Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 19 of 343
Found at i:6625576 original size:8 final size:8
Alignment explanation
Indices: 6625531--6625570 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
6625521 TAAGTATATG
6625531 ATATAATA
1 ATATAATA
*
6625539 ATATATTA
1 ATATAATA
6625547 ATATAATA
1 ATATAATA
*
6625555 AGATAATA
1 ATATAATA
6625563 ATATAATA
1 ATATAATA
6625571 TAATAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:6627205 original size:2 final size:2
Alignment explanation
Indices: 6627198--6627222 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6627188 AATGGGTTGA
6627198 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6627223 ACATATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6629850 original size:26 final size:26
Alignment explanation
Indices: 6629813--6629896 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
6629803 TGATACAAAT
* *
6629813 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6629839 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
6629865 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6629891 TGATAA
1 TGATAA
6629897 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6634137 original size:26 final size:26
Alignment explanation
Indices: 6634100--6634183 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6634090 TGATACAAAT
* *
6634100 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6634126 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6634152 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6634178 TGATAA
1 TGATAA
6634184 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6635693 original size:26 final size:26
Alignment explanation
Indices: 6635664--6635716 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6635654 TTTACAGTTT
6635664 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6635690 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6635716 T
1 T
6635717 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6640015 original size:20 final size:21
Alignment explanation
Indices: 6639972--6640016 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
6639962 TGATTAAACG
6639972 TTAAATGTGATTTTAATGGAT
1 TTAAATGTGATTTTAATGGAT
6639993 TTAAA-GTGATTTTAATAGG-T
1 TTAAATGTGATTTTAAT-GGAT
6640013 TTAA
1 TTAA
6640017 TTTAGAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (21 bp):
TTAAATGTGATTTTAATGGAT
Found at i:6641878 original size:27 final size:25
Alignment explanation
Indices: 6641848--6641911 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 25
6641838 ATATTTTATA
6641848 ATTATTTAATTAGATAAATATTATTTT
1 ATTATTTAATTAGATAAA-A-TATTTT
* *
6641875 ATTA-ATACTTTA-ATAAAATATTTT
1 ATTATTTA-ATTAGATAAAATATTTT
*
6641899 ATTATTTTATTAG
1 ATTATTTAATTAG
6641912 TATATAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
24 13 0.45
25 2 0.07
26 7 0.24
27 7 0.24
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (25 bp):
ATTATTTAATTAGATAAAATATTTT
Found at i:6644036 original size:38 final size:38
Alignment explanation
Indices: 6643985--6644138 Score: 227
Period size: 38 Copynumber: 3.8 Consensus size: 38
6643975 CTGATATGAA
6643985 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
6644023 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T
6644066 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
1 ---ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
*
6644107 GTGTGTAAGACCATGGTTGAAAGATACCATGG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGG
6644139 TTGAAAGATA
Statistics
Matches: 107, Mismatches: 1, Indels: 16
0.86 0.01 0.13
Matches are distributed among these distances:
38 68 0.64
41 1 0.01
43 1 0.01
46 37 0.35
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (38 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
Found at i:6644090 original size:46 final size:46
Alignment explanation
Indices: 6644023--6644424 Score: 318
Period size: 46 Copynumber: 8.7 Consensus size: 46
6644013 ATGGCAACCT
6644023 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
6644069 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
* * *
6644108 -TGTGTAAGACCATGGTTGAAAGATACCATGGTTGAA--AGATACCATGGCA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGG--CAACCTGAT---AT-GAA
** * * * * *
6644157 ACCTGATATGA-GAT-G-TGTAAG--ACCATGGTTGAA--AGATACCATGGCAA
1 ATGTG-TAAGACCATGGTTGAAAGATACCATGG--CAACCTGAT---AT-G-AA
*
6644204 CCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 -AT--GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
*
6644253 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
* *
6644299 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
* ** *
6644345 AAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AA
* * * *
6644391 ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCA
6644425 TCACGTCAAA
Statistics
Matches: 299, Mismatches: 30, Indels: 54
0.78 0.08 0.14
Matches are distributed among these distances:
38 31 0.10
40 2 0.01
41 2 0.01
45 1 0.00
46 215 0.72
47 2 0.01
48 6 0.02
49 7 0.02
50 9 0.03
51 7 0.02
52 7 0.02
54 10 0.03
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
Found at i:6644112 original size:84 final size:84
Alignment explanation
Indices: 6643975--6644138 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 84
6643965 AGTGTGCTCT
6643975 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
6644040 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
6644059 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
6644124 TGAAAGATACCATGG
66 TGAAAGATACCATGG
6644139 TTGAAAGATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:6644137 original size:16 final size:16
Alignment explanation
Indices: 6644116--6644154 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
6644106 TGTGTGTAAG
6644116 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
6644132 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
6644148 ACCATGG
1 ACCATGG
6644155 CAACCTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:6644152 original size:54 final size:57
Alignment explanation
Indices: 6644078--6644200 Score: 180
Period size: 62 Copynumber: 2.1 Consensus size: 57
6644068 AATGTGTAAG
6644078 ACCATGGTTGAAAGATACCATGGCAACC-T-G-TGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACCATAGATGTGTAAGACCATGGTTGAAAGAT
6644132 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACC----AT-AGATGTGTAAGACCATGGTTGAAAGAT
6644194 ACCATGG
1 ACCATGG
6644201 CAACCTGTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
54 28 0.46
59 1 0.02
61 1 0.02
62 31 0.51
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (57 bp):
ACCATGGTTGAAAGATACCATGGCAACCATAGATGTGTAAGACCATGGTTGAAAGAT
Found at i:6644167 original size:100 final size:100
Alignment explanation
Indices: 6644032--6644238 Score: 405
Period size: 100 Copynumber: 2.1 Consensus size: 100
6644022 TATGTGTAAG
6644032 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
6644097 ATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
66 ATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
*
6644132 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
6644197 ATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
66 ATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
6644232 ACCATGG
1 ACCATGG
6644239 CAACCTGATA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 106 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (100 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
Found at i:6644220 original size:84 final size:87
Alignment explanation
Indices: 6644132--6644380 Score: 378
Period size: 92 Copynumber: 2.8 Consensus size: 87
6644122 GTTGAAAGAT
*
6644132 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
6644197 ATGGCAACC-T-G-TGTGTAAG
66 ATGGCAACCATAGATGTGTAAG
6644216 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
6644281 ATGGCAACCTGATATGAGATGTGTAAG
66 ATGGCAACC----AT-AGATGTGTAAG
* * * **
6644308 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
6644373 ATGGCAAC
66 ATGGCAAC
6644381 ATGATAGAAA
Statistics
Matches: 151, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
84 73 0.48
89 1 0.01
91 1 0.01
92 76 0.50
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (87 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCATAGATGTGTAAG
