Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007630.1 Hibiscus syriacus cultivar Beakdansim tig00023656_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: 45813
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Found at i:8065 original size:32 final size:32
Alignment explanation
Indices: 8029--8152 Score: 153
Period size: 32 Copynumber: 3.9 Consensus size: 32
8019 GCCTGGGTTG
* * *
8029 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
8061 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
8093 CCGAGACACCCG--TGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
8123 CCGAGGCCACCCGCCTGGGATTGCCGATGG
1 CCGA-GACACCCGTCTGGGTTTGCCGATGG
8153 ACCGAGCCTC
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
30 20 0.25
31 7 0.09
32 41 0.51
33 12 0.15
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:8250 original size:31 final size:32
Alignment explanation
Indices: 8215--8318 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
8205 GCCTGGGTTG
8215 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
* *** * *
8246 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCAGGGGTTGCC-GATGG-TGA
*
8277 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
8309 CCGAGG-ACCC
1 CCGAGGCACCC
8319 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
30 1 0.02
31 36 0.67
32 17 0.31
ACGTcount: A:0.12, C:0.35, G:0.40, T:0.13
Consensus pattern (32 bp):
CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
Found at i:8289 original size:62 final size:62
Alignment explanation
Indices: 8193--8325 Score: 241
Period size: 63 Copynumber: 2.1 Consensus size: 62
8183 GTGCGGCACT
*
8193 CCCGCACCCGTGGCCTGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
8254 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
8317 CCCGCACCC
1 CCCGCACCC
8326 AACTCTCGGC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 16 0.23
62 20 0.29
63 33 0.48
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.14
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:8308 original size:186 final size:189
Alignment explanation
Indices: 7954--8314 Score: 479
Period size: 186 Copynumber: 1.9 Consensus size: 189
7944 CCGTCGGGTG
* *
7954 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*** *
8019 GCCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGC
66 GCCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGC
* *
8084 CGATGGTGACCGAGACACCCGTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
131 CGAGGGTGACCGAGACACCCGTGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
*
8143 TTGCCGAT-G-GACCGA-GCCTCACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGT
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGT
* *
8204 GGCCTGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TG
65 GGCCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTC-CCCGTTG
* * *
8266 GCCTG-GGGTTG-CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGG
129 GCC-GAGGG-TGACCGAGACACCCGT--GGCGTTGCCAATGGTGACCGAGG
8315 ACCCCGCACC
Statistics
Matches: 152, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
184 19 0.12
185 31 0.20
186 82 0.54
187 11 0.07
188 1 0.01
189 8 0.05
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (189 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
GCCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGC
CGAGGGTGACCGAGACACCCGTGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:8381 original size:156 final size:154
Alignment explanation
Indices: 8123--8406 Score: 414
Period size: 156 Copynumber: 1.8 Consensus size: 154
8113 CCAATGGTGA
* * *
8123 CCGAGGCCACCCGCCTGGGATTGCCGATGGACCGAGCCTCACGCACCAACGCTCGGTTCTGTGCG
1 CCGAGGCCACCCGCCGGGGATTGCCGATGGACCGAGCCTCACGCACCAACGCTCGGCTCTGTCCG
* *
8188 GCACTCCCGCACCCGTGGCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGC
66 GAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGAGGC
8253 CCCCGCACCCGTGGCCTGGGGTTG
131 CCCCGCACCCGTGGCCTGGGGTTG
* * *
8277 CCGAGG-CACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCGGGGATTGCCGAT-G-GACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
8339 GTCCGGAACTCCC-CACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGAC
61 GTCCGGAACTCCCGCACCCGTGGCCT-GGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGAC
8403 CGAG
125 CGAG
8407 ACACCCGTCT
Statistics
Matches: 116, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
153 18 0.16
154 7 0.06
155 22 0.19
156 67 0.58
157 2 0.02
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.15
Consensus pattern (154 bp):
CCGAGGCCACCCGCCGGGGATTGCCGATGGACCGAGCCTCACGCACCAACGCTCGGCTCTGTCCG
GAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGAGGC
CCCCGCACCCGTGGCCTGGGGTTG
Found at i:8430 original size:32 final size:32
Alignment explanation
Indices: 8371--8502 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
