Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 146 of 770
Found at i:42972915 original size:40 final size:40
Alignment explanation
Indices: 42972870--42972995 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
42972860 CGGAATACAA
* *
42972870 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
42972910 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
42972950 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
42972990 CCGGAT
1 CCGGAT
42972996 GTGGTCTTAC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:42980963 original size:40 final size:39
Alignment explanation
Indices: 42980918--42981125 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
42980908 CGGAATACAA
*
42980918 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42980958 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42980998 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
42981038 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
42981078 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
42981118 CCGGATAT
1 CCGGATAT
42981126 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:42981058 original size:80 final size:80
Alignment explanation
Indices: 42980918--42981124 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
42980908 CGGAATACAA
* * *
42980918 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
42980982 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
42980998 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
42981062 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
42981078 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
42981125 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:42986181 original size:56 final size:56
Alignment explanation
Indices: 42986055--42986183 Score: 170
Period size: 56 Copynumber: 2.3 Consensus size: 56
42986045 CCAGACAGGG
* ** * **
42986055 ACTTACACACATATATCGGAGTCACATATTGATGCCAACGTATAAAACGTGGTCTT
1 ACTTGCACACATATATCCAAGTCACATATCGATGCCAACGTATAAAAAATGGTCTT
* *
42986111 ACTTGCATATATATATCCAAGTCACATATCGATGCCAACGTATAAAAAATGGTCTT
1 ACTTGCACACATATATCCAAGTCACATATCGATGCCAACGTATAAAAAATGGTCTT
42986167 ACTCT-CACACATATATC
1 ACT-TGCACACATATATC
42986184 GATGCCATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
56 61 0.98
57 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (56 bp):
ACTTGCACACATATATCCAAGTCACATATCGATGCCAACGTATAAAAAATGGTCTT
Found at i:42997326 original size:28 final size:28
Alignment explanation
Indices: 42997286--42997383 Score: 146
Period size: 28 Copynumber: 3.5 Consensus size: 28
42997276 GAAGTAGTTG
42997286 GGCCTGATGGGCCATATAAATGTGATTA
1 GGCCTGATGGGCCATATAAATGTGATTA
*
42997314 GGCCTGATGGGCCATA-AAATGTGATTG
1 GGCCTGATGGGCCATATAAATGTGATTA
*
42997341 GGCCTGATGGGCCATATGAATGTGATTA
1 GGCCTGATGGGCCATATAAATGTGATTA
*
42997369 -GCCTTGATAGGCCAT
1 GGCC-TGATGGGCCAT
42997384 GTGAACGAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.45
28 35 0.55
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCCTGATGGGCCATATAAATGTGATTA
Found at i:42997756 original size:27 final size:27
Alignment explanation
Indices: 42997718--42998163 Score: 399
Period size: 27 Copynumber: 16.7 Consensus size: 27
42997708 TAACAAAGAG
* ** *
42997718 AAATTATTGAAATGTCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
42997745 AAATTATCGAAATACCCCCGATTTCTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
42997772 ACATTATCGAAATACCCTCGA-TTGT-
1 AAATTATCGAAATACCCTCGATTTGTA
*
42997797 GAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
42997824 AAATTATCAAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
42997851 AAATTA-CAGAAATACCCTCAATTATG--
1 AAATTATC-GAAATACCCTCGATT-TGTA
* *
42997877 AAATTA-CTAAAATACCCTCGATTTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
42997904 AAATTACCGAAATACCCTTGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * * *
42997931 AAATTACCAAAACACCCTTGATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
42997958 AAATTATCGAAACACCCTCGATTT-TCA
1 AAATTATCGAAATACCCTCGATTTGT-A
* * *
42997985 AAATTACCAAAATACACTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* ** *
42998012 TAATTATCGAAACGCGCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
42998039 AAATTACCGAAACACCCT-TATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
42998065 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
42998092 AAATTATTGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
42998119 AAATTACCGAAATACCATTG-TAGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
*
42998146 AAATTACCGAAATACCCT
1 AAATTATCGAAATACCCT
42998164 TGTAGTGTAA
Statistics
Matches: 348, Mismatches: 58, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.00
25 19 0.05
26 54 0.16
27 269 0.77
28 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:42997917 original size:80 final size:79
Alignment explanation
Indices: 42997733--42998163 Score: 370
Period size: 80 Copynumber: 5.4 Consensus size: 79
42997723 ATTGAAATGT
* * * * * * *
42997733 CCTCGATTTATAAAATTATCGAAATACCCCCGATTTCTAACATTATCGAAATACCCTCGATTGTG
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCAATT-TG
*
42997798 -AATTACTGAAATAC
65 AAATTACTGAAACAC
* * * *
42997812 CCTCGATTTGTAAAATTATCAAAATACCCCCGATTTGTAAAATTA-CAGAAATACCCTCAATTAT
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAACACCCTCAATT-T
* *
42997876 GAAATTACTAAAATAC
64 GAAATTACTGAAACAC
* * * * * * *
42997892 CCTCGATTTGTGAAATTACCGAAATACCCTTGATTTATAAAATTACCAAAACACCCTTGATTTTT
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCC-TCA-ATTT
*
42997957 AAAATTA-TCGAAACAC
64 GAAATTACT-GAAACAC
* * * * * *
42997973 CCTCGATTT-TCAAAATTACCAAAATACACTCGATTTGTATAATTATCGAAACGCGCTCGATTTG
1 CCTCGATTTGT-AAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCAATTTG
*
42998037 TAAAATTACCGAAACAC
65 --AAATTACTGAAACAC
* * * *
42998054 CCT-TATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAACACCCCCGATTTGT
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCAATTTG-
* *
42998118 AAAATTACCGAAATAC
65 -AAATTACTGAAACAC
* * *
42998134 CATTG-TAGTGTAAAATTACCGAAATACCCT
1 CCTCGAT-TTGTAAAATTACCGAAATACCCT
42998164 TGTAGTGTAA
Statistics
Matches: 292, Mismatches: 47, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.00
79 60 0.21
80 131 0.45
81 98 0.34
82 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (79 bp):
CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCAATTTGA
AATTACTGAAACAC
Found at i:42999265 original size:18 final size:18
Alignment explanation
Indices: 42999242--42999276 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42999232 TAGTAAGAAG
*
42999242 GGTTTTCGATGAAAACAT
1 GGTTTTCGATAAAAACAT
42999260 GGTTTTCGATAAAAACA
1 GGTTTTCGATAAAAACA
42999277 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (18 bp):
GGTTTTCGATAAAAACAT
Found at i:43000953 original size:27 final size:27
Alignment explanation
Indices: 43000923--43000976 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
43000913 CAATTTGAAG
43000923 TTAGGAACTAAATTGAATAAGTTGCAA
1 TTAGGAACTAAATTGAATAAGTTGCAA
43000950 TTAGGAACTAAATTGAATAAGTTGCAA
1 TTAGGAACTAAATTGAATAAGTTGCAA
43000977 AACTTGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (27 bp):
TTAGGAACTAAATTGAATAAGTTGCAA
Found at i:43004789 original size:17 final size:17
Alignment explanation
Indices: 43004767--43004801 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43004757 AAAGGAAATT
43004767 CATGAGAATCATGTTGA
1 CATGAGAATCATGTTGA
43004784 CATGAGAATCATGTTGA
1 CATGAGAATCATGTTGA
43004801 C
1 C
43004802 TAAGTTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (17 bp):
CATGAGAATCATGTTGA
Found at i:43005903 original size:30 final size:30
Alignment explanation
Indices: 43005867--43005927 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43005857 ATTCCCAGCC
43005867 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
43005897 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
43005927 T
1 T
43005928 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:43008741 original size:28 final size:28
Alignment explanation
Indices: 43008687--43008747 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
43008677 GAAGTAGTTG
* *
43008687 GGCCTGATGGGCCATATGAATGTGATTA
1 GGCCTGATGGGCCATATGAACGAGATTA
* *
43008715 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTA
43008743 GGCCT
1 GGCCT
43008748 AAAGGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTA
Found at i:43009094 original size:27 final size:27
Alignment explanation
Indices: 43009064--43009194 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
43009054 TAATAAAGAG
*
43009064 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTATTGAAATACCCTCAATTTGTA
* *
43009091 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATTGAAATACCCTCAATTTGTA
* * * *
43009118 AAAATACTAAAATACCCTTAATTATG--
1 AAATTATTGAAATACCCTCAATT-TGTA
*
43009144 AAATT-TCTGAAATACCCTCAACTTGTA
1 AAATTAT-TGAAATACCCTCAATTTGTA
* * *
43009171 AAATTATCGAAACACCCTCTATTT
1 AAATTATTGAAATACCCTCAATTT
43009195 TCAAGATAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.02
26 17 0.20
27 61 0.73
28 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCAATTTGTA
Found at i:43010544 original size:28 final size:28
Alignment explanation
Indices: 43010490--43010550 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
43010480 GAAGTAGTTG
* *
43010490 GGCCTGATGGGCCATATGAATGTGATTA
1 GGCCTGATGGGCCATATGAACGAGATTA
* *
43010518 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTA
43010546 GGCCT
1 GGCCT
43010551 AAAGGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTA
Found at i:43010897 original size:27 final size:27
Alignment explanation
