Tandem Repeats Finder Program written by:
Gary Benson
Department of Biomathematical Sciences
Mount Sinai School of Medicine
Version 4.00
Sequence: NFA 2003-09-04
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 6021225
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
File 4 of 7
Found at i:1162264 original size:18 final size:18
Alignment explanation
Indices: 1162243--1162278 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1162233 CCGGCAGGGT
1162243 CAGGGTGAGCGCGCCCAG
1 CAGGGTGAGCGCGCCCAG
*
1162261 CAGGGTGAGCGTGCCCAG
1 CAGGGTGAGCGCGCCCAG
1162279 AACGCCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.44, T:0.08
Consensus pattern (18 bp):
CAGGGTGAGCGCGCCCAG
Found at i:1162352 original size:15 final size:15
Alignment explanation
Indices: 1162309--1162345 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1162299 GAACGCGGGT
1162309 GGCCGCAACGACGGC
1 GGCCGCAACGACGGC
1162324 GGCCGCAACGACGGC
1 GGCCGCAACGACGGC
1162339 GGCCGCA
1 GGCCGCA
1162346 CGGACGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.41, T:0.00
Consensus pattern (15 bp):
GGCCGCAACGACGGC
Found at i:1179193 original size:13 final size:13
Alignment explanation
Indices: 1179164--1179208 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1179154 CGGAGCCGCA
* *
1179164 ACGCTGAGCGGAA
1 ACGCTGAGCCGAG
1179177 ACGCTGAGCCGAG
1 ACGCTGAGCCGAG
*
1179190 ACGCCGAGCCGAG
1 ACGCTGAGCCGAG
*
1179203 AGGCTG
1 ACGCTG
1179209 GGCGGGGCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.24, C:0.29, G:0.40, T:0.07
Consensus pattern (13 bp):
ACGCTGAGCCGAG
Found at i:1185111 original size:21 final size:21
Alignment explanation
Indices: 1185087--1185156 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
1185077 GCGGACTTCC
1185087 GCGCAGGCCGGGCCACTGGTG
1 GCGCAGGCCGGGCCACTGGTG
** * *
1185108 GCGCACGGTCCCCGCGGACT--TCC
1 GCGCA-GG-CCGGGC-CACTGGT-G
1185131 GCGCAGGCCGGGCCACTGGTG
1 GCGCAGGCCGGGCCACTGGTG
1185152 GCGCA
1 GCGCA
1185157 CGGTCCCCGC
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 6 0.17
23 9 0.26
24 3 0.09
ACGTcount: A:0.10, C:0.39, G:0.41, T:0.10
Consensus pattern (21 bp):
GCGCAGGCCGGGCCACTGGTG
Found at i:1185204 original size:45 final size:44
Alignment explanation
Indices: 1185048--1185205 Score: 232
Period size: 44 Copynumber: 3.6 Consensus size: 44
1185038 ACTCGAGCGG
* *
1185048 AGGCC-GGCCGACCGGTGGCGCGCGGT-CCCGCGGACTTCCGCGC
1 AGGCCGGGCC-ACTGGTGGCGCACGGTCCCCGCGGACTTCCGCGC
1185091 AGGCCGGGCCACTGGTGGCGCACGGTCCCCGCGGACTTCCGCGC
1 AGGCCGGGCCACTGGTGGCGCACGGTCCCCGCGGACTTCCGCGC
*
1185135 AGGCCGGGCCACTGGTGGCGCACGGTCCCCGCGGAC-TCCTGTGC
1 AGGCCGGGCCACTGGTGGCGCACGGTCCCCGCGGACTTCC-GCGC
*
1185179 AAGCCGGGGCCACTGGTGGCGCACGGT
1 AGGCC-GGGCCACTGGTGGCGCACGGT
1185206 TTCGCTGGCT
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
43 22 0.21
44 64 0.60
45 21 0.20
ACGTcount: A:0.09, C:0.39, G:0.41, T:0.11
Consensus pattern (44 bp):
AGGCCGGGCCACTGGTGGCGCACGGTCCCCGCGGACTTCCGCGC
Found at i:1185219 original size:44 final size:45
Alignment explanation
Indices: 1185061--1185229 Score: 217
Period size: 44 Copynumber: 3.8 Consensus size: 45
1185051 CCGGCCGACC
*
1185061 GGTGGCGCGCGGT-CCCGCGGACTTCC-GCGCAGGCC-GGGCCACT
1 GGTGGCGCACGGTCCCCGCGGAC-TCCTGCGCAGGCCGGGGCCACT
1185104 GGTGGCGCACGGTCCCCGCGGACTTCC-GCGCAGGCC-GGGCCACT
1 GGTGGCGCACGGTCCCCGCGGAC-TCCTGCGCAGGCCGGGGCCACT
* *
1185148 GGTGGCGCACGGTCCCCGCGGACTCCTGTGCAAGCCGGGGCCACT
1 GGTGGCGCACGGTCCCCGCGGACTCCTGCGCAGGCCGGGGCCACT
**
1185193 GGTGGCGCACGGT-TTCGCTGG-CTCCTGCGCAGGCCGG
1 GGTGGCGCACGGTCCCCGC-GGACTCCTGCGCAGGCCGG
1185230 CCACCCGAGC
Statistics
Matches: 115, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
43 15 0.13
44 77 0.67
45 23 0.20
ACGTcount: A:0.08, C:0.38, G:0.40, T:0.14
Consensus pattern (45 bp):
GGTGGCGCACGGTCCCCGCGGACTCCTGCGCAGGCCGGGGCCACT
Found at i:1185673 original size:21 final size:21
Alignment explanation
Indices: 1185649--1185754 Score: 169
Period size: 21 Copynumber: 5.1 Consensus size: 21
1185639 GACCATTGCC
*
1185649 TCGGTACTCGACGGCGCGGCA
1 TCGGTACTCGACGGCGGGGCA
*
1185670 TCGGTACTCGACCGCGGGGCA
1 TCGGTACTCGACGGCGGGGCA
*
1185691 TCGGTACTCGACGGCGGGGCC
1 TCGGTACTCGACGGCGGGGCA
*
1185712 TCGGTACTCGACGGCGGGGCC
1 TCGGTACTCGACGGCGGGGCA
1185733 TCGGTACTCGACGGC-GGGCA
1 TCGGTACTCGACGGCGGGGCA
1185753 TC
1 TC
1185755 CGCAGCCGTC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
20 6 0.07
21 74 0.93
ACGTcount: A:0.12, C:0.33, G:0.40, T:0.15
Consensus pattern (21 bp):
TCGGTACTCGACGGCGGGGCA
Found at i:1191384 original size:14 final size:14
Alignment explanation
Indices: 1191365--1191394 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1191355 TCGCGGCCGC
1191365 GCTGTACTGAACCG
1 GCTGTACTGAACCG
1191379 GCTGTACTGAACCG
1 GCTGTACTGAACCG
1191393 GC
1 GC
1191395 GCTGCTACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (14 bp):
GCTGTACTGAACCG
Found at i:1236528 original size:24 final size:24
Alignment explanation
Indices: 1236499--1236567 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
1236489 GTCCGTCGCG
1236499 GTCGTGCCCGTGCCCGTCGTGCCC
1 GTCGTGCCCGTGCCCGTCGTGCCC
* * *
1236523 GTCGTGCCCGTGCCGGTCGTGTCG
1 GTCGTGCCCGTGCCCGTCGTGCCC
1236547 GTCGTGCCCGTGCCCGTCGTG
1 GTCGTGCCCGTGCCCGTCGTG
1236568 GTCGTGACCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.00, C:0.39, G:0.38, T:0.23
Consensus pattern (24 bp):
GTCGTGCCCGTGCCCGTCGTGCCC
Found at i:1236567 original size:9 final size:9
Alignment explanation
Indices: 1236507--1236533 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1236497 CGGTCGTGCC
1236507 CGTGCCCGT
1 CGTGCCCGT
1236516 CGTGCCCGT
1 CGTGCCCGT
1236525 CGTGCCCGT
1 CGTGCCCGT
1236534 GCCGGTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.33, T:0.22
Consensus pattern (9 bp):
CGTGCCCGT
Found at i:1260538 original size:15 final size:15
Alignment explanation
Indices: 1260520--1260551 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1260510 CCGGCGTGGT
1260520 CGTGGCCCGTGTGAG
1 CGTGGCCCGTGTGAG
*
1260535 CGTGGCCGGTGTGAG
1 CGTGGCCCGTGTGAG
1260550 CG
1 CG
1260552 CGGGCGGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.50, T:0.19
Consensus pattern (15 bp):
CGTGGCCCGTGTGAG
Found at i:1260625 original size:12 final size:12
Alignment explanation
Indices: 1260608--1260635 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1260598 TGCGGCGGCC
1260608 GCCGTGCTCGTG
1 GCCGTGCTCGTG
1260620 GCCGTGCTCGTG
1 GCCGTGCTCGTG
1260632 GCCG
1 GCCG
1260636 CCGGGCGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.36, G:0.43, T:0.21
Consensus pattern (12 bp):
GCCGTGCTCGTG
Found at i:1260742 original size:16 final size:16
Alignment explanation
Indices: 1260713--1260761 Score: 89
Period size: 16 Copynumber: 3.0 Consensus size: 16
1260703 TTCCGTCTCG
1260713 CGCCGGTCCCGATCGAA
1 CGCCGGT-CCGATCGAA
1260730 CGCCGGTCCGATCGAA
1 CGCCGGTCCGATCGAA
1260746 CGCCGGTCCGATCGAA
1 CGCCGGTCCGATCGAA
1260762 TACAGTCGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 25 0.78
17 7 0.22
ACGTcount: A:0.18, C:0.39, G:0.31, T:0.12
Consensus pattern (16 bp):
CGCCGGTCCGATCGAA
Found at i:1266248 original size:18 final size:18
Alignment explanation
Indices: 1266227--1266267 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1266217 GCGCCGCGCT
1266227 GGCGGTGTTCGGCGCGAC
1 GGCGGTGTTCGGCGCGAC
1266245 GGCGGTGTTCGGCGCGAC
1 GGCGGTGTTCGGCGCGAC
1266263 GGCGG
1 GGCGG
1266268 GGTGCGGGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.05, C:0.27, G:0.54, T:0.15
Consensus pattern (18 bp):
GGCGGTGTTCGGCGCGAC
Found at i:1270470 original size:19 final size:19
Alignment explanation
Indices: 1270446--1270512 Score: 102
Period size: 19 Copynumber: 3.5 Consensus size: 19
1270436 GAGCCTATGA
1270446 CGCTGTTCTGAGACCTCGT
1 CGCTGTTCTGAGACCTCGT
1270465 CGCTGTTCTGAGACCTCGT
1 CGCTGTTCTGAGACCTCGT
1270484 CGCTGTTCTGAG-CC-CGT
1 CGCTGTTCTGAGACCTCGT
1270501 GACGCTGTTCTG
1 --CGCTGTTCTG
1270513 CGCCGCGCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.07
18 2 0.04
19 41 0.89
ACGTcount: A:0.09, C:0.31, G:0.28, T:0.31
Consensus pattern (19 bp):
CGCTGTTCTGAGACCTCGT
Found at i:1293259 original size:77 final size:77
Alignment explanation
Indices: 1293166--1293353 Score: 310
Period size: 77 Copynumber: 2.5 Consensus size: 77
1293156 CTGGAGAAAG
* *
1293166 CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGGAGTGTGGCCACGGAGGGCGCCCCGCTCGG
1 CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGGAGCGTGGCCACGCAGGGCGCCCCGCTCGG
**
1293231 GC-TGGTCGGACA
66 GCACAGTC-GACA
1293243 CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGGAGCGTGGCCACGCAGGGCGCCCCGCTCGG
1 CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGGAGCGTGGCCACGCAGGGCGCCCCGCTCGG
1293308 GCACAGTCGACA
66 GCACAGTCGACA
1293320 CCGCCTGAGCGGGTCAGCGCCCGGAGG-GGT-GCGG
1 CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGG
1293354 GGGTGCCTGT
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
75 4 0.04
76 3 0.03
