Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007662.1 Hibiscus syriacus cultivar Beakdansim tig00025777_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: 44165
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.21
Found at i:9613 original size:33 final size:32
Alignment explanation
Indices: 9576--9664 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
9566 GCGTGAGCCC
*
9576 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
9609 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
9641 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
9665 CATTGGTGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 23 0.49
33 24 0.51
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:9752 original size:32 final size:32
Alignment explanation
Indices: 9711--9843 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
9701 GTGCGTGAGG
* *
9711 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
9743 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
9775 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
9807 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
9839 CTCGG
1 CTCGG
9844 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 83 0.87
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:9966 original size:30 final size:31
Alignment explanation
Indices: 9926--10022 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 31
9916 CAACCCCCGA
9926 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * ****
9957 CGGG-GCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
9987 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
10019 CGGG
1 CGGG
10023 AGTGCCGCAC
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
30 16 0.33
31 16 0.33
32 16 0.33
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.09
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:9988 original size:62 final size:63
Alignment explanation
Indices: 9890--10022 Score: 259
Period size: 62 Copynumber: 2.1 Consensus size: 63
9880 GCCGAGAGTT
9890 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACG
1 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACG
9953 GGTGCGGGG-CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACG
1 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACG
10015 GGTGCGGG
1 GGTGCGGG
10023 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 61 0.87
63 9 0.13
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (63 bp):
GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACG
Found at i:9998 original size:94 final size:93
Alignment explanation
Indices: 9775--9999 Score: 242
Period size: 94 Copynumber: 2.4 Consensus size: 93
9765 AGACGGGTGT
* *
9775 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGC-AACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
9840 TCGGCAACCCCAGGCCACGGGTGCGGGAG
65 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * **** *
9869 TTCCGGACA-GAGCCG-AGAGTTGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGGT
1 CT-CGGTCACCATCGGCA-ACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGGT
9931 GCCTCGGCAACCCCAGGCCACGGGTGCGGG-G
62 GCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
*
9962 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAA-CCCAGACGGGTGCCTCGG
10000 CAACCCCAGG
Statistics
Matches: 100, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
92 1 0.01
93 9 0.09
94 82 0.82
95 8 0.08
ACGTcount: A:0.16, C:0.37, G:0.34, T:0.12
Consensus pattern (93 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCT
CGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:10035 original size:156 final size:157
Alignment explanation
Indices: 9807--10094 Score: 465
Period size: 156 Copynumber: 1.8 Consensus size: 157
9797 AGACGGGTGT
* *
9807 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
9872 CGGACAGAGCCGAGAGTTGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGCC
9934 TCGGCAACCCCAGGCCACGGGTGCGGGGC
129 TCGGCAACCCCAGGCCACGGGTGCGGGGC
9963 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
10028 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
10093 GG
131 GG
10095 TCACCATTGG
Statistics
Matches: 121, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
156 111 0.92
157 8 0.07
158 2 0.02
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (157 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GGCAACCCCAGGCCACGGGTGCGGGGC
Found at i:10131 original size:32 final size:32
Alignment explanation
Indices: 10057--10190 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
10047 GTGCGTGAGG
* *
10057 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
10090 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
10122 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
10154 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
10186 CTCGG
1 CTCGG
10191 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 65 0.71
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:10284 original size:347 final size:346
Alignment explanation
Indices: 9650--10307 Score: 1183
Period size: 347 Copynumber: 1.9 Consensus size: 346
9640 TCGGTCACCA
**
9650 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
9715 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
*
9780 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGC
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
* *
9845 AACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGTGCGGGGTCCTCGGTCAC
196 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGTGCGGGGTCCTCGGTCAC
*
9910 CATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCAT
261 CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCAT
9975 CGGCAACCCCCGACGGGTGCC
326 CGGCAACCCCCGACGGGTGCC
*
9996 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
