Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007639.1 Hibiscus syriacus cultivar Beakdansim tig00024042_pilon, whole genome shotgun sequence
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: 55221
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Found at i:39 original size:31 final size:31
Alignment explanation
Indices: 1--91 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 31
* *
1 CCGTCTGGGTTTTGCCGAT-GTGACCGAGACA
1 CCGTCT-GGCTTTGCCAATGGTGACCGAGACA
*
32 CCGTCTGGCTTTGCCAATGGTGACCGAGGCCA
1 CCGTCTGGCTTTGCCAATGGTGACCGA-GACA
* * *
64 CCCGCCTGG-ATTGCCGATGGTGACCGAG
1 -CCGTCTGGCTTTGCCAATGGTGACCGAG
92 CCTCACGCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 10 0.20
31 15 0.29
32 19 0.37
33 7 0.14
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (31 bp):
CCGTCTGGCTTTGCCAATGGTGACCGAGACA
Found at i:84 original size:32 final size:32
Alignment explanation
Indices: 12--91 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
2 CGTCTGGGTT
* *
12 TTGCCGAT-GTGACCGA-GACACCGTCTGGCT
1 TTGCCGATGGTGACCGAGGACACCGCCTGGCA
* *
42 TTGCCAATGGTGACCGAGGCCACCCGCCTGG-A
1 TTGCCGATGGTGACCGAGGACA-CCGCCTGGCA
74 TTGCCGATGGTGACCGAG
1 TTGCCGATGGTGACCGAG
92 CCTCACGCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.17
31 8 0.19
32 20 0.48
33 7 0.17
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (32 bp):
TTGCCGATGGTGACCGAGGACACCGCCTGGCA
Found at i:205 original size:61 final size:55
Alignment explanation
Indices: 126--251 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 55
116 GTTGCGCACT
*
126 CCCCGCACCCGTCCTGGGGTTGCCGAGGCACCCGCGGGGGTTGCCGATGGTGACCGAGC
1 CCCCGCACCCGTCCTGGGGTTGCCGAGGCACCC-C--GGGTTGCCGAT-GTGACCGAGA
185 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCCGGGTTGCCGATGTGACCGAGA
1 CCCCGCACCCGT--CCTGGGGTTGCCGAGGCACCCCGGGTTGCCGATGTGACCGAGA
242 CCCCGCACCC
1 CCCCGCACCC
252 AACTCTCGGC
Statistics
Matches: 64, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
57 19 0.30
58 11 0.17
59 12 0.19
60 1 0.02
61 21 0.33
ACGTcount: A:0.11, C:0.40, G:0.36, T:0.13
Consensus pattern (55 bp):
CCCCGCACCCGTCCTGGGGTTGCCGAGGCACCCCGGGTTGCCGATGTGACCGAGA
Found at i:372 original size:31 final size:32
Alignment explanation
Indices: 297--428 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
287 CCTGGGGTTG
* * *
297 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
329 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
361 CCGAGAC-CCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
392 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
424 CCGAG
1 CCGAG
429 CTCACGCACC
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
31 29 0.31
32 55 0.59
33 9 0.10
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:415 original size:63 final size:63
Alignment explanation
Indices: 305--428 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 63
295 TGCCGAGCCA
*
305 CCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGAC
1 CCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGCCTGGGTTTGCCGATGGTGACCGAGAC
* * *
368 CCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGACCGAG
1 CCCGTCGGGGGTTGCCGATGGTGACCGA-GACACCCGCCTGGGTTTGCCGATGGTGACCGAG
429 CTCACGCACC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
63 44 0.79
64 12 0.21
ACGTcount: A:0.13, C:0.30, G:0.38, T:0.19
Consensus pattern (63 bp):
CCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGCCTGGGTTTGCCGATGGTGACCGAGAC
Found at i:516 original size:32 final size:33
Alignment explanation
Indices: 480--560 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
470 AATGGCCTGG
* **
480 TTGCCGATGGTGACCGA-GACACCCGTATGGTT
1 TTGCCGATGGTGACCGAGGACACCCGCATGGGA
* *
512 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGACACCCGCATGGGA
545 TTGCCGATGGTGACCG
1 TTGCCGATGGTGACCG
561 GGGCTCACGC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 17 0.40
33 26 0.60
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGACACCCGCATGGGA
Found at i:8831 original size:93 final size:93
Alignment explanation
Indices: 8671--9039 Score: 336
Period size: 94 Copynumber: 4.0 Consensus size: 93
8661 CACCCCAGCG
** * *
8671 CTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCGTCGGGTGTTGC
1 CTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGC
8736 CGATGGTGACCGAGGCCCCCGCACCCACT
66 CGATGGTGACCGA-GCCCCCGCACCCACT
*
8765 CTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTCGGGGGTTGC
1 CTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGC
*
8829 CGATGGTGACCGAG-----ACA-CC-CT
66 CGATGGTGACCGAGCCCCCGCACCCACT
* * ** * *
8850 CTGGGTTTGCCGATG-GTG-AC-CGAG-ACCCGTCTGGCTTTGCCAATGG-TGACCGAGGCCACC
1 CTCGG-TT-CTG-TGCG-GCACTCCCGCACCCG--TGGC-CTG----GGGTTG-CCGAGG-CACC
