Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 44 of 187
Found at i:13476154 original size:64 final size:64
Alignment explanation
Indices: 13476079--13476222 Score: 243
Period size: 64 Copynumber: 2.2 Consensus size: 64
13476069 ATATACATCA
13476079 CCGAATTGAATTGTATAGATATACACCTATTGCCGAATTGAAATGTATATATATACTTATATTG
1 CCGAATTGAATTGTATAGATATACACCTATTGCCGAATTGAAATGTATATATATACTTATATTG
* * * * *
13476143 TCGAATTGAATTGTATAGGTATGCACCTATTGCCGAATTGAATTGTATATGTATACTTATATTG
1 CCGAATTGAATTGTATAGATATACACCTATTGCCGAATTGAAATGTATATATATACTTATATTG
13476207 CCGAATTGAATTGTAT
1 CCGAATTGAATTGTAT
13476223 TTGTATATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (64 bp):
CCGAATTGAATTGTATAGATATACACCTATTGCCGAATTGAAATGTATATATATACTTATATTG
Found at i:13476228 original size:32 final size:32
Alignment explanation
Indices: 13476079--13476239 Score: 182
Period size: 32 Copynumber: 5.0 Consensus size: 32
13476069 ATATACATCA
***
13476079 CCGAATTGAATTGTATA-GATATACACCTATTG
1 CCGAATTGAATTGTATATG-TATACTTATATTG
* *
13476111 CCGAATTGAAATGTATATATATACTTATATTG
1 CCGAATTGAATTGTATATGTATACTTATATTG
* * * ***
13476143 TCGAATTGAATTGTATAGGTATGCACCTATTG
1 CCGAATTGAATTGTATATGTATACTTATATTG
13476175 CCGAATTGAATTGTATATGTATACTTATATTG
1 CCGAATTGAATTGTATATGTATACTTATATTG
*
13476207 CCGAATTGAATTGTATTTGTATA-TATATATTG
1 CCGAATTGAATTGTATATGTATACT-TATATTG
13476239 C
1 C
13476240 TGATTTGATT
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
31 1 0.01
32 106 0.99
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (32 bp):
CCGAATTGAATTGTATATGTATACTTATATTG
Found at i:13476238 original size:64 final size:64
Alignment explanation
Indices: 13476079--13476239 Score: 202
Period size: 64 Copynumber: 2.5 Consensus size: 64
13476069 ATATACATCA
13476079 CCGAATTGAATTGTA-TAG-ATATACACCTATTGCCGAATTGAAATGTATATATATACTTATATT
1 CCGAATTGAATTGTATTAGTATATACA--TATTGCCGAATTGAAATGTATATATATACTTATATT
13476142 G
64 G
* ** * * *
13476143 TCGAATTGAATTGTA-TAGGTATGCACCTATTGCCGAATTGAATTGTATATGTATACTTATATTG
1 CCGAATTGAATTGTATTA-GTATATACATATTGCCGAATTGAAATGTATATATATACTTATATTG
* *
13476207 CCGAATTGAATTGTATTTGTATATATATATTGC
1 CCGAATTGAATTGTATTAGTATATACATATTGC
13476240 TGATTTGATT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 76 0.93
65 2 0.02
66 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (64 bp):
CCGAATTGAATTGTATTAGTATATACATATTGCCGAATTGAAATGTATATATATACTTATATTG
Found at i:13476411 original size:41 final size:41
Alignment explanation
Indices: 13476366--13476492 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 41
13476356 ATTTTCGAGG
* *
13476366 AGTGATTTCGTGGAAGACCATGTCTAGGACATTGGCATCGA-
1 AGTGA-TTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
** * *
13476407 AGTGAGAAAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 AGT--G-ATTCGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
* * *
13476452 A-TGATTCGTATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 AGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
13476492 A
1 A
13476493 TATGTTAACA
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
40 3 0.04
41 31 0.46
42 1 0.01
43 29 0.43
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (41 bp):
AGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:13482244 original size:45 final size:45
Alignment explanation
Indices: 13482180--13482266 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
13482170 CCCAACCAGT
*
13482180 ATCTCAAACGGATCGATTTCTATTCTCTTCTTATTTTAGTTTGGC
1 ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTTGGC
13482225 ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTT
1 ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTT
13482267 AATTTGTGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (45 bp):
ATCTCAAACGGATCGATTTCTATTCTCCTCTTATTTTAGTTTGGC
Found at i:13484748 original size:48 final size:48
Alignment explanation
Indices: 13484651--13484750 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 48
13484641 TGATATACTT
* * *
13484651 TAAAAGTTCAATTTTTACCTTTTCCTAAAATTATTTGCAGTTTATTTC
1 TAAAAGTTCAATTTTTACCTATTACTAAAATTATTTGCAGTTTAGTTC
* ** * *
13484699 TAAAATTTCAATTTTTTGCTATTACTAAAATTGTTTAGGA-TTTAGTTC
1 TAAAAGTTCAATTTTTACCTATTACTAAAATTATTT-GCAGTTTAGTTC
13484747 TAAA
1 TAAA
13484751 TCAACAGTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (48 bp):
TAAAAGTTCAATTTTTACCTATTACTAAAATTATTTGCAGTTTAGTTC
Found at i:13489719 original size:22 final size:21
Alignment explanation
Indices: 13489694--13489738 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
13489684 TTTTGCGCAA
* *
13489694 TTTAATTTTTCTTTTATGTTCT
1 TTTAAATTTCCTTTT-TGTTCT
*
13489716 TTTAAATTTCCTTTTTTTTCT
1 TTTAAATTTCCTTTTTGTTCT
13489737 TT
1 TT
13489739 ATTTTCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTAAATTTCCTTTTTGTTCT
Found at i:13490908 original size:18 final size:17
Alignment explanation
Indices: 13490866--13490897 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13490856 TCTTTTCCTT
13490866 TTCTATTTCTTGTTCTC
1 TTCTATTTCTTGTTCTC
13490883 TTCTATTT-TTGTTCT
1 TTCTATTTCTTGTTCT
13490898 TTACTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.69
Consensus pattern (17 bp):
TTCTATTTCTTGTTCTC
Found at i:13492870 original size:12 final size:12
Alignment explanation
Indices: 13492853--13492886 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
13492843 GAAAAGAAAC
13492853 CCTAGCGCCACA
1 CCTAGCGCCACA
13492865 CCTAGCGCCACA
1 CCTAGCGCCACA
13492877 CCTAGGCGCC
1 CCTA-GCGCC
13492887 GCCCCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.09
Consensus pattern (12 bp):
CCTAGCGCCACA
Found at i:13493871 original size:3 final size:3
Alignment explanation
Indices: 13493863--13493917 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
13493853 TAATGTTACC
* *
13493863 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13493911 ATT ATT A
1 ATT ATT A
13493918 CATTTAATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13506239 original size:218 final size:218
Alignment explanation
Indices: 13505846--13506436 Score: 1011
Period size: 218 Copynumber: 2.7 Consensus size: 218
13505836 AATGAATATT
* * * *
13505846 AGAGATCTTACCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTAAAGT
1 AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* * *
13505911 TACAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATCGCATC
66 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
13505976 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
131 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
13506041 TTACAGTGAAGCAGATTGAAGCC
196 TTACAGTGAAGCAGATTGAAGCC
* *
13506064 AGATATCTTATCTCTCTGAGATTACAGCAGAGCATATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
13506129 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
66 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
* *
13506194 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGG
131 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
*
13506259 TTACAGTGGAGCAGATTGAAGCC
196 TTACAGTGAAGCAGATTGAAGCC
* *
13506282 AGAGATCTTATCTCTTTGAGATTATAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* * *
13506347 TACAGTGAAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATC
66 TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
* *
13506412 AGATCTTATCTCCCTGAGATTACAG
131 AGGTCTTATCTCCCTGAGGTTACAG
13506437 CAGAGCAGAT
Statistics
Matches: 352, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
218 352 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (218 bp):
AGAGATCTTATCTCTCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
TACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATC
AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
TTACAGTGAAGCAGATTGAAGCC
Found at i:13506249 original size:46 final size:44
Alignment explanation
Indices: 13505848--13506534 Score: 296
Period size: 44 Copynumber: 15.8 Consensus size: 44
13505838 TGAATATTAG
* * *
13505848 AGATCTTACCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * *
13505890 ACTATCCTATCTCCCTAAAGTTACAGTGGAGCAGAT-TAA-AATAAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT--C
* * * ** * *
13505935 AGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATC---GCATC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* ** *
13505976 AGGTCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TC
* * *
13506022 AGATCTTATCTCCCTGAGGTTACAGTGAAGCAGATTGAAG--CC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * ** *
13506064 AGATATCTTATCTCTCTGAGATTACAGCAGAGCATATCGAAG-A-C
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * *
13506108 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-C
* * * * * *
13506152 ATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * *
13506194 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TC
* * * *
13506240 AGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AATC
** * * **
13506284 AGATCTTATCTCTTTGAGATTATAGCAGAGCAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * * *
13506326 ACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-C
* * * * *
13506370 ATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GTATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* ** *
13506412 AGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAG-AT-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
** ** *
13506454 AGTAATCTTATCTCCCTGATATTACAGCAGAGCAGATTGAAG-AT-
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * **
13506498 AGTAATCCTATCTCCTTGAAATTACAGTGGAGCAGAT
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGAT
13506535 TAAGGGATCT
Statistics
Matches: 488, Mismatches: 119, Indels: 74
0.72 0.17 0.11
Matches are distributed among these distances:
41 86 0.18
42 19 0.04
43 83 0.17
44 225 0.46
45 1 0.00
46 73 0.15
47 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
Found at i:13506596 original size:168 final size:169
Alignment explanation
Indices: 13506238--13506596 Score: 454
Period size: 172 Copynumber: 2.1 Consensus size: 169
13506228 CCGAAGAATT
* * ** * **
13506238 TCAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGA
* * *
13506303 TTATAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAAT
66 TTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAATTACAGTGAAGCAGATT---AT
*
13506368 AAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
128 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* *
13506410 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGATAGTA-ATCTTATCTCCCTGAT
