Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007587.1 Hibiscus syriacus cultivar Beakdansim tig00021771_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: 44982
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Found at i:163 original size:32 final size:32
Alignment explanation
Indices: 121--253 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
111 CCTGGGGTTG
* *
121 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
153 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
185 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
* *
217 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGGTTGCCGATGGTGA
249 CCGAG
1 CCGAG
254 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:240 original size:64 final size:65
Alignment explanation
Indices: 121--386 Score: 208
Period size: 64 Copynumber: 4.0 Consensus size: 65
111 CCTGGGGTTG
* * * * * *
121 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
185 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
* * **** ***
249 CCGAGCCTCACGCACCAACG-CTCGG-TT-CTG-TGCG-GCACTCCCTCACCAATGGCCTGGG-T
1 CCGAG----A--CACC--CGTCTGGGTTTGCCGATG-GTG-A--CCGAGGCCACCCGCCTGGGAT
308 TGCCGATGGTGA
54 TGCCGATGGTGA
* *
320 CCGAGACACCCGTAT-GTTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
384 CCG
1 CCG
387 GGGCTCACGC
Statistics
Matches: 159, Mismatches: 24, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
63 15 0.09
64 70 0.44
65 20 0.13
66 3 0.02
67 1 0.01
68 4 0.03
69 4 0.03
70 6 0.04
71 34 0.21
72 2 0.01
ACGTcount: A:0.15, C:0.32, G:0.33, T:0.19
Consensus pattern (65 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
Found at i:380 original size:33 final size:31
Alignment explanation
Indices: 300--386 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 31
290 CTCACCAATG
300 GCCTGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGTTGCCGATGGTGACCGAGACACCC
** ** *
331 GTATGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGTTGCCGATGGTGACCGA-GACACCC
363 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGG-TTGCCGATGGTGACCG
387 GGGCTCACGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 20 0.44
32 9 0.20
33 16 0.36
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.21
Consensus pattern (31 bp):
GCCTGGGTTGCCGATGGTGACCGAGACACCC
Found at i:8756 original size:32 final size:32
Alignment explanation
Indices: 8697--8829 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
8687 GCCTGGGTTG
* *
8697 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
8728 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
8760 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
8792 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
8825 CCGAG
1 CCGAG
8830 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:8817 original size:65 final size:63
Alignment explanation
Indices: 8697--8829 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 63
8687 GCCTGGGTTG
* * * * *
8697 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
* *
8760 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGA-GACACCCGCCTGGGATTGCCGATGGTGA
8825 CCGAG
1 CCGAG
8830 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:8917 original size:94 final size:93
Alignment explanation
Indices: 8551--8935 Score: 339
Period size: 94 Copynumber: 4.1 Consensus size: 93
8541 GCGAGGCTGC
* ** *
8551 CGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCG
1 CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
* *
8616 TCGGTGTTGCCGATGGTGACCGAGGCCCC
66 TCGGGGTTGCCGATGGTGACCGA-GCCCA
* *
8645 CGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCG
1 CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
8709 TCGGGGTTGCCGATGGTGACCGAG---A
66 TCGGGGTTGCCGATGGTGACCGAGCCCA
* * ** * *
8734 --CA-CC--CGTCTGGGTTTGCCGATG-GTG-AC-CGAGACACCCGTCTGGCTTTGCCAATGG-T
1 CGCACCCAACG-CTCGG-TT-CTG-TGCG-GCACTCCCG-CACCCG--TGGC-CTG----GGGTT
* *
8790 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCA
53 G-CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGCC-CA
8835 CGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
1 CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
*
8899 TCGGGGGTTGCCGATGGTGACCGAGGCCCC
66 TC-GGGGTTGCCGATGGTGACCGA-GCCCA
8929 CGCACCC
1 CGCACCC
8936 GTGGCCTGGG
Statistics
Matches: 232, Mismatches: 28, Indels: 61
0.72 0.09 0.19
Matches are distributed among these distances:
84 1 0.00
85 4 0.02
86 5 0.02
87 13 0.06
88 3 0.01
89 4 0.02
90 1 0.00
92 1 0.00
93 40 0.17
94 74 0.32
95 21 0.09
96 9 0.04
97 21 0.09
99 2 0.01
100 4 0.02
101 4 0.02
102 11 0.05
103 8 0.03
104 4 0.02
105 2 0.01
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (93 bp):
CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
TCGGGGTTGCCGATGGTGACCGAGCCCA
Found at i:8942 original size:63 final size:62
Alignment explanation
