Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 231 of 427
Found at i:65473100 original size:30 final size:30
Alignment explanation
Indices: 65473066--65473123 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
65473056 TCACATATAC
65473066 ATATACTTTCGCATTCACCACATCGGCCTA
1 ATATACTTTCGCATTCACCACATCGGCCTA
65473096 ATATACTTTCGCATTCACCACATCGGCC
1 ATATACTTTCGCATTCACCACATCGGCC
65473124 ATTAGGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.34, G:0.10, T:0.29
Consensus pattern (30 bp):
ATATACTTTCGCATTCACCACATCGGCCTA
Found at i:65473113 original size:79 final size:79
Alignment explanation
Indices: 65473017--65473172 Score: 312
Period size: 79 Copynumber: 2.0 Consensus size: 79
65473007 TCACATATAC
65473017 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTC
1 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTC
65473082 ACCACATCGGCCTA
66 ACCACATCGGCCTA
65473096 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTC
1 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTC
65473161 ACCACATCGGCC
66 ACCACATCGGCC
65473173 ATTAGGCCTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (79 bp):
ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTC
ACCACATCGGCCTA
Found at i:65473114 original size:128 final size:128
Alignment explanation
Indices: 65472968--65473221 Score: 463
Period size: 128 Copynumber: 2.0 Consensus size: 128
65472958 TCACATATAC
65472968 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTC
1 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTC
*
65473033 ACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTA
66 ACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTA
*
65473096 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTC
1 ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTC
* * *
65473161 ACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 ACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
65473222 ATTAGGCCTC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 121 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (128 bp):
ATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTC
ACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTA
Found at i:65473226 original size:177 final size:176
Alignment explanation
Indices: 65472923--65473445 Score: 643
Period size: 195 Copynumber: 2.9 Consensus size: 176
65472913 ATATACATAC
65472923 ACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCA
1 ACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCA
*
65472988 CATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCC
66 CATCGGCCATTAGGCCTCATCACATATACATACACTTTCGCATTCACCACATCGGCCATTAGGCC
*
65473053 TTATCACATATACATATAC-TTTCGCATTCACCACATCGGCCTAATAT
131 TCATCACATAT--ATATACATTTCGCATTCACCACATCGGCCTAATAT
* *
65473100 ACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCA
1 ACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCA
* * * *
65473165 CATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCC
66 CATCGGCCATTAGGCCTCATCACATATACATACACTTTCGCATTCACCACATCGGCCATTAGGCC
*
65473230 TCATCACATATATATACATTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACAT
131 TCATCACATATATATACATTTCGCATTCA-C-CA-----CA-TCGGCC---T---A-AT--AT
* * * * * * * * *
65473293 ACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCAT
1 AC--TTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCAC
* * * * *
65473358 CACATCGGCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGG
64 CACATCGGCCATTAGGCCTCATCACATATACATACACTTTCGCATTCACCACATCGGCCATTAGG
65473423 CCTCATCACATATATATACATTT
129 CCTCATCACATATATATACATTT
65473446 TCACGAATCT
Statistics
Matches: 305, Mismatches: 21, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
175 6 0.02
176 11 0.04
177 134 0.44
178 2 0.01
183 2 0.01
184 5 0.02
187 1 0.00
190 1 0.00
191 2 0.01
193 4 0.01
195 137 0.45
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (176 bp):
ACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCA
CATCGGCCATTAGGCCTCATCACATATACATACACTTTCGCATTCACCACATCGGCCATTAGGCC
TCATCACATATATATACATTTCGCATTCACCACATCGGCCTAATAT
Found at i:65473284 original size:146 final size:146
Alignment explanation
Indices: 65473096--65473447 Score: 535
Period size: 146 Copynumber: 2.4 Consensus size: 146
65473086 CATCGGCCTA
* *
65473096 ATATAC-TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATT
1 ATATACATTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATT
* * * *
65473160 CACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
66 CACCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACATCGGCCATT
65473225 AGGCCTCATCACATAT
131 AGGCCTCATCACATAT
*
65473241 ATATACATTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATT
1 ATATACATTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATT
* * *
65473306 CATCGCATCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCCATT
66 CACCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACATCGGCCATT
*
65473371 AGGCCTTATCACATAT
131 AGGCCTCATCACATAT
* * * * * *
65473387 ACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATCACATATATATACATTTTC
1 ATATACA-TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
65473448 ACGAATCTTG
Statistics
Matches: 189, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
145 6 0.03
146 134 0.71
147 49 0.26
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (146 bp):
ATATACATTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATT
CACCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACATCGGCCATT
AGGCCTCATCACATAT
Found at i:65475936 original size:131 final size:131
Alignment explanation
Indices: 65475702--65475965 Score: 528
Period size: 131 Copynumber: 2.0 Consensus size: 131
65475692 ATGCAATTAA
65475702 CTAAATCGAAGCTTAAAATTTTTTTGCACATTCATATTCACATATTTTAGACCATAAATATCACA
1 CTAAATCGAAGCTTAAAATTTTTTTGCACATTCATATTCACATATTTTAGACCATAAATATCACA
65475767 TCCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGG
66 TCCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGG
65475832 G
131 G
65475833 CTAAATCGAAGCTTAAAATTTTTTTGCACATTCATATTCACATATTTTAGACCATAAATATCACA
1 CTAAATCGAAGCTTAAAATTTTTTTGCACATTCATATTCACATATTTTAGACCATAAATATCACA
65475898 TCCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGG
66 TCCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGG
65475963 G
131 G
65475964 CT
1 CT
65475966 GTCACAACTC
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (131 bp):
CTAAATCGAAGCTTAAAATTTTTTTGCACATTCATATTCACATATTTTAGACCATAAATATCACA
TCCAAATAATTTGGTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCGACTAGGGTCACTTTAGG
G
Found at i:65477617 original size:119 final size:119
Alignment explanation
Indices: 65477405--65477628 Score: 378
Period size: 119 Copynumber: 1.9 Consensus size: 119
65477395 CACGAGCATG
* * *
65477405 ATGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ATGCTCCTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
65477470 ACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGA
66 ACATCACTAGCACGAATGCTCCTCGGAACTTAG-CCGGATACATCACTAGCACGA
* *
65477525 ATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTC-TCGGAACTTAGTCCGGAT
1 ATGCTCCTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
*
65477589 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATA
66 ACATCACTAGCACGAATGCTCCTCGGAACTTAGCCGGATA
65477629 TAACCACAAG
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 7 0.07
119 50 0.51
120 41 0.42
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (119 bp):
ATGCTCCTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
ACATCACTAGCACGAATGCTCCTCGGAACTTAGCCGGATACATCACTAGCACGA
Found at i:65477641 original size:40 final size:40
Alignment explanation
Indices: 65477405--65477628 Score: 380
Period size: 40 Copynumber: 5.7 Consensus size: 40
65477395 CACGAGCATG
* * * *
65477405 ATGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
65477445 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
*
65477485 ATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
*
65477525 ATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
65477565 ATGCTC-TCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
65477604 ATGCTCTTCGGAACTTAG-CCGGATA
1 ATGCTCTTCGGAACTTAGTCCGGATA
65477629 TAACCACAAG
Statistics
Matches: 178, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
39 46 0.26
40 132 0.74
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
Found at i:65477687 original size:119 final size:119
Alignment explanation
Indices: 65477405--65477742 Score: 337
Period size: 119 Copynumber: 2.8 Consensus size: 119
65477395 CACGAGCATG
* * * * * * *
65477405 ATGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ATGCTCCTCGGAACTTAACCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGAT
* * * *
65477470 ACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGA
66 ACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAAACCACAAGCACGA
** * *
65477525 ATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTC-TCGGAACTTAGTCCGGAT
1 ATGCTCCTCGGAACTTAACCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGAT
65477589 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATATAACCACAAGCAC-A
66 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATA-AACCACAAGCACGA
* ** * * ** *
65477643 ATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAATGC-CTTCGGGTCTTAGCCCG
1 A-TGCTCCTCGGAACTTAACCCGGATACAAC-ACT-AGCACAAATGCTCTTCGGAACTTAGTCCG
* ** *
65477705 GATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
63 GATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
65477743 CGGTATCATT
Statistics
Matches: 187, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
118 27 0.14
119 104 0.56
120 56 0.30
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
ATGCTCCTCGGAACTTAACCCGGATACAACACTAGCACAAATGCTCTTCGGAACTTAGTCCGGAT
ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAACCACAAGCACGA
Found at i:65477754 original size:40 final size:40
Alignment explanation
Indices: 65477405--65477745 Score: 363
Period size: 40 Copynumber: 8.6 Consensus size: 40
65477395 CACGAGCATG
* * *
65477405 ATGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
*
65477445 ATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
* *
65477485 ATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
* *
65477525 ATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
*
65477565 ATGCTC-TCGGAACTTAGTCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
* * *
65477604 ATGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCAC-A
1 ATGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGA
** * * * * *
65477643 ATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAA
1 A-TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGA
** * **
65477684 ATGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAA
1 ATGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGA
*
65477724 ATGC-CTTCGGGACTTAGCCCGG
1 ATGCTCTTCGGAACTTAGCCCGG
65477746 TATCATTCAA
Statistics
Matches: 272, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
39 61 0.22
40 207 0.76
41 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGA
Found at i:65479651 original size:37 final size:36
Alignment explanation
Indices: 65479601--65479687 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
65479591 TACGAAGTCT
65479601 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65479637 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65479674 TCACCCGGAACATA
1 T-ACCCGG-ACATA
65479688 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:65479889 original size:47 final size:49
Alignment explanation
Indices: 65479736--65480151 Score: 514
Period size: 48 Copynumber: 8.6 Consensus size: 49
65479726 ATTCACATTA
* * * *
65479736 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCACATTCATCACATCG
* *
65479787 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
*
65479836 GCCATTAGGCC-TATCACATATACATATACTTTC-CATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
65479883 GCCATTAGGCCTTATCACATATACATATACTTTC-CATTCAT--CATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
* * * *
65479929 GCCATTAGGCCTTATCACATATATATACATTTTCGCATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
* *
65479978 GCCATTAGGCCTTATCACATATACATACA-TTTCGCATTCATC-CATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
*
65480025 GCCATTAGGCCTCATCACATAT--ATATACATTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATATAC-TTTCACATTCATCACATCG
** *
65480073 GCCATTCACCTCCTTATCACAATATACATACA-TTTCACATTCATCACATC-
1 GCCATT-A-GGCCTTATCAC-ATATACATATACTTTCACATTCATCACATCG
* * *
65480123 GACATTAGGCCTCATCACAT-TATATATAC
1 GCCATTAGGCCTTATCACATATACATATAC
65480152 ATTTTCACGA
Statistics
Matches: 327, Mismatches: 25, Indels: 30
0.86 0.07 0.08
Matches are distributed among these distances:
45 4 0.01
46 42 0.13
47 72 0.22
48 81 0.25
49 66 0.20
50 13 0.04
51 45 0.14
53 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
Found at i:65479983 original size:142 final size:142
Alignment explanation
Indices: 65479736--65480151 Score: 531
Period size: 142 Copynumber: 2.9 Consensus size: 142
65479726 ATTCACATTA
* * *
65479736 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATA-ATAT--ACTTTCACATTCAT-ACATCGGCCATTAGGCCTTA
*
65479801 TCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTATCACATATACATATACT
62 TCACATATACATACA-TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATACATATACT
65479866 TTC-CATTCACCACATCG
126 TTCGCATTCACC-CATCG
65479883 GCCATTAGGCCTTATCACATATACATATACTTTC-CATTCAT-CATCGGCCATTAGGCCTTATCA
1 GCCATTAGGCCTTATCACATATA-ATATACTTTCACATTCATACATCGGCCATTAGGCCTTATCA
* * *
65479946 CATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACA-TTT
65 CATATACATACA-TTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATACATATACTTT
*
65480010 CGCATTCATCCATCG
128 CGCATTCACCCATCG
* **
65480025 GCCATTAGGCCTCATCACATAT-ATATACATTTCACATTCATCACATCGGCCATTCACCTCCTTA
1 GCCATTAGGCCTTATCACATATAATATAC-TTTCACATTCAT-ACATCGGCCATT-A-GGCCTTA
* *
65480089 TCACAATATACATACATTTCACATTCATCACATC-GACATTAGGCCTCATCACAT-TATATATAC
62 TCAC-ATATACATACATTTCACATTCATCACATCGGCCATTAGGCCT-ATCACATATACATATAC
65480152 ATTTTCACGA
Statistics
Matches: 240, Mismatches: 18, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
140 6 0.03
141 4 0.02
142 98 0.41
143 23 0.10
144 25 0.10
145 24 0.10
146 26 0.11
147 34 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (142 bp):
GCCATTAGGCCTTATCACATATAATATACTTTCACATTCATACATCGGCCATTAGGCCTTATCAC
ATATACATACATTTCACATTCATCACATCGGCCATTAGGCCTATCACATATACATATACTTTCGC
ATTCACCCATCG
Found at i:65484135 original size:79 final size:79
Alignment explanation
Indices: 65483998--65484180 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 79
65483988 CCAGCATGAT
* * *
65483998 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
65484063 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
65484078 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
65484142 CATCACTAGCACGGA
65 CATCACTAGCACGAA
65484157 TGCTCTTCGGAACTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
65484181 AAACCACAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 7 0.07
79 58 0.60
80 31 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:65484204 original size:79 final size:79
Alignment explanation
Indices: 65484030--65484205 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
65484020 ATGCATCACT
65484030 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
1 AGCAC-AATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
* * *
65484095 TCCGGATACATCACT
65 TCCGGATAAACCACA
* * *
65484110 AGCAGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAG-
1 AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
65484174 CCGGATAAAACCACA
66 CCGGAT-AAACCACA
65484189 AGCACAATTGC-CTTCGG
1 AGCACAA-TGCTCTTCGG
65484206 GTCTTAACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 6 0.07
79 74 0.85
80 7 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
CCGGATAAACCACA
Found at i:65484205 original size:39 final size:40
Alignment explanation
Indices: 65483998--65484180 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
65483988 CCAGCATGAT
* * * *
65483998 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65484038 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
65484078 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
65484117 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65484157 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
65484181 AAACCACAAG
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 45 0.33
40 90 0.67
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:65484243 original size:40 final size:40
Alignment explanation
Indices: 65484189--65484301 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
65484179 TAAAACCACA
* * *
65484189 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATA-ACAACT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATAC-ACT
* *
65484229 CA-CACAAATACCTTCGGGTCTTAGCCCGGATATATTCACT
1 -AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
* * *
65484269 AGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTAT
65484302 CATTCAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 58 0.95
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
Found at i:65484244 original size:119 final size:118
Alignment explanation
Indices: 65484000--65484294 Score: 289
Period size: 119 Copynumber: 2.5 Consensus size: 118
65483990 AGCATGATTG
* * *
65484000 CTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAAA
* * ** *
65484065 TCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCAGAATG
65 CCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
* * *
65484119 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAGCCGGATAAAA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGAT-AAA
* **
65484184 CCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCAC-A-CA-AATA
65 CCACAAGCACGAA-TGCTCCTCGGAACTTAACCC-GG-AT-AC-A-TCACTAGCAGAATA
* * ** *
65484239 C-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
65484295 CGGGTATCAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
118 19 0.13
119 98 0.67
120 19 0.13
121 4 0.03
122 2 0.01
123 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAAC
CACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
Found at i:65486208 original size:37 final size:36
Alignment explanation
Indices: 65486158--65486244 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
65486148 TACGAAGTCT
65486158 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65486194 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65486231 TCACCCGGAACATA
1 T-ACCCGG-ACATA
65486245 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:65486382 original size:49 final size:49
Alignment explanation
Indices: 65486308--65486887 Score: 406
Period size: 49 Copynumber: 12.2 Consensus size: 49
65486298 TCGGCTTTAC
* * * *
65486308 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATAT--ACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
65486359 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
65486408 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
*
65486457 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
65486506 CACATATACATATACTTTCGCATTCACCACATCGGCC--TA---ATTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * * *
65486550 -AC-TTTCGCAT-TCAC---CACA-TCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATAT-ACATAT-ACTTTCGCATTC-ACCACATCGGCCATTAGGC-C-TCAT
* *** * * * * * * *
65486593 -ACATATACTTTCGCATTCACCACATCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATATACATATACTTTC-GCA-TTC-ACCACATCGGCCATTAGGC-C-TCAT
* *
65486642 -ACATA--C--AT--TTTCGCATTCATCGCATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
65486684 CACATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
65486733 CACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * *
65486782 CACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
65486831 CACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
65486880 CACATATA
1 CACATATA
65486888 TATACATTTT
Statistics
Matches: 454, Mismatches: 48, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
39 7 0.02
40 9 0.02
41 8 0.02
42 11 0.02
43 23 0.05
44 7 0.02
46 1 0.00
47 6 0.01
49 371 0.82
51 11 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
Found at i:65486459 original size:98 final size:98
Alignment explanation
Indices: 65486293--65486900 Score: 511
Period size: 98 Copynumber: 5.9 Consensus size: 98
65486283 ATTCACATTA
* * * * * *
65486293 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
65486358 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
65486393 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
65486458 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
65486491 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * *
65486556 GCATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
65486611 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * * *
65486675 AGGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
65486718 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
65486783 ACATATATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * *