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACAG-AGATCTTATCTCCCTGAG
* * * * *
13506474 ATTACAGCAGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAAATTACAGTGGAGCAGA-T-TA
65 ATTACAGCAGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAATTACAGTGAAGCAGATTATA
* *
13506537 AGGGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTA
129 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* *
13506578 TCAGGTCTTATATCCCTGA
1 TCAGATCTTATCTCCCTGA
13506597 TGTTGCAGTG
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
168 57 0.35
172 77 0.47
173 29 0.18
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (169 bp):
TCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGA
TTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAATTACAGTGAAGCAGATTATAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
Found at i:13508091 original size:3 final size:3
Alignment explanation
Indices: 13508083--13508125 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
13508073 TAATGTTACC
* *
13508083 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATC ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13508126 CATTTAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:13510073 original size:18 final size:19
Alignment explanation
Indices: 13510036--13510073 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13510026 AGTAAGTATT
*
13510036 TTAAATATATCATTTAAAA
1 TTAAATATATAATTTAAAA
*
13510055 TTAAATA-ATAATTTTAAA
1 TTAAATATATAATTTAAAA
13510073 T
1 T
13510074 CCACCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAATATATAATTTAAAA
Found at i:13510292 original size:2 final size:2
Alignment explanation
Indices: 13510285--13510331 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
13510275 TCTTATGCAA
13510285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13510327 AT AT A
1 AT AT A
13510332 AATTGGTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13512041 original size:2 final size:2
Alignment explanation
Indices: 13512034--13512078 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
13512024 GCCTAATTTT
13512034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
13512075 TA TA
1 TA TA
13512079 CTTAAAAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13517351 original size:16 final size:16
Alignment explanation
Indices: 13517316--13517356 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13517306 AAAATATAGC
*
13517316 ATTATATCTATTGTGT
1 ATTATATCAATTGTGT
13517332 ATTATATCAATTGATG-
1 ATTATATCAATTG-TGT
13517348 ATTA-ATCAA
1 ATTATATCAA
13517357 AAGTGTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 16 0.70
17 2 0.09
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (16 bp):
ATTATATCAATTGTGT
Found at i:13523176 original size:25 final size:24
Alignment explanation
Indices: 13523109--13523177 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
13523099 AGTTTTTTTC
* *
13523109 ATAATTTTTTTATTTTTAAAAATT
1 ATAATTTTTTAATTTTTTAAAATT
* *
13523133 ATATATTTTTTACTTTTTTAAATTT
1 ATA-ATTTTTTAATTTTTTAAAATT
13523158 ATAATTTCTTTAATTTTTTA
1 ATAATTT-TTTAATTTTTTA
13523178 TTGAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 7 0.18
25 31 0.82
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (24 bp):
ATAATTTTTTAATTTTTTAAAATT
Found at i:13524052 original size:28 final size:30
Alignment explanation
Indices: 13524005--13524066 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
13523995 TATTCTTTTT
13524005 AAATAATTTTAATGA-TTTTT-AATTTTAA
1 AAATAATTTTAATGATTTTTTGAATTTTAA
* *
13524033 AAATAATTTTTAT-ATTTTTTTGAATTTTCA
1 AAATAATTTTAATGA-TTTTTTGAATTTTAA
13524063 AAAT
1 AAAT
13524067 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 12 0.41
29 5 0.17
30 11 0.38
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (30 bp):
AAATAATTTTAATGATTTTTTGAATTTTAA
Found at i:13525651 original size:41 final size:41
Alignment explanation
Indices: 13525535--13525724 Score: 319
Period size: 41 Copynumber: 4.7 Consensus size: 41
13525525 TTAATTTAAA
13525535 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
13525576 CAAATCACCGGCATTTAG-CTGCTAGGCTTATAGCCTGATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
13525616 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
13525657 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
13525698 CAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
13525725 TTTTAAAACC
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 36 0.26
41 103 0.74
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:13525675 original size:81 final size:82
Alignment explanation
Indices: 13525535--13525724 Score: 319
Period size: 81 Copynumber: 2.3 Consensus size: 82
13525525 TTAATTTAAA
*
13525535 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCATTTAG-CTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCT
*
13525599 AGGCTTATAGCCTGATC
66 AGGCTTATAACCTGATC
* **
13525616 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCT
*
13525681 AGGCTTATAACCTGATT
66 AGGCTTATAACCTGATC
13525698 CAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
13525725 TTTTAAAACC
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
81 55 0.54
82 46 0.46
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCT
AGGCTTATAACCTGATC
Found at i:13527322 original size:10 final size:10
Alignment explanation
Indices: 13527307--13527392 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 10
13527297 ATATAAACTA
13527307 ATAAAATATT
1 ATAAAATATT
13527317 ATAAAAATATT
1 AT-AAAATATT
13527328 -TAAAATATTT
1 ATAAAATA-TT
*
13527338 TTAAAAACTATT
1 AT-AAAA-TATT
13527350 A-AAAATA-T
1 ATAAAATATT
*
13527358 ATTAAAAT-TG
1 A-TAAAATATT
13527368 ATATAAA-ATT
1 ATA-AAATATT
13527378 ATAAAA-ATT
1 ATAAAATATT
13527387 ATAAAA
1 ATAAAA
13527393 AAAACTTGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
8 2 0.03
9 22 0.35
10 22 0.35
11 9 0.14
12 6 0.10
13 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
ATAAAATATT
Found at i:13527349 original size:22 final size:21
Alignment explanation
Indices: 13527308--13527357 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
13527298 TATAAACTAA
13527308 TAAAATA-TTATAAAAATATT
1 TAAAATATTTATAAAAATATT
*
13527328 TAAAATATTTTTAAAAACTATT
1 TAAAATATTTATAAAAA-TATT
*
13527350 AAAAATAT
1 TAAAATAT
13527358 ATTAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATATTTATAAAAATATT
Found at i:13527362 original size:21 final size:19
Alignment explanation
Indices: 13527301--13527364 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 19
13527291 AAATTGATAT
*
13527301 AAACTAATAAAATATTATAA
1 AAACTATTAAAATATT-TAA
13527321 AAA-TATTTAAAATATTTTTAA
1 AAACTA-TTAAAATA--TTTAA
13527342 AAACTATTAAAAATATATTAA
1 AAACTATT-AAAATAT-TTAA
13527363 AA
1 AA
13527365 TTGATATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
19 2 0.05
20 11 0.30
21 14 0.38
22 10 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAACTATTAAAATATTTAA
Found at i:13527386 original size:9 final size:9
Alignment explanation
Indices: 13527235--13527393 Score: 69
Period size: 10 Copynumber: 16.6 Consensus size: 9
13527225 AGAATCATGA
13527235 AAAAATTTAT
1 AAAAA-TTAT
*
13527245 AAAATATTAA
1 AAAA-ATTAT
13527255 AAAAATT-T
1 AAAAATTAT
13527263 ATAAAATCGT-T
1 A-AAAAT--TAT
13527274 AAAAA-T-T
1 AAAAATTAT
13527281 -AAAATTACT
1 AAAAATTA-T
13527290 -AAAATTGAT
1 AAAAATT-AT
* *
13527299 ATAAACTAAT
1 A-AAAATTAT
13527309 AAAATATTAT
1 AAAA-ATTAT
*
13527319 AAAAATATTT
1 AAAAAT-TAT
*
13527329 AAAATATTTTT
1 AAAA-A-TTAT
*
13527340 AAAAACTATT
1 AAAAATTA-T
13527350 AAAAATATAT
1 AAAAAT-TAT
*
13527360 TAAAATTGAT
1 AAAAATT-AT
13527370 ATAAAATTAT
1 A-AAAATTAT
13527380 AAAAATTAT
1 AAAAATTAT
13527389 AAAAA
1 AAAAA
13527394 AAACTTGAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 37
0.71 0.07 0.22
Matches are distributed among these distances:
6 4 0.03
7 3 0.03
8 1 0.01
9 36 0.30
10 50 0.42
11 24 0.20
12 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13528515 original size:86 final size:86
Alignment explanation
Indices: 13528365--13528540 Score: 289
Period size: 86 Copynumber: 2.0 Consensus size: 86
13528355 TTAGGTTTAT
* * * *
13528365 TTTTTTCCATATTGTACTCTCGTTTGTTTACTCATTTAGTGAAAAGTCGATGCCTCTTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCAATGCCTCCTTTATCCA
* *
13528430 TGGTTTTTCTCTGTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
*
13528451 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAATTCAATGCCTCCTTTATCCA
1 TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCAATGCCTCCTTTATCCA
13528516 TGGTTTTTCCCTCTTTGAGGG
66 TGGTTTTTCCCTCTTTGAGGG
13528537 TTTT
1 TTTT
13528541 TCACGTAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (86 bp):
TTTTCTCCATATTGTACTATCGTTTGTTTACTCATTTAGTGAAAAGTCAATGCCTCCTTTATCCA
TGGTTTTTCCCTCTTTGAGGG
Found at i:13529968 original size:28 final size:27
Alignment explanation
Indices: 13529923--13530010 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 27
13529913 AATATATTAA
*
13529923 TTTTATAAT-TTTTGTATAATTTATTAGAT
1 TTTTA-AATATTTT-TATAATTTATAAG-T
13529952 TTTTAAATATTTTTATAATATTTATAAGT
1 TTTTAAATATTTTTAT-A-ATTTATAAGT
13529981 TTTT--ATATTTTTCATAATTTTTATAAGT
1 TTTTAAATATTTTT-ATAA--TTTATAAGT
13530009 TT
1 TT
13530011 ATATCAATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 13
0.79 0.02 0.20
Matches are distributed among these distances:
26 1 0.02
27 9 0.17
28 19 0.37
29 15 0.29
30 8 0.15
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTTAAATATTTTTATAATTTATAAGT
Found at i:13530001 original size:18 final size:18
Alignment explanation
Indices: 13529923--13530098 Score: 103
Period size: 18 Copynumber: 9.3 Consensus size: 18
13529913 AATATATTAA
13529923 TTTTATAATTTTTGTATAAT
1 TTTTATAA-TTTT-TATAAT
* *
13529943 TTATTA-GATTTTTAAATAT
1 TT-TTATAATTTTTATA-AT
*
13529962 TTTTATAATATTTATAAGT
1 TTTTATAATTTTTATAA-T
13529981 TTTTAT-ATTTTTCATAAT
1 TTTTATAATTTTT-ATAAT
*
13529999 TTTTATAAGTTTATATCAAT
1 TTTTATAA-TTTTTAT-AAT
13530019 TTTTA-ATATTTTT-TAAT
1 TTTTATA-ATTTTTATAAT
* *
13530036 AGTTAATAA-TTTTATAAT
1 -TTTTATAATTTTTATAAT
*
13530054 TTTT-TGATTTTTTATAAT
1 TTTTAT-AATTTTTATAAT
* *
13530072 TGTTTCTGATTTTTTAATAAT
1 T-TTTAT-AATTTTT-ATAAT
13530093 TTTTAT
1 TTTTAT
13530099 GAGAAAAAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 34
0.72 0.08 0.20
Matches are distributed among these distances:
16 1 0.01
17 10 0.08
18 38 0.30
19 38 0.30
20 29 0.23
21 9 0.07
