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 8 of 7
Found at i:5341570 original size:15 final size:14
Alignment explanation
Indices: 5341550--5341585 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
5341540 GGTCCGACAT
5341550 GGCCGCGGCGAGCG
1 GGCCGCGGCGAGCG
*
5341564 CGGCCGCGTCGAGCG
1 -GGCCGCGGCGAGCG
5341579 GGCCGCG
1 GGCCGCG
5341586 CAGGCGCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.06, C:0.39, G:0.53, T:0.03
Consensus pattern (14 bp):
GGCCGCGGCGAGCG
Found at i:5368607 original size:23 final size:24
Alignment explanation
Indices: 5368577--5368628 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
5368567 CCAGTTCTGA
*
5368577 GCGGCGCCCGGCTTCCGG-CCCG-C
1 GCGGCGCCCGGCAT-CGGCCCCGCC
5368600 GCGGCGCCCGGCATCGGCCCCGCC
1 GCGGCGCCCGGCATCGGCCCCGCC
5368624 GCGGC
1 GCGGC
5368629 ACTCAGCGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 17 0.65
24 6 0.23
ACGTcount: A:0.02, C:0.52, G:0.40, T:0.06
Consensus pattern (24 bp):
GCGGCGCCCGGCATCGGCCCCGCC
Found at i:5369082 original size:21 final size:21
Alignment explanation
Indices: 5369053--5369094 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5369043 TACCGCTCCA
5369053 CCATCTCCCGCTGCGCGTCGG
1 CCATCTCCCGCTGCGCGTCGG
*
5369074 CCATTTCCCGCTGCGCGTCGG
1 CCATCTCCCGCTGCGCGTCGG
5369095 GGTCCCTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.45, G:0.29, T:0.21
Consensus pattern (21 bp):
CCATCTCCCGCTGCGCGTCGG
Found at i:5372803 original size:16 final size:16
Alignment explanation
Indices: 5372782--5372843 Score: 124
Period size: 16 Copynumber: 3.9 Consensus size: 16
5372772 GGCCCGGGCC
5372782 ATCCCTCAGTGGTCCG
1 ATCCCTCAGTGGTCCG
5372798 ATCCCTCAGTGGTCCG
1 ATCCCTCAGTGGTCCG
5372814 ATCCCTCAGTGGTCCG
1 ATCCCTCAGTGGTCCG
5372830 ATCCCTCAGTGGTC
1 ATCCCTCAGTGGTC
5372844 GAGGAAGGCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.13, C:0.37, G:0.24, T:0.26
Consensus pattern (16 bp):
ATCCCTCAGTGGTCCG
Found at i:5382319 original size:21 final size:21
Alignment explanation
Indices: 5382295--5382335 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5382285 GGCACCGGGT
*
5382295 CGTCGCCGAGCACTCGCTCGC
1 CGTCGCCGAGCACCCGCTCGC
* *
5382316 CGTCGGCGCGCACCCGCTCG
1 CGTCGCCGAGCACCCGCTCG
5382336 GGATCGAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.49, G:0.32, T:0.12
Consensus pattern (21 bp):
CGTCGCCGAGCACCCGCTCGC
Found at i:5384298 original size:18 final size:18
Alignment explanation
Indices: 5384272--5384306 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5384262 ATCGTGGGCA
*
5384272 AGGCCCTCACCGACACCC
1 AGGCACTCACCGACACCC
5384290 AGGCACTCACCGACACC
1 AGGCACTCACCGACACC
5384307 AATGCCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.51, G:0.17, T:0.06
Consensus pattern (18 bp):
AGGCACTCACCGACACCC
Found at i:5402598 original size:18 final size:18
Alignment explanation
Indices: 5402575--5402618 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
5402565 GGGCTGATCG
5402575 GCGCCGGGCTGGTCCTGC
1 GCGCCGGGCTGGTCCTGC
5402593 GCGCCGGGCTGGTCCTGC
1 GCGCCGGGCTGGTCCTGC
*
5402611 GGGCCGGG
1 GCGCCGGG
5402619 GCCGCTGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.50, T:0.14
Consensus pattern (18 bp):
GCGCCGGGCTGGTCCTGC
Found at i:5418541 original size:15 final size:15
Alignment explanation
Indices: 5418521--5418549 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5418511 GATTCCTCGA
5418521 CCACAGACTCTTCGG
1 CCACAGACTCTTCGG
5418536 CCACAGACTCTTCG
1 CCACAGACTCTTCG
5418550 ACGGCCGCGG
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:0.21, C:0.41, G:0.17, T:0.21
Consensus pattern (15 bp):
CCACAGACTCTTCGG
Found at i:5423295 original size:78 final size:78
Alignment explanation
Indices: 5423165--5423500 Score: 568
Period size: 78 Copynumber: 4.3 Consensus size: 78
5423155 TCACCGGAGT
* *
5423165 TCCGGGCGCCGACCCGGCTCAGGCTGCGT-T-CGACTGGCCCGAGCCGGGGCGCCCTCCGTGGTC
1 TCCGGGCGCTGACCC-GCTCAGGC--CGTATCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTC
5423228 ACACTGCGCTGCCGCC
63 ACACTGCGCTGCCGCC
*
5423244 TCCGGGCGCTGACCCGCTCAGGCCGTGTCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
1 TCCGGGCGCTGACCCGCTCAGGCCGTATCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
5423309 CTGCGCTGCCGCC
66 CTGCGCTGCCGCC
*
5423322 TCCGGGCGCTGACCCGCTCAGGCCGTATCCGACTGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
1 TCCGGGCGCTGACCCGCTCAGGCCGTATCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
5423387 CTGCGCTGCCGCC
66 CTGCGCTGCCGCC
5423400 TCCGGGCGCTGACCCGCTCAGGCCGTATCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
1 TCCGGGCGCTGACCCGCTCAGGCCGTATCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
5423465 CTGCGCTGCCGCC
66 CTGCGCTGCCGCC
*
5423478 TCCGGGGCGCCGACCCGGCTCAG
1 TCC-GGGCGCTGACCC-GCTCAG
5423501 CCGACTCGTT
Statistics
Matches: 247, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
76 3 0.01
77 1 0.00
78 212 0.86
79 25 0.10
80 6 0.02
ACGTcount: A:0.08, C:0.44, G:0.35, T:0.13
Consensus pattern (78 bp):
TCCGGGCGCTGACCCGCTCAGGCCGTATCCGACCGGCCCGAGCCGGGGCGCCCTCCGTGGTCACA
CTGCGCTGCCGCC
Found at i:5424513 original size:15 final size:15
Alignment explanation
Indices: 5424493--5424525 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5424483 CCACCGTGCT
5424493 CGAGCCACTCACTGC
1 CGAGCCACTCACTGC
5424508 CGAGCCACTCACTGC
1 CGAGCCACTCACTGC
5424523 CGA
1 CGA
5424526 TGTGCTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.12
Consensus pattern (15 bp):
CGAGCCACTCACTGC
Found at i:5442816 original size:14 final size:14
Alignment explanation
Indices: 5442797--5442823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5442787 GCGGGACTTC
5442797 CGCGACCGACACCG
1 CGCGACCGACACCG
5442811 CGCGACCGACACC
1 CGCGACCGACACC
5442824 CGTCCGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.52, G:0.26, T:0.00
Consensus pattern (14 bp):
CGCGACCGACACCG
Found at i:5444771 original size:18 final size:18
Alignment explanation
Indices: 5444748--5444784 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5444738 CAGTCGTTGT
5444748 CATGACATCACCAACCGC
1 CATGACATCACCAACCGC
* *
5444766 CATGACTTCACCGACCGC
1 CATGACATCACCAACCGC
5444784 C
1 C
5444785 GTACCCGCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.46, G:0.14, T:0.14
Consensus pattern (18 bp):
CATGACATCACCAACCGC
Found at i:5460134 original size:30 final size:30
Alignment explanation
Indices: 5460095--5460160 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 30
5460085 CCTCGGCGCT
5460095 CGTCGGTG-CCGACTGCGCGGCGGCGGGCG
1 CGTCGGTGCCCGACTGCGCGGCGGCGGGCG
* *
5460124 CGTCGGGTGCCACCGCCTGCTCGGCGGCGGGCG
1 CGTC-GGTG-C-CCGACTGCGCGGCGGCGGGCG
5460157 CGTC
1 CGTC
5460161 CGGCGGCGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.13
30 4 0.13
33 23 0.74
ACGTcount: A:0.03, C:0.38, G:0.47, T:0.12
Consensus pattern (30 bp):
CGTCGGTGCCCGACTGCGCGGCGGCGGGCG
Found at i:5460175 original size:33 final size:33
Alignment explanation
Indices: 5460107--5460182 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
5460097 TCGGTGCCGA
* * *
5460107 CTGCGCGGCGGCGGGCGCGTCGGGTGCCACCGC
1 CTGCTCGGCGGCGGGCGCGTCCGGCGCCACCGC
* * *
5460140 CTGCTCGGCGGCGGGCGCGTCCGGCGGCGCGGC
1 CTGCTCGGCGGCGGGCGCGTCCGGCGCCACCGC
5460173 CTGCTCGGCG
1 CTGCTCGGCG
5460183 ACGGTGGGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.01, C:0.39, G:0.49, T:0.11
Consensus pattern (33 bp):
CTGCTCGGCGGCGGGCGCGTCCGGCGCCACCGC
Found at i:5474442 original size:15 final size:16
Alignment explanation
Indices: 5474416--5474445 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5474406 CAACGGATTC
