Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009515.1 Hibiscus syriacus cultivar Beakdansim tig00115725_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: 54365
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Found at i:5525 original size:32 final size:32
Alignment explanation
Indices: 5489--5576 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
5479 GCGTGAGCCC
*
5489 CGGTCACCATCGGCAATCCCAGGC-GGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
5521 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
5553 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
5577 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
32 43 0.93
33 3 0.07
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:5664 original size:32 final size:32
Alignment explanation
Indices: 5623--5755 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
5613 GTGCGTGAGG
* *
5623 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
5655 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
5687 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
5719 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
5751 CTCGG
1 CTCGG
5756 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:5908 original size:93 final size:92
Alignment explanation
Indices: 5687--5909 Score: 227
Period size: 93 Copynumber: 2.4 Consensus size: 92
5677 AGACGGGTGT
* *
5687 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGAC-GGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
5752 TCGGCAACCCCAGGCCACGGTGCGGGAG
65 TCGGCAACCCCAGGCCACGGTGCGGGAG
* * * * * ***** *
5780 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGGT
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGGT
*
5842 GCCTCGGCAACCCCAGGCCACGGTGCGGGGG
62 GCCTCGGCAACCCCAGGCCACGGTGCGGGAG
* *
5873 CCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGTGCCTCGG
5910 CAACCCCAGG
Statistics
Matches: 97, Mismatches: 25, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
92 2 0.02
93 81 0.84
94 13 0.13
95 1 0.01
ACGTcount: A:0.16, C:0.38, G:0.34, T:0.13
Consensus pattern (92 bp):
CTCGGTCACCATCGGCAAACCCAGACGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCT
CGGCAACCCCAGGCCACGGTGCGGGAG
Found at i:5911 original size:61 final size:63
Alignment explanation
Indices: 5801--5932 Score: 234
Period size: 62 Copynumber: 2.1 Consensus size: 63
5791 GCCGAGAGTT
*
5801 GGGTGC-GGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
5863 -GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
5924 GGGTGCGGG
1 GGGTGCGGG
5933 AGTGCCGCAC
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
61 29 0.43
62 38 0.57
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:5945 original size:155 final size:156
Alignment explanation
Indices: 5719--6004 Score: 436
Period size: 155 Copynumber: 1.8 Consensus size: 156
5709 AGACGGGTGT
* *
5719 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGTGCGGGAGTTCC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCC
* * *
5784 GGACAGAGCCGAGAGTTGGGTGCG-G-GTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCT
66 GCACAGAACCGAGAGTT-GGTGCGTGAG-CCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCT
5846 CGGCAACCCCAGGCCACGGTGCGGGGGC
129 CGGCAACCCCAGGCCACGGTGCGGGGGC
5874 CTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GGTGCGGGAGTGC
* * * *
5938 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
65 CGCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
6003 GG
130 GG
6005 TCACCATTGG
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
154 29 0.25
155 81 0.69
156 8 0.07
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (156 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCC
GCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTCG
GCAACCCCAGGCCACGGTGCGGGGGC
Found at i:6041 original size:32 final size:32
Alignment explanation
Indices: 5967--6099 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
5957 GTGCGTGAGG
* * *
5967 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
* *
6000 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
6032 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
6064 CTCGGTCACCATCGGCAACCCCCGAC-GGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
6095 CTCGG
1 CTCGG
6100 CAACCCCAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 9 0.10
32 55 0.61
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:6218 original size:91 final size:90
Alignment explanation
Indices: 6064--6232 Score: 284