77 96 0.91
78 3 0.03
ACGTcount: A:0.12, C:0.34, G:0.45, T:0.09
Consensus pattern (77 bp):
CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGGAGCGTGGCCACGCAGGGCGCCCCGCTCGG
GCACAGTCGACA
Found at i:1296776 original size:17 final size:17
Alignment explanation
Indices: 1296754--1296788 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1296744 CGACGTCGTC
1296754 GAAGTGGTGGAGTGAGA
1 GAAGTGGTGGAGTGAGA
1296771 GAAGTGGTGGAGTGAGA
1 GAAGTGGTGGAGTGAGA
1296788 G
1 G
1296789 CTGCCTAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.54, T:0.17
Consensus pattern (17 bp):
GAAGTGGTGGAGTGAGA
Found at i:1299974 original size:78 final size:78
Alignment explanation
Indices: 1299873--1300327 Score: 695
Period size: 78 Copynumber: 5.8 Consensus size: 78
1299863 TCCGCGGGGT
* * * * *
1299873 TGAGCGGGGCGGCTTGCGTGGGTGACGCTGCGCTGCCGCCTTCGGCCGCTGACCCGCTCAGGCTG
1 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTG
1299938 TGTCGGATGCGCC
66 TGTCGGATGCGCC
* *
1299951 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTG
1 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTG
*
1300016 TG-CTGGTCGTGCGCC
66 TGTC-GG--ATGCGCC
* * *
1300031 TGAGCGGGGCGGCCTGC-GTGGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTG
1 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTG
*
1300095 TGTCGGATGTGCC
66 TGTCGGATGCGCC
1300108 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCGG
1 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGC--
1300173 TGCTGGTC-G-TGCGCC
64 TG-T-GTCGGATGCGCC
*
1300188 TGAGCGGGGCGGCCTGC-GTGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTG
1 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTG
1300252 TGTCGGATGCGCC
66 TGTCGGATGCGCC
1300265 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGC
1 TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGC
1300328 GGCGCGCAGG
Statistics
Matches: 352, Mismatches: 13, Indels: 24
0.90 0.03 0.06
Matches are distributed among these distances:
75 3 0.01
76 2 0.01
77 48 0.14
78 152 0.43
79 94 0.27
80 48 0.14
81 2 0.01
82 3 0.01
ACGTcount: A:0.07, C:0.36, G:0.40, T:0.17
Consensus pattern (78 bp):
TGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTG
TGTCGGATGCGCC
Found at i:1300179 original size:157 final size:157
Alignment explanation
Indices: 1299873--1300329 Score: 833
Period size: 157 Copynumber: 2.9 Consensus size: 157
1299863 TCCGCGGGGT
* *
1299873 TGAGCGGGGCGGCTTGCGTGGGTGACGCTGCGCTGCCGCCTTCGGCCGCTGACCCGCTCAGGCTG
1 TGAGCGGGGCGGCCTGCGT-GGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTG
* *
1299938 TGTCGGATGCGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCGCCTTCGGCCGCTGA
65 TGTCGGATGCGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGA
*
1300003 CCCGCTCAGGCTGTGCTGGTCGTGCGCC
130 CCCGCTCAGGCGGTGCTGGTCGTGCGCC
1300031 TGAGCGGGGCGGCCTGCGTGGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTGT
1 TGAGCGGGGCGGCCTGCGTGGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTGT
*
1300096 GTCGGATGTGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGAC
66 GTCGGATGCGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGAC
1300161 CCGCTCAGGCGGTGCTGGTCGTGCGCC
131 CCGCTCAGGCGGTGCTGGTCGTGCGCC
* *
1300188 TGAGCGGGGCGGCCTGCGTGGTGACGCTGCGCTACCCCCTCCGGCCGCTGACCCGCTCAGGCTGT
1 TGAGCGGGGCGGCCTGCGTGGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTGT
1300253 GTCGGATGCGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGAC
66 GTCGGATGCGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGAC
1300318 CCGCTCAGGCGG
131 CCGCTCAGGCGG
1300330 CGCGCAGGGT
Statistics
Matches: 290, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
157 272 0.94
158 18 0.06
ACGTcount: A:0.07, C:0.36, G:0.40, T:0.17
Consensus pattern (157 bp):
TGAGCGGGGCGGCCTGCGTGGTGACGCTGCGCTACCGCCTTCGGCCGCTGACCCGCTCAGGCTGT
GTCGGATGCGCCTGAGCGGGGCGGCCTGCGGGGGTGACGCTGCGCTACCCCCTCCGGCCGCTGAC
CCGCTCAGGCGGTGCTGGTCGTGCGCC
Found at i:1312846 original size:15 final size:15
Alignment explanation
Indices: 1312818--1312862 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
1312808 CATCGCCGGG
*
1312818 AGGGCATCGATGACC
1 AGGGCATCGGTGACC
*
1312833 AGGGCTTCGGTGACC
1 AGGGCATCGGTGACC
*
1312848 AGGGCACCGGTGACC
1 AGGGCATCGGTGACC
1312863 TTCCCAGACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.13
Consensus pattern (15 bp):
AGGGCATCGGTGACC
Found at i:1316600 original size:78 final size:78
Alignment explanation
Indices: 1316471--1316710 Score: 471
Period size: 78 Copynumber: 3.1 Consensus size: 78
1316461 GCCCACCGCG
*
1316471 TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGCTCGGGCGA
1 TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGGTCGGGCGA
1316536 ATCGGACCCGGCC
66 ATCGGACCCGGCC
1316549 TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGGTCGGGCGA
1 TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGGTCGGGCGA
1316614 ATCGGACCCGGCC
66 ATCGGACCCGGCC
1316627 TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGGTCGGGCGA
1 TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGGTCGGGCGA
1316692 ATCGGACCCGGCC
66 ATCGGACCCGGCC
1316705 TGAGCG
1 TGAGCG
1316711 CTAACCGCGC
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 161 1.00
ACGTcount: A:0.14, C:0.31, G:0.45, T:0.10
Consensus pattern (78 bp):
TGAGCGGGTCAGCGGTCGGAGGTGGTAGCGGAGCGTGACCACCGGAGGCCGCCCCGGTCGGGCGA
ATCGGACCCGGCC
Found at i:1317379 original size:19 final size:19
Alignment explanation
Indices: 1317355--1317391 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1317345 TTCCTCGGCT
* *
1317355 CCGCTCGTCTCCGGATCAG
1 CCGCTCATCTCCAGATCAG
1317374 CCGCTCATCTCCAGATCA
1 CCGCTCATCTCCAGATCA
1317392 AGGGCTCGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.43, G:0.19, T:0.22
Consensus pattern (19 bp):
CCGCTCATCTCCAGATCAG
Found at i:1330404 original size:24 final size:24
Alignment explanation
Indices: 1330353--1330409 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
1330343 CCGCGGCGAG
*
1330353 CGCGGCCGCGACGTCGATCGCCTC
1 CGCGGCCGCGACGTCGATCGCATC
1330377 CGCGGCCGCGACGATCG-TCGTCAT-
1 CGCGGCCGCGACG-TCGATCG-CATC
1330401 CGC-GCCGCG
1 CGCGGCCGCG
1330410 CCGACGAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.20
24 19 0.63
25 5 0.17
ACGTcount: A:0.09, C:0.44, G:0.35, T:0.12
Consensus pattern (24 bp):
CGCGGCCGCGACGTCGATCGCATC
Found at i:1340438 original size:21 final size:23
Alignment explanation
Indices: 1340414--1340455 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1340404 GCCAGCATCC
*
1340414 GCTC-GGCA-GCCGCGCGCCGGT
1 GCTCGGGCAGGCCGCCCGCCGGT
1340435 GCTCGGGCAGGCCGCCCGCCG
1 GCTCGGGCAGGCCGCCCGCCG
1340456 CACCCGCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.05, C:0.45, G:0.43, T:0.07
Consensus pattern (23 bp):
GCTCGGGCAGGCCGCCCGCCGGT
Found at i:1365634 original size:9 final size:9
Alignment explanation
Indices: 1365620--1365647 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1365610 GGTCGTCAGT
1365620 GCCGGGTCG
1 GCCGGGTCG
1365629 GCCGGGTCG
1 GCCGGGTCG
1365638 GCCGGGTCG
1 GCCGGGTCG
1365647 G
1 G
1365648 TTCCGGGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.57, T:0.11
Consensus pattern (9 bp):
GCCGGGTCG
Found at i:1373743 original size:18 final size:18
Alignment explanation
Indices: 1373709--1373744 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1373699 CAGCCCAGCA
*
1373709 ACACCGCCGCCCTCTTCG
1 ACACCGCCGCCCGCTTCG
*
1373727 ACACCGCCGCGCGCTTCG
1 ACACCGCCGCCCGCTTCG
1373745 GCGTGCGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.53, G:0.22, T:0.14
Consensus pattern (18 bp):
ACACCGCCGCCCGCTTCG
Found at i:1408704 original size:15 final size:15
Alignment explanation
Indices: 1408684--1408712 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1408674 AGGCGGCGGC
1408684 CGCCGCGGCCGAGGA
1 CGCCGCGGCCGAGGA
1408699 CGCCGCGGCCGAGG
1 CGCCGCGGCCGAGG
1408713 CGACCATCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.41, G:0.48, T:0.00
Consensus pattern (15 bp):
CGCCGCGGCCGAGGA
Found at i:1412328 original size:28 final size:28
Alignment explanation
Indices: 1412265--1412329 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
1412255 CGCCGGGACC
1412265 CGCGGGTGGTACAGCGCTGGTGATACAG
1 CGCGGGTGGTACAGCGCTGGTGATACAG
* * * * *
1412293 GGCTGGTGGT-CGAGGGCTGGTGGTGCAG
1 CGCGGGTGGTAC-AGCGCTGGTGATACAG
1412321 CGCGGGTGG
1 CGCGGGTGG
1412330 CATGTGCGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.11, C:0.18, G:0.52, T:0.18
Consensus pattern (28 bp):
CGCGGGTGGTACAGCGCTGGTGATACAG
Found at i:1440547 original size:12 final size:12
Alignment explanation
Indices: 1440525--1440549 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1440515 GGCGGCCGAG
1440525 GCGGCAGCCGCC
1 GCGGCAGCCGCC
1440537 GCGGCAGCCGCC
1 GCGGCAGCCGCC
1440549 G
1 G
1440550 AACGCGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.48, G:0.44, T:0.00
Consensus pattern (12 bp):
GCGGCAGCCGCC
Found at i:1457966 original size:15 final size:15