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTATAAT
Found at i:13530030 original size:28 final size:26
Alignment explanation
Indices: 13529958--13530030 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 26
13529948 AGATTTTTAA
13529958 ATAT-TTTTATAATA-TTTATAAGTTT
1 ATATATTTT-TAATATTTTATAAGTTT
* *
13529983 TTATATTTTTCATAATTTTTATAAGTTT
1 ATATATTTTTAAT-A-TTTTATAAGTTT
13530011 ATATCAATTTTTAATATTTT
1 ATAT--ATTTTTAATATTTT
13530031 TTAATAGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
25 6 0.16
26 5 0.13
28 18 0.47
29 1 0.03
30 8 0.21
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (26 bp):
ATATATTTTTAATATTTTATAAGTTT
Found at i:13530097 original size:10 final size:9
Alignment explanation
Indices: 13529923--13530098 Score: 103
Period size: 10 Copynumber: 18.7 Consensus size: 9
13529913 AATATATTAA
13529923 TTTTATAATT
1 TTTTATAA-T
13529933 TTTGTATAAT
1 TTT-TATAAT
*
13529943 TTATTA-GAT
1 TT-TTATAAT
*
13529952 TTTTAAATAT
1 TTTTATA-AT
13529962 TTTTATAAT
1 TTTTATAAT
*
13529971 ATTTATAAGT
1 TTTTATAA-T
13529981 TTTTAT-AT
1 TTTTATAAT
13529989 TTTTCATAAT
1 TTTT-ATAAT
13529999 TTTTATAAGT
1 TTTTATAA-T
*
13530009 TTATATCAAT
1 TTTTAT-AAT
13530019 TTTTA-ATAT
1 TTTTATA-AT
13530028 TTTT-TAAT
1 TTTTATAAT
* *
13530036 AGTTAATAA-
1 -TTTTATAAT
13530045 TTTTATAAT
1 TTTTATAAT
*
13530054 TTTT-TGATT
1 TTTTAT-AAT
13530063 TTTTATAAT
1 TTTTATAAT
* *
13530072 TGTTTCTGATT
1 T-TTTAT-AAT
13530083 TTTTAATAAT
1 TTTT-ATAAT
13530093 TTTTAT
1 TTTTAT
13530099 GAGAAAAAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 39
0.70 0.09 0.21
Matches are distributed among these distances:
8 18 0.14
9 44 0.34
10 56 0.43
11 12 0.09
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13534898 original size:31 final size:31
Alignment explanation
Indices: 13534863--13534937 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
13534853 ATTTATTTAA
* *
13534863 ATTTATACAATTGAATCAAAATTAAAATTTC
1 ATTTATACAATTGAACCAAAATCAAAATTTC
* **
13534894 ATTTATACATTTGAACCGCAATCAAAATTTC
1 ATTTATACAATTGAACCAAAATCAAAATTTC
* *
13534925 ATGTATATAATTG
1 ATTTATACAATTG
13534938 CACTAAATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTTATACAATTGAACCAAAATCAAAATTTC
Found at i:13537126 original size:42 final size:42
Alignment explanation
Indices: 13537080--13537171 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
13537070 GTGTCTCAAC
* * * *
13537080 CGTGTGTGACACTCGGCCTAGTACATGGGTGTGTGACATGGT
1 CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGT
*
13537122 CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGC
1 CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGT
*
13537164 CATGTGTC
1 CGTGTGTC
13537172 CCCTGCATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (42 bp):
CGTGTGTCACACACGGCCTAGTACATGGGCGAGTGACATGGT
Found at i:13537658 original size:2 final size:2
Alignment explanation
Indices: 13537646--13537684 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
13537636 CTAGTCGTCC
*
13537646 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13537685 TCTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:13537949 original size:19 final size:20
Alignment explanation
Indices: 13537922--13537961 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13537912 ACTTGTAGAT
*
13537922 TTTTGTTGTT-TTTACAGCC
1 TTTTATTGTTGTTTACAGCC
*
13537941 TTTTATTGTTGTTTCCAGCC
1 TTTTATTGTTGTTTACAGCC
13537961 T
1 T
13537962 CTACAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.57
Consensus pattern (20 bp):
TTTTATTGTTGTTTACAGCC
Found at i:13543065 original size:22 final size:23
Alignment explanation
Indices: 13543033--13543081 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
13543023 AAATACTTTA
13543033 AAAATATTTTTATTTTTATTT-TT
1 AAAATATTTTT-TTTTTATTTATT
*
13543056 AAAATA-TTTTTTTTTGTTTATT
1 AAAATATTTTTTTTTTATTTATT
13543078 AAAA
1 AAAA
13543082 ATCGGGCCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
AAAATATTTTTTTTTTATTTATT
Found at i:13543082 original size:23 final size:23
Alignment explanation
Indices: 13543029--13543083 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
13543019 TTTAAAATAC
13543029 TTTAAAAATATTTTTATTTTTAT
1 TTTAAAAATATTTTTATTTTTAT
*
13543052 TTTTAAAATATTTTT-TTTTGT-T
1 TTTAAAAATATTTTTATTTT-TAT
13543074 TATTAAAAAT
1 T-TTAAAAAT
13543084 CGGGCCGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAAAAATATTTTTATTTTTAT
Found at i:13545739 original size:40 final size:40
Alignment explanation
Indices: 13545648--13545756 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
13545638 ATTTTCCCCA
** * * *
13545648 AAATCGCGTCCACGTTAGCGCGATGTCAGGGGACGTGTCAGT
1 AAATCGCGTCCACGTTAGCGCG--GTTTGCGGACGTGGCAGC
* *
13545690 AAATTGCGTCCACGTTAGCGCGGTTTGCTGACGTGGCAGC
1 AAATCGCGTCCACGTTAGCGCGGTTTGCGGACGTGGCAGC
* * *
13545730 AAATCGCGTCAACGTCAGCGCGCTTTG
1 AAATCGCGTCCACGTTAGCGCGGTTTG
13545757 TGTCCACGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 35 0.62
42 21 0.38
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (40 bp):
AAATCGCGTCCACGTTAGCGCGGTTTGCGGACGTGGCAGC
Found at i:13545946 original size:10 final size:10
Alignment explanation
Indices: 13545931--13545955 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13545921 TTTCATAATT
13545931 AAATTTATTA
1 AAATTTATTA
13545941 AAATTTATTA
1 AAATTTATTA
13545951 AAATT
1 AAATT
13545956 GGATTACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATTTATTA
Found at i:13546723 original size:10 final size:10
Alignment explanation
Indices: 13546708--13546753 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
13546698 ATTTTTACGG
13546708 TTTAAAAAAA
1 TTTAAAAAAA
13546718 TTTAAAAAAA
1 TTTAAAAAAA
*
13546728 --TAAAAAAT
1 TTTAAAAAAA
**
13546736 TTTAAAATTA
1 TTTAAAAAAA
13546746 TTTAAAAA
1 TTTAAAAA
13546754 TAGGGATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
8 7 0.24
10 22 0.76
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:13546789 original size:11 final size:11
Alignment explanation
Indices: 13546775--13546885 Score: 81
Period size: 11 Copynumber: 10.4 Consensus size: 11
13546765 GAGAAATTTA
13546775 AGAGGAAATTG
1 AGAGGAAATTG
*
13546786 AGAGCAAATTG
1 AGAGGAAATTG
**
13546797 AGATTAAA-T-
1 AGAGGAAATTG
* *
13546806 A-TGG-ATTTG
1 AGAGGAAATTG
13546815 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
13546826 -GAAGGAATTTG
1 AG-AGGAAATTG
*
13546837 AGAGCAAATTG
1 AGAGGAAATTG
*
13546848 AGAGGAAATTT
1 AGAGGAAATTG
13546859 AGAGGAAATTG
1 AGAGGAAATTG
13546870 AGAGGAAATTTG
1 AGAGGAAA-TTG
13546882 AGAG
1 AGAG
13546886 AGGATTAGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 3 0.04
11 57 0.75
12 11 0.14
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:13546812 original size:51 final size:51
Alignment explanation
Indices: 13546751--13546850 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
13546741 AATTATTTAA
13546751 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
13546802 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
13546851 GGAAATTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:13546835 original size:22 final size:22
Alignment explanation
Indices: 13546810--13546886 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
13546800 TTAAATATGG
13546810 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTGAGAGAAA-TTGAG-AGGAA
13546832 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
13546855 ATTT-AGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
13546877 ATTTGAGAGA
1 ATTTGAGAGA
13546887 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
22 37 0.74
23 13 0.26
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:13546865 original size:33 final size:35
Alignment explanation
Indices: 13546810--13546885 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 35
13546800 TTAAATATGG
* *
13546810 ATTTGAGA-GAAATTTGGAAGGAATTTGAGAGCAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
*
13546844 A-TTGAGAGGAAATTTAG-AGGAAATTGAGAGGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
13546877 ATTTGAGAG
1 ATTTGAGAG
13546886 AGGATTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCAA
Found at i:13547105 original size:19 final size:19
Alignment explanation
Indices: 13547078--13547119 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
13547068 ACACAAACCG
*
13547078 TGCTTACGTGGACGTGGTT
1 TGCTAACGTGGACGTGGTT
13547097 TGCTAACGTGGACGTGGTT
1 TGCTAACGTGGACGTGGTT
13547116 TGCT
1 TGCT
13547120 GACACGTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.17, G:0.36, T:0.36
Consensus pattern (19 bp):
TGCTAACGTGGACGTGGTT
Found at i:13547424 original size:11 final size:11
Alignment explanation
Indices: 13547408--13547434 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13547398 GTTTCCCGGC
13547408 TTCAAAGAGAT
1 TTCAAAGAGAT
13547419 TTCAAAGAGAT
1 TTCAAAGAGAT
13547430 TTCAA
1 TTCAA
13547435 CGAGTTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (11 bp):
TTCAAAGAGAT
Found at i:13551885 original size:14 final size:14
Alignment explanation
Indices: 13551866--13551899 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13551856 ATTGTTTTTC
13551866 TGGCCTGTAAGTTA
1 TGGCCTGTAAGTTA
13551880 TGGCCTGTAAGTTA
1 TGGCCTGTAAGTTA
*
13551894 AGGCCT
1 TGGCCT
13551900 ATATTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (14 bp):
TGGCCTGTAAGTTA
Found at i:13553927 original size:21 final size:21
Alignment explanation
Indices: 13553903--13553942 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13553893 AATTTGCTGC
* *
13553903 CTTCAGCTTTAATCTGCTCCT
1 CTTCAGCTTCAATCCGCTCCT
13553924 CTTCAGCTTCAATCCGCTC
1 CTTCAGCTTCAATCCGCTC
13553943 TACTGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.38, G:0.10, T:0.38
Consensus pattern (21 bp):
CTTCAGCTTCAATCCGCTCCT
Found at i:13554081 original size:46 final size:46
Alignment explanation
Indices: 13554023--13554138 Score: 112
Period size: 46 Copynumber: 2.5 Consensus size: 46
13554013 TGAGACTTGA
* *
13554023 TGCCTTCT-GCTTTAATCTATTGCAACACCAATGAAACAAGATTCGC
1 TGCCTT-TAGCTTTAATCTATTCCAACACCAAGGAAACAAGATTCGC
* * ** *
13554069 TGCCTTTAGCTTTAATTTGTTCCAATGCCAGGGAAACAAGATTCGC
1 TGCCTTTAGCTTTAATCTATTCCAACACCAAGGAAACAAGATTCGC
*
13554115 --CACTTTCAGCTTTAATCTGTTCCA
1 TGC-CTTT-AGCTTTAATCTATTCCA
13554139 CTAAAACTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.02
45 5 0.08
46 53 0.90
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (46 bp):
TGCCTTTAGCTTTAATCTATTCCAACACCAAGGAAACAAGATTCGC