Period size: 91 Copynumber: 1.9 Consensus size: 90
6054 AGACGGGTGT
*
6064 CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
1 CTCGGTCACCATCGGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
*
6129 GCACAGAGCCGAGTTGGTGCGGGGC
66 GCACAGAACCGAGTTGGTGCGGGGC
* **
6154 CTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACACCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
6219 CGCACAGAACCGAG
65 CGCACAGAACCGAG
6233 CGCTGGGTGC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
90 25 0.34
91 48 0.66
ACGTcount: A:0.18, C:0.37, G:0.34, T:0.12
Consensus pattern (90 bp):
CTCGGTCACCATCGGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
GCACAGAACCGAGTTGGTGCGGGGC
Found at i:14391 original size:32 final size:32
Alignment explanation
Indices: 14352--14439 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
14342 GCGTGAGCCC
*
14352 CGGTCACCATCGGCAATCCCAGGC-GGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
14384 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
14416 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
14440 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
32 43 0.93
33 3 0.07
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:14556 original size:31 final size:32
Alignment explanation
Indices: 14486--14616 Score: 187
Period size: 31 Copynumber: 4.2 Consensus size: 32
14476 GTGCGTGAGG
* *
14486 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
14518 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
14549 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
14580 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
14612 CTCGG
1 CTCGG
14617 CAACCCCAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
31 56 0.61
32 28 0.30
33 8 0.09
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:14616 original size:63 final size:63
Alignment explanation
Indices: 14484--14616 Score: 189
Period size: 63 Copynumber: 2.1 Consensus size: 63
14474 TGGTGCGTGA
*
14484 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
* * * *
14547 GTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
14610 GGCTCGG
1 GGCTCGG
14617 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 25 0.40
63 29 0.47
64 8 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (63 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
Found at i:14741 original size:62 final size:63
Alignment explanation
Indices: 14663--14796 Score: 252
Period size: 62 Copynumber: 2.1 Consensus size: 63
14653 GCCGAGAGTT
*
14663 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
14726 -GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
14788 GGGTGCGGG
1 GGGTGCGGG
14797 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
62 61 0.88
63 8 0.12
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:14890 original size:186 final size:185
Alignment explanation
Indices: 14674--15033 Score: 505
Period size: 186 Copynumber: 1.9 Consensus size: 185
14664 GGTGCGGGGT
* * * ***
14674 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACC-CCAGGC-CACGGTG-CGGGG
1 CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTC-ACCACC-GGCAAACCCAGAC-GGG
14735 GCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
63 GCCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
*
14800 GCCGCACAGAACCGAGCGTTGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGG
127 GCCGCACAGAACCGAGAGTTGGTGCG-G-GGCCTCGGTCACCATCGGCAATCCCAGGCGGG
* * * * * *
14860 CCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGGTCACCATCGGCAAACCCAGACGGTGTC
1 CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCACCGGCAAACCCAGACGGGGCC
14925 TCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
66 TCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
*
14990 CACAGAGCCGAGAGTTGGTGCGGGGCCTCGGTCACCATCGGCAA
131 CACAGAACCGAGAGTTGGTGCGGGGCCTCGGTCACCATCGGCAA
15034 CACCCGACGG
Statistics
Matches: 155, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
184 2 0.01
185 19 0.12
186 99 0.64
187 34 0.22
188 1 0.01
ACGTcount: A:0.17, C:0.37, G:0.33, T:0.12
Consensus pattern (185 bp):
CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCACCGGCAAACCCAGACGGGGCC
TCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
CACAGAACCGAGAGTTGGTGCGGGGCCTCGGTCACCATCGGCAATCCCAGGCGGG
Found at i:14914 original size:157 final size:157
Alignment explanation
Indices: 14515--14928 Score: 511
Period size: 157 Copynumber: 2.7 Consensus size: 157
14505 CCAGGCGGGT
* * *
14515 GGCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAAACCCAGAC-GGTG