Indices: 8864--8997 Score: 250
Period size: 63 Copynumber: 2.1 Consensus size: 62
8854 GTGCGGCACT
*
8864 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGAC
8927 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
8989 CCCGCACCC
1 CCCGCACCC
8998 AACTCTCGGC
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:8956 original size:31 final size:31
Alignment explanation
Indices: 8864--8961 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
8854 GTGCGGCACT
8864 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
**** * * *
8895 CCCGTCGGGGGTTGCC-GATGG-TGACCGAGGCC
1 CCCG-CACCCGTGGCCTG-GGGTTG-CCGAGGCA
8927 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
8958 CCCG
1 CCCG
8962 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:8962 original size:190 final size:189
Alignment explanation
Indices: 8622--8986 Score: 499
Period size: 189 Copynumber: 1.9 Consensus size: 189
8612 CCCGTCGGTG
* *
8622 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*** *
8687 GCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCC
66 GCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGCC
* *
8752 GATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
131 GAGGGTGACCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
*
8812 TTGCCGATGGTGACCGA-GCCTCACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGT
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGT
* *
8875 GGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-T
65 GGCCT-GGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTC-CCCGTT
* * *
8938 GGCCTG-GGGTTG-CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGG
127 GGCC-GAGGG-TGACCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGG
8987 ACCCCGCACC
Statistics
Matches: 155, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
189 62 0.40
190 62 0.40
191 31 0.20
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (189 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
GCCTGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGCC
GAGGGTGACCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:8985 original size:31 final size:32
Alignment explanation
Indices: 8887--8990 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
8877 CCTGGGGTTG
*
8887 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
* *** * *
8919 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCAGGGGTTGCC-GATGG-TGA
8950 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCAGGGGTTGCCGATGGTGA
8981 CCGAGG-ACCC
1 CCGAGGCACCC
8991 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:9051 original size:23 final size:22
Alignment explanation
Indices: 9025--9067 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9015 GGAACTCCCG
*
9025 CACCCGGCCTGGGGTTGCCGAGC
1 CACCC-GCCGGGGGTTGCCGAGC
*
9048 CACCCGTCGGGGGTTGCCGA
1 CACCCGCCGGGGGTTGCCGA
9068 TGGTGACCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.09, C:0.37, G:0.40, T:0.14
Consensus pattern (22 bp):
CACCCGCCGGGGGTTGCCGAGC
Found at i:9064 original size:155 final size:157
Alignment explanation
Indices: 8792--9078 Score: 440
Period size: 155 Copynumber: 1.8 Consensus size: 157
8782 CCAATGGTGA
* *
8792 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
8857 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCG
66 CGGAACTCCCGCACCCG-GGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
8922 AGGCCCCCGCACCCGTGGCCTGGGGTTG
130 AGGCCCCCGCACCCGTGGCCTGGGGTTG
* * *
8950 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
9011 GTCCGGAACTCCCGCACCC-GGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGAC
63 GTCCGGAACTCCCGCACCCGGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGAC
9075 CGAG
128 CGAG
9079 ACACCCGTCT
Statistics
Matches: 119, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
155 48 0.40
156 24 0.20
157 39 0.33
158 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.36, T:0.15
Consensus pattern (157 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGA
GGCCCCCGCACCCGTGGCCTGGGGTTG
Found at i:9078 original size:32 final size:32
Alignment explanation
Indices: 9042--9176 Score: 200
Period size: 32 Copynumber: 4.2 Consensus size: 32
9032 CCTGGGGTTG
*
9042 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
* *
9074 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
* *
9106 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
*
9138 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GCCACCCGTCTGGGGTTGCCGATGGTGA
9170 CCGAGCC
1 CCGAGCC
9177 TCACGCACCA
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 3 0.03
32 84 0.88
33 9 0.09
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGCCACCCGTCTGGGGTTGCCGATGGTGA
Found at i:9295 original size:33 final size:32
Alignment explanation
Indices: 9218--9306 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
9208 CCCACCAATG
*