* * * * * *
8910 CGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACG
53 CGTCGGGGGTTGCCGATGGTGACCGAGCC-CCCGCACCCACT
8952 CTCGGTTCTGTGCGGCACTCCCGCACCCG-GGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGC
1 CTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGC
9015 CGATGGTGACCGAGCCCCCGCACCC
66 CGATGGTGACCGAGCCCCCGCACCC
9040 GTGGCCTGGG
Statistics
Matches: 219, Mismatches: 29, Indels: 57
0.72 0.10 0.19
Matches are distributed among these distances:
85 11 0.05
86 5 0.02
87 11 0.05
88 4 0.02
91 7 0.03
92 26 0.12
93 56 0.26
94 67 0.31
95 2 0.01
98 2 0.01
99 6 0.03
100 7 0.03
101 5 0.02
102 10 0.05
ACGTcount: A:0.12, C:0.36, G:0.34, T:0.18
Consensus pattern (93 bp):
CTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGC
CGATGGTGACCGAGCCCCCGCACCCACT
Found at i:8883 original size:30 final size:30
Alignment explanation
Indices: 8813--8936 Score: 149
Period size: 31 Copynumber: 4.0 Consensus size: 30
8803 TTGCCGAGGC
* *
8813 ACCCGTCGGGGGTTGCCGATGGTGACCGAG
1 ACCCGTCTGGGTTTGCCGATGGTGACCGAG
*
8843 ACACCCTCTGGGTTTGCCGATGGTGACCGAG
1 AC-CCGTCTGGGTTTGCCGATGGTGACCGAG
* *
8874 ACCCGTCTGGCTTTGCCAATGGTGACCGAGG
1 ACCCGTCTGGGTTTGCCGATGGTGACCGA-G
* *
8905 CCACCCGCCTGGGATTGCCGATGGTGACCGAG
1 --ACCCGTCTGGGTTTGCCGATGGTGACCGAG
8937 CCTCACGCAC
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
30 26 0.32
31 28 0.35
32 1 0.01
33 25 0.31
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.19
Consensus pattern (30 bp):
ACCCGTCTGGGTTTGCCGATGGTGACCGAG
Found at i:9028 original size:31 final size:31
Alignment explanation
Indices: 8993--9094 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
8983 CCTGGGGTTG
8993 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
* *** * *
9024 CCGA-GCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTC-GGGGTTGCC-GATGG-TGA
9054 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
9085 CCGAGG-ACCC
1 CCGAGGCACCC
9095 CGCACCCAAC
Statistics
Matches: 52, Mismatches: 12, Indels: 15
0.66 0.15 0.19
Matches are distributed among these distances:
29 1 0.02
30 24 0.46
31 26 0.50
32 1 0.02
ACGTcount: A:0.12, C:0.35, G:0.39, T:0.14
Consensus pattern (31 bp):
CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
Found at i:9046 original size:61 final size:61
Alignment explanation
Indices: 8971--9101 Score: 237
Period size: 61 Copynumber: 2.1 Consensus size: 61
8961 GTGCGGCACT
*
8971 CCCGCACCCGGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGA-GCC
1 CCCGCACCCGGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
9031 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCG-GGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
9093 CCCGCACCC
1 CCCGCACCC
9102 AACTCTCGCT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
60 10 0.15
61 47 0.69
62 11 0.16
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.13
Consensus pattern (61 bp):
CCCGCACCCGGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:9067 original size:187 final size:186
Alignment explanation
Indices: 8732--9090 Score: 471
Period size: 187 Copynumber: 1.9 Consensus size: 186
8722 CCGTCGGGTG
* * *
8732 TTGCCGATGGTGACCGAGGCCCCCGCACCCACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGG
1 TTGCCGATGGTGACCGAGGCCCACGCACCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTGG
* *** *
8797 CCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCTCTGGGTTTGCCG
66 CCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGCCCCGTTGGCCG
* *
8862 ATGGTGACCGAGACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
131 AGGGTGACCGAGACCCGTC-GGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
*
8919 TTGCCGATGGTGACCGA-GCCTCACGCACCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCG-G
1 TTGCCGATGGTGACCGAGGCC-CACGCACCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*
8982 GCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAG-CCCCCGCACCCG-TGG
65 GCCT-GGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGC-CCCGTTGG
* *
9044 CCTG-GGGTTG-CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGG
128 CC-GAGGG-TGACCGA-G-ACCCGTCGGCGTTGCCAATGGTGACCGAGG
9091 ACCCCGCACC
Statistics
Matches: 151, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
185 15 0.10
186 55 0.36
187 81 0.54
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.17
Consensus pattern (186 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTGG
CCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGCCCCGTTGGCCG
AGGGTGACCGAGACCCGTCGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:9126 original size:153 final size:156
Alignment explanation
Indices: 8899--9182 Score: 420
Period size: 153 Copynumber: 1.8 Consensus size: 156