5474416 CGAATATCGGCGCGCA
1 CGAATATCGGCGCGCA
5474432 CGAAT-TCGGCGCGC
1 CGAATATCGGCGCGC
5474446 CCCATGCGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.13
Consensus pattern (16 bp):
CGAATATCGGCGCGCA
Found at i:5478766 original size:15 final size:15
Alignment explanation
Indices: 5478746--5478812 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
5478736 GCGGCGCGGC
*
5478746 GTCGTCGTCGGTCAG
1 GTCGTCGTCGGCCAG
5478761 GTCGTCGTCGGCCAG
1 GTCGTCGTCGGCCAG
*
5478776 GTCGTCGTC-G--AA
1 GTCGTCGTCGGCCAG
* *
5478788 GTCCTCGTCGGCGAG
1 GTCGTCGTCGGCCAG
5478803 GTCGTCGTCG
1 GTCGTCGTCG
5478813 AAATCGTCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
12 9 0.20
13 1 0.02
14 1 0.02
15 33 0.75
ACGTcount: A:0.07, C:0.30, G:0.39, T:0.24
Consensus pattern (15 bp):
GTCGTCGTCGGCCAG
Found at i:5478780 original size:27 final size:28
Alignment explanation
Indices: 5478749--5478823 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
5478739 GCGCGGCGTC
* *
5478749 GTCGTCGGTC-AGGTCGTCGTCGGCCAG
1 GTCGTCGGTCGAAGTCCTCGTCGGCCAG
*
5478776 GTCGTC-GTCGAAGTCCTCGTCGGCGAG
1 GTCGTCGGTCGAAGTCCTCGTCGGCCAG
* *
5478803 GTCGTC-GTCGAAATCGTCGTC
1 GTCGTCGGTCGAAGTCCTCGTC
5478824 CTCGTCGGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.11, C:0.29, G:0.36, T:0.24
Consensus pattern (28 bp):
GTCGTCGGTCGAAGTCCTCGTCGGCCAG
Found at i:5479406 original size:9 final size:9
Alignment explanation
Indices: 5479392--5479433 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
5479382 GGCCGGCTCC
5479392 GGTGGTGCG
1 GGTGGTGCG
*
5479401 GGTGGTGCC
1 GGTGGTGCG
5479410 GGTGGTGCG
1 GGTGGTGCG
*
5479419 GTTGGTGCG
1 GGTGGTGCG
*
5479428 GCTGGT
1 GGTGGT
5479434 TCGACAGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.00, C:0.14, G:0.60, T:0.26
Consensus pattern (9 bp):
GGTGGTGCG
Found at i:5479433 original size:18 final size:18
Alignment explanation
Indices: 5479390--5479426 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5479380 GCGGCCGGCT
5479390 CCGGTGGTGCGGGTGGTG
1 CCGGTGGTGCGGGTGGTG
*
5479408 CCGGTGGTGCGGTTGGTG
1 CCGGTGGTGCGGGTGGTG
5479426 C
1 C
5479427 GGCTGGTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.19, G:0.57, T:0.24
Consensus pattern (18 bp):
CCGGTGGTGCGGGTGGTG
Found at i:5482448 original size:18 final size:18
Alignment explanation
Indices: 5482425--5482464 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5482415 TCCGAACGCC
*
5482425 CCCGACCCCGACCCCGAT
1 CCCGACCCCGACACCGAT
* *
5482443 CCCGACCCGGGCACCGAT
1 CCCGACCCCGACACCGAT
5482461 CCCG
1 CCCG
5482465 GCTCCGGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.57, G:0.23, T:0.05
Consensus pattern (18 bp):
CCCGACCCCGACACCGAT
Found at i:5499889 original size:21 final size:21
Alignment explanation
Indices: 5499863--5499924 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
5499853 TTCTGCCATG
5499863 CTGCGCAGTCTGGCACACCGT
1 CTGCGCAGTCTGGCACACCGT
* * *
5499884 CTGCGCGGTCCGGCACGCCGT
1 CTGCGCAGTCTGGCACACCGT
* *
5499905 ATGCGAAG-CTCGGCACACCG
1 CTGCGCAGTCT-GGCACACCG
5499925 CACGTGAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.15, C:0.39, G:0.32, T:0.15
Consensus pattern (21 bp):
CTGCGCAGTCTGGCACACCGT
Found at i:5503072 original size:18 final size:18
Alignment explanation
Indices: 5503049--5503128 Score: 94
Period size: 18 Copynumber: 4.4 Consensus size: 18
5503039 AGACGTTCTT
5503049 CGGGGCGGCCTTCTTCGC
1 CGGGGCGGCCTTCTTCGC
*
5503067 CGGGGCGGCCTTCTTGGC
1 CGGGGCGGCCTTCTTCGC
5503085 C--GGC-GCCTTCTTCGC
1 CGGGGCGGCCTTCTTCGC
*
5503100 GGCGGGGGCGGCCTTCTTGGC
1 --C-GGGGCGGCCTTCTTCGC
5503121 CGGGGCGG
1 CGGGGCGG
5503129 GGGTGGTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
15 10 0.19
16 3 0.06
17 1 0.02
18 25 0.47
19 1 0.02
20 3 0.06
21 10 0.19
ACGTcount: A:0.00, C:0.35, G:0.45, T:0.20
Consensus pattern (18 bp):
CGGGGCGGCCTTCTTCGC
Found at i:5503114 original size:36 final size:33
Alignment explanation
Indices: 5503056--5503123 Score: 109
Period size: 36 Copynumber: 2.0 Consensus size: 33
5503046 CTTCGGGGCG
5503056 GCCTTCTTCGCCGGGGCGGCCTTCTTGGCCGGC
1 GCCTTCTTCGCCGGGGCGGCCTTCTTGGCCGGC
5503089 GCCTTCTTCGCGGCGGGGGCGGCCTTCTTGGCCGG
1 GCCTTCTTCGC--C-GGGGCGGCCTTCTTGGCCGG
5503124 GGCGGGGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 11 0.34
35 1 0.03
36 20 0.62
ACGTcount: A:0.00, C:0.37, G:0.40, T:0.24
Consensus pattern (33 bp):
GCCTTCTTCGCCGGGGCGGCCTTCTTGGCCGGC
Found at i:5536460 original size:18 final size:18
Alignment explanation
Indices: 5536437--5536471 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5536427 TCGTCGACAA
5536437 CGCCGTGCCCGGCACCGC
1 CGCCGTGCCCGGCACCGC
5536455 CGCCGTGCCCGGCACCG
1 CGCCGTGCCCGGCACCG
5536472 GCGCGCCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.54, G:0.34, T:0.06
Consensus pattern (18 bp):
CGCCGTGCCCGGCACCGC
Found at i:5543905 original size:15 final size:15
Alignment explanation
Indices: 5543887--5543918 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5543877 TGGGTACTCA
*
5543887 GTGTGCTCGTACCGG
1 GTGTGCTCATACCGG
5543902 GTGTGCTCATACCGG
1 GTGTGCTCATACCGG
5543917 GT
1 GT
5543919 CCTCTCCCGT
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:0.09, C:0.25, G:0.38, T:0.28
Consensus pattern (15 bp):
GTGTGCTCATACCGG
Found at i:5544300 original size:21 final size:21
Alignment explanation
Indices: 5544262--5544301 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5544252 CGGCGAGCAC
*
5544262 CCGCTCGGCCGCGGCGTACAG
1 CCGCTCGGCCGCGCCGTACAG
* *
5544283 CCGCTCGGCGGTGCCGTAC
1 CCGCTCGGCCGCGCCGTAC
5544302 GGGCGACCGG
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:0.07, C:0.42, G:0.38, T:0.12
Consensus pattern (21 bp):
CCGCTCGGCCGCGCCGTACAG
Found at i:5560044 original size:15 final size:15
Alignment explanation
Indices: 5560024--5560054 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5560014 GGTGCCCACC
*
5560024 GAACGGCTCGGCGAG
1 GAACGGCTCGCCGAG
5560039 GAACGGCTCGCCGAG
1 GAACGGCTCGCCGAG
5560054 G
1 G
5560055 CCTACGGCGT
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:0.19, C:0.29, G:0.45, T:0.06
Consensus pattern (15 bp):
GAACGGCTCGCCGAG
Found at i:5561277 original size:84 final size:82
Alignment explanation
Indices: 5561118--5561270 Score: 182
Period size: 81 Copynumber: 1.8 Consensus size: 82
5561108 CACGGGCGAC
* * *
5561118 GGTGGTGAGGTCGGGCCGGGCGACCCGTCGGAAGGCGCCCGACCCGATGTGGGATCGGCGGCCCG
1 GGTGGTGAGGTCGGGCCGGGCGA--CGTCGGAAGGCGCCCGAACCGACGTAGGATCGGCGGCCCG
* *
5561183 GGAGGGCGCGGCAGGCTGA
64 GCAGGCCGCGGCAGGCTGA
* * * * *
5561202 GGTGGTGAGGTCGGGCCGGGCGA-GTCGGAAGGCGCCCTAACGGGCGTAGGTTCGGCGGCCTGGA
1 GGTGGTGAGGTCGGGCCGGGCGACGTCGGAAGGCGCCCGAACCGACGTAGGATCGGCGGCCCGG-
5561266 CAGGC
65 CAGGC
5561271 ACCGCGGGCG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
81 32 0.55
82 3 0.05
84 23 0.40
ACGTcount: A:0.12, C:0.27, G:0.50, T:0.11
Consensus pattern (82 bp):
GGTGGTGAGGTCGGGCCGGGCGACGTCGGAAGGCGCCCGAACCGACGTAGGATCGGCGGCCCGGC
AGGCCGCGGCAGGCTGA
Found at i:5564061 original size:18 final size:18
Alignment explanation
Indices: 5564038--5564077 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5564028 CACGGCTTGC
* *
5564038 TCGGCGATGGTGGCGGCG
1 TCGGCGATGGTGCCGGAG
*
5564056 TCGGCGGTGGTGCCGGAG
1 TCGGCGATGGTGCCGGAG
5564074 TCGG
1 TCGG
5564078 GTTCCACGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.23, G:0.55, T:0.17
Consensus pattern (18 bp):
TCGGCGATGGTGCCGGAG
Found at i:5575141 original size:77 final size:78
Alignment explanation
Indices: 5574952--5575211 Score: 459
Period size: 77 Copynumber: 3.3 Consensus size: 78