9218 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
9250 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
9283 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
9307 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:17611 original size:95 final size:95
Alignment explanation
Indices: 17456--17844 Score: 383
Period size: 95 Copynumber: 4.1 Consensus size: 95
17446 TGCGAGGCTG
* ** *
17456 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
*
17521 GTCGGGTGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
* *
17551 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
* *
17616 GTCGGGGGTTGCCGATGGTGACCGAGACAC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
******* * ** ** * *** * * ***
17646 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
* * *
17708 CACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTC
61 CACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC-C
*
17743 ACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
17807 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
17837 CCGCACCC
1 CCGCACCC
17845 GTGGCCTGGG
Statistics
Matches: 221, Mismatches: 62, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
94 32 0.14
95 125 0.57
96 34 0.15
97 30 0.14
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (95 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:17641 original size:32 final size:32
Alignment explanation
Indices: 17605--17738 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
17595 CCTGGGGTTG
* * *
17605 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
17637 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
17669 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
17701 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
17734 CCGAG
1 CCGAG
17739 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:17832 original size:32 final size:32
Alignment explanation
Indices: 17796--17900 Score: 101
Period size: 32 Copynumber: 3.3 Consensus size: 32
17786 CCTGGGGTTG
17796 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
* **** * *
17828 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCGGGGGTTGCC-GATGG-TGA
17859 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
17891 CCGAGG-ACCC
1 CCGAGGCACCC
17901 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:17851 original size:63 final size:63
Alignment explanation
Indices: 17773--17907 Score: 261
Period size: 63 Copynumber: 2.1 Consensus size: 63
17763 GTGCGGCACT
*
17773 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
17836 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
17899 CCCGCACCC
1 CCCGCACCC
17908 AACTCTCGGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.13
Consensus pattern (63 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:17865 original size:31 final size:31
Alignment explanation
Indices: 17773--17870 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
17763 GTGCGGCACT
17773 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
**** * * *
17804 CCCGTCGGGGGTTGCC-GATGG-TGACCGAGGCC
1 CCCG-CACCCGTGGCCTG-GGGTTG-CCGAGGCA
17836 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
17867 CCCG
1 CCCG
17871 TCGGGGGTTG
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:18013 original size:32 final size:32
Alignment explanation
Indices: 17954--18085 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
17944 CCTGGGGTTG
* *
17954 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
17985 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
18017 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
18049 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
18081 CCGAG
1 CCGAG
18086 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:18021 original size:158 final size:159
Alignment explanation
Indices: 17637--18056 Score: 532
Period size: 158 Copynumber: 2.7 Consensus size: 159
17627 CCGATGGTGA
* * * *
17637 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * *
17702 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTCACGCACCAACGCTCGGTTCTGTG
66 CGAGG-CACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGCTCTGTC
*
17766 CGGCACTCCCGCACCCGTGGCCTGGGGTTG
130 CGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * * *** * *
17796 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TGGCCTG-GGGTT
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTC-TGGGTTTGCC-GATGG-T
* * *
17858 G-CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTC
63 GACCGAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGG-CCTCACGCA-CCAACGCTCGGCTC
17920 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
126 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
*
17954 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* *
18018 CGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCC
66 CGAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGGCC
18057 ACCCGCCTGG
Statistics
Matches: 221, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
157 64 0.29
158 114 0.52
159 43 0.19
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (159 bp):
CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
CGAGGCACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGCTCTGTCC
GGAACTCCCGCACCCGTGGCCTGGGGTTG
Found at i:18095 original size:158 final size:156
Alignment explanation
Indices: 17637--18220 Score: 459
Period size: 158 Copynumber: 3.6 Consensus size: 156
17627 CCGATGGTGA
* * * *
17637 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * * * *
17702 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG-
66 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGC-CACCCACCAAAGTTCGG--ATGTGC
17766 CGGCACTCCCGCACCCGTGGCCTGGGGTTG
128 CGGC-CTCCCGCACCCGTGGCCTGGGGTTG
* * * * *** * *
17796 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TGGCCTG-GGGTT
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTC-TGGGTTTGCC-GATGG-T
* * * * * * *
17858 G-CCGAGG-CACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-CCGCACCCAACTCTCGGCTC
63 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG-CCACC-CACCAAAGT-TCGGATG
*
17920 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
125 TG-CCGG-CCTCCCGCACCCGTGGCCTGGGGTTG
17954 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
1 CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * * * *** *
18018 CGA-GACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGTTGCCGATGGTGAC
66 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCCACCCACCAAAGTT-CGGAT-GTG-C
* * * *
18082 CGAGCCTCACGCACCAACGCTCGGTTCTGTGCGGCACTC
128 CG-GCCTCCCGCACC--CG-T-GG-CCTG-G-GG--TTG
* *** * * *
18121 CCTCA-CCAATGGCCTGGGGTTGCCGATGGTGACCGAGACACCCGTATGGTTTTGCCGATGGTGA
1 CC-GAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
18185 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCG
65 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCG
18221 GGGCTCACGC
Statistics
Matches: 338, Mismatches: 57, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
156 6 0.02
157 75 0.22
158 116 0.34
159 42 0.12
160 2 0.01
161 1 0.00
162 2 0.01
163 3 0.01
164 1 0.00
165 2 0.01
167 8 0.02
168 52 0.15
169 28 0.08
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (156 bp):
CCGAGCCACCCGTCTGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCCACCCACCAAAGTTCGGATGTGCCGG
CCTCCCGCACCCGTGGCCTGGGGTTG
Found at i:18209 original size:33 final size:32
Alignment explanation
Indices: 18132--18220 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
18122 CTCACCAATG
*
18132 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
18164 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
18197 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
18221 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:18211 original size:349 final size:344
Alignment explanation
Indices: 17501--18146 Score: 1134
Period size: 349 Copynumber: 1.9 Consensus size: 344
17491 CACCAATGGA
* *
17501 CTGGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTC
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
* * *
17566 GGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGA
66 GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
17631 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
131 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
17696 GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
196 GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
** *
17761 CTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGT
261 CTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTAGGGGGTTGCCGATGGT
17826 GACCGAGGCCCCCGCACCCGTGGC
326 GACCGAGG---CCGCACCC--GGC
17850 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
17915 GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTC-GGGGTTGCCGA
66 GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
* *
17979 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGAT
131 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
18044 GGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
196 GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
*
18108 CTGTGCGGCACTCCCTCACCAATGGCCTGGGGTTGCCGA
261 CTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGA
18147 TGGTGACCGA
Statistics
Matches: 287, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
347 76 0.26
348 98 0.34
349 113 0.39
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.18
Consensus pattern (344 bp):
CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
CTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTAGGGGGTTGCCGATGGT
GACCGAGGCCGCACCCGGC
Found at i:26595 original size:32 final size:32
Alignment explanation