8889 CCAATGGTGA
* *
8899 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
8964 CGGCACTCCCGCACCCG-GGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCG
66 CGGAACTCCCGCACCCGTGGCCT-GGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
9027 AGCCCCCGCACCCGTGGCCTGGGGTTG
130 AGCCCCCGCACCCGTGGCCTGGGGTTG
* * *
9054 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTC-GCTCT
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
9114 GTCCGGAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGAC
63 GTCCGGAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGAC
9179 CGAG
128 CGAG
9183 ACACCCGTCT
Statistics
Matches: 117, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
153 65 0.56
154 44 0.38
155 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.15
Consensus pattern (156 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGA
GCCCCCGCACCCGTGGCCTGGGGTTG
Found at i:9188 original size:32 final size:32
Alignment explanation
Indices: 9146--9278 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
9136 GCCTGGGTTG
* *
9146 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
9178 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
9210 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
* *
9242 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGGTTGCCGATGGTGA
9274 CCGAG
1 CCGAG
9279 CCTCACGCAC
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 1 0.01
32 84 0.89
33 9 0.10
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
Found at i:9401 original size:33 final size:32
Alignment explanation
Indices: 9324--9412 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
9314 CCTCACCAAT
*
9324 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
9356 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
9389 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
9413 GGGCTCACGC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 21 0.45
33 26 0.55
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (32 bp):
GCCTGGGATTGCCGATGGTGACCGAGACACCC
Found at i:17678 original size:32 final size:31
Alignment explanation
Indices: 17642--17769 Score: 129
Period size: 31 Copynumber: 4.2 Consensus size: 31
17632 GCCTGGGTTG
* *
17642 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTC-GGGTTTGCCGATGGTGA
*
17674 CCGAGACACCCGTCTGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGGTTTGCCGATGGTGA
* *
17705 CCGAGACACCC-T-GGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCGGGTTTGCCGATGGTGA
* * *
17734 -CGAGGCCACCCGCCTGGGATTG-CGATGGTGA
1 CCGA-GACACCCGTC-GGGTTTGCCGATGGTGA
17765 CCGAG
1 CCGAG
17770 CCTCACGCAC
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
28 3 0.04
29 20 0.25
30 1 0.01
31 35 0.44
32 21 0.26
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.18
Consensus pattern (31 bp):
CCGAGACACCCGTCGGGTTTGCCGATGGTGA
Found at i:17832 original size:22 final size:20
Alignment explanation
Indices: 17804--17844 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
17794 GCGCACTCCC
17804 GCACCCGGCCTGGGTTGCCGAG
1 GCACCC-GCC-GGGTTGCCGAG
*
17826 GCACCCGTCGGGTTGCCGA
1 GCACCCGCCGGGTTGCCGA
17845 TGACCGAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.15
Consensus pattern (20 bp):
GCACCCGCCGGGTTGCCGAG
Found at i:17888 original size:58 final size:57
Alignment explanation
Indices: 17801--17926 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 57
17791 TGTGCGCACT
*
17801 CCCGCACCCGGCCTGGGTTGCCGAGGCACCCGTC-GGGTTGCCGA-TGACCGAGGCC
1 CCCGCACCCGGCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGAGTGACCGAGGAC
17856 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCC--GGCCT-GGGTTGCCGAGGCACCCGTCGGGGTTGCCGA--GTGACCGAGGAC
17918 CCCGCACCC
1 CCCGCACCC
17927 AACTCTCGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
55 9 0.14
57 5 0.08
58 20 0.32
59 10 0.16
62 19 0.30
ACGTcount: A:0.11, C:0.40, G:0.37, T:0.13
Consensus pattern (57 bp):
CCCGCACCCGGCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGAGTGACCGAGGAC
Found at i:18047 original size:31 final size:32
Alignment explanation
Indices: 17972--18103 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
17962 CCTGGGGTTG
* * *
17972 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
18004 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
18036 CCGAGAC-CCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
18067 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
18099 CCGAG
1 CCGAG
18104 CCTCACGCAC
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
31 29 0.31
32 55 0.59
33 9 0.10
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:18090 original size:63 final size:63
Alignment explanation