8361 CCTGGGGTTG
* *
8371 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
8402 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
8434 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
8466 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
8498 CCGAG
1 CCGAG
8503 CCTCACGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
31 14 0.15
32 69 0.73
33 12 0.13
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:8626 original size:33 final size:32
Alignment explanation
Indices: 8549--8637 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
8539 CTCACCAATG
*
8549 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
8581 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
8614 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
8638 GGCTCACGCA
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:16933 original size:94 final size:95
Alignment explanation
Indices: 16758--16942 Score: 284
Period size: 94 Copynumber: 2.0 Consensus size: 95
16748 TGCGAGGCTG
* * *
16758 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGCTCTGTGCGGCACTCCCCCACCAATGGACTGGGGTTGCCGAGGCACCC
*
16823 GTCGGGTGTTGCCGATGGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGAT-GGTGACCGAGGCCC
* * *
16854 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCCCA-C-GTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGCTCTGTGCGGCACTCCCCCACCAATGGACTGGGGTTGCCGAGGCACCC
16917 GTCGGGGGTTGCCGATGGTGACCGAG
66 GTCGGGGGTTGCCGATGGTGACCGAG
16943 ACACCCGTCT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 10 0.12
94 38 0.46
95 1 0.01
96 33 0.40
ACGTcount: A:0.12, C:0.36, G:0.35, T:0.17
Consensus pattern (95 bp):
CCGCACCCAACGCTCGGCTCTGTGCGGCACTCCCCCACCAATGGACTGGGGTTGCCGAGGCACCC
GTCGGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:16942 original size:32 final size:32
Alignment explanation
Indices: 16906--17039 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
16896 CCTGGGGTTG
* * *
16906 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
16938 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
16970 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
17002 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
17035 CCGAG
1 CCGAG
17040 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 64 0.70
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:17119 original size:158 final size:158
Alignment explanation
Indices: 16938--17352 Score: 520
Period size: 158 Copynumber: 2.6 Consensus size: 158
16928 CCGATGGTGA
* *
16938 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
* *
17003 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAG-CCTCACGCA-CCAACGCTCGGTTCTGT
66 CGAGG-CACCCGTCTGGGATTGCCGATGGTGACCGAGACC-C-CGCACCCAACGCTCGGCTCTGT
* *
17066 GCGGCACTCCCGCACCCGTGGCCT-GGGTTG
128 CCGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * * *** * * ***
17096 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCGTGGCCTGGGGTTG-
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGG-TGA
* * *
17159 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTCGGCTCTGTC
65 CCGAGGCACCCGTCTGGGATTGCCGATGGTGACCGA-GACCCCGCACCCAACGCTCGGCTCTGTC
17224 CGGAACTCCCGCACCCGTGGCCTGGGGTTG
129 CGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * *
17254 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
*
17319 CGA-G-ACCCGTCTGGGTTTGCCGATGGTGACCGAG
66 CGAGGCACCCGTCTGGGATTGCCGATGGTGACCGAG
17353 GCCACCCGCC
Statistics
Matches: 216, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
156 32 0.15
157 80 0.37
158 93 0.43
159 11 0.05
ACGTcount: A:0.13, C:0.34, G:0.35, T:0.18
Consensus pattern (158 bp):
CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
CGAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGACCCCGCACCCAACGCTCGGCTCTGTCCG
GAACTCCCGCACCCGTGGCCTGGGGTTG
Found at i:17132 original size:32 final size:32
Alignment explanation
Indices: 17096--17200 Score: 101
Period size: 32 Copynumber: 3.3 Consensus size: 32
17086 GCCTGGGTTG
17096 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
* **** * *
17128 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCGGGGGTTGCC-GATGG-TGA
17159 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
17191 CCGAGG-ACCC
1 CCGAGGCACCC
17201 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.11, C:0.34, G:0.41, T:0.13
Consensus pattern (32 bp):
CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
Found at i:17150 original size:62 final size:63
Alignment explanation
Indices: 17074--17207 Score: 252
Period size: 63 Copynumber: 2.1 Consensus size: 63
17064 GTGCGGCACT
*
17074 CCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
17136 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
17199 CCCGCACCC
1 CCCGCACCC
17208 AACTCTCGGC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 16 0.23
63 54 0.77