Found at i:6644284 original size:184 final size:176
Alignment explanation
Indices: 6643975--6644380 Score: 643
Period size: 184 Copynumber: 2.3 Consensus size: 176
6643965 AGTGTGCTCT
6643975 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
6644040 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6644105 CTG-TGTGTAAGACCATGGTTGAAAGATACCATGGTTGAAAGATACCATGGCAAC
131 CTGATATG--AG---AT-G-TGAAAG--ACCATGGTTGAAAGATACCATGGCAAC
* *
6644159 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
6644224 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6644289 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
131 CTGATATGAGATGTGAAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
6644335 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6644381 ATGATAGAAA
Statistics
Matches: 211, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
176 67 0.32
178 5 0.02
179 1 0.00
180 2 0.01
183 2 0.01
184 131 0.62
185 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (176 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTATGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
CTGATATGAGATGTGAAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6644730 original size:23 final size:25
Alignment explanation
Indices: 6644685--6644731 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6644675 AATAAATATA
*
6644685 CATAAAATATATGGAAATGATGAAC
1 CATAAAATATATGGAAATAATGAAC
*
6644710 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
6644732 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAC
Found at i:6648063 original size:20 final size:21
Alignment explanation
Indices: 6648032--6648076 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
6648022 TTATTAAATG
6648032 TTAAATGTGATTTTAATGGGT
1 TTAAATGTGATTTTAATGGGT
6648053 TTAAA-GTGATTTTAATGGGT
1 TTAAATGTGATTTTAATGGGT
6648073 TTAA
1 TTAA
6648077 TTTAGAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (21 bp):
TTAAATGTGATTTTAATGGGT
Found at i:6648671 original size:7 final size:7
Alignment explanation
Indices: 6648659--6648684 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6648649 TTTATTTTAT
6648659 GTTTAGG
1 GTTTAGG
6648666 GTTTAGG
1 GTTTAGG
6648673 GTTTAGG
1 GTTTAGG
6648680 GTTTA
1 GTTTA
6648685 AGAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:6651481 original size:17 final size:18
Alignment explanation
Indices: 6651461--6651494 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6651451 AAGTTGATTG
6651461 AAATTGTG-AAATTAAAT
1 AAATTGTGAAAATTAAAT
6651478 AAATTGTGAAAATTAAA
1 AAATTGTGAAAATTAAA
6651495 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAATTGTGAAAATTAAAT
Found at i:6652108 original size:10 final size:10
Alignment explanation
Indices: 6652091--6652129 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
6652081 TTAAATTCTA
6652091 AAAGATAAAT
1 AAAGATAAAT
*
6652101 ACAGATAAAT
1 AAAGATAAAT
*
6652111 AAAGATAATT
1 AAAGATAAAT
6652121 AAAGATAAA
1 AAAGATAAA
6652130 AGCTGAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6656167 original size:16 final size:16
Alignment explanation
Indices: 6656146--6656176 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6656136 GATATTTTAA
6656146 TATATTATATTAATAT
1 TATATTATATTAATAT
*
6656162 TATATTATGTTAATA
1 TATATTATATTAATA
6656177 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:6661684 original size:516 final size:516
Alignment explanation
Indices: 6660712--6661748 Score: 2074
Period size: 516 Copynumber: 2.0 Consensus size: 516
6660702 TGGTAATGCC
6660712 ATTTGGGTTAACAAATGCCCCAGCTGCTTTTATGGATCTCATGAATCGTATCTTTCAGCCGTATT
1 ATTTGGGTTAACAAATGCCCCAGCTGCTTTTATGGATCTCATGAATCGTATCTTTCAGCCGTATT
6660777 TAGATCAGTTTGTGGTGGTTTTCATTGATGATATATTGCTATATTCGAAGACAGAGGCAGAACAT
66 TAGATCAGTTTGTGGTGGTTTTCATTGATGATATATTGCTATATTCGAAGACAGAGGCAGAACAT
6660842 GATCAGCATCTTCGAATAGTTCTACAAATTTTACGAAAGAAACAGTTATATGGAAAGCTTAGTAA
131 GATCAGCATCTTCGAATAGTTCTACAAATTTTACGAAAGAAACAGTTATATGGAAAGCTTAGTAA
6660907 ATGCGAGTTCTGGTTATCAGAAGTGGTATTTCTGGGACATGTAATATCTGCAGATGGAATTCGAG
196 ATGCGAGTTCTGGTTATCAGAAGTGGTATTTCTGGGACATGTAATATCTGCAGATGGAATTCGAG
6660972 TTGATCCGAAAAAGATCGAAGCAATTGTTCAGTGGAAGGCGCCAAATAATGTATCGGAGGTACGT
261 TTGATCCGAAAAAGATCGAAGCAATTGTTCAGTGGAAGGCGCCAAATAATGTATCGGAGGTACGT
6661037 AGTTTTCTCGGTTTAGCTAGGTATTACAGGAGGTTTGTAAATGGATTCTCGAAGATAGCACTACC
326 AGTTTTCTCGGTTTAGCTAGGTATTACAGGAGGTTTGTAAATGGATTCTCGAAGATAGCACTACC
6661102 AATGACTAAACTATTGCATAAGAATGTTCATTTTATTTGGGATGATTAATGTTAGAAAAGTTTTG
391 AATGACTAAACTATTGCATAAGAATGTTCATTTTATTTGGGATGATTAATGTTAGAAAAGTTTTG
6661167 AAACATTGAAGCGAATGTTAACCGAAGCACCAGTTTTGATATTGCCAGAATCGGGTAAAGA
456 AAACATTGAAGCGAATGTTAACCGAAGCACCAGTTTTGATATTGCCAGAATCGGGTAAAGA
6661228 ATTTGGGTTAACAAATGCCCCAGCTGCTTTTATGGATCTCATGAATCGTATCTTTCAGCCGTATT
1 ATTTGGGTTAACAAATGCCCCAGCTGCTTTTATGGATCTCATGAATCGTATCTTTCAGCCGTATT
6661293 TAGATCAGTTTGTGGTGGTTTTCATTGATGATATATTGCTATATTCGAAGACAGAGGCAGAACAT
66 TAGATCAGTTTGTGGTGGTTTTCATTGATGATATATTGCTATATTCGAAGACAGAGGCAGAACAT
6661358 GATCAGCATCTTCGAATAGTTCTACAAATTTTACGAAAGAAACAGTTATATGGAAAGCTTAGTAA
131 GATCAGCATCTTCGAATAGTTCTACAAATTTTACGAAAGAAACAGTTATATGGAAAGCTTAGTAA
6661423 ATGCGAGTTCTGGTTATCAGAAGTGGTATTTCTGGGACATGTAATATCTGCAGATGGAATTCGAG
196 ATGCGAGTTCTGGTTATCAGAAGTGGTATTTCTGGGACATGTAATATCTGCAGATGGAATTCGAG
6661488 TTGATCCGAAAAAGATCGAAGCAATTGTTCAGTGGAAGGCGCCAAATAATGTATCGGAGGTACGT
261 TTGATCCGAAAAAGATCGAAGCAATTGTTCAGTGGAAGGCGCCAAATAATGTATCGGAGGTACGT
6661553 AGTTTTCTCGGTTTAGCTAGGTATTACAGGAGGTTTGTAAATGGATTCTCGAAGATAGCACTACC
326 AGTTTTCTCGGTTTAGCTAGGTATTACAGGAGGTTTGTAAATGGATTCTCGAAGATAGCACTACC
6661618 AATGACTAAACTATTGCATAAGAATGTTCATTTTATTTGGGATGATTAATGTTAGAAAAGTTTTG
391 AATGACTAAACTATTGCATAAGAATGTTCATTTTATTTGGGATGATTAATGTTAGAAAAGTTTTG
6661683 AAACATTGAAGCGAATGTTAACCGAAGCACCAGTTTTGATATTGCCAGAATCGGGTAAAGA
456 AAACATTGAAGCGAATGTTAACCGAAGCACCAGTTTTGATATTGCCAGAATCGGGTAAAGA
6661744 ATTTG
1 ATTTG
6661749 TAGTGTATAG
Statistics
Matches: 521, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
516 521 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (516 bp):
ATTTGGGTTAACAAATGCCCCAGCTGCTTTTATGGATCTCATGAATCGTATCTTTCAGCCGTATT
TAGATCAGTTTGTGGTGGTTTTCATTGATGATATATTGCTATATTCGAAGACAGAGGCAGAACAT
GATCAGCATCTTCGAATAGTTCTACAAATTTTACGAAAGAAACAGTTATATGGAAAGCTTAGTAA
ATGCGAGTTCTGGTTATCAGAAGTGGTATTTCTGGGACATGTAATATCTGCAGATGGAATTCGAG
TTGATCCGAAAAAGATCGAAGCAATTGTTCAGTGGAAGGCGCCAAATAATGTATCGGAGGTACGT
AGTTTTCTCGGTTTAGCTAGGTATTACAGGAGGTTTGTAAATGGATTCTCGAAGATAGCACTACC
AATGACTAAACTATTGCATAAGAATGTTCATTTTATTTGGGATGATTAATGTTAGAAAAGTTTTG
AAACATTGAAGCGAATGTTAACCGAAGCACCAGTTTTGATATTGCCAGAATCGGGTAAAGA
Found at i:6664289 original size:16 final size:16
Alignment explanation
Indices: 6664268--6664298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6664258 GATATTTTAA
6664268 TATATTATATTAATAT
1 TATATTATATTAATAT
*
6664284 TATATTATGTTAATA
1 TATATTATATTAATA
6664299 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:6667368 original size:24 final size:25
Alignment explanation
Indices: 6667340--6667388 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6667330 AAATATAAAA
*
6667340 TAATAT-ATTTAAATTACACCTATT
1 TAATATAATTAAAATTACACCTATT
*
6667364 TAATATAATTAAAATTATACCTATT
1 TAATATAATTAAAATTACACCTATT
6667389 CGTAATCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATATAATTAAAATTACACCTATT
Found at i:6667532 original size:16 final size:16
Alignment explanation
Indices: 6667511--6667542 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6667501 TGGTTGCAAA
*
6667511 TTTTATAAATTATAAT
1 TTTTATAAAATATAAT
6667527 TTTTATAAAATATAAT
1 TTTTATAAAATATAAT
6667543 AAATTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTATAAAATATAAT
Found at i:6672104 original size:1 final size:1
Alignment explanation
Indices: 6672098--6672146 Score: 62
Period size: 1 Copynumber: 49.0 Consensus size: 1
6672088 TTATAATACC
* * * *
6672098 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAGAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6672147 GGAGGCCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.92, C:0.02, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:6676413 original size:3 final size:3
Alignment explanation
Indices: 6676399--6676752 Score: 70