Alignment explanation
Indices: 1457946--1457975 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1457936 CGGTCTCTGA
1457946 GTGCACCGGTTCGTC
1 GTGCACCGGTTCGTC
1457961 GTGCACCGGTTCGTC
1 GTGCACCGGTTCGTC
1457976 CACAGCCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.33, G:0.33, T:0.27
Consensus pattern (15 bp):
GTGCACCGGTTCGTC
Found at i:1460157 original size:25 final size:25
Alignment explanation
Indices: 1460104--1460157 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
1460094 CGCGGTCGCC
* *
1460104 GCGGCGGCACGCGAAGCTCCGCGCC
1 GCGGCGGCACGCGAAGCTCCGCACA
* * *
1460129 GCGGCGGCACGGGGAGTTCCGCACA
1 GCGGCGGCACGCGAAGCTCCGCACA
1460154 GCGG
1 GCGG
1460158 GCGAGACGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.13, C:0.37, G:0.44, T:0.06
Consensus pattern (25 bp):
GCGGCGGCACGCGAAGCTCCGCACA
Found at i:1473560 original size:26 final size:26
Alignment explanation
Indices: 1473511--1473562 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1473501 GGCGCGCCGT
* *
1473511 CGCCGTTCCGGGGCCTGTCCGGCGTC
1 CGCCGTTCCCGGGCCTGACCGGCGTC
1473537 CGCCGTTCCCGGGCCT-ACCGGGCGTC
1 CGCCGTTCCCGGGCCTGACC-GGCGTC
1473563 GAAGGCGCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.02, C:0.44, G:0.37, T:0.17
Consensus pattern (26 bp):
CGCCGTTCCCGGGCCTGACCGGCGTC
Found at i:1486284 original size:21 final size:21
Alignment explanation
Indices: 1486245--1486284 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1486235 GACAGGTTCT
* *
1486245 GCTCCTGCTGGGCCAGCGCCC
1 GCTCCTGCAGCGCCAGCGCCC
*
1486266 GCTCCTGCAGCGCCTGCGC
1 GCTCCTGCAGCGCCAGCGC
1486285 ATAACTGTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.47, G:0.33, T:0.15
Consensus pattern (21 bp):
GCTCCTGCAGCGCCAGCGCCC
Found at i:1487377 original size:13 final size:13
Alignment explanation
Indices: 1487359--1487383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1487349 GTATTCTCGC
1487359 CGGGGTTCTTCCT
1 CGGGGTTCTTCCT
1487372 CGGGGTTCTTCC
1 CGGGGTTCTTCC
1487384 GGCGGCATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (13 bp):
CGGGGTTCTTCCT
Found at i:1490363 original size:15 final size:15
Alignment explanation
Indices: 1490345--1490374 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1490335 GCACGCAGAC
1490345 CGCGACCCAGCCGAA
1 CGCGACCCAGCCGAA
*
1490360 CGCGGCCCAGCCGAA
1 CGCGACCCAGCCGAA
1490375 GCACGGGCGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.30, T:0.00
Consensus pattern (15 bp):
CGCGACCCAGCCGAA
Found at i:1492310 original size:18 final size:18
Alignment explanation
Indices: 1492278--1492312 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1492268 CGGAGCAGGC
* *
1492278 CGACGCCGCGCAGGCCGG
1 CGACGCCGAGAAGGCCGG
1492296 CGACGCCGAGAAGGCCG
1 CGACGCCGAGAAGGCCG
1492313 CGGCCGATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.40, G:0.43, T:0.00
Consensus pattern (18 bp):
CGACGCCGAGAAGGCCGG
Found at i:1502003 original size:18 final size:18
Alignment explanation
Indices: 1501979--1502120 Score: 117
Period size: 18 Copynumber: 7.9 Consensus size: 18
1501969 GCAGCATTGC
*
1501979 CGCCGTTGCCGTTGCC-G
1 CGCCGTTGCCGCTGCCTG
*
1501996 TTGCCGTTGCCGCTGCCTG
1 -CGCCGTTGCCGCTGCCTG
1502015 CGCCGTTGCCGCTGCCTG
1 CGCCGTTGCCGCTGCCTG
* *
1502033 CGTCGGTGCCGCTGCCTG
1 CGCCGTTGCCGCTGCCTG
* * *
1502051 CGTCGGTGCCGCTGCCGG
1 CGCCGTTGCCGCTGCCTG
* * *
1502069 CGTCGGTGTCGCTGCCTG
1 CGCCGTTGCCGCTGCCTG
* * *
1502087 CGTCGGTGCCGTTGCC-G
1 CGCCGTTGCCGCTGCCTG
* *
1502104 CTGCCGGTGCCGTTGCC
1 C-GCCGTTGCCGCTGCC
1502121 GTTGCCGGTG
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
17 2 0.02
18 108 0.97
19 1 0.01
ACGTcount: A:0.00, C:0.39, G:0.37, T:0.24
Consensus pattern (18 bp):
CGCCGTTGCCGCTGCCTG
Found at i:1502012 original size:24 final size:24
Alignment explanation
Indices: 1501980--1502166 Score: 128
Period size: 24 Copynumber: 7.8 Consensus size: 24
1501970 CAGCATTGCC
* *
1501980 GCCGTTGCCGTTGCCGTTGCCGTT
1 GCCGCTGCCGGTGCCGTTGCCGTT
* * *
1502004 GCCGCTGCCTGCGCCGTTGCCGCT
1 GCCGCTGCCGGTGCCGTTGCCGTT
* *
1502028 GCCTGC-GTCGGTGCCGCTGCC--T
1 GCC-GCTGCCGGTGCCGTTGCCGTT
* * ** * *
1502050 GCGTCGGTGCCGCTGCCGGCGTCGGT
1 GC--CGCTGCCGGTGCCGTTGCCGTT
* * * * *
1502076 GTCGCTGCCTGCGTCGGTGCCGTT
1 GCCGCTGCCGGTGCCGTTGCCGTT
1502100 GCCGCTGCCGGTGCCGTTGCCGTT
1 GCCGCTGCCGGTGCCGTTGCCGTT
* *
1502124 GCCGGTGGCGGTGCCGTTGCCGTT
1 GCCGCTGCCGGTGCCGTTGCCGTT
* *
1502148 GCCGGTGGCGGTGCCGTTG
1 GCCGCTGCCGGTGCCGTTG
1502167 TCGGTGTGCG
Statistics
Matches: 126, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
22 3 0.02
23 1 0.01
24 118 0.94
25 2 0.02
26 2 0.02
ACGTcount: A:0.00, C:0.35, G:0.40, T:0.25
Consensus pattern (24 bp):
GCCGCTGCCGGTGCCGTTGCCGTT
Found at i:1502019 original size:36 final size:36
Alignment explanation
Indices: 1501979--1502151 Score: 145
Period size: 36 Copynumber: 4.8 Consensus size: 36
1501969 GCAGCATTGC
* * *
1501979 CGCCGTTGCCGTTGCCGTTGCCGTTGCCGCTGCCTG
1 CGCCGGTGCCGCTGCCGTTGCCGGTGCCGCTGCCTG
*
1502015 CGCCGTTGCCGCTGCC--TGCGTCGGTGCCGCTGCCTG
1 CGCCGGTGCCGCTGCCGTTGC--CGGTGCCGCTGCCTG
* ** * *
1502051 CGTCGGTGCCGCTGCCGGCGTCGGTGTCGCTGCCTG
1 CGCCGGTGCCGCTGCCGTTGCCGGTGCCGCTGCCTG
* * * *
1502087 CGTCGGTGCCGTTGCCGCTGCCGGTGCCGTTGCC-G
1 CGCCGGTGCCGCTGCCGTTGCCGGTGCCGCTGCCTG
* * * *
1502122 TTGCCGGTGGCGGTGCCGTTGCCGTTGCCG
1 -CGCCGGTGCCGCTGCCGTTGCCGGTGCCG
1502152 GTGGCGGTGC
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
34 3 0.03
35 1 0.01
36 108 0.96
38 1 0.01
ACGTcount: A:0.00, C:0.37, G:0.39, T:0.24
Consensus pattern (36 bp):
CGCCGGTGCCGCTGCCGTTGCCGGTGCCGCTGCCTG
Found at i:1502082 original size:54 final size:54
Alignment explanation
Indices: 1501985--1502130 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 54
1501975 TTGCCGCCGT
* * * * *
1501985 TGCCGTTGCCGTTGCCGTTGCCGCTGCCTGCGCCGTTGCCGCTGCCTGCGTCGG
1 TGCCGCTGCCGCTGCCGGTGCCGCTGCCGGCGCCGGTGCCGCTGCCTGCGTCGG
* * *
1502039 TGCCGCTGCCTGC-GTCGGTGCCGCTGCCGGCGTCGGTGTCGCTGCCTGCGTCGG
1 TGCCGCTGCC-GCTGCCGGTGCCGCTGCCGGCGCCGGTGCCGCTGCCTGCGTCGG
* * **
1502093 TGCCGTTGCCGCTGCCGGTGCCGTTGCCGTTGCCGGTG
1 TGCCGCTGCCGCTGCCGGTGCCGCTGCCGGCGCCGGTG
1502131 GCGGTGCCGT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 2 0.03
54 73 0.96
55 1 0.01
ACGTcount: A:0.00, C:0.37, G:0.38, T:0.25
Consensus pattern (54 bp):
TGCCGCTGCCGCTGCCGGTGCCGCTGCCGGCGCCGGTGCCGCTGCCTGCGTCGG
Found at i:1502121 original size:18 final size:18
Alignment explanation
Indices: 1501980--1502151 Score: 110
Period size: 18 Copynumber: 9.2 Consensus size: 18
1501970 CAGCATTGCC
* *
1501980 GCCGTTGCCGTTGCCGTT
1 GCCGTTGCCGCTGCCGGT
* *
1501998 GCCGTTGCCGCTGCCTGC
1 GCCGTTGCCGCTGCCGGT
* *
1502016 GCCGTTGCCGCTGCCTGC
1 GCCGTTGCCGCTGCCGGT
* * * *
1502034 GTCGGTGCCGCTGCCTGC
1 GCCGTTGCCGCTGCCGGT
* * *
1502052 GTCGGTGCCGCTGCCGGC
1 GCCGTTGCCGCTGCCGGT
* *
1502070 GTCGGTGTCGCTGCCTGCGTCGGT
1 G-CCGT-T-GCCG-CTGC--CGGT
1502094 GCCGTTGCCGCTGCCGGT
1 GCCGTTGCCGCTGCCGGT
*
1502112 GCCGTTGCCGTTGCCGGT
1 GCCGTTGCCGCTGCCGGT
* * * *
1502130 GGCGGTGCCGTTGCCGTT
1 GCCGTTGCCGCTGCCGGT
1502148 GCCG
1 GCCG
1502152 GTGGCGGTGC
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
18 105 0.81
19 1 0.01
20 5 0.04
21 6 0.05
22 5 0.04
23 3 0.02
24 4 0.03
ACGTcount: A:0.00, C:0.37, G:0.39, T:0.24
Consensus pattern (18 bp):
GCCGTTGCCGCTGCCGGT
Found at i:1502159 original size:6 final size:6
Alignment explanation
Indices: 1501980--1502163 Score: 80
Period size: 6 Copynumber: 30.7 Consensus size: 6
1501970 CAGCATTGCC
* * * * * * * * *
1501980 GCCGTT GCCGTT GCCGTT GCCGTT GCCGCT GCCTGC GCCGTT GCCGCT
1 GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT
* * * * * * * * * *
1502028 GCCTGC GTCGGT GCCGCT GCCTGC GTCGGT GCCGCT GCCGGC GTCGGT
1 GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT
* * * * * * * * *
1502076 GTCGCT GCCTGC GTCGGT GCCGTT GCCGCT GCCGGT GCCGTT GCCGTT
1 GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT
* * * *
1502124 GCCGGT GGCGGT GCCGTT GCCGTT GCCGGT GGCGGT GCCG
1 GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCGGT GCCG
1502164 TTGTCGGTGT
Statistics
Matches: 130, Mismatches: 48, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
6 130 1.00
ACGTcount: A:0.00, C:0.36, G:0.40, T:0.24
Consensus pattern (6 bp):
GCCGGT
Found at i:1502162 original size:18 final size:18
Alignment explanation
Indices: 1501980--1502172 Score: 92
Period size: 18 Copynumber: 11.1 Consensus size: 18
1501970 CAGCATTGCC
* *
1501980 GCCGTTGCCGTTGCCGTT
1 GCCGGTGCCGTTGCCGGT
* * * *
1501998 GCCGTTGCCGCTGCCTGC
1 GCCGGTGCCGTTGCCGGT
* * * *
1502016 GCCGTTGCCGCTGCCTGC
1 GCCGGTGCCGTTGCCGGT
* * * *
1502034 GTCGGTGCCGCTGCCTGC
1 GCCGGTGCCGTTGCCGGT
* * *
1502052 GTCGGTGCCGCTGCCGGC
1 GCCGGTGCCGTTGCCGGT
* * * * *
1502070 GTCGGTGTCGCTGCCTGC
1 GCCGGTGCCGTTGCCGGT
* *
1502088 GTCGGTGCCGTTGCCGCT
1 GCCGGTGCCGTTGCCGGT
*
1502106 GCCGGTGCCGTTGCCGTT
1 GCCGGTGCCGTTGCCGGT
1502124 GCCGGT---G--G-CGGT
1 GCCGGTGCCGTTGCCGGT
*
1502136 GCCGTTGCCGTTGCCGGT
1 GCCGGTGCCGTTGCCGGT