Indices: 43010867--43010997 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
43010857 TAATAAAGAG
*
43010867 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTATTGAAATACCCTCAATTTGTA
* *
43010894 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATTGAAATACCCTCAATTTGTA
* * * *
43010921 AAAATACTAAAATACCCTTAATTATG--
1 AAATTATTGAAATACCCTCAATT-TGTA
*
43010947 AAATT-TCTGAAATACCCTCAACTTGTA
1 AAATTAT-TGAAATACCCTCAATTTGTA
* * *
43010974 AAATTATCGAAACACCCTCTATTT
1 AAATTATTGAAATACCCTCAATTT
43010998 TCAAGATAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.02
26 17 0.20
27 61 0.73
28 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCAATTTGTA
Found at i:43012345 original size:28 final size:28
Alignment explanation
Indices: 43012291--43012351 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
43012281 GAAGTAGTTG
* *
43012291 GGCCTGATGGGCCATATGAATGTGATTA
1 GGCCTGATGGGCCATATGAACGAGATTA
* *
43012319 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTA
43012347 GGCCT
1 GGCCT
43012352 AAAGGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTA
Found at i:43012698 original size:27 final size:27
Alignment explanation
Indices: 43012668--43013057 Score: 373
Period size: 27 Copynumber: 14.5 Consensus size: 27
43012658 TAATAAAGAG
*
43012668 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
43012695 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * **
43012722 AAAATA-CTAAAATACCCTTAATTATG--
1 AAATTATC-GAAATACCCTCGATT-TGTA
* *
43012748 AAATT-TCTGAAATACCCTCAACTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
43012775 AAATTATCGAAACACCCTCTATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
43012802 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
43012829 AAATTATCAAAACACCCTCTATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
43012856 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
43012883 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
43012910 AAATTA-CCATAACACCCTCGATTTCTA
1 AAATTATCGA-AATACCCTCGATTTGTA
* *
43012937 AAATTACCGAACA-A-CCTTGATTTGTA
1 AAATTATCGAA-ATACCCTCGATTTGTA
* *
43012963 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
43012990 AAATTATCCAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
43013017 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
*
43013044 AAATTACCGAAATA
1 AAATTATCGAAATA
43013058 ACCTTGTACT
Statistics
Matches: 306, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.01
26 43 0.14
27 253 0.83
28 7 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:43012800 original size:80 final size:80
Alignment explanation
Indices: 43012667--43013034 Score: 309
Period size: 80 Copynumber: 4.6 Consensus size: 80
43012657 ATAATAAAGA
* * *
43012667 GAAATTAT-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAAATACTA
1 GAAATTATCTGAAATACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAAATACCA
*
43012731 AAATACCCTTAATTAT
66 AAATACCCTCAATT-T
* * * *
43012747 GAAATT-TCTGAAATACCCTCAACTTGTAAAATTATCGAAACACCCTCTATTTGTGAAATTACCA
1 GAAATTATCTGAAATACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAAATACCA
*
43012811 AAATACCCTCGATTT
66 AAATACCCTCAATTT
* * * * * * *
43012826 GTAAAATTATC-AAAACACCCTCTATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTAT
1 G--AAATTATCTGAAATACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAAATAC
* * *
43012890 CGAAACACCCTCGATTT
64 CAAAATACCCTCAATTT
* * * * * * * *
43012907 GTAAAATTA-C-CATAACACCCTCGATTTCTAAAATTACCG-AACAACCTTGATTTGTAAAATTA
1 G--AAATTATCTGA-AATACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAAATA
*
43012969 CCAAAATACCCTCGATTT
63 CCAAAATACCCTCAATTT
* * * * * *
43012987 GTAAAATTATC-CAAACACCCCCGATTTGTAAAATTATCAAAATACCCT
1 G--AAATTATCTGAAATACCCTCAATTTGTAAAATTATCGAAACACCCT
43013035 TGTAGTGTAA
Statistics
Matches: 246, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
79 3 0.01
80 136 0.55
81 105 0.43
82 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (80 bp):
GAAATTATCTGAAATACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAAATACCA
AAATACCCTCAATTT
Found at i:43013034 original size:107 final size:105
Alignment explanation
Indices: 43012668--43013062 Score: 436
Period size: 107 Copynumber: 3.7 Consensus size: 105
43012658 TAATAAAGAG
* * * * * *
43012668 AAATTATTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAAATACTAAA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAA
* * * *
43012733 -ATACCCTTAATTATG-AAATTTCTGAAATACCCTCAACTTGTA
66 CA-A-CCTT-ATT-TGTAAATTACCGAAATACCCTCGATTTGTA
* * *
43012775 AAATTATCGAAACACCCTCTATTTGTGAAATTACCAAAATACCCTCGATTTGTAAAATTATCAAA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTA-CCAA
* *
43012840 ACACCCTCTATTTGTGAAATTACCGAAACACCCTCGATTTGTA
65 ACAACCT-TATTTGT-AAATTACCGAAATACCCTCGATTTGTA
* * * *
43012883 AAATTATCGAAACACCCTCGATTTGTAAAATTACCATAACACCCTCGATTTCTAAAATTACCGAA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAA
*
43012948 CAACCTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
66 CAACCTT-ATTTGT-AAATTACCGAAATACCCTCGATTTGTA
* * * * *
43012990 AAATTATCCAAACACCCCCGATTTGTAAAATTATCAAAATACCCTTG-TAGTGTAAAATTACCGA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCGAT-TTGTAAAATTACC-A
*
43013054 AATAACCTT
64 AACAACCTT
43013063 GTACTGTAAA
Statistics
Matches: 245, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
106 4 0.02
107 150 0.61
108 90 0.37
109 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (105 bp):
AAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAA
CAACCTTATTTGTAAATTACCGAAATACCCTCGATTTGTA
Found at i:43013062 original size:27 final size:27
Alignment explanation
Indices: 43013013--43013080 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
43013003 ACCCCCGATT
* * * *
43013013 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTACCGAAATAACCTTGTAC
43013040 TGTAAAATTACCGAAATAACCTTGTAC
1 TGTAAAATTACCGAAATAACCTTGTAC
*
43013067 TGTAAAATGACCGA
1 TGTAAAATTACCGA
43013081 CATACCCCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATAACCTTGTAC
Found at i:43015965 original size:28 final size:28
Alignment explanation
Indices: 43015922--43015985 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
43015912 TGGGAAGTAG
* * *
43015922 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
*
43015950 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
43015978 TTGGGCCT
1 TTGGGCCT
43015986 TAAGGGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACGAGA
Found at i:43016334 original size:27 final size:27
Alignment explanation
Indices: 43016302--43016719 Score: 372
Period size: 27 Copynumber: 15.7 Consensus size: 27
43016292 TAATAAAGAG
* *
43016302 AAATTACTGTAATACCCTC-ACTTTTTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
** * *
43016329 AAATTACCAAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
43016356 AAATTACCGAAATACCCTCAATTT-TG
1 AAATTACTGAAATACCCTCGATTTGTA
43016382 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
43016409 AAATTACTGAAATACTCCT-GGTTTGTA
1 AAATTACTGAAATAC-CCTCGATTTGTA
* * * *
43016436 AAAGTACCGAAATAGCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
43016462 AAATTACTGAAATACCCTCGATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
43016489 AAATTA-TCGAAATACCCTCGATTTTTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
43016516 AAATTATTAAAACACCCTCGATCTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
43016543 AAATTACTGAAACACCCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
43016570 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
43016597 AAATTA-TCGAAACACCCTCGATTTATA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
43016624 AAATTA-TCGAAACACCCTCAAATTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
** * *
43016651 AAATTACCAAAACACCC-CTGATTTATA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
43016678 AAATTATTGAAATACCCT---TGTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
43016702 AAATTACCAAAATACCCT
1 AAATTACTGAAATACCCT
43016720 TGTAGTGTAA
Statistics
Matches: 329, Mismatches: 51, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
24 19 0.06
26 51 0.16
27 254 0.77
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:43021138 original size:10 final size:10
Alignment explanation
Indices: 43021100--43021143 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
43021090 TAAAACCTAA
43021100 GTTTTGGTAT
1 GTTTTGGTAT
43021110 GATTTTGGCTTAT
1 G-TTTTGG--TAT
*
43021123 GGTTTGGTAT
1 GTTTTGGTAT
43021133 GTTTTGGTAT
1 GTTTTGGTAT
43021143 G
1 G
43021144 GATATTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 14 0.48
11 6 0.21
12 5 0.17
13 4 0.14
ACGTcount: A:0.11, C:0.02, G:0.32, T:0.55
Consensus pattern (10 bp):
GTTTTGGTAT
Found at i:43023674 original size:49 final size:49
Alignment explanation
Indices: 43023500--43023869 Score: 563
Period size: 49 Copynumber: 7.7 Consensus size: 49
43023490 CCCTTCGGGA
* * * * * * *
43023500 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43023547 CCTATCACATATAT--ACACTTTCACGTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43023594 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43023641 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43023690 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43023739 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43023788 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43023837 CTTATCACATATATATACACATTCACATTCATC
1 CTTATCACATATATACACACTTTCACATTCATC
43023870 GCATAAAATC
Statistics
Matches: 301, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 93 0.31
48 3 0.01
49 205 0.68
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43026960 original size:26 final size:27
Alignment explanation
Indices: 43026893--43026992 Score: 112