Period size: 3 Copynumber: 117.0 Consensus size: 3
6676389 AATAGGACGG
* * * * *
6676399 ATA ATA AAA ATA ATA GTA ATA ATA ATA AT- ATA ATG GTA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
6676446 AAA AAA AGTTA GT- ATA ATG ATG ATA ATA GTG TTA AAA ATA ATA ATA
1 ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
6676492 ATA ATA A-A CA-A ACTA CATA TTA ATG ATA ATA GAAA ATA ATA ATA ATA
1 ATA ATA ATA -ATA A-TA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
6676539 ATA GTA ATA AT- ATA CGTG CTA ATA ATA ATA ACA AT- ATA A-A A-A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
6676581 AAA AGA A-A ATA ATA CT- ATA TTG ATA AAA ATA ATA ATT GTA GATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA
* * * * * *
6676626 ATA ATA ATA GTA ATA AAA AGGTA A-A AGTA ATA AAA ATA CTA TTA CGTTA
1 ATA ATA ATA ATA ATA ATA A--TA ATA A-TA ATA ATA ATA ATA ATA --ATA
* * * * * *
6676675 CTA CTA ATA ATA ATA ATA A-A GAAA ATA GTA ATA GT- ATA TAGA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA
*
6676720 ATA GTA A-A AGTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
6676753 TTATTATTAT
Statistics
Matches: 252, Mismatches: 70, Indels: 58
0.66 0.18 0.15
Matches are distributed among these distances:
2 22 0.09
3 207 0.82
4 14 0.06
5 9 0.04
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6677080 original size:24 final size:25
Alignment explanation
Indices: 6677047--6677100 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
6677037 ATCTCTTGTA
*
6677047 TTTTTTGTATT-GAAAGTCTCTC-T
1 TTTTTTGTATTCGAAACTCTCTCAT
*
6677070 TTTTCTTGTATTCGAATCTCTCTCAT
1 TTTT-TTGTATTCGAAACTCTCTCAT
6677096 TTTTT
1 TTTTT
6677101 CTCAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 7 0.27
25 10 0.38
26 5 0.19
ACGTcount: A:0.15, C:0.17, G:0.09, T:0.59
Consensus pattern (25 bp):
TTTTTTGTATTCGAAACTCTCTCAT
Found at i:6677231 original size:12 final size:12
Alignment explanation
Indices: 6677214--6677243 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6677204 GGTAATAGAG
*
6677214 TTAGTGGTTGGT
1 TTAGTGGTTGAT
6677226 TTAGTGGTTGAT
1 TTAGTGGTTGAT
6677238 TTAGTG
1 TTAGTG
6677244 AGGTGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (12 bp):
TTAGTGGTTGAT
Found at i:6678958 original size:12 final size:12
Alignment explanation
Indices: 6678941--6678965 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6678931 GATGATAGGC
6678941 TGATCAACAAGG
1 TGATCAACAAGG
6678953 TGATCAACAAGG
1 TGATCAACAAGG
6678965 T
1 T
6678966 TTTTGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (12 bp):
TGATCAACAAGG
Found at i:6679823 original size:32 final size:33
Alignment explanation
Indices: 6679787--6679859 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
6679777 TAGTTTTTAT
6679787 AAAATATTTT-CAGAAAATTTA-CCAAACAACAG
1 AAAATATTTTACA-AAAATTTATCCAAACAACAG
* ** *
6679819 AAAATATTTTACACAGGTTTATCCAAACACCAG
1 AAAATATTTTACAAAAATTTATCCAAACAACAG
6679852 AAAATATT
1 AAAATATT
6679860 AGCTTATCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 15 0.43
33 20 0.57
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.27
Consensus pattern (33 bp):
AAAATATTTTACAAAAATTTATCCAAACAACAG
Found at i:6679924 original size:14 final size:14
Alignment explanation
Indices: 6679884--6679917 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6679874 AGTAAGCCAT
6679884 TTTTCA-GAAATCA
1 TTTTCAGGAAATCA
*
6679897 TTTTCTGGAAATCA
1 TTTTCAGGAAATCA
6679911 TTTTCAG
1 TTTTCAG
6679918 TCAATCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (14 bp):
TTTTCAGGAAATCA
Found at i:6680783 original size:21 final size:19
Alignment explanation
Indices: 6680759--6680811 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
6680749 TTATAACACT
6680759 TTTAAATTAAAATAAAATTAA
1 TTTAAATTAAAA-AAAA-TAA
*
6680780 TTTAAATTATAAAAAAATAC
1 TTTAAATTA-AAAAAAATAA
6680800 TTT-AATTAAAAA
1 TTTAAATTAAAAA
6680812 TTTTCAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 5 0.17
21 13 0.43
22 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAAATTAAAAAAAATAA
Found at i:6682008 original size:15 final size:16
Alignment explanation
Indices: 6681977--6682011 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6681967 TATAAAAAAA
*
6681977 ATTATTTTAATTTTTT
1 ATTATTTCAATTTTTT
6681993 ATTATTTCAA-TTTTT
1 ATTATTTCAATTTTTT
6682008 ATTA
1 ATTA
6682012 AATCACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATTTCAATTTTTT
Found at i:6682125 original size:8 final size:8
Alignment explanation
Indices: 6682112--6682145 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
6682102 TTAGTTACTT
6682112 TTTAAAAA
1 TTTAAAAA
6682120 TTTAAAAA
1 TTTAAAAA
6682128 TTTTAAAAAA
1 -TTT-AAAAA
6682138 TTTAAAAA
1 TTTAAAAA
6682146 GTTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 13 0.54
9 6 0.25
10 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTTAAAAA
Found at i:6682132 original size:9 final size:9
Alignment explanation
Indices: 6682111--6682232 Score: 55
Period size: 9 Copynumber: 14.3 Consensus size: 9
6682101 TTTAGTTACT
6682111 TTTTAAAAA
1 TTTTAAAAA
6682120 -TTTAAAAA
1 TTTTAAAAA
6682128 TTTTAAAAA
1 TTTTAAAAA
*
6682137 ATTTAAAAA
1 TTTTAAAAA
* **
6682146 -GTT--ATT
1 TTTTAAAAA
6682152 TTTTAAAAA
1 TTTTAAAAA
*
6682161 --CTAAAAA
1 TTTTAAAAA
6682168 TTATT-AAAA
1 TT-TTAAAAA
6682177 TTATTAAAAA
1 TT-TTAAAAA
* *
6682187 GTATAAAAA
1 TTTTAAAAA
* *
6682196 --TTATAAC
1 TTTTAAAAA
*
6682203 TTTTAAATA
1 TTTTAAAAA
*
6682212 TTTTTAAAA
1 TTTTAAAAA
*
6682221 TTTTTAAAA
1 TTTTAAAAA
6682230 TTT
1 TTT
6682233 AATTAAATGT
Statistics
Matches: 84, Mismatches: 19, Indels: 20
0.68 0.15 0.16
Matches are distributed among these distances:
6 1 0.01
7 12 0.14
8 10 0.12
9 55 0.65
10 6 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:6682136 original size:18 final size:18
Alignment explanation
Indices: 6682110--6682145 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6682100 ATTTAGTTAC
*
6682110 TTTTTAAAAATTTAAAAA
1 TTTTAAAAAATTTAAAAA
6682128 TTTTAAAAAATTTAAAAA
1 TTTTAAAAAATTTAAAAA
6682146 GTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTTAAAAAATTTAAAAA
Found at i:6682186 original size:19 final size:19
Alignment explanation
Indices: 6682162--6682199 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6682152 TTTTAAAAAC
* *
6682162 TAAAAATTATTAAAATTAT
1 TAAAAAGTATAAAAATTAT
6682181 TAAAAAGTATAAAAATTAT
1 TAAAAAGTATAAAAATTAT
6682200 AACTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TAAAAAGTATAAAAATTAT
Found at i:6684503 original size:18 final size:20
Alignment explanation
Indices: 6684466--6684504 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6684456 CATTGCTGAA
*
6684466 TAAATAAAAATTATGATTAT
1 TAAATAAAAATCATGATTAT
6684486 TAAA-AAAAATCATG-TTAT
1 TAAATAAAAATCATGATTAT
6684504 T
1 T
6684505 TTGTTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAATAAAAATCATGATTAT
Found at i:6692520 original size:6 final size:6
Alignment explanation
Indices: 6692509--6692543 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
6692499 ATTGTGGTTT
6692509 CCGAGA CCGAGA CCGAGA CCGAGA CCGAGA CCGAG
1 CCGAGA CCGAGA CCGAGA CCGAGA CCGAGA CCGAG
6692544 GGAAGGGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.34, T:0.00
Consensus pattern (6 bp):
CCGAGA
Found at i:6697249 original size:25 final size:25
Alignment explanation
Indices: 6697194--6697249 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
6697184 GACGTATGTG
* * * *
6697194 TATAAAATTATTTGAATATAATATC
1 TATATAATAATTTAAATATAATATA
* *
6697219 TTTATAATAATTTAAATATATTATA
1 TATATAATAATTTAAATATAATATA
6697244 TATATA
1 TATATA
6697250 TAGGTTTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATAATAATTTAAATATAATATA
Found at i:6697545 original size:17 final size:17
Alignment explanation
Indices: 6697522--6697560 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6697512 ATAAATATGA
6697522 AAAATATT-ATATAAAT
1 AAAATATTAATATAAAT
*
6697538 ACAAATATTAATATTAAT
1 A-AAATATTAATATAAAT
6697556 AAAAT
1 AAAAT
6697561 GAGTAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 11 0.55
18 8 0.40
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATATTAATATAAAT
Found at i:6719052 original size:77 final size:77
Alignment explanation
Indices: 6718924--6719071 Score: 233