* *
1502154 GGCGGTGCCGTTGTCGGT
1 GCCGGTGCCGTTGCCGGT
1502172 G
1 G
1502173 TGCGCGGCGG
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
12 8 0.05
13 1 0.01
15 2 0.01
17 1 0.01
18 136 0.92
ACGTcount: A:0.00, C:0.35, G:0.40, T:0.25
Consensus pattern (18 bp):
GCCGGTGCCGTTGCCGGT
Found at i:1506389 original size:15 final size:15
Alignment explanation
Indices: 1506371--1506404 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1506361 GCCGCGTCGA
1506371 TGGGCGAGAGCTCGG
1 TGGGCGAGAGCTCGG
1506386 TGGGCGAGAGCTCGG
1 TGGGCGAGAGCTCGG
1506401 TGGG
1 TGGG
1506405 TAAGGGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.18, G:0.56, T:0.15
Consensus pattern (15 bp):
TGGGCGAGAGCTCGG
Found at i:1516494 original size:15 final size:15
Alignment explanation
Indices: 1516476--1516515 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
1516466 CGCCGAGGCC
1516476 GACGAGCAGGACCGT
1 GACGAGCAGGACCGT
1516491 GACGAGCAGGACCGT
1 GACGAGCAGGACCGT
*
1516506 GGCGAGCAGG
1 GACGAGCAGG
1516516 GCGCCGACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.45, T:0.05
Consensus pattern (15 bp):
GACGAGCAGGACCGT
Found at i:1516590 original size:12 final size:12
Alignment explanation
Indices: 1516573--1516597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1516563 AGGCGTGGTC
1516573 GTCGTGGCCGCG
1 GTCGTGGCCGCG
1516585 GTCGTGGCCGCG
1 GTCGTGGCCGCG
1516597 G
1 G
1516598 CGAGCAGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.52, T:0.16
Consensus pattern (12 bp):
GTCGTGGCCGCG
Found at i:1516723 original size:18 final size:18
Alignment explanation
Indices: 1516702--1516745 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1516692 GCCGAGGAAT
1516702 CCGCCGAGACCACCGACG
1 CCGCCGAGACCACCGACG
* * *
1516720 CCGCCGCGACCGCGGACG
1 CCGCCGAGACCACCGACG
*
1516738 CCGGCGAG
1 CCGCCGAG
1516746 GGCGAGGACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.48, G:0.36, T:0.00
Consensus pattern (18 bp):
CCGCCGAGACCACCGACG
Found at i:1520464 original size:9 final size:9
Alignment explanation
Indices: 1520452--1520477 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1520442 GGCGGCCCCG
1520452 ACGGCGGCA
1 ACGGCGGCA
1520461 ACGGCGGCA
1 ACGGCGGCA
1520470 ACGGCGGC
1 ACGGCGGC
1520478 GACGTCGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.46, T:0.00
Consensus pattern (9 bp):
ACGGCGGCA
Found at i:1525141 original size:6 final size:6
Alignment explanation
Indices: 1525130--1525191 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
1525120 CGGTGGGGCC
* * * * * *
1525130 GGTTCG GGTTCG GGTGCT GGTTCG GGTGCT GGTGCC GGTTCG GGTTCG
1 GGTTCG GGTTCG GGTTCG GGTTCG GGTTCG GGTTCG GGTTCG GGTTCG
* *
1525178 GGTGCC GGTTCG GG
1 GGTTCG GGTTCG GG
1525192 CGCTGGTGCG
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.19, G:0.52, T:0.29
Consensus pattern (6 bp):
GGTTCG
Found at i:1525153 original size:12 final size:12
Alignment explanation
Indices: 1525136--1525203 Score: 73
Period size: 12 Copynumber: 5.7 Consensus size: 12
1525126 GGCCGGTTCG
1525136 GGTTCGGGTGCT
1 GGTTCGGGTGCT
1525148 GGTTCGGGTGCT
1 GGTTCGGGTGCT
* * * *
1525160 GGTGCCGGTTCG
1 GGTTCGGGTGCT
*
1525172 GGTTCGGGTGCC
1 GGTTCGGGTGCT
*
1525184 GGTTCGGGCGCT
1 GGTTCGGGTGCT
*
1525196 GGTGCGGG
1 GGTTCGGG
1525204 CTCCGGCGCG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.00, C:0.21, G:0.53, T:0.26
Consensus pattern (12 bp):
GGTTCGGGTGCT
Found at i:1525153 original size:18 final size:18
Alignment explanation
Indices: 1525127--1525191 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
1525117 CTGCGGTGGG
1525127 GCCGGTTCGGGTTCGGGT
1 GCCGGTTCGGGTTCGGGT
* * *
1525145 GCTGGTTCGGGTGCTGGT
1 GCCGGTTCGGGTTCGGGT
1525163 GCCGGTTCGGGTTCGGGT
1 GCCGGTTCGGGTTCGGGT
1525181 GCCGGTTCGGG
1 GCCGGTTCGGG
1525192 CGCTGGTGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.00, C:0.22, G:0.51, T:0.28
Consensus pattern (18 bp):
GCCGGTTCGGGTTCGGGT
Found at i:1525174 original size:36 final size:36
Alignment explanation
Indices: 1525127--1525200 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
1525117 CTGCGGTGGG
* *
1525127 GCCGGTTCGGGTTCGGGTGCTGGTTCGGGTGCTGGT
1 GCCGGTTCGGGTTCGGGTGCCGGTTCGGGCGCTGGT
1525163 GCCGGTTCGGGTTCGGGTGCCGGTTCGGGCGCTGGT
1 GCCGGTTCGGGTTCGGGTGCCGGTTCGGGCGCTGGT
1525199 GC
1 GC
1525201 GGGCTCCGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.00, C:0.23, G:0.50, T:0.27
Consensus pattern (36 bp):
GCCGGTTCGGGTTCGGGTGCCGGTTCGGGCGCTGGT
Found at i:1525241 original size:12 final size:12
Alignment explanation
Indices: 1525224--1525251 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1525214 CTTTCGGGTT
1525224 CGGGCTCCGGCG
1 CGGGCTCCGGCG
1525236 CGGGCTCCGGCG
1 CGGGCTCCGGCG
1525248 CGGG
1 CGGG
1525252 TTGCGGCGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.39, G:0.54, T:0.07
Consensus pattern (12 bp):
CGGGCTCCGGCG
Found at i:1525251 original size:48 final size:48
Alignment explanation
Indices: 1525168--1525260 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 48
1525158 CTGGTGCCGG
** * *
1525168 TTCGGGTTCGGGTGCCGGTTCGGGCGCTGGTGCGGGCTCCGGCGCGCT
1 TTCGGGTTCGGGTGCCGGCGCGGGCGCCGGCGCGGGCTCCGGCGCGCT
* * *
1525216 TTCGGGTTCGGGCT-CCGGCGCGGGCTCCGGCGCGGGTTGCGGCGC
1 TTCGGGTTCGGG-TGCCGGCGCGGGCGCCGGCGCGGGCTCCGGCGC
1525261 CGGTTCGGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
48 36 0.97
49 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.48, T:0.20
Consensus pattern (48 bp):
TTCGGGTTCGGGTGCCGGCGCGGGCGCCGGCGCGGGCTCCGGCGCGCT
Found at i:1525258 original size:12 final size:12
Alignment explanation
Indices: 1525224--1525272 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
1525214 CTTTCGGGTT
*
1525224 CGGGCTCCGGCG
1 CGGGTTCCGGCG
*
1525236 CGGGCTCCGGCG
1 CGGGTTCCGGCG
*
1525248 CGGGTTGCGGCG
1 CGGGTTCCGGCG
* *
1525260 CCGGTTCGGGCG
1 CGGGTTCCGGCG
1525272 C
1 C
1525273 AGGTGGTGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.00, C:0.37, G:0.51, T:0.12
Consensus pattern (12 bp):
CGGGTTCCGGCG
Found at i:1536892 original size:24 final size:21
Alignment explanation
Indices: 1536839--1536879 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1536829 GAACGACGCG
*
1536839 CTGCACGCCGCCGCCGACACC
1 CTGCTCGCCGCCGCCGACACC
1536860 CTGCTCGCCGCCGCCGACAC
1 CTGCTCGCCGCCGCCGACAC
1536880 GGTGCTGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.56, G:0.24, T:0.07
Consensus pattern (21 bp):
CTGCTCGCCGCCGCCGACACC
Found at i:1547501 original size:30 final size:30
Alignment explanation
Indices: 1547465--1547641 Score: 219
Period size: 30 Copynumber: 5.9 Consensus size: 30
1547455 GGTCCGACAC
*
1547465 CGGCGACGGGCGGAGCGGTGACGGATGGAT
1 CGGCGACGGGCGGAGCGGTGACGGACGGAT
* *
1547495 CGGCGACGGGCGGAGCGGCGACGGACGGGT
1 CGGCGACGGGCGGAGCGGTGACGGACGGAT
* * *
1547525 CGGCGACGGGCGGACCGGTGTCGGGCGGAT
1 CGGCGACGGGCGGAGCGGTGACGGACGGAT
* *
1547555 CGGCGACGGGCGGAGCGGTGACGGGCGGAC
1 CGGCGACGGGCGGAGCGGTGACGGACGGAT
* * * * * *
1547585 CGGTGTCGGGCGGACCGGTGTCGGGCGGAG
1 CGGCGACGGGCGGAGCGGTGACGGACGGAT
*
1547615 CGGCGACGGGCGGAGCGGCGACGGACG
1 CGGCGACGGGCGGAGCGGTGACGGACG
1547642 CGGGAGCGTC
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 125 1.00
ACGTcount: A:0.12, C:0.25, G:0.55, T:0.07
Consensus pattern (30 bp):
CGGCGACGGGCGGAGCGGTGACGGACGGAT
Found at i:1547502 original size:15 final size:15
Alignment explanation
Indices: 1547465--1547641 Score: 131
Period size: 15 Copynumber: 11.8 Consensus size: 15
1547455 GGTCCGACAC
*
1547465 CGGCGACGGGCGGAG
1 CGGCGACGGACGGAG
* * *
1547480 CGGTGACGGATGGAT
1 CGGCGACGGACGGAG
*
1547495 CGGCGACGGGCGGAG
1 CGGCGACGGACGGAG
1547510 CGGCGACGGACGG-G
1 CGGCGACGGACGGAG
* *
1547524 TCGGCGACGGGCGGAC
1 -CGGCGACGGACGGAG
* * * *
1547540 CGGTGTCGGGCGGAT
1 CGGCGACGGACGGAG
*
1547555 CGGCGACGGGCGGAG
1 CGGCGACGGACGGAG
* * *
1547570 CGGTGACGGGCGGAC
1 CGGCGACGGACGGAG
* * * *
1547585 CGGTGTCGGGCGGAC
1 CGGCGACGGACGGAG
* * *
1547600 CGGTGTCGGGCGGAG
1 CGGCGACGGACGGAG
*
1547615 CGGCGACGGGCGGAG
1 CGGCGACGGACGGAG
1547630 CGGCGACGGACG
1 CGGCGACGGACG
1547642 CGGGAGCGTC
Statistics
Matches: 136, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
14 1 0.01
15 135 0.99
ACGTcount: A:0.12, C:0.25, G:0.55, T:0.07
Consensus pattern (15 bp):
CGGCGACGGACGGAG
Found at i:1547558 original size:60 final size:60
Alignment explanation
Indices: 1547463--1547641 Score: 259
Period size: 60 Copynumber: 3.0 Consensus size: 60
1547453 GCGGTCCGAC
* * **
1547463 ACCGGCGACGGGCGGAGCGGTGACGGATGGATCGGCGACGGGCGGAGCGGCGACGGACGG
1 ACCGGCGACGGGCGGACCGGTGTCGGGCGGATCGGCGACGGGCGGAGCGGCGACGGACGG
** * *
1547523 GTCGGCGACGGGCGGACCGGTGTCGGGCGGATCGGCGACGGGCGGAGCGGTGACGGGCGG
1 ACCGGCGACGGGCGGACCGGTGTCGGGCGGATCGGCGACGGGCGGAGCGGCGACGGACGG
* * *
1547583 ACCGGTGTCGGGCGGACCGGTGTCGGGCGGAGCGGCGACGGGCGGAGCGGCGACGGACG
1 ACCGGCGACGGGCGGACCGGTGTCGGGCGGATCGGCGACGGGCGGAGCGGCGACGGACG
1547642 CGGGAGCGTC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 104 1.00
ACGTcount: A:0.13, C:0.26, G:0.55, T:0.07