Indices: 26559--26692 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
26549 GCCTGGGTTG
* * *
26559 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
26591 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
26623 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
26655 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
26688 CCGAG
1 CCGAG
26693 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:26780 original size:94 final size:94
Alignment explanation
Indices: 26412--26798 Score: 352
Period size: 94 Copynumber: 4.1 Consensus size: 94
26402 GCGAGGCTGC
* ** *
26412 CGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCG
1 CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
* *
26477 TCGGGTGTTGCCGATGGTGACCGAGGCCCC
66 TCGGGGGTTGCCGATGGTGACCGA-GCCCA
* *
26507 CGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCG
1 CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
26571 TCGGGGGTTGCCGATGGTGACCGAG---A
66 TCGGGGGTTGCCGATGGTGACCGAGCCCA
* * ** * *
26597 --CA-CC--CGTCTGGGTTTGCCGATG-GTG-AC-CGAGACACCCGTCTGGCTTTGCCAATGG-T
1 CGCACCCAACG-CTCGG-TT-CTG-TGCG-GCACTCCCG-CACCCG--TGGC-CTG----GGGTT
* * *
26653 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCA
53 G-CCGAGG-CACCCGTCGGGGGTTGCCGATGGTGACCGAGCC-CA
26698 CGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
1 CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
*
26762 TCGGGGGTTGCCGATGGTGACCGAGGCCCC
66 TCGGGGGTTGCCGATGGTGACCGA-GCCCA
26792 CGCACCC
1 CGCACCC
26799 GGCCTGGGTT
Statistics
Matches: 233, Mismatches: 29, Indels: 60
0.72 0.09 0.19
Matches are distributed among these distances:
85 1 0.00
86 4 0.02
87 5 0.02
88 13 0.06
89 3 0.01
90 4 0.02
91 1 0.00
93 1 0.00
94 73 0.31
95 55 0.24
96 10 0.04
97 28 0.12
99 2 0.01
100 4 0.02
101 4 0.02
102 11 0.05
103 8 0.03
104 4 0.02
105 2 0.01
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (94 bp):
CGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCG
TCGGGGGTTGCCGATGGTGACCGAGCCCA
Found at i:26821 original size:22 final size:21
Alignment explanation
Indices: 26793--26834 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26783 CGAGGCCCCC
*
26793 GCACCCGGCCTGGGTTGCCGAG
1 GCACCC-GCCGGGGTTGCCGAG
*
26815 GCACCCGTCGGGGTTGCCGA
1 GCACCCGCCGGGGTTGCCGA
26835 TGGTGACCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.10, C:0.36, G:0.40, T:0.14
Consensus pattern (21 bp):
GCACCCGCCGGGGTTGCCGAG
Found at i:26852 original size:59 final size:62
Alignment explanation
Indices: 26727--26857 Score: 223
Period size: 59 Copynumber: 2.1 Consensus size: 62
26717 GTGCGGCACT
*
26727 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCG-GGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
26790 CCCGCACCC-GGCCT-GGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
26849 CCCGCACCC
1 CCCGCACCC
26858 ACTCTCGGCT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
59 33 0.49
60 20 0.30
61 5 0.07
63 9 0.13
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.13
Consensus pattern (62 bp):
CCCGCACCCGGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:26881 original size:153 final size:154
Alignment explanation
Indices: 26655--26938 Score: 441
Period size: 153 Copynumber: 1.9 Consensus size: 154
26645 CCAATGGTGA
* *
26655 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
26720 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCG
66 CGGAACTCCCGCACCCGTGGCCT-GGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
26785 AGGCCCCCGCACCCGGCCTGGGTTG
130 AGGCCCCCGCACCCGGCCTGGGTTG
* * * *
26810 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCACTCTCGGCTCTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCACCAACGCTCGGCTCTG
26871 TCCGGAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACC
64 TCCGGAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACC
26936 GAG
129 GAG
26939 ACACCCGTCT
Statistics
Matches: 119, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
152 42 0.35
153 60 0.50
154 9 0.08
155 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.15
Consensus pattern (154 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGA
GGCCCCCGCACCCGGCCTGGGTTG
Found at i:26944 original size:32 final size:32
Alignment explanation
Indices: 26902--27034 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
26892 GCCTGGGTTG
* *
26902 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
26934 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
26966 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
* *
26998 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGGTTGCCGATGGTGA
27030 CCGAG
1 CCGAG
27035 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:27158 original size:33 final size:32
Alignment explanation
Indices: 27081--27169 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
27071 CTCACCAATG
*