Period size: 77 Copynumber: 1.9 Consensus size: 77
6718914 CATTCCCTAA
* * *
6718924 TTCCAACAAGGATTGTGTCCGATTTAGTTGAAATTAGAGTCAAGTACAAATGTACCATGATATTA
1 TTCCAACAAGGATTGAGTCAGATTTAGTTGAAATTAGAGTCAAGTACAAATGTACAATGATATTA
6718989 ACTAAAGGATAG
66 ACTAAAGGATAG
* * * *
6719001 TTCCAACAAGGATTGAGTCAGGTTTGGTTGAAATTAGAGTTAAGTAGAAATGTACAATGATATTA
1 TTCCAACAAGGATTGAGTCAGATTTAGTTGAAATTAGAGTCAAGTACAAATGTACAATGATATTA
6719066 ACTAAA
66 ACTAAA
6719072 AGGGTAGGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (77 bp):
TTCCAACAAGGATTGAGTCAGATTTAGTTGAAATTAGAGTCAAGTACAAATGTACAATGATATTA
ACTAAAGGATAG
Found at i:6736662 original size:16 final size:17
Alignment explanation
Indices: 6736641--6736675 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6736631 TTTAATGTCC
6736641 AATTTAATT-TTTAATT
1 AATTTAATTATTTAATT
*
6736657 AATTTAATTATTTATTT
1 AATTTAATTATTTAATT
6736674 AA
1 AA
6736676 GCTGTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTAATTATTTAATT
Found at i:6737572 original size:22 final size:23
Alignment explanation
Indices: 6737531--6737573 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6737521 CTATTGGTTC
*
6737531 AAATCTTCTAAAATCAAACAAAA
1 AAATCTTCTAAAACCAAACAAAA
*
6737554 AAATCTT-TAAAACCCAACAA
1 AAATCTTCTAAAACCAAACAA
6737574 CTTTTGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATCTTCTAAAACCAAACAAAA
Found at i:6737784 original size:83 final size:84
Alignment explanation
Indices: 6737614--6737786 Score: 226
Period size: 83 Copynumber: 2.1 Consensus size: 84
6737604 CGCTACACCA
*
6737614 ACCATCCGGAATGCTCCCTCCCCATACACAAATCTATAGTATGATTAGTCATTCATGTTCTTTAG
1 ACCATCCGGAATGCTCCCTCCCCATACACAAATCTATAGGATGATTAGTCATTCATGTTCTTTAG
*
6737679 ATCTGTCAAAATTTCTTAG
66 ATCTATCAAAATTTCTTAG
* *
6737698 ACCATCCTGAACT-CTCCCTTCCCGA-ACACAAATCTATAGGATGA-TAGTCATTCATGTTCTTT
1 ACCATCCGGAA-TGCTCCC-TCCCCATACACAAATCTATAGGATGATTAGTCATTCATGTTCTTT
* * ** *
6737760 GGATTTATTGAAATTTGTTAG
64 AGATCTATCAAAATTTCTTAG
6737781 ACCATC
1 ACCATC
6737787 TTAAATTATT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
83 39 0.50
84 33 0.42
85 6 0.08
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (84 bp):
ACCATCCGGAATGCTCCCTCCCCATACACAAATCTATAGGATGATTAGTCATTCATGTTCTTTAG
ATCTATCAAAATTTCTTAG
Found at i:6748533 original size:13 final size:13
Alignment explanation
Indices: 6748517--6748549 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6748507 TTTAATTAAA
*
6748517 TTAGTTAATTAGT
1 TTAGATAATTAGT
6748530 TTAGATAATTAGT
1 TTAGATAATTAGT
6748543 TTA-ATAA
1 TTAGATAA
6748550 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:6756531 original size:22 final size:23
Alignment explanation
Indices: 6756479--6756536 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
6756469 TTTAGAAACT
*
6756479 TTATTTCTTATAAATAAATTATA
1 TTATTTTTTATAAATAAATTATA
** *
6756502 ACACTTTTTATAAATAAA-TATA
1 TTATTTTTTATAAATAAATTATA
6756524 TTATTTTTTATAA
1 TTATTTTTTATAA
6756537 TATATAGGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTTTTTATAAATAAATTATA
Found at i:6756675 original size:85 final size:87
Alignment explanation
Indices: 6756556--6756737 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 87
6756546 TTAAGGGTGT
* * *
6756556 AAAAAG-CCTTCAAACTTTTTCAAAAAATGCAATTAAGCCCCT-TTTTTTATG-TTCAATTGGAT
1 AAAAAGACCTTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTATTTTTTATGACTCAATTGGAT
* *
6756618 ACTTGAACTTTCAAAATGCATC
66 ACTTGAAATTTCAAAATACATC
* *
6756640 AAAAAGACCTTCAAA-TATTTTCAAAAAAAGAAATTATGCCCCTACTTTTTTTTGCACTCAATTG
1 AAAAAGACCTTCAAACT-TTTTCAAAAAAAGAAATTAAGCCCCTA-TTTTTTATG-ACTCAATTG
*
6756704 GGTACTTGAAATTTCAAAATACATC
63 GATACTTGAAATTTCAAAATACATC
*
6756729 AATAAGACC
1 AAAAAGACC
6756738 CTCTAATTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
84 7 0.08
85 31 0.37
87 8 0.10
89 37 0.45
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (87 bp):
AAAAAGACCTTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTATTTTTTATGACTCAATTGGAT
ACTTGAAATTTCAAAATACATC
Found at i:6756750 original size:89 final size:85
Alignment explanation
Indices: 6756556--6756759 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 85
6756546 TTAAGGGTGT
* * * * *
6756556 AAAAAG-CCTTCAAACTTTTTCAAAAAATGCAATTAAGCCCCTTTTTTTATGTTCAATTGGATAC
1 AAAAAGACCCTCAAATTTTTTCAAAAAAAGAAATTAAGCCCCTTTTTTTATGCTCAATTGGATAC
* *
6756620 TTGAACTTTCAAAATGCATC
66 TTGAAATTTCAAAATACATC
* * * *
6756640 AAAAAGACCTTCAAATATTTTCAAAAAAAGAAATTATGCCCCTACTTTTTTTTGCACTCAATTGG
1 AAAAAGACCCTCAAATTTTTTCAAAAAAAGAAATTAAGCCCCT--TTTTTTATG--CTCAATTGG
*
6756705 GTACTTGAAATTTCAAAATACATC
62 ATACTTGAAATTTCAAAATACATC
* *
6756729 AATAAGACCCTCTAATTTTTTCGACAAAAAA
1 AAAAAGACCCTCAAATTTTTTC-A-AAAAAA
6756760 AAAACAATTA
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 6 0.06
85 31 0.31
87 8 0.08
89 47 0.47
90 1 0.01
91 6 0.06
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (85 bp):
AAAAAGACCCTCAAATTTTTTCAAAAAAAGAAATTAAGCCCCTTTTTTTATGCTCAATTGGATAC
TTGAAATTTCAAAATACATC
Found at i:6760473 original size:22 final size:22
Alignment explanation
Indices: 6760442--6760486 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6760432 AAATTATGAT
6760442 TTAAATTTTAAAACATT-TTAA
1 TTAAATTTTAAAACATTGTTAA
*
6760463 TTAAACTTTTAAAATATTGTTAA
1 TTAAA-TTTTAAAACATTGTTAA
6760486 T
1 T
6760487 ATTTTTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAAATTTTAAAACATTGTTAA
Found at i:6761789 original size:17 final size:16
Alignment explanation
Indices: 6761750--6761792 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6761740 CACCAAAAAA
*
6761750 AATATAAAAAATTATG
1 AATATAAAAAAATATG
*
6761766 -TTATAAAAATAATATG
1 AATATAAAAA-AATATG
6761782 AATATAAAAAA
1 AATATAAAAAA
6761793 CTACTAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AATATAAAAAAATATG
Found at i:6762308 original size:6 final size:6
Alignment explanation
Indices: 6762297--6762321 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6762287 CGATTTTCTG
6762297 CTTCCC CTTCCC CTTCCC CTTCCC C
1 CTTCCC CTTCCC CTTCCC CTTCCC C
6762322 CATCCTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CTTCCC
Found at i:6763148 original size:27 final size:27
Alignment explanation
Indices: 6763110--6763164 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
6763100 TATTGATACC
6763110 GACTAAACTGTTAGAATTTAAGGCTGT
1 GACTAAACTGTTAGAATTTAAGGCTGT
*
6763137 GACTAAACTGTTAGAATTTAAGGTTGT
1 GACTAAACTGTTAGAATTTAAGGCTGT
6763164 G
1 G
6763165 CTGTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (27 bp):
GACTAAACTGTTAGAATTTAAGGCTGT
Found at i:6765781 original size:19 final size:19
Alignment explanation
Indices: 6765737--6765774 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6765727 CATCTCAACA
6765737 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
6765756 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
6765775 TCCGAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:6765802 original size:14 final size:13
Alignment explanation
Indices: 6765766--6765791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6765756 CCAGAAAAGT
6765766 AAATCATTTTCCG
1 AAATCATTTTCCG
6765779 AAATCATTTTCCG
1 AAATCATTTTCCG
6765792 GAAAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:6766020 original size:28 final size:29
Alignment explanation
Indices: 6765971--6766029 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
6765961 AAAAGCCATA
*
6765971 TTATCTTTTTAATTTTGTTTATTTCACCT
1 TTATCTTTTTAATTTTCTTTATTTCACCT
*
6766000 TTATCTTTTTAA-TTTCTTTATTTCCCCT
1 TTATCTTTTTAATTTTCTTTATTTCACCT
6766028 TT
1 TT
6766030 TTAGAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (29 bp):
TTATCTTTTTAATTTTCTTTATTTCACCT
Found at i:6766112 original size:16 final size:16
Alignment explanation
Indices: 6766091--6766160 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
6766081 TTTGGTTCGC
* * *
6766091 TGTATTGGATTAGAGA
1 TGTAATGGAATAGAGG
* *
6766107 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
6766123 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
6766139 TGTAATGGAATAGAAG
1 TGTAATGGAATAGAGG
6766155 TGTAAT
1 TGTAAT
6766161 AACAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:6766416 original size:18 final size:17
Alignment explanation
Indices: 6766394--6766428 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6766384 TTATTATTAA