Consensus pattern (60 bp):
ACCGGCGACGGGCGGACCGGTGTCGGGCGGATCGGCGACGGGCGGAGCGGCGACGGACGG
Found at i:1547649 original size:18 final size:17
Alignment explanation
Indices: 1547465--1547662 Score: 73
Period size: 15 Copynumber: 12.9 Consensus size: 17
1547455 GGTCCGACAC
1547465 CGGCGACGG-GC-GGAG
1 CGGCGACGGAGCGGGAG
* * *
1547480 CGGTGACGGA--TGGAT
1 CGGCGACGGAGCGGGAG
1547495 CGGCGACGG-GC-GGAG
1 CGGCGACGGAGCGGGAG
*
1547510 CGGCGACGGA-CGGG-T
1 CGGCGACGGAGCGGGAG
*
1547525 CGGCGACGG-GC-GGAC
1 CGGCGACGGAGCGGGAG
* * *
1547540 CGGTGTCGG-GC-GGAT
1 CGGCGACGGAGCGGGAG
1547555 CGGCGACGG-GC-GGAG
1 CGGCGACGGAGCGGGAG
* *
1547570 CGGTGACGG-GC-GGAC
1 CGGCGACGGAGCGGGAG
* * *
1547585 CGGTGTCGG-GC-GGAC
1 CGGCGACGGAGCGGGAG
* *
1547600 CGGTGTCGG-GC-GGAG
1 CGGCGACGGAGCGGGAG
1547615 CGGCGACGG-GC-GGAG
1 CGGCGACGGAGCGGGAG
1547630 CGGCGACGGACGCGGGAG
1 CGGCGACGGA-GCGGGAG
*
1547648 CGTCG-CGGAGGCGGG
1 CGGCGACGGA-GCGGG
1547663 GTCGGCGCTC
Statistics
Matches: 152, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.01
15 129 0.85
16 2 0.01
17 11 0.07
18 8 0.05
ACGTcount: A:0.12, C:0.25, G:0.56, T:0.07
Consensus pattern (17 bp):
CGGCGACGGAGCGGGAG
Found at i:1549267 original size:30 final size:30
Alignment explanation
Indices: 1549233--1549446 Score: 227
Period size: 30 Copynumber: 7.1 Consensus size: 30
1549223 GTCGTGTGGT
1549233 GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
1 GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
* * * *
1549263 GGGCGACCGCGTGGTGGGTGGTCGTGTGGT-
1 GGGCGGCGGTGTGGTGGGTGGTGGTGT-GTC
1549293 GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
1 GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
* * * * * *
1549323 GGGCGACCGCGTGGTCGGTGGTCGTGCGGT-
1 GGGCGGCGGTGTGGTGGGTGGTGGTG-TGTC
*
1549353 GGGCGGTGGTGTGGTGGGTGGTGGTGTGTC
1 GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
* * * * *
1549383 GGGCGACCGCGTGGTCGGTGGTCGTGTAGT-
1 GGGCGGCGGTGTGGTGGGTGGTGGTGT-GTC
*
1549413 GGGCGGTGGTGTGGTGGGTGGTGGTGTGTC
1 GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
1549443 GGGC
1 GGGC
1549447 AACCACGTAG
Statistics
Matches: 145, Mismatches: 33, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
29 6 0.04
30 133 0.92
31 6 0.04
ACGTcount: A:0.02, C:0.14, G:0.59, T:0.25
Consensus pattern (30 bp):
GGGCGGCGGTGTGGTGGGTGGTGGTGTGTC
Found at i:1549285 original size:60 final size:60
Alignment explanation
Indices: 1549221--1549490 Score: 432
Period size: 60 Copynumber: 4.5 Consensus size: 60
1549211 GCGAGCTGAA
*
1549221 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTGGG
1 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
1549281 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
1 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
* *
1549341 TGGTCGTGCGGTGGGCGGTGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
1 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
* * * * * *
1549401 TGGTCGTGTAGTGGGCGGTGGTGTGGTGGGTGGTGGTGTGTCGGGCAACCACGTAGTGGG
1 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
* * *
1549461 TGGTCGTGCGGTGGGCGACCGTGTGGTGGG
1 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGG
1549491 GCGCGGTGAC
Statistics
Matches: 196, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 196 1.00
ACGTcount: A:0.03, C:0.14, G:0.57, T:0.25
Consensus pattern (60 bp):
TGGTCGTGTGGTGGGCGGCGGTGTGGTGGGTGGTGGTGTGTCGGGCGACCGCGTGGTCGG
Found at i:1549490 original size:30 final size:29
Alignment explanation
Indices: 1549221--1549490 Score: 207
Period size: 30 Copynumber: 9.0 Consensus size: 29
1549211 GCGAGCTGAA
* *
1549221 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGG
1 TGGTCGTG-GGTGGGCGACCGTGTGGTGGG
* * *
1549251 TGGTGGTGTGTCGGGCGACCGCGTGGTGGG
1 TGGTCGTGGGT-GGGCGACCGTGTGGTGGG
* *
1549281 TGGTCGTGTGGTGGGCGGCGGTGTGGTGGG
1 TGGTCGTG-GGTGGGCGACCGTGTGGTGGG
* * * *
1549311 TGGTGGTGTGTCGGGCGACCGCGTGGTCGG
1 TGGTCGTGGGT-GGGCGACCGTGTGGTGGG
***
1549341 TGGTCGTGCGGTGGGCGGTGGTGTGGTGGG
1 TGGTCGTG-GGTGGGCGACCGTGTGGTGGG
* * * *
1549371 TGGTGGTGTGTCGGGCGACCGCGTGGTCGG
1 TGGTCGTGGGT-GGGCGACCGTGTGGTGGG
* ***
1549401 TGGTCGTGTAGTGGGCGGTGGTGTGGTGGG
1 TGGTCGTG-GGTGGGCGACCGTGTGGTGGG
* * * ** *
1549431 TGGTGGTGTGTCGGGCAACCACGTAGTGGG
1 TGGTCGTGGGT-GGGCGACCGTGTGGTGGG
1549461 TGGTCGTGCGGTGGGCGACCGTGTGGTGGG
1 TGGTCGTG-GGTGGGCGACCGTGTGGTGGG
1549491 GCGCGGTGAC
Statistics
Matches: 180, Mismatches: 52, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
29 8 0.04
30 164 0.91
31 8 0.04
ACGTcount: A:0.03, C:0.14, G:0.57, T:0.25
Consensus pattern (29 bp):
TGGTCGTGGGTGGGCGACCGTGTGGTGGG
Found at i:1573245 original size:18 final size:18
Alignment explanation
Indices: 1573218--1573257 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1573208 GGCGGCATTC
*
1573218 CGGCACCGACGCGGGCTA
1 CGGCACCGACCCGGGCTA
*
1573236 CGGCATCGACCCGGGCTA
1 CGGCACCGACCCGGGCTA
1573254 CGGC
1 CGGC
1573258 GGCGGCGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.40, G:0.38, T:0.07
Consensus pattern (18 bp):
CGGCACCGACCCGGGCTA
Found at i:1573994 original size:9 final size:9
Alignment explanation
Indices: 1573982--1574025 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
1573972 GCCCCCGTCG
*
1573982 CGGTCGCTC
1 CGGTCGCCC
*
1573991 CGGTCGCTC
1 CGGTCGCCC
1574000 CGGTCGCCC
1 CGGTCGCCC
*
1574009 CCGTCGCCC
1 CGGTCGCCC
1574018 CGG-CGCCC
1 CGGTCGCCC
1574026 GCCCCCGCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 5 0.16
9 27 0.84
ACGTcount: A:0.00, C:0.55, G:0.32, T:0.14
Consensus pattern (9 bp):
CGGTCGCCC
Found at i:1574005 original size:18 final size:18
Alignment explanation
Indices: 1573970--1574025 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
1573960 GCGACGCCGA
1573970 TCGCCCCCGTCG---CGG
1 TCGCCCCCGTCGCCCCGG
* * *
1573985 TCGCTCCGGTCGCTCCGG
1 TCGCCCCCGTCGCCCCGG
1574003 TCGCCCCCGTCGCCCCGG
1 TCGCCCCCGTCGCCCCGG
1574021 -CGCCC
1 TCGCCC
1574026 GCCCCCGCGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 10 0.30
17 5 0.15
18 18 0.55
ACGTcount: A:0.00, C:0.55, G:0.30, T:0.14
Consensus pattern (18 bp):
TCGCCCCCGTCGCCCCGG
Found at i:1574041 original size:22 final size:21
Alignment explanation
Indices: 1574004--1574046 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1573994 TCGCTCCGGT
*
1574004 CGCCCCCGTCGCCCCGGCGCC
1 CGCCCCCGTCGCCCCGCCGCC
1574025 CGCCCCCG-CGGCGCCCGCCGCC
1 CGCCCCCGTC-GC-CCCGCCGCC
1574047 GCGGCCGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 10 0.53
22 8 0.42
ACGTcount: A:0.00, C:0.67, G:0.30, T:0.02
Consensus pattern (21 bp):
CGCCCCCGTCGCCCCGCCGCC
Found at i:1574057 original size:15 final size:15
Alignment explanation
Indices: 1574008--1574061 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
1573998 TCCGGTCGCC
* *
1574008 CCCGTCGCCCCGGCG
1 CCCGCCGCCGCGGCG
*
1574023 CCCGCCCCCGCGGCG
1 CCCGCCGCCGCGGCG
1574038 CCCGCCGCCGCGGCCG
1 CCCGCCGCCGCGG-CG
1574054 CCGCGCCG
1 CC-CGCCG
1574062 GTGGTGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 24 0.73
16 4 0.12
17 5 0.15
ACGTcount: A:0.00, C:0.63, G:0.35, T:0.02
Consensus pattern (15 bp):
CCCGCCGCCGCGGCG
Found at i:1576652 original size:21 final size:21
Alignment explanation
Indices: 1576610--1576653 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1576600 CGCCACGGAC
1576610 GCGCTGCGCGCCGCCGACGAG
1 GCGCTGCGCGCCGCCGACGAG
* *
1576631 GCGCTGCGGGCCGCCGAGGAG
1 GCGCTGCGCGCCGCCGACGAG
1576652 GC
1 GC
1576654 CTACGGCCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.39, G:0.48, T:0.05
Consensus pattern (21 bp):
GCGCTGCGCGCCGCCGACGAG
Found at i:1579842 original size:15 final size:15
Alignment explanation
Indices: 1579822--1579850 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1579812 GACATCACCC
1579822 GCCTGGTCGACGCGG
1 GCCTGGTCGACGCGG
1579837 GCCTGGTCGACGCG
1 GCCTGGTCGACGCG
1579851 AACTGGAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.34, G:0.45, T:0.14
Consensus pattern (15 bp):
GCCTGGTCGACGCGG
Found at i:1580534 original size:15 final size:15
Alignment explanation
Indices: 1580514--1580542 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1580504 GATCTACGAC
1580514 AACGCCACCAAGTAA
1 AACGCCACCAAGTAA
1580529 AACGCCACCAAGTA
1 AACGCCACCAAGTA
1580543 GCCGGATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.14, T:0.07
Consensus pattern (15 bp):
AACGCCACCAAGTAA
Found at i:1588095 original size:18 final size:18
Alignment explanation
Indices: 1588069--1588113 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1588059 TCGGTGCCCG
*
1588069 CGGGTACCGAGGCAGCGC
1 CGGGCACCGAGGCAGCGC
*
1588087 CGGGCACCGATGCAGCGC
1 CGGGCACCGAGGCAGCGC
1588105 CGGGCACCG
1 CGGGCACCG
1588114 GCGCGGACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.38, G:0.42, T:0.04
Consensus pattern (18 bp):
CGGGCACCGAGGCAGCGC
Found at i:1588368 original size:24 final size:24
Alignment explanation
Indices: 1588341--1588389 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1588331 ATCCGATGGC