Found at i:13554463 original size:24 final size:24
Alignment explanation
Indices: 13554431--13554511 Score: 135
Period size: 24 Copynumber: 3.4 Consensus size: 24
13554421 CGGATTGTCC
13554431 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
* *
13554455 CCACTGTAATCTTCAAGGCTCGAT
1 CCACTGTAATCTTCAAGGTTCAAT
13554479 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
13554503 TCACTGTAA
1 CCACTGTAA
13554512 GTTTGGGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:13565975 original size:51 final size:50
Alignment explanation
Indices: 13565917--13566052 Score: 179
Period size: 51 Copynumber: 2.7 Consensus size: 50
13565907 ATACCCAGTT
13565917 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAG-C-TATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-C-AAGTCAT-TCCGGTA
* * **
13565968 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTGTCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACAAGTCATTCCGGTA
*
13566018 CACGTAGTAGCCTGCACA-AGTACTACACACGTGAC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGAC
13566053 TTAGCAACTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
49 16 0.21
50 26 0.34
51 34 0.45
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACAAGTCATTCCGGTA
Found at i:13568114 original size:16 final size:16
Alignment explanation
Indices: 13568093--13568126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13568083 TTTTAGGATG
* *
13568093 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
13568109 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
13568125 AA
1 AA
13568127 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:13569198 original size:15 final size:15
Alignment explanation
Indices: 13569180--13569209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13569170 ATCCCGAGAT
*
13569180 TATTTTTTTAAAATG
1 TATTTTTTAAAAATG
13569195 TATTTTTTAAAAATG
1 TATTTTTTAAAAATG
13569210 GTTCGTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TATTTTTTAAAAATG
Found at i:13577570 original size:2 final size:2
Alignment explanation
Indices: 13577563--13577592 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13577553 CAAAACAAGA
13577563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13577593 GCTTGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13580935 original size:6 final size:6
Alignment explanation
Indices: 13580920--13580957 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
13580910 AAGAAAGAAA
13580920 AGAA-G AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGA
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGA
13580958 GGGCGGGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:13581063 original size:46 final size:47
Alignment explanation
Indices: 13580971--13581063 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 47
13580961 CGGGAAGGGA
* *
13580971 AGGGAAGGGAAAAAGAAATAAAAAAAAATGAGAAGGAGAATAGAGAG
1 AGGGAAGGGAAAAAGAAAGAAAAAAAAATGAAAAGGAGAATAGAGAG
*
13581018 AGGGAA-GGAGAAAGAGAAGAAAAAAAAATAGAAAAGGA-AAT-GAGAG
1 AGGGAAGGGAAAAAGA-AAGAAAAAAAAAT-GAAAAGGAGAATAGAGAG
13581064 TTTGTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 13 0.32
47 21 0.51
48 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.05
Consensus pattern (47 bp):
AGGGAAGGGAAAAAGAAAGAAAAAAAAATGAAAAGGAGAATAGAGAG
Found at i:13581585 original size:20 final size:20
Alignment explanation
Indices: 13581562--13581601 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13581552 TATAATTGAG
13581562 AATAAGAGTTTATGTTTTTA
1 AATAAGAGTTTATGTTTTTA
** *
13581582 AATATTATTTTATGTTTTTA
1 AATAAGAGTTTATGTTTTTA
13581602 TAAATATTAT
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:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
AATAAGAGTTTATGTTTTTA
Found at i:13581608 original size:22 final size:20
Alignment explanation
Indices: 13581570--13581611 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
13581560 AGAATAAGAG
13581570 TTTATGTTTTTAAATATTAT
1 TTTATGTTTTTAAATATTAT
13581590 TTTATGTTTTTATAAATATTAT
1 TTTATG-TTTT-TAAATATTAT
13581612 AAATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTATGTTTTTAAATATTAT
Found at i:13583041 original size:14 final size:14
Alignment explanation
Indices: 13583022--13583055 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
13583012 GATATTTTTT
13583022 TTCTAATGATACTA
1 TTCTAATGATACTA
13583036 TTCTAATGATACTA
1 TTCTAATGATACTA
13583050 TTCTAA
1 TTCTAA
13583056 CATGTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:13584312 original size:48 final size:48
Alignment explanation
Indices: 13584254--13584365 Score: 197
Period size: 48 Copynumber: 2.3 Consensus size: 48
13584244 ATAAATTTTG
*
13584254 TTTGTAATATAAATTAAATACATTACAACACTAAAAATTGGAACAAAT
1 TTTGTAATATAAATTAAATACATTACAACACTAAAAATTGGAACAAAC
* *
13584302 TTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAAC
1 TTTGTAATATAAATTAAATACATTACAACACTAAAAATTGGAACAAAC
13584350 TTTGTAATATAAATTA
1 TTTGTAATATAAATTA
13584366 GGTATATTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (48 bp):
TTTGTAATATAAATTAAATACATTACAACACTAAAAATTGGAACAAAC
Found at i:13589055 original size:50 final size:50
Alignment explanation
Indices: 13588990--13589415 Score: 238
Period size: 50 Copynumber: 8.5 Consensus size: 50
13588980 TTTGGAAAGT
** * *
13588990 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * *
13589040 ATGATTCGCTGTTGTGGCTTTAATCTATTCCACTGCACCACT-T--GAGAAGT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCA--A-TGTCGGGGAAGC
* ** * *
13589090 AAGATTCGCTGTTGTGGCTTTAAT-TTATTCCACTGCACCG-CTTGGGAGGC
1 AAGATTCGCTGTTGTGGCTTTAATCTT-TTCAACTGCAATGTC-GGGGAAGC
* * * * ***
13589140 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * *
13589190 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGG-AGT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAAT-GTC-GGGGAAGC
* * * * * * *
13589240 AAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATGTCGGGGAAGT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * ** * * **
13589290 AAGATTCACCGATGGGGCTTTAATCTGTTCCACTGCACCG-CTAGAGAAAT
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTC-GGGGAAGC
* * * *
13589340 AAGATTCGCTGTTGTAGCTTTAATATTTTTAACTGTAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * *
13589390 AAGATTCACCGATGTGGCTTTAATCT
1 AAGATTCGCTGTTGTGGCTTTAATCT
13589416 GTTCCACTTC
Statistics
Matches: 273, Mismatches: 87, Indels: 32
0.70 0.22 0.08
Matches are distributed among these distances:
49 8 0.03
50 255 0.93
51 7 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
AAGATTCGCTGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
Found at i:13589188 original size:100 final size:100
Alignment explanation
Indices: 13589084--13589451 Score: 396
Period size: 100 Copynumber: 3.7 Consensus size: 100
13589074 GCACCACTTG
* * * * * *
13589084 AGAAGTAAGATTCGCTGTTGTGGCTTTAATTTATTCCACTGCACCGCTTGGGAGGCAAGATTCGC
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
* * *
13589149 TGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAA
66 TGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
* * * *
13589184 AGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG-GAGTAAGATTCA
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAG-GTAAGATTCG
* * * **
13589248 CTGTTATAGCTTTAATGTTTTTAACTACAATGTCGG
65 CTGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
* * * * **
13589284 GGAAGTAAGATTCACCGATGGGGCTTTAATCTGTTCCACTGCACCGCTAGAGAAATAAGATTCGC
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
*** **
13589349 TGTTGTAGCTTTAATATTTTTAACTGTAATGTCGG
66 TGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
* * * ** **
13589384 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTTCACCGCCAGGGAAATAAGATTCGC
1 AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
13589449 TGT
66 TGT
13589452 CTTCACCGAT
Statistics
Matches: 230, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
99 1 0.00
100 229 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (100 bp):
AGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGC
TGTTGTAGCTTTAATATTTTTAACCACAATGTCAA
Found at i:13589261 original size:150 final size:150
Alignment explanation
Indices: 13588990--13589263 Score: 350
Period size: 150 Copynumber: 1.8 Consensus size: 150
13588980 TTTGGAAAGT
* * *** * * * *
13588990 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCATGATTCGCTGTTGT
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCGATGT
* * * *
13589055 GGCTTTAATCTATTCCACTGCACCACTTGAGAAGTAAGATTCGCTGTTGTGGCTTTAATTTATTC
66 GGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTTATTC
13589120 CACTGCACCGCTTGGGAGGC
131 CACTGCACCGCTTGGGAGGC
** * *
13589140 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGCAAGATTCACCGATGT
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCGATGT
* * * * *
13589205 GGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTATAGCTTTAAT
66 GGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAAT
13589264 GTTTTTAACT
Statistics
Matches: 102, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
150 102 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (150 bp):
AAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCGATGT
GGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTTATTC
CACTGCACCGCTTGGGAGGC
Found at i:13589294 original size:150 final size:150
Alignment explanation
Indices: 13588986--13589296 Score: 320
Period size: 150 Copynumber: 2.1 Consensus size: 150
13588976 AACTTTTGGA
* * *** * * *
13588986 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCG
* * * * *
13589051 TTGTGGCTTTAATCTATTCCACTGCACCACTTGAGAAGTAAGATTCGCTGTTGTGGCTTTAATTT
66 ATGTGGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTT
* * * *
13589116 ATTCCACTGCACCGCTTGGG
131 ATTCAACTACAACGCTGGGG
* * ** * *
13589136 AGGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCG
* * * * *
13589201 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTATAGCTTTAATGT
66 ATGTGGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAAT-T
* *
13589266 T-TTTAACTACAATG-TCGGGG
130 TATTCAACTACAACGCT-GGGG
13589286 AAGTAAGATTC
1 AAGTAAGATTC
13589297 ACCGATGGGG
Statistics
Matches: 127, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
149 1 0.01
150 124 0.98
151 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (150 bp):
AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACCACAATGTCAAAGAAGCAAGATTCACCG
ATGTGGCTTTAATCTATTCCACTGCACCACCTGAGAAGTAAGATTCACTGTTATAGCTTTAATTT
ATTCAACTACAACGCTGGGG