65486816 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
65486881 ACATATATATACATTTTCAC
66 ACATATACATACACTTTCAC
65486901 GAATCTTGAT
Statistics
Matches: 424, Mismatches: 47, Indels: 76
0.78 0.09 0.14
Matches are distributed among these distances:
98 265 0.62
100 30 0.07
102 2 0.00
103 3 0.01
104 6 0.01
105 11 0.03
106 7 0.02
107 6 0.01
108 2 0.00
109 2 0.00
110 4 0.01
111 5 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 6 0.01
117 4 0.01
118 2 0.00
119 1 0.00
120 6 0.01
121 7 0.02
122 11 0.03
123 6 0.01
124 3 0.01
125 2 0.00
127 9 0.02
129 20 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:65486577 original size:129 final size:129
Alignment explanation
Indices: 65486418--65486671 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
65486408 CACATATACA
65486418 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
*
65486483 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
65486547 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
65486612 CCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
65486672 ATTAGGCCTC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (129 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:65486600 original size:80 final size:80
Alignment explanation
Indices: 65486467--65486622 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
65486457 CACATATACA
65486467 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
65486532 CCACATCGGCCTAAT
66 CCACATCGGCCTAAT
65486547 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
65486612 CCACATCGGCC
66 CCACATCGGCC
65486623 ATTAGGCCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (80 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
CCACATCGGCCTAAT
Found at i:65486900 original size:49 final size:49
Alignment explanation
Indices: 65486552--65486898 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 49
65486542 CTAATTATAC
* * *
65486552 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATAC
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
65486601 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * *
65486650 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
65486699 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
65486748 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
65486797 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
65486846 TTTCACATTCATCACATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
65486895 TTTC
1 TTTC
65486899 ACGAATCTTG
Statistics
Matches: 277, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 277 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:65489393 original size:22 final size:22
Alignment explanation
Indices: 65489365--65489429 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
65489355 GCAAATACAT
*
65489365 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
65489387 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
65489409 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
65489430 AATAATTGGC
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:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:65489866 original size:27 final size:27
Alignment explanation
Indices: 65489846--65489958 Score: 163
Period size: 27 Copynumber: 4.2 Consensus size: 27
65489836 GGTATCTCGG
*
65489846 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* * *
65489873 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCAA
* * *
65489900 TAATTCTACCATACAGGGGTGTTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAA
65489927 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
65489954 TAATT
1 TAATT
65489959 TTGTGAATCA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAA
Found at i:65489894 original size:54 final size:54
Alignment explanation
Indices: 65489819--65489958 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
65489809 GGCAAAATGG
* * * * *
65489819 TAATTTTACCCCACACA-GGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACA-AGGGTATCTCGATAATTCTACCATACAGGGGTATTTCAA
* * * *
65489873 TATTTCTACCCTACAAGGGTATTTCGATAATTCTACCATACAGGGGTGTTTCAG
1 TAATTCTACCCTACAAGGGTATCTCGATAATTCTACCATACAGGGGTATTTCAA
* * *
65489927 TAATTCTACCCTACAGGGGTATTTCAATAATT
1 TAATTCTACCCTACAAGGGTATCTCGATAATT
65489959 TTGTGAATCA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 72 0.99
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATCTCGATAATTCTACCATACAGGGGTATTTCAA
Found at i:65494920 original size:28 final size:28
Alignment explanation
Indices: 65494888--65494956 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
65494878 GCGTAGATCA
65494888 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
65494916 CGAAATTACCCCTAAAGAGCATAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
65494944 CGATA-TACCCCTA
1 CGAAATTACCCCTA
65494957 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:65496839 original size:20 final size:20
Alignment explanation
Indices: 65496814--65496851 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65496804 AATATATTTA
*
65496814 AAAACATAAAAACAAATATT
1 AAAACAAAAAAACAAATATT
*
65496834 AAAACAAAAAAATAAATA
1 AAAACAAAAAAACAAATA
65496852 ATGAGACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAACAAAAAAACAAATATT
Found at i:65501115 original size:17 final size:17
Alignment explanation
Indices: 65501093--65501127 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65501083 TCTCAAATAC
65501093 AAAGCATATCATATAAT
1 AAAGCATATCATATAAT
65501110 AAAGCATATCATATAAT
1 AAAGCATATCATATAAT
65501127 A
1 A
65501128 CATATACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAGCATATCATATAAT
Found at i:65507214 original size:40 final size:40
Alignment explanation
Indices: 65507087--65507216 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
65507077 ATGCTGGAAA
* * *
65507087 TTATATCTGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGATAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
65507127 CTACATCCGGGATAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGATAAGACCCGAAGGCATTCGTGCGAGTGG
* * *
65507167 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCGCGTGG
1 TTATATCCGGGATAAGACCCGAAGGCATTCGTGCGAGTGG
65507207 TTATATCCGG
1 TTATATCCGG
65507217 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 71 0.96
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGATAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:65511218 original size:68 final size:67
Alignment explanation
Indices: 65511146--65511295 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
65511136 CATCATGTGT
* * * *
65511146 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
65511208 ATGTAG
62 ATGTAG
** * *
65511214 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
65511279 AG
66 AG
65511281 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
65511296 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:65511251 original size:64 final size:64
Alignment explanation
Indices: 65511170--65511351 Score: 190
Period size: 67 Copynumber: 2.8 Consensus size: 64
65511160 AGACATTATG
* *
65511170 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
65511234 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
65511299 AA
63 AA
* * * *
65511301 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGA
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGA
65511352 CCGAACTATA
Statistics
Matches: 96, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 21 0.22
65 8 0.08
66 16 0.17
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:65517035 original size:39 final size:39
Alignment explanation
Indices: 65516943--65517133 Score: 170
Period size: 39 Copynumber: 4.8 Consensus size: 39
65516933 AGATATAACG
* ** *
65516943 ACTCGCTCAAATGCCTTCAGGACGAAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATT-TAGTA
* * *
65516983 ACTCGCACGAATGCCTTCGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
* * *
65517022 ACTTGCACAAATGCCTTCGGGCTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
* * * * * *
65517061 TCTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTAGTA
*
65517101 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTC-GGACTTAGCCCGGA
65517134 CATCATTGAA
Statistics
Matches: 121, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
39 64 0.53
40 47 0.39
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTAGTA
Found at i:65517067 original size:78 final size:80
Alignment explanation
Indices: 65516984--65517133 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 80
65516974 GTTATAGTGA
* * *
65516984 CTCGCACGAATGCCTTCGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAATGCCTTCGGG-CTT
1 CTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTT
65517046 AGCCCGGATTTATTAT
65 AGCCCGGATTTATTAT
** *
65517062 CTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA
1 CTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
65517127 GCCCGGA
66 GCCCGGA
65517134 CATCATTGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
78 20 0.32
79 25 0.40
80 18 0.29
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (80 bp):
CTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
GCCCGGATTTATTAT
Found at i:65522410 original size:46 final size:46
Alignment explanation
Indices: 65522343--65522604 Score: 398
Period size: 46 Copynumber: 5.7 Consensus size: 46
65522333 GGCAACCTGA
65522343 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
65522389 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
65522435 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
65522481 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
65522527 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
65522573 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
65522605 TCATGTCAAA
Statistics
Matches: 200, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 200 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:65522535 original size:138 final size:130
Alignment explanation
Indices: 65522293--65522604 Score: 426
Period size: 138 Copynumber: 2.3 Consensus size: 130
65522283 AGTGTGCTCT
*
65522293 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
***
65522358 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
65522423 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--A-GTGTAAG
** *
65522488 ACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACC
65522553 ATGGCAAC
123 ATGGCAAC
* * * * * * *
65522561 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
65522605 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
130 46 0.29
135 2 0.01
137 1 0.01
138 111 0.69
