Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009503.1 Hibiscus syriacus cultivar Beakdansim tig00115064_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: 47616
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Found at i:10556 original size:33 final size:32
Alignment explanation
Indices: 10519--10607 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
10509 GCGTGAGCCC
*
10519 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
10552 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
10584 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
10608 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:10695 original size:32 final size:32
Alignment explanation
Indices: 10654--10786 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
10644 GTGCGTGAGG
* *
10654 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
10686 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
10718 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
10750 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
10782 CTCGG
1 CTCGG
10787 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:10911 original size:31 final size:31
Alignment explanation
Indices: 10870--10967 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
10860 CAACCCCCGA
10870 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
10901 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
10932 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
10964 CGGG
1 CGGG
10968 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:10932 original size:63 final size:63
Alignment explanation
Indices: 10833--10967 Score: 261
Period size: 63 Copynumber: 2.1 Consensus size: 63
10823 GCCGAGAGTT
*
10833 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
10896 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
10959 GGGTGCGGG
1 GGGTGCGGG
10968 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:10943 original size:95 final size:94
Alignment explanation
Indices: 10718--10944 Score: 244
Period size: 95 Copynumber: 2.4 Consensus size: 94
10708 AGACGGGTGT
* *
10718 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
10783 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
10812 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
*
10874 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
10907 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
10945 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:10944 original size:158 final size:158
Alignment explanation
Indices: 10750--11039 Score: 460
Period size: 158 Copynumber: 1.8 Consensus size: 158
10740 AGACGGGTGT
* *
10750 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
10815 CGGACAGAGCCGAGAGTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGC
10877 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
128 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
10908 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
10973 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
11038 GG
131 GG
11040 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:11076 original size:32 final size:32
Alignment explanation
Indices: 11002--11135 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
10992 GTGCGTGAGG
* *
11002 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
11035 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
11067 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
11099 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
11131 CTCGG
1 CTCGG
11136 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:11218 original size:95 final size:95
Alignment explanation
Indices: 10896--11284 Score: 369
Period size: 95 Copynumber: 4.1 Consensus size: 95
10886 CCCAGGCCAC
10896 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
10961 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * * *** *
10990 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCA
* *** * * * * * *
11053 AGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
63 CGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * * *
11088 CAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
11152 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
11182 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
11247 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
11277 GGGTGCGG
1 GGGTGCGG
11285 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:11231 original size:349 final size:348
Alignment explanation
Indices: 10593--11253 Score: 1196
Period size: 349 Copynumber: 1.9 Consensus size: 348
10583 TCGGTCACCA
**
10593 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
10658 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