*
1588341 GGTTC-GGCGGGCGCGGGCTCCGGT
1 GGTTCGGGCGGG-GCGGCCTCCGGT
*
1588365 GGTTCGGGCGGGGCGTCCTCCGGT
1 GGTTCGGGCGGGGCGGCCTCCGGT
1588389 G
1 G
1588390 CCGGCGGCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.00, C:0.29, G:0.53, T:0.18
Consensus pattern (24 bp):
GGTTCGGGCGGGGCGGCCTCCGGT
Found at i:1588594 original size:15 final size:12
Alignment explanation
Indices: 1588560--1588591 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1588550 CTCGAAGTCC
1588560 GGCGGCGGTAAG
1 GGCGGCGGTAAG
1588572 GGCGGCGGTAAG
1 GGCGGCGGTAAG
*
1588584 GGTGGCGG
1 GGCGGCGG
1588592 CGGCAAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.16, G:0.62, T:0.09
Consensus pattern (12 bp):
GGCGGCGGTAAG
Found at i:1594137 original size:18 final size:18
Alignment explanation
Indices: 1594114--1594148 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1594104 GAGCGCAGCC
1594114 TTCATGTC-GGTCGCCGGG
1 TTCATGTCAGG-CGCCGGG
1594132 TTCATGTCAGGCGCCGG
1 TTCATGTCAGGCGCCGG
1594149 TACCGACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.09, C:0.29, G:0.37, T:0.26
Consensus pattern (18 bp):
TTCATGTCAGGCGCCGGG
Found at i:1600425 original size:12 final size:13
Alignment explanation
Indices: 1600408--1600439 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1600398 CCGGCGAGAC
1600408 CGACGCCGA-CCT
1 CGACGCCGACCCT
1600420 CGACGCC-ACCCT
1 CGACGCCGACCCT
1600432 CGACGCCG
1 CGACGCCG
1600440 TGCTGGCCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 17 0.94
ACGTcount: A:0.16, C:0.53, G:0.25, T:0.06
Consensus pattern (13 bp):
CGACGCCGACCCT
Found at i:1605137 original size:12 final size:12
Alignment explanation
Indices: 1605120--1605146 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1605110 TCGAGAAGTG
1605120 GCGTTCGGCGGC
1 GCGTTCGGCGGC
1605132 GCGTTCGGCGGC
1 GCGTTCGGCGGC
1605144 GCG
1 GCG
1605147 GCAGTCCCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.52, T:0.15
Consensus pattern (12 bp):
GCGTTCGGCGGC
Found at i:1614800 original size:18 final size:18
Alignment explanation
Indices: 1614777--1614814 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1614767 GCGATGTCGG
*
1614777 TGCTGGTGCCGGTGGCGC
1 TGCTGGTGCCGGCGGCGC
*
1614795 TGCTGGTGGCGGCGGCGC
1 TGCTGGTGCCGGCGGCGC
1614813 TG
1 TG
1614815 GTGTATGTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.53, T:0.21
Consensus pattern (18 bp):
TGCTGGTGCCGGCGGCGC
Found at i:1629564 original size:15 final size:15
Alignment explanation
Indices: 1629534--1629572 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1629524 AAGGGGGCGT
* *
1629534 TGACCGCCGCCGACC
1 TGACCACCGTCGACC
*
1629549 TGATCACCGTCGACC
1 TGACCACCGTCGACC
1629564 TGACCACCG
1 TGACCACCG
1629573 GCGCCGCGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (15 bp):
TGACCACCGTCGACC
Found at i:1630774 original size:24 final size:21
Alignment explanation
Indices: 1630721--1630779 Score: 55
Period size: 24 Copynumber: 2.7 Consensus size: 21
1630711 CCACGACGCG
*
1630721 GCCCACCACCACGGCACCCGC
1 GCCCACCACCACGGCACCCCC
* *
1630742 GTCCGCCACCACGAGCATCACCCC
1 GCCCACCACCACG-GCA-C-CCCC
*
1630766 GCCCACCACGACGG
1 GCCCACCACCACGG
1630780 TCGAACCGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 11 0.38
22 3 0.10
23 2 0.07
24 13 0.45
ACGTcount: A:0.20, C:0.56, G:0.20, T:0.03
Consensus pattern (21 bp):
GCCCACCACCACGGCACCCCC
Found at i:1630841 original size:18 final size:18
Alignment explanation
Indices: 1630818--1630882 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
1630808 CGCCGCGCCC
*
1630818 GCCCCGGCACCGCAGCAG
1 GCCCCGGCACCCCAGCAG
*
1630836 GCCCCGGCCCCCCAGCAG
1 GCCCCGGCACCCCAGCAG
* *
1630854 GCGCCGGCGCCCCAGCAG
1 GCCCCGGCACCCCAGCAG
*
1630872 GCCCCCGCACC
1 GCCCCGGCACC
1630883 GCAACCGGCG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.12, C:0.57, G:0.31, T:0.00
Consensus pattern (18 bp):
GCCCCGGCACCCCAGCAG
Found at i:1630891 original size:48 final size:47
Alignment explanation
Indices: 1630839--1630938 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 47
1630829 GCAGCAGGCC
*
1630839 CCGGCCCCCCAGCAGGCGCCGGCGCCC-CAGCAGGCCCCCGCACCGCAA
1 CCGGCCCCCCAGCAGGCGCC--CACCCACAGCAGGCCCCCGCACCGCAA
* * * *
1630887 CCGGCGCCGCAGCAGGCGCCCACCCAGCAGCAGGCCCCCGCGCCGCAG
1 CCGGCCCCCCAGCAGGCGCCCACCCA-CAGCAGGCCCCCGCACCGCAA
1630935 CCGG
1 CCGG
1630939 AACCGCCGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
46 4 0.09
48 41 0.91
ACGTcount: A:0.14, C:0.54, G:0.32, T:0.00
Consensus pattern (47 bp):
CCGGCCCCCCAGCAGGCGCCCACCCACAGCAGGCCCCCGCACCGCAA
Found at i:1630934 original size:18 final size:18
Alignment explanation
Indices: 1630827--1630935 Score: 70
Period size: 18 Copynumber: 6.4 Consensus size: 18
1630817 CGCCCCGGCA
* *
1630827 CCGCAGCAGGCCCCGGCC
1 CCGCAGCAGGCCCCCGCG
* * *
1630845 CCCCAGCAGGCGCCGGCG
1 CCGCAGCAGGCCCCCGCG
* *
1630863 CCCCAGCAGGCCCCCGCA
1 CCGCAGCAGGCCCCCGCG
*
1630881 CCGCA--A----CCGGCG
1 CCGCAGCAGGCCCCCGCG
* *
1630893 CCGCAGCAGGCGCCCAC-
1 CCGCAGCAGGCCCCCGCG
1630910 CCAGCAGCAGGCCCCCGCG
1 CC-GCAGCAGGCCCCCGCG
1630929 CCGCAGC
1 CCGCAGC
1630936 CGGAACCGCC
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
12 9 0.13
14 1 0.01
16 1 0.01
17 2 0.03
18 55 0.79
19 2 0.03
ACGTcount: A:0.15, C:0.54, G:0.31, T:0.00
Consensus pattern (18 bp):
CCGCAGCAGGCCCCCGCG
Found at i:1639738 original size:22 final size:22
Alignment explanation
Indices: 1639713--1639772 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 22
1639703 CGGTGCTGCC
1639713 CGGCCG-CGACGCGGCTGGTGCA
1 CGGCCGCCG-CGCGGCTGGTGCA
*
1639735 CGGCCGCCGCACGGCTGGTGCA
1 CGGCCGCCGCGCGGCTGGTGCA
1639757 CGGCCGCCGCGCGGCT
1 CGGCCGCCGCGCGGCT
1639773 ACGGATAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.07, C:0.42, G:0.43, T:0.08
Consensus pattern (22 bp):
CGGCCGCCGCGCGGCTGGTGCA
Found at i:1639820 original size:15 final size:15
Alignment explanation
Indices: 1639800--1639830 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1639790 ATCCTTAGTG
1639800 TCGGCTGCACACTAT
1 TCGGCTGCACACTAT
1639815 TCGGCTGCACACTAT
1 TCGGCTGCACACTAT
1639830 T
1 T
1639831 GCATTGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (15 bp):
TCGGCTGCACACTAT
Found at i:1644368 original size:15 final size:15
Alignment explanation
Indices: 1644322--1644360 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1644312 AGGAGCGCGG
*
1644322 GCCGAAACCCCCGCC
1 GCCGAAACCACCGCC
*
1644337 CCCGAAACCACCGCC
1 GCCGAAACCACCGCC
1644352 GCCGAAACC
1 GCCGAAACC
1644361 TCCACCGCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.56, G:0.18, T:0.00
Consensus pattern (15 bp):
GCCGAAACCACCGCC
Found at i:1647830 original size:25 final size:25
Alignment explanation
Indices: 1647793--1647840 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1647783 GTGGGACGTC
*
1647793 GCCGGTTGCGACGCCTCCCCACGGT
1 GCCGGTTGCGACGCATCCCCACGGT
*
1647818 GCCGGTTGTGACGCATCCCCACG
1 GCCGGTTGCGACGCATCCCCACG
1647841 ACACAGCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.10, C:0.42, G:0.31, T:0.17
Consensus pattern (25 bp):
GCCGGTTGCGACGCATCCCCACGGT
Found at i:1652446 original size:18 final size:18
Alignment explanation
Indices: 1652425--1652460 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1652415 TCGCCCAGAT
1652425 CAAGGACAACGCCACCCG
1 CAAGGACAACGCCACCCG
* *
1652443 CAAGGCCTACGCCACCCG
1 CAAGGACAACGCCACCCG
1652461 GCTGGCCGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.47, G:0.22, T:0.03
Consensus pattern (18 bp):
CAAGGACAACGCCACCCG
Found at i:1663211 original size:33 final size:35
Alignment explanation
Indices: 1663154--1663247 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 35
1663144 TGGATCGGAC
* *
1663154 ACGGGGTGACGCCGATGTCACCCCG-CC-ACT-CA
1 ACGGGGCGACGCCTATGTCACCCCGCCCAACTCCA
1663186 ACGGGGCGACGCCTAGTGTCACCCCGCCCAACTCCA
1 ACGGGGCGACGCCTA-TGTCACCCCGCCCAACTCCA
* *
1663222 ACGAGGCGACGTCTTATGTCACCCCG
1 ACGGGGCGACG-CCTATGTCACCCCG
1663248 TTGCACCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.25
33 10 0.19
34 2 0.04
35 3 0.06
36 22 0.42
37 3 0.06
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.14
Consensus pattern (35 bp):
ACGGGGCGACGCCTATGTCACCCCGCCCAACTCCA
Found at i:1666511 original size:48 final size:48
Alignment explanation
Indices: 1666455--1666636 Score: 328
Period size: 48 Copynumber: 3.8 Consensus size: 48
1666445 CGCGCACCTC
1666455 GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGGCCCAGGTGGG
1 GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGGCCCAGGTGGG
1666503 GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGGCCCAGGTGGG
1 GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGGCCCAGGTGGG
* *
1666551 GGCCCAGGTGTGGGACCAGGTGTGGGCCCAGGTGCGGGCCCAGGTGGG
1 GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGGCCCAGGTGGG
* *
1666599 GGCCCAGGTGCGGGCCCAGGTGTGGGACCAGGTGTGGG
1 GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGG
1666637 ACTGGTGCAC
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.12, C:0.23, G:0.52, T:0.14