1 GGCCTCGGTCACCATCGGCAAACCCAGACGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGTG
* *
14579 TCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTT
66 TCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTG
* *
14644 CCGGACAGAGCCGAGAGTTGGGTGCGG
131 CCGCACAGAACCGAGAGTTGGGTGCGG
* * ** * * **
14671 GGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACCCCAGGCCACG-GTG-CGG
1 GG-CCTCGGTCACCATCGGCAAACCCAGAC-GGTGCCTCGGTC-ACCATAGGCAAAGCCAGACGG
* *
14733 GGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGA
63 GTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGA
*
14798 GTGCCGCACAGAACCGAGCGTT-GGTGCGTG
128 GTGCCGCACAGAACCGAGAGTTGGGTGCG-G
* * *
14828 AGG-CTCGGTCACCATCGGCAATCCCAGGCGG-GCCTCGGTCACCATTGGCAAAGCCAGACGGGT
1 -GGCCTCGGTCACCATCGGCAAACCCAGACGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGT
* * *
14891 GTCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGG
65 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
14929 TCACCATCGG
Statistics
Matches: 216, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
154 15 0.07
155 13 0.06
156 61 0.28
157 109 0.50
158 18 0.08
ACGTcount: A:0.18, C:0.36, G:0.34, T:0.13
Consensus pattern (157 bp):
GGCCTCGGTCACCATCGGCAAACCCAGACGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGTG
TCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTG
CCGCACAGAACCGAGAGTTGGGTGCGG
Found at i:14926 original size:31 final size:31
Alignment explanation
Indices: 14831--14959 Score: 170
Period size: 31 Copynumber: 4.2 Consensus size: 31
14821 GTGCGTGAGG
* *
14831 CTCGGTCACCATCGGCAATCCCAGGCGG-GC
1 CTCGGTCACCATCGGCAAACCCAGACGGTGC
* * *
14861 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGAC-GGTGC
*
14893 CTCGGTCACCATCGGCAAACCCAGACGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGTGC
* *
14924 CTCGGTCACCATCGGCAACCCCCGACGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGTGC
14955 CTCGG
1 CTCGG
14960 CAACCCCAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.25
31 40 0.46
32 25 0.29
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.16
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAAACCCAGACGGTGC
Found at i:23286 original size:33 final size:32
Alignment explanation
Indices: 23249--23337 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
23239 GCGTGAGCCC
*
23249 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
23282 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
23314 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
23338 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:23479 original size:31 final size:31
Alignment explanation
Indices: 23387--23502 Score: 166
Period size: 30 Copynumber: 3.8 Consensus size: 31
23377 CGTGAGGCTC
* *
23387 GTCACCATCGGC-AACCCAGGCGGGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGGTCTCG
23417 GTCACCATCGGCAAACCCAGAC-GGGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGGTCTCG
23447 GTCACCATC-GCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGG-GTCTCG
* *
23478 GTCACCATCGGCAACCCCCGACGGG
1 GTCACCATCGGCAAACCCAGACGGG
23503 TGGCTCGGCA
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
29 12 0.15
30 30 0.38
31 23 0.29
32 13 0.17
ACGTcount: A:0.21, C:0.39, G:0.28, T:0.12
Consensus pattern (31 bp):
GTCACCATCGGCAAACCCAGACGGGGTCTCG
Found at i:23490 original size:61 final size:60
Alignment explanation
Indices: 23387--23503 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 60
23377 CGTGAGGCTC
*
23387 GTCACCATCGGCAACCCAGGCGGGGCCTCGGTCACCATCGGCAAACCCAGACGGGTCTCG
1 GTCACCATCGGCAACCCAGACGGGGCCTCGGTCACCATCGGCAAACCCAGACGGGTCTCG
* * *
23447 GTCACCATC-GCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GTCACCATCGGC-AACCCAGACGGG-GCCTCGGTCACCATCGGCAAACCCAGACGGGT
23504 GGCTCGGCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 2 0.04
60 20 0.39
61 29 0.57
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.13
Consensus pattern (60 bp):
GTCACCATCGGCAACCCAGACGGGGCCTCGGTCACCATCGGCAAACCCAGACGGGTCTCG
Found at i:23684 original size:60 final size:63
Alignment explanation
Indices: 23557--23686 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 63
23547 GCCGAGAGTT
23557 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
23620 -GGTGCGGGG-CCTCGGTCACCATC-GCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
23679 GGGTGCGG
1 GGGTGCGG
23687 AGTGCCGCAC
Statistics
Matches: 66, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
59 24 0.36
60 19 0.29
61 14 0.21
62 9 0.14