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.13
Consensus pattern (63 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:17296 original size:32 final size:32
Alignment explanation
Indices: 17254--17386 Score: 191
Period size: 32 Copynumber: 4.2 Consensus size: 32
17244 CCTGGGGTTG
*
17254 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
* *
17286 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
*
17318 CCGAG--ACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
*
17348 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GCCACCCGTCTGGGGTTGCCGATGGTGA
17380 CCGAGCC
1 CCGAGCC
17387 TCACGCACCA
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
30 29 0.31
31 4 0.04
32 53 0.57
33 7 0.08
ACGTcount: A:0.14, C:0.32, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
Found at i:17339 original size:62 final size:62
Alignment explanation
Indices: 17261--17384 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
17251 TTGCCGAGCC
*
17261 ACCCGTCGGGGGTTGCCGATGGTGACCGA-GACACCCGTCTGGGTTTGCCGATGGTGACCGAG
1 ACCCGTCGGGGGTTGCCGATGGTGACCGAGGACACCCGCCTGGG-TTGCCGATGGTGACCGAG
* * *
17323 ACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGTTGCCGATGGTGACCGAG
1 ACCCGTCGGGGGTTGCCGATGGTGACCGAGGACACCCGCCTGGGTTGCCGATGGTGACCGAG
17385 CCTCACGCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
62 45 0.79
63 12 0.21
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.19
Consensus pattern (62 bp):
ACCCGTCGGGGGTTGCCGATGGTGACCGAGGACACCCGCCTGGGTTGCCGATGGTGACCGAG
Found at i:17508 original size:33 final size:32
Alignment explanation
Indices: 17431--17519 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
17421 CTCACCAATG
*
17431 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
17463 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
17496 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
17520 GGCTCACGCA
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:25865 original size:32 final size:32
Alignment explanation
Indices: 25806--25937 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
25796 GCCTGGGTTG
* *
25806 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
25837 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
25869 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
25901 CCGAGGCCACCC-CCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
25933 CCGAG
1 CCGAG
25938 CCTCACGCAC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 14 0.16
32 70 0.78
33 6 0.07
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:26031 original size:31 final size:32
Alignment explanation
Indices: 25996--26099 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
25986 CCTGGGGTTG
25996 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
* *** * *
26027 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCAGGGGTTGCC-GATGG-TGA
*
26058 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
26090 CCGAGG-ACCC
1 CCGAGGCACCC
26100 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
30 1 0.02
31 36 0.67
32 17 0.31
ACGTcount: A:0.12, C:0.35, G:0.40, T:0.13
Consensus pattern (32 bp):
CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
Found at i:26049 original size:62 final size:63
Alignment explanation
Indices: 25973--26106 Score: 252
Period size: 62 Copynumber: 2.1 Consensus size: 63
25963 GTGCGGCACT
*
25973 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
26035 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
26098 CCCGCACCC
1 CCCGCACCC
26107 AACTCTCGGC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 37 0.53
63 33 0.47
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.13
Consensus pattern (63 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:26070 original size:189 final size:189
Alignment explanation
Indices: 25731--26095 Score: 499
Period size: 189 Copynumber: 1.9 Consensus size: 189
25721 CCGTCGGGTG
* *
25731 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*** *
25796 GCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCC
66 GCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGCC
* * *
25861 GATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCCCTGGGA
131 GAGGGTGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGGCCACCCCCTGGGA
*
25920 TTGCCGATGGTGACCGA-GCCTCACGCA-CCAACGCTCGGTTTCTGTGCGGCACTCCCGCACCCG
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTCGG-CTCTGTGCGGCACTCCCGCACCCG
* *
25983 TGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-T
64 TGGCCT-GGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTC-CCCGTT
* * *
26046 GGCCTG-GGGTTG-CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGG
127 GGCC-GAGGG-TGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGG
26096 ACCCCGCACC
Statistics
Matches: 155, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