Indices: 17980--18103 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 63
17970 TGCCGAGCCA
*
17980 CCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGAC
1 CCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGCCTGGGTTTGCCGATGGTGACCGAGAC
* * *
18043 CCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGACCGAG
1 CCCGTCGGGGGTTGCCGATGGTGACCGA-GACACCCGCCTGGGTTTGCCGATGGTGACCGAG
18104 CCTCACGCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
63 44 0.79
64 12 0.21
ACGTcount: A:0.13, C:0.30, G:0.38, T:0.19
Consensus pattern (63 bp):
CCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGCCTGGGTTTGCCGATGGTGACCGAGAC
Found at i:18199 original size:32 final size:32
Alignment explanation
Indices: 18163--18229 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
18153 GGTTGCCGAC
* **
18163 CCGAGACACCCGTATGGTTTTGCCGATGGTGA
1 CCGAGACACCCGCATGGGATTGCCGATGGTGA
* *
18195 CCGAGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGCATGGGATTGCCGATGGTGA
18227 CCG
1 CCG
18230 GGCTCACGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.19
Consensus pattern (32 bp):
CCGAGACACCCGCATGGGATTGCCGATGGTGA
Found at i:26515 original size:94 final size:94
Alignment explanation
Indices: 26362--26747 Score: 361
Period size: 94 Copynumber: 4.1 Consensus size: 94
26352 TGCGAGGCTG
* ** *
26362 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
*
26427 GTC-GGTGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGA-GCCC
* *
26456 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
*
26521 GTCGGGGGTTGCCGATGGTGACCGA-CAC
66 GTCGGGGGTTGCCGATGGTGACCGAGCCC
******* * ** ** * *** * * ***
26549 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
* * *
26611 CACCCGCCTGGGATTGCCGATGGTGACCGAGCCTC
61 CACCCGTCGGGGGTTGCCGATGGTGACCGAGCC-C
*
26646 ACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
26710 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGA-GCCC
26740 CCGCACCC
1 CCGCACCC
26748 GTGGCCTGGG
Statistics
Matches: 219, Mismatches: 60, Indels: 25
0.72 0.20 0.08
Matches are distributed among these distances:
93 19 0.09
94 111 0.51
95 69 0.32
96 17 0.08
97 3 0.01
ACGTcount: A:0.13, C:0.37, G:0.34, T:0.17
Consensus pattern (94 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGGTTGCCGATGGTGACCGAGCCC
Found at i:26550 original size:30 final size:30
Alignment explanation
Indices: 26516--26640 Score: 151
Period size: 30 Copynumber: 4.0 Consensus size: 30
26506 GTTGCCGAGG
* *
26516 CACCCGTCGGGGGTTGCCGATGGTGACCGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGA
26546 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGATGGTGACC--GA
* *
26578 CACCCGTCTGGCTTTGCCAATGGTGACCGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGA
* *
26608 GGCCACCCGCCTGGGATTGCCGATGGTGACCGA
1 ---CACCCGTCTGGGTTTGCCGATGGTGACCGA
26641 GCCTCACGCA
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
30 28 0.34
32 28 0.34
33 26 0.32
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.19
Consensus pattern (30 bp):
CACCCGTCTGGGTTTGCCGATGGTGACCGA
Found at i:26585 original size:32 final size:32
Alignment explanation
Indices: 26510--26641 Score: 169
Period size: 32 Copynumber: 4.2 Consensus size: 32
26500 CCTGGGGTTG
* * *
26510 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
26542 CC--GACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
26572 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
26604 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
26637 CCGAG
1 CCGAG
26642 CCTCACGCAC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
30 27 0.31
32 33 0.38
33 27 0.31
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:26607 original size:62 final size:63
Alignment explanation
Indices: 26510--26641 Score: 176
Period size: 62 Copynumber: 2.1 Consensus size: 63
26500 CCTGGGGTTG
* * * * *
26510 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGA-CACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGCACCCGCCTGGGATTGCCGATGGTGA
* *
26572 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGA-G-CACCCGCCTGGGATTGCCGATGGTGA
26637 CCGAG
1 CCGAG
26642 CCTCACGCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 31 0.52
65 29 0.48
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (63 bp):
CCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGCACCCGCCTGGGATTGCCGATGGTGA
Found at i:26773 original size:189 final size:188
Alignment explanation
Indices: 26434--26797 Score: 506
Period size: 189 Copynumber: 1.9 Consensus size: 188
26424 CCCGTCGGTG
* *
26434 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*** *
26499 GCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGACACCCGTCTGGGTTTGCC
66 GCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGACACCCGTCCCCGTTGGCC
*
26564 GATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
131 GA-GGTGACCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
*
26624 TTGCCGATGGTGACCGA-GCCTCACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGT
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGT
*
26687 GGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-T
65 GGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGA--CACCCGTC-CCCGTT
* * *
26750 GGCCTG-GGTTG-CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGG
127 GGCC-GAGG-TGACCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGG
26798 ACCCCGCACC
Statistics
Matches: 156, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
188 20 0.13
189 100 0.64
190 29 0.19
191 7 0.04
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.17
Consensus pattern (188 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
GCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGACACCCGTCCCCGTTGGCC
GAGGTGACCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:26803 original size:61 final size:63
Alignment explanation
Indices: 26676--26808 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 63
26666 GTGCGGCACT
*
26676 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
26739 CCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
26800 CCCGCACCC
1 CCCGCACCC
26809 AACTCTCGGC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 33 0.48
62 20 0.29
63 16 0.23
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.14
Consensus pattern (63 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:26886 original size:155 final size:157
Alignment explanation
Indices: 26604--26890 Score: 449
Period size: 156 Copynumber: 1.8 Consensus size: 157
26594 CCAATGGTGA
* *
26604 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
26669 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCG
66 CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
26734 AGGCCCCCGCACCCGTGGCCTGGGTTG
131 AGGCCCCCGCACCCGTGGCCTGGGTTG
* * *
26761 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
26822 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGA-CCACCCGTCGGGGGTTGCCGATGGTGA
63 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
26886 CCGAG
128 CCGAG
26891 ACACCCGTCT
Statistics
Matches: 120, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
155 55 0.46
156 57 0.47
157 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.16
Consensus pattern (157 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
AGGCCCCCGCACCCGTGGCCTGGGTTG
Found at i:26909 original size:32 final size:32
Alignment explanation
Indices: 26860--26986 Score: 193
Period size: 32 Copynumber: 4.0 Consensus size: 32
26850 GGTTGCCGAC
* *
26860 CACCCGTCGGGGGTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
26892 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
* *
26924 CACCCGTCTGGGTTTGCCGAGGGTGACCGAGGC
1 CACCCGTCTGGGTTTGCCGATGGTGACCGA-GA
*
26957 CACCCGCCTGGG-TTGCCGATGGTGACCGAG
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAG
26987 CCTCACGCAC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 1 0.01
32 75 0.85
33 12 0.14
ACGTcount: A:0.14, C:0.30, G:0.38, T:0.18
Consensus pattern (32 bp):
CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
Found at i:26973 original size:64 final size:64
Alignment explanation
Indices: 26860--27117 Score: 190
Period size: 64 Copynumber: 4.0 Consensus size: 64
26850 GGTTGCCGAC
* * * * * *
26860 CACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGAGGGTGACCGAGCCACCCGCCTGGGATTGCCGATGGTGACCGAGA
26924 CACCCGTCTGGGTTTGCCGAGGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGACCGAGC
1 CACCCGTCTGGGTTTGCCGAGGGTGACCGA-GCCACCCGCCTGGGATTGCCGATGGTGACCGAG-
26988 CTCA
64 ---A
* ** * * ***
26992 CGCACCAACG-CTCGGTTCTG-CG-GCACT-CCCTCA-CCAATGGCCTGGG-TTGCCGAT-GTGA
1 --CACC--CGTCTGGGTT-TGCCGAG-GGTGACC-GAGCCACCCGCCTGGGATTGCCGATGGTGA
27050 CCGAGA
59 CCGAGA
* * *
27056 CACCCGTATGGTTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCG
1 CACCCGTCTGGGTTTGCCGAGGGTGACCGA-GCCACCCGCCTGGGATTGCCGATGGTGACCG
27118 GGGCTCACGC
Statistics
Matches: 150, Mismatches: 24, Indels: 39
0.70 0.11 0.18
Matches are distributed among these distances:
60 4 0.03
61 8 0.05
62 6 0.04
63 10 0.07
64 54 0.36
65 19 0.13
68 10 0.07
69 18 0.12
70 7 0.05
71 10 0.07
72 4 0.03
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (64 bp):
CACCCGTCTGGGTTTGCCGAGGGTGACCGAGCCACCCGCCTGGGATTGCCGATGGTGACCGAGA
Found at i:27106 original size:33 final size:31
Alignment explanation
Indices: 27031--27117 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
27021 CTCACCAATG
27031 GCCTGGGTTGCCGAT-GTGACCGAGACACCC