Period size: 26 Copynumber: 3.6 Consensus size: 27
43026883 ATACAGAAAA
* *
43026893 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
43026922 TGTGGCAGTGCCACCAGAACA-ATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
43026948 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
43026976 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
43026993 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.34
27 5 0.08
28 20 0.33
29 15 0.25
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:43027145 original size:28 final size:28
Alignment explanation
Indices: 43027098--43027162 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
43027088 AAATTAACCC
*
43027098 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
43027126 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
43027154 TAGGGGTAT
1 TAGGGGTAT
43027163 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:43034720 original size:55 final size:56
Alignment explanation
Indices: 43034655--43034769 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
43034645 AGCATGGCTG
* *
43034655 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
43034711 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
43034766 CCAG
1 CCAG
43034770 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:43034732 original size:27 final size:27
Alignment explanation
Indices: 43034680--43034769 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
43034670 GTGACAGAGT
43034680 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
43034709 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
43034736 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
43034764 CACCAG
1 CACCAG
43034770 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:43034922 original size:28 final size:28
Alignment explanation
Indices: 43034875--43034939 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
43034865 AAATTAACCC
*
43034875 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
43034903 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
43034931 TAGGGGTAT
1 TAGGGGTAT
43034940 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:43040085 original size:19 final size:19
Alignment explanation
Indices: 43040063--43040101 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43040053 GGCATATGGG
43040063 CGTGTAGTTGGCCGTGTGA
1 CGTGTAGTTGGCCGTGTGA
43040082 CGTGTAGTTGGCCGTGTGA
1 CGTGTAGTTGGCCGTGTGA
43040101 C
1 C
43040102 CAAAGTCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.18, G:0.41, T:0.31
Consensus pattern (19 bp):
CGTGTAGTTGGCCGTGTGA
Found at i:43044552 original size:42 final size:42
Alignment explanation
Indices: 43044492--43044601 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
43044482 CCGAGACTAT
* * **
43044492 GTGTAAGACCATATCTGGGATATGGCATCGATATGATATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATACGAGATCCC
* * *
43044534 GTGTAAGACCATACCTGGGCTATTGGCATCGATGCGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATCCC
*
43044577 ATGTAAGACCATATCTGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
43044602 AATTGGTGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 23 0.40
43 34 0.60
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATACGAGATCCC
Found at i:43057910 original size:2 final size:2
Alignment explanation
Indices: 43057905--43057933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43057895 GTGAAAGTCG
43057905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43057934 TCTGAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43058453 original size:39 final size:39
Alignment explanation
Indices: 43058399--43058512 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
43058389 ATTTGATGTG
*
43058399 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
43058438 TATCCGGACATAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
43058477 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
43058513 ATATGTCTGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:43065587 original size:39 final size:39
Alignment explanation
Indices: 43065533--43065694 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
43065523 ATTTGATCTG
* *
43065533 TATCCGGACTTAGGGTCCGCAGGCTATGTACTAGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
43065572 TATCCGGACTTAGGGTCCGCA-GCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
43065610 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
43065649 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
43065688 TGTCCGG
1 TATCCGG
43065695 GCTAAAGTCC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 35 0.30
39 80 0.70
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:43065631 original size:77 final size:78
Alignment explanation
Indices: 43065533--43065694 Score: 263
Period size: 77 Copynumber: 2.1 Consensus size: 78
43065523 ATTTGATCTG
*
43065533 TATCCGGACTTAGGGTCCGCAGGCTATGTACTAGAATTATATCCGGACTTAGGGTCCGCA-GCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTACTAGAATTATATCCGGACTTAAGGTCCGCAGGCTA
43065597 TGTGCTGGAATTA
66 TGTGCTGGAATTA
* * *
43065610 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTACTAGAATTATATCCGGACTTAAGGTCCGCAGGCTA
*
43065675 TGTGCTGGAAATA
66 TGTGCTGGAATTA
*
43065688 TGTCCGG
1 TATCCGG
43065695 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 56 0.73
78 21 0.27
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTACTAGAATTATATCCGGACTTAAGGTCCGCAGGCTA
TGTGCTGGAATTA
Found at i:43065727 original size:78 final size:78
Alignment explanation
Indices: 43065533--43065759 Score: 214
Period size: 77 Copynumber: 2.9 Consensus size: 78
43065523 ATTTGATCTG
** * * *
43065533 TATCCGGACTTAGGGTCCGCAGGCTATGTA-CTAGAATTATATCCGGACTTAGGGTCCGCA-GCT
1 TATCCGGACTTAAAGTCCACAGGCTATG-AGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
*
43065596 ATGTGCTGGAATTA
65 ATGTGCTGGAAATA
* ** * *
43065610 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
43065675 TGTGCTGGAAATA
66 TGTGCTGGAAATA
* * * ** **
43065688 TGTCCGGGC-TAAAGTCCCACAGGCT-TCGAGCTGGTATTATA-CCGGGTTTAAATTCCCGCAGG
1 TATCCGGACTTAAAGT-CCACAGGCTAT-GAGCTGGAATTATATCCGGACTTAAGGT-CCGCAGG
43065750 CT-TGTGCTGG
63 CTATGTGCTGG
43065760 TAATTGGTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
77 77 0.60
78 51 0.40
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
TGTGCTGGAAATA
Found at i:43069386 original size:27 final size:27
Alignment explanation
Indices: 43069347--43069415 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
43069337 ATGTAGGAGT
* * *
43069347 ATTACGGTTATTTTGTCCTACAGGGGC
1 ATTACGGTCATTTTATCCTACAAGGGC
* * *
43069374 ATTATGGTCATTTTATCTTACAAGGGT
1 ATTACGGTCATTTTATCCTACAAGGGC
*
43069401 ATTACGATCATTTTA
1 ATTACGGTCATTTTA
43069416 CACTACCAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTACGGTCATTTTATCCTACAAGGGC
Found at i:43069454 original size:27 final size:26
Alignment explanation
Indices: 43069425--43069629 Score: 171
Period size: 27 Copynumber: 7.7 Consensus size: 26
43069415 ACACTACCAA
*
43069425 GGTATTTCGATAATTTTCCAAATTGG
1 GGTATTTCGATAATTTTCCAAATCGG
* * *
43069451 AGGTATTTTGGTAATTTTCCAAACCAGG
1 -GGTATTTCGATAATTTTCCAAATC-GG
* * ** *
43069479 GGTATTTTGGTAATTTTTTAAACTGGG
1 GGTATTTCGATAATTTTCCAAA-TCGG
* *
43069506 GGTATTTCGATAACTTTCTAAATCGG
1 GGTATTTCGATAATTTTCCAAATCGG
* *
43069532 GGTATTTCGGTAATTTTCCAAACCGAG
1 GGTATTTCGATAATTTTCCAAATCG-G
** *
43069559 GGTATTTTAATAATTTTAC-AATCTGG
1 GGTATTTCGATAATTTTCCAAATC-GG
*
43069585 GAGTATTTCGACAATTTTCCAAATCGGG
1 G-GTATTTCGATAATTTTCCAAATC-GG
43069613 GGTATTTC-AGTAATTTT
1 GGTATTTCGA-TAATTTT
43069630 ACAATATGGG
Statistics
Matches: 143, Mismatches: 28, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
26 30 0.21
27 104 0.73
28 9 0.06
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTCGATAATTTTCCAAATCGG
Found at i:43069562 original size:80 final size:80
Alignment explanation
Indices: 43069425--43069629 Score: 268
Period size: 80 Copynumber: 2.5 Consensus size: 80
43069415 ACACTACCAA
* * **
43069425 GGTATTTCGATAATTTTCCAAATTGGAGGTATTTTGGTAATTTTCCAAACCAGGGGTATTTTGGT
1 GGTATTTCGATAATTTTCCAAATCGG-GGTATTTCGGTAATTTTCCAAACCAGGGGTATTTTAAT
**
43069490 AATTTTTTAAACTGGG
65 AATTTTACAAACTGGG
* *
43069506 GGTATTTCGATAACTTTCTAAATCGGGGTATTTCGGTAATTTTCCAAACC-GAGGGTATTTTAAT
1 GGTATTTCGATAATTTTCCAAATCGGGGTATTTCGGTAATTTTCCAAACCAG-GGGTATTTTAAT
*
43069570 AATTTTACAATCTGGG
65 AATTTTACAAACTGGG
* * *
43069586 AGTATTTCGACAATTTTCCAAATCGGGGGTATTTCAGTAATTTT
1 GGTATTTCGATAATTTTCCAAATC-GGGGTATTTCGGTAATTTT
43069630 ACAATATGGG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.61
81 41 0.38
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (80 bp):
GGTATTTCGATAATTTTCCAAATCGGGGTATTTCGGTAATTTTCCAAACCAGGGGTATTTTAATA
ATTTTACAAACTGGG
Found at i:43069640 original size:54 final size:54
Alignment explanation
Indices: 43069533--43069640 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
43069523 CTAAATCGGG
** * *
43069533 GTATTTCGGTAATTTTCCAAACCGAGGGTATTTTAATAATTTTACAATCTGGGA
1 GTATTTCGACAATTTTCCAAACCGAGGGTATTTCAATAATTTTACAATATGGGA
* * *
43069587 GTATTTCGACAATTTTCCAAATCGGGGGTATTTCAGTAATTTTACAATATGGGA
1 GTATTTCGACAATTTTCCAAACCGAGGGTATTTCAATAATTTTACAATATGGGA
43069641 TCTTAACGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (54 bp):
GTATTTCGACAATTTTCCAAACCGAGGGTATTTCAATAATTTTACAATATGGGA
Found at i:43072822 original size:33 final size:33
Alignment explanation
Indices: 43072785--43072855 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
43072775 CTCAGCCCTC
**
43072785 ATCAG-AATCAATTGGGCCTAGCCCATTCTCAAA
1 ATCAGTAA-CAATTGGGCCTAGCCCATTAACAAA
* *
43072818 ATCAGTAACAGTTGGGCTTAGCCCATTAACAAA
1 ATCAGTAACAATTGGGCCTAGCCCATTAACAAA