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:65533631 original size:27 final size:27
Alignment explanation
Indices: 65533543--65533631 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
65533533 AACCATATAT
* * *
65533543 CACATAGGGGCAGAACAGTCGTTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
65533570 CATATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
65533597 AACCTAAGGG-AATAACAGTCATCTTAC
1 CACATAAGGGCAA-AACAGTCATTTTAC
65533624 CACATAAG
1 CACATAAG
65533632 CGGGTATAGG
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 2 0.04
27 45 0.96
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:65534571 original size:27 final size:27
Alignment explanation
Indices: 65534541--65534654 Score: 169
Period size: 27 Copynumber: 4.3 Consensus size: 27
65534531 AACCATATAT
*
65534541 CACATAGGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65534568 CACATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
65534595 CACATAAGGGCAAAACAGTCATTTT--
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65534620 CACATAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
65534647 CACATAAG
1 CACATAAG
65534655 CAGGTCTAGG
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
25 23 0.29
27 56 0.71
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:65534651 original size:52 final size:53
Alignment explanation
Indices: 65534541--65534654 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 53
65534531 AACCATATAT
* * *
65534541 CACATAGGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTA-CACATAAGGGCAAAATAGTCATCTTAC
65534595 CACATAAGGGCAAAACAGTCATTTT-CACATAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTACACATAAGGGCAAAATAGTCATCTTAC
65534647 CACATAAG
1 CACATAAG
65534655 CAGGTCTAGG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 33 0.58
54 24 0.42
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (53 bp):
CACATAAGGGCAAAACAGTCATTTTACACATAAGGGCAAAATAGTCATCTTAC
Found at i:65535666 original size:25 final size:27
Alignment explanation
Indices: 65535554--65535670 Score: 150
Period size: 27 Copynumber: 4.4 Consensus size: 27
65535544 TATAACCATA
*
65535554 TACCACGT-AGGGCCAAAACAGTCATTT
1 TACCACATAAGGG-CAAAACAGTCATTT
*
65535581 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAACAGTCATTT
*
65535608 TATCACATAAGGGCAAAACAGTCATTT
1 TACCACATAAGGGCAAAACAGTCATTT
* *
65535635 T--CACATAAGGGAAAAACAGTCATCT
1 TACCACATAAGGGCAAAACAGTCATTT
*
65535660 TACCATATAAG
1 TACCACATAAG
65535671 CGGGTCTAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
25 23 0.29
27 53 0.66
28 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (27 bp):
TACCACATAAGGGCAAAACAGTCATTT
Found at i:65535670 original size:52 final size:54
Alignment explanation
Indices: 65535554--65535670 Score: 150
Period size: 52 Copynumber: 2.2 Consensus size: 54
65535544 TATAACCATA
* * * *
65535554 TACCACGT-AGGGCCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCCAAAACAGTCATTTTA-CACATAAGGGAAAAACAGTCATCT
*
65535608 TATCACATAAGGG-CAAAACAGTCATTTT-CACATAAGGGAAAAACAGTCATCT
1 TACCACATAAGGGCCAAAACAGTCATTTTACACATAAGGGAAAAACAGTCATCT
*
65535660 TACCATATAAG
1 TACCACATAAG
65535671 CGGGTCTAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 30 0.55
54 21 0.38
55 4 0.07
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (54 bp):
TACCACATAAGGGCCAAAACAGTCATTTTACACATAAGGGAAAAACAGTCATCT
Found at i:65535781 original size:10 final size:10
Alignment explanation
Indices: 65535766--65535801 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
65535756 ATAGGCCTAA
65535766 GGCCCAGGTG
1 GGCCCAGGTG
65535776 GGCCCAGGTG
1 GGCCCAGGTG
65535786 GGCCCAGGTG
1 GGCCCAGGTG
65535796 GGCCCA
1 GGCCCA
65535802 CATGCCTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.11, C:0.33, G:0.47, T:0.08
Consensus pattern (10 bp):
GGCCCAGGTG
Found at i:65536240 original size:27 final size:27
Alignment explanation
Indices: 65536202--65536255 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
65536192 AATGGAGCCT
65536202 AATGGAGTTCCCAAACTAACCATAGTC
1 AATGGAGTTCCCAAACTAACCATAGTC
*
65536229 AATGGAGTTCCCTAACTAACCATAGTC
1 AATGGAGTTCCCAAACTAACCATAGTC
65536256 TCCTTTCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (27 bp):
AATGGAGTTCCCAAACTAACCATAGTC
Found at i:65539132 original size:27 final size:27
Alignment explanation
Indices: 65539102--65539229 Score: 159
Period size: 27 Copynumber: 4.8 Consensus size: 27
65539092 ATCACTTAAA
*
65539102 GGCAAAACAGTCATTTTACCACATAAG
1 GGCAAAATAGTCATTTTACCACATAAG
* * *
65539129 GGCAAAATAGTTATTTTACTATATAAG
1 GGCAAAATAGTCATTTTACCACATAAG
*
65539156 GGCAAAATAGTCATTTTACCATATAAG
1 GGCAAAATAGTCATTTTACCACATAAG
* * *
65539183 GCCAAAATAGTCATTCTATCACAT-AG
1 GGCAAAATAGTCATTTTACCACATAAG
* *
65539209 GGCAAAACAGTCATCTTACCA
1 GGCAAAATAGTCATTTTACCA
65539230 TACAAGGGGG
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 18 0.21
27 68 0.79
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
GGCAAAATAGTCATTTTACCACATAAG
Found at i:65539230 original size:53 final size:54
Alignment explanation
Indices: 65539102--65539236 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 54
65539092 ATCACTTAAA
* * * * *
65539102 GGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTTATTTTACTATATAAG
1 GGCAAAACAGTCATTTTACCATATAAGGCCAAAATAGTCATTCTACTACATAAG
*
65539156 GGCAAAATAGTCATTTTACCATATAAGGCCAAAATAGTCATTCTA-TCACAT-AG
1 GGCAAAACAGTCATTTTACCATATAAGGCCAAAATAGTCATTCTACT-ACATAAG
* *
65539209 GGCAAAACAGTCATCTTACCATACAAGG
1 GGCAAAACAGTCATTTTACCATATAAGG
65539237 GGGTCTAGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
53 28 0.39
54 43 0.61
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (54 bp):
GGCAAAACAGTCATTTTACCATATAAGGCCAAAATAGTCATTCTACTACATAAG
Found at i:65540624 original size:10 final size:12
Alignment explanation
Indices: 65540592--65540620 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
65540582 CCTACGATTT
65540592 TCTCCTCAAATC
1 TCTCCTCAAATC
65540604 TCTCCTCAAATC
1 TCTCCTCAAATC
65540616 TCTCC
1 TCTCC
65540621 AAATGATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (12 bp):
TCTCCTCAAATC
Found at i:65541237 original size:2 final size:2
Alignment explanation
Indices: 65541230--65541260 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
65541220 TAAATTTCTC
65541230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65541261 CACACAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65542124 original size:31 final size:31
Alignment explanation
Indices: 65542041--65542127 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
65542031 CTTGTAACTT
**
65542041 GTAGCCGAAGCTACCACTAATCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
65542072 GTTGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
65542103 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
65542128 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:65542216 original size:50 final size:50
Alignment explanation
Indices: 65542103--65542279 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
65542093 CACTGATCAG
* * * *
65542103 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTTCTTGATCAGATAAGT
*
65542154 GTAGCTGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGT
* * *
65542204 GTAGCCGGAGCTATCACTTATCAGTTTCACTTGTTCTTGATCAGATAATT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGT
* *
65542254 ATAGCTGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
65542280 GTTGCCATGG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 90 0.80
51 23 0.20
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGT
Found at i:65545387 original size:40 final size:40
Alignment explanation
Indices: 65545342--65545547 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
65545332 CGGAATACAA
*
65545342 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
65545382 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
65545422 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
65545462 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
65545502 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
65545542 CCGGAT
1 CCGGAT
65545548 GTCATTCAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:65545482 original size:80 final size:80
Alignment explanation
Indices: 65545342--65545549 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
65545332 CGGAATACAA
* * * * *
65545342 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
65545407 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
65545422 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
65545486 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
65545502 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
65545550 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:65558780 original size:28 final size:28
Alignment explanation
Indices: 65558748--65558846 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
65558738 GCAATAAGCC
*
65558748 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
65558776 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
65558804 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
65558833 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65558847 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:65566451 original size:28 final size:28
Alignment explanation
Indices: 65566419--65566517 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
65566409 GCAATAAGCC
*
65566419 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
65566447 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
65566475 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
65566504 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65566518 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:65571430 original size:40 final size:39
Alignment explanation
Indices: 65571312--65571437 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
65571302 TTCGAATGAT
* *
65571312 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACAAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-AAGT-ACTAA
* * *
65571352 ATCCGGACTAAGATCC-AACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAA-GGCTTTCGTGCAAG-TACTAA
*
65571392 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
65571432 ATCCGG
1 ATCCGG
65571438 GTTGAGTCCC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.03
40 61 0.86
41 8 0.11
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAGTACTAA
Found at i:65575466 original size:53 final size:53
Alignment explanation
Indices: 65575366--65575523 Score: 129
Period size: 53 Copynumber: 2.9 Consensus size: 53
65575356 TTCCTTTTTA
* * *
65575366 AACTGACCATTGCCATGTCTTGACAGGGTCTTACGTGATATCCTTGCCTTATG