*
10723 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGC
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
* * *
10788 AACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCA
196 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
*
10853 CCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
261 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
10918 ATCGGCAACCCCCGACGGGTGCC
326 ATCGGCAACCCCCGACGGGTGCC
*
10941 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
11006 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
11071 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
11136 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
195 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
* **
11201 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
260 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
11254 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:19529 original size:33 final size:31
Alignment explanation
Indices: 19489--19576 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 31
19479 TGCGTGAGCC
19489 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCT
* ** *
19522 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGC-AACCCAGGCGGGTGCCT
19554 CGGTCACCATCGGCAACCCAGGC
1 CGGTCACCATCGGCAACCCAGGC
19577 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:19664 original size:32 final size:32
Alignment explanation
Indices: 19623--19754 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
19613 GTGCGTGAGG
* *
19623 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
19655 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
19687 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* *
19719 CTCGGTCACCATCGGC-AACCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
19750 CTCGG
1 CTCGG
19755 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
31 18 0.19
32 65 0.68
33 12 0.13
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:19847 original size:31 final size:31
Alignment explanation
Indices: 19812--19909 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
19802 GGTGCGGGGT
19812 CTCGGTCACCATCGGCAACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAACCCCGACGGGTGC
* * ** * *
19843 CTCGG-CAACC-CCAGGCCA-CGGGTGCGGGGGC
1 CTCGGTC-ACCATC-GGCAACCCCG-ACGGGTGC
19874 CTCGGTCACCATCGGCAACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAACCCCGACGGGTGC
19905 CTCGG
1 CTCGG
19910 CAACCCCAGG
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
30 4 0.08
31 41 0.84
32 4 0.08
ACGTcount: A:0.14, C:0.41, G:0.34, T:0.11
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAACCCCGACGGGTGC
Found at i:19897 original size:62 final size:60
Alignment explanation
Indices: 19801--19930 Score: 226
Period size: 62 Copynumber: 2.1 Consensus size: 60
19791 GCCGAGAGTT
*
19801 GGGTGC-GGGGTCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGG-C-C
19862 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCC
19922 GGGTGCGGG
1 GGGTGCGGG
19931 AGTGCCGCAC
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
60 10 0.15
61 7 0.10
62 50 0.75
ACGTcount: A:0.13, C:0.38, G:0.38, T:0.11
Consensus pattern (60 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCC
Found at i:19909 original size:93 final size:92
Alignment explanation
Indices: 19687--19909 Score: 245
Period size: 93 Copynumber: 2.4 Consensus size: 92
19677 AGACGGGTGT
*
19687 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGGCT
1 CTCGGTCACCATCGGC-AACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGCCT
19752 CGGCAACCCCAGGCCACGGGTGCGGGAG
65 CGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * ***** *
19780 TTCCGGACA-GAGCCGAG-AGTTGGGTGCGGG-GTCTCGGTCACCATCGGCAACCCCGACGGGTG
1 CT-CGGTCACCA-TCG-GCAACCCAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTG
*
19842 CCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 CCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
19873 CCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAACCCAGACGGGTGTCTCGG
19910 CAACCCCAGG
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
92 5 0.05
93 80 0.81
94 13 0.13
95 1 0.01
ACGTcount: A:0.16, C:0.36, G:0.35, T:0.13
Consensus pattern (92 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGCCTC
GGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:20033 original size:155 final size:155
Alignment explanation
Indices: 19655--20065 Score: 508
Period size: 155 Copynumber: 2.6 Consensus size: 155
19645 GGCGGGTGGC
* * *
19655 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAACCCAGACGGGTGTC
1 CTCGGTCACCATCGGC-AACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGA-GGGTGTC
* *
19720 TCGGTCACCATCGGCAACCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTCCG
64 TCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
* *
19785 GACAGAGCCGAGAGTTGGGTGCGGGGT
129 CACAGAACCGAGAGTTGGGTGCGGGGT
* ** * * *** * * *
19812 CTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGG-CAACCCCAGGCCACGGGTGCGGGGGCCT
1 CTCGGTCACCATCGGCAACCCAGACGGGTGCCTCGGTC-ACCATAGGCAAAGCCAGAGGGTGTCT
19876 CGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGG-C-CGGGTGCGGGAGTGCCGC
65 CGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGC
*
19939 ACAGAACCGAGCGTT-GGTGCGTGAGG-
130 ACAGAACCGAGAGTTGGGTGCG-G-GGT
* *
19965 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGAGGGTGTC
1 CTCGGTCACCATCGGCAA-CCCAGACGGGT-GCCTCGGTCACCATAGGCAAAGCCAGAGGGTGTC
* *
20030 TCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
64 TCGGTCACCATCGGC-AACCCCGACGGGTGCCTCGG
20066 TCACCATCGG
Statistics
Matches: 213, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
152 6 0.03
153 48 0.23
154 12 0.06
155 86 0.40
156 45 0.21
157 16 0.08
ACGTcount: A:0.18, C:0.34, G:0.35, T:0.14
Consensus pattern (155 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGAGGGTGTCTC
GGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCA
CAGAACCGAGAGTTGGGTGCGGGGT
Found at i:20036 original size:31 final size:31
Alignment explanation
Indices: 19965--20082 Score: 164
Period size: 32 Copynumber: 3.7 Consensus size: 31
19955 GTGCGTGAGG
* * *
19965 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCA-GAGGGT-GT
* *
19998 CTCGGTCACCATTGGCAAAGCCAGAGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGAGGGTGT
20029 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGA-GGGTGT
20061 CTCGGTCACCATCGGCAAACCC
1 CTCGGTCACCATCGGCAAACCC
20083 CCGACGGGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 24 0.31
32 33 0.43
33 20 0.26
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAAACCCAGAGGGTGT
Found at i:20098 original size:33 final size:32
Alignment explanation
Indices: 19965--20098 Score: 180
Period size: 33 Copynumber: 4.2 Consensus size: 32
19955 GTGCGTGAGG
* *
19965 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
19998 CTCGGTCACCATTGGCAAAGCCAGA-GGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
20029 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
20061 CTCGGTCACCATCGGCAAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAA-CCCAGACGGGTGC
20094 CTCGG
1 CTCGG
20099 CAACCCAGGC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 24 0.27
32 29 0.32
33 37 0.41
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:20211 original size:342 final size:342
Alignment explanation
Indices: 19563--20212 Score: 1105
Period size: 342 Copynumber: 1.9 Consensus size: 342
19553 TCGGTCACCA
*
19563 TCGGCAACCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
1 TCGGCAACCCAGGCCA-GGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
19628 TCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT
65 TCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT
*
19693 CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGGCTCGGCAA
130 CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAA
* * *
19758 CCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCTCGGTCACCA
195 CCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCA
19823 TCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATCG
260 TCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATCG
19888 GCAACCCCGACGGGTGCC
325 GCAACCCCGACGGGTGCC
*
19906 TCGGCAACCCCAGGCC-GGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
1 TCGGCAA-CCCAGGCCAGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
* *
19970 TCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGA-GGGTGTCTCGG
65 TCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
20034 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAACCCCCGACGGGTGCCTCGG
129 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGC-AA-CCCCGACGGGTGCCTCGG
20099 CAA-CCCAGG-CACGGGTGC-GGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
192 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGC-GGGGCCTCGGTC
* *
20161 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCA-TGGTGCGGG
256 ACCATCGGCAAC-CCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
20213 AGTGCCGCAC
Statistics
Matches: 291, Mismatches: 10, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
341 29 0.10
342 153 0.53
343 81 0.28
344 28 0.10
ACGTcount: A:0.18, C:0.34, G:0.35, T:0.13
Consensus pattern (342 bp):
TCGGCAACCCAGGCCAGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGT
CACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTC
ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAAC
CCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCAT
CGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATCGG
CAACCCCGACGGGTGCC
Found at i:20238 original size:93 final size:92
Alignment explanation
Indices: 19862--20242 Score: 298
Period size: 93 Copynumber: 4.1 Consensus size: 92
19852 CCCAGGCCAC
19862 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCC-GGGT
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAGGGT
19926 GCGGGAGTGCCGCACAGAACCGAGCG-T
66 GCGGGAGTGCCGCACAGAA-CGAGCGCT
* * * * *** *
19953 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAA-CCCCGACGGGT-GCCTCGG-CAACCCCAGGC-C
*** * * * * * *
20016 AGCCAGAGGGTGT-CTCGGTCAC-CATCG-GCAAACC
61 AGGGTGCGGGAGTGC-C-G-CACAGAACGAGC--GCT
** * * *
20050 CAG-ACGGGTGTCTCGGTCACCATCGGCAAACCCCCGACGGGTGCCTCGGCAA-CCCAGG-CACG
1 GGGTGCGGGGGCCTCGGTCACCATCGGC-AA-CCCCGACGGGTGCCTCGGCAACCCCAGGCCA-G
* * *
20112 GGTGC-GGAGTGCCGCACAGAGCCGAGAGTT
63 GGTGCGGGAGTGCCGCACAGA-ACGAGCGCT
* *
20142 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAAC-CCCGACGGGTGCCTCGGCAACCCCAGGCCAGGG
20207 TGCGGGAGTGCCGCACAGAACGAGCGCT
65 TGCGGGAGTGCCGCACAGAACGAGCGCT
20235 GGGTGCGG
1 GGGTGCGG
20243 CAGCCTCGCA
Statistics
Matches: 215, Mismatches: 50, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
91 28 0.13
92 37 0.17
93 66 0.31
94 25 0.12
95 16 0.07
96 28 0.13
97 15 0.07
ACGTcount: A:0.17, C:0.33, G:0.37, T:0.13
Consensus pattern (92 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAGGGT
GCGGGAGTGCCGCACAGAACGAGCGCT
Found at i:28401 original size:33 final size:32
Alignment explanation
Indices: 28364--28451 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 32
28354 GCGTGAGCCC
*
28364 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
28397 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
28429 CGGTCA-CATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
28452 CATGGTGAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 13 0.28
32 9 0.20
33 24 0.52
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:28569 original size:32 final size:31
Alignment explanation
Indices: 28495--28622 Score: 167
Period size: 32 Copynumber: 4.2 Consensus size: 31
28485 TGGTGCGTGA
*
28495 GGCTCGGTCACCATCGGCAACCCAG--GCGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGT
28524 GGC-C--TCACCATCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGT
*
28553 GTCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGT
* *
28585 GTCTCGGTCACCATCGGCAACCCCGACGGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGT
28616 GGCTCGG
1 GGCTCGG
28623 CAACCCAGGC
Statistics
Matches: 89, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
26 11 0.12
27 7 0.08
28 1 0.01
29 8 0.09
30 1 0.01
31 18 0.20
32 43 0.48
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (31 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGT
Found at i:28764 original size:62 final size:62
Alignment explanation
Indices: 28666--28798 Score: 241
Period size: 62 Copynumber: 2.1 Consensus size: 62
28656 GCCGAGAGTT
*
28666 GGGTGCGGGGTCCTCGGTCCCATCGGCAACCCCCGACGGGTGCCTCGGCAA-CCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCCCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
28727 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTC-CCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
28790 GGGTGCGGG
1 GGGTGCGGG
28799 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 18 0.26
62 32 0.46
63 19 0.28
ACGTcount: A:0.13, C:0.39, G:0.38, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGGCCTCGGTCCCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:28907 original size:32 final size:32
Alignment explanation
Indices: 28833--28965 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
28823 GTGCGTGAGG
* *
28833 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
28866 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
28898 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
28930 CTCGGTCACCATCGGC-AACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
28961 CTCGG
1 CTCGG
28966 CAACCCAGGC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 18 0.20
32 47 0.52
33 26 0.29
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:28913 original size:65 final size:63
Alignment explanation
Indices: 28833--28965 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 63
28823 GTGCGTGAGG
* * * * *
28833 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GCCTCGGTCACCATCGGC-AACCCAGACGGGTGC
* *
28898 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCAGACGGGTGC
28961 CTCGG
1 CTCGG
28966 CAACCCAGGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 17 0.28
64 16 0.26
65 28 0.46
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (63 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCAGACGGGTGC
Found at i:29057 original size:90 final size:92