27081 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
27113 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
27146 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
27170 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:35511 original size:32 final size:32
Alignment explanation
Indices: 35452--35583 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
35442 GCCTGGGTTG
* *
35452 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
35483 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
35515 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
35547 CCGAGGCCACCCGCCTGGGATTGCCGAT-GTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
35579 CCGAG
1 CCGAG
35584 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 58 0.64
33 18 0.20
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:35691 original size:60 final size:61
Alignment explanation
Indices: 35618--35749 Score: 223
Period size: 62 Copynumber: 2.2 Consensus size: 61
35608 GTGCGGCACT
*
35618 CCCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTC-GGGTTGCCGATGGTGACCGAGGC
1 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC-TCGGGGTTGCCGATGGTGACCGAGGA
35678 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCTCGGGGGTTGCCGATGGTGACCGAGGA
1 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCTC-GGGGTTGCCGATGGTGACCGAGGA
35740 CCCCGCACCC
1 CCCCGCACCC
35750 AACTCTCGGC
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
60 19 0.28
61 17 0.25
62 32 0.47
ACGTcount: A:0.11, C:0.39, G:0.37, T:0.14
Consensus pattern (61 bp):
CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCTCGGGGTTGCCGATGGTGACCGAGGA
Found at i:35915 original size:33 final size:33
Alignment explanation
Indices: 35795--35928 Score: 186
Period size: 32 Copynumber: 4.2 Consensus size: 33
35785 GCCTGGGTTG
* * *
35795 CCGAGCCA-CCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCCGTCTGGGTTTGCCGATGGTGA
35827 CCGAGACA-CCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCCGTCTGGGTTTGCCGATGGTGA
35859 CCGAGACACCCC-TCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCCGTCTGGGTTTGCCGATGGTGA
* *
35891 CCGAGGCCACCCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCCGTCTGGGTTTGCCGATGGTGA
35924 CCGAG
1 CCGAG
35929 CCTCACGCAC
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
32 62 0.66
33 27 0.29
34 5 0.05
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (33 bp):
CCGAGACACCCCGTCTGGGTTTGCCGATGGTGA
Found at i:36055 original size:33 final size:31
Alignment explanation
Indices: 35975--36061 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
35965 CTCACCAATG
35975 GCCTGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGTTGCCGATGGTGACCGAGACACCC
** * *
36006 -TATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGG-GTTGCCGATGGTGACCGA-GACACCC
36038 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGG-TTGCCGATGGTGACCG
36062 GGCTCACGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 3 0.07
31 17 0.38
32 6 0.13
33 19 0.42
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.21
Consensus pattern (31 bp):
GCCTGGGTTGCCGATGGTGACCGAGACACCC
Found at i:44378 original size:95 final size:94
Alignment explanation
Indices: 44207--44595 Score: 356
Period size: 95 Copynumber: 4.1 Consensus size: 94
44197 GTGCGAGCTG
* ** *
44207 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
44272 GTCGGGTGTTGCCGATGGTGACCGAGGCCC
66 GTCGGG-GTTGCCGATGGTGACCGAGGCCC
* *
44302 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTTGCCGAGGCACC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGG-TTGCCGAGGCACC
* *
44367 CGTCGGGGTTGCCGATGGTGACCGAGACAC
65 CGTCGGGGTTGCCGATGGTGACCGAGGCCC
******* * ** ** * *** * * ***
44397 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
* * *
44459 CACCCGCCTGGATTGCCGATGGTGACCGA-GCCTC
61 CACCCGTCGGGGTTGCCGATGGTGACCGAGGCC-C
*
44493 ACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACT-CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACC
44557 CGTCGGGGGTTGCCGATGGTGACCGAGGCCC
65 CGTC-GGGGTTGCCGATGGTGACCGAGGCCC
44588 CCGCACCC
1 CCGCACCC
44596 GTGGCCTGGG
Statistics
Matches: 219, Mismatches: 61, Indels: 27
0.71 0.20 0.09
Matches are distributed among these distances:
94 12 0.05
95 136 0.62
96 71 0.32
ACGTcount: A:0.13, C:0.37, G:0.33, T:0.17
Consensus pattern (94 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:44416 original size:32 final size:32
Alignment explanation
Indices: 44357--44488 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
44347 CTGGGGTTTG
* *
44357 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
44388 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
44420 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
44452 CCGAGGCCACCCGCCT-GGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
44484 CCGAG
1 CCGAG