1 AACTCACCATTGCCATGTCTTGACAGGGTCTTACATGAGATCCTTGCCTTATG
* * * * *
65575419 AACTCACCATTGCCAT-TCCTTGGCATGGTCTTACATGGGATCTTTGCCTCATCG
1 AACTCACCATTGCCATGT-CTTGACAGGGTCTTACATGAGATCCTTGCCTTAT-G
** * ** * * **
65575473 TAGTTTATAAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT
1 -AACTCACCATTGCCATGTCTTGACAGGGTCTTACATGAGATCCTTGCCTT
65575524 GTAATACTTA
Statistics
Matches: 81, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
52 1 0.01
53 42 0.52
54 1 0.01
55 36 0.44
56 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGTCTTGACAGGGTCTTACATGAGATCCTTGCCTTATG
Found at i:65575521 original size:55 final size:53
Alignment explanation
Indices: 65575376--65575522 Score: 134
Period size: 55 Copynumber: 2.7 Consensus size: 53
65575366 AACTGACCAT
* * * * *
65575376 TGCCATGTCTTGACAGGGTCTTACGTGATATCCTTGCCTTATGAACTCACCAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTCATGAACTCACAAA
* ** * ** * *
65575429 TGCCAT-TCCTTGGCATGGTCTTACATGGGATCTTTGCCTCATCGTAGTTTATAAA
1 TGCCATGT-CTTGACATGGTCTTACATGATATCCTTGCCTCAT-G-AACTCACAAA
*
65575484 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCT
65575523 TGTAATACTT
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
52 1 0.01
53 33 0.46
54 1 0.01
55 36 0.50
56 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTCATGAACTCACAAA
Found at i:65576073 original size:53 final size:53
Alignment explanation
Indices: 65576001--65576106 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
65575991 CTTAATTCTT
* * *
65576001 ATGTTTTATGACATGCTGATCATTTATTTACCTATGGCAACATCAAATTCCCA
1 ATGTTTAATGACATGCTGATCATTTATTTACCTACGACAACATCAAATTCCCA
*
65576054 ATGTTTAATGACATGCTGATCATTTATTTACGTACGACAACATCAAATTCCCA
1 ATGTTTAATGACATGCTGATCATTTATTTACCTACGACAACATCAAATTCCCA
65576107 CTCTAACATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (53 bp):
ATGTTTAATGACATGCTGATCATTTATTTACCTACGACAACATCAAATTCCCA
Found at i:65584434 original size:10 final size:10
Alignment explanation
Indices: 65584382--65584428 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
65584372 CATGAGACTT
65584382 TGATAT-ACA
1 TGATATGACA
65584391 TGATATGACA
1 TGATATGACA
65584401 TGATATGACA
1 TGATATGACA
65584411 TGATATGTACA
1 TGATATG-ACA
65584422 TGATATG
1 TGATATG
65584429 TTATGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:65584532 original size:25 final size:25
Alignment explanation
Indices: 65584494--65584566 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
65584484 GGAAGAAGTG
*
65584494 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTAAC
* * * * *
65584519 CGAGAAGGGCTTTGACCTAGTTAAT
1 CAAAAAGGGCTTTGCCCCAGTTAAC
65584544 CAAAAAGGGCTTTGCCCCAGTTA
1 CAAAAAGGGCTTTGCCCCAGTTA
65584567 TTAAAAGAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTAAC
Found at i:65584578 original size:24 final size:24
Alignment explanation
Indices: 65584546--65584592 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
65584536 TAGTTAATCA
**
65584546 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
65584569 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
65584593 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:65585163 original size:22 final size:22
Alignment explanation
Indices: 65585122--65585163 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
65585112 TATTTTATTC
* *
65585122 TTCTTATAATAACTCTAAATTT
1 TTCTGATAATAACTCAAAATTT
*
65585144 TTCTGATAATAATTCAAAAT
1 TTCTGATAATAACTCAAAAT
65585164 GGGCTAGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (22 bp):
TTCTGATAATAACTCAAAATTT
Found at i:65592754 original size:49 final size:49
Alignment explanation
Indices: 65592627--65592980 Score: 567
Period size: 49 Copynumber: 7.3 Consensus size: 49
65592617 CCCTTCGGGA
* * * * * *
65592627 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65592674 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65592721 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65592770 CTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65592818 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65592867 CTTATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65592915 GTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65592964 CTTATCACATATATATA
1 CTTATCACATATATATA
65592981 TCTCATACAT
Statistics
Matches: 287, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 45 0.16
48 93 0.32
49 148 0.52
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65592820 original size:97 final size:97
Alignment explanation
Indices: 65592627--65592980 Score: 554
Period size: 97 Copynumber: 3.7 Consensus size: 97
65592617 CCCTTCGGGA
* * * * * *
65592627 CTTATCACAT-T-TATACA-CTTCCACATCCATCACTTTGGCCACTCGGCCCTATCACATATATA
1 CTTATCACATATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
65592689 CAC-TTTCACATTCATCACATTGGCCATTAGGC
65 TACATTTCACATTCATCACATCGGCCATTAGGC
*
65592721 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
65592786 ACATTTCACATTCATCACATCGGCCATTAGGC
66 ACATTTCACATTCATCACATCGGCCATTAGGC
*
65592818 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
65592883 ACACTTCACATTCATCACATCGGCCATTAGGC
66 ACATTTCACATTCATCACATCGGCCATTAGGC
* *
65592915 GTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
65592980 A
66 A
65592981 TCTCATACAT
Statistics
Matches: 243, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
94 10 0.04
95 1 0.00
96 42 0.17
97 190 0.78
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (97 bp):
CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACATTTCACATTCATCACATCGGCCATTAGGC
Found at i:65592939 original size:146 final size:147
Alignment explanation
Indices: 65592627--65592980 Score: 576
Period size: 146 Copynumber: 2.4 Consensus size: 147
65592617 CCCTTCGGGA
* * * * * * *
65592627 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGCCCTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
65592688 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCTCATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCAT
65592753 CACATCGGCCATTAGGC
131 CACATCGGCCATTAGGC
65592770 CTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
65592834 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA-CTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCAT
65592898 CACATCGGCCATTAGGC
131 CACATCGGCCATTAGGC
*
65592915 GTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
65592980 A
66 A
65592981 TCTCATACAT
Statistics
Matches: 196, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
143 10 0.05
144 31 0.16
145 52 0.27
146 103 0.53
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (147 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCAT
CACATCGGCCATTAGGC
Found at i:65595550 original size:40 final size:40
Alignment explanation
Indices: 65595496--65595680 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
65595486 CTTGCACAAG
* * *
65595496 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
**
65595536 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
65595576 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
65595616 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
65595657 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65595681 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.02
40 90 0.74
41 26 0.21
42 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:65603732 original size:40 final size:40
Alignment explanation
Indices: 65603642--65603862 Score: 218
Period size: 40 Copynumber: 5.5 Consensus size: 40
65603632 CTCAAGTAAT
* * * *
65603642 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
65603680 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
65603720 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
65603760 CTTCGGGTCTTAGCCCGGATATAG-CGACTCGCACGAATGT
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
65603800 CTTC-GGATCTTAGTCCGGTTATAATCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
65603841 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
65603863 CATTCGAATA
Statistics
Matches: 149, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 91 0.61
41 26 0.17
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65607295 original size:46 final size:46
Alignment explanation
Indices: 65607242--65607378 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
65607232 TATATATACA
* * *
65607242 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
65607288 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
65607334 TATCTCATACACATTTCTCATTAGCCATTCGGCCTTATCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
65607379 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:65607412 original size:47 final size:47
Alignment explanation
Indices: 65607352--65607738 Score: 513
Period size: 47 Copynumber: 8.1 Consensus size: 47
65607342 ACACATTTCT
*
65607352 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
65607399 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
65607446 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
65607493 CATTGGCCATTCGGCCTTATCCCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
65607540 CATTGGCCATTCGGTCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
** * *
65607591 CATTTTCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
65607638 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * **
65607689 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
65607736 CAT
1 CAT
65607739 AAAATCCTAA
Statistics
Matches: 304, Mismatches: 28, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
47 217 0.71
49 10 0.03
51 77 0.25
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:65607542 original size:23 final size:23
Alignment explanation
Indices: 65607468--65607542 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
65607458 GGCCTTATCA
65607468 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
65607491 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
65607513 CCCACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
65607538 CACAT
1 CACAT
65607543 TGGCCATTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:65607625 original size:98 final size:96
Alignment explanation
Indices: 65607352--65607738 Score: 557
Period size: 98 Copynumber: 4.0 Consensus size: 96
65607342 ACACATTTCT
* *
65607352 CATTAGCCATTCGGCCTTAT--CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
*
65607415 TTATCTCATATATGCATGTTCACATTCATCA
66 TTATCTCACATATGCATGTTCACATTCATCA
** *
65607446 CATTGGCCATTCGGCCTTATCACAC--ATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
* *
65607509 TTATCCCACATACGCATGTTCACATTCATCA
66 TTATCTCACATATGCATGTTCACATTCATCA