5574942 GGTTGCCTGC
5574952 CACCGCCTGAGCGGGTCAGCGGCCGAAGGAGGCAGCGCAGCATCACCACGCAGGCCGCCCCCGCA
1 CACCGCCTGAGCGGGTCAGCGGCCGAAGGAGGCAGCGCAGCATCACCACGCAGGCCGCCCCCGCA
5575017 CAGGCAAATCAAA
66 CAGGCAAATCAAA
*
5575030 CACCGCCTGAGCGGGTCAGCGGCCGAAGGCGGCAGCGCAGCATCACCACGCAGGCCG-CCCCGCA
1 CACCGCCTGAGCGGGTCAGCGGCCGAAGGAGGCAGCGCAGCATCACCACGCAGGCCGCCCCCGCA
5575094 CAGGCAAATCAAA
66 CAGGCAAATCAAA
* *
5575107 CACAGCCTGAGCGGGTCAGCGGCCGGAGGAGGCAGCGCAGCATCACCACGCAGGCCGCCCCCGCA
1 CACCGCCTGAGCGGGTCAGCGGCCGAAGGAGGCAGCGCAGCATCACCACGCAGGCCGCCCCCGCA
* *
5575172 CAGGCACAATCCAG
66 CAGGCA-AATCAAA
5575186 CACCGCCTGAGCGGGTCAGCGGCCGA
1 CACCGCCTGAGCGGGTCAGCGGCCGA
5575212 GGGTTTCAGT
Statistics
Matches: 172, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
77 74 0.43
78 69 0.40
79 29 0.17
ACGTcount: A:0.23, C:0.39, G:0.32, T:0.05
Consensus pattern (78 bp):
CACCGCCTGAGCGGGTCAGCGGCCGAAGGAGGCAGCGCAGCATCACCACGCAGGCCGCCCCCGCA
CAGGCAAATCAAA
Found at i:5582255 original size:17 final size:17
Alignment explanation
Indices: 5582231--5582314 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 17
5582221 ACGGCACCGC
5582231 CGCTTCCATCACGACAG
1 CGCTTCCATCACGACAG
*
5582248 CTCTTCCATCACGACAG
1 CGCTTCCATCACGACAG
* * *
5582265 CTCTTCCATCACCACAA
1 CGCTTCCATCACGACAG
* *
5582282 CGCCTCCGTCACGACAG
1 CGCTTCCATCACGACAG
* *
5582299 CGCTCCCGTCACGACA
1 CGCTTCCATCACGACA
5582315 ACGTCGCGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (17 bp):
CGCTTCCATCACGACAG
Found at i:5585045 original size:19 final size:18
Alignment explanation
Indices: 5585000--5585045 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
5584990 CGAGAGACCA
*
5585000 GACACTGCC-AGAGCTTT
1 GACACAGCCAAGAGCTTT
*
5585017 GACGCAGCCAAGAGCTTT
1 GACACAGCCAAGAGCTTT
5585035 GAACACAGCCA
1 G-ACACAGCCA
5585046 CCAGCTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.15
Consensus pattern (18 bp):
GACACAGCCAAGAGCTTT
Found at i:5585051 original size:19 final size:18
Alignment explanation
Indices: 5585011--5585053 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
5585001 ACACTGCCAG
* *
5585011 AGCTTTGACGCAGCCAAG
1 AGCTTTGACACAGCCAAC
*
5585029 AGCTTTGAACACAGCCACC
1 AGCTTTG-ACACAGCCAAC
5585048 AGCTTT
1 AGCTTT
5585054 CCGTCGAGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (18 bp):
AGCTTTGACACAGCCAAC
Found at i:5589031 original size:15 final size:15
Alignment explanation
Indices: 5589008--5589039 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5588998 TCCGGCTCCG
*
5589008 CCGCGGCGAGTTCCA
1 CCGCCGCGAGTTCCA
5589023 CCGCCGCGAGTTCCA
1 CCGCCGCGAGTTCCA
5589038 CC
1 CC
5589040 ACCGACAAGG
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:0.12, C:0.47, G:0.28, T:0.12
Consensus pattern (15 bp):
CCGCCGCGAGTTCCA
Found at i:5603239 original size:18 final size:19
Alignment explanation
Indices: 5603216--5603262 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
5603206 CCGCGCGCGG
5603216 CCTGCCGCCGCGGCTGG-T
1 CCTGCCGCCGCGGCTGGCT
*
5603234 CCTGCCCGAC-CGGCTGGCT
1 CCTG-CCGCCGCGGCTGGCT
5603253 CC-GCCGCCGC
1 CCTGCCGCCGC
5603263 CGGGCTGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.02, C:0.51, G:0.34, T:0.13
Consensus pattern (19 bp):
CCTGCCGCCGCGGCTGGCT
Found at i:5625724 original size:15 final size:15
Alignment explanation
Indices: 5625704--5625745 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
5625694 CGGCACCGCG
5625704 CCGGGTGACGGCTTC
1 CCGGGTGACGGCTTC
5625719 CCGGGTGACGGCTTC
1 CCGGGTGACGGCTTC
5625734 CCGGGTGACGGC
1 CCGGGTGACGGC
5625746 GGCACCGCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.07, C:0.33, G:0.43, T:0.17
Consensus pattern (15 bp):
CCGGGTGACGGCTTC
Found at i:5642704 original size:15 final size:15
Alignment explanation
Indices: 5642681--5642711 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5642671 CCGGGGGCCT
5642681 GCCCCTACCGCTGCG
1 GCCCCTACCGCTGCG
*
5642696 GCCCTTACCGCTGCG
1 GCCCCTACCGCTGCG
5642711 G
1 G
5642712 GGAGGACGCC
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:0.48, G:0.29, T:0.16
Consensus pattern (15 bp):
GCCCCTACCGCTGCG
Found at i:5645503 original size:15 final size:16
Alignment explanation
Indices: 5645472--5645505 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5645462 TCGTGGTGGT
5645472 GCGCGCGATCACCGAG
1 GCGCGCGATCACCGAG
*
5645488 GCGCGTGATC-CCGAG
1 GCGCGCGATCACCGAG
5645503 GCG
1 GCG
5645506 GCGGCGCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.35, G:0.41, T:0.09
Consensus pattern (16 bp):
GCGCGCGATCACCGAG
Found at i:5645763 original size:9 final size:9
Alignment explanation
Indices: 5645743--5645792 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
5645733 ACCGCCGGAC
5645743 TCGGCAGTG
1 TCGGCAGTG
* *
5645752 TCGGCGGAG
1 TCGGCAGTG
5645761 TCGGCAGTG
1 TCGGCAGTG
5645770 TCGGCAGTG
1 TCGGCAGTG
5645779 TCGGCAGTG
1 TCGGCAGTG
5645788 TCGGC
1 TCGGC
5645793 GACGATGCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.10, C:0.24, G:0.46, T:0.20
Consensus pattern (9 bp):
TCGGCAGTG
Found at i:5645764 original size:18 final size:18
Alignment explanation
Indices: 5645738--5645793 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
5645728 GGCGCACCGC
*
5645738 CGGACTCGGCAGTGTCGG
1 CGGAGTCGGCAGTGTCGG
5645756 CGGAGTCGGCAGTGTCGG
1 CGGAGTCGGCAGTGTCGG
* *
5645774 CAGTGTCGGCAGTGTCGG
1 CGGAGTCGGCAGTGTCGG
5645792 CG
1 CG
5645794 ACGATGCGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.11, C:0.25, G:0.46, T:0.18
Consensus pattern (18 bp):
CGGAGTCGGCAGTGTCGG
Found at i:5649134 original size:18 final size:18
Alignment explanation
Indices: 5648964--5649128 Score: 217
Period size: 18 Copynumber: 9.2 Consensus size: 18
5648954 GTCACCGCCT
*
5648964 CGACGAACCGCACCGCTC
1 CGACGAACCGCACCGCGC
5648982 CGACGAACCGCACCGCGC
1 CGACGAACCGCACCGCGC
* *
5649000 C-ATCGATCCACACCGCGC
1 CGA-CGAACCGCACCGCGC
5649018 CGACGAACCGCACCGCGC
1 CGACGAACCGCACCGCGC
*
5649036 C-ATCGAACCGCACGGCGC
1 CGA-CGAACCGCACCGCGC
*
5649054 CGTCGAACCGCACCGCGC
1 CGACGAACCGCACCGCGC
5649072 CGACGAACCGCACCGCGC
1 CGACGAACCGCACCGCGC
* *
5649090 CGACGATCCACACCGCGC
1 CGACGAACCGCACCGCGC
* *
5649108 CGACGATCCACACCGCGC
1 CGACGAACCGCACCGCGC
5649126 CGA
1 CGA
5649129 GGATCCGGCC
Statistics
Matches: 132, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
17 2 0.02
18 129 0.98
19 1 0.01
ACGTcount: A:0.22, C:0.49, G:0.25, T:0.04
Consensus pattern (18 bp):
CGACGAACCGCACCGCGC
Found at i:5676804 original size:19 final size:20
Alignment explanation
Indices: 5676770--5676810 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
5676760 CAGCAGATCG
5676770 GCCGCCTCCACCCCG-CCGC
1 GCCGCCTCCACCCCGCCCGC
5676789 GCCG-CTCCACCGCCGCCCGC
1 GCCGCCTCCACC-CCGCCCGC
5676809 GC
1 GC
5676811 GAACCGCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 7 0.35
20 6 0.30
ACGTcount: A:0.05, C:0.66, G:0.24, T:0.05
Consensus pattern (20 bp):
GCCGCCTCCACCCCGCCCGC
Found at i:5681001 original size:17 final size:17
Alignment explanation
Indices: 5680973--5681064 Score: 91
Period size: 17 Copynumber: 5.4 Consensus size: 17
5680963 CGGCGCCGGA
*
5680973 CTGGTGCGGTTCTGGAC
1 CTGGTGCCGTTCTGGAC
* *
5680990 CTAGTGCCGTTCCGGA-
1 CTGGTGCCGTTCTGGAC
*
5681006 CTCGGTGCCGTTCTTGAC
1 CT-GGTGCCGTTCTGGAC
5681024 CTGGTGCCGTTCCT-GAC
1 CTGGTGCCGTT-CTGGAC
*
5681041 CTGGTGCCGTACCT-GAC
1 CTGGTGCCGT-TCTGGAC
5681058 CTGGTGC
1 CTGGTGC
5681065 TCAGTCCTCG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
16 2 0.03
17 58 0.91
18 4 0.06
ACGTcount: A:0.08, C:0.32, G:0.33, T:0.28
Consensus pattern (17 bp):
CTGGTGCCGTTCTGGAC
Found at i:5681019 original size:34 final size:34