Found at i:13589346 original size:200 final size:200
Alignment explanation
Indices: 13589085--13589451 Score: 518
Period size: 200 Copynumber: 1.8 Consensus size: 200
13589075 CACCACTTGA
* * * * * * * **
13589085 GAAGTAAGATTCGCTGTTGTGGCTTTAATTTATTCCACTGCACCGCTTGGGAGGCAAGATTCGCT
1 GAAGTAAGATTCACCGATGGGGCTTTAATCTATTCCACTGCACCGCTAGAGAAACAAGATTCGCT
* *
13589150 GTTGTAGCTTTAATCTTTTTAACCGCAATTTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
66 GTTGTAGCTTTAATATTTTTAACCGCAATGTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
* * * *
13589215 TGTTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATG
131 TGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATG
13589280 TCGGG
196 TCGGG
* *
13589285 GAAGTAAGATTCACCGATGGGGCTTTAATCTGTTCCACTGCACCGCTAGAGAAATAAGATTCGCT
1 GAAGTAAGATTCACCGATGGGGCTTTAATCTATTCCACTGCACCGCTAGAGAAACAAGATTCGCT
* * ***
13589350 GTTGTAGCTTTAATATTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC
66 GTTGTAGCTTTAATATTTTTAACCGCAATGTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
* *
13589415 TGTTCCACTTCACCGCCAGGGAAATAAGATTCGCTGT
131 TGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGT
13589452 CTTCACCGAT
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
200 143 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (200 bp):
GAAGTAAGATTCACCGATGGGGCTTTAATCTATTCCACTGCACCGCTAGAGAAACAAGATTCGCT
GTTGTAGCTTTAATATTTTTAACCGCAATGTCAAAGAAGCAAGATTCACCGATGTGGCTTTAATC
TGTTCCACTGCACCGCCAGGGAAATAAGATTCACTGTTATAGCTTTAATGTTTTTAACTACAATG
TCGGG
Found at i:13590801 original size:49 final size:49
Alignment explanation
Indices: 13590699--13590801 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 49
13590689 TTTTTTTCAT
* * * *
13590699 TTTTTGGATTCAAAGTGCCCTTTGAGGGTTTTCACTTTGATCCCTTTTT
1 TTTTTGGACTCAAAGCGCCCTTTGAGGGTTTTCACCTTGATCCCTTTTC
* *
13590748 TTTTTGGACTCAAAGCGCCCTTTGTGGGTTTTCACCTTGAT-TCTTTCTC
1 TTTTTGGACTCAAAGCGCCCTTTGAGGGTTTTCACCTTGATCCCTTT-TC
13590797 TTTTT
1 TTTTT
13590802 TTAGGTGAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 4 0.09
49 43 0.91
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (49 bp):
TTTTTGGACTCAAAGCGCCCTTTGAGGGTTTTCACCTTGATCCCTTTTC
Found at i:13597512 original size:18 final size:18
Alignment explanation
Indices: 13597489--13597523 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13597479 ACTACTGTCG
13597489 TAGACTTTGCTCATATCA
1 TAGACTTTGCTCATATCA
13597507 TAGACTTTGCTCATATC
1 TAGACTTTGCTCATATC
13597524 GAGCTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (18 bp):
TAGACTTTGCTCATATCA
Found at i:13600645 original size:40 final size:41
Alignment explanation
Indices: 13600583--13600699 Score: 116
Period size: 40 Copynumber: 2.9 Consensus size: 41
13600573 GTTTGGAACA
* * *
13600583 AAAGCGCCAC-AACAAATCGAGCATTAGCGGCGATTTA-GCC
1 AAAGCGCCGCTAA-AAATAGAGCATTAGCGGCGATTTATCCC
** *
13600623 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGA-TTATCCC
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTATCCC
* * *
13600663 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTAT
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAT
13600700 ATAAAGCGCC
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
39 13 0.21
40 47 0.76
41 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (41 bp):
AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTATCCC
Found at i:13600814 original size:41 final size:40
Alignment explanation
Indices: 13600757--13601078 Score: 270
Period size: 41 Copynumber: 7.8 Consensus size: 40
13600747 TTTTTTAAAC
* *
13600757 CTTTAGCGGCGTTTTTGTCTAAGCCCCGCTAATGCTCGAGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCG-GT
* *
13600798 CTTTAGCGGCATTTTTGTCTATGCGCCGCTAATGGTCGGAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGG-T
* *
13600839 ATTTAGCGGCGTTTTTTTTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCG-TTTTTGTCTATGCGCCGCTAATGCTC-GGT
* *
13600881 CTTTAGCGGCGTTTTTTTCTATGCGCCGCTAATGCTTGGGGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGC-T-CGGT
* * *
13600923 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCCAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTATGCGCCGCTAATGCTCGG-T
* ** * * *
13600964 CTTTAGCGGCGTTTCTAACTGA-GCGCCACTAATTCTCTTGT
1 CTTTAGCGGCGTTTTTGTCT-ATGCGCCGCTAATGCTC-GGT
* * * * * * * **
13601005 CTTCAGCGGCGTTTGTATCTAAGCGCTGCTAATGTATTGAC
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATG-CTCGGT
* * *
13601046 CTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAAT
13601079 AGTTACAAAT
Statistics
Matches: 232, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
40 5 0.02
41 152 0.66
42 72 0.31
43 3 0.01
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.35
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGT
Found at i:13600896 original size:83 final size:84
Alignment explanation
Indices: 13600758--13600977 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 84
13600748 TTTTTAAACC
* * * *
13600758 TTTAGCGGCG-TTTTTGTCTAAGCCCCGCTAATGCTCGAGTCTTTAGCGGCATTTTTGTCTATGC
1 TTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGTCTATGC
13600822 GCCGCTAATG-GTCGGATA
66 GCCGCTAATGCGTCGGATA
* *
13600840 TTTAGCGGCGTTTTTTTTCTATGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTTTCTATGC
1 TTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGTCTATGC
* * * *
13600905 GCCGCTAATGCTTGGGGTC
66 GCCGCTAATGCGTCGGATA
* * * *
13600924 TTTAGCGGCGTTTTTATAC-AAGCGCCGCCAATGCTCGGATCTTTAGCGGCGTTT
1 TTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTT
13600978 CTAACTGAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
82 10 0.08
83 90 0.74
84 21 0.17
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (84 bp):
TTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGTCTATGC
GCCGCTAATGCGTCGGATA
Found at i:13600990 original size:83 final size:82
Alignment explanation
Indices: 13600757--13601061 Score: 287
Period size: 83 Copynumber: 3.7 Consensus size: 82
13600747 TTTTTTAAAC
* * * *
13600757 CTTTAGCGGCGTTTTTGTCTAAGCCCCGCTAATGCTC-GAGTCTTTAGCGGCATTTTTGTCTATG
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGA-TCTTTAGCGGCGTTTTTATCTATG
13600821 CGCCGCTAATGGTCGGAT
65 CGCCGCTAATGGTCGGAT
* * * * *
13600839 ATTTAGCGGCGTTTTTTTTCTATGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTTTCTATG
1 CTTTAGCGGCG-TTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTATG
* * *
13600904 CGCCGCTAATGCTTGGGGT
65 CGCCGCTAATG-GTCGGAT
* * *
13600923 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCCAATGCTCGGATCTTTAGCGGCGTTTCTAACTGA-
1 CTTTAGCGGCGTTTTTAT-CTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCT-AT
* ** *
13600986 GCGCCACTAATTCTCTTG-T
64 GCGCCGCTAATGGTC-GGAT
* * * ** *
13601005 CTTCAGCGGCGTTTGTATCTAAGCGCTGCTAATG-TATTGACCTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-CGGATCTTTAGCGGCGTTTTT
13601062 GCCGAAGCGC
Statistics
Matches: 184, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
81 2 0.01
82 57 0.31
83 108 0.59
84 17 0.09
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.37
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTATGC
GCCGCTAATGGTCGGAT
Found at i:13605958 original size:9 final size:9
Alignment explanation
Indices: 13605944--13606147 Score: 84
Period size: 9 Copynumber: 23.6 Consensus size: 9
13605934 GATGCGTAAG
13605944 TTACATAAC
1 TTACATAAC
*
13605953 TTACATTAATA
1 TTACA-TAA-C
*
13605964 TGATACATAAA
1 T--TACATAAC
13605975 TTACATAAC
1 TTACATAAC
**
13605984 TTAGTTAA-
1 TTACATAAC
*
13605992 TTA-AT-AT
1 TTACATAAC
**
13605999 TATACATATG
1 T-TACATAAC
13606009 TTACATAAC
1 TTACATAAC
*
13606018 TTACATTAATG
1 TTACA-TAA-C
*
13606029 TGATACATAAA
1 T--TACATAAC
13606040 TTACATAAC
1 TTACATAAC
**
13606049 TTAGTTAA-
1 TTACATAAC
*
13606057 TTA-AT-AT
1 TTACATAAC
13606064 TATACATAAC
1 T-TACATAAC
13606074 TTAC--AAC
1 TTACATAAC
13606081 TTACATAAC
1 TTACATAAC
13606090 TT--ATAAC
1 TTACATAAC
13606097 TTACATAAC
1 TTACATAAC
13606106 TT--ATAAC
1 TTACATAAC
13606113 TTAC--AAC
1 TTACATAAC
13606120 TTAC--AAC
1 TTACATAAC
13606127 TTAC--AAC
1 TTACATAAC
13606134 TTACATAAC
1 TTACATAAC
13606143 TTACA
1 TTACA
13606148 ACTTACAACA
Statistics
Matches: 155, Mismatches: 16, Indels: 48
0.71 0.07 0.22
Matches are distributed among these distances:
6 2 0.01
7 46 0.30
8 10 0.06
9 69 0.45
10 9 0.06
11 5 0.03
12 6 0.04
13 8 0.05
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:13605980 original size:31 final size:29
Alignment explanation
Indices: 13605944--13606448 Score: 213
Period size: 31 Copynumber: 16.6 Consensus size: 29
13605934 GATGCGTAAG
13605944 TTACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTA-ATTAATAT-ATACATAAA
**
13605975 TTACATAACTTAGTTAATTAATATTATACATATG
1 TTACATAAC----TTAATTAATA-TATACATAAA
*
13606009 TTACATAACTTACATTAATGTGATACATAAA
1 TTACATAACTTA-ATTAATAT-ATACATAAA
*
13606040 TTACATAACTTAGTTAATTAATATTATACATAAC
1 TTACATAAC----TTAATTAATA-TATACATAAA
*
13606074 TTAC--AACTTACA-TAACTTATAACTTACATAAC
1 TTACATAACTTA-ATTAA--TAT-A--TACATAAA
*
13606106 TT--ATAACTTACAACTTACA-ACT-TAC--AAC
1 TTACATAACTT--AA-TTA-ATA-TATACATAAA
* * *
13606134 TTACATAACTT-A-CAA-CT-TACA-ACA
1 TTACATAACTTAATTAATATATACATAAA
* *
13606158 -CACATAACTTAATTAGTTAATATACATAAA
1 TTACATAACTTAATTA-AT-ATATACATAAA
* *
13606188 TTACATAACTTAGTTAATTAATATACATAAG
1 TTACATAACTTAATTAA-T-ATATACATAAA
* *
13606219 TTACAAAACTTAATTAATTAATATACATAAG
1 TTACATAACTTAATTAA-T-ATATACATAAA
* ***
13606250 TTACATTAA-TTAATTAATATA-GCATCTG
1 TTACA-TAACTTAATTAATATATACATAAA
** *
13606278 GAACATTAA-TTAATT-A-ATATACATAAG
1 TTACA-TAACTTAATTAATATATACATAAA
* **
13606305 TTACATAACTTAGTTAATTAATATTACATATG
1 TTACATAACTTAATTAA-T-ATA-TACATAAA
13606337 TTACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTA-ATTAATAT-ATACATAAA
* **
13606368 TTACATAACTTAGTTAATTAATATTACATATG
1 TTACATAACTTAATTAA-T-ATA-TACATAAA
*
13606400 TTACATAACTTACATTAATGTGATACATAAA
1 TTACATAACTTA-ATTAATAT-ATACATAAA
*
13606431 TTACATAACTTAGTTAAT
1 TTACATAACTTAATTAAT
13606449 TAATATTATA
Statistics
Matches: 375, Mismatches: 46, Indels: 107
0.71 0.09 0.20
Matches are distributed among these distances:
23 13 0.03
24 3 0.01
25 2 0.01
26 6 0.02
27 14 0.04
28 30 0.08
29 9 0.02
30 29 0.08
31 142 0.38
32 63 0.17
33 10 0.03
34 43 0.11
35 10 0.03
36 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (29 bp):
TTACATAACTTAATTAATATATACATAAA
Found at i:13606004 original size:34 final size:34
Alignment explanation
Indices: 13605957--13606078 Score: 160