* **
65607540 CATTGGCCATTCGGTCTTATCACACATATATATACAGGTTCACATTCATCACATTTTCCATTCGG
1 CATTGGCCATTCGGCCTTATCACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
65607605 CCTTATCACACATATGCATGTTCACATTCATCA
64 CCTTATCTCACATATGCATGTTCACATTCATCA
*
65607638 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * **
65607703 CCTTATCTCATATATACACATTCACATTCATCA
64 CCTTATCTCACATATGCATGTTCACATTCATCA
65607736 CAT
1 CAT
65607739 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
94 107 0.40
96 3 0.01
98 156 0.59
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
TTATCTCACATATGCATGTTCACATTCATCA
Found at i:65613301 original size:10 final size:10
Alignment explanation
Indices: 65613249--65613295 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
65613239 CATGGGATTT
65613249 TGATAT-ACA
1 TGATATGACA
65613258 TGATATGACA
1 TGATATGACA
65613268 TGATATGACA
1 TGATATGACA
65613278 TGATATGTACA
1 TGATATG-ACA
65613289 TGATATG
1 TGATATG
65613296 TTATGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:65613397 original size:25 final size:25
Alignment explanation
Indices: 65613361--65613433 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
65613351 GAAGGAAGTG
*
65613361 CAAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAAGGGCTTTGCCCTAGTTAAC
* * *
65613386 CGAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCTAGTTAAC
65613411 CAAAAAGGGCTTTGCCCTAGTTA
1 CAAAAAGGGCTTTGCCCTAGTTA
65613434 TTAAAAGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCTAGTTAAC
Found at i:65613445 original size:24 final size:23
Alignment explanation
Indices: 65613363--65613445 Score: 94
Period size: 25 Copynumber: 3.4 Consensus size: 23
65613353 AGGAAGTGCA
*
65613363 AAAAGGGCTTTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCTAG-TTATC
*
65613387 GAAAAGGGCTTTGCCCCAGTTAATC
1 -AAAAGGGCTTTGCCCTAGTT-ATC
*
65613412 AAAAAGGGCTTTGCCCTAGTTATT
1 -AAAAGGGCTTTGCCCTAGTTATC
65613436 AAAAGAGGCT
1 AAAAG-GGCT
65613446 AAGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 38 0.75
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCTAGTTATC
Found at i:65613456 original size:50 final size:50
Alignment explanation
Indices: 65613361--65613458 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
65613351 GAAGGAAGTG
**
65613361 CAAAAAGGGCTTTGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCTAGTTTACCGAAAAGGGCTAAGCCCCAGTTAAT
**
65613411 CAAAAAGGGCTTTGCCCTAG-TTA-TTAAAAGAGGCTAAGCCTCCAGTTA
1 CAAAAAGGGCTTTGCCCTAGTTTACCGAAAAG-GGCTAAGCC-CCAGTTA
65613459 TATGATAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 5 0.12
49 10 0.24
50 27 0.64
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
CAAAAAGGGCTTTGCCCTAGTTTACCGAAAAGGGCTAAGCCCCAGTTAAT
Found at i:65615063 original size:53 final size:51
Alignment explanation
Indices: 65614854--65615063 Score: 170
Period size: 53 Copynumber: 4.0 Consensus size: 51
65614844 ACCTTTCCTT
* * * *
65614854 TTTAAACTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTTGC
1 TTTAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGC
* * * * * *
65614905 CTTACGAACTCACCATTGCCATTCCTTGGCATGGTCTTACATGGGATCTTTGCC
1 TTTA--AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG-C
** ** * * *
65614959 TTATAGCAGTTTGTCAATGCCATGTC-TGGACATGGTCTTACATGATTTCCTTGC
1 TT-TA--AACTTACCAATGCCATGCCTTGG-CATGGTCTTACATGGTATCCTTGC
*
65615013 TTGTAATACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TT-TAA-ACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
65615064 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
51 3 0.03
52 1 0.01
53 71 0.59
54 13 0.11
55 32 0.27
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (51 bp):
TTTAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGC
Found at i:65618247 original size:25 final size:25
Alignment explanation
Indices: 65618219--65618266 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65618209 GTTCCAACCC
* *
65618219 ATAGTTTGTGTGAGCATAACGATTT
1 ATAGCTTGTGAGAGCATAACGATTT
*
65618244 ATAGCTTGTGAGAGCATACCGAT
1 ATAGCTTGTGAGAGCATAACGAT
65618267 CAACATTTTG
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:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (25 bp):
ATAGCTTGTGAGAGCATAACGATTT
Found at i:65623032 original size:37 final size:37
Alignment explanation
Indices: 65622979--65623100 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
65622969 TTATTACGAA
*
65622979 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
65623016 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
65623053 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
65623090 GTCTCACCCGG
1 GTCTTACCCGG
65623101 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:65623257 original size:49 final size:49
Alignment explanation
Indices: 65623202--65623421 Score: 354
Period size: 49 Copynumber: 4.5 Consensus size: 49
65623192 TTTTACATTA
65623202 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65623251 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65623300 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* * * *
65623349 GCCATTAGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
65623396 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
65623422 GTATATCATA
Statistics
Matches: 161, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 41 0.25
49 120 0.75
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:65626995 original size:54 final size:54
Alignment explanation
Indices: 65626912--65627254 Score: 293
Period size: 54 Copynumber: 6.4 Consensus size: 54
65626902 TTAGTTTACC
* * * * *
65626912 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * *
65626966 AAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
*
65627020 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * ** * *
65627074 AAATTACTAAAATACCC-TCGACCTGTAAAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCCT-GATTTGTA
* * * *** * **
65627128 AAATTACCAAAGTACCC-TCGATT-TACAGAATTACCATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTAGTTTGTA-A-AATTACCAAAATACCCCTGATTTGTA
* ** * * **
65627182 AAATTACAAAAATACCCTT-GTAAGGTAGAATTACCGAAATACCCCT-ATAGGGTA
1 AAATTACCAAAATACCCTTAGT-TTGTAAAATTACCAAAATACCCCTGAT-TTGTA
* *
65627236 GAATTACCGAAATACCCTT
1 AAATTACCAAAATACCCTT
65627255 GTAGGCTAGA
Statistics
Matches: 233, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
52 2 0.01
53 10 0.04
54 215 0.92
55 4 0.02
56 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
Found at i:65627200 original size:27 final size:27
Alignment explanation
Indices: 65626912--65627201 Score: 296
Period size: 27 Copynumber: 10.7 Consensus size: 27
65626902 TTAGTTTACC
* *
65626912 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
65626939 AAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
65626966 AAATTACTAAAATACCCTT-AGTTTATA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
65626993 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
65627020 AAATTACCAAAATACCCTT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
65627047 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
65627074 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
65627101 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
65627128 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* *** **
65627155 GAATTACCATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
*
65627182 AAATTACAAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
65627202 TAAGGTAGAA
Statistics
Matches: 224, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
27 223 1.00
28 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:65627213 original size:27 final size:27
Alignment explanation
Indices: 65627191--65627306 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
65627181 AAAATTACAA
*
65627191 AAATACCCTTGTAAGG-TAGAATTACCG
1 AAATACCCCTGT-AGGATAGAATTACCG
* *
65627218 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGATAGAATTACCG
* * *
65627245 AAATACCCTTGTAGGCTAGAAATACCG
1 AAATACCCCTGTAGGATAGAATTACCG
*
65627272 AAATACCCCTGTAGGATAGAACTACCG
1 AAATACCCCTGTAGGATAGAATTACCG
*
65627299 AGATACCC
1 AAATACCC
65627307 TTGCGGGGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (27 bp):
AAATACCCCTGTAGGATAGAATTACCG
Found at i:65627255 original size:54 final size:54
Alignment explanation
Indices: 65627191--65627309 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
65627181 AAAATTACAA
* * *
65627191 AAATACCCTTGTAAGG-TAGAATTACCGAAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCTTGT-AGGCTAGAAATACCGAAATACCCCTATAGGATAGAACTACCG
*
65627245 AAATACCCTTGTAGGCTAGAAATACCGAAATACCCCTGTAGGATAGAACTACCG
1 AAATACCCTTGTAGGCTAGAAATACCGAAATACCCCTATAGGATAGAACTACCG
*
65627299 AGATACCCTTG
1 AAATACCCTTG
65627310 CGGGGTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 3 0.05
54 56 0.95
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (54 bp):
AAATACCCTTGTAGGCTAGAAATACCGAAATACCCCTATAGGATAGAACTACCG
Found at i:65627324 original size:27 final size:27
Alignment explanation
Indices: 65627181--65627324 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
65627171 CTTGATTTAC
** *
65627181 AAAATTACAAAAATACCCTTGTAAGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* * *
65627208 AGAATTACCGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* *
65627235 AGAATTACCGAAATACCCTTGTAGGCT
1 AAAATTACCGAAATACCCTTGTAGGGT
* *
65627262 AGAAA-TACCGAAATACCCCTGTAGGAT
1 A-AAATTACCGAAATACCCTTGTAGGGT
* * * **
65627289 AGAACTACCGAGATACCCTTGCGGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
65627316 AAAATTACC
1 AAAATTACC
65627325 ATTTTGCCCC
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 91 0.96
28 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGGGT
Found at i:65627750 original size:6 final size:6
Alignment explanation
Indices: 65627719--65627781 Score: 76
Period size: 6 Copynumber: 10.3 Consensus size: 6
65627709 TTGCATTCAC
*
65627719 ATTCTG ATTTTG ATTCTG -TTACCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
65627768 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
65627782 AATGTTTCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
5 3 0.06
6 41 0.82
7 4 0.08
8 2 0.04
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:65629777 original size:27 final size:27
Alignment explanation
Indices: 65629747--65629980 Score: 297
Period size: 27 Copynumber: 8.7 Consensus size: 27
65629737 TTAGTTTTCC
65629747 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
65629774 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
65629801 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