10061 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
10126 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
10191 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGG-CCTCGGTC
195 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTT-GGTGCGGGGTCCTCGGTC
* **
10255 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
259 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
10308 AGTGCCGCAC
Statistics
Matches: 298, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
346 76 0.26
347 213 0.71
348 9 0.03
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (346 bp):
TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGTGCGGGGTCCTCGGTCAC
CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCAT
CGGCAACCCCCGACGGGTGCC
Found at i:10338 original size:94 final size:94
Alignment explanation
Indices: 9952--10338 Score: 372
Period size: 94 Copynumber: 4.1 Consensus size: 94
9942 CCCAGGCCAC
9952 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
10017 TGCGGGAGTGCCGCACAGAACCGAGCG-T
66 TGCGGGAGTGCCGCACAGAACCGAGCGCT
* * * * *** *
10045 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-G-GGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCA
* *** * ** ** * * *
10108 AGCCAGACGGGTGT-CTCGGTCACCATCG-GCAAACC
62 CGGGTG-CGGGAGTGC-CGCACAGAACCGAGC--GCT
** * *
10143 CAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGG-GCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* * *
10207 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
65 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
* * **
10237 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
10302 TGCGGGAGTGCCGCACAGAACCGAGCGCT
66 TGCGGGAGTGCCGCACAGAACCGAGCGCT
10331 GGGTGCGG
1 GGGTGCGG
10339 CAGCCTCGCA
Statistics
Matches: 223, Mismatches: 56, Indels: 29
0.72 0.18 0.09
Matches are distributed among these distances:
93 6 0.03
94 114 0.51
95 39 0.17
96 34 0.15
97 29 0.13
98 1 0.00
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (94 bp):
GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGCGCT
Found at i:18580 original size:33 final size:32
Alignment explanation
Indices: 18543--18631 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
18533 GCGTGAGCCC
*
18543 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
18576 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
18608 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
18632 CATTGGTGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 23 0.49
33 24 0.51
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:18719 original size:32 final size:32
Alignment explanation
Indices: 18678--18810 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
18668 GTGCGTGAGG
* *
18678 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
18710 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
18742 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
18774 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
18806 CTCGG
1 CTCGG
18811 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 83 0.87
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:18935 original size:31 final size:31
Alignment explanation
Indices: 18894--18991 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
18884 CAACCCCCGA
18894 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
18925 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
18956 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
18988 CGGG
1 CGGG
18992 AGTGCCGCAC
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:0.13, C:0.40, G:0.38, T:0.09
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:18956 original size:63 final size:63
Alignment explanation
Indices: 18857--18991 Score: 261
Period size: 63 Copynumber: 2.1 Consensus size: 63
18847 GCCGAGAGTT
*
18857 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
18920 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
18983 GGGTGCGGG
1 GGGTGCGGG
18992 AGTGCCGCAC
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:0.13, C:0.39, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:18967 original size:95 final size:94
Alignment explanation
Indices: 18742--18968 Score: 244
Period size: 95 Copynumber: 2.4 Consensus size: 94
18732 AGACGGGTGT
* *
18742 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
18807 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
18836 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
*
18898 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
18931 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
18969 CAACCCCAGG
Statistics
Matches: 100, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
93 1 0.01
94 7 0.07
95 84 0.84
96 7 0.07
97 1 0.01
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
TCGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:18968 original size:158 final size:158
Alignment explanation
Indices: 18774--19063 Score: 460
Period size: 158 Copynumber: 1.8 Consensus size: 158
18764 AGACGGGTGT
* *
18774 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
18839 CGGACAGAGCCGAGAGTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGC
18901 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
128 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
18932 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
18997 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
19062 GG
131 GG
19064 TCACCATTGG
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
157 33 0.27
158 86 0.71
159 2 0.02
ACGTcount: A:0.16, C:0.36, G:0.37, T:0.12
Consensus pattern (158 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GGCAACCCCAGGCCACGGGTGCGGGGGC
Found at i:19100 original size:32 final size:32
Alignment explanation
Indices: 19026--19159 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