Alignment explanation
Indices: 5680968--5681050 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
5680958 GCCCGCGGCG
*
5680968 CCGGACT-GGTGCGGTTCTGGACCTAGTGCCGTT
1 CCGGACTCGGTGCCGTTCTGGACCTAGTGCCGTT
* *
5681001 CCGGACTCGGTGCCGTTCTTGACCTGGTGCCGTT
1 CCGGACTCGGTGCCGTTCTGGACCTAGTGCCGTT
*
5681035 CCTGAC-CTGGTGCCGT
1 CCGGACTC-GGTGCCGT
5681051 ACCTGACCTG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 8 0.18
34 36 0.82
ACGTcount: A:0.07, C:0.31, G:0.34, T:0.28
Consensus pattern (34 bp):
CCGGACTCGGTGCCGTTCTGGACCTAGTGCCGTT
Found at i:5681058 original size:34 final size:34
Alignment explanation
Indices: 5680987--5681064 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
5680977 TGCGGTTCTG
* * *
5680987 GACCTAGTGCCGTTCCGGACTCGGTGCCGTTCTT
1 GACCTGGTGCCGTTCCGGACTCGGTGCCGTACCT
*
5681021 GACCTGGTGCCGTTCCTGAC-CTGGTGCCGTACCT
1 GACCTGGTGCCGTTCCGGACTC-GGTGCCGTACCT
5681055 GACCTGGTGC
1 GACCTGGTGC
5681065 TCAGTCCTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.09, C:0.33, G:0.31, T:0.27
Consensus pattern (34 bp):
GACCTGGTGCCGTTCCGGACTCGGTGCCGTACCT
Found at i:5684329 original size:18 final size:18
Alignment explanation
Indices: 5684288--5684347 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
5684278 GCGGGCACCG
* * *
5684288 GTACCGGCGAAGCCGCGG
1 GTACCGGCGAGGACGCGC
*
5684306 GCACCGGCGAGGACGCGC
1 GTACCGGCGAGGACGCGC
* *
5684324 GTACCGGCCAGGGCGCGC
1 GTACCGGCGAGGACGCGC
5684342 GTACCG
1 GTACCG
5684348 ACGCAGAGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.15, C:0.37, G:0.43, T:0.05
Consensus pattern (18 bp):
GTACCGGCGAGGACGCGC
Found at i:5684358 original size:20 final size:19
Alignment explanation
Indices: 5684314--5684358 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
5684304 GGGCACCGGC
*
5684314 GAGGACGCGCGTACCGGCCA
1 GAGG-CGCGCGTACCGACCA
5684334 G-GGCGCGCGTACCGACGCA
1 GAGGCGCGCGTACCGAC-CA
5684353 GAGGCG
1 GAGGCG
5684359 GGCACCCGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 5 0.23
20 5 0.23
ACGTcount: A:0.18, C:0.33, G:0.44, T:0.04
Consensus pattern (19 bp):
GAGGCGCGCGTACCGACCA
Found at i:5684676 original size:18 final size:18
Alignment explanation
Indices: 5684649--5684692 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
5684639 GGGCAGCGGC
*
5684649 GACGGGTGGCGACGACAA
1 GACGGATGGCGACGACAA
5684667 GACGGATGGCGACGACAA
1 GACGGATGGCGACGACAA
5684685 GAC-GATGG
1 GACGGATGG
5684693 TGATGCGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.30, C:0.20, G:0.43, T:0.07
Consensus pattern (18 bp):
GACGGATGGCGACGACAA
Found at i:5684876 original size:18 final size:18
Alignment explanation
Indices: 5684840--5685027 Score: 148
Period size: 18 Copynumber: 10.4 Consensus size: 18
5684830 GCAGCCGCGG
*
5684840 CCGCCGGA-CGAACCACAC
1 CCGCCGGACCG-ACCGCAC
*
5684858 CTGCCGGACCGACCGCAC
1 CCGCCGGACCGACCGCAC
* * *
5684876 CCACCGGAGCGACCGGAC
1 CCGCCGGACCGACCGCAC
**
5684894 CCGCCGGACAAACCGCAC
1 CCGCCGGACCGACCGCAC
*
5684912 CTC-CCGGACCGAGCGCAC
1 C-CGCCGGACCGACCGCAC
* *
5684930 CCGCCGGAGCGACCGGAC
1 CCGCCGGACCGACCGCAC
**
5684948 CCGCCGGACAAACCGCAC
1 CCGCCGGACCGACCGCAC
*
5684966 CTC-CCGGACCGAGCGCAC
1 C-CGCCGGACCGACCGCAC
* * *
5684984 CCACCGGAGCGACCGGAC
1 CCGCCGGACCGACCGCAC
* ** *
5685002 CCGCGGGACAAACCACAC
1 CCGCCGGACCGACCGCAC
5685020 CCGCCGGA
1 CCGCCGGA
5685028 GGTACCGCGC
Statistics
Matches: 130, Mismatches: 35, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
17 2 0.02
18 124 0.95
19 4 0.03
ACGTcount: A:0.22, C:0.48, G:0.28, T:0.02
Consensus pattern (18 bp):
CCGCCGGACCGACCGCAC
Found at i:5685027 original size:54 final size:54
Alignment explanation
Indices: 5684840--5685020 Score: 299
Period size: 54 Copynumber: 3.4 Consensus size: 54
5684830 GCAGCCGCGG
* * *
5684840 CCGCCGGACGAACCACACCTGCCGGACCGACCGCACCCACCGGAGCGACCGGAC
1 CCGCCGGACAAACCACACCTCCCGGACCGAGCGCACCCACCGGAGCGACCGGAC
* *
5684894 CCGCCGGACAAACCGCACCTCCCGGACCGAGCGCACCCGCCGGAGCGACCGGAC
1 CCGCCGGACAAACCACACCTCCCGGACCGAGCGCACCCACCGGAGCGACCGGAC
*
5684948 CCGCCGGACAAACCGCACCTCCCGGACCGAGCGCACCCACCGGAGCGACCGGAC
1 CCGCCGGACAAACCACACCTCCCGGACCGAGCGCACCCACCGGAGCGACCGGAC
*
5685002 CCGCGGGACAAACCACACC
1 CCGCCGGACAAACCACACC
5685021 CGCCGGAGGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.23, C:0.48, G:0.28, T:0.02
Consensus pattern (54 bp):
CCGCCGGACAAACCACACCTCCCGGACCGAGCGCACCCACCGGAGCGACCGGAC
Found at i:5685066 original size:18 final size:18
Alignment explanation
Indices: 5685043--5685077 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5685033 CGCGCCCGCC
5685043 GCATCCGGCGCACCGACT
1 GCATCCGGCGCACCGACT
*
5685061 GCATCCGGCGCATCGAC
1 GCATCCGGCGCACCGAC
5685078 CGCACCCGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.29, T:0.11
Consensus pattern (18 bp):
GCATCCGGCGCACCGACT
Found at i:5696076 original size:15 final size:15
Alignment explanation
Indices: 5696036--5696077 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
5696026 CCGCGCCCGG
5696036 CGAACCCGG-GTAGCC
1 CGAACCCGGCG-AGCC
*
5696051 CGAACCGGGCGAGCC
1 CGAACCCGGCGAGCC
*
5696066 GGAACCCGGCGA
1 CGAACCCGGCGA
5696078 ACCAAGGCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.21, C:0.38, G:0.38, T:0.02
Consensus pattern (15 bp):
CGAACCCGGCGAGCC
Found at i:5717264 original size:15 final size:15
Alignment explanation
Indices: 5717199--5717254 Score: 96
Period size: 15 Copynumber: 3.8 Consensus size: 15
5717189 GTCCCGGCGG
*
5717199 TGCTC-GTGTTCTTC
1 TGCTCGGTGGTCTTC
5717213 TGCTCGGTGGTCTTC
1 TGCTCGGTGGTCTTC
5717228 TGCTCGGTGGTCTTC
1 TGCTCGGTGGTCTTC
5717243 TGCTCGGTGGTC
1 TGCTCGGTGGTC
5717255 AGCTGTTCGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
14 5 0.12
15 35 0.88
ACGTcount: A:0.00, C:0.27, G:0.32, T:0.41
Consensus pattern (15 bp):
TGCTCGGTGGTCTTC
Found at i:5720139 original size:18 final size:18
Alignment explanation
Indices: 5720112--5720146 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5720102 GCCTTCCAGC
* *
5720112 CCGGCTGCCACGTCACCA
1 CCGGCCGCCACGGCACCA
5720130 CCGGCCGCCACGGCACC
1 CCGGCCGCCACGGCACC
5720147 CTCGAGCCCG
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:0.14, C:0.54, G:0.26, T:0.06
Consensus pattern (18 bp):
CCGGCCGCCACGGCACCA
Found at i:5720527 original size:54 final size:54
Alignment explanation
Indices: 5720469--5720602 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
5720459 ACCGGCACCC
* *
5720469 ACCGCACCATCGACCGCGCCCTCCAGGCCCGTGGTCAGGCCCGCGCCCGCGTCG
1 ACCGCACCGTCGACCGCGCCCTCCAGGCCCGTGGTCAGGCCCGCGCCCGCGCCG
* ** * * * * * * *
5720523 ACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGCACCG
1 ACCGCACCGTCGACCGCGCCCTCCAGGCCCGTGGTCAGGCCCGCGCCCGCGCCG
*
5720577 AGCGCACCGTCGACCGCGCCCTCCAG
1 ACCGCACCGTCGACCGCGCCCTCCAG
5720603 ACCGGCAGCC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.78 0.23 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.13, C:0.49, G:0.31, T:0.08
Consensus pattern (54 bp):
ACCGCACCGTCGACCGCGCCCTCCAGGCCCGTGGTCAGGCCCGCGCCCGCGCCG
Found at i:5720530 original size:150 final size:150
Alignment explanation
Indices: 5720358--5720734 Score: 341
Period size: 150 Copynumber: 2.5 Consensus size: 150
5720348 GGCGGTGAGA
* * * *
5720358 CCCGTGCCCGCCTCGACAGCACCACCCACAGCACCCCCGACACCGG-CAGCCG-CACCGGCCCCC
1 CCCGCGCCCGCGTCGACCGCACCACCCACAGCACCCCCGACACCGGTC-G-CGACACCCGCCCCC
** *
5720421 GC-CTCGA-CAGCACCCTCGAGGGCACCTTCCAGACCGGCA-CCGGCACCCACCGCACCATCGAC
64 GCAC-CGAGC-GCACCCTCGACCGCACCCTCCAGACCGGCAGCC-GCACCCACCGCACCATCGAC
*
5720483 CGCGCCCTCCAGGCCCGTGGTCAGG
126 CGCGCCCTCCAGACCCGTGGTCAGG
* * ** * * ** * * *
5720508 CCCGCGCCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGC
1 CCCGCGCCCGCGTCGACCGCACCACCCACAGCACCCCCGACACCGGTCGCGACACCCGCCCCCGC
* * * * *
5720573 ACCGAGCGCACCGTCGACCGCGCCCTCCAGACCGGCAGCCGCGCCGAGCGCACCATCGACCGCGC
66 ACCGAGCGCACCCTCGACCGCACCCTCCAGACCGGCAGCCGCACCCACCGCACCATCGACCGCGC
5720638 CCTCCAGACCCGTGGTCAGG
131 CCTCCAGACCCGTGGTCAGG
* * * ** * * ** * * *
5720658 CCCGCACCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGC
1 CCCGCGCCCGCGTCGACCGCACCACCCACAGCACCCCCGACACCGGTCGCGACACCCGCCCCCGC
*
5720723 GCCGAGCGCACC
66 ACCGAGCGCACC
5720735 GTCCACGGCG
Statistics
Matches: 196, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
149 1 0.01
150 190 0.97
151 5 0.03
ACGTcount: A:0.15, C:0.50, G:0.29, T:0.07
Consensus pattern (150 bp):
CCCGCGCCCGCGTCGACCGCACCACCCACAGCACCCCCGACACCGGTCGCGACACCCGCCCCCGC
ACCGAGCGCACCCTCGACCGCACCCTCCAGACCGGCAGCCGCACCCACCGCACCATCGACCGCGC
CCTCCAGACCCGTGGTCAGG
Found at i:5720605 original size:42 final size:42
Alignment explanation
Indices: 5720559--5720649 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
5720549 GCCGGTCGTG
*
5720559 AGACCCGC-GCCCGCACCGAGCGCACCGTCGACCGCGCCCTCC
1 AGACCCGCAG-CCGCACCGAGCGCACCATCGACCGCGCCCTCC
* *
5720601 AGACCGGCAGCCGCGCCGAGCGCACCATCGACCGCGCCCTCC
1 AGACCCGCAGCCGCACCGAGCGCACCATCGACCGCGCCCTCC
5720643 AGACCCG
1 AGACCCG
5720650 TGGTCAGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.16, C:0.52, G:0.27, T:0.04
Consensus pattern (42 bp):
AGACCCGCAGCCGCACCGAGCGCACCATCGACCGCGCCCTCC
Found at i:5720606 original size:21 final size:21
Alignment explanation
Indices: 5720582--5720647 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
5720572 CACCGAGCGC
5720582 ACCGTCGACCGCGCCCTCCAG
1 ACCGTCGACCGCGCCCTCCAG
* ***
5720603 ACCGGC-AGCCGCGCCGAGC-G
1 ACCGTCGA-CCGCGCCCTCCAG
*
5720623 CACCATCGACCGCGCCCTCCAG
1 -ACCGTCGACCGCGCCCTCCAG
5720645 ACC
1 ACC
5720648 CGTGGTCAGG
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.17, C:0.52, G:0.26, T:0.06
Consensus pattern (21 bp):
ACCGTCGACCGCGCCCTCCAG
Found at i:5720735 original size:150 final size:150
Alignment explanation
Indices: 5720448--5720746 Score: 510
Period size: 150 Copynumber: 2.0 Consensus size: 150
5720438 GAGGGCACCT
*
5720448 TCCAGACCGGCACCGGCACCCACCGCACCATCGACCGCGCCCTCCAGGCCCGTGGTCAGGCCCGC
1 TCCAGACCGGCACCGGCACCCACCGCACCATCGACCGCGCCCTCCAGACCCGTGGTCAGGCCCGC
*
5720513 GCCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGCACCGA
66 ACCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGCACCGA
*
5720578 GCGCACCGTCGACCGCGCCC
131 GCGCACCGTCCACCGCGCCC
* * *
5720598 TCCAGACCGGCAGCC-GCGCCGAGCGCACCATCGACCGCGCCCTCCAGACCCGTGGTCAGGCCCG
1 TCCAGACCGGCA-CCGGCACCCACCGCACCATCGACCGCGCCCTCCAGACCCGTGGTCAGGCCCG
*
5720662 CACCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGCGCCG
65 CACCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGCACCG
*
5720727 AGCGCACCGTCCACGGCGCC
130 AGCGCACCGTCCACCGCGCC
5720747 GTTCAGGCCG
Statistics
Matches: 140, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
150 138 0.99
151 2 0.01
ACGTcount: A:0.13, C:0.48, G:0.31, T:0.07
Consensus pattern (150 bp):
TCCAGACCGGCACCGGCACCCACCGCACCATCGACCGCGCCCTCCAGACCCGTGGTCAGGCCCGC
ACCCGCGTCGACCGCACCGCCGAGGGCTCCCTCGAGGCCGGTCGTGAGACCCGCGCCCGCACCGA
GCGCACCGTCCACCGCGCCC
Found at i:5721374 original size:42 final size:42
Alignment explanation
Indices: 5721328--5721445 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
5721318 CCGTCCAAGC
* *
5721328 CACCACCGACACCGGCGACAGCGTCCACGGCGCCACCCACAG
1 CACCACCGACACCCGCGACAGCATCCACGGCGCCACCCACAG
* * * * * * *
5721370 CACCACCGAGACCCGC-ACCGGCTTCCACCGCCCCATCCAGAG
1 CACCACCGACACCCGCGA-CAGCATCCACGGCGCCACCCACAG
* *
5721412 CACCACCGACGCCCGCGACAGCATCTACGGCGCC
1 CACCACCGACACCCGCGACAGCATCCACGGCGCC
5721446 GCCAACGGCA
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
41 1 0.02
42 57 0.97
43 1 0.02
ACGTcount: A:0.22, C:0.51, G:0.22, T:0.05
Consensus pattern (42 bp):
CACCACCGACACCCGCGACAGCATCCACGGCGCCACCCACAG
Found at i:5721715 original size:27 final size:27
Alignment explanation
Indices: 5721685--5721773 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
5721675 ACGGCATCCA
5721685 CCGCGCCCTCCAGCCCCGCACCGACCC
1 CCGCGCCCTCCAGCCCCGCACCGACCC
* * * *
5721712 CCGCGCCC-ACA--CCGGCAACGGCATCCA
1 CCGCGCCCTCCAGCCCCGC-ACCG-A-CCC
* *
5721739 CCGCGCCCTCGAGCCCCGCACCGACGC
1 CCGCGCCCTCCAGCCCCGCACCGACCC
5721766 CCGCGCCC
1 CCGCGCCC
5721774 ACACCGGCGA
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
24 4 0.09
25 3 0.07
26 3 0.07
27 27 0.59
28 2 0.04
29 3 0.07
30 4 0.09
ACGTcount: A:0.13, C:0.61, G:0.22, T:0.03
Consensus pattern (27 bp):
CCGCGCCCTCCAGCCCCGCACCGACCC
Found at i:5721727 original size:54 final size:54
Alignment explanation
Indices: 5721645--5721799 Score: 229
Period size: 54 Copynumber: 2.9 Consensus size: 54
5721635 ACCTTCGAGG
* * * *
5721645 CCCGCACCCAGCCCCGCGCCGACGCCGGCAACGGCATCCACCGCGCCCTCCAGC
1 CCCGCACCGACCCCCGCGCCCACACCGGCAACGGCATCCACCGCGCCCTCCAGC
*
5721699 CCCGCACCGACCCCCGCGCCCACACCGGCAACGGCATCCACCGCGCCCTCGAGC
1 CCCGCACCGACCCCCGCGCCCACACCGGCAACGGCATCCACCGCGCCCTCCAGC
* * * *
5721753 CCCGCACCGACGCCCGCGCCCACACCGGCGACCGCATCCACTGCGCC
1 CCCGCACCGACCCCCGCGCCCACACCGGCAACGGCATCCACCGCGCC
5721800 GCCGATCCCG
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.15, C:0.57, G:0.23, T:0.04
Consensus pattern (54 bp):
CCCGCACCGACCCCCGCGCCCACACCGGCAACGGCATCCACCGCGCCCTCCAGC
Found at i:5721814 original size:54 final size:54
Alignment explanation
Indices: 5721639--5721841 Score: 216
Period size: 54 Copynumber: 3.8 Consensus size: 54
5721629 CAGCGCACCT
* * * * *
5721639 TCGAGGCCCGCACCCA-GCCCCGCGCCGACGCCGGCAACGGCATCCACCGCGCCC
1 TCGAGCCCCGCACCGACG-CCCGCGCCCACACCGGCAACCGCATCCACCGCGCCC
* * *
5721693 TCCAGCCCCGCACCGACCCCCGCGCCCACACCGGCAACGGCATCCACCGCGCCC
1 TCGAGCCCCGCACCGACGCCCGCGCCCACACCGGCAACCGCATCCACCGCGCCC
* *
5721747 TCGAGCCCCGCACCGACGCCCGCGCCCACACCGGCGACCGCATCCACTGCGCCGC
1 TCGAGCCCCGCACCGACGCCCGCGCCCACACCGGCAACCGCATCCACCGCGCC-C
* * * *
5721802 -CGATCCCGGCACCCA-GCCCG-GCACCGACACCGGCGACCGC
1 TCGAGCCCCGCACCGACGCCCGCGC-CC-ACACCGGCAACCGC
5721842 GTCGATCGCG
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 7 0.05
54 121 0.92
55 1 0.01
ACGTcount: A:0.16, C:0.55, G:0.25, T:0.04
Consensus pattern (54 bp):
TCGAGCCCCGCACCGACGCCCGCGCCCACACCGGCAACCGCATCCACCGCGCCC
Found at i:5724279 original size:18 final size:18
Alignment explanation
Indices: 5724256--5724300 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
5724246 CCAACCCGCA
5724256 CCCGCGCCCGCACCGGCC
1 CCCGCGCCCGCACCGGCC
* *
5724274 CCCGCGCCGGCTCCGGCC
1 CCCGCGCCCGCACCGGCC
5724292 CCCGC-CCCG
1 CCCGCGCCCG
5724301 TCGCCCGGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.02, C:0.67, G:0.29, T:0.02
Consensus pattern (18 bp):
CCCGCGCCCGCACCGGCC
Found at i:5724395 original size:21 final size:21
Alignment explanation
Indices: 5724371--5724467 Score: 92
Period size: 21 Copynumber: 4.5 Consensus size: 21
5724361 GGTGACACCC
5724371 TCGGCGGCGTCGG-GGAGGGCG
1 TCGGCGGCGTCGGCGG-GGGCG
*
5724392 TCGGCGGCGT-GGTCGGCGGCG
1 TCGGCGGCGTCGG-CGGGGGCG
* *
5724413 TGGGCGAGGGCGTCGGCGGGGTCG
1 TCGGC---GGCGTCGGCGGGGGCG
5724437 TCGGCGGCGTCGG-GGAGGGCG
1 TCGGCGGCGTCGGCGG-GGGCG
5724458 TCGGCGGCGT
1 TCGGCGGCGT
5724468 GGTGGGTGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.06
21 40 0.63
22 2 0.03
24 15 0.24
25 2 0.03
ACGTcount: A:0.03, C:0.25, G:0.60, T:0.12
Consensus pattern (21 bp):
TCGGCGGCGTCGGCGGGGGCG
Found at i:5724406 original size:12 final size:12
Alignment explanation
Indices: 5724391--5724415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5724381 CGGGGAGGGC