ACGTcount: A:0.14, C:0.41, G:0.35, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:23794 original size:32 final size:32
Alignment explanation
Indices: 23724--23852 Score: 170
Period size: 32 Copynumber: 4.0 Consensus size: 32
23714 CGTGAGGCTC
* * *
23724 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-GTCTCG
* *
23757 GTCACCATTGGCAAAGCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
23789 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
* * *
23821 GTCACCATCGGCAACCCCCGAC-GGTGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
23852 G
1 G
23853 CAACCCCAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 9 0.10
32 55 0.64
33 22 0.26
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGACGGGTGTCTCG
Found at i:23923 original size:93 final size:93
Alignment explanation
Indices: 23620--23999 Score: 312
Period size: 93 Copynumber: 4.1 Consensus size: 93
23610 CCCAGGCCAC
23620 GGTGC-GGGGCCTCGGTCACCATC-GCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
* *
23683 GCGGAGTGCCGCACAGAACCGAGCG-TT
66 GCGGAGTGCCGCACAGAACCGAGAGCTG
* * * * *** * *
23710 GGTGCGTGAGG-CTC-GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAAA
1 GGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGAC-GGT-GCCTCGG-CAACCCCAGGCCAC
*** * * * * **
23772 GCCAGACGG-GTGTCTCGGTCAC-CATCGGCA-AACCC
62 GGGTG-CGGAGTG-C-C-G-CACAGAACCG-AGAGCTG
* * * *
23807 AG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
* *
23871 GCGGAGTGCCGCACAGAGCCGAGAGTTG
66 GCGGAGTGCCGCACAGAACCGAGAGCTG
* * **
23899 GGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGTGCCTCGGCAACCCCAGTCCATTGGT
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
*
23964 GCGGGAGTGCCGCACAGAACCGAGCGCTG
66 GC-GGAGTGCCGCACAGAACCGAGAGCTG
23993 GGTGCGG
1 GGTGCGG
24000 CAGCCTCGCA
Statistics
Matches: 217, Mismatches: 52, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
90 14 0.06
91 16 0.07
92 12 0.06
93 77 0.35
94 40 0.18
95 22 0.10
96 12 0.06
97 24 0.11
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (93 bp):
GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
GCGGAGTGCCGCACAGAACCGAGAGCTG
Found at i:37769 original size:33 final size:32
Alignment explanation
Indices: 37732--37820 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
37722 GCGTGAGCCC
*
37732 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
37765 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
37797 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
37821 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:37908 original size:32 final size:32
Alignment explanation
Indices: 37867--37999 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
37857 GTGCGTGAGG
* *
37867 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
37899 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
37931 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
37963 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
37995 CTCGG
1 CTCGG
38000 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:38124 original size:62 final size:63
Alignment explanation
Indices: 38046--38179 Score: 252
Period size: 62 Copynumber: 2.1 Consensus size: 63
38036 GCCGAGAGTT
*
38046 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
38109 -GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
38171 GGGTGCGGG
1 GGGTGCGGG
38180 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
62 61 0.88
63 8 0.12
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:38158 original size:157 final size:157
Alignment explanation
Indices: 37963--38251 Score: 458
Period size: 157 Copynumber: 1.8 Consensus size: 157
37953 AGACGGGTGT
* *
37963 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
38028 CGGACAGAGCCGAGAGTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGC
38090 CTCGGCAACCCCAGGCCACGGTGCGGGGGC
128 CTCGGCAACCCCAGGCCACGGTGCGGGGGC
38120 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
38185 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
38250 GG
131 GG
38252 TCACCATTGG
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
156 33 0.27
157 86 0.71
158 2 0.02
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (157 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GGCAACCCCAGGCCACGGTGCGGGGGC
Found at i:38226 original size:94 final size:93
Alignment explanation
Indices: 38109--38494 Score: 355
Period size: 94 Copynumber: 4.1 Consensus size: 93
38099 CCCAGGCCAC
*