*
6766394 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6766412 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6766429 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:6766487 original size:61 final size:61
Alignment explanation
Indices: 6766409--6766728 Score: 231
Period size: 61 Copynumber: 5.3 Consensus size: 61
6766399 TTTTAATTAA
* *
6766409 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* * * * * * *
6766470 AATATATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGAAT-TTACTCAAATAAT
* *
6766529 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* * * * * * *
6766590 AATATATGATACTATAAAAGATAAT-TTAA-CA-TAATTATTATTAAAT--ATATA-TTAATTAA
1 AATATATAATACTAT-AAA-AT--TCTTAATAATTAA-TATTCTTATATGAATTTACTCAAATAA
6766649 -
61 T
* *
6766649 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
*
6766710 AATATATTATACTATAAAA
1 AATATATAATACTATAAAA
6766729 GATAATTTGA
Statistics
Matches: 194, Mismatches: 38, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
55 1 0.01
56 4 0.02
57 21 0.11
58 14 0.07
59 36 0.19
60 27 0.14
61 51 0.26
62 15 0.08
63 20 0.10
64 4 0.02
65 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
Found at i:6766542 original size:14 final size:15
Alignment explanation
Indices: 6766493--6766544 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6766483 ATAAAATATA
6766493 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
6766508 TATTAAATATATTAT
1 AATTAAATATATTAT
6766523 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
6766536 AATTTAATA
1 AATTAAATA
6766545 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:6766653 original size:14 final size:15
Alignment explanation
Indices: 6766625--6766664 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
6766615 TTAACATAAT
6766625 TATT-ATTAAATATA
1 TATTAATTAAATATA
6766639 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
6766653 TA-TAATTTAATA
1 TATTAATTAAATA
6766665 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:6766655 original size:18 final size:17
Alignment explanation
Indices: 6766632--6766668 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
6766622 AATTATTATT
6766632 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
6766648 AAATATATAATTTAATA
1 AAATATATAATTTAATA
6766665 AAAT
1 AAAT
6766669 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:6766800 original size:120 final size:120
Alignment explanation
Indices: 6766380--6766789 Score: 723
Period size: 120 Copynumber: 3.4 Consensus size: 120
6766370 ATATTTAAAT
6766380 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* * * *
6766445 TCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
6766500 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
6766565 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
6766620 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
6766685 TCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AAC
* *
6766740 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
6766790 TAAAATAATT
Statistics
Matches: 278, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
120 276 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:6766873 original size:39 final size:40
Alignment explanation
Indices: 6766828--6766912 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
6766818 TAAGTGAGTA
6766828 AGAATTGAACTCTAAAAAT-AAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
6766867 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
*
6766907 TGAATT
1 AGAATT
6766913 ATCATCAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 19 0.43
40 25 0.57
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.22
Consensus pattern (40 bp):
AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
Found at i:6778160 original size:8 final size:8
Alignment explanation
Indices: 6778147--6778178 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
6778137 ATTTAGTATC
6778147 TTAAAAAT
1 TTAAAAAT
6778155 TTAAAAAT
1 TTAAAAAT
6778163 TTAAAAAT
1 TTAAAAAT
6778171 TTAAAAAT
1 TTAAAAAT
6778179 AAAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAAAAT
Found at i:6781886 original size:12 final size:12
Alignment explanation
Indices: 6781869--6781916 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
6781859 TGGGAGTAAA
6781869 GTTTTATATTTG
1 GTTTTATATTTG
*
6781881 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
6781896 GTTTTATATTTG
1 GTTTTATATTTG
6781908 GTTTTATAT
1 GTTTTATAT
6781917 GTTAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:6781899 original size:27 final size:27
Alignment explanation
Indices: 6781865--6781921 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
6781855 TTAGTGGGAG
6781865 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
6781892 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
6781919 TAA
1 TAA
6781922 TGACATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:6783854 original size:14 final size:14
Alignment explanation
Indices: 6783835--6783881 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 14
6783825 TCATCGTCTT
6783835 AAAACTAAAATATA
1 AAAACTAAAATATA
6783849 AAAACT-AAAT-TA
1 AAAACTAAAATATA
6783861 AAAA--AAAATATA
1 AAAACTAAAATATA
*
6783873 AAGACTAAA
1 AAAACTAAA
6783882 TCTTAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
11 4 0.14
12 11 0.39
13 4 0.14
14 9 0.32
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAACTAAAATATA
Found at i:6786714 original size:20 final size:20
Alignment explanation
Indices: 6786689--6786729 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6786679 GGCCATAAAA
6786689 TCCTTAAAGCCACAACCAAG
1 TCCTTAAAGCCACAACCAAG
6786709 TCCTTAAAGCCACAACCAAG
1 TCCTTAAAGCCACAACCAAG
6786729 T
1 T
6786730 AGATGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.17
Consensus pattern (20 bp):
TCCTTAAAGCCACAACCAAG
Found at i:6789314 original size:57 final size:57
Alignment explanation
Indices: 6789226--6789343 Score: 218
Period size: 57 Copynumber: 2.1 Consensus size: 57
6789216 ATGGCATTAG
*
6789226 TTGTCGGCCATGGATTCGAGAATTACAGTCGAGCATCGTAGCAAGGTAAATCATAGT
1 TTGTCGGCCATGGATTCGAGAATTACAGTCGAGCATCATAGCAAGGTAAATCATAGT
*
6789283 TTGTCGGCCATGGATTTGAGAATTACAGTCGAGCATCATAGCAAGGTAAATCATAGT
1 TTGTCGGCCATGGATTCGAGAATTACAGTCGAGCATCATAGCAAGGTAAATCATAGT
6789340 TTGT
1 TTGT
6789344 TACTGCAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (57 bp):
TTGTCGGCCATGGATTCGAGAATTACAGTCGAGCATCATAGCAAGGTAAATCATAGT
Found at i:6790851 original size:13 final size:11
Alignment explanation
Indices: 6790823--6790865 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
6790813 AGTTAAATAT
6790823 TATTTTATTAA
1 TATTTTATTAA
6790834 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
6790847 TA-TTTATTAT
1 TATTTTATTAA
6790857 TATTTTATT
1 TATTTTATT
6790866 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6790852 original size:23 final size:23
Alignment explanation
Indices: 6790826--6790869 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6790816 TAAATATTAT
6790826 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
6790849 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
6790870 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:6803115 original size:118 final size:118
Alignment explanation
Indices: 6802955--6803185 Score: 363
Period size: 118 Copynumber: 2.0 Consensus size: 118
6802945 TATTTCCGGT
* *
6802955 TAGCGGAGTTTTACCCAACACGTCACACAACGTTTTGACGCGAAGTAGAATGATAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* * *
6803020 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGATTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
6803073 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
6803138 CCTACCCCGATTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGATTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
6803186 ATGGAAAACA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 102 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGATTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:6804178 original size:10 final size:10
Alignment explanation
Indices: 6804165--6804189 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6804155 AATAATAAAT
6804165 AATAAAGGAA
1 AATAAAGGAA