44489 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 67 0.74
33 9 0.10
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:44583 original size:32 final size:32
Alignment explanation
Indices: 44547--44651 Score: 101
Period size: 32 Copynumber: 3.3 Consensus size: 32
44537 CCTGGGGTTG
44547 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
* **** * *
44579 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCGGGGGTTGCC-GATGG-TGA
44610 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
44642 CCGAGG-ACCC
1 CCGAGGCACCC
44652 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:44601 original size:63 final size:63
Alignment explanation
Indices: 44523--44658 Score: 263
Period size: 63 Copynumber: 2.2 Consensus size: 63
44513 GTGCGGCACT
*
44523 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGC
1 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGA
44586 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGA
1 CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGA
44649 CCCCGCACCC
1 CCCCGCACCC
44659 AACTCTCGGC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.10, C:0.38, G:0.39, T:0.13
Consensus pattern (63 bp):
CCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGA
Found at i:44616 original size:31 final size:31
Alignment explanation
Indices: 44524--44621 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
44514 TGCGGCACTC
44524 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
**** * * *
44555 CCCGTCGGGGGTTGCC-GATGG-TGACCGAGGCC
1 CCCG-CACCCGTGGCCTG-GGGTTG-CCGAGGCA
44587 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
44618 CCCG
1 CCCG
44622 TCGGGGGTTG
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:44643 original size:190 final size:191
Alignment explanation
Indices: 44280--44647 Score: 498
Period size: 190 Copynumber: 1.9 Consensus size: 191
44270 CCGTCGGGTG
* *
44280 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
*** *
44345 GCCTGGGGTTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTG
66 GCCTGGGGTTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGG
* * *
44410 CCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGA
131 CCGAGGGTGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGA
*
44471 TTGCCGATGGTGACCGA-GCCTCACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCCGCACCCG
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTCGGCTCTGTGCGGCACT-CCCGCACCCG
* *
44534 TGGCCTGGGG-TTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG
64 TGGCCTGGGGTTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAGACACCCGTC-CCCG
* * *
44597 -TGGCCTG-GGGTTG-CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGG
127 TTGGCC-GAGGG-TGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGG
44648 ACCCCGCACC
Statistics
Matches: 156, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
190 83 0.53
191 73 0.47
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.17
Consensus pattern (191 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGGCTCTGTGCGGCACTCCCGCACCCGTG
GCCTGGGGTTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGG
CCGAGGGTGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGA
Found at i:44646 original size:95 final size:96
Alignment explanation
Indices: 44547--44779 Score: 251
Period size: 95 Copynumber: 2.4 Consensus size: 96
44537 CCTGGGGTTG
* * *
44547 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAG-GCCCCCGCACCCGTGGCCTGGGGTTGC
1 CCGAGGCACCCGTCCGGGCTTGCCGATGGTGACCGAGAACCCCCGCACCCGTGGCCTGGGGTTGC
*
44611 CGAGGCACCCGTCGGGGGTTGCCGATGGTGA
66 CGAGCCACCCGTCGGGGGTTGCCGATGGTGA
* *** * * * * *
44642 CCGAGG-ACCCCGCACCCAACTCT-CGGCT-CTGTCCG-GAACTCCCGCACCCGTGGCCTGGGGT
1 CCGAGGCA-CCCG-TCCGGGCT-TGCCGATGGTGACCGAGAACCCCCGCACCCGTGGCCTGGGGT
44703 TGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
63 TGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
* * *
44737 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCC
1 CCGAGGCACCCGTCCGGGCTTGCCGATGGTGACCGAGA-ACCC
44780 GTCTGGGTTT
Statistics
Matches: 104, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
93 1 0.01
94 7 0.07
95 84 0.81
96 8 0.08
97 4 0.04
ACGTcount: A:0.13, C:0.36, G:0.36, T:0.15
Consensus pattern (96 bp):
CCGAGGCACCCGTCCGGGCTTGCCGATGGTGACCGAGAACCCCCGCACCCGTGGCCTGGGGTTGC
CGAGCCACCCGTCGGGGGTTGCCGATGGTGA
Found at i:44747 original size:32 final size:32
Alignment explanation
Indices: 44705--44837 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
44695 CCTGGGGTTG
* *
44705 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
44737 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
44769 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
* *
44801 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGGTTGCCGATGGTGA
44833 CCGAG
1 CCGAG
44838 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
Done.