1 GCCTGGGTTGCCGATGGTGACCGAGACACCC
** * *
27061 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGG-GTTGCCGATGGTGACCGA-GACACCC
27094 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGG-TTGCCGATGGTGACCG
27118 GGGCTCACGC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 4 0.09
31 8 0.17
32 8 0.17
33 26 0.57
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.21
Consensus pattern (31 bp):
GCCTGGGTTGCCGATGGTGACCGAGACACCC
Found at i:39982 original size:94 final size:91
Alignment explanation
Indices: 39829--40009 Score: 256
Period size: 94 Copynumber: 2.0 Consensus size: 91
39819 TGCGAGGCTG
* *
39829 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGTTGCCGAGGCACCCG
1 CCGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCAATGGACTGGGTTGCCGAGGCACCCG
39894 TCGGGTGTTGCCGATGGTGACCGAGGCCC
66 --GGG-GTTGCCGATGGTGACCGAGGCCC
* * ** *
39923 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCC-CCCCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCAATGGACT-GGGTTGCCGAGGCACCC
39987 GGGGGTTGCCGATGGTGACCGAG
65 GGGGGTTGCCGATGGTGACCGAG
40010 ACACCCGTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
91 19 0.24
92 3 0.04
93 8 0.10
94 49 0.62
ACGTcount: A:0.12, C:0.38, G:0.34, T:0.17
Consensus pattern (91 bp):
CCGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCAATGGACTGGGTTGCCGAGGCACCCG
GGGGTTGCCGATGGTGACCGAGGCCC
Found at i:40093 original size:33 final size:32
Alignment explanation
Indices: 39992--40106 Score: 176
Period size: 32 Copynumber: 3.6 Consensus size: 32
39982 CACCCGGGGG
39992 TTGCCGATGGTGACCGAGACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGACACCCGTCTGGGT
*
40024 TTGCCGATGGTGACCGAGACACCCGTCTGGCT
1 TTGCCGATGGTGACCGAGACACCCGTCTGGGT
* * * *
40056 TTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
40089 TTGCCGATGGTGACCGAG
1 TTGCCGATGGTGACCGAG
40107 CCTCACGCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
32 48 0.64
33 27 0.36
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.20
Consensus pattern (32 bp):
TTGCCGATGGTGACCGAGACACCCGTCTGGGT
Found at i:40359 original size:31 final size:31
Alignment explanation
Indices: 40304--40433 Score: 190
Period size: 31 Copynumber: 4.2 Consensus size: 31
40294 GCCTGGGTTG
* *
40304 CCGAGCCACCC-TCGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTGCCGATGGTGA
*
40334 CCGAGACACCCGTCTGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTGCCGATGGTGA
40365 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGG-TTGCCGATGGTGA
* *
40397 CCGAGGCCACCCGCCTGGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTGCCGATGGTGA
40429 CCGAG
1 CCGAG
40434 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
30 10 0.11
31 35 0.38
32 34 0.37
33 12 0.13
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (31 bp):
CCGAGACACCCGTCTGGGTTGCCGATGGTGA
Found at i:40390 original size:32 final size:32
Alignment explanation
Indices: 40304--40433 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
40294 GCCTGGGTTG
* *
40304 CCGAGCCACCC-TC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
40334 CCGAGACACCCGTCT-GGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
40365 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
40397 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
40429 CCGAG
1 CCGAG
40434 CCTCACGCAC
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
30 10 0.11
31 33 0.36
32 37 0.40
33 12 0.13
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:48790 original size:94 final size:95
Alignment explanation
Indices: 48637--49023 Score: 358
Period size: 94 Copynumber: 4.1 Consensus size: 95
48627 TGCGAGGCTG
* * *
48637 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGC-CCCAATGGACTGGGGTTGCCGAGGCACC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCC-GTGGCCTGGGGTTGCCGAGGCACC
*
48701 CGTC-GGTGTTGCCGATGGTGACCGAGGCCC
65 CGTCGGGGGTTGCCGATGGTGACCGAGGCCC
* *
48731 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
* *
48796 GTC-GGGGTTGCCGATGGTGACCGAGACAC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
******* * ** ** * *** * * ***
48825 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
* * *
48887 CACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTC
61 CACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC-C
*
48922 ACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
48986 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
49016 CCGCACCC
1 CCGCACCC
49024 GTGGCCTGGG
Statistics
Matches: 220, Mismatches: 60, Indels: 25
0.72 0.20 0.08
Matches are distributed among these distances:
94 131 0.60
95 42 0.19
96 24 0.11
97 23 0.10
ACGTcount: A:0.13, C:0.37, G:0.34, T:0.17