43072851 ATCAG
1 ATCAG
43072856 GTGGACCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (33 bp):
ATCAGTAACAATTGGGCCTAGCCCATTAACAAA
Found at i:43073315 original size:27 final size:27
Alignment explanation
Indices: 43073285--43073375 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
43073275 AGGCATAATC
* *
43073285 GTCATTCTACCATATAGGAGCATTACG
1 GTCATTTTACCATACAGGAGCATTACG
* * * *
43073312 GTCATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCATACAGGAGCATTACG
*
43073339 GTCATTTTACCATACAAGG-GTATTACG
1 GTCATTTTACCATAC-AGGAGCATTACG
*
43073366 GTCTTTTTAC
1 GTCATTTTAC
43073376 ACTACCAAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 51 0.94
28 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGAGCATTACG
Found at i:43073385 original size:28 final size:26
Alignment explanation
Indices: 43073306--43073389 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 26
43073296 ATATAGGAGC
*
43073306 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTA-CCTACAAGGGT
*
43073333 ATTATGGTCATTTTACCATACAAGGGT
1 ATTACGGTCATTTTACC-TACAAGGGT
*
43073360 ATTACGGTCTTTTTACACTACCAA-GGT
1 ATTACGGTCATTTTAC-CTA-CAAGGGT
43073387 ATT
1 ATT
43073390 TTAGTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.04
27 44 0.88
28 4 0.08
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTACGGTCATTTTACCTACAAGGGT
Found at i:43073440 original size:27 final size:27
Alignment explanation
Indices: 43073404--43073535 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
43073394 TAATTTTATG
* *
43073404 AACCAAGGGTATTTTGGTAATTTTCT-A
1 AACCAGGGGTATTTCGGTAATTTT-TAA
*** *
43073431 AATTGGGGGTATTTCGGTAATTTTTCA
1 AACCAGGGGTATTTCGGTAATTTTTAA
* *
43073458 AACCAGGGGTATTTCGATAATTTTTTA
1 AACCAGGGGTATTTCGGTAATTTTTAA
*
43073485 AACTAGGGGTATTTCGGTAATTTTTAA
1 AACCAGGGGTATTTCGGTAATTTTTAA
* *
43073512 AATC-GAGGGTATTTCGTTAATTTT
1 AACCAG-GGGTATTTCGGTAATTTT
43073536 GAAATGCGGG
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.02
27 85 0.98
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
AACCAGGGGTATTTCGGTAATTTTTAA
Found at i:43073442 original size:54 final size:54
Alignment explanation
Indices: 43073404--43073535 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
43073394 TAATTTTATG
* * * *
43073404 AACCAAGGGTATTTTGGTAATTTTCTAAATTGGGGGTATTTCGGTAATTTTTCA
1 AACCAAGGGTATTTCGATAATTTTCTAAACTAGGGGTATTTCGGTAATTTTTCA
* * *
43073458 AACCAGGGGTATTTCGATAATTTTTTAAACTAGGGGTATTTCGGTAATTTTTAA
1 AACCAAGGGTATTTCGATAATTTTCTAAACTAGGGGTATTTCGGTAATTTTTCA
* * *
43073512 AATCGAGGGTATTTCGTTAATTTT
1 AACCAAGGGTATTTCGATAATTTT
43073536 GAAATGCGGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (54 bp):
AACCAAGGGTATTTCGATAATTTTCTAAACTAGGGGTATTTCGGTAATTTTTCA
Found at i:43073469 original size:81 final size:81
Alignment explanation
Indices: 43073384--43073535 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
43073374 ACACTACCAA
* * * *
43073384 GGTATTTTAG-TAATTTTATGAACCAAGGGTATTTTGGTAATTTTCT-AAATTGGGGGTATTTCG
1 GGTA-TTTAGATAATTTTATAAACCAAGGGTATTTCGGTAATTTT-TAAAATCGAGGGTATTTCG
43073447 GTAATTTTTCAAACCAGG
64 GTAATTTTTCAAACCAGG
* * * * *
43073465 GGTATTTCGATAATTTTTTAAACTAGGGGTATTTCGGTAATTTTTAAAATCGAGGGTATTTCGTT
1 GGTATTTAGATAATTTTATAAACCAAGGGTATTTCGGTAATTTTTAAAATCGAGGGTATTTCGGT
43073530 AATTTT
66 AATTTT
43073536 GAAATGCGGG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 5 0.08
81 55 0.92
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (81 bp):
GGTATTTAGATAATTTTATAAACCAAGGGTATTTCGGTAATTTTTAAAATCGAGGGTATTTCGGT
AATTTTTCAAACCAGG
Found at i:43083490 original size:27 final size:27
Alignment explanation
Indices: 43083460--43083617 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 27
43083450 TAATTTAATG
*
43083460 AAATGACTATTTTGCCCTTATGGGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * *
43083487 AAATGACTGTTTTGCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
43083514 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * * *
43083541 AAACGACTGTTTTACCCTCATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
43083568 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * * *
43083595 AGATGATTGTTTTGTCC-TATGTG
1 AAATGACTATTTTGCCCTTATGTG
43083618 ATGTATAGAT
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 6 0.05
27 107 0.95
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:43083524 original size:54 final size:54
Alignment explanation
Indices: 43083460--43083608 Score: 244
Period size: 54 Copynumber: 2.8 Consensus size: 54
43083450 TAATTTAATG
*
43083460 AAATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTCATGAGGTA
* * *
43083514 AAATGACTATTTTGCCCTTATGTGGTAAAACGACTGTTTTACCCTCATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTCATGAGGTA
* *
43083568 AAATGACTATTTTGCCCTTATGTGGTAAGATGATTGTTTTG
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTG
43083609 TCCTATGTGA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTCATGAGGTA
Found at i:43083981 original size:6 final size:6
Alignment explanation
Indices: 43083970--43084015 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
43083960 TTCATATCTG
*
43083970 TACTGT TACTG- TACTGAT TACTGT TACTG- CACTGTT TACTGT TACT
1 TACTGT TACTGT TACTG-T TACTGT TACTGT TACTG-T TACTGT TACT
43084016 ACAATGGGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 9 0.26
6 16 0.47
7 9 0.26
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:43083993 original size:18 final size:18
Alignment explanation
Indices: 43083970--43084015 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
43083960 TTCATATCTG
*
43083970 TACTGTTACTGTACTGAT
1 TACTGTTACTGCACTGAT
*
43083988 TACTGTTACTGCACTGTT
1 TACTGTTACTGCACTGAT
43084006 TACTGTTACT
1 TACTGTTACT
43084016 ACAATGGGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:43088966 original size:6 final size:6
Alignment explanation
Indices: 43088955--43088984 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
43088945 GATTAAATTA
43088955 TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
43088985 AAATTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:43089156 original size:39 final size:39
Alignment explanation
Indices: 43089081--43089157 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
43089071 TTTCTTTATG
*
43089081 CTATTACATATCTATTCGATTCAATCAAACACAATAATA
1 CTATTACATATCTATTCCATTCAATCAAACACAATAATA
* *
43089120 CTATTACACT-TCTATTCCATTACATTCAACCA-AATAAT
1 CTATTACA-TATCTATTCCATT-CAATCAAACACAATAAT
43089158 TGAATTACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.35
Consensus pattern (39 bp):
CTATTACATATCTATTCCATTCAATCAAACACAATAATA
Found at i:43089189 original size:16 final size:16
Alignment explanation
Indices: 43089168--43089214 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
43089158 TGAATTACTG
43089168 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
43089184 ATTACAGCTCTATTTC
1 ATTACAGCCCTATTCC
43089200 ATTACAGCCCTATTC
1 ATTACAGCCCTATTC
43089215 TATTCCAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:43089364 original size:43 final size:42
Alignment explanation
Indices: 43089250--43089370 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
43089240 TAGGGTTACT
* *
43089250 GAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATAC
1 GAGATTACGTGTAAGACCATATCTGGGTTATGGCATCGATAC
* *
43089292 GAGACTT-CGTGTAAGACCATAGCTAGGTTATTGGCATCGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGTTA-TGGCATCGATAC
* *
43089335 GAGATTACATGTAAGACCATCTCTGGGTTATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGTTATGGCAT
43089371 TGGTACGGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 31 0.46
43 37 0.54
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGTTATGGCATCGATAC
Found at i:43091997 original size:43 final size:42
Alignment explanation
Indices: 43091901--43092000 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
43091891 TACTTATGAT
* *
43091901 TTACATGTAAGACCATGTCTGGGACATCGGCATCATATTTAA
1 TTACATGTAAGACCATGCCTGGGACATCGGCACCATATTTAA
* * * *
43091943 TTTCATTTAAGACCCTGCCTGGGACAGT-GGCACCGATATTTGA
1 TTACATGTAAGACCATGCCTGGGACA-TCGGCACC-ATATTTAA
43091986 TTACATGTAAGACCA
1 TTACATGTAAGACCA
43092001 CGTATAGGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCATGCCTGGGACATCGGCACCATATTTAA
Found at i:43096280 original size:24 final size:24
Alignment explanation
Indices: 43096229--43096371 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
43096219 GCTTTATCAT
*
43096229 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43096254 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43096278 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
43096301 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43096325 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43096349 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43096372 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43096308 original size:47 final size:48
Alignment explanation
Indices: 43096229--43096370 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
43096219 GCTTTATCAT
* *
43096229 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
43096278 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43096325 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
43096371 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43096329 original size:71 final size:72
Alignment explanation
Indices: 43096228--43096371 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
43096218 TGCTTTATCA
*
43096228 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
43096293 GCCCTTT
66 GCCCTTT
* * **
43096300 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
43096363 AGCCCTTT
65 AGCCCTTT
43096371 T
1 T