65629828 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
65629855 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
65629882 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * ***
65629909 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * **
65629936 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
65629963 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
65629981 CGATTTACAG
Statistics
Matches: 186, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:65630048 original size:27 final size:27
Alignment explanation
Indices: 65630018--65630158 Score: 124
Period size: 27 Copynumber: 5.2 Consensus size: 27
65630008 TGATTTACAA
*
65630018 AATTACAGAAATACCCTTGTAAGGTAG
1 AATTACAGAAATACCCTTGTAGGGTAG
* *
65630045 AATTATC-GAAATACCCCTATAGGGTAG
1 AATTA-CAGAAATACCCTTGTAGGGTAG
*
65630072 AATTACCA-AAATACCTTTGTAGGGTAG
1 AATTA-CAGAAATACCCTTGTAGGGTAG
* * * *
65630099 AAATACTGAAATACCCCTGTATGGTAG
1 AATTACAGAAATACCCTTGTAGGGTAG
** * ** *
65630126 AATTATTGAGATACCCTTGCGGGGTAA
1 AATTACAGAAATACCCTTGTAGGGTAG
65630153 AATTAC
1 AATTAC
65630159 CATTTTGCCC
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.01
27 88 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGTAGGGTAG
Found at i:65630076 original size:54 final size:54
Alignment explanation
Indices: 65630018--65630144 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
65630008 TGATTTACAA
*
65630018 AATTACAGAAATACCCTTGTAAGGTAGAATTA-TCGAAATACCCCTATAGGGTAG
1 AATTACAGAAATACCCTTGTAAGGTAGAAATACT-GAAATACCCCTATAGGGTAG
* * * *
65630072 AATTACCA-AAATACCTTTGTAGGGTAGAAATACTGAAATACCCCTGTATGGTAG
1 AATTA-CAGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTATAGGGTAG
** *
65630126 AATTATTGAGATACCCTTG
1 AATTACAGAAATACCCTTG
65630145 CGGGGTAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 58 0.95
55 3 0.05
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (54 bp):
AATTACAGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTATAGGGTAG
Found at i:65632849 original size:34 final size:34
Alignment explanation
Indices: 65632804--65632914 Score: 150
Period size: 34 Copynumber: 3.3 Consensus size: 34
65632794 GAAGTACATA
*
65632804 AATATATATGTATGGCTTGGCATAATCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
* * * *
65632838 ATTATATATGTATAGCTTGGTATAATTGAAAGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
* * *
65632872 AATATATATGTATGGTTTGATATAACCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
65632906 AATATATAT
1 AATATATAT
65632915 ATATACATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (34 bp):
AATATATATGTATGGCTTGGTATAATCGAAGGTG
Found at i:65634330 original size:43 final size:43
Alignment explanation
Indices: 65634216--65634331 Score: 114
Period size: 43 Copynumber: 2.7 Consensus size: 43
65634206 TACAATGCCA
* * * *
65634216 ACGTCCCAGACGTGGTCTTACATGT-AATCAATTATCGATGCC
1 ACGTCCTAGACGTGGTCTTACACGTAAATCAAGTATCGATACC
* *
65634258 ACTATCCTAGACAG-GGTCTTACAC-AAAATCAAGTAT-GATACC
1 AC-GTCCTAGAC-GTGGTCTTACACGTAAATCAAGTATCGATACC
*
65634300 TACGTCCTATACGTGGTCTTACACGTAAATCA
1 -ACGTCCTAGACGTGGTCTTACACGTAAATCA
65634332 TAAGTCGATG
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 33 0.56
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ACGTCCTAGACGTGGTCTTACACGTAAATCAAGTATCGATACC
Found at i:65635345 original size:20 final size:20
Alignment explanation
Indices: 65635330--65635372 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
65635320 ATTAACTATG
65635330 TAAATGGCATATTAACCACA
1 TAAATGGCATATTAACCACA
65635350 TAAATGGCATATTAACCACA
1 TAAATGGCATATTAACCACA
65635370 TAA
1 TAA
65635373 GGACCTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (20 bp):
TAAATGGCATATTAACCACA
Found at i:65642941 original size:79 final size:81
Alignment explanation
Indices: 65642840--65643024 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
65642830 ACGACTCGCT
** * *
65642840 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
65642903 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
65642920 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
65642984 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
65643000 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65643025 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:65643024 original size:40 final size:39
Alignment explanation
Indices: 65642833--65643024 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
65642823 GGATATAACG
* ** * *
65642833 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
65642873 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
65642913 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
65642952 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
65642992 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
65643025 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:65650961 original size:79 final size:81
Alignment explanation
Indices: 65650860--65651044 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
65650850 ACGACTCGCT
** * *
65650860 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
65650923 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
65650940 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
65651004 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
65651020 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65651045 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:65651044 original size:40 final size:39
Alignment explanation
Indices: 65650853--65651044 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
65650843 GGATATAACG
* ** * *
65650853 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
65650893 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
65650933 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
65650972 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
65651012 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
65651045 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:65653920 original size:40 final size:40
Alignment explanation
Indices: 65653721--65653926 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 40
65653711 ATTGAATGAC
* * ** **
65653721 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTGGTTAT
* * ** *
65653761 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTAT
* * * *
65653801 ATTCGGGCTAAGACCCGAAGCCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
* * * *
65653841 ATCCGGGCTAACACCCGAAGGCATTTGTGCAACTCGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
* *
65653881 TTCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
65653921 ATCCGG
1 ATCCGG
65653927 TTGTATTCCG
Statistics
Matches: 133, Mismatches: 30, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
39 4 0.03
40 126 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAT
Found at i:65667674 original size:40 final size:40
Alignment explanation
Indices: 65667629--65667758 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
65667619 CGGAATATAA
65667629 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
65667669 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65667709 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
65667749 CCGGATATAA
1 CCGGATATAA
65667759 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65667773 original size:40 final size:40
Alignment explanation
Indices: 65667645--65667795 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
65667635 ATAACCACGT
* * *
65667645 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
65667685 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
65667725 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
65667765 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
65667796 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:65667779 original size:80 final size:79
Alignment explanation
Indices: 65667645--65667793 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
65667635 ATAACCACGT
* *
65667645 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
65667710 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
65667725 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
65667788 CCGGAT
64 CCGGAT
65667794 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:65674307 original size:40 final size:40
Alignment explanation
Indices: 65674252--65674332 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
65674242 ATCACGGTAG
65674252 TCCTAGAATCGACTAAACCGTGGCTCTGATACCAATAAAA
1 TCCTAGAATCGACTAAACCGTGGCTCTGATACCAATAAAA
65674292 TCCTAGAATCGACTAAACCGTGGCTCTGATACCAATAAAA
1 TCCTAGAATCGACTAAACCGTGGCTCTGATACCAATAAAA
65674332 T
1 T
65674333 TGTAACACCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (40 bp):
TCCTAGAATCGACTAAACCGTGGCTCTGATACCAATAAAA
Found at i:65675733 original size:40 final size:39
Alignment explanation
Indices: 65675688--65675817 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
65675678 CGGAATATAA
65675688 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
65675728 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65675768 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
65675808 CCGGATATAA
1 CCGGATATAA
65675818 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:65675832 original size:40 final size:40
Alignment explanation
Indices: 65675704--65675855 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
65675694 ATAACCATGT
* * *
65675704 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
65675744 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
65675784 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
65675824 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
65675856 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:65675838 original size:80 final size:80
Alignment explanation
Indices: 65675704--65675853 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
65675694 ATAACCATGT
*
65675704 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
65675768 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
65675784 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
65675847 CCCGGAT
64 CCCGGAT
65675854 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:65681487 original size:25 final size:25
Alignment explanation
Indices: 65681459--65681511 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
65681449 CTCAACCAAC
65681459 CAATTCAAAGTCCA-TTCAAACACCT
1 CAATT-AAAGTCCACTTCAAACACCT
** *
65681484 CAATTTTAGTCCACTTCAAACACTT
1 CAATTAAAGTCCACTTCAAACACCT
65681509 CAA
1 CAA
65681512 ACACCTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (25 bp):
CAATTAAAGTCCACTTCAAACACCT
Found at i:65689115 original size:16 final size:16