Consensus pattern (95 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:48844 original size:32 final size:32
Alignment explanation
Indices: 48785--48917 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
48775 CCTGGGGTTG
* *
48785 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
48816 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
48848 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
48880 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
48913 CCGAG
1 CCGAG
48918 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.14
32 51 0.56
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:48905 original size:65 final size:63
Alignment explanation
Indices: 48785--48917 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 63
48775 CCTGGGGTTG
* * * * *
48785 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
* *
48848 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGA-GACACCCGCCTGGGATTGCCGATGGTGA
48913 CCGAG
1 CCGAG
48918 CCTCACGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 13 0.21
64 18 0.30
65 30 0.49
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (63 bp):
CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
Found at i:49030 original size:63 final size:62
Alignment explanation
Indices: 48952--49085 Score: 250
Period size: 63 Copynumber: 2.1 Consensus size: 62
48942 GTGCGGCACT
*
48952 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGAC
49015 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
49077 CCCGCACCC
1 CCCGCACCC
49086 AACCTCGGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 33 0.47
63 37 0.53
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.13
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:49044 original size:31 final size:31
Alignment explanation
Indices: 48952--49049 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
48942 GTGCGGCACT
48952 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
**** * * *
48983 CCCGTCGGGGGTTGCC-GATGG-TGACCGAGGCC
1 CCCG-CACCCGTGGCCTG-GGGTTG-CCGAGGCA
49015 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
49046 CCCG
1 CCCG
49050 TCGGGGTTGC
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.09, C:0.38, G:0.40, T:0.13
Consensus pattern (31 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
Found at i:49050 original size:190 final size:190
Alignment explanation
Indices: 48709--49074 Score: 510
Period size: 190 Copynumber: 1.9 Consensus size: 190
48699 CCCGTCGGTG
* *
48709 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*** *
48774 GCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGC
66 GCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGC
* *
48839 CGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
131 CGAGGGTGACCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
*
48900 TTGCCGATGGTGACCGA-GCCTCACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGT
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGT
* *
48963 GGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-T
65 GGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTC-CCCGTT
* * *
49026 GGCCTG-GGGTTG-CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGG
128 GGCC-GAGGG-TGACCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGG
49075 ACCCCGCACC
Statistics
Matches: 156, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
189 20 0.13
190 83 0.53
191 53 0.34
ACGTcount: A:0.13, C:0.35, G:0.36, T:0.17
Consensus pattern (190 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
GCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGC
CGAGGGTGACCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:49073 original size:31 final size:32
Alignment explanation
Indices: 48975--49078 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
48965 CCTGGGGTTG
*
48975 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
* *** * *
49007 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCAGGGGTTGCC-GATGG-TGA
49038 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
49069 CCGAGG-ACCC
1 CCGAGGCACCC
49079 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
30 7 0.13
31 32 0.59
32 15 0.28
ACGTcount: A:0.12, C:0.35, G:0.40, T:0.13
Consensus pattern (32 bp):
CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
Found at i:49189 original size:32 final size:31
Alignment explanation
Indices: 49131--49261 Score: 201
Period size: 32 Copynumber: 4.2 Consensus size: 31
49121 CCTGGGGTTG
*
49131 CCGAGCCACCCGTC-GGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTGCCGATGGTGA
49161 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGG-TTGCCGATGGTGA
49193 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGG-TTGCCGATGGTGA