5724391 GTCGGCGGCGTG
1 GTCGGCGGCGTG
5724403 GTCGGCGGCGTG
1 GTCGGCGGCGTG
5724415 G
1 G
5724416 GCGAGGGCGT
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:0.24, G:0.60, T:0.16
Consensus pattern (12 bp):
GTCGGCGGCGTG
Found at i:5724408 original size:33 final size:34
Alignment explanation
Indices: 5724371--5724497 Score: 176
Period size: 33 Copynumber: 3.9 Consensus size: 34
5724361 GGTGACACCC
5724371 TCGGCGGCGTCGGG-GAGGGCGTCGGCGGCGTGG
1 TCGGCGGCGTCGGGCGAGGGCGTCGGCGGCGTGG
* *
5724404 TCGGCGGCGT-GGGCGAGGGCGTCGGCGGGGTCG
1 TCGGCGGCGTCGGGCGAGGGCGTCGGCGGCGTGG
5724437 TCGGCGGCGTCGGG-GAGGGCGTCGGCGGCGTGG
1 TCGGCGGCGTCGGGCGAGGGCGTCGGCGGCGTGG
5724470 T-GG-GTG-GTCTGGGCGAGGGCGTCGGCGG
1 TCGGCG-GCGTC-GGGCGAGGGCGTCGGCGG
5724498 GGTCCTCGGA
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
31 4 0.05
32 9 0.11
33 69 0.81
34 3 0.04
ACGTcount: A:0.03, C:0.23, G:0.61, T:0.13
Consensus pattern (34 bp):
TCGGCGGCGTCGGGCGAGGGCGTCGGCGGCGTGG
Found at i:5724441 original size:66 final size:66
Alignment explanation
Indices: 5724369--5724515 Score: 233
Period size: 66 Copynumber: 2.2 Consensus size: 66
5724359 TCGGTGACAC
5724369 CCTCGGCGGCGTCGGGGAGGGCGTCGGCGGCGTGGTCGGCGG-CGTGGGCGAGGGCGTCGGCGGG
1 CCTCGGCGGCGTCGGGGAGGGCGTCGGCGGCGTGGTCGGCGGTC-TGGGCGAGGGCGTCGGCGGG
5724433 GT
65 GT
* * *
5724435 CGTCGGCGGCGTCGGGGAGGGCGTCGGCGGCGTGGTGGGTGGTCTGGGCGAGGGCGTCGGCGGGG
1 CCTCGGCGGCGTCGGGGAGGGCGTCGGCGGCGTGGTCGGCGGTCTGGGCGAGGGCGTCGGCGGGG
5724500 T
66 T
* *
5724501 CCTCGGAGGCCTCGG
1 CCTCGGCGGCGTCGG
5724516 TGGTTGAGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
66 73 0.99
67 1 0.01
ACGTcount: A:0.03, C:0.25, G:0.58, T:0.14
Consensus pattern (66 bp):
CCTCGGCGGCGTCGGGGAGGGCGTCGGCGGCGTGGTCGGCGGTCTGGGCGAGGGCGTCGGCGGGG
T
Found at i:5728123 original size:24 final size:24
Alignment explanation
Indices: 5728068--5728130 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
5728058 CGCCGCCGGT
*
5728068 CACCACCACCCCG-G-AA-CCGAC
1 CACCACCACCCGGAGCAAGCCGAC
*
5728089 CACCACGACCCGGAGCAAGCCGAC
1 CACCACCACCCGGAGCAAGCCGAC
* *
5728113 CACGACCACCCGGCGCAA
1 CACCACCACCCGGAGCAA
5728131 CCCCTTCGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.32
22 1 0.03
23 2 0.06
24 20 0.59
ACGTcount: A:0.29, C:0.51, G:0.21, T:0.00
Consensus pattern (24 bp):
CACCACCACCCGGAGCAAGCCGAC
Found at i:5736172 original size:42 final size:42
Alignment explanation
Indices: 5736113--5736195 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
5736103 CGCCTCCGGT
* *
5736113 CAAGGGGCTCGGCATGAAGGGCGGGGCGAAAGCCCCCGGTGG
1 CAAGGGCCTCGGCATGAAGGGCGCGGCGAAAGCCCCCGGTGG
* *
5736155 CAAGGGCCT-GGCGATGAAGGGCGCGGCGAAGGCGCCCGGTG
1 CAAGGGCCTCGGC-ATGAAGGGCGCGGCGAAAGCCCCCGGTG
5736196 CGAAGGCGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.18, C:0.27, G:0.48, T:0.07
Consensus pattern (42 bp):
CAAGGGCCTCGGCATGAAGGGCGCGGCGAAAGCCCCCGGTGG
Found at i:5736558 original size:17 final size:17
Alignment explanation
Indices: 5736536--5736569 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5736526 CCGACAACGG
*
5736536 CGCCGACCGCCCGGCCC
1 CGCCGACCGCCAGGCCC
5736553 CGCCGACCGCCAGGCCC
1 CGCCGACCGCCAGGCCC
5736570 GGCGGCCTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.62, G:0.29, T:0.00
Consensus pattern (17 bp):
CGCCGACCGCCAGGCCC
Found at i:5747839 original size:19 final size:19
Alignment explanation
Indices: 5747789--5747891 Score: 109
Period size: 19 Copynumber: 5.4 Consensus size: 19
5747779 CGATTCGGCG
*
5747789 GTCAGCGGGGATTCGAGGAC
1 GTCAGCGGGGA-TCGAGGGC
*
5747809 GTCAGCCGGGATTCGAGGGC
1 GTCAGCGGGGA-TCGAGGGC
* * *
5747829 GACAGC-GGGATCGACGGT
1 GTCAGCGGGGATCGAGGGC
* *
5747847 GTCAGCGGGGATCGACGGT
1 GTCAGCGGGGATCGAGGGC
5747866 GTCAGCGGGGATCGAGGGC
1 GTCAGCGGGGATCGAGGGC
*
5747885 GACAGCG
1 GTCAGCG
5747892 AGGACTCGAC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
18 11 0.15
19 39 0.53
20 23 0.32
ACGTcount: A:0.18, C:0.22, G:0.47, T:0.13
Consensus pattern (19 bp):
GTCAGCGGGGATCGAGGGC
Found at i:5747891 original size:38 final size:39
Alignment explanation
Indices: 5747784--5747901 Score: 114
Period size: 38 Copynumber: 3.0 Consensus size: 39
5747774 CGGCGCGATT
* * *
5747784 CGGCGGTCAGCGGGGATTCGAGGACGTCAGCCGGGATTCGA
1 CGGC-GTCAGCGGGGA-TCGAGGGCGTCAGCGGGGACTCGA
* * * *
5747825 GGGCGACAGC-GGGATCGACGGTGTCAGCGGGGA-TCGA
1 CGGCGTCAGCGGGGATCGAGGGCGTCAGCGGGGACTCGA
* * *
5747862 CGGTGTCAGCGGGGATCGAGGGCGACAGCGAGGACTCGA
1 CGGCGTCAGCGGGGATCGAGGGCGTCAGCGGGGACTCGA
5747901 C
1 C
5747902 AGCGACAACG
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
37 11 0.18
38 34 0.55
39 9 0.15
40 5 0.08
41 3 0.05
ACGTcount: A:0.19, C:0.24, G:0.46, T:0.12
Consensus pattern (39 bp):
CGGCGTCAGCGGGGATCGAGGGCGTCAGCGGGGACTCGA
Found at i:5748714 original size:79 final size:79
Alignment explanation
Indices: 5748624--5748850 Score: 429
Period size: 78 Copynumber: 2.9 Consensus size: 79
5748614 GCGACGCCCG
5748624 CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCGCCCCCGCT
1 CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCGCCCCCGCT
*
5748689 CCGGCGAAATCCGA
66 CAGGCGAAATCCGA
5748703 CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCG-CCCCGCT
1 CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCGCCCCCGCT
5748767 CAGGCGAAATCCGA
66 CAGGCGAAATCCGA
*
5748781 CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCGCACCCGCT
1 CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCGCCCCCGCT
5748846 CAGGC
66 CAGGC
5748851 AAAGACAGCA
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
78 77 0.53
79 68 0.47
ACGTcount: A:0.18, C:0.38, G:0.36, T:0.07
Consensus pattern (79 bp):
CACAGCCTGAGCGGGTCAGCGGCCGGAGGCGGCAGCGCAGTGTCACCACGCAGGCCGCCCCCGCT
CAGGCGAAATCCGA
Found at i:5755550 original size:36 final size:36
Alignment explanation
Indices: 5755477--5755551 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
5755467 GACCAGGCAA
*
5755477 CGCTCGTTGACCAGGAGGCGCTCGCTGATCAGACGG
1 CGCTCGTTGACCAGGAGGCGCTCGCTGACCAGACGG
* *
5755513 CGCTCGTTGACCAGGAGGCGCTCGCTGACCGGGCGG
1 CGCTCGTTGACCAGGAGGCGCTCGCTGACCAGACGG
5755549 CGC
1 CGC
5755552 CCTCCGATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.13, C:0.33, G:0.39, T:0.15
Consensus pattern (36 bp):
CGCTCGTTGACCAGGAGGCGCTCGCTGACCAGACGG
Found at i:5755551 original size:18 final size:18
Alignment explanation
Indices: 5755459--5755542 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
5755449 TGTTCCTCGA
* *
5755459 CGCTCTCTGACCAGGCA-A
1 CGCTCGCTGACCAGG-AGG
*
5755477 CGCTCGTTGACCAGGAGG
1 CGCTCGCTGACCAGGAGG
*
5755495 CGCTCGCTGATCA-GACGG
1 CGCTCGCTGACCAGGA-GG
*
5755513 CGCTCGTTGACCAGGAGG
1 CGCTCGCTGACCAGGAGG
5755531 CGCTCGCTGACC
1 CGCTCGCTGACC
5755543 GGGCGGCGCC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
17 3 0.05
18 50 0.91
19 2 0.04
ACGTcount: A:0.17, C:0.35, G:0.32, T:0.17
Consensus pattern (18 bp):
CGCTCGCTGACCAGGAGG
Found at i:5767695 original size:18 final size:18
Alignment explanation
Indices: 5767669--5767704 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5767659 AGCATGCGGA
*
5767669 AAGCTGGTTCGCCGGTGG
1 AAGCCGGTTCGCCGGTGG
5767687 AAGCCGGTTCGCCGGTGG
1 AAGCCGGTTCGCCGGTGG
5767705 CGACAACGGG
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:0.11, C:0.25, G:0.44, T:0.19
Consensus pattern (18 bp):
AAGCCGGTTCGCCGGTGG
Found at i:5771971 original size:99 final size:99
Alignment explanation
Indices: 5771791--5772043 Score: 346
Period size: 99 Copynumber: 2.6 Consensus size: 99
5771781 CCGGGGGCTG
* * * * * *
5771791 CGGACGAACCGGAGGACAGCAGTTCCAGCAGCGCGGGCAGCAG-CTGGGCCGAACCGGTGTCGAC