6804175 AATAAAGGAA
1 AATAAAGGAA
6804185 AATAA
1 AATAA
6804190 TAAATAAAAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (10 bp):
AATAAAGGAA
Found at i:6804190 original size:30 final size:29
Alignment explanation
Indices: 6804154--6804210 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
6804144 ATAAAATAAT
*
6804154 AAATAATAAATAATAAAGGAAAATAAAGGA
1 AAATAATAAATAA-AAAGAAAAATAAAGGA
*
6804184 AAATAATAAATAAAAATAAAAATAAAG
1 AAATAATAAATAAAAAGAAAAATAAAG
6804211 ATTGGGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (29 bp):
AAATAATAAATAAAAAGAAAAATAAAGGA
Found at i:6807988 original size:27 final size:27
Alignment explanation
Indices: 6807958--6808015 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
6807948 AGATAATTAA
6807958 AATAA-AATCTTAA-ATTTGAATAATCCT
1 AATAATAATCTTAATA-TT-AATAATCCT
* *
6807985 AATAATTATCTTAATATTAATTATCCT
1 AATAATAATCTTAATATTAATAATCCT
6808012 AATA
1 AATA
6808016 GAATAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.63
28 9 0.33
29 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (27 bp):
AATAATAATCTTAATATTAATAATCCT
Found at i:6809202 original size:80 final size:80
Alignment explanation
Indices: 6809115--6809271 Score: 278
Period size: 80 Copynumber: 2.0 Consensus size: 80
6809105 CCTCCAATTG
* * *
6809115 TCTTACTTGTAAAACTTTAATATTTGTGTTTATTTTATAAACTTTGTTATCTTTGATTGAATGTC
1 TCTTACTTGTAAAACTTTAAAATTTGTGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATC
6809180 ATGTTTTTATGGAGC
66 ATGTTTTTATGGAGC
*
6809195 TCTTACTTGTAAAACTTTAAAATTTGTGTTAATTTTATAAACTTTGTTTTCTTTGATTGAATATC
1 TCTTACTTGTAAAACTTTAAAATTTGTGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATC
6809260 ATGTTTTTATGG
66 ATGTTTTTATGG
6809272 GGACTTGAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (80 bp):
TCTTACTTGTAAAACTTTAAAATTTGTGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATC
ATGTTTTTATGGAGC
Found at i:6816076 original size:73 final size:73
Alignment explanation
Indices: 6815989--6816174 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
6815979 ACAACTTGAC
6815989 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6816054 CACTAACA
66 CACTAACA
6816062 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6816127 CACTAACA
66 CACTAACA
*
6816135 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
6816175 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:6816183 original size:3 final size:3
Alignment explanation
Indices: 6816175--6816203 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6816165 ATTACATCCA
6816175 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6816204 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6820507 original size:73 final size:73
Alignment explanation
Indices: 6820420--6820678 Score: 509
Period size: 73 Copynumber: 3.5 Consensus size: 73
6820410 ACAACTTGAC
6820420 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6820485 CACTAACA
66 CACTAACA
6820493 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6820558 CACTAACA
66 CACTAACA
6820566 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6820631 CACTAACA
66 CACTAACA
*
6820639 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
6820679 AATAATAATA
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 185 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:6834636 original size:19 final size:21
Alignment explanation
Indices: 6834596--6834636 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6834586 ACACTTTAAC
*
6834596 ACATTCACAAGCCAATCCAAG
1 ACATTCACAAACCAATCCAAG
6834617 ACATTCA-AAACCAA-CCAAG
1 ACATTCACAAACCAATCCAAG
6834636 A
1 A
6834637 TCAAGTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.49, C:0.32, G:0.07, T:0.12
Consensus pattern (21 bp):
ACATTCACAAACCAATCCAAG
Found at i:6835423 original size:25 final size:25
Alignment explanation
Indices: 6835395--6835452 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
6835385 GCCCTCTCTC
* **
6835395 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAACTCATAA
* *
6835420 GAGCCATGTATCGGGAAACTCATAA
1 GAGCCATATAACGGGAAACTCATAA
6835445 GAGCCATA
1 GAGCCATA
6835453 ATCAGAAAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAACTCATAA
Found at i:6837760 original size:21 final size:22
Alignment explanation
Indices: 6837736--6837781 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
6837726 CTGTACTGGC
6837736 AGCTCTGCTGCAATTACTG-AT
1 AGCTCTGCTGCAATTACTGAAT
* *
6837757 AGCTTTGCTGTAATTACTGAAT
1 AGCTCTGCTGCAATTACTGAAT
6837779 AGC
1 AGC
6837782 GCCGCAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (22 bp):
AGCTCTGCTGCAATTACTGAAT
Found at i:6838007 original size:39 final size:34
Alignment explanation
Indices: 6837911--6837979 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
6837901 TTCTGTTCTG
*
6837911 GTTACTGTAATGGGCTAAGGCCCACACTGATACT
1 GTTATTGTAATGGGCTAAGGCCCACACTGATACT
6837945 GTTATTGTAATGGGCTAAGGCCCACACTGATACT
1 GTTATTGTAATGGGCTAAGGCCCACACTGATACT
6837979 G
1 G
6837980 GATTGTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (34 bp):
GTTATTGTAATGGGCTAAGGCCCACACTGATACT
Found at i:6838672 original size:40 final size:40
Alignment explanation
Indices: 6838628--6838705 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
6838618 TCACACTATG
* *
6838628 TGGGGATAAAATCGACCCA-CCTATCCCTGCACACCATATA
1 TGGGGATAAAATCGACCCATCC-AACCCTACACACCATATA
* *
6838668 TGGGGATATAATTGACCCATCCAACCCTACACACCATA
1 TGGGGATAAAATCGACCCATCCAACCCTACACACCATA
6838706 ATCGCAGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.21
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAACCCTACACACCATATA
Found at i:6839757 original size:19 final size:20
Alignment explanation
Indices: 6839700--6839759 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 20
6839690 TAAGCTTATC
6839700 GAAAAAGAAGAAAACGAATGA
1 GAAAAAGAAGAAAA-GAATGA
* * *
6839721 GAAGAAAAACAGAGAAGAA-GG
1 GAA-AAAGA-AGAAAAGAATGA
6839742 GAAAAAGAAGAAAAGAAT
1 GAAAAAGAAGAAAAGAAT
6839760 TTTGATAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 4 0.13
21 7 0.23
22 7 0.23
23 5 0.16
ACGTcount: A:0.67, C:0.03, G:0.27, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAGAAAAGAATGA
Found at i:6843314 original size:37 final size:38
Alignment explanation
Indices: 6843264--6843335 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
6843254 CAATCACAAC
* *
6843264 TATCTCTTTATCCTCCTT-GTACTCAGAACGACTCTCT
1 TATCTCGTTATCCTCCTTGGTACTCAGAACAACTCTCT
*
6843301 TATCTCGTTATCCTCCTTGGTCCTCAGAACAACTC
1 TATCTCGTTATCCTCCTTGGTACTCAGAACAACTC
6843336 CCTTTTCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.38
Consensus pattern (38 bp):
TATCTCGTTATCCTCCTTGGTACTCAGAACAACTCTCT
Found at i:6847954 original size:41 final size:40
Alignment explanation
Indices: 6847896--6847983 Score: 140
Period size: 41 Copynumber: 2.2 Consensus size: 40
6847886 TAATCCAGAT
*
6847896 ATTAAGTGAAACATTTCATTAACGCGGAAGCTAAAACATC
1 ATTAAGTGAAACATTTCATTAACGCGGAAGCAAAAACATC
* *
6847936 ATTTAAGTGAAGCATTTCATTAACGCGGAAGCAAAAATATC
1 A-TTAAGTGAAACATTTCATTAACGCGGAAGCAAAAACATC
6847977 ATTAAGT
1 ATTAAGT
6847984 CATAAATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 7 0.16
41 37 0.84
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (40 bp):
ATTAAGTGAAACATTTCATTAACGCGGAAGCAAAAACATC
Found at i:6848881 original size:34 final size:33
Alignment explanation
Indices: 6848843--6848924 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
6848833 TACACACCCG
6848843 TGTGGGTCACACGGCCTAAAGTTGGCCTTGCCCA
1 TGTGGGTCACACGGCC-AAAGTTGGCCTTGCCCA
* * *
6848877 TGTGGGTCACACGACCCAAGTTGGCCTTGCCTA
1 TGTGGGTCACACGGCCAAAGTTGGCCTTGCCCA
6848910 TGTGGGTCACACGGC
1 TGTGGGTCACACGGC
6848925 ATGGCCCAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 29 0.66
34 15 0.34
ACGTcount: A:0.17, C:0.29, G:0.30, T:0.23
Consensus pattern (33 bp):
TGTGGGTCACACGGCCAAAGTTGGCCTTGCCCA
Found at i:6849550 original size:17 final size:17
Alignment explanation
Indices: 6849510--6849562 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
6849500 GCTTATCAAA
*
6849510 AAAGAAGAAAACGAAGGA-
1 AAAGAA-AAAA-GAAGAAG
6849528 AAAGAAAAACAG-AGAAG
1 AAAGAAAAA-AGAAGAAG
6849545 AAAGAAAAAAGAAGAAG
1 AAAGAAAAAAGAAGAAG
6849562 A
1 A
6849563 GAATTTCGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.16