19016 GTGCGTGAGG
* *
19026 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
19059 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
19091 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
19123 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
19155 CTCGG
1 CTCGG
19160 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 65 0.71
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:19242 original size:95 final size:95
Alignment explanation
Indices: 18920--19308 Score: 369
Period size: 95 Copynumber: 4.1 Consensus size: 95
18910 CCCAGGCCAC
18920 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
18985 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * * *** *
19014 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCA
* *** * * * * * *
19077 AGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
63 CGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * * *
19112 CAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
19176 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
19206 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
19271 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
19301 GGGTGCGG
1 GGGTGCGG
19309 CAGCCTCGCA
Statistics
Matches: 225, Mismatches: 55, Indels: 29
0.73 0.18 0.09
Matches are distributed among these distances:
93 4 0.02
94 39 0.17
95 117 0.52
96 27 0.12
97 33 0.15
98 5 0.02
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
GTGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:19255 original size:349 final size:348
Alignment explanation
Indices: 18617--19277 Score: 1196
Period size: 349 Copynumber: 1.9 Consensus size: 348
18607 TCGGTCACCA
**
18617 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
18682 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
*
18747 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGC
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
* * *
18812 AACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCA
196 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
*
18877 CCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
261 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
18942 ATCGGCAACCCCCGACGGGTGCC
326 ATCGGCAACCCCCGACGGGTGCC
*
18965 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
19030 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
19095 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
19160 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
195 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
* **
19225 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
260 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
19278 AGTGCCGCAC
Statistics
Matches: 299, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
348 76 0.25
349 223 0.75
ACGTcount: A:0.17, C:0.34, G:0.35, T:0.13
Consensus pattern (348 bp):
TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
ATCGGCAACCCCCGACGGGTGCC
Found at i:27542 original size:33 final size:31
Alignment explanation
Indices: 27505--27592 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 31
27495 GCGTGAGCCC
27505 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCT
* ** *
27538 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGC-AACCCAGGCGGGTGCCT
27570 CGGTCACCATCGGCAACCCAGGC
1 CGGTCACCATCGGCAACCCAGGC
27593 CATTGGTGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 22 0.47
34 2 0.04
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGCCT
Found at i:27680 original size:32 final size:32
Alignment explanation
Indices: 27639--27771 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
27629 GTGCGTGAGG
* *
27639 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
27671 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27703 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
27735 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27767 CTCGG
1 CTCGG
27772 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 83 0.87
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:27896 original size:31 final size:31
Alignment explanation
Indices: 27855--27952 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
27845 CAACCCCCGA
27855 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
27886 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
27917 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
27949 CGGG
1 CGGG
27953 AGTGCCGCAC
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:0.13, C:0.40, G:0.38, T:0.09
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:27917 original size:63 final size:63
Alignment explanation
Indices: 27818--27952 Score: 261
Period size: 63 Copynumber: 2.1 Consensus size: 63
27808 GCCGAGAGTT
*
27818 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
27881 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
27944 GGGTGCGGG
1 GGGTGCGGG
27953 AGTGCCGCAC
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:0.13, C:0.39, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:27928 original size:95 final size:94
Alignment explanation
Indices: 27703--27929 Score: 244
Period size: 95 Copynumber: 2.4 Consensus size: 94
27693 AGACGGGTGT
* *
27703 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
27768 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
27797 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
*
27859 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
27892 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
27930 CAACCCCAGG
Statistics
Matches: 100, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
93 1 0.01
94 7 0.07
95 84 0.84
96 7 0.07
97 1 0.01
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
TCGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:27929 original size:158 final size:158