1 CGGACGAACCGGACGACAGCAGCTCCAGCAGCGCGGGCAGC-GCCTCGGCCGAACCCGCGCCGAC
* * * * * *
5771855 GGGTGTCTCGTCGGCGACCTCACCGGCAGGCGCCT
65 CGGCGCCTCATCAGCGACCTCACCCGCAGGCGCCT
* * *
5771890 CGGACGAACCGGATGACAGCAGCTCCAGCAGCGCGGGCAGCGCCTCCGCCGAGCCCGCGCCGACC
1 CGGACGAACCGGACGACAGCAGCTCCAGCAGCGCGGGCAGCGCCTCGGCCGAACCCGCGCCGACC
*
5771955 GGCGCCTCATCAGCGACCTCACCCGCCGGCGCCT
66 GGCGCCTCATCAGCGACCTCACCCGCAGGCGCCT
5771989 CGGACGAACCGGACGACAGCAGCTCCAGCAGCGCGGGCAGCGCCTCGGCCGAACC
1 CGGACGAACCGGACGACAGCAGCTCCAGCAGCGCGGGCAGCGCCTCGGCCGAACC
5772044 GGTGCCGGTG
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
98 1 0.01
99 134 0.99
ACGTcount: A:0.18, C:0.40, G:0.35, T:0.08
Consensus pattern (99 bp):
CGGACGAACCGGACGACAGCAGCTCCAGCAGCGCGGGCAGCGCCTCGGCCGAACCCGCGCCGACC
GGCGCCTCATCAGCGACCTCACCCGCAGGCGCCT
Found at i:5774438 original size:18 final size:18
Alignment explanation
Indices: 5774415--5774458 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5774405 GCGCCGTCCG
5774415 CGCTCTGCCGCGGGA-CGT
1 CGCTCTGCCGC-GGACCGT
**
5774433 CGCTCTGTTGCGGACCGT
1 CGCTCTGCCGCGGACCGT
5774451 CGCTCTGC
1 CGCTCTGC
5774459 TGGGGGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.05, C:0.39, G:0.34, T:0.23
Consensus pattern (18 bp):
CGCTCTGCCGCGGACCGT
Found at i:5789132 original size:18 final size:18
Alignment explanation
Indices: 5789088--5789141 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
5789078 CCGCCGCGTG
5789088 GGTGCCGCTGCTGGTGCT
1 GGTGCCGCTGCTGGTGCT
* * *
5789106 GGCGACGCTG-TGGTGGGT
1 GGTGCCGCTGCTGGT-GCT
*
5789124 GGTGCCGCTGCTGTTGCT
1 GGTGCCGCTGCTGGTGCT
5789142 CGGGCGCGTC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
17 4 0.15
18 20 0.74
19 3 0.11
ACGTcount: A:0.02, C:0.24, G:0.46, T:0.28
Consensus pattern (18 bp):
GGTGCCGCTGCTGGTGCT
Found at i:5815232 original size:21 final size:21
Alignment explanation
Indices: 5815208--5815269 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
5815198 GAGCCACCAC
*
5815208 CGCCGGTACCGAACGGACCGT
1 CGCCCGTACCGAACGGACCGT
* *
5815229 CGCCCGCACCGAATGGACC-T
1 CGCCCGTACCGAACGGACCGT
* *
5815249 CGCCATGTTCCGAACGGACCG
1 CGCC-CGTACCGAACGGACCG
5815270 GACCCCCAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.11
Consensus pattern (21 bp):
CGCCCGTACCGAACGGACCGT
Found at i:5817516 original size:33 final size:33
Alignment explanation
Indices: 5817413--5817516 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 33
5817403 TCGCTTCCCT
**
5817413 CGGCGGCACCGCGCCCTGCTCGGCCCGGCCGGA
1 CGGCGGCACCGCGCCCTGCTCGGCCCAACCGGA
* * * * * **
5817446 CGGCGGCACCAC-CCCGCGCTGGGCAGCATCC-CT
1 CGGCGGCACCGCGCCC-TGCTCGGC-CCAACCGGA
*
5817479 CGGCGGCACGGCGCCCTGCTCGGCCCAACCGGA
1 CGGCGGCACCGCGCCCTGCTCGGCCCAACCGGA
5817512 CGGCG
1 CGGCG
5817517 ACGCGGTCCC
Statistics
Matches: 51, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
32 7 0.14
33 38 0.75
34 6 0.12
ACGTcount: A:0.10, C:0.47, G:0.37, T:0.07
Consensus pattern (33 bp):
CGGCGGCACCGCGCCCTGCTCGGCCCAACCGGA
Found at i:5848547 original size:18 final size:18
Alignment explanation
Indices: 5848526--5848560 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5848516 CGAGCCTCCG
5848526 CCACAGCTCGAACCACCC
1 CCACAGCTCGAACCACCC
*
5848544 CCACAGCTCGAATCACC
1 CCACAGCTCGAACCACC
5848561 GCCCCAGGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.51, G:0.11, T:0.09
Consensus pattern (18 bp):
CCACAGCTCGAACCACCC
Found at i:5853125 original size:36 final size:36
Alignment explanation
Indices: 5853080--5853162 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
5853070 CGGGCCGCCC
* *
5853080 GGCGGGGGCGGCAGCAGCGGGGC-C-GACGGCTCGGGG
1 GGCGCGGGCGGCA-C-GCGGGGCGCGGACGGCACGGGG
* *
5853116 GGCGCGGGCGGCACGGGGGGCGCGGGCGGCACGGGG
1 GGCGCGGGCGGCACGCGGGGCGCGGACGGCACGGGG
5853152 GGCGC-GGCGGC
1 GGCGCGGGCGGC
5853163 GTCGACGGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 8 0.20
36 27 0.66
ACGTcount: A:0.06, C:0.29, G:0.64, T:0.01
Consensus pattern (36 bp):
GGCGCGGGCGGCACGCGGGGCGCGGACGGCACGGGG
Found at i:5853127 original size:18 final size:18
Alignment explanation
Indices: 5853106--5853162 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
5853096 GCGGGGCCGA
*
5853106 CGGCTCGGGGGGCGCGGG
1 CGGCACGGGGGGCGCGGG
5853124 CGGCACGGGGGGCGCGGG
1 CGGCACGGGGGGCGCGGG
5853142 CGGCACGGGGGGCGC-GG
1 CGGCACGGGGGGCGCGGG
5853159 CGGC
1 CGGC
5853163 GTCGACGGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 6 0.16
18 32 0.84
ACGTcount: A:0.04, C:0.30, G:0.65, T:0.02
Consensus pattern (18 bp):
CGGCACGGGGGGCGCGGG
Found at i:5856509 original size:16 final size:16
Alignment explanation
Indices: 5856488--5856531 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
5856478 AACGGGTCGG
5856488 CCGACGGGAGTGAACC
1 CCGACGGGAGTGAACC
* *
5856504 CCGACGGGAGTGAGCG
1 CCGACGGGAGTGAACC
*
5856520 CCGAAGGGAGTG
1 CCGACGGGAGTG
5856532 CACGCCGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.45, T:0.07
Consensus pattern (16 bp):
CCGACGGGAGTGAACC
Found at i:5856537 original size:16 final size:15
Alignment explanation
Indices: 5856487--5856538 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
5856477 GAACGGGTCG
5856487 GCCGACGGGAGTGAAC
1 GCCGACGGGAGTG-AC
*
5856503 CCCGACGGGAGTGAGC
1 GCCGACGGGAGTGA-C
*
5856519 GCCGAAGGGAGTGCAC
1 GCCGACGGGAGTG-AC
5856535 GCCG
1 GCCG
5856539 TGGAGTGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.21, C:0.29, G:0.44, T:0.06
Consensus pattern (15 bp):
GCCGACGGGAGTGAC
Found at i:5861225 original size:15 final size:16
Alignment explanation
Indices: 5861207--5861243 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5861197 CGGAGGCGAT
5861207 GGCGGTGGC-GCGGAG
1 GGCGGTGGCTGCGGAG
5861222 GGCGGT-GCTGCGGAG
1 GGCGGTGGCTGCGGAG
*
5861237 GGTGGTG
1 GGCGGTG
5861244 TTCATGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.05, C:0.16, G:0.65, T:0.14
Consensus pattern (16 bp):
GGCGGTGGCTGCGGAG
Found at i:5870820 original size:19 final size:21
Alignment explanation
Indices: 5870782--5870820 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5870772 CCGGAGCACT
*
5870782 TCGAGATCGGCGGCTCGGGGA
1 TCGAGATCGGAGGCTCGGGGA
5870803 TCGAGAT-GGAGG-TCGGGG
1 TCGAGATCGGAGGCTCGGGG
5870821 TCGTCGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.15, C:0.18, G:0.51, T:0.15
Consensus pattern (21 bp):
TCGAGATCGGAGGCTCGGGGA
Found at i:5878829 original size:18 final size:18
Alignment explanation
Indices: 5878806--5878845 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5878796 GAGGGCTCCA
*
5878806 CCGATCGGGAC-GACGCTG
1 CCGATCCGGACAG-CGCTG
5878824 CCGATCCGGACAGCGCTG
1 CCGATCCGGACAGCGCTG
5878842 CCGA
1 CCGA
5878846 GGACACCGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.17, C:0.38, G:0.35, T:0.10
Consensus pattern (18 bp):
CCGATCCGGACAGCGCTG
Found at i:5887036 original size:15 final size:15
Alignment explanation
Indices: 5886997--5887037 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
5886987 GGGTGGCCGC
5886997 CCGCCGCAGGGCAGG
1 CCGCCGCAGGGCAGG
* *
5887012 CCACCCCAGGGCAGG
1 CCGCCGCAGGGCAGG
5887027 CCGCCGCAGGG
1 CCGCCGCAGGG
5887038 TGCGCCCGCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.44, G:0.41, T:0.00
Consensus pattern (15 bp):
CCGCCGCAGGGCAGG
Found at i:5893558 original size:24 final size:24
Alignment explanation
Indices: 5893531--5893588 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
5893521 TTGCGCAGCG
*
5893531 TGACCCGCTGGCCCTT-CTGCAGGC
1 TGACCCGCCGGCCCTTGCTG-AGGC
* *
5893555 TGACCGGCCGGTCCTTGCTGAGGC
1 TGACCCGCCGGCCCTTGCTGAGGC
5893579 TGACCTCGCC
1 TGACC-CGCC