38109 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGTGGG-CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
38174 TGCGGGAGTGCCGCACAGAACCGAGCGTT
65 TGCGGGAGTGCCGCACAGAACCGAGCGTT
* * * * *
38203 GGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAAAG
1 GGTGCGTG-GGCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACC-----CCAGG
** * *
38267 CCAGACGGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGACG--
58 CC--ACGGGTG-CGGGAGTGC-CGCA-CAG--AACCGAG-CGTT
38306 GGT--GT---CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGT
1 GGTGCGTGGGCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGT
* *
38366 GCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GCGGGAGTGCCGCACAGAACCGAGCGTT
* * **
38394 GGGTGCG-GGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 -GGTGCGTGGG-CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
38458 GTGCGGGAGTGCCGCACAGAACCGAGCGCTG
64 GTGCGGGAGTGCCGCACAGAACCGAGCG-TT
38489 GGTGCG
1 GGTGCG
38495 GCAGCCTCGC
Statistics
Matches: 234, Mismatches: 28, Indels: 60
0.73 0.09 0.19
Matches are distributed among these distances:
86 1 0.00
87 5 0.02
88 2 0.01
89 15 0.06
90 3 0.01
91 6 0.03
94 115 0.49
95 14 0.06
96 11 0.05
97 27 0.12
100 5 0.02
101 5 0.02
102 12 0.05
103 5 0.02
104 6 0.03
105 2 0.01
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (93 bp):
GGTGCGTGGGCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGT
GCGGGAGTGCCGCACAGAACCGAGCGTT
Found at i:38288 original size:32 final size:32
Alignment explanation
Indices: 38214--38347 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
38204 GTGCGTGAGG
* *
38214 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
38247 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
38279 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
38311 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
38343 CTCGG
1 CTCGG
38348 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:38463 original size:348 final size:347
Alignment explanation
Indices: 37806--38464 Score: 1194
Period size: 348 Copynumber: 1.9 Consensus size: 347
37796 TCGGTCACCA
**
37806 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
37871 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
*
37936 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGC
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
* *
38001 AACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCA
196 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCA
*
38066 CCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGGGCCTCGGTCACCA
261 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGGGCCTCGGTCACCA
38131 TCGGCAACCCCCGACGGGTGCC
326 TCGGCAACCCCCGACGGGTGCC
*
38153 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
38218 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
38283 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
38348 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGG-CCTCGGTC
195 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTC
* *
38412 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
260 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCA-CGGTGCGGG
38465 AGTGCCGCAC
Statistics
Matches: 299, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
347 125 0.42
348 174 0.58
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (347 bp):
TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCA
CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGGGCCTCGGTCACCA
TCGGCAACCCCCGACGGGTGCC
Found at i:52172 original size:33 final size:32
Alignment explanation
Indices: 52135--52224 Score: 108
Period size: 33 Copynumber: 2.8 Consensus size: 32
52125 GCGTGAGCCC
*
52135 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
52168 CGGTCACCATCGGCAAAACCATAACGGGTGTCT
1 CGGTCACCATCGGCAAACCCA-GGCGGGTGCCT
*
52201 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
52225 CATTGGTGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
32 1 0.02
33 41 0.87
34 5 0.11
ACGTcount: A:0.21, C:0.37, G:0.28, T:0.14
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:52392 original size:31 final size:31
Alignment explanation
Indices: 52271--52385 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
52261 GTGCGTGAGG
* *
52271 CTCGGTCACCATCGGCAACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAACCCAGACGGGT-GT
*
52303 CTCGGTCACCATCGGCAAACCAGACGGGTGT
1 CTCGGTCACCATCGGCAACCCAGACGGGTGT
52334 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGC-AACCCAGACGGGTGT
52365 CTCGGTCACCATCGGCAACCC
1 CTCGGTCACCATCGGCAACCC