* *
49225 CCGAGGCCACCCGCCTGGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTGCCGATGGTGA
49257 CCGAG
1 CCGAG
49262 CCTCACGCAC
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
30 13 0.14
31 4 0.04
32 66 0.69
33 12 0.13
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (31 bp):
CCGAGACACCCGTCTGGGTTGCCGATGGTGA
Found at i:49216 original size:156 final size:158
Alignment explanation
Indices: 48816--49232 Score: 512
Period size: 156 Copynumber: 2.7 Consensus size: 158
48806 CCGATGGTGA
* * *
48816 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGACACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * * *
48881 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTCACGCACCAACGCTCGGTTCTGTG
65 CGA-GACACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGCTCTGTC
*
48945 CGGCACTCCCGCACCCGTGGCCTGGGGTTG
129 CGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * * *** * *
48975 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TGGCCTG-GGGTT
1 CCGAGACACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTC-TGGGTTTGCC-GATGG-T
* *
49037 G-CCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAAC-CTCGGCTC
62 GACCGAGACACCCGTCTGGGATTGCCGATGGTGACCGAGG-CCTCACGCA-CCAACGCTCGGCTC
49097 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
125 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
*
49131 CCGAGCCACCCGTC-GGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
*
49195 GAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCC
66 GAGACACCCGTCTGGGATTGCCGATGGTGACCGAGGCC
49233 ACCCGCCTGG
Statistics
Matches: 219, Mismatches: 28, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
154 30 0.14
155 22 0.10
156 98 0.45
157 15 0.07
158 13 0.06
159 41 0.19
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (158 bp):
CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
GAGACACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGCTCTGTCCG
GAACTCCCGCACCCGTGGCCTGGGGTTG
Found at i:49357 original size:32 final size:32
Alignment explanation
Indices: 49311--49395 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
49301 ACCAATGGCC
*
49311 TGGGGTTGCCGATGGTGACCGA-GACACCCGTA
1 TGGGATTGCCGATGGTGACCGAGGACACCCG-A
** * *
49343 TGGTTTTGCCGATGGTGACCGAGGCCACCCGC
1 TGGGATTGCCGATGGTGACCGAGGACACCCGA
49375 TGGGATTGCCGATGGTGACCG
1 TGGGATTGCCGATGGTGACCG
49396 GGGCTCACGC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 39 0.85
33 7 0.15
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (32 bp):
TGGGATTGCCGATGGTGACCGAGGACACCCGA
Found at i:49386 original size:345 final size:342
Alignment explanation
Indices: 48682--49322 Score: 1117
Period size: 345 Copynumber: 1.9 Consensus size: 342
48672 CCCCAATGGA
* *
48682 CTGGGGTTGCCGAGGCACCCGTCGGTGTTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCG
1 CTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTCG
* * *
48747 GCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATG
66 GCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATG
48812 GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGG
131 GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGG
48877 TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCT
196 TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCT
** *
48942 GTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
261 GTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTAGGGGGTTGCCGATGGTGA
49007 CCGAGGCCCCCGCACCCGTGGC
326 CCGAGG---CCGCACCC--GGC
49029 CTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAAC-CTCG
1 CTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTCG
49093 GCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTC-GGGTTGCCGATG
66 GCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATG
* *
49157 GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGG
131 GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGG
49222 TGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCT
196 TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCT
*
49286 GTGCGGCACTCCCTCACCAATGGCCTGGGGTTGCCGA
261 GTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGA
49323 TGGTGACCGA
Statistics
Matches: 284, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
344 76 0.27
345 97 0.34
346 53 0.19
347 58 0.20
ACGTcount: A:0.13, C:0.35, G:0.34, T:0.18
Consensus pattern (342 bp):
CTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTCG
GCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATG
GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGG
TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCT
GTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTAGGGGGTTGCCGATGGTGA
CCGAGGCCGCACCCGGC
Done.