188 13 0.08
189 91 0.59
190 51 0.33
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.18
Consensus pattern (189 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
GCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGCC
GAGGGTGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGGCCACCCCCTGGGA
Found at i:26211 original size:32 final size:32
Alignment explanation
Indices: 26152--26283 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
26142 GCCTGGGTTG
* *
26152 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
26183 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
26215 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
26247 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
26279 CCGAG
1 CCGAG
26284 CCTCACGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
31 14 0.15
32 69 0.73
33 12 0.13
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:26219 original size:157 final size:159
Alignment explanation
Indices: 25837--26254 Score: 514
Period size: 157 Copynumber: 2.6 Consensus size: 159
25827 CCGATGGTGA
* * *
25837 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGACACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* *
25902 CGAGGCCACCC-CCTGGGATTGCCGATGGTGACCGA-GCCTCACGCACCAACGCTCGGTTTCTGT
65 CGAGG-CACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGTCTCTGT
* *
25965 GCGGCACTCCCGCACCCGTGGCCTGGGGTTG
129 CCGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * * *** * *
25996 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TGGCCTG-GGGTTG
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTC-TGGGTTTGCC-GATGG-TG
* * *
26058 -CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGG-CTC
63 ACCGAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGG-CCTCACGCA-CCAACGCTCGGTCTC
26119 TGTCCGGAACTCCCGCACCCGTGGCCT-GGGTTG
126 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
*
26152 CCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
* *
26217 GAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCC
66 GAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGGCC
26255 ACCCGCCTGG
Statistics
Matches: 219, Mismatches: 29, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
156 57 0.26
157 107 0.49
158 40 0.18
159 15 0.07
ACGTcount: A:0.13, C:0.35, G:0.34, T:0.18
Consensus pattern (159 bp):
CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
GAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGTCTCTGTCC
GGAACTCCCGCACCCGTGGCCTGGGGTTG
Found at i:26293 original size:157 final size:154
Alignment explanation
Indices: 25837--26418 Score: 423
Period size: 157 Copynumber: 3.6 Consensus size: 154
25827 CCGATGGTGA
* * * *
25837 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * *
25902 CGAGGCCACCC-CCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTTC-TGT
66 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGC-CA--C-CC-AC-CTAGGTTCCGTGT
25965 G-CGGCACTCCCGCACCCGTGGCCTGGGGTTG
125 GCCGGC-CTCCCGCACCCGTGGCCT-GGGTTG
* * * *** * *
25996 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TGGCCTG-GGGTT
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTC-TGGGTTTGCC-GATGG-T
* * * * ** * *
26057 G-CCGAGG-CACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-CCGCACCCAACTCTCGGCTC
63 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG-CCACC-CACCTAGGT-TCCG-TG
*
26119 TGTCCGGAACTCCCGCACCCGTGGCCTGGGTTG
124 TG-CCGG-CCTCCCGCACCCGTGGCCTGGGTTG
26152 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * * * *
26216 CGA-GACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGTTGCCGATGGTGAC
66 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCCACCCACCTAGGTT-CCG-T-GTG-C
* * * **
26280 CGAGCCTCACGCACCAACGCTCGGTTCTGTGCGG
127 CG-GCCTCCCGCACC--CG-T-GG-CCTGGGTTG
*** * * * *
26314 CACTCCCTCACCAATGGCCTGGGGTTGCCGATGGTGACCGAGACACCCGTATGGTTTTGCCGATG
1 C-CGAGC-CACC---CGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATG
26379 GTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCG
61 GTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCG
26419 GGGCTCACGC
Statistics
Matches: 332, Mismatches: 58, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
152 2 0.01
153 4 0.01
154 2 0.01
155 4 0.01
156 65 0.20
157 114 0.34
158 30 0.09
159 15 0.05
160 1 0.00
161 2 0.01
162 6 0.02
163 2 0.01
164 4 0.01
167 2 0.01
168 51 0.15
169 28 0.08
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (154 bp):
CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCCACCCACCTAGGTTCCGTGTGCCGGC
CTCCCGCACCCGTGGCCTGGGTTG
Found at i:26407 original size:33 final size:32
Alignment explanation
Indices: 26330--26418 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
26320 CTCACCAATG
*
26330 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
26362 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