Period size: 34 Copynumber: 3.7 Consensus size: 34
13605947 CATAACTTAC
13605957 ATTAATATGATACATAAATTACATAACTTAGTTA
1 ATTAATATGATACATAAATTACATAACTTAGTTA
* ** *
13605991 ATTAATATTATACATATGTTACATAACTTA---C
1 ATTAATATGATACATAAATTACATAACTTAGTTA
*
13606022 ATTAATGTGATACATAAATTACATAACTTAGTTA
1 ATTAATATGATACATAAATTACATAACTTAGTTA
* *
13606056 ATTAATATTATACATAACTTACA
1 ATTAATATGATACATAAATTACA
13606079 ACTTACATAA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
31 26 0.36
34 47 0.64
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (34 bp):
ATTAATATGATACATAAATTACATAACTTAGTTA
Found at i:13606016 original size:65 final size:65
Alignment explanation
Indices: 13605943--13606071 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
13605933 CGATGCGTAA
13605943 GTTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAT
1 GTTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAT
*
13606008 GTTACATAACTTACATTAATGTGATACATAAATTACATAACTTAGTTAATTAATATTATACATA
1 GTTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATA
13606072 ACTTACAACT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (65 bp):
GTTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAT
Found at i:13606078 original size:65 final size:65
Alignment explanation
Indices: 13605944--13606086 Score: 245
Period size: 65 Copynumber: 2.2 Consensus size: 65
13605934 GATGCGTAAG
**
13605944 TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATG
1 TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
*
13606009 TTACATAACTTACATTAATGTGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
13606074 TTAC--AACTTACAT
1 TTACATAACTTACAT
13606087 AACTTATAAC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
63 9 0.12
65 66 0.88
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (65 bp):
TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
Found at i:13606083 original size:7 final size:7
Alignment explanation
Indices: 13606071--13606156 Score: 100
Period size: 7 Copynumber: 11.4 Consensus size: 7
13606061 TATTATACAT
13606071 AACTTAC
1 AACTTAC
13606078 AACTTAC
1 AACTTAC
*
13606085 ATAACTTAT
1 --AACTTAC
13606094 AACTTAC
1 AACTTAC
*
13606101 ATAACTTAT
1 --AACTTAC
13606110 AACTTAC
1 AACTTAC
13606117 AACTTAC
1 AACTTAC
13606124 AACTTAC
1 AACTTAC
13606131 AACTTAC
1 AACTTAC
13606138 ATAACTTAC
1 --AACTTAC
13606147 AACTTAC
1 AACTTAC
13606154 AAC
1 AAC
13606157 ACACATAACT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
7 50 0.72
9 19 0.28
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (7 bp):
AACTTAC
Found at i:13606087 original size:16 final size:16
Alignment explanation
Indices: 13606066--13606154 Score: 115
Period size: 16 Copynumber: 5.2 Consensus size: 16
13606056 ATTAATATTA
13606066 TACATAACTTACAACT
1 TACATAACTTACAACT
*
13606082 TACATAACTTATAACT
1 TACATAACTTACAACT
*
13606098 TACATAACTTATAACT
1 TACATAACTTACAACT
13606114 TACAACTTACAACTTACAACT
1 TAC-A--T--AACTTACAACT
13606135 TACATAACTTACAACT
1 TACATAACTTACAACT
13606151 TACA
1 TACA
13606155 ACACACATAA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
16 49 0.74
17 1 0.02
18 1 0.02
19 1 0.02
20 1 0.02
21 13 0.20
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.33
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:13606099 original size:23 final size:23
Alignment explanation
Indices: 13606069--13606154 Score: 99
Period size: 23 Copynumber: 3.7 Consensus size: 23
13606059 AATATTATAC
13606069 ATAACTTACAACTTACATAACTT
1 ATAACTTACAACTTACATAACTT
13606092 ATAACTTACATAACTT--ATAACTT
1 ATAACTTAC--AACTTACATAACTT
*
13606115 ACAACTTACAACTTAC--AACTT
1 ATAACTTACAACTTACATAACTT
13606136 ACATAACTTACAACTTACA
1 --ATAACTTACAACTTACA
13606155 ACACACATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
21 10 0.19
23 39 0.72
25 5 0.09
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAACTTACAACTTACATAACTT
Found at i:13606292 original size:28 final size:27
Alignment explanation
Indices: 13606201--13606304 Score: 109
Period size: 28 Copynumber: 3.7 Consensus size: 27
13606191 CATAACTTAG
* *
13606201 TTAATTAATATACATAAGTTACAAAACTTAA
1 TTAATTAATATACATAAG---GAACA-TTAA
**
13606232 TTAATTAATATACATAAGTTACATTAA
1 TTAATTAATATACATAAGGAACATTAA
**
13606259 TTAATTAATATAGCATCTGGAACATTAA
1 TTAATTAATATA-CATAAGGAACATTAA
13606287 TTAATTAATATACATAAG
1 TTAATTAATATACATAAG
13606305 TTACATAACT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
27 20 0.32
28 25 0.40
31 18 0.29
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (27 bp):
TTAATTAATATACATAAGGAACATTAA
Found at i:13606357 original size:22 final size:22
Alignment explanation
Indices: 13606327--13606436 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 22
13606317 GTTAATTAAT
*
13606327 ATTACATATGTTACATAACTTAC
1 ATTA-ATATGTTACATAAATTAC
*
13606350 ATTAATATGATACATAAATTAC
1 ATTAATATGTTACATAAATTAC
*
13606372 A-TAACT-TAGTTA-ATTAA-T--
1 ATTAA-TAT-GTTACATAAATTAC
*
13606390 ATTACATATGTTACATAACTTAC
1 ATTA-ATATGTTACATAAATTAC
* *
13606413 ATTAATGTGATACATAAATTAC
1 ATTAATATGTTACATAAATTAC
13606435 AT
1 AT
13606437 AACTTAGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.01
19 7 0.10
20 6 0.09
21 9 0.13
22 38 0.55
23 8 0.12
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTAATATGTTACATAAATTAC
Found at i:13606363 original size:63 final size:61
Alignment explanation
Indices: 13606159--13606456 Score: 353
Period size: 63 Copynumber: 4.9 Consensus size: 61
13606149 CTTACAACAC
* *
13606159 ACATAACTTAATTAGTTAATATACATAAATTACATAACTTAGTTAATTAATA-TACATAAGTT
1 ACATAACTTAATTA-AT-ATATACATAAATTACATAACTTAGTTAATTAATATTACATATGTT
* * * * **
13606221 ACAAAACTTAATTAATTAATATACATAAGTTAC---A-TTAATTAATTAATA-TAGCATCTGGA
1 ACATAACTTAATTAA-T-ATATACATAAATTACATAACTTAGTTAATTAATATTA-CATATGTT
*
13606280 ACATTAA-TTAATT-A-ATATACATAAGTTACATAACTTAGTTAATTAATATTACATATGTT
1 ACA-TAACTTAATTAATATATACATAAATTACATAACTTAGTTAATTAATATTACATATGTT
13606339 ACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTACATATGTT
1 ACATAACTTA-ATTAATAT-ATACATAAATTACATAACTTAGTTAATTAATATTACATATGTT
*
13606402 ACATAACTTACATTAATGTGATACATAAATTACATAACTTAGTTAATTAATATTA
1 ACATAACTTA-ATTAATAT-ATACATAAATTACATAACTTAGTTAATTAATATTA
13606457 TACATAATGT
Statistics
Matches: 208, Mismatches: 15, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
55 15 0.07
58 20 0.10
59 38 0.18
60 7 0.03
61 1 0.00
62 31 0.15
63 96 0.46
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (61 bp):
ACATAACTTAATTAATATATACATAAATTACATAACTTAGTTAATTAATATTACATATGTT
Found at i:13606476 original size:16 final size:16
Alignment explanation
Indices: 13606457--13606541 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 16
13606447 ATTAATATTA
13606457 TACATAA-TGTACAACT
1 TACATAACT-TACAACT
13606473 TACATAACTTACAACT
1 TACATAACTTACAACT
13606489 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
13606505 TAC--AACTTACAACT
1 TACATAACTTACAACT
*
13606519 TAAATAACTTACATAACT
1 TACATAACTTAC--AACT
13606537 TACAT
1 TACAT
13606542 TTTTTTAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
14 13 0.22
16 38 0.63
17 1 0.02
18 8 0.13
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:13606481 original size:9 final size:9
Alignment explanation
Indices: 13606469--13606766 Score: 107
Period size: 9 Copynumber: 36.1 Consensus size: 9
13606459 CATAATGTAC
13606469 AACTTACAT
1 AACTTACAT
13606478 AACTTAC--
1 AACTTACAT
13606485 AACTTAC--
1 AACTTACAT
13606492 AACTTACAT
1 AACTTACAT
13606501 AACTTAC--
1 AACTTACAT
13606508 AACTTAC--
1 AACTTACAT
*
13606515 AACTTAAAT
1 AACTTACAT
13606524 AACTTACAT
1 AACTTACAT
13606533 AACTTACATT
1 AACTTACA-T
***
13606543 TTTTTA-AT
1 AACTTACAT
*
13606551 TA-TT-CAT
1 AACTTACAT
**
13606558 AAAATACAT
1 AACTTACAT
13606567 AACTTA-AT
1 AACTTACAT
* *
13606575 TAGTTA-AT
1 AACTTACAT
13606583 -A--TACAT
1 AACTTACAT
*
13606589 AAATTACAT
1 AACTTACAT
**
13606598 AACTTAGTT
1 AACTTACAT
13606607 AA-TTA-AT
1 AACTTACAT
**
13606614 -GTTATACAT
1 AACT-TACAT
13606623 AACTTAC--
1 AACTTACAT
13606630 AACTTACAT
1 AACTTACAT
13606639 AACTTAC--
1 AACTTACAT
13606646 AACTTACAT
1 AACTTACAT
13606655 AACTTACAAT
1 AACTTAC-AT
***
13606665 TTTTTA-AT
1 AACTTACAT
* *
13606673 TA-TT-CGT
1 AACTTACAT
*
13606680 AAATTACAT
1 AACTTACAT
*
13606689 AACTTACTT
1 AACTTACAT
* *
13606698 AATTTTCAT
1 AACTTACAT
*
13606707 AA--TAAAT
1 AACTTACAT
13606714 AACTTACAT
1 AACTTACAT
13606723 AACTTAC--
1 AACTTACAT
13606730 AACTTACAT
1 AACTTACAT
* *
13606739 AACTTATAC
1 AACTTACAT
* *
13606748 GACATACAT
1 AACTTACAT
13606757 AACTTACAT
1 AACTTACAT
13606766 A
1 A
13606767 GCATAATTTG
Statistics
Matches: 219, Mismatches: 42, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
5 2 0.01
6 2 0.01
7 66 0.30
8 21 0.10
9 118 0.54
10 10 0.05
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (9 bp):
AACTTACAT
Found at i:13606488 original size:7 final size:7
Alignment explanation
Indices: 13606466--13606520 Score: 74
Period size: 7 Copynumber: 7.3 Consensus size: 7
13606456 ATACATAATG
13606466 TACAACT
1 TACAACT
13606473 TACATAACT
1 TAC--AACT
13606482 TACAACT
1 TACAACT
13606489 TACAACT
1 TACAACT
13606496 TACATAACT
1 TAC--AACT
13606505 TACAACT
1 TACAACT
13606512 TACAACT
1 TACAACT
13606519 TA
1 TA
13606521 AATAACTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
7 30 0.68
9 14 0.32
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (7 bp):
TACAACT
Found at i:13606492 original size:23 final size:23
Alignment explanation
Indices: 13606466--13606540 Score: 123
Period size: 23 Copynumber: 3.2 Consensus size: 23
13606456 ATACATAATG
13606466 TACAACTTACATAACTTACAACT
1 TACAACTTACATAACTTACAACT
13606489 TACAACTTACATAACTTACAACT
1 TACAACTTACATAACTTACAACT
*
13606512 TACAACTTAAATAACTTACATAACT
1 TACAACTTACATAACTTAC--AACT
13606537 TACA
1 TACA
13606541 TTTTTTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 41 0.84
25 8 0.16
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (23 bp):
TACAACTTACATAACTTACAACT
Found at i:13606639 original size:16 final size:16
Alignment explanation
Indices: 13606618--13606764 Score: 102
Period size: 16 Copynumber: 8.8 Consensus size: 16
13606608 ATTAATGTTA
13606618 TACATAACTTACAACT
1 TACATAACTTACAACT
13606634 TACATAACTTACAACT
1 TACATAACTTACAACT
13606650 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
13606665 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
13606684 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
13606702 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