52386 CCGACGGGGC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
30 5 0.06
31 38 0.49
32 35 0.45
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGT
Found at i:52526 original size:63 final size:63
Alignment explanation
Indices: 52447--52580 Score: 252
Period size: 63 Copynumber: 2.1 Consensus size: 63
52437 GCCGAGAGTT
*
52447 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
52510 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
52573 -GGTGCGGG
1 GGGTGCGGG
52581 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 8 0.11
63 62 0.89
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:52680 original size:157 final size:157
Alignment explanation
Indices: 52302--52715 Score: 420
Period size: 157 Copynumber: 2.6 Consensus size: 157
52292 AGGCGGGTGG
** * * * * *
52302 CCTCGGTCACCATCGGCAAACCAGACGGGTGTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GT
1 CCTCGGTCACCATCGG-ACCCCCGACGGGAGCCTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
*
52365 CTCGGTCACCATCGGCAACCCCCGACGGG-GCTCGGCAAACCCCAGGCCACGGGTGCGGGAGTTC
64 CTCGGTCACCATCGGCAACCCCCGACGGGTGCTCGGCAAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
52429 CGGACAGAGCCGAGAGTTGGGTGCGGGGT
129 CGCACAGAACCGAGAGTTGGGTGCGGAGT
* * * **
52458 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACC-CCAGGCCA-CGGGTGCGGG-
1 CCTCGGTCACCATCGG--ACCCCCGACGGGAGCCTCGGTC-ACCATC-GGCAACCCAG-GCGGGT
52519 GGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC-AACCCCAGGCCAC-GGTGCGGGA
61 GGCCTCGGTCACCATCGGCAACCCCCGACGGGTG-CTCGGCAAACCCCAGGCCACGGGTGCGGGA
*
52582 GTGCCGCACAGAACCGAGCGTT-GGTGCGTGAGT
125 GTGCCGCACAGAACCGAGAGTTGGGTGCG-GAGT
** * *
52615 -CTCGGTCACCATCAGG-CCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGG
1 CCTCGGTCACCATC-GGACCCCCG-ACGGGAGCCTCGGTCACCATCGGCAA-CCCAGGCGGGTGG
* *
52678 CCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
63 CCTCGGTCACCATCGGCAACCCCCGACGGGTG-CTCGG
52716 TCACCATCGG
Statistics
Matches: 214, Mismatches: 28, Indels: 31
0.78 0.10 0.11
Matches are distributed among these distances:
154 4 0.02
155 19 0.09
156 46 0.21
157 125 0.58
158 14 0.07
159 6 0.03
ACGTcount: A:0.17, C:0.36, G:0.33, T:0.14
Consensus pattern (157 bp):
CCTCGGTCACCATCGGACCCCCGACGGGAGCCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCT
CGGTCACCATCGGCAACCCCCGACGGGTGCTCGGCAAACCCCAGGCCACGGGTGCGGGAGTGCCG
CACAGAACCGAGAGTTGGGTGCGGAGT
Found at i:52686 original size:33 final size:33
Alignment explanation
Indices: 52644--52835 Score: 167
Period size: 33 Copynumber: 5.6 Consensus size: 33
52634 TTGTGCGTGA
*
52644 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
52677 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * *
52709 GTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
52749 AGCCTC-GTCACCATCGGCATCCCCAGGCGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCA---GGCGGGTG
*
52785 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
52816 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
52836 CCCCGGGCCA
Statistics
Matches: 131, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
31 19 0.15
32 26 0.20
33 33 0.25
35 5 0.04
36 19 0.15
37 2 0.02
38 2 0.02
39 1 0.01
40 17 0.13
41 4 0.03
42 1 0.01
43 2 0.02
ACGTcount: A:0.17, C:0.37, G:0.31, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:52850 original size:107 final size:106
Alignment explanation
Indices: 52636--52854 Score: 372
Period size: 107 Copynumber: 2.1 Consensus size: 106
52626 TCAGGCCCTT
*
52636 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
52701 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
52742 GTGCGGGAGCCTC-GTCACCATCGGC-ATCCCCAGGCGGCGGGTGGCCTCGGTCACCATCGGCAA
1 GTGCGGGAGCCTCGGTCACCATCGGCAAT-CCCA---GGCGGGTGGCCTCGGTCACCATCGGCAA
52805 ACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
62 ACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
52849 GTGCGG
1 GTGCGG
52855 TAGTGCCGCA
Statistics
Matches: 108, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
104 2 0.02
105 16 0.15
106 12 0.11
107 42 0.39
108 36 0.33
ACGTcount: A:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (106 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:53237 original size:11 final size:11
Alignment explanation
Indices: 53223--53254 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
53213 TCCCGGTGGT
53223 GCTCCGGCGAC
1 GCTCCGGCGAC
*
53234 GCTCCGGCGAT
1 GCTCCGGCGAC
53245 GCTCCGGCGA
1 GCTCCGGCGA
53255 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Done.