43096372 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:43096447 original size:20 final size:20
Alignment explanation
Indices: 43096422--43096481 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
43096412 TATGATTACC
43096422 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
43096442 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
43096462 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
43096482 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:43097830 original size:27 final size:27
Alignment explanation
Indices: 43097812--43098394 Score: 561
Period size: 27 Copynumber: 21.6 Consensus size: 27
43097802 AGGGTATTTT
*
43097812 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
43097839 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * * *
43097866 AGTAATTTTATAAAACGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
43097893 GGTAATTCTGTAAATCGAGGGAAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
43097920 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* ** *
43097947 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * * *
43097974 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
43098001 -GATAATTCTATAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
*
43098028 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* *
43098055 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* ** *
43098082 AGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
43098109 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
43098136 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
43098163 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* * *
43098190 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
43098217 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* *
43098244 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
43098271 GGTAATT-T-TACCAATCGAGGGTAAAAC
1 AGTAATTCTGTA--AATCAAGGGTAAAAC
* * *
43098298 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
43098325 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
43098352 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
*
43098379 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
43098395 GGGAGTACTT
Statistics
Matches: 487, Mismatches: 53, Indels: 31
0.85 0.09 0.05
Matches are distributed among these distances:
25 2 0.00
26 7 0.01
27 469 0.96
28 7 0.01
29 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:43097888 original size:81 final size:81
Alignment explanation
Indices: 43097813--43098395 Score: 703
Period size: 81 Copynumber: 7.2 Consensus size: 81
43097803 GGGTATTTTA
* * * *
43097813 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
43097878 AAACGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * *
43097894 GTAATTCTGTAAATCGAGGGAAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
*
43097958 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * * *
43097975 GTAATTATGTAAAT-TAGGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAATAGTAATTCTG
1 GTAATTCTGTAAATCGA-GGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
43098038 TAAA-CTGAGGGTAAAACG
64 TAAATC-GAGGGTAAAATG
* ** *
43098056 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
**
43098121 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAATG
* * * *
43098137 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTAT
*
43098201 AAATCGAGGGTAAAATA
65 AAATCGAGGGTAAAATG
* * * *
43098218 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 GTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
* *
43098282 CAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAATG
* * * **
43098299 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
43098364 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAATG
43098380 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
43098396 GGAGTACTTT
Statistics
Matches: 439, Mismatches: 50, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
80 7 0.02
81 426 0.97
82 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:43098426 original size:54 final size:54
Alignment explanation
Indices: 43097813--43098395 Score: 721
Period size: 54 Copynumber: 10.8 Consensus size: 54
43097803 GGGTATTTTA
* * * * *
43097813 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
43097867 GTAATTTTATAAAACGAGGGTAAAATGGTAATTCTGTAAATCGAGGGAAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
43097921 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * **
43097975 GTAATTATGTAAAT-TAGGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
43098029 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
43098083 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* **
43098137 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
**
43098191 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
43098245 GTAATTCTGTAAATCGAGGGTAAAACGGTAATT-T-TACCAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA--AATCGAGGGTAAAACG
* * ** *
43098299 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
43098353 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
43098396 GGAGTACTTT
Statistics
Matches: 467, Mismatches: 51, Indels: 22
0.86 0.09 0.04
Matches are distributed among these distances:
52 2 0.00
53 4 0.01
54 456 0.98
55 4 0.01
56 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:43102346 original size:93 final size:93
Alignment explanation
Indices: 43102234--43102405 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43102224 GCCCATAAGT
* *
43102234 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43102299 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43102327 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43102392 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43102406 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43102401 original size:46 final size:46
Alignment explanation
Indices: 43102226--43102401 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43102216 TGTAACCCGC
* * *
43102226 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43102272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43102322 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43102365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43102402 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43104823 original size:30 final size:30
Alignment explanation
Indices: 43104779--43104867 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
43104769 CAAAGATAAC
*
43104779 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
43104808 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
43104838 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
43104868 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:43104827 original size:15 final size:14
Alignment explanation
Indices: 43104779--43104861 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
43104769 CAAAGATAAC
*
43104779 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
43104793 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
43104808 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
43104823 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
43104838 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
43104853 AAGAAACCC
1 AAGAAACCC
43104862 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:43104867 original size:15 final size:15
Alignment explanation
Indices: 43104790--43104867 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
43104780 AGAAAACCGA
43104790 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
43104805 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
43104819 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
43104834 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43104850 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43104865 ATA
1 ATA
43104868 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43107066 original size:40 final size:40
Alignment explanation
Indices: 43106959--43107123 Score: 156
Period size: 40 Copynumber: 4.2 Consensus size: 40
43106949 CGGAATATAA
* * * *
43106959 CCGGATATAATCACGT-GCACAAATGCCTTTGGGTCCTAGC
1 CCGGATATAATAAC-TAGCACAATTGCCTTCGGGTCTTAGC
* *
43106999 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTAGCAC-AATTGCCTTCGGGTCTTAGC
*** *
43107039 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
43107079 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
43107118 CCGGAT
1 CCGGAT
43107124 GTCATTCAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 14 0.13
40 88 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:43111148 original size:93 final size:93
Alignment explanation
Indices: 43111036--43111207 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43111026 GCCCATAAGT
* *
43111036 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43111101 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43111129 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43111194 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43111208 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43111203 original size:46 final size:46
Alignment explanation
Indices: 43111028--43111203 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43111018 TGTAACCCGC
* * *
43111028 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43111074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43111124 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43111167 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43111204 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43121418 original size:29 final size:31
Alignment explanation
