indices: 56108834--56109393 Score: 931
Period size: 47 Copynumber: 11.7 Consensus size: 47
56108824 TTAGGATTCT
56108834 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
56108883 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
56108932 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
56108981 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
56109028 ATGTGATGAACGTAAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56109075 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56109122 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56109169 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56109216 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
56109265 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
56109312 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
56109359 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56109394 TCCCGAAGGG
Statistics
Matches: 491, Mismatches: 18, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
47 329 0.67
49 162 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Done.