Alignment explanation
Indices: 27735--28024 Score: 460
Period size: 158 Copynumber: 1.8 Consensus size: 158
27725 AGACGGGTGT
* *
27735 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
27800 CGGACAGAGCCGAGAGTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGC
27862 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
128 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
27893 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
27958 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
28023 GG
131 GG
28025 TCACCATTGG
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
157 33 0.27
158 86 0.71
159 2 0.02
ACGTcount: A:0.16, C:0.36, G:0.37, T:0.12
Consensus pattern (158 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GGCAACCCCAGGCCACGGGTGCGGGGGC
Found at i:28061 original size:32 final size:32
Alignment explanation
Indices: 27987--28120 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
27977 GTGCGTGAGG
* *
27987 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
28020 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
28052 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
28084 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
28116 CTCGG
1 CTCGG
28121 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 65 0.71
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:28158 original size:349 final size:347
Alignment explanation
Indices: 27579--28238 Score: 1185
Period size: 349 Copynumber: 1.9 Consensus size: 347
27569 TCGGTCACCA
**
27579 TCGGCAACCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
1 TCGGCAACCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
27644 TCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT
66 TCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT
*
27709 CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCA
131 CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCA
* * *
27774 ACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCAC
196 ACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCAC
*
27839 CATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCA
261 CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCA
27904 TCGGCAACCCCCGACGGGTGCC
326 TCGGCAACCCCCGACGGGTGCC
*
27926 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAA-CCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
27991 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
65 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
28056 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
129 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
28121 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
194 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
* **
28186 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
259 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
28239 AGTGCCGCAC
Statistics
Matches: 298, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
347 7 0.02
348 68 0.23
349 223 0.75
ACGTcount: A:0.17, C:0.34, G:0.35, T:0.13
Consensus pattern (347 bp):
TCGGCAACCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
TCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT
CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCA
ACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCAC
CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCA
TCGGCAACCCCCGACGGGTGCC
Found at i:28203 original size:95 final size:95
Alignment explanation
Indices: 27881--28269 Score: 369
Period size: 95 Copynumber: 4.1 Consensus size: 95
27871 CCCAGGCCAC
27881 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
27946 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * * *** *
27975 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCA
* *** * * * * * *
28038 AGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
63 CGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * * *
28073 CAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
28137 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
28167 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
28232 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
28262 GGGTGCGG
1 GGGTGCGG
28270 CAGCCTCGCA
Statistics
Matches: 225, Mismatches: 55, Indels: 29
0.73 0.18 0.09
Matches are distributed among these distances:
93 4 0.02
94 39 0.17
95 117 0.52
96 27 0.12
97 33 0.15
98 5 0.02
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
GTGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:36540 original size:30 final size:32
Alignment explanation
Indices: 36500--36626 Score: 160
Period size: 31 Copynumber: 4.2 Consensus size: 32
36490 GTTGCGTGGG
* *
36500 CTCGGTCACCATC-GC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
36531 CTC-GTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
36562 CTC-GTCACCATC-GCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* *
36591 CTCGGTCACCATCGGCAACCCCCGACGGGTG-
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
36622 CTCGG
1 CTCGG
36627 CAACCCCAGG
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
29 8 0.09
30 30 0.34
31 33 0.38
32 16 0.18
ACGTcount: A:0.19, C:0.39, G:0.28, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:36569 original size:31 final size:30
Alignment explanation
Indices: 36504--36625 Score: 151
Period size: 30 Copynumber: 4.0 Consensus size: 30
36494 CGTGGGCTCG
* *
36504 GTCACCATCGC-AACCCAGGCGGGTGGCCTC
1 GTCACCATCGCAAACCCAGACGGGT-GTCTC
36534 GTCACCATCGGCAAACCCAGACGGGTGTCTC
1 GTCACCATC-GCAAACCCAGACGGGTGTCTC
36565 GTCACCATCGCAAACCCAGAC-GGTGTCTC
1 GTCACCATCGCAAACCCAGACGGGTGTCTC
* *
36594 GGTCACCATCGGCAACCCCCGACGGGTG-CTC
1 -GTCACCATC-GCAAACCCAGACGGGTGTCTC
36625 G
1 G
36626 GCAACCCCAG
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