26395 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
26419 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:34773 original size:32 final size:32
Alignment explanation
Indices: 34715--34846 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
34705 CCTGGGGTTG
*
34715 CCGAGGCACCCGTC-GGG-TTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
34745 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
34777 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
34809 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
34842 CCGAG
1 CCGAG
34847 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
30 13 0.14
31 3 0.03
32 48 0.53
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:34834 original size:65 final size:62
Alignment explanation
Indices: 34715--34846 Score: 183
Period size: 65 Copynumber: 2.1 Consensus size: 62
34705 CCTGGGGTTG
* * * *
34715 CCGAGGCACCCGTCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
* *
34777 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTC-GG-GTTGCCAATGGTGACCGA-GACACCCGCCTGGGATTGCCGATGGTGA
34842 CCGAG
1 CCGAG
34847 CCTCACGCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
62 13 0.21
63 2 0.03
64 16 0.26
65 30 0.49
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (62 bp):
CCGAGACACCCGTCGGGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
Found at i:34939 original size:31 final size:31
Alignment explanation
Indices: 34904--35005 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
34894 CCTGGGGTTG
34904 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
* *** *
34935 CCGAGGCCCCCG-CACCCGTGGCC--TGGGTTG-
1 CCGAGGCACCCGTC-GGGGTTGCCGAT-GG-TGA
34965 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
34996 CCGAGG-ACCC
1 CCGAGGCACCC
35006 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
29 1 0.02
30 25 0.46
31 27 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:34977 original size:61 final size:62
Alignment explanation
Indices: 34881--35012 Score: 248
Period size: 61 Copynumber: 2.1 Consensus size: 62
34871 GTGCGGCACT
*
34881 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
34943 CCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
35004 CCCGCACCC
1 CCCGCACCC
35013 AACTCTCGGC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 53 0.77
62 16 0.23
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.14
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:35037 original size:155 final size:156
Alignment explanation
Indices: 34809--35094 Score: 454
Period size: 155 Copynumber: 1.8 Consensus size: 156
34799 CCAATGGTGA
* *
34809 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
34874 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGA
66 CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGA
34939 GGCCCCCGCACCCGTGGCCTGGGTTG
131 GGCCCCCGCACCCGTGGCCTGGGTTG
* * *
34965 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
35026 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGAC
63 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGAC
35091 CGAG
128 CGAG
35095 ACACCCGTCT
Statistics
Matches: 120, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
154 24 0.20
155 88 0.73
156 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.16
Consensus pattern (156 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGA
GGCCCCCGCACCCGTGGCCTGGGTTG
Found at i:35118 original size:32 final size:32
Alignment explanation
Indices: 35059--35190 Score: 189
Period size: 32 Copynumber: 4.2 Consensus size: 32
35049 CCTGGGGTTG
* *
35059 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
35090 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
35122 CCGAGACACCCGTCT-GGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
35153 CCGAGGCCACCCGCCTGGG-TTGCCGATGGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGAT-GGTGA
35186 CCGAG
1 CCGAG
35191 CCTCACGCAC
Statistics
Matches: 93, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
31 33 0.35
32 49 0.53
33 11 0.12
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:35176 original size:63 final size:64
Alignment explanation
Indices: 35059--35190 Score: 196
Period size: 63 Copynumber: 2.1 Consensus size: 64
35049 CCTGGGGTTG
* *
35059 CCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGAT-GGTGA
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGCCTGGGTTTGCCGATGGGTGA
* * *
35122 CCGAGACACCCGTCTGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGGTGA
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGA-GACACCCGCCTGGGTTTGCCGATGGGTGA
35186 CCGAG
1 CCGAG
35191 CCTCACGCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
63 40 0.65
64 22 0.35
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.18
Consensus pattern (64 bp):
CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGCCTGGGTTTGCCGATGGGTGA