Alignment explanation
Indices: 28727--29108 Score: 275
Period size: 94 Copynumber: 4.1 Consensus size: 92
28717 CCCAGGCCAC
28727 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCA-CG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAA-CCCCGACGGGTGCCTCGGCAA-CCCAGGCCATC-
*
28791 GGTGCGGGAGTGCCGCACAGAACCGAGCG-T
63 GGTGCGGGAG-GCCGCACAGAACCGAGAGCT
* * * *
28821 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-A-CCATTGGCA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAA-CCCCGACGGGT-GCCTCGG-CAACCCA--GGC-
* * * * * * * * * * *
28883 AAGCCAG-ACGGGTGTCTCGGTCAC-CATCGGCA-AACC
59 CA-TCGGTGCGGGAGGC-C-G-CACAGAACCG-AGAGCT
** * * *
28919 CAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCAGGCCA-CGG-
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCAGGCCATCGGT
* * *
28981 GTGGGA-GCCGCACAGAGCCGAGAGTT
66 GCGGGAGGCCGCACAGAACCGAGAGCT
* *
29007 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCAGTCCATTGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAAC-CCCGACGGGTGCCTCGGCAACCCAGGCCATCGG
*
29072 TGCGGGAGTGCCGCACAGAACCGAGCGCT
65 TGCGGGAG-GCCGCACAGAACCGAGAGCT
29101 GGGTGCGG
1 GGGTGCGG
29109 CAGCCTCGCA
Statistics
Matches: 218, Mismatches: 46, Indels: 48
0.70 0.15 0.15
Matches are distributed among these distances:
87 4 0.02
88 6 0.03
89 25 0.11
90 29 0.13
91 7 0.03
92 5 0.02
93 4 0.02
94 62 0.28
95 23 0.11
96 22 0.10
97 25 0.11
98 6 0.03
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (92 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCAGGCCATCGGT
GCGGGAGGCCGCACAGAACCGAGAGCT
Found at i:37244 original size:31 final size:32
Alignment explanation
Indices: 37204--37290 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 32
37194 GCGTGAGCCC
*
37204 CGGTCACCATCGGCAATCCCAGGC-GGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
37236 C-GTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
37267 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
37291 CATTGGTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 22 0.50
32 22 0.50
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:37279 original size:63 final size:61
Alignment explanation
Indices: 37204--37447 Score: 176
Period size: 63 Copynumber: 3.8 Consensus size: 61
37194 GCGTGAGCCC
37204 CGGTCACCATCGGCAATCCCAGGCGGTGGCCTCGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGTGGCCTCGTCACCATCGGCAAAACCA-ACGGGTGTCT
** ** * *
37267 CGGTCACCATCGGCAACCCCAGGCCATTGG--T-G--AGGGAGTGCCGCACAAACCGAGCGTTGG
1 CGGTCACCATCGGCAA-CCCAGG-CGGTGGCCTCGTCA-CCA-T-CGGCA-AAACC-AACG--GG
37327 TGCGTGAGGCT
57 T--GT----CT
*
37338 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGC-GGTGGCCTCGTCACCATCGGCAAAACCA-ACGGGTGTCT
* *
37401 CGGTCACCATCGGCAAACCCAGACGGT-GTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGTGGCCTC-GTCACCATCGGCAA
37448 CCCCCGACGG
Statistics
Matches: 142, Mismatches: 16, Indels: 46
0.70 0.08 0.23
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 2 0.01
62 9 0.06
63 62 0.44
64 13 0.09
65 3 0.02
67 4 0.03
69 4 0.03
70 10 0.07
71 24 0.17
72 5 0.04
73 2 0.01
74 1 0.01
75 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (61 bp):
CGGTCACCATCGGCAACCCAGGCGGTGGCCTCGTCACCATCGGCAAAACCAACGGGTGTCT
Found at i:37378 original size:31 final size:32
Alignment explanation
Indices: 37336--37466 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
37326 GTGCGTGAGG
* *
37336 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
37368 CTC-GTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
37399 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
37430 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
37462 CTCGG
1 CTCGG
37467 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
31 45 0.49
32 46 0.51
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:37457 original size:63 final size:63
Alignment explanation
Indices: 37334--37466 Score: 189
Period size: 63 Copynumber: 2.1 Consensus size: 63
37324 TGGTGCGTGA
*
37334 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGT
* * * *
37397 GTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTC-GTCACCATCGGCAAACCCAGACGGGT
37460 GGCTCGG
1 GGCTCGG
37467 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 4 0.06
63 50 0.81
64 8 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (63 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGT
Found at i:37607 original size:60 final size:62
Alignment explanation
Indices: 37513--37642 Score: 246
Period size: 60 Copynumber: 2.1 Consensus size: 62
37503 GCCGAGAGTT
37513 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCAC-
1 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCACG
37574 GGTGCGGGG-CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCACG
1 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCACG
37635 GGTGCGGG
1 GGTGCGGG
37643 AGTGCCGCAC
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 51 0.75
61 17 0.25
ACGTcount: A:0.14, C:0.41, G:0.35, T:0.11
Consensus pattern (62 bp):
GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCACG
Found at i:37655 original size:153 final size:155
Alignment explanation
Indices: 37430--37713 Score: 450
Period size: 153 Copynumber: 1.8 Consensus size: 155
37420 CAGACGGTGT
* *
37430 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
37495 CGGACAGAGCCGAGAGTTGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGCC
37557 TCGCAACCCCAGGCCACGGTGCGGGGC
129 TCGCAACCCCAGGCCACGGTGCGGGGC
37584 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTC-GCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
37648 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
37713 G
131 G
37714 GTCACCATTG
Statistics
Matches: 119, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
153 76 0.64
154 41 0.34
155 2 0.02
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (155 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GCAACCCCAGGCCACGGTGCGGGGC
Found at i:37751 original size:32 final size:32
Alignment explanation
Indices: 37677--37810 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
37667 GTGCGTGAGG
* *
37677 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
37710 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
37742 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
37774 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
37806 CTCGG
1 CTCGG
37811 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:37891 original size:341 final size:339
Alignment explanation
Indices: 37279--37924 Score: 1091
Period size: 341 Copynumber: 1.9 Consensus size: 339
37269 GTCACCATCG
**
37279 GCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAAACCGAGCGTTGGTGCGTGAGGCTCGGTCA
1 GCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAAACCGAGCGTTGGTGCGTGAGGCTCGGTCA
37344 CCATCGGCAACCCAGGCGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACC
66 CCATCGGCAACCCAGGCGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACC
*
37409 ATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCC
131 ATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCC
* * *
37474 AGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGTGCGGGGTCCTCGGTCACCATCGG
196 AGGCCACGGGTGCGGGAGTGCCGCACAGAGCC---AGTTGGTGCGGGGGCCTCGGTCACCATCGG
*
37539 CAACCCCCGACGGGTGCCTC-GCAACCCCAGGCCA-CGGTGCGGGGCCTCGGTCACCATCGGCAA
258 CAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGGCCTCGGTCACCATCGGCAA
37602 CCCCCGACGGGTGCCTC
323 CCCCCGACGGGTGCCTC
*
37619 GCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTC
1 GCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACA-AACCGAGCGTTGGTGCGTGAGGCTCGGTC
* *
37684 ACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGGTC
65 ACCATCGGCAA-CCCAGGCGGGTGGCCTC-GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTC
37749 ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAA
128 ACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAA
37814 CCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCC-GTTGGGTGCGGGGGCCTCGGTCACCATC
192 CCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCAGTT-GGTGCGGGGGCCTCGGTCACCATC
* *
37878 GGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
256 GGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGG
37925 AGTGCCGCAC
Statistics
Matches: 287, Mismatches: 12, Indels: 11
0.93 0.04 0.04
Matches are distributed among these distances:
340 35 0.12
341 84 0.29
342 30 0.10
343 60 0.21
344 78 0.27
ACGTcount: A:0.17, C:0.35, G:0.34, T:0.13
Consensus pattern (339 bp):
GCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAAACCGAGCGTTGGTGCGTGAGGCTCGGTCA
CCATCGGCAACCCAGGCGGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACC
ATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCC
AGGCCACGGGTGCGGGAGTGCCGCACAGAGCCAGTTGGTGCGGGGGCCTCGGTCACCATCGGCAA
CACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGGCCTCGGTCACCATCGGCAACCC
CCGACGGGTGCCTC
Found at i:46093 original size:31 final size:31
Alignment explanation
Indices: 46055--46140 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
46045 GCGTGAGCCC
*
46055 CGGTCACCATCGCAATCCCAGGC-GGTGGCCT
1 CGGTCACCATCGCAAACCCAGGCGGGT-GCCT
* ** *
46086 CGGTCACCATCGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGCAAACCCAGGCGGGTGCCT
*
46117 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATC-GCAAACCCAGGC
46141 CATTGGTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 33 0.75
32 11 0.25
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGCAAACCCAGGCGGGTGCCT
Found at i:46283 original size:31 final size:32
Alignment explanation
Indices: 46186--46317 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
46176 GTGCGTGAGG
* *
46186 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
46218 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
46250 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
46281 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
46313 CTCGG
1 CTCGG
46318 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
31 29 0.31
32 52 0.56
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:46298 original size:63 final size:64
Alignment explanation
Indices: 46184--46317 Score: 200
Period size: 63 Copynumber: 2.1 Consensus size: 64
46174 TTGTGCGTGA
*
46184 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * * *
46248 GTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
46311 GGCTCGG
1 GGCTCGG
46318 CAACCCCAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 35 0.56
64 20 0.32
65 8 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (64 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:46601 original size:32 final size:32
Alignment explanation
Indices: 46527--46660 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
46517 GTGCGTGAGG
* *
46527 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
46560 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
46592 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
46624 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
46656 CTCGG
1 CTCGG
46661 CAACCCCAGC
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:46740 original size:92 final size:92
Alignment explanation
Indices: 46628--46804 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 92
46618 GGGTGTCTCG
*
46628 GTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAG-CCACGGGTGCGGGAGTGCCGCA
1 GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCACGGGTGCGGG-GTGCCGCA
* *
46692 CAGAGCCGAGAGTTGGTGCGGGGGCCTC
65 CAGAACCGAGAGCTGGTGCGGGGGCCTC
**
46720 GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGGTGCCGCAC
1 GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCACGGGTGCGGGGTGCCGCAC
*
46785 AGAACCGAGCGCTGGTGCGG
66 AGAACCGAGAGCTGGTGCGG
46805 CAGCCTCGCA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 67 0.86
93 11 0.14
ACGTcount: A:0.17, C:0.36, G:0.36, T:0.12
Consensus pattern (92 bp):
GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCACGGGTGCGGGGTGCCGCAC
AGAACCGAGAGCTGGTGCGGGGGCCTC
Found at i:46814 original size:341 final size:342
Alignment explanation
Indices: 46129--46776 Score: 1070
Period size: 342 Copynumber: 1.9 Consensus size: 342
46119 GTCACCATCG
**
46129 GCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGTGCGTGAGGCTCGGTCA
1 GCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGTGCGTGAGGCTCGGTCA
46194 CCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCAC
66 CCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCAC
*
46259 CATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCC
131 CATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCC
* * *
46324 CAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGTCCTCGGTCACCATCG
196 CAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCG
* ** * *
46389 GCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCATCGGCA
261 GCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGCACACAACCGGCA
**
46454 ACCCCCACGGGTGCCTC
326 ACCCCCACGGCAGCCTC
*
46471 GCAACCCCAGGCCACGGGTGCGGGAGT-CCGCACAGAACCGAGCGTTGTGCGTGAGGCTCGGTCA
1 GCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGTGCGTGAGGCTCGGTCA
* *
46535 CCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGGTCA
66 CCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCA
46600 CCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAAC
130 CCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAAC
46665 CCCA-GCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTT-GGTGCGGGGGCCTC-GTCACCA
194 CCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGC-GGGGCCTCGGTCACCA
* **
46727 TCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGG
258 TCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGG
46777 TGCCGCACAG
Statistics
Matches: 290, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
341 105 0.36
342 136 0.47
343 49 0.17
ACGTcount: A:0.18, C:0.35, G:0.34, T:0.13
Consensus pattern (342 bp):
GCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGTGCGTGAGGCTCGGTCA
CCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCAC
CATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCC
CAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCG
GCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGCACACAACCGGCA
ACCCCCACGGCAGCCTC
Done.