Indices: 43121337--43121418 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
43121327 AAGTCTACAT
* *
43121337 ACATGCATATGGCCCA-CTAGGCCCAATCTC
1 ACATTCATATGGCCCATCTAGGCCCAATATC
*
43121367 TCATTCATATGGCCCAT-TAGGCCCAA-ATC
1 ACATTCATATGGCCCATCTAGGCCCAATATC
43121396 ACATTCATATGGCCCATCT-GGCC
1 ACATTCATATGGCCCATCTAGGCC
43121419 TGAATCAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 22 0.48
30 24 0.52
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (31 bp):
ACATTCATATGGCCCATCTAGGCCCAATATC
Found at i:43126909 original size:42 final size:44
Alignment explanation
Indices: 43126808--43126964 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 44
43126798 AGCTCGTACA
* * * *
43126808 ATGCTAATGTCCCAGACGTGCTCTTACATGT-AATCA-AA-CATTG
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAAATCACAAGC--TG
* * * *
43126851 ATGCCACTATCCCAGACAAGGTCTTACAAG-AAATCATATA-C-G
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAAATCACA-AGCTG
*
43126893 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAGCTG
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAAATCACAAGCTG
*
43126937 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
43126965 CGATAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 29 0.31
45 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACAAGTAAATCACAAGCTG
Found at i:43126951 original size:86 final size:84
Alignment explanation
Indices: 43126808--43126964 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 84
43126798 AGCTCGTACA
* * *
43126808 ATGCTAATGTCCCAGACGTGCTCTTACATGTAATCAAACATTGATGCCACTATCCCAGACAAGGT
1 ATGCCAATGTCCCAGACATGCTCTTACACGTAATCAAACA-TGATGCCACTATCCCAGACAAGGT
43126873 CTTACAAGAAATCATATACG
65 CTTACAAGAAATCATATACG
* * *
43126893 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAGC-TGATGCCAAC-GTCCCAGACAT
1 ATGCCAATGTCCCAGACATGCTCTTACACGT-AATCA-AA-CATGATGCC-ACTATCCCAGACAA
43126956 GGTCTTACA
62 GGTCTTACA
43126965 CGATAACACA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 27 0.44
86 30 0.48
87 4 0.06
88 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAATGTCCCAGACATGCTCTTACACGTAATCAAACATGATGCCACTATCCCAGACAAGGTC
TTACAAGAAATCATATACG
Found at i:43126952 original size:44 final size:42
Alignment explanation
Indices: 43126860--43126976 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 42
43126850 GATGCCACTA
* * * *
43126860 TCCCAGACAAGGTCTTACAAGAAATCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATACGATGCCAACG
43126902 TCCCAGACATGGTCTTACACGTAAATCACA-AGCTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCACATA-C-GATGCCAACG
43126946 TCCCAGACATGGTCTTACACGATAA-CACATA
1 TCCCAGACATGGTCTTACACGA-AATCACATA
43126977 TCGAACTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
42 20 0.30
43 13 0.20
44 33 0.50
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.21
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCACATACGATGCCAACG
Found at i:43128472 original size:46 final size:46
Alignment explanation
Indices: 43128417--43128597 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
43128407 TAGGATGGTT
43128417 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
43128463 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
43128509 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
43128556 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43128598 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:43128578 original size:93 final size:93
Alignment explanation
Indices: 43128419--43128589 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
43128409 GGATGGTTGA
* *
43128419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43128484 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43128512 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43128577 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43128590 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43139236 original size:38 final size:38
Alignment explanation
Indices: 43139185--43139262 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
43139175 TTGAATTCAA
*
43139185 AATCTATAAAACAAAGAATCACATGCACAAAGTAAGCT
1 AATCTATAAAACAAAGAATCACATACACAAAGTAAGCT
43139223 AATCTATAAAACAAAGAATCACATACACAAAGTAAGCT
1 AATCTATAAAACAAAGAATCACATACACAAAGTAAGCT
43139261 AA
1 AA
43139263 CATAGCTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (38 bp):
AATCTATAAAACAAAGAATCACATACACAAAGTAAGCT
Found at i:43142680 original size:25 final size:25
Alignment explanation
Indices: 43142637--43142707 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
43142627 CTCTTTTAAT
*
43142637 AACT-GGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * * *
43142661 AATTGGGGCAAGGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
43142686 AACTGGGGCAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
43142708 CACTTCCTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 3 0.08
25 35 0.92
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:43147709 original size:41 final size:40
Alignment explanation
Indices: 43147539--43147715 Score: 220
Period size: 40 Copynumber: 4.5 Consensus size: 40
43147529 AAGCCAAGTA
* * *
43147539 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43147577 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43147617 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43147657 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
43147698 CCTTCGGGACTTATCCCG
1 CCTTCGGGACTTAGCCCG
43147716 ATTATCATCC
Statistics
Matches: 125, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 12 0.10
39 18 0.14
40 69 0.55
41 22 0.18
42 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43149616 original size:28 final size:28
Alignment explanation
Indices: 43149547--43149647 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43149537 GACAAGATTG
* * * *
43149547 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
43149577 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43149605 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
43149634 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43149648 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43149641 original size:29 final size:28
Alignment explanation
Indices: 43149576--43149647 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
43149566 AAAATTGTAC
*
43149576 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
43149604 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
43149633 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43149648 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:43157578 original size:27 final size:27
Alignment explanation
Indices: 43157540--43157591 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
43157530 CTAGACCCCT
43157540 TAGTTGATAAAATGACTATTATGCCTC
1 TAGTTGATAAAATGACTATTATGCCTC
* *
43157567 TAGTTGCTAAAATGACTGTTATGCC
1 TAGTTGATAAAATGACTATTATGCC
43157592 CCTATGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (27 bp):
TAGTTGATAAAATGACTATTATGCCTC
Found at i:43176964 original size:21 final size:21
Alignment explanation
Indices: 43176940--43177006 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
43176930 TTGAAGTTTC
43176940 TTGATAGATTATGAATGCTTG
1 TTGATAGATTATGAATGCTTG
43176961 TTGATAGATATAT-AA-G-TT-
1 TTGATAGAT-TATGAATGCTTG
*
43176979 TTG-T-TATTATGAATGCTTG
1 TTGATAGATTATGAATGCTTG
43176998 TTGATAGAT
1 TTGATAGAT
43177007 ATACAAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
15 3 0.08
16 4 0.11
17 2 0.05
18 5 0.14
19 5 0.14
20 2 0.05
21 13 0.35
22 3 0.08
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (21 bp):
TTGATAGATTATGAATGCTTG
Found at i:43176989 original size:37 final size:37
Alignment explanation
Indices: 43176947--43177021 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
43176937 TTCTTGATAG
* *
43176947 ATTATGAATGCTTGTTGATAGATATATAAGTTTTGTT
1 ATTATGAATGCTTGTTGATAGATATACAAGTTTCGTT
43176984 ATTATGAATGCTTGTTGATAGATATACAAGTTTCGTT
1 ATTATGAATGCTTGTTGATAGATATACAAGTTTCGTT
43177021 A
1 A
43177022 AATGATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (37 bp):
ATTATGAATGCTTGTTGATAGATATACAAGTTTCGTT
Found at i:43177135 original size:68 final size:68
Alignment explanation
Indices: 43177009--43177137 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 68
43176999 TGATAGATAT
* * **
43177009 ACAAGTTTCGTTAAATGATTTTTAGTGAAAATGCAAAATAGGGATTTTTAGTGAAAATGTTTCTA
1 ACAAGTTTCGTTAAATGATTTTTAGTGAAAATACAAAATAGAGATTTAAAGTGAAAATGTTTCTA
43177074 TCA
66 TCA
* * * *
43177077 ACAAGTTTTGTTTAGTGATTTTTAGTGAAAATACAAAATAGAGA-TTAAATTGAGAAATGTT
1 ACAAGTTTCGTTAAATGATTTTTAGTGAAAATACAAAATAGAGATTTAAAGTGA-AAATGTT
43177138 GAATCTTTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 6 0.12
68 46 0.88
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (68 bp):
ACAAGTTTCGTTAAATGATTTTTAGTGAAAATACAAAATAGAGATTTAAAGTGAAAATGTTTCTA
TCA
Found at i:43185330 original size:40 final size:40
Alignment explanation
Indices: 43185285--43185414 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
43185275 CGGAATACAA
43185285 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
43185325 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
43185365 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
43185405 CCGGATATAA
1 CCGGATATAA
43185415 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:43190419 original size:43 final size:43
Alignment explanation
Indices: 43190353--43190511 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
43190343 AGCTCGTACA
* * *
43190353 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAATATCG
* * * *
43190396 ATGCCATTTTCCCAGACAGGGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
* *