Found at i:35226 original size:344 final size:345
Alignment explanation
Indices: 34598--35251 Score: 1170
Period size: 344 Copynumber: 1.9 Consensus size: 345
34588 GTGCGGCACT
*
34598 CCCGCACCAATGGACTGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGCCCCC
1 CCCGCACCAATGGACTGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGACCCC
* * *
34663 GCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGT
66 GCACCCAACTCTCGGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGT
34728 CGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTG
131 CGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTG
34793 GCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACC
196 GCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACC
**
34858 AACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGT
261 AACGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTCGGGGT
34923 TGCCGATGGTGACCGAGGCC
326 TGCCGATGGTGACCGAGGCC
** *
34943 CCCGCACCCGTGGCCTGGGTTGCCGAGGCACCCGTCGGG-GTTGCCGATGGTGACCGAGGACCCC
1 CCCGCACCAATGGACTGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGACCCC
35007 GCACCCAACTCTCGGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGT
66 GCACCCAACTCTCGGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGT
35072 CGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCT
131 C-GGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCT
*
35137 GG-TTTGCCGATGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGGTGACCGAGCCTCACGCA
195 GGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGAT-GGTGACCGAGCCTCACGCA
*
35200 CCAACGCTCGGTTCTGTGCGGCACTCCCTCACCAATGGCCTGGGGTTGCCGA
259 CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGA
35252 TGGTGACCGA
Statistics
Matches: 296, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
343 8 0.03
344 187 0.63
345 101 0.34
ACGTcount: A:0.13, C:0.35, G:0.34, T:0.18
Consensus pattern (345 bp):
CCCGCACCAATGGACTGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGACCCC
GCACCCAACTCTCGGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGT
CGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTG
GCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACC
AACGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTCGGGGT
TGCCGATGGTGACCGAGGCC
Found at i:35313 original size:30 final size:29
Alignment explanation
Indices: 35238--35322 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 29
35228 TCACCAATGG
*
35238 CCTGGGGTTGCCGATGGTGACCGAGACAC
1 CCTGGGATTGCCGATGGTGACCGAGACAC
** *
35267 CCGTATGGTTTTGCCGATGGTGACCGAGGCCAC
1 CC---TGGGATTGCCGATGGTGACCGA-GACAC
35300 CCTGGGATTGCCGATGGTGACCG
1 CCTGGGATTGCCGATGGTGACCG
35323 GGCTCACGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.04
30 19 0.40
32 20 0.43
33 6 0.13
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.21
Consensus pattern (29 bp):
CCTGGGATTGCCGATGGTGACCGAGACAC
Found at i:43647 original size:92 final size:93
Alignment explanation
Indices: 43468--43649 Score: 269
Period size: 91 Copynumber: 2.0 Consensus size: 93
43458 TGCGAGGCTG
* *
43468 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGCTCTGT-CGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
*
43533 GTCGGTGTTGCCGATGGTGACCGAGGCCC
65 GTCGGGGTTGCCGATGGTGACCGAGGCCC
* ** *
43562 CCGCACCCAACTCTCGGCTCTGT-GGCACTCCC-CACCCGTGGCCTGGGGTTGCCGAGGCACCCG
1 CCGCACCCAACGCTCGGCTCTGTCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCG
43625 TCGGGGGTTGCCGATGGTGACCGAG
66 TC-GGGGTTGCCGATGGTGACCGAG
43650 ACACCCGTCT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
91 30 0.38
92 30 0.38
94 20 0.25
ACGTcount: A:0.12, C:0.37, G:0.34, T:0.17
Consensus pattern (93 bp):
CCGCACCCAACGCTCGGCTCTGTCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCG
TCGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:43649 original size:32 final size:32
Alignment explanation
Indices: 43613--43743 Score: 169
Period size: 32 Copynumber: 4.2 Consensus size: 32
43603 CCTGGGGTTG
* * *
43613 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
43645 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
43677 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
43709 CCGAGGC-CACC--CTGGGATTGCCGATGGTGA
1 CCGAGACAC-CCGTCTGGGTTTGCCGATGGTGA
43739 CCGAG
1 CCGAG
43744 CCTCACGCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 21 0.24
31 1 0.01
32 67 0.75
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:43835 original size:92 final size:93
Alignment explanation
Indices: 43468--43847 Score: 305
Period size: 92 Copynumber: 4.1 Consensus size: 93
43458 TGCGAGGCTG
* ** *
43468 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
*
43533 GTCGGTGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGTTGCCGATGGTGACCGA-GCCC
* *
43562 CCGCACCCAACTCTCGGCTCTGT--GGCACTCCC-CACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