Alignment explanation
Indices: 65689096--65689126 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65689086 CTTCTTCACT
65689096 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
65689112 TACTTACTTACTTAA
1 TACTCACTTACTTAA
65689127 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:65689132 original size:20 final size:20
Alignment explanation
Indices: 65689093--65689132 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65689083 AAACTTCTTC
* *
65689093 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
65689113 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
65689133 TTATTAGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:65689508 original size:55 final size:53
Alignment explanation
Indices: 65689318--65689572 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
65689308 ACGCGGGTAC
* * * *
65689318 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* **
65689367 CTTACCATTGCCATGTGTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * * *
65689420 CTAACCAATGCCATGCCTTGGCTTGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
65689475 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
65689528 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
65689573 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 45 0.27
54 14 0.08
55 71 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:65689509 original size:108 final size:110
Alignment explanation
Indices: 65689365--65689565 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
65689355 ATCCTTTTGA
* * *
65689365 AACTTACCATTGCCATGTGTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTAACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTAACCAA
*
65689428 -TGCCATGCCTTGGCTTGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
65689473 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTAACCAAT
65689538 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
65689566 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTAACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:65690820 original size:21 final size:21
Alignment explanation
Indices: 65690794--65690843 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
65690784 AGCAACACGA
65690794 GCGTGTCCCAGGGTCACATGG
1 GCGTGTCCCAGGGTCACATGG
*
65690815 GCGTGTCACAGGGTCACATGG
1 GCGTGTCCCAGGGTCACATGG
*
65690836 GCATGTCC
1 GCGTGTCC
65690844 GTTGGACCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.20
Consensus pattern (21 bp):
GCGTGTCCCAGGGTCACATGG
Found at i:65695200 original size:40 final size:39
Alignment explanation
Indices: 65695138--65695377 Score: 220
Period size: 40 Copynumber: 6.1 Consensus size: 39
65695128 CGGATGATAA
* * *
65695138 CCGGGCTAAGTCCAG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGT-ACTATA-T
* *
65695178 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATAT
* *
65695218 CCGGGCTAAGTGCC-AAGGCATTCGTA-CGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTG-AGCGAG-TACTATAT
* * *
65695257 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATAT
* * *
65695296 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATAT
* **
65695336 CCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTA-CTATAT
65695376 CC
1 CC
65695378 AGTTAAATTC
Statistics
Matches: 170, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
39 74 0.44
40 92 0.54
41 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTACTATAT
Found at i:65695248 original size:39 final size:40
Alignment explanation
Indices: 65695177--65695358 Score: 251
Period size: 39 Copynumber: 4.6 Consensus size: 40
65695167 AGTGGCTAAT
65695177 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
* *
65695217 TCCGGGCTAAGTGCC-AAGGCATTCGTACGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
* * * *
65695256 TCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
* * *
65695296 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
* *
65695335 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65695359 TGAATGAGTA
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 73 0.57
40 55 0.43
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
Found at i:65695270 original size:79 final size:79
Alignment explanation
Indices: 65695177--65695358 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 79
65695167 AGTGGCTAAT
*
65695177 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTGCC-AAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA-CCGGGCTAAGTCCCGAAGGCATTC
*
65695241 GTACGAGCTACTATA
65 GTACAAGCTACTATA
* * * * *
65695256 TCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATACCGGGCTAAGTCCCGAAGGCATTCG
* *
65695321 TGCAAGTTACTATA
66 TACAAGCTACTATA
* *
65695335 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65695359 TGAATGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 13 0.14
79 77 0.86
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATACCGGGCTAAGTCCCGAAGGCATTCG
TACAAGCTACTATA
Found at i:65706336 original size:16 final size:16
Alignment explanation
Indices: 65706315--65706361 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
65706305 AACTCGAATT
65706315 CACATAATCACATATA
1 CACATAATCACATATA
*
65706331 CACATAATCTCATGA-A
1 CACATAATCACAT-ATA
*
65706347 CTCATAATCACATAT
1 CACATAATCACATAT
65706362 TTGCAAGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (16 bp):
CACATAATCACATATA
Found at i:65708961 original size:79 final size:78
Alignment explanation
Indices: 65708838--65708989 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 78
65708828 GTGCGAATTG
* *
65708838 TGATATCCGGGCTAAGCCCGAAGGCAATGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 TGATATCCGGGATAAACCCGAAGGCAATGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCA
65708902 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
*
65708915 TGATATCCGGGATAAACTCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAA-TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
*
65708980 CATTTGTGCG
64 CAATTGTGCG
65708990 GGTTATCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
77 15 0.22
78 10 0.15
79 26 0.38
80 17 0.25
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGATAAACCCGAAGGCAATGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGCTA
Found at i:65709014 original size:40 final size:39
Alignment explanation
Indices: 65708827--65709019 Score: 235
Period size: 40 Copynumber: 4.9 Consensus size: 39
65708817 TGTGTATGAA
* *
65708827 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAA-
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
65708865 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
65708904 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGC-CCGAAGGCAAT
* * *
65708944 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * *
65708984 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
65709020 TGTTTGAACA
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 37 0.27
39 24 0.18
40 74 0.54
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:65716859 original size:39 final size:39
Alignment explanation
Indices: 65716797--65716990 Score: 217
Period size: 40 Copynumber: 4.9 Consensus size: 39
65716787 TGTGTATGAA
* *
65716797 TGTGCGAATTGTGATATCCGGGCTAAGCTCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
65716836 TGTTCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * * *
65716875 TGTGCGAGCTATGATATCCGGGATAAACTCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* * *
65716915 TGTGCGAGTTGTGATATCTGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
65716955 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
65716991 TGTTTGAACA
Statistics
Matches: 130, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 59 0.45
40 70 0.54
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:65716917 original size:40 final size:40
Alignment explanation
Indices: 65716797--65716979 Score: 210
Period size: 39 Copynumber: 4.6 Consensus size: 40
65716787 TGTGTATGAA
*
65716797 TGTGCGAATTGTGATATCCGGGCTAAGCT-CGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCTCCGAAGGCAAT
*
65716836 TGTTCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCTCCGAAGGCAAT
* * * * *
65716875 TGTGCGAGCTATGATATCCGGGATAAACTCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCTCCGAAGGCAAT
* * *
65716915 TGTGCGAGTTGTGATATCTGGGTTAAG-TCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCT-CCGAAGGCAAT
* * * *
65716955 TGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAGTTGTGATATCCGGGCTA
65716980 TGTCCCGAAG
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 60 0.50
40 60 0.50
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (40 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCTCCGAAGGCAAT
Found at i:65716927 original size:79 final size:79
Alignment explanation
Indices: 65716808--65716960 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 79
65716798 GTGCGAATTG
* * * *
65716808 TGATATCCGGGCTAAGCTCGAAGGCAATTGTTCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGATAAACTCAAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
65716872 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
65716886 TGATATCCGGGATAAACTCCAAAGGCAATTGTGCGAGTTGTGATATCTGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAACT-CAAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
*
65716951 CATTTGTGCG
65 CAATTGTGCG
65716961 GGTTATCATA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 16 0.24
79 33 0.50
80 17 0.26
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (79 bp):
TGATATCCGGGATAAACTCAAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:65720648 original size:40 final size:40
Alignment explanation
Indices: 65720603--65720732 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
65720593 CGGAATATAA
*
65720603 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* *** * *
65720643 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
65720683 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
65720723 CCGGATATAA
1 CCGGATATAA
65720733 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:65720747 original size:40 final size:40
Alignment explanation
Indices: 65720619--65720770 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
65720609 ATAACCACGT
* * * *
65720619 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTC-CA
* ** * *
65720659 GCACGAA-TGCCTTCGGGTCTTAACCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
*
65720699 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
* * * *
65720739 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
65720771 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCTCCA
Done.