43190438 GTGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGT-AATCA-AATATCG
* *
43190482 ATGCCAACGTCCTAGAC-GTGGTCTTACACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG
43190512 ATAACACATA
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.29
43 39 0.41
44 28 0.30
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
Found at i:43190505 original size:86 final size:85
Alignment explanation
Indices: 43190354--43190512 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
43190344 GCTCGTACAA
* * * ***
43190354 TGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTTTCCCAGACAGGGTC
1 TGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGACAGGGTC
43190419 TTACACGAAATCATATATGG
66 TTACACGAAATCATATATGG
* *
43190439 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGATGCCAACGTCCTAGAC-GTG
1 TGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCCAACGTCCCAGACAG-G
43190502 GTCTTACACGA
63 GTCTTACACGA
43190513 TAACACATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 27 0.43
86 34 0.54
87 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (85 bp):
TGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGACAGGGTC
TTACACGAAATCATATATGG
Found at i:43193683 original size:34 final size:33
Alignment explanation
Indices: 43193626--43193690 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
43193616 ACAATATTAG
* *
43193626 TGTGGGCCTTAGCCTAATACAGTAACAGTATCAA
1 TGTGGGCCTTAACCCAATACAGT-ACAGTATCAA
* *
43193660 TGTGGGCCTTAACCCATTTCAGTACAGTATC
1 TGTGGGCCTTAACCCAATACAGTACAGTATC
43193691 CAAAATGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (33 bp):
TGTGGGCCTTAACCCAATACAGTACAGTATCAA
Found at i:43195200 original size:27 final size:26
Alignment explanation
Indices: 43195168--43195292 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 26
43195158 TTAGTTTACC
*
43195168 AATTACTGAAATACCACTAGTTTGTAA
1 AATTACAGAAATACC-CTAGTTTGTAA
* *
43195195 AATTACCA-AAATACCACTGGTTTGTGA
1 AATTA-CAGAAATACC-CTAGTTTGTAA
*
43195222 AATTATC-GAAATACCCTCAATTTGTAA
1 AATTA-CAGAAATACCCT-AGTTTGTAA
* * **
43195249 AATTACAAAAATACCCTTGATTTACAA
1 AATTACAGAAATACCCTAG-TTTGTAA
43195276 AATTACAGAAATACCCT
1 AATTACAGAAATACCCT
43195293 TGACTTTCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
26 3 0.04
27 76 0.95
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACAGAAATACCCTAGTTTGTAA
Found at i:43195279 original size:54 final size:53
Alignment explanation
Indices: 43195168--43195348 Score: 141
Period size: 54 Copynumber: 3.3 Consensus size: 53
43195158 TTAGTTTACC
* * * * ***
43195168 AATTACTGAAATACCACTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACAGAAATACC-CTAATTTGTAAAATTACAAAAATACCACTGATTTACAA
43195222 AATTATC-GAAATACCCTCAATTTGTAAAATTACAAAAATACC-CTTGATTTACAA
1 AATTA-CAGAAATACCCT-AATTTGTAAAATTACAAAAATACCAC-TGATTTACAA
* * * * * * * *
43195276 AATTACAGAAATACCCTTGACTTTCTAAAAATTATAGAAATAACATTGGTTTAAAA
1 AATTACAGAAATACCC-T-AATTTGT-AAAATTACAAAAATACCACTGATTTACAA
*
43195332 AATTACTGAAATACCCT
1 AATTACAGAAATACCCT
43195349 TGGTTTGTAG
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
53 4 0.04
54 55 0.53
55 8 0.08
56 37 0.36
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (53 bp):
AATTACAGAAATACCCTAATTTGTAAAATTACAAAAATACCACTGATTTACAA
Found at i:43195293 original size:27 final size:27
Alignment explanation
Indices: 43195221--43195350 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
43195211 CTGGTTTGTG
** **
43195221 AAATTATC-GAAATACCCTCAATTTGTA
1 AAATTA-CAGAAATACCCTTGATTTACA
*
43195248 AAATTACAAAAATACCCTTGATTTACA
1 AAATTACAGAAATACCCTTGATTTACA
43195275 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACAGAAATACCCTTGA-TTTAC--A
* * * * *
43195304 AAATTATAGAAATAACATTGGTTTAAA
1 AAATTACAGAAATACCCTTGATTTACA
*
43195331 AAATTACTGAAATACCCTTG
1 AAATTACAGAAATACCCTTG
43195351 GTTTGTAGAT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.01
27 58 0.70
28 6 0.07
29 18 0.22
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:43195351 original size:27 final size:27
Alignment explanation
Indices: 43195247--43195354 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
43195237 CTCAATTTGT
* * *
43195247 AAAATTACAAAAATACCCTTGATTTAC
1 AAAATTACAGAAATACCCTTGGTTTAA
* *
43195274 AAAATTACAGAAATACCCTTGACTTTCTA
1 AAAATTACAGAAATACCCTTG-GTTT-AA
* * *
43195303 AAAATTATAGAAATAACATTGGTTTAA
1 AAAATTACAGAAATACCCTTGGTTTAA
*
43195330 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACAGAAATACCCTTGGTTT
43195355 GTAGATTTAC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
27 42 0.64
28 6 0.09
29 18 0.27
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTGGTTTAA
Found at i:43195496 original size:27 final size:27
Alignment explanation
Indices: 43195408--43195497 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
43195398 ACCCCTAATA
* * *
43195408 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAT
* * *
43195435 GGTAAAGTGACCGTAAAGCCCCTGTAA
1 GGTAAAATGACCATAAAGCCCCTGTAT
43195462 GGTAAAATGACCATAATA-CCCCTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAT
43195489 GGTAAAATG
1 GGTAAAATG
43195498 TCGAATATGC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAT
Found at i:43196229 original size:10 final size:10
Alignment explanation
Indices: 43196214--43196274 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
43196204 ATATTGTTAT
43196214 ACATGATATG
1 ACATGATATG
43196224 ACATGATATGG
1 ACATGATAT-G
43196235 ACATGATATG
1 ACATGATATG
** *
43196245 TTATGAGATG
1 ACATGATATG
43196255 CACATGATATG
1 -ACATGATATG
43196266 -CTATGATAT
1 AC-ATGATAT
43196275 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:43196239 original size:11 final size:11
Alignment explanation
Indices: 43196214--43196244 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
43196204 ATATTGTTAT
43196214 ACATGATAT-G
1 ACATGATATGG
43196224 ACATGATATGG
1 ACATGATATGG
43196235 ACATGATATG
1 ACATGATATG
43196245 TTATGAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (11 bp):
ACATGATATGG
Found at i:43196239 original size:21 final size:20
Alignment explanation
Indices: 43196214--43196290 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
43196204 ATATTGTTAT
*
43196214 ACATGATATGACATGATATGG
1 ACATGATATG-CATGATATGC
* *
43196235 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
43196256 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
43196277 TCATTATATGCATG
1 ACATGATATGCATG
43196291 GGTTGGGTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.07
21 43 0.93
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:43198596 original size:27 final size:27
Alignment explanation
Indices: 43198564--43198687 Score: 126
Period size: 27 Copynumber: 4.6 Consensus size: 27
43198554 TTAGTTTACC
*
43198564 AATTACTGAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCCTAGTTTGTAA
* * * *
43198591 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCCTAGTTTGTAA
*
43198618 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCGAAATACCCCT-AGTTTGTAA
* **
43198645 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCGAAATACCCCTAG-TTTGTAA
*
43198672 AATTACAGAAATACCC
1 AATTACCGAAATACCC
43198688 TTGACTTCTA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.04
27 71 0.91
28 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCCTAGTTTGTAA
Found at i:43198688 original size:54 final size:55
Alignment explanation
Indices: 43198564--43198688 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 55
43198554 TTAGTTTACC
* * * ***
43198564 AATTACTGAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* *
43198618 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
43198672 AATTACAGAAATACCCT
1 AATTACAGAAATACCCT
43198689 TGACTTCTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 61 0.98
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (55 bp):
AATTACAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:43198700 original size:27 final size:27
Alignment explanation
Indices: 43198564--43198772 Score: 104
Period size: 27 Copynumber: 7.7 Consensus size: 27
43198554 TTAGTTTACC
* * *
43198564 AATTACTGAAATACCCCT-AGTTTGTAA
1 AATTACAGAAATACCCTTGA-TTTCTAA
* * *
43198591 AATTACCA-AAATACCAC-TGGTTTGTGA
1 AATTA-CAGAAATACC-CTTGATTTCTAA
* ** *
43198618 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACAGAAATACCCTTGATTTCTAA
*
43198645 AATTACCA-AAATACCCCTGATTTAC-AA
1 AATTA-CAGAAATACCCTTGATTT-CTAA
*
43198672 AATTACAGAAATACCCTTGACTTCTAAA
1 AATTACAGAAATACCCTTGATTTCT-AA
* * * * *
43198700 AATTATAGAAATGCCATTGGTTTATAA
1 AATTACAGAAATACCCTTGATTTCTAA
* * * * *
43198727 AATTTCTGAAATACCCTTGGTTTGTAG
1 AATTACAGAAATACCCTTGATTTCTAA
* * *
43198754 ATTTACCGAAACACCCTTG
1 AATTACAGAAATACCCTTG
43198773 TAGGATGAAA
Statistics
Matches: 140, Mismatches: 32, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
26 5 0.04
27 111 0.79
28 24 0.17
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTCTAA
Found at i:43198700 original size:54 final size:54
Alignment explanation
Indices: 43198588--43198700 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
43198578 CCCTAGTTTG
* *** * * *
43198588 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAACTTC
* **
43198642 TAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTC
1 TAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAACTTC
43198696 TAAAA
1 TAAAA
43198701 ATTATAGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (54 bp):
TAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAACTTC
Found at i:43198835 original size:27 final size:27
Alignment explanation
Indices: 43198805--43198862 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
43198795 CCCTAATAGA
43198805 TAAAAAGACCGTAAAGCCCCTGTAGGG
1 TAAAAAGACCGTAAAGCCCCTGTAGGG