*
43624 GTCGGGGGTTGCCGATGGTGACCGAGACAC
66 GTC-GGGGTTGCCGATGGTGACCGAG-CCC
******* * ** ** * *** * * ***
43654 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
*
43716 CACCC-T-GGGATTGCCGATGGTGACCGAGCCTC
61 CACCCGTCGGGGTTGCCGATGGTGACCGAGCC-C
*
43748 ACGCA-CCAACGCTC-GTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGG-TGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
43810 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
66 GTC-GGGGTTGCCGATGGTGACCGA-GCCC
43840 CCGCACCC
1 CCGCACCC
43848 GTGGCCTGGG
Statistics
Matches: 213, Mismatches: 55, Indels: 37
0.70 0.18 0.12
Matches are distributed among these distances:
89 5 0.02
90 7 0.03
91 42 0.20
92 76 0.36
93 10 0.05
94 50 0.23
95 3 0.01
96 15 0.07
97 5 0.02
ACGTcount: A:0.13, C:0.36, G:0.33, T:0.17
Consensus pattern (93 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGTTGCCGATGGTGACCGAGCCC
Found at i:43848 original size:62 final size:62
Alignment explanation
Indices: 43777--43909 Score: 241
Period size: 62 Copynumber: 2.1 Consensus size: 62
43767 GTGCGGCACT
*
43777 CCCGCACCCGTGGCCTGGGG-TGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGAC
43839 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
43901 CCCGCACCC
1 CCCGCACCC
43910 AACTCTCGGC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
62 53 0.77
63 16 0.23
ACGTcount: A:0.11, C:0.38, G:0.39, T:0.13
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:43897 original size:31 final size:31
Alignment explanation
Indices: 43795--43902 Score: 89
Period size: 31 Copynumber: 3.5 Consensus size: 31
43785 CGTGGCCTGG
*
43795 GGTGCCGAGGCACCCGTCGGGGGTTGCCGAT
1 GGTGCCGAGGCACCCGTCAGGGGTTGCCGAT
* *** * *
43826 GGTGACCGAGGCCCCCG-CACCCGTGGCCTG-G
1 GGTG-CCGAGGCACCCGTCAGGGGTTGCC-GAT
43857 GGTTGCCGAGGCACCCGTC-GGGGTTGCCGAT
1 GG-TGCCGAGGCACCCGTCAGGGGTTGCCGAT
43888 GGTGACCGAGG-ACCC
1 GGTG-CCGAGGCACCC
43903 CGCACCCAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
30 7 0.12
31 36 0.62
32 15 0.26
ACGTcount: A:0.11, C:0.33, G:0.42, T:0.14
Consensus pattern (31 bp):
GGTGCCGAGGCACCCGTCAGGGGTTGCCGAT
Found at i:43982 original size:156 final size:153
Alignment explanation
Indices: 43709--43991 Score: 421
Period size: 156 Copynumber: 1.8 Consensus size: 153
43699 CCAATGGTGA
* * *
43709 CCGAGGCCACCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGTTCTGTGCGGC
1 CCGAGGCCACCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGCTCTGTCCGGA
*
43774 ACTCCCGCACCCGTGGCCTGGGGTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
66 ACTCCCGCACCCGTGGCCTGGGGTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
43839 CCCGCACCCGTGGCCTGGGGTTG
131 CCCGCACCCGTGGCCTGGGGTTG
* *
43862 CCGAGG-CACCCGTCGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCTG
1 CCGAGGCCACCC-T-GGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTC-GCTCTG
43924 TCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTC-GGGGTTGCCGATGGTGAC
60 TCCGGAACTCCCGCACCCGTGGCCTGGGG-TGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGAC
43988 CGAG
124 CGAG
43992 ACACCCGTCT
Statistics
Matches: 117, Mismatches: 6, Indels: 11
0.87 0.04 0.08
Matches are distributed among these distances:
152 5 0.04
153 7 0.06
154 24 0.21
155 10 0.09
156 56 0.48
157 15 0.13
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.16
Consensus pattern (153 bp):
CCGAGGCCACCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGCTCTGTCCGGA
ACTCCCGCACCCGTGGCCTGGGGTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
CCCGCACCCGTGGCCTGGGGTTG
Found at i:44015 original size:32 final size:32
Alignment explanation
Indices: 43956--44087 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
43946 CCTGGGGTTG
* *
43956 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
43987 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
44019 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
44051 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
44083 CCGAG
1 CCGAG
44088 CCTCACGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
31 14 0.15
32 69 0.73
33 12 0.13
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:44210 original size:33 final size:31
Alignment explanation
Indices: 44134--44221 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 31
44124 CTCACCAATG
44134 GCCTGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGTTGCCGATGGTGACCGAGACACCC
** * *
44165 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGG-GTTGCCGATGGTGACCGA-GACACCC
44198 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGG-TTGCCGATGGTGACCG
44222 GGGCTCACGC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 4 0.09
32 17 0.36
33 26 0.55
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.20
Consensus pattern (31 bp):
GCCTGGGTTGCCGATGGTGACCGAGACACCC
Done.