Consensus pattern (48 bp):
GGCCCAGGTGTGGGACCAGGTGTGGGACCAGGTGTGGGCCCAGGTGGG
Found at i:1666638 original size:12 final size:12
Alignment explanation
Indices: 1666455--1666636 Score: 265
Period size: 12 Copynumber: 15.2 Consensus size: 12
1666445 CGCGCACCTC
1666455 GGCCCAGGTGTG
1 GGCCCAGGTGTG
*
1666467 GGACCAGGTGTG
1 GGCCCAGGTGTG
*
1666479 GGACCAGGTGTG
1 GGCCCAGGTGTG
*
1666491 GGCCCAGGTGGG
1 GGCCCAGGTGTG
1666503 GGCCCAGGTGTG
1 GGCCCAGGTGTG
*
1666515 GGACCAGGTGTG
1 GGCCCAGGTGTG
*
1666527 GGACCAGGTGTG
1 GGCCCAGGTGTG
*
1666539 GGCCCAGGTGGG
1 GGCCCAGGTGTG
1666551 GGCCCAGGTGTG
1 GGCCCAGGTGTG
*
1666563 GGACCAGGTGTG
1 GGCCCAGGTGTG
*
1666575 GGCCCAGGTGCG
1 GGCCCAGGTGTG
*
1666587 GGCCCAGGTGGG
1 GGCCCAGGTGTG
*
1666599 GGCCCAGGTGCG
1 GGCCCAGGTGTG
1666611 GGCCCAGGTGTG
1 GGCCCAGGTGTG
*
1666623 GGACCAGGTGTG
1 GGCCCAGGTGTG
1666635 GG
1 GG
1666637 ACTGGTGCAC
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 155 1.00
ACGTcount: A:0.12, C:0.23, G:0.52, T:0.14
Consensus pattern (12 bp):
GGCCCAGGTGTG
Found at i:1667350 original size:11 final size:11
Alignment explanation
Indices: 1667321--1667350 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
1667311 CCGCCGAGGG
1667321 ACGCCGCCTCT
1 ACGCCGCCTCT
1667332 ACGCCCGCCTCT
1 ACG-CCGCCTCT
1667344 ACGCCGC
1 ACGCCGC
1667351 GGTCCTCGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.57, G:0.20, T:0.13
Consensus pattern (11 bp):
ACGCCGCCTCT
Found at i:1699984 original size:12 final size:12
Alignment explanation
Indices: 1699969--1699993 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1699959 CGCGCAGGCT
1699969 GCCGCGAACGCG
1 GCCGCGAACGCG
1699981 GCCGCGAACGCG
1 GCCGCGAACGCG
1699993 G
1 G
1699994 AGAACCTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.40, G:0.44, T:0.00
Consensus pattern (12 bp):
GCCGCGAACGCG
Found at i:1712469 original size:15 final size:15
Alignment explanation
Indices: 1712451--1712481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1712441 GGACGGCTCG
*
1712451 GTCGTCGGTGAGGGT
1 GTCGCCGGTGAGGGT
1712466 GTCGCCGGTGAGGGT
1 GTCGCCGGTGAGGGT
1712481 G
1 G
1712482 GCGGTCCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.16, G:0.55, T:0.23
Consensus pattern (15 bp):
GTCGCCGGTGAGGGT
Found at i:1721169 original size:20 final size:22
Alignment explanation
Indices: 1721132--1721173 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1721122 GCGCGGGCCC
1721132 CGACCGGCGCTGCTCGGCCGCCA
1 CGACCGGCGC-GCTCGGCCGCCA
1721155 CGACCGGCG-GC-CGGCCGCC
1 CGACCGGCGCGCTCGGCCGCC
1721174 TGGCTGGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
23 9 0.47
ACGTcount: A:0.07, C:0.50, G:0.38, T:0.05
Consensus pattern (22 bp):
CGACCGGCGCGCTCGGCCGCCA
Found at i:1724970 original size:18 final size:19
Alignment explanation
Indices: 1724933--1724970 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1724923 GATCAACTCG
* *
1724933 TGTTCGTCCTTGGCGCCCT
1 TGTTCGTCCTCGGCGACCT
1724952 TGTTCG-CCTCGGCGACCT
1 TGTTCGTCCTCGGCGACCT
1724970 T
1 T
1724971 CGACAGCCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.03, C:0.37, G:0.26, T:0.34
Consensus pattern (19 bp):
TGTTCGTCCTCGGCGACCT
Found at i:1726944 original size:24 final size:24
Alignment explanation
Indices: 1726917--1726966 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
1726907 TGCGGTGGGG
1726917 GCAGCAGTTGTGGCGGCGGAAGCA
1 GCAGCAGTTGTGGCGGCGGAAGCA
* *
1726941 GCAGCAGTTGTGGCGGTGGGAGCA
1 GCAGCAGTTGTGGCGGCGGAAGCA
1726965 GC
1 GC
1726967 TGCGGCGGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.48, T:0.14
Consensus pattern (24 bp):
GCAGCAGTTGTGGCGGCGGAAGCA
Found at i:1726964 original size:21 final size:21
Alignment explanation
Indices: 1726908--1726966 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 21
1726898 GGTAGCAGCT
*
1726908 GCGGTGGGGGCAGCAGTTGTG
1 GCGGTGGGAGCAGCAGTTGTG
*
1726929 GCGGCGGAAGCAGCAGCAGTTGTG
1 GCGGTGG--G-AGCAGCAGTTGTG
1726953 GCGGTGGGAGCAGC
1 GCGGTGGGAGCAGC
1726967 TGCGGCGGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 1 0.03
24 18 0.56
ACGTcount: A:0.15, C:0.19, G:0.53, T:0.14
Consensus pattern (21 bp):
GCGGTGGGAGCAGCAGTTGTG
Found at i:1737120 original size:14 final size:14
Alignment explanation
Indices: 1737101--1737142 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
1737091 CCAGCCGCGG
1737101 CCCGCCTGAATGTC
1 CCCGCCTGAATGTC
1737115 CCCGCCTGAATGTC
1 CCCGCCTGAATGTC
1737129 CCCGCCTGAATGTC
1 CCCGCCTGAATGTC
1737143 ACTGGGTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.14, C:0.43, G:0.21, T:0.21
Consensus pattern (14 bp):
CCCGCCTGAATGTC
Found at i:1744192 original size:17 final size:17
Alignment explanation
Indices: 1744167--1744211 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
1744157 CCGCCGAGGC
*
1744167 CGCGCCCGCCGCGAGCAA
1 CGCG-CCGCCGCGAACAA
1744185 CGCGCCG-C-CGAACAA
1 CGCGCCGCCGCGAACAA
1744200 CGCG-CGCCGCGA
1 CGCGCCGCCGCGA
1744212 CACGCCGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 4 0.17
17 3 0.12
18 4 0.17
ACGTcount: A:0.18, C:0.49, G:0.33, T:0.00
Consensus pattern (17 bp):
CGCGCCGCCGCGAACAA
Found at i:1749927 original size:24 final size:24
Alignment explanation
Indices: 1749826--1749927 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 24
1749816 CGGCCCGTCG
1749826 CGGCAGGCCC-GTCGGTGCCCGT-A
1 CGGC-GGCCCGGTCGGTGCCCGTGA
*
1749849 GCGGCGGCCCGGTCGGT-CCCGCTGC
1 -CGGCGGCCCGGTCGGTGCCCG-TGA
* *
1749874 CGGCGGCCTGGT-GAGTCCCCCG-GA
1 CGGCGGCCCGGTCG-GT-GCCCGTGA
* *
1749898 CAGCGGCCCGGTCGGTGCCTGTGA
1 CGGCGGCCCGGTCGGTGCCCGTGA
1749922 CGGCGG
1 CGGCGG
1749928 TGCGATCGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
23 13 0.21
24 44 0.71
25 1 0.02
26 4 0.06
ACGTcount: A:0.06, C:0.38, G:0.43, T:0.13
Consensus pattern (24 bp):
CGGCGGCCCGGTCGGTGCCCGTGA
Found at i:1750015 original size:13 final size:13
Alignment explanation
Indices: 1749997--1750021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1749987 CCCGAGGCAT
1749997 GGCGGGACGGGCC
1 GGCGGGACGGGCC
1750010 GGCGGGACGGGC
1 GGCGGGACGGGC
1750022 GGTGCCGGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.64, T:0.00
Consensus pattern (13 bp):
GGCGGGACGGGCC
Found at i:1766771 original size:24 final size:26
Alignment explanation
Indices: 1766725--1766772 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
1766715 CGCCCGGCAC
*
1766725 GGGCGCGCCGCGCTGGCGGTGGTGCA
1 GGGCGCGCCGCGCTGGCGATGGTGCA
*
1766751 GGGCGC-CCG-GCTGGTGATGGTG
1 GGGCGCGCCGCGCTGGCGATGGTG
1766773 GTCAGCGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 3 0.15
26 6 0.30
ACGTcount: A:0.04, C:0.27, G:0.54, T:0.15
Consensus pattern (26 bp):
GGGCGCGCCGCGCTGGCGATGGTGCA
Found at i:1786917 original size:15 final size:15
Alignment explanation
Indices: 1786897--1786943 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1786887 TCGGCGTCGC
1786897 GCCGGGCGAACCGAG
1 GCCGGGCGAACCGAG
* **
1786912 GCCGGGAGCCCCGAG
1 GCCGGGCGAACCGAG
*
1786927 ACCGGGCGAACCGAG
1 GCCGGGCGAACCGAG
1786942 GC
1 GC
1786944 TCGGAGTGCT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.19, C:0.36, G:0.45, T:0.00
Consensus pattern (15 bp):
GCCGGGCGAACCGAG
Found at i:1787036 original size:15 final size:15
Alignment explanation
Indices: 1787012--1787041 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1787002 GGCCGAGGGG
*
1787012 ACCGTGCTCTGCGGC
1 ACCGTACTCTGCGGC
1787027 ACCGTACTCTGCGGC
1 ACCGTACTCTGCGGC
1787042 TCGCTGCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (15 bp):
ACCGTACTCTGCGGC
Found at i:1787187 original size:15 final size:16
Alignment explanation
Indices: 1787161--1787193 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1787151 TGTTCGGATT
1787161 CCCGCTCGGATTCGTG
1 CCCGCTCGGATTCGTG
1787177 CCCGC-CGGATTCGTG
1 CCCGCTCGGATTCGTG
1787192 CC
1 CC
1787194 GGGTGTCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.06, C:0.42, G:0.30, T:0.21
Consensus pattern (16 bp):
CCCGCTCGGATTCGTG
Found at i:1809944 original size:13 final size:13
Alignment explanation
Indices: 1809926--1809950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1809916 GTGCTGCCGT
1809926 GGGCCACCAGCAA
1 GGGCCACCAGCAA
1809939 GGGCCACCAGCA
1 GGGCCACCAGCA
1809951 CTCGGCGCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.32, T:0.00
Consensus pattern (13 bp):
GGGCCACCAGCAA
Found at i:1826362 original size:99 final size:98
Alignment explanation
Indices: 1826189--1826679 Score: 666
Period size: 99 Copynumber: 5.0 Consensus size: 98
1826179 ATCCGGCAGT
* *
1826189 GCAAGCTCGCCCGGACGCGGCGACCGACCAGCCGGG--CGATGCCGCAGCTCCCAGGAGCGGCCC
1 GCAAGCTCG-CCGGACGCGGCGCCCGACCAGCCGGGAAC-A-ACCGCAGCTCCCAGGAGCGGCCC
* *
1826252 GAATTCGAAGCCGGGCACGCCGCAACCGGCAGGCCC
63 GAATCCGAAGCCGGGCATGCCGCAACCGGCAGGCCC
* * *
1826288 GCAAGCTCGCGCGCACGCGGCGACCGACCAGCCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGA
1 GCAAGCTCGC-CGGACGCGGCGCCCGACCAGCCGGGAACAACCGCAGCTCCCAGGAGCGGCCCGA
*