** * *
43198832 TAAAGTGACTGTAAAGCCCTTGTAGGG
1 TAAAAAGACCGTAAAGCCCCTGTAGGG
43198859 TAAA
1 TAAA
43198863 GTGACCATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (27 bp):
TAAAAAGACCGTAAAGCCCCTGTAGGG
Found at i:43198863 original size:27 final size:27
Alignment explanation
Indices: 43198815--43198867 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
43198805 TAAAAAGACC
43198815 GTAAAGCCCCTGTAGGGTAAAGTGACT
1 GTAAAGCCCCTGTAGGGTAAAGTGACT
*
43198842 GTAAAGCCCTTGTAGGGTAAAGTGAC
1 GTAAAGCCCCTGTAGGGTAAAGTGAC
43198868 CATACTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (27 bp):
GTAAAGCCCCTGTAGGGTAAAGTGACT
Found at i:43198878 original size:27 final size:27
Alignment explanation
Indices: 43198811--43198889 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43198801 TAGATAAAAA
* *
43198811 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCATAAAGCCCTTGTAGGGTAAAGT
**
43198838 GACTGTAAAGCCCTTGTAGGGTAAAGT
1 GACCATAAAGCCCTTGTAGGGTAAAGT
* *
43198865 GACCATACTA-CCCTTGTATGGTAAA
1 GACCATA-AAGCCCTTGTAGGGTAAA
43198890 ATGTTGAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (27 bp):
GACCATAAAGCCCTTGTAGGGTAAAGT
Found at i:43199635 original size:21 final size:20
Alignment explanation
Indices: 43199610--43199686 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
43199600 ATATTGTTAT
43199610 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* * *
43199631 ACATGATATGTTATCAGATGC
1 ACATGATATG-CATGATATGC
*
43199652 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
43199673 TCATTATATGCATG
1 ACATGATATGCATG
43199687 GGTTGGGTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 3 0.07
21 42 0.93
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:43203048 original size:40 final size:40
Alignment explanation
Indices: 43202940--43203149 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
43202930 CGGGATTTAA
* * * * *
43202940 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
43202980 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43203020 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43203060 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43203100 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43203140 CCGGATATAT
1 CCGGATATAT
43203150 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:43211183 original size:40 final size:40
Alignment explanation
Indices: 43211075--43211284 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
43211065 CGGGATTTAA
* * * * *
43211075 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
43211115 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43211155 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43211195 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43211235 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43211275 CCGGATATAT
1 CCGGATATAT
43211285 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:43219615 original size:38 final size:35
Alignment explanation
Indices: 43219556--43219673 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
43219546 TCAATCATGC
*
43219556 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
43219595 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
43219626 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
43219657 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43219674 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:43219617 original size:31 final size:31
Alignment explanation
Indices: 43219579--43219673 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
43219569 CCTTTTCATA
*
43219579 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43219610 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43219641 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
43219672 TT
1 TT
43219674 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:43219916 original size:24 final size:24
Alignment explanation
Indices: 43219865--43219983 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
43219855 GCTTTATCAT
*
43219865 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43219890 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43219914 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
43219937 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43219961 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43219984 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43219944 original size:47 final size:48
Alignment explanation
Indices: 43219865--43219983 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
43219855 GCTTTATCAT
*
43219865 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
43219914 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
43219961 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43219984 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:43220059 original size:20 final size:20
Alignment explanation
Indices: 43220034--43220093 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
43220024 TATGATTACC
43220034 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
43220054 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
43220074 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
43220094 CCATTTATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:43220064 original size:11 final size:11
Alignment explanation
Indices: 43220034--43220088 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43220024 TATGATTACC
43220034 TCATGTGCATA
1 TCATGTGCATA
*
43220045 TCA--TACATA
1 TCATGTGCATA
43220054 TCATGTGCATA
1 TCATGTGCATA
* *
43220065 TCA--TACATT
1 TCATGTGCATA
43220074 TCATGTGCATA
1 TCATGTGCATA
43220085 TCAT
1 TCAT
43220089 ACATACCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:43220166 original size:25 final size:25
Alignment explanation
Indices: 43220134--43220181 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43220124 ATACATAAAC
* * *
43220134 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43220159 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43220182 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43222088 original size:26 final size:26
Alignment explanation
Indices: 43222047--43222142 Score: 140
Period size: 26 Copynumber: 3.7 Consensus size: 26
43222037 GGGTGTCACA
43222047 AGGTAAATGTTCCATGATAATGGATT
1 AGGTAAATGTTCCATGATAATGGATT
* *
43222073 AGGTAAATATTTCATGATAAT-GAGTT
1 AGGTAAATGTTCCATGATAATGGA-TT
*
43222099 AGGTAAATGTTCCATGATAATGGTTT
1 AGGTAAATGTTCCATGATAATGGATT
*
43222125 AGGTAAATGTTTCATGAT
1 AGGTAAATGTTCCATGAT
43222143 GGGCATTTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.03
26 59 0.95
27 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
AGGTAAATGTTCCATGATAATGGATT
Found at i:43225375 original size:40 final size:40
Alignment explanation
Indices: 43225331--43225408 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 40
43225321 TTGACGACAA
43225331 TTCGGCTATGTAT-GACACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATAG-CACTTAGTGTGCGATTCAAGATAGC
*
43225371 TTCGGCTATGTATAGCACTTAGTGTGCTATTCAAGATA
1 TTCGGCTATGTATAGCACTTAGTGTGCGATTCAAGATA
43225409 ACTTTGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
TTCGGCTATGTATAGCACTTAGTGTGCGATTCAAGATAGC
Found at i:43227261 original size:18 final size:17
Alignment explanation
Indices: 43227235--43227269 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43227225 CCATGTGGCT
43227235 TGCCCGTGTTGGCCTACA
1 TGCCCGTG-TGGCCTACA
*
43227253 TGCCTGTGTGGCCTACA
1 TGCCCGTGTGGCCTACA
43227270 CGACCCAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.31, G:0.29, T:0.29
Consensus pattern (17 bp):
TGCCCGTGTGGCCTACA
Found at i:43227329 original size:20 final size:20
Alignment explanation
Indices: 43227304--43227347 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
43227294 TGTCACACAT
43227304 GGCCTAACTGGCCATTACAC
1 GGCCTAACTGGCCATTACAC
*
43227324 GGCCTACCTGGCCATTACAC
1 GGCCTAACTGGCCATTACAC
43227344 GGCC
1 GGCC
43227348 CTGTTTGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.18
Consensus pattern (20 bp):
GGCCTAACTGGCCATTACAC
Found at i:43236083 original size:53 final size:54
Alignment explanation
Indices: 43236007--43236203 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 54
43235997 AACTTGCCAT
* * * *
43236007 TGCCATGTCTTGACATAGTCTTACATGGTATCCTTGTCTTAT-GAACTCACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAA
* * * * ** * *
43236060 TGCCATGCCTTGGCATGGTCTTACATGGAATCTTTACCTTATAGTAGTTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTCACCAA
* * * * *
43236115 TGCCATGTCTTGACATGGTCTTACGTGATTTCCTTGCCTTGTAGAACTTC-CCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAC-TCACCAA
* * * *
43236169 TGTCATACCTTGGCATGGTCTTACTTGGTATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43236204 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 32, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 35 0.32
54 33 0.30
55 41 0.38
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAA
Found at i:43271377 original size:54 final size:54
Alignment explanation
Indices: 43271295--43271456 Score: 297
Period size: 54 Copynumber: 3.0 Consensus size: 54
43271285 GCTCTGAAAA
* *
43271295 AAACAACTAAATTGATCTCATCTATCGAATAATAACATAACAAAATACTATCTT
1 AAACAACTAAGTCGATCTCATCTATCGAATAATAACATAACAAAATACTATCTT
43271349 AAACAACTAAGTCGATCTCATCTATCGAATAATAACATAACAAAATACTATCTT
1 AAACAACTAAGTCGATCTCATCTATCGAATAATAACATAACAAAATACTATCTT
*
43271403 AAACAACTAAGTCGATCTCATCTATCGAATAATAACATATCAAAATACTATCTT
1 AAACAACTAAGTCGATCTCATCTATCGAATAATAACATAACAAAATACTATCTT
43271457 CTTCATGCTG
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (54 bp):
AAACAACTAAGTCGATCTCATCTATCGAATAATAACATAACAAAATACTATCTT
Done.