29 8 0.10
30 31 0.37
31 28 0.34
32 16 0.19
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.15
Consensus pattern (30 bp):
GTCACCATCGCAAACCCAGACGGGTGTCTC
Found at i:36577 original size:61 final size:60
Alignment explanation
Indices: 36499--36625 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
36489 CGTTGCGTGG
*
36499 GCTCGGTCACCATCGC-AACCCAGGCGGGTGGCCTC-GTCACCATCGGCAAACCCAGACGGGT
1 GCTC-GTCACCATCGCAAACCCAGAC-GGT-GCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * *
36560 GTCTCGTCACCATCGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 G-CTCGTCACCATCGCAAACCCAGACGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGT
36621 GCTCG
1 GCTCG
36626 GCAACCCCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
60 8 0.14
61 40 0.68
62 11 0.19
ACGTcount: A:0.19, C:0.39, G:0.28, T:0.15
Consensus pattern (60 bp):
GCTCGTCACCATCGCAAACCCAGACGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:36747 original size:62 final size:62
Alignment explanation
Indices: 36671--36802 Score: 239
Period size: 62 Copynumber: 2.1 Consensus size: 62
36661 GAGCCGAGTT
*
36671 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACG
36733 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACG
36795 GGTGCGGG
1 GGTGCGGG
36803 AGTGCCGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 24 0.35
62 44 0.65
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (62 bp):
GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACG
Found at i:36770 original size:153 final size:154
Alignment explanation
Indices: 36591--36873 Score: 441
Period size: 153 Copynumber: 1.8 Consensus size: 154
36581 CAGACGGTGT
*
36591 CTCGGTCACCATCGGCAACCCCCGACGGGTG-CTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
36655 CGGACAGAGCCGA-GTTGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCT
65 CGCACAGAACCGACGTTGGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAG-CGGGTGGCCT
36716 CGGCAACCCCAGGCCACGGTGCGGGGGC
127 CGGCAACCCCAGGCCACGGTGCGGGGGC
36744 CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
1 CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
*
36809 GCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGCGGGTGGCCTCGG
66 GCACAGAACCGA-CGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGCGGGTGGCCTCGG
36874 TCACCATTGG
Statistics
Matches: 119, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
152 4 0.03
153 69 0.58
154 5 0.04
155 38 0.32
156 1 0.01
157 2 0.02
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (154 bp):
CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
GCACAGAACCGACGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGCGGGTGGCCTCGGC
AACCCCAGGCCACGGTGCGGGGGC
Found at i:36849 original size:93 final size:93
Alignment explanation
Indices: 36733--37111 Score: 301
Period size: 93 Copynumber: 4.1 Consensus size: 93
36723 CCCAGGCCAC
*
36733 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGTGGG-CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
36797 TGCGGGAGTGCCGCACAGAACCGAGCGTT
65 TGCGGGAGTGCCGCACAGAACCGAGCGTT
* * * *
36826 GGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAG-CGGGTGGCCTCGGTC-ACCATTGGCAAAG
1 GGTGCGTG-GGCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACC-----CCAGG
** * *
36889 CCA-GACGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGACG--
58 CCACG--GGTG-CGGGAGTGC-CGCA-CAG--AACCGAG-CGTT
36927 GGT--GT---CTCGGTCACCATCGGCAACCCCCGAC--G-GCCTCGGCAACCCCAGGCCACGGGT
1 GGTGCGTGGGCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGT
* *
36984 GCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GCGGGAGTGCCGCACAGAACCGAGCGTT
* * **
37012 GGGTGCG-GGGCCTCGGTCACCATCGGCAACACCC-ACGGGTGCCTCGGCAACCCCAGTCCATTG
1 -GGTGCGTGGG-CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
37075 GTGCGGGAGTGCCGCACAGAACCGAGCGCTG
64 GTGCGGGAGTGCCGCACAGAACCGAGCG-TT
37106 GGTGCG
1 GGTGCG
37112 GCAGCCTCGC
Statistics
Matches: 224, Mismatches: 26, Indels: 72
0.70 0.08 0.22
Matches are distributed among these distances:
83 1 0.00
84 5 0.02
85 2 0.01
86 12 0.05
87 9 0.04
88 2 0.01
90 2 0.01
91 23 0.10
92 12 0.05
93 84 0.38
94 14 0.06
95 23 0.10
96 1 0.00
98 1 0.00
99 11 0.05
100 9 0.04
101 5 0.02
102 6 0.03
103 2 0.01
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (93 bp):
GGTGCGTGGGCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGT
GCGGGAGTGCCGCACAGAACCGAGCGTT
Found at i:36907 original size:31 final size:32
Alignment explanation
Indices: 36837--36959 Score: 169
Period size: 32 Copynumber: 3.9 Consensus size: 32
36827 GTGCGTGAGG
* *
36837 CTCGGTCACCATCGGCAATCCCAG-CGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
* *
36869 CTCGGTCACCATTGGCAAAGCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
36900 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* *
36932 CTCGGTCACCATCGGCAACCCCCGACGG
1 CTCGGTCACCATCGGCAAACCCAGACGG
36960 CCTCGGCAAC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 25 0.31
32 55 0.68
33 1 0.01
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:36959 original size:63 final size:63
Alignment explanation
Indices: 36837--36959 Score: 176
Period size: 63 Copynumber: 2.0 Consensus size: 63
36827 GTGCGTGAGG
* * *
36837 CTCGGTCACCATCGGCAATCCCAGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGTGT
1 CTCGGTCACCATCGGCAAACCCAGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGTGT
* * *
36900 CTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCCGACGG
1 CTCGGTCACCATCGGCAAACCCAG-CGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGG
36960 CCTCGGCAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 48 0.91
64 5 0.09
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (63 bp):
CTCGGTCACCATCGGCAAACCCAGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGTGT
Done.