1826353 ATCCTAAGCCGGGCATGCCGCAACCGGCAGGCCC
65 ATCCGAAGCCGGGCATGCCGCAACCGGCAGGCCC
* * * *
1826387 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGAC-GCCGCAGCTCCCAGGAGCGGACCG
1 GCAAGCTCGCC-GGACGCGGCGCCCGACCAGCCGGG-AACAACCGCAGCTCCCAGGAGCGGCCCG
* ** *
1826451 AAGCCGAAGCCGGGTGTACCGCAACCGGCAGGCCC
64 AATCCGAAGCCGGGCATGCCGCAACCGGCAGGCCC
* *
1826486 GCAAGCTCGCCCGGACGCGGCGCCCGACGAGCCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGA
1 GCAAGCTCG-CCGGACGCGGCGCCCGACCAGCCGGGAACAACCGCAGCTCCCAGGAGCGGCCCGA
*
1826551 ATCCTAAGCCGGGCATGCCGCAACCGGCAGGCCC
65 ATCCGAAGCCGGGCATGCCGCAACCGGCAGGCCC
* *
1826585 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGAC-ACCGCAGCTCCCAGGAGCGGCCCG
1 GCAAGCTCGCC-GGACGCGGCGCCCGACCAGCCGGG-AACAACCGCAGCTCCCAGGAGCGGCCCG
* *
1826649 AATCCGGAGCCGGGCGTGCCGCAACCGGCAG
64 AATCCGAAGCCGGGCATGCCGCAACCGGCAG
1826680 CCGAGTCGAG
Statistics
Matches: 347, Mismatches: 36, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
98 6 0.02
99 333 0.96
100 7 0.02
101 1 0.00
ACGTcount: A:0.19, C:0.42, G:0.35, T:0.05
Consensus pattern (98 bp):
GCAAGCTCGCCGGACGCGGCGCCCGACCAGCCGGGAACAACCGCAGCTCCCAGGAGCGGCCCGAA
TCCGAAGCCGGGCATGCCGCAACCGGCAGGCCC
Found at i:1826527 original size:198 final size:198
Alignment explanation
Indices: 1826189--1826679 Score: 829
Period size: 198 Copynumber: 2.5 Consensus size: 198
1826179 ATCCGGCAGT
* * * *
1826189 GCAAGCTCGCCCGGACGCGGCGACCGACCAGCCGGGCGATGCCGCAGCTCCCAGGAGCGGCCCGA
1 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGACGCCGCAGCTCCCAGGAGCGGCCCGA
* ** *
1826254 ATTCGAAGCCGGGCACGCCGCAACCGGCAGGCCCGCAAGCTCGCGCGCACGCGGCGACCGACCAG
66 ATCCGAAGCCGGGCGTGCCGCAACCGGCAGGCCCGCAAGCTCGCCCGCACGCGGCGACCGACCAG
1826319 CCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGAATCCTAAGCCGGGCATGCCGCAACCGGCAGG
131 CCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGAATCCTAAGCCGGGCATGCCGCAACCGGCAGG
1826384 CCC
196 CCC
*
1826387 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGACGCCGCAGCTCCCAGGAGCGGACCGA
1 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGACGCCGCAGCTCCCAGGAGCGGCCCGA
* * * * * *
1826452 AGCCGAAGCCGGGTGTACCGCAACCGGCAGGCCCGCAAGCTCGCCCGGACGCGGCGCCCGACGAG
66 ATCCGAAGCCGGGCGTGCCGCAACCGGCAGGCCCGCAAGCTCGCCCGCACGCGGCGACCGACCAG
1826517 CCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGAATCCTAAGCCGGGCATGCCGCAACCGGCAGG
131 CCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGAATCCTAAGCCGGGCATGCCGCAACCGGCAGG
1826582 CCC
196 CCC
*
1826585 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGACACCGCAGCTCCCAGGAGCGGCCCGA
1 GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGACGCCGCAGCTCCCAGGAGCGGCCCGA
*
1826650 ATCCGGAGCCGGGCGTGCCGCAACCGGCAG
66 ATCCGAAGCCGGGCGTGCCGCAACCGGCAG
1826680 CCGAGTCGAG
Statistics
Matches: 272, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
198 272 1.00
ACGTcount: A:0.19, C:0.42, G:0.35, T:0.05
Consensus pattern (198 bp):
GCAAGCTCGCCTGGACGCCGCGCCCGACCAGCCGGGCGACGCCGCAGCTCCCAGGAGCGGCCCGA
ATCCGAAGCCGGGCGTGCCGCAACCGGCAGGCCCGCAAGCTCGCCCGCACGCGGCGACCGACCAG
CCGGGAACAACCGCAGCTCCCGGGAGCGGCCCGAATCCTAAGCCGGGCATGCCGCAACCGGCAGG
CCC
Found at i:1842742 original size:18 final size:18
Alignment explanation
Indices: 1842715--1842770 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
1842705 CTTGGGTGCG
1842715 GGTGCGGGCTCGGGCTTC
1 GGTGCGGGCTCGGGCTTC
* *
1842733 GGTTCGGGCTTC-GGCTCC
1 GGTGCGGGC-TCGGGCTTC
1842751 GGTGCGGGCTCGGGCTTC
1 GGTGCGGGCTCGGGCTTC
1842769 GG
1 GG
1842771 CTCCGGTGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.00, C:0.29, G:0.48, T:0.23
Consensus pattern (18 bp):
GGTGCGGGCTCGGGCTTC
Found at i:1842748 original size:24 final size:24
Alignment explanation
Indices: 1842736--1842797 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
1842726 GGGCTTCGGT
1842736 TCGGGCTTCGGCTCCGGTGCGGGC
1 TCGGGCTTCGGCTCCGGTGCGGGC
1842760 TCGGGCTTCGGCTCCGGTGCGGGC
1 TCGGGCTTCGGCTCCGGTGCGGGC
*
1842784 TCCGGCTTCGGCTC
1 TCGGGCTTCGGCTC
1842798 GGCCTTGGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.00, C:0.35, G:0.42, T:0.23
Consensus pattern (24 bp):
TCGGGCTTCGGCTCCGGTGCGGGC
Found at i:1842785 original size:36 final size:36
Alignment explanation
Indices: 1842715--1842818 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
1842705 CTTGGGTGCG
* * *
1842715 GGTGCGGGCTCGGGCTTCGGTTCGGGCTTC-GGCTCC
1 GGTGCGGGCTCGGGCTTCGGCTCCGG-TGCGGGCTCC
1842751 GGTGCGGGCTCGGGCTTCGGCTCCGGTGCGGGCTCC
1 GGTGCGGGCTCGGGCTTCGGCTCCGGTGCGGGCTCC
* * *
1842787 GGCTTC-GGCTCGGCCTT-GGTCTCCGGCGCGGG
1 GG-TGCGGGCTCGGGCTTCGG-CTCCGGTGCGGG
1842819 GGCCGGGGCG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
35 4 0.07
36 53 0.90
37 2 0.03
ACGTcount: A:0.00, C:0.33, G:0.45, T:0.22
Consensus pattern (36 bp):
GGTGCGGGCTCGGGCTTCGGCTCCGGTGCGGGCTCC
Found at i:1842789 original size:18 final size:18
Alignment explanation
Indices: 1842715--1842790 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
1842705 CTTGGGTGCG
* *
1842715 GGTGCGGGCTCGGGCTTC
1 GGTGCGGGCTCCGGCTCC
* *
1842733 GGTTCGGGCTTCGGCTCC
1 GGTGCGGGCTCCGGCTCC
1842751 GGTGCGGGCTCGGGCTTCGGCTCC
1 GGTGCGGGCT----C--CGGCTCC
1842775 GGTGCGGGCTCCGGCT
1 GGTGCGGGCTCCGGCT
1842791 TCGGCTCGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
18 28 0.61
20 1 0.02
24 17 0.37
ACGTcount: A:0.00, C:0.32, G:0.46, T:0.22
Consensus pattern (18 bp):
GGTGCGGGCTCCGGCTCC
Found at i:1842796 original size:12 final size:12
Alignment explanation
Indices: 1842721--1842797 Score: 68
Period size: 12 Copynumber: 6.4 Consensus size: 12
1842711 TGCGGGTGCG
*
1842721 GGCTCGGGCTTC
1 GGCTCCGGCTTC
* *
1842733 GGTTCGGGCTTC
1 GGCTCCGGCTTC
*
1842745 GGCTCCGG-TGC
1 GGCTCCGGCTTC
*
1842756 GGGCTCGGGCTTC
1 -GGCTCCGGCTTC
*
1842769 GGCTCCGG-TGC
1 GGCTCCGGCTTC
1842780 GGGCTCCGGCTTC
1 -GGCTCCGGCTTC
1842793 GGCTC
1 GGCTC
1842798 GGCCTTGGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
11 4 0.08
12 44 0.85
13 4 0.08
ACGTcount: A:0.00, C:0.34, G:0.43, T:0.23
Consensus pattern (12 bp):
GGCTCCGGCTTC
Found at i:1843215 original size:15 final size:15
Alignment explanation
Indices: 1843178--1843217 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
1843168 GCGGACTCCT
*
1843178 CGGCGGGAGCTTCGG
1 CGGCGGGGGCTTCGG
1843193 CGGCGGGGGCTTCGG
1 CGGCGGGGGCTTCGG
*
1843208 GGGCGGGGGC
1 CGGCGGGGGC
1843218 GGATTCGGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.25, G:0.62, T:0.10
Consensus pattern (15 bp):
CGGCGGGGGCTTCGG
Found at i:1868212 original size:24 final size:24
Alignment explanation
Indices: 1868185--1868237 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1868175 AGATGGCCCC
* *
1868185 GCCGCCGTGGTCGGCGCAGGAGCT
1 GCCGCCGTGGTCAGCGCAGCAGCT
*
1868209 GCCGCCGTGGTCAGCGCAGCAGGT
1 GCCGCCGTGGTCAGCGCAGCAGCT
1868233 GCCGC
1 GCCGC
1868238 AGCCGGGCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.09, C:0.36, G:0.43, T:0.11
Consensus pattern (24 bp):
GCCGCCGTGGTCAGCGCAGCAGCT
Found at i:1913074 original size:21 final size:21
Alignment explanation
Indices: 1913024--1913085 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1913014 CCCGCGGTCC
1913024 CCGCCCCGG-CGCCCGCGCCG
1 CCGCCCCGGTCGCCCGCGCCG
*
1913044 CTGCCGCCGGTCG-CCGCGCCG
1 CCGCC-CCGGTCGCCCGCGCCG
1913065 CCGTCCCCGGT-GCCCGGCGCC
1 CCG-CCCCGGTCGCCC-GCGCC
1913086 CCGGCGCCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 5 0.14
21 21 0.60
22 9 0.26
ACGTcount: A:0.00, C:0.58, G:0.35, T:0.06
Consensus pattern (21 bp):
CCGCCCCGGTCGCCCGCGCCG
Found at i:1917067 original size:15 final size:15
Alignment explanation
Indices: 1917043--1917101 Score: 100
Period size: 15 Copynumber: 3.9 Consensus size: 15
1917033 ACAGTGGGTG
*
1917043 CCGAACGAACGGGCA
1 CCGAAAGAACGGGCA
1917058 CCGAAAGAACGGGCA
1 CCGAAAGAACGGGCA
1917073 CCGAAAGAACGGGCA
1 CCGAAAGAACGGGCA
*
1917088 CCGAACGAACGGGC
1 CCGAAAGAACGGGC
1917102 TCGGAAGAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.36, C:0.31, G:0.34, T:0.00
Consensus pattern (15 bp):
CCGAAAGAACGGGCA
Found at i:1917083 original size:30 final size:29
Alignment explanation
Indices: 1917043--1917118 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
1917033 ACAGTGGGTG
*
1917043 CCGAACGAACGGGCACCGAAAGAACGGGC
1 CCGAAAGAACGGGCACCGAAAGAACGGGC
*
1917072 ACCGAAAGAACGGGCACCGAACGAACGGGC
1 -CCGAAAGAACGGGCACCGAAAGAACGGGC
* *
1917102 TCGGAAGAAGCGGGCAC
1 CCGAAAGAA-CGGGCAC
1917119 GGACGATGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 7 0.17
30 34 0.83
ACGTcount: A:0.34, C:0.29, G:0.36, T:0.01
Consensus pattern (29 bp):
CCGAAAGAACGGGCACCGAAAGAACGGGC
Found at i:1929590 original size:15 final size:15
Alignment explanation
Indices: 1929570--1929612 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1929560 GAGCGCGCCG
1929570 GCTACGGCGCCGATC
1 GCTACGGCGCCGATC
**
1929585 GCTACGGCGAAGATC
1 GCTACGGCGCCGATC
* *
1929600 GTTACAGCGCCGA
1 GCTACGGCGCCGA
1929613 CCGTTTCGGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (15 bp):
GCTACGGCGCCGATC
Done.