13606718 TACATAACTTACAACT
1 TACATAACTTACAACT
* *
13606734 TACATAACTTATACGACA
1 TACATAAC-T-TACAACT
13606752 TACATAACTTACA
1 TACATAACTTACA
13606765 TAGCATAATT
Statistics
Matches: 103, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
14 3 0.03
15 5 0.05
16 56 0.54
17 4 0.04
18 27 0.26
19 5 0.05
20 3 0.03
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:13606756 original size:34 final size:33
Alignment explanation
Indices: 13606617--13606764 Score: 106
Period size: 34 Copynumber: 4.4 Consensus size: 33
13606607 AATTAATGTT
* *
13606617 ATACATAACTTACAACTTACATAACT-TACAAC
1 ATACATAACTTACAACTTACATAATTATACGAC
* *** * *
13606649 TTACATAACTTACAA-TTTTTTAATTATTCGTAA
1 ATACATAACTTACAACTTACATAATTATACG-AC
* * *
13606682 ATTACATAACTTACTTAATTTTCATAATAAATA--AC
1 A-TACATAACTTAC--AACTTACATAAT-TATACGAC
*
13606717 TTACATAACTTACAACTTACATAACTTATACGAC
1 ATACATAACTTACAACTTACATAA-TTATACGAC
13606751 ATACATAACTTACA
1 ATACATAACTTACA
13606765 TAGCATAATT
Statistics
Matches: 87, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
31 6 0.07
32 28 0.32
33 2 0.02
34 39 0.45
35 1 0.01
36 2 0.02
37 7 0.08
38 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.36
Consensus pattern (33 bp):
ATACATAACTTACAACTTACATAATTATACGAC
Found at i:13606821 original size:16 final size:16
Alignment explanation
Indices: 13606802--13606834 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13606792 ACATAATTGC
13606802 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
13606818 CATAATACATAACTTA
1 CATAATAAATAACTTA
13606834 C
1 C
13606835 GTAGCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:13612377 original size:66 final size:66
Alignment explanation
Indices: 13612270--13612399 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
13612260 AGCAAATTAC
* *
13612270 ACAACTTAAAGCGGAGGCAACATCCAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCCAG
1 ACAACTTAAAGCGGAGGCAACAGCCAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCAG
13612334 CT
65 CT
* * * *
13612336 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAG
1 ACAACTTAAAGCGGAGGCAACAGCCAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
13612400 GAGCAGCTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.95
67 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCGGAGGCAACAGCCAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAGC
T
Found at i:13612419 original size:66 final size:66
Alignment explanation
Indices: 13612270--13612431 Score: 175
Period size: 66 Copynumber: 2.5 Consensus size: 66
13612260 AGCAAATTAC
* * * * * *
13612270 ACAACTTAAAGCGGAGGCAACATCCAGAGAAGCTGATGTTCAAAGAAGATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCAAGAGAAGCTGAGGTTCAAAGAAGATATGAAGAACTCCAGC
*
13612335 T
66 G
* * *
13612336 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAA-AGTATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCAAGAGAAGCTGAGGTTCAAAGAAGA-TATGAAGAACTCCAG
13612400 -G
65 CG
* * *
13612401 AGCAGCTTAGAGCAGATGCGGCAGCAAGAGA
1 A-CAACTTAAAGCAGATGCAGCAGCAAGAGA
13612432 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 2 0.02
66 80 0.98
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.14
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCAAGAGAAGCTGAGGTTCAAAGAAGATATGAAGAACTCCAGC
G
Found at i:13612887 original size:43 final size:42
Alignment explanation
Indices: 13612837--13612961 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 42
13612827 TACAAATCTG
*
13612837 CCATCTATAGCGGCGCTTTGAGC-AAAAACGCCACTAAAGACC
1 CCATCTATAGCGGCGCTTT-AACTAAAAACGCCACTAAAGACC
* *
13612879 CTGATCTATAGCGGCGCTTTAACTAAAAACGCCGCTAAAGACC
1 C-CATCTATAGCGGCGCTTTAACTAAAAACGCCACTAAAGACC
*
13612922 CCAGTCTATAGCGGCGCTTATAA-TAAAAACGCCGCTAAAG
1 CCA-TCTATAGCGGCGCTT-TAACTAAAAACGCCACTAAAG
13612962 GTATTAGTCT
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
42 4 0.05
43 68 0.91
44 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (42 bp):
CCATCTATAGCGGCGCTTTAACTAAAAACGCCACTAAAGACC
Found at i:13612978 original size:43 final size:43
Alignment explanation
Indices: 13612888--13613027 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
13612878 CCTGATCTAT
* **
13612888 AGCGGCGCTT-TAACTAAAAACGCCGCTAAAGACCCCAGTCTAT-
1 AGCGGCGCTTATAA-TAAAAACGCCGCTAAAGATCTTAGTCT-TC
* *
13612931 AGCGGCGCTTATAATAAAAACGCCGCTAAAGGTATTAGTCTTC
1 AGCGGCGCTTATAATAAAAACGCCGCTAAAGATCTTAGTCTTC
* * * * * *
13612974 AGCGGCGCTTCTACT-AAAGCGCCACTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATAATAAAAACGCCGCTAAAGATCTTAGTCTTC
*
13613016 AGCGGCGTTTAT
1 AGCGGCGCTTAT
13613028 GATAGAAGTG
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 33 0.41
43 45 0.56
44 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
AGCGGCGCTTATAATAAAAACGCCGCTAAAGATCTTAGTCTTC
Found at i:13613015 original size:42 final size:43
Alignment explanation
Indices: 13612931--13613027 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
13612921 CCCAGTCTAT
* * *
13612931 AGCGGCGCTTATAATAAAAACGCCGCTAAAGGTATTAGTCTTC
1 AGCGGCGCTTATAATAAAAACGCCACTAAAGCTATTACTCTTC
* * * *
13612974 AGCGGCGCTTCTACT-AAAGCGCCACTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATAATAAAAACGCCACTAAAGCTATTACTCTTC
*
13613016 AGCGGCGTTTAT
1 AGCGGCGCTTAT
13613028 GATAGAAGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.71
43 13 0.29
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
AGCGGCGCTTATAATAAAAACGCCACTAAAGCTATTACTCTTC
Found at i:13613189 original size:22 final size:22
Alignment explanation
Indices: 13613161--13613203 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13613151 CTGCGGCGCT
*
13613161 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
13613183 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
13613204 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:13613535 original size:12 final size:13
Alignment explanation
Indices: 13613517--13613558 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
13613507 AGGAAAGATT
13613517 TAATAATAATATA
1 TAATAATAATATA
13613530 -AATAATAACATATA
1 TAATAAT-A-ATATA
13613544 TACATAATAATATA
1 TA-ATAATAATATA
13613558 T
1 T
13613559 TAAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:13613550 original size:16 final size:16
Alignment explanation
Indices: 13613525--13613562 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13613515 TTTAATAATA
13613525 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
13613541 ATATACATAATAATAT
1 ATATAAATAATAACAT
13613557 AT-TAAA
1 ATATAAA
13613563 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:13613837 original size:18 final size:17
Alignment explanation
Indices: 13613751--13613838 Score: 54
Period size: 18 Copynumber: 4.8 Consensus size: 17
13613741 TGTTAACACT
*
13613751 TAAAATAATATTATATAA
1 TAAAATAATAATATA-AA
* *
13613769 TAAAATAATGCATATACA
1 TAAAATAAT-AATATAAA
13613787 TAAAA-AATTATATAGATAAA
1 TAAAATAA-TA-AT--ATAAA
13613807 T-AAATGAACTAATATAAA
1 TAAAAT-AA-TAATATAAA
13613825 TAATAATAATAATA
1 TAA-AATAATAATA
13613839 ATAATGGTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 18
0.70 0.08 0.23
Matches are distributed among these distances:
17 2 0.04
18 29 0.53
19 10 0.18
20 10 0.18
21 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAAATAATAATATAAA
Found at i:13614122 original size:40 final size:40
Alignment explanation
Indices: 13614067--13614147 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
13614057 AACGACGTCG
13614067 TTTCAGACATTCGTCTCCTCAACTGACAGGAGGACGAAAT
1 TTTCAGACATTCGTCTCCTCAACTGACAGGAGGACGAAAT
13614107 TTTCAGACATTCGTCTCCTCAACTGACAGGAGGACGAAAT
1 TTTCAGACATTCGTCTCCTCAACTGACAGGAGGACGAAAT
13614147 T
1 T
13614148 GGACGCAGGA
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:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
TTTCAGACATTCGTCTCCTCAACTGACAGGAGGACGAAAT
Found at i:13620593 original size:25 final size:26
Alignment explanation
Indices: 13620565--13620633 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
13620555 GATATTTAAA
*
13620565 TTTAATATCTTATA-TTTAAAATTAT
1 TTTAATATATTATATTTTAAAATTAT
*
13620590 TTTAATTTATTATATTTTAAAATT-T
1 TTTAATATATTATATTTTAAAATTAT
13620615 TATT--TATATTCATATTTTA
1 T-TTAATATATT-ATATTTTA
13620634 TCTTTTCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.13
25 22 0.58
26 11 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTAATATATTATATTTTAAAATTAT
Found at i:13623049 original size:23 final size:23
Alignment explanation
Indices: 13623022--13623091 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
13623012 AAAGAAAGAC
13623022 GAACAATGAAGATTCTCTGCAAT
1 GAACAATGAAGATTCTCTGCAAT
* *
13623045 GAACAGTGAAGATTCTCTACAAT
1 GAACAATGAAGATTCTCTGCAAT
* *
13623068 GAACGATGAAAATTCTCTGCAAT
1 GAACAATGAAGATTCTCTGCAAT
13623091 G
1 G
13623092 CACTTTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (23 bp):
GAACAATGAAGATTCTCTGCAAT
Found at i:13623188 original size:27 final size:26
Alignment explanation
Indices: 13623135--13623190 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
13623125 AATATAATAT
* * *
13623135 AATTTAAAATATAATAATTTATGAAA
1 AATTTAAAATATAAAAATTAATAAAA
13623161 AATTTAAAATATATAAAATTAATAAAA
1 AATTTAAAATATA-AAAATTAATAAAA
13623188 AAT
1 AAT
13623191 ATATGGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
AATTTAAAATATAAAAATTAATAAAA
Found at i:13636542 original size:10 final size:10
Alignment explanation
Indices: 13636527--13636553 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
13636517 AATTTTAGCT
13636527 TTTATCTTTA
1 TTTATCTTTA
13636537 TTTATCTTTA
1 TTTATCTTTA
13636547 TTTATCT
1 TTTATCT
13636554 GTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:13643983 original size:28 final size:28
Alignment explanation
Indices: 13643943--13644018 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
13643933 ACAAATCGGT
*
13643943 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAGTACAGTA
*
13643971 ACAGTGTGGGCCTTAGCCCAGTACAGTG
1 ACAGTGTGGGCCTTAGCCCAGTACAGTA
*
13643999 ACAATGTGGGCCTTAGCCCA
1 ACAGTGTGGGCCTTAGCCCA
13644019 ATGCAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAGTACAGTA
Found at i:13644169 original size:26 final size:26
Alignment explanation
Indices: 13644140--13644189 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
13644130 CACCAATATT
13644140 GCAGCAAAGCTGCCAGTAACAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
13644166 GCAGCAAAGCTGCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
13644190 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAC
Found at i:13644208 original size:27 final size:27
Alignment explanation
Indices: 13644140--13644218 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
13644130 CACCAATATT
13644140 GCAGCAAAGCTGCCAGTAACAGTA-AC
1 GCAGCAAAGCTGCCAGTAACAGTATAC
*
13644166 GCAGCAAAGCTGCCAGTAACAGTATAT
1 GCAGCAAAGCTGCCAGTAACAGTATAC
** **
13644193 GTGGCAAAGCCACCAGT-ACAGTATAC
1 GCAGCAAAGCTGCCAGTAACAGTATAC
13644219 TTCCCCTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 32 0.70
27 14 0.30
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (27 bp):
GCAGCAAAGCTGCCAGTAACAGTATAC
Found at i:13644399 original size:27 final size:27
Alignment explanation
Indices: 13644369--13644724 Score: 457
Period size: 27 Copynumber: 13.2 Consensus size: 27
13644359 GGTATAATAC
*
13644369 TCATTTTACCCTTCGAGGGCATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAA
* *
13644396 TCATTTTACCCATCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAA
* **
13644423 TCATTTTACCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAA
* *
13644450 TCATTTTACCCATCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCAA
* ***
13644477 TCATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAA
*
13644504 TCATTTTACCCTTCG-GGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCAA
**
13644530 TCATTTTACCCTTCGAGGGTATTTTGA
1 TCATTTTACCCTTCGAGGGTATTTCAA
*
13644557 TCATTTTACCCTTC-AGGGGTATTTCAG
1 TCATTTTACCCTTCGA-GGGTATTTCAA
* * *
13644584 TCATTTTACCATTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTCAA
*
13644611 TCATTTTACCCTTC-AGGGGTATTTCAG
1 TCATTTTACCCTTCGA-GGGTATTTCAA
13644638 TCATTTTACCCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAA
* *
13644665 TTATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCAA
* *
13644692 TCATTTTACCCTTCGAAGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAA
13644719 TCATTT
1 TCATTT
13644725 GCCCATGAAT
Statistics
Matches: 293, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
26 26 0.09
27 265 0.90
28 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAA
Found at i:13645474 original size:20 final size:22
Alignment explanation
Indices: 13645430--13645474 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
13645420 AAGGTAGGGG
* *
13645430 AGAGGGAGAAGCAGTAAAGAGA
1 AGAGGGAGAAGCAGAAAAGAAA
13645452 AGAGGG-GAAG-AGAAAAGAAA
1 AGAGGGAGAAGCAGAAAAGAAA
13645472 AGA
1 AGA
13645475 TTTGGCAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.40, T:0.02
Consensus pattern (22 bp):
AGAGGGAGAAGCAGAAAAGAAA
Found at i:13649823 original size:2 final size:2
Alignment explanation
Indices: 13649816--13649841 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13649806 AAGAAAAATA
13649816 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13649842 TGAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13650621 original size:11 final size:11
Alignment explanation
Indices: 13650605--13650644 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13650595 TATTTTAAAA
13650605 TAAAAAAATTT
1 TAAAAAAATTT
13650616 TAAAAAAGTATTT
1 TAAAAAA--ATTT
*
13650629 TAAAAATATTT
1 TAAAAAAATTT
13650640 TAAAA
1 TAAAA
13650645 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:13650969 original size:16 final size:16
Alignment explanation
Indices: 13650948--13650980 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13650938 TTCGCTGTAT
13650948 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
13650964 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
13650980 T
1 T
13650981 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:13651231 original size:16 final size:16
Alignment explanation
Indices: 13651194--13651235 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13651184 TTAATCATAT
*
13651194 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
13651210 TT-AAATATATTATAA
1 TTAAAATATATTATAA
13651225 TTAAAATATAT
1 TTAAAATATAT
13651236 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:13651242 original size:14 final size:15
Alignment explanation
Indices: 13651203--13651244 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13651193 TTTAAACATA
*
13651203 ATTATTATTAAATAT
1 ATTATAATTAAATAT
13651218 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
13651232 A-TATAATTTAATA
1 ATTATAATTAAATA
13651245 AAACTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:13651294 original size:61 final size:60
Alignment explanation
Indices: 13651229--13651536 Score: 224
Period size: 61 Copynumber: 5.1 Consensus size: 60
13651219 TTATAATTAA
*
13651229 AATATATAATTTAATAAAACTCTTAATAATGAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAA-TCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
13651290 AATATATGATACT-ATAAAAT-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCAT
13651349 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAA-TCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * * * ** * *
13651410 AATATATGATACT-ATAAAA-GATAAT--TTAACATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATAAT-TTAATAAAATCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCAAATCAT
*
13651469 AATATATAATTTAATAAAATTCTTAATAATTAATATTCCTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAA-TCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
13651530 AATATAT
1 AATATAT
13651537 GATACTATAA
Statistics
Matches: 181, Mismatches: 44, Indels: 44
0.67 0.16 0.16
Matches are distributed among these distances:
57 5 0.03
58 7 0.04
59 60 0.33
60 29 0.16
61 67 0.37
62 7 0.04
63 6 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (60 bp):
AATATATAATTTAATAAAATCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:13651342 original size:120 final size:120
Alignment explanation
Indices: 13651192--13651620 Score: 761
Period size: 120 Copynumber: 3.6 Consensus size: 120
13651182 ATTTAATCAT
*
13651192 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAACTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
13651257 ATGAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
13651313 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
13651378 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
13651433 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
13651498 TTAATATTCCTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
13651553 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
13651617 ATTA
65 ATTA
13651621 TAACTAATAA
Statistics
Matches: 299, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 294 0.98
121 5 0.02
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:13651362 original size:14 final size:15
Alignment explanation
Indices: 13651313--13651364 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13651303 ATAAAATATA
13651313 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
13651328 TATTAAATATATTAT
1 AATTAAATATATTAT
13651343 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
13651356 AATTTAATA
1 AATTAAATA
13651365 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:13651366 original size:59 final size:58
Alignment explanation
Indices: 13651200--13651608 Score: 203
Period size: 59 Copynumber: 6.8 Consensus size: 58
13651190 ATATTTAAAC
* * *
13651200 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAACTCTTAATAATGA
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA-T-ATAA-ATTAA
* * * * * * * *
13651261 AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATTAA
1 ATAATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-TTAATAAAATATAAATTAA
* *
13651319 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-TAA
1 -ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA-TATAAATTAA
* * * * * * * * *
13651378 TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTTAA
1 ATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATAAT-TTAATAAAATATAAATTAA
* *
13651439 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAAT-T--CTT-A
1 -ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATATAAATTAA
* ** * * * * * *
13651494 ATAATTAATATTCCTATATGAATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTTG
1 ATAATTATTATT-AAATAT--A-TTA-T--AATTAAAATATATAAT-TTAATAAAATATAAATT-
13651558 AA
57 AA
* *
13651560 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT
13651609 TCTTAATAAT
Statistics
Matches: 255, Mismatches: 60, Indels: 68
0.67 0.16 0.18
Matches are distributed among these distances:
54 11 0.04
55 5 0.02
56 2 0.01
57 11 0.04
58 18 0.07
59 73 0.29
60 21 0.08
61 70 0.27
62 14 0.05
63 11 0.04
64 2 0.01
65 4 0.02
66 13 0.05
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (58 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATATAAATTAA
Found at i:13651475 original size:18 final size:17
Alignment explanation
Indices: 13651454--13651488 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13651444 TTATTATTAA
*
13651454 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13651472 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13651489 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13651601 original size:18 final size:17
Alignment explanation
Indices: 13651574--13651608 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13651564 TTAATATTAA
*
13651574 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13651592 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13651609 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13651656 original size:101 final size:99
Alignment explanation
Indices: 13651550--13651810 Score: 351
Period size: 91 Copynumber: 2.7 Consensus size: 99
13651540 ACTATAAAAG
* * *
13651550 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATAATTTAATAAAATTCTTA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCTTA
*
13651614 ATAATTATAACTAATAAATTTTCTTATATGAATTTGT
65 ATAATT-TAA-TAATAAATTTTCTTATATGAATTTAT
* *
13651651 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTC----
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
*
13651712 ----TTGATAATAAATTTTCTTATATGAATTTAT
66 TAATTTAATAATAAATTTTCTTATATGAATTTAT
* *
13651742 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
13651807 TAAT
66 TAAT
13651811 AAAATGTTCT
Statistics
Matches: 140, Mismatches: 11, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
91 82 0.59
92 2 0.01
93 1 0.01
100 3 0.02
101 52 0.37
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (99 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
TAATTTAATAATAAATTTTCTTATATGAATTTAT
Done.