17 19 0.61
18 7 0.23
ACGTcount: A:0.72, C:0.04, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAGAAG
Found at i:6851491 original size:21 final size:21
Alignment explanation
Indices: 6851428--6851605 Score: 94
Period size: 21 Copynumber: 8.5 Consensus size: 21
6851418 GGCCGAAGGC
* * *
6851428 TAAACAGAAGCTCATGAGAGC
1 TAAACAAAAGCTCATAAGAGT
*
6851449 T-AACAGAAA-CCCATAA-AGGT
1 TAAACA-AAAGCTCATAAGA-GT
* *
6851469 TGAACAAAAGCTCGTAAGAGT
1 TAAACAAAAGCTCATAAGAGT
* * *
6851490 TGAATAGAAA-CCCATAAGAGT
1 TAAACA-AAAGCTCATAAGAGT
* * * *
6851511 TAAATAAAAGCTTAAAAGAGC
1 TAAACAAAAGCTCATAAGAGT
* * *
6851532 TGAACAGAAGCTCATATGAGT
1 TAAACAAAAGCTCATAAGAGT
* *
6851553 TAAACAGAAGCTCATATGAGT
1 TAAACAAAAGCTCATAAGAGT
* * * *
6851574 TAAACAGAAGCTCGTGAGAGC
1 TAAACAAAAGCTCATAAGAGT
6851595 TAAACAGAAAG
1 TAAACA-AAAG
6851606 TAAACATGAA
Statistics
Matches: 122, Mismatches: 27, Indels: 15
0.74 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 17 0.14
21 97 0.80
22 7 0.06
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (21 bp):
TAAACAAAAGCTCATAAGAGT
Found at i:6851530 original size:42 final size:42
Alignment explanation
Indices: 6851428--6851566 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
6851418 GGCCGAAGGC
* **
6851428 TAAACAGAAGCTCATGAGAGCT-AACAGAAACCCATAA-AGGT
1 TAAACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGA-GT
* ** * *
6851469 TGAACAAAAGCTCGTAAGAGTTGAATAGAAACCCATAAGAGT
1 TAAACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGT
* * * * *
6851511 TAAATAAAAGCTTAAAAGAGCTGAACAGAAGCTCATATGAGT
1 TAAACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGT
*
6851553 TAAACAGAAGCTCA
1 TAAACAAAAGCTCA
6851567 TATGAGTTAA
Statistics
Matches: 77, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
41 17 0.22
42 59 0.77
43 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (42 bp):
TAAACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGT
Found at i:6855756 original size:28 final size:29
Alignment explanation
Indices: 6855725--6855784 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
6855715 AAAGTGATTT
*
6855725 TTGACAAAAATGTCAATT-AG-GGATTAAA
1 TTGACAAAAATGTAAATTGAGAGG-TTAAA
* *
6855753 TTGAGAAAAGTGTAAATTGAGAGGTTAAA
1 TTGACAAAAATGTAAATTGAGAGGTTAAA
6855782 TTG
1 TTG
6855785 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 10 0.37
30 2 0.07
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGAGGTTAAA
Found at i:6856400 original size:47 final size:46
Alignment explanation
Indices: 6856326--6856453 Score: 130
Period size: 47 Copynumber: 2.7 Consensus size: 46
6856316 GCAAAAAATG
* * * * *
6856326 CCTTGATTTGGCTACCGGCCATAGTATAGGTATTCATAGAGGAGTTA
1 CCTTGATTT-GCTACGGGCCATGGTATAGGTACTCAGAGAGAAGTTA
* * * * *
6856373 CCTTGATTTAGCTGCGGGCTATGGTATAAGTACTCCGAGATAAGTTA
1 CCTTGATTT-GCTACGGGCCATGGTATAGGTACTCAGAGAGAAGTTA
*
6856420 CCTTGATTTGCCTTCGGGCCATGGTATAGGTACT
1 CCTTGATTTG-CTACGGGCCATGGTATAGGTACT
6856454 TGTCGATTGA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
46 1 0.02
47 65 0.98
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (46 bp):
CCTTGATTTGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGTTA
Found at i:6858970 original size:19 final size:19
Alignment explanation
Indices: 6858920--6858972 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
6858910 ATAATCTTCA
6858920 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
6858939 ATGAT-TCCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6858957 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
6858973 AAAGATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:6859000 original size:22 final size:22
Alignment explanation
Indices: 6858920--6858983 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 22
6858910 ATAATCTTCA
6858920 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAAAAGAT
*
6858939 ATGAT-TCCAATCTT---AGAT
1 ATGATATGCAATCTTAAAAGAT
6858957 ATGATATGCAATCTTAAAAGAT
1 ATGATATGCAATCTTAAAAGAT
6858979 ATGAT
1 ATGAT
6858984 TTTGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 17 0.44
19 13 0.33
22 9 0.23
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (22 bp):
ATGATATGCAATCTTAAAAGAT
Found at i:6859288 original size:18 final size:17
Alignment explanation
Indices: 6859265--6859298 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6859255 TTTCCCTGAT
*
6859265 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
6859283 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
6859299 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:6861109 original size:31 final size:31
Alignment explanation
Indices: 6861074--6861134 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
6861064 ACATCCAGAC
6861074 GTAAAGAAAAGGGTCGACGTCCTGGCTTTGT
1 GTAAAGAAAAGGGTCGACGTCCTGGCTTTGT
6861105 GTAAAGAAAAGGGTCGACGTCCTGGCTTTG
1 GTAAAGAAAAGGGTCGACGTCCTGGCTTTG
6861135 AGTATTTACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (31 bp):
GTAAAGAAAAGGGTCGACGTCCTGGCTTTGT
Found at i:6871202 original size:78 final size:78
Alignment explanation
Indices: 6871100--6871472 Score: 577
Period size: 78 Copynumber: 4.8 Consensus size: 78
6871090 CGAAGAAACA
* ** * * * *
6871100 GATTTGACATCTCCATATTCGACGGAGATCAGATCGAAGACATAGCAGATCTGACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
6871165 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
6871178 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAAATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
6871243 GCAGATTCAAGAT
66 GCAGATCCAAGAT
* * *
6871256 GATTTGGCATCTCTGTATTAGATGGGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
6871321 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
6871334 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
6871398 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
*
6871412 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
6871473 GTGTTTACAT
Statistics
Matches: 270, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
77 1 0.00
78 268 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:6871566 original size:45 final size:45
Alignment explanation
Indices: 6871502--6871685 Score: 244
Period size: 45 Copynumber: 4.1 Consensus size: 45
6871492 CCTAAGATGG
* * *
6871502 CAGATTTGGCATCTCTGTATTAGACGGGGAGAAAATTGGAGATAA
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAA
*
6871547 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AG
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAA
* * * *
6871591 CAGATTTGGCGTCTTTGTATTAGACGGGGATCAGATCGAAGATAA
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAA
* * ** *
6871636 CAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAA
6871681 CAGAT
1 CAGAT
6871686 ATCACCTTCT
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 39 0.31
45 85 0.69
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (45 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAA
Found at i:6871652 original size:89 final size:90
Alignment explanation
Indices: 6871495--6871685 Score: 267
Period size: 89 Copynumber: 2.1 Consensus size: 90
6871485 AAGCAAACCT
* * *
6871495 AAGATGGCAGATTTGGCATCTCTGTATTAGACGGGGAGAAAATTGGAGATAACAGATTTGGCATC
1 AAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGAAAATCGAAGATAACAGATTTGGCATC
**
6871560 TCTGTATTAGACGGGGAGCAGATTG
66 TCTGTATTAGACGGGGAGCAGATCA
* * ** * *
6871585 AAGA-AGCAGATTTGGCGTCTTTGTATTAGACGGGGATCAGATCGAAGATAACAGATTTGGCGTC
1 AAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGAAAATCGAAGATAACAGATTTGGCATC
*
6871649 TCTGTATTAGATGGGGAGCAGATCA
66 TCTGTATTAGACGGGGAGCAGATCA
6871674 AAGATAGCAGAT
1 AAGATAGCAGAT
6871686 ATCACCTTCT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 77 0.88
90 11 0.12
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (90 bp):
AAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGAAAATCGAAGATAACAGATTTGGCATC
TCTGTATTAGACGGGGAGCAGATCA
Found at i:6872058 original size:17 final size:17
Alignment explanation
Indices: 6872038--6872101 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
6872028 CAATGATATG
6872038 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
6872055 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
6872073 CAATATTAGATATGATA
1 CAATCTTAGATATGATA
6872090 TGCAATCTTAGA
1 --CAATCTTAGA
6872102 AGATATGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
17 16 0.40
18 15 0.38
19 9 0.22
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:6872076 original size:35 final size:37
Alignment explanation
Indices: 6872030--6872108 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
6872020 ATAATCTTCA
*
6872030 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATATTAGATATGATAGCAATCTTAGAT
6872066 ATGAT-TGCAATATTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATATTAGATATGATA-GCAATCTTAGAT
6872102 A-GATATG
1 ATGATATG
6872109 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATATTAGATATGATAGCAATCTTAGAT
Found at i:6872108 original size:17 final size:19
Alignment explanation
Indices: 6872030--6872101 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
6872020 ATAATCTTCA
6872030 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6872049 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
6872066 ATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
6872084 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
6872102 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 17 0.35
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:6872127 original size:22 final size:22
Alignment explanation
Indices: 6872030--6872124 Score: 70
Period size: 17 Copynumber: 4.8 Consensus size: 22
6872020 ATAATCTTCA
6872030 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6872049 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
6872066 ATGAT-TGCAATATT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6872084 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
6872106 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
6872125 GATTTAATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
17 16 0.25
18 15 0.23
19 14 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:6873863 original size:25 final size:25
Alignment explanation
Indices: 6873835--6873886 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6873825 TTTGGCTTGG
**
6873835 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
6873860 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
6873885 CA
1 CA
6873887 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:6875634 original size:18 final size:18
Alignment explanation
Indices: 6875611--6875648 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6875601 TAATCTATGA
6875611 GTTCATTTTTCGGATTTG
1 GTTCATTTTTCGGATTTG
*
6875629 GTTCATTTTTTGGATTTG
1 GTTCATTTTTCGGATTTG
6875647 GT
1 GT
6875649 GGTCTCGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.24, T:0.58
Consensus pattern (18 bp):
GTTCATTTTTCGGATTTG
Found at i:6878464 original size:17 final size:17
Alignment explanation
Indices: 6878442--6878475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6878432 CATCTGTTTC
*
6878442 TTTTTCCTTTTTCTTTT
1 TTTTTCCTTTTGCTTTT
*
6878459 TTTTTCGTTTTGCTTTT
1 TTTTTCCTTTTGCTTTT
6878476 CTGTATCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTCCTTTTGCTTTT
Found at i:6878875 original size:21 final size:21
Alignment explanation
Indices: 6878849--6878890 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6878839 AGTCCTGAGA
6878849 ATGCAACTTTTTTTAATTTGG
1 ATGCAACTTTTTTTAATTTGG
*
6878870 ATGCAAGTTTTTTTAATTTGG
1 ATGCAACTTTTTTTAATTTGG
6878891 TCTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (21 bp):
ATGCAACTTTTTTTAATTTGG
Found at i:6891679 original size:46 final size:46
Alignment explanation
Indices: 6891619--6891846 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
6891609 TTTGACGTGA
* * * * * * *
6891619 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* ** * *
6891665 TGCCATGATATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
6891711 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
6891757 TGCCATGGTATCTTTCAACGATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
6891803 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
6891847 ATAGCACACT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 160 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:6903997 original size:24 final size:26
Alignment explanation
Indices: 6903951--6904000 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
6903941 ATAAAACAAT
6903951 TTAAAATAGATGATATATATATAATA
1 TTAAAATAGATGATATATATATAATA
*
6903977 TTAAAATAGGT-A-ATATATATAATA
1 TTAAAATAGATGATATATATATAATA
6904001 AATACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 1 0.04
26 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (26 bp):
TTAAAATAGATGATATATATATAATA
Found at i:6904004 original size:28 final size:28
Alignment explanation
Indices: 6903937--6904004 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 28
6903927 AAAATCAACA
* *
6903937 ATATATAAAACAAT-TTAAAATAGATGAT
1 ATATATAATA-AATATTAAAATAGATAAT
*
6903965 ATATAT-AT-AATATTAAAATAGGTAAT
1 ATATATAATAAATATTAAAATAGATAAT
6903991 ATATATAATAAATA
1 ATATATAATAAATA
6904005 CTATATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 3 0.09
26 18 0.53
27 3 0.09
28 10 0.29
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.35
Consensus pattern (28 bp):
ATATATAATAAATATTAAAATAGATAAT
Found at i:6904233 original size:26 final size:25
Alignment explanation
Indices: 6904167--6904233 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
6904157 CTCAAAAGTG
*
6904167 AAATTTCAAA-TAAATAATATATAAA
1 AAATTT-AAAGTAAATAACATATAAA
*
6904192 AAATTTAAAGTGAATAACATATAAA
1 AAATTTAAAGTAAATAACATATAAA
* *
6904217 ACAGTTTAAATTAAATA
1 A-AATTTAAAGTAAATA
6904234 TTATACATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 3 0.09
25 20 0.57
26 12 0.34
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATTTAAAGTAAATAACATATAAA
Found at i:6905285 original size:17 final size:18
Alignment explanation
Indices: 6905265--6905307 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6905255 AAAGTAAGTT
6905265 AATAAA-TAAAAAAATAA
1 AATAAAGTAAAAAAATAA
6905282 AATAAAGTAAAAAAATAA
1 AATAAAGTAAAAAAATAA
6905300 ATATAAAG
1 A-ATAAAG
6905308 ATCGAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (18 bp):
AATAAAGTAAAAAAATAA
Found at i:6914137 original size:29 final size:29
Alignment explanation
Indices: 6914098--6914153 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
6914088 AAAAACTAAA
6914098 TATATAAGGAGTAGATTATAAATTAAAAT
1 TATATAAGGAGTAGATTATAAATTAAAAT
*
6914127 TATATAAGGAGTGGATTATAAATTAAA
1 TATATAAGGAGTAGATTATAAATTAAA
6914154 TTAGTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (29 bp):
TATATAAGGAGTAGATTATAAATTAAAAT
Found at i:6916489 original size:13 final size:12
Alignment explanation
Indices: 6916471--6916505 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
6916461 TAGGATTTTC
6916471 TTTCTTTTCTCT
1 TTTCTTTTCTCT
*
6916483 ATTTCTTCTCTCT
1 -TTTCTTTTCTCT
6916496 TTTCTTTTCT
1 TTTCTTTTCT
6916506 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTTCTCT
Found at i:6916743 original size:11 final size:11
Alignment explanation
Indices: 6916727--6916755 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6916717 AAAAATTAAT
6916727 GAATCTTTTAC
1 GAATCTTTTAC
6916738 GAATCTTTTAC
1 GAATCTTTTAC
6916749 GAATCTT
1 GAATCTT
6916756 GCCAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (11 bp):
GAATCTTTTAC
Found at i:6919080 original size:29 final size:29
Alignment explanation
Indices: 6919047--6919104 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6919037 TTCAATTGTT
6919047 CAACTTAATCAACATTTAAAAATTCACTA
1 CAACTTAATCAACATTTAAAAATTCACTA
6919076 CAACTTAATCAACATTTAAAAATTCACTA
1 CAACTTAATCAACATTTAAAAATTCACTA
6919105 ACTTTCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (29 bp):
CAACTTAATCAACATTTAAAAATTCACTA
Found at i:6919377 original size:23 final size:24
Alignment explanation
Indices: 6919315--6919381 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
6919305 TTATTTTCTT
*
6919315 TTATTTACTTTAAAATATAATATTA
1 TTATTTA-TTTATAATATAATATTA
* * *
6919340 CTATAT-TTTAGTAAT-TATTATTA
1 TTATTTATTTA-TAATATAATATTA
6919363 TTATTTATTTATAATATAA
1 TTATTTATTTATAATATAA
6919382 GTAAACATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
23 19 0.59
24 9 0.28
25 4 0.12
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (24 bp):
TTATTTATTTATAATATAATATTA
Done.