5893589 CTGTGTGCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.09, C:0.40, G:0.31, T:0.21
Consensus pattern (24 bp):
TGACCCGCCGGCCCTTGCTGAGGC
Found at i:5893742 original size:30 final size:32
Alignment explanation
Indices: 5893708--5893768 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
5893698 CCGCCGGGCA
5893708 CCTGCTGGGT-G-GGCGGGTAGGCGGGCGCGG
1 CCTGCTGGGTGGCGGCGGGTAGGCGGGCGCGG
5893738 CCTGCTGGGTGGGCGGCGGGTAGGCGGGCGC
1 CCTGCTGGGT-GGCGGCGGGTAGGCGGGCGC
5893769 CGTCGGCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 10 0.36
32 1 0.04
33 17 0.61
ACGTcount: A:0.03, C:0.25, G:0.59, T:0.13
Consensus pattern (32 bp):
CCTGCTGGGTGGCGGCGGGTAGGCGGGCGCGG
Found at i:5893786 original size:33 final size:33
Alignment explanation
Indices: 5893719--5893788 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
5893709 CTGCTGGGTG
* * ***
5893719 GGCGGGTAGGCGGGCGCGGCCTGCTGGGTGGGC
1 GGCGGGTAGGCGGGCGCCGCCGGCTGGACAGGC
*
5893752 GGCGGGTAGGCGGGCGCCGTCGGCTGGACAGGC
1 GGCGGGTAGGCGGGCGCCGCCGGCTGGACAGGC
5893785 GGCG
1 GGCG
5893789 CGGGCTGCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.06, C:0.26, G:0.59, T:0.10
Consensus pattern (33 bp):
GGCGGGTAGGCGGGCGCCGCCGGCTGGACAGGC
Found at i:5893808 original size:15 final size:15
Alignment explanation
Indices: 5893788--5893821 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
5893778 GACAGGCGGC
5893788 GCGGGCTGCTGGGCG
1 GCGGGCTGCTGGGCG
5893803 GCGGGCTGCTGGGCG
1 GCGGGCTGCTGGGCG
5893818 GCGG
1 GCGG
5893822 ACGACGAATC
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:0.00, C:0.26, G:0.62, T:0.12
Consensus pattern (15 bp):
GCGGGCTGCTGGGCG
Found at i:5898759 original size:27 final size:27
Alignment explanation
Indices: 5898681--5898759 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
5898671 GGGGATAGTC
* * *
5898681 CGCTCGACGGCAGCCCCCTCGGCGATG
1 CGCTCGGCGGCAGGCCCCTCGGCGGTG
*
5898708 CGCTCGGCGGCAGGACCCTCGGCGGTG
1 CGCTCGGCGGCAGGCCCCTCGGCGGTG
* *
5898735 CGCTCGGCGGTAGGCCCCTGGGCGG
1 CGCTCGGCGGCAGGCCCCTCGGCGG
5898760 CGGCGGTGCG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.08, C:0.39, G:0.42, T:0.11
Consensus pattern (27 bp):
CGCTCGGCGGCAGGCCCCTCGGCGGTG
Found at i:5898775 original size:15 final size:15
Alignment explanation
Indices: 5898757--5898793 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5898747 GGCCCCTGGG
5898757 CGGCGGCGGTGCGCT
1 CGGCGGCGGTGCGCT
*
5898772 CGGCAGCGGTGCGCT
1 CGGCGGCGGTGCGCT
*
5898787 CGACGGC
1 CGGCGGC
5898794 AGGCCCCTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.05, C:0.35, G:0.49, T:0.11
Consensus pattern (15 bp):
CGGCGGCGGTGCGCT
Found at i:5898787 original size:75 final size:74
Alignment explanation
Indices: 5898706--5898877 Score: 222
Period size: 75 Copynumber: 2.3 Consensus size: 74
5898696 CCCTCGGCGA
* * *
5898706 TGCGCTCGGCGGCAGGACCCTCGGCGGTGCGCTCGGCGGTAGGCCCCTGGGCGGCGGCGGTGCGC
1 TGCGCTC-GCGGCAGGACCCTCGGCGGTGCGCTCGGCGGCAGGCCCCTCGGCGGCGGCGATGCGC
5898771 TCGGCAGCGG
65 TCGGCAGCGG
* * * * * *
5898781 TGCGCTCGACGGCAGGCCCCTGGGCGGTGCGGTCGGTGGCATGCCCCTCGGCGGCGGCGATGTGC
1 TGCGCTCG-CGGCAGGACCCTCGGCGGTGCGCTCGGCGGCAGGCCCCTCGGCGGCGGCGATGCGC
5898846 TCGGCAGCGG
65 TCGGCAGCGG
*
5898856 TGCACT--CGGCAGGACCCTCGGC
1 TGCGCTCGCGGCAGGACCCTCGGC
5898878 TGCGGCCCGC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
72 14 0.17
74 1 0.01
75 69 0.82
ACGTcount: A:0.07, C:0.35, G:0.45, T:0.13
Consensus pattern (74 bp):
TGCGCTCGCGGCAGGACCCTCGGCGGTGCGCTCGGCGGCAGGCCCCTCGGCGGCGGCGATGCGCT
CGGCAGCGG
Found at i:5898821 original size:27 final size:27
Alignment explanation
Indices: 5898777--5898834 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
5898767 GCGCTCGGCA
* *
5898777 GCGGTGCGCTCGACGGCAGGCCCCTGG
1 GCGGTGCGCTCGGCGGCAGGCCCCTCG
* * *
5898804 GCGGTGCGGTCGGTGGCATGCCCCTCG
1 GCGGTGCGCTCGGCGGCAGGCCCCTCG
5898831 GCGG
1 GCGG
5898835 CGGCGATGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.05, C:0.34, G:0.47, T:0.14
Consensus pattern (27 bp):
GCGGTGCGCTCGGCGGCAGGCCCCTCG
Found at i:5930182 original size:6 final size:6
Alignment explanation
Indices: 5930171--5930248 Score: 156
Period size: 6 Copynumber: 13.0 Consensus size: 6
5930161 AACGAAATCC
5930171 GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG
1 GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG
5930219 GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG
1 GCAGCG GCAGCG GCAGCG GCAGCG GCAGCG
5930249 AGGAGGGTAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.17, C:0.33, G:0.50, T:0.00
Consensus pattern (6 bp):
GCAGCG
Found at i:5931986 original size:15 final size:14
Alignment explanation
Indices: 5931968--5932015 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
5931958 GTCACGGTGC
5931968 CCGACGGTACGGCGG
1 CCGACGGTACGG-GG
*
5931983 CCGACGGTACCGGGC
1 CCGACGGTA-CGGGG
5931998 CCGACGGTACGGTGG
1 CCGACGGTACGG-GG
5932013 CCG
1 CCG
5932016 TGGCCCGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.12, C:0.35, G:0.44, T:0.08
Consensus pattern (14 bp):
CCGACGGTACGGGG
Found at i:5932449 original size:21 final size:22
Alignment explanation
Indices: 5932408--5932449 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5932398 CGCACCGCAC
* *
5932408 GCACTGACCGGTGACGTCGTGG
1 GCACCGACCGGTGACGGCGTGG
5932430 GCACCGACCGG-GACGGCGTG
1 GCACCGACCGGTGACGGCGTG
5932450 CCGTTGCTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.14, C:0.31, G:0.43, T:0.12
Consensus pattern (22 bp):
GCACCGACCGGTGACGGCGTGG
Found at i:5938705 original size:19 final size:18
Alignment explanation
Indices: 5938658--5938728 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
5938648 CGCCGAACAC
* *
5938658 CTGCGTGGTCGGATGCAT
1 CTGCGTGGTCGGAGGCAG
**
5938676 CTGCGCAGTCGGAGGCACG
1 CTGCGTGGTCGGAGGCA-G
*
5938695 CTGCGTGGTCGGAGGCAT
1 CTGCGTGGTCGGAGGCAG
* *
5938713 CTTCGTGATCGGAGGC
1 CTGCGTGGTCGGAGGC
5938729 GGAGCGCAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
18 28 0.65
19 15 0.35
ACGTcount: A:0.13, C:0.25, G:0.41, T:0.21
Consensus pattern (18 bp):
CTGCGTGGTCGGAGGCAG
Found at i:5944621 original size:24 final size:24
Alignment explanation
Indices: 5944593--5944677 Score: 143
Period size: 24 Copynumber: 3.5 Consensus size: 24
5944583 GGCGGCACCC
*
5944593 CGGCGCCGGGTGAGCCCAGCGTCT
1 CGGCGCCGGTTGAGCCCAGCGTCT
5944617 CGGCGCCGGTTGAGCCCAGCGTCT
1 CGGCGCCGGTTGAGCCCAGCGTCT
* *
5944641 CGGCGCCGGTTGAACTCAGCGTCT
1 CGGCGCCGGTTGAGCCCAGCGTCT
5944665 CGGCGCCGGTTGA
1 CGGCGCCGGTTGA
5944678 ACTCAGCGCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.09, C:0.35, G:0.39, T:0.16
Consensus pattern (24 bp):
CGGCGCCGGTTGAGCCCAGCGTCT
Found at i:5961794 original size:16 final size:16
Alignment explanation
Indices: 5961770--5961813 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
5961760 CGGGCCGACG
*
5961770 CTCGGGGAGTGGAACA
1 CTCGAGGAGTGGAACA
*
5961786 CTCGAGGAGT-GAACG
1 CTCGAGGAGTGGAACA
5961801 CTCGAGGAGTGGA
1 CTCGAGGAGTGGA
5961814 GGAAAGGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.25, C:0.18, G:0.43, T:0.14
Consensus pattern (16 bp):
CTCGAGGAGTGGAACA
Found at i:5962480 original size:15 final size:15
Alignment explanation
Indices: 5962460--5962495 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5962450 GACGCACCGG
* *
5962460 CCGCCGTGGCCTCAT
1 CCGCCGTCGCCTCAC
5962475 CCGCCGTCGCCTCAC
1 CCGCCGTCGCCTCAC
5962490 CCGCCG
1 CCGCCG
5962496 ATGCCCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.56, G:0.25, T:0.14
Consensus pattern (15 bp):
CCGCCGTCGCCTCAC
Found at i:5971759 original size:15 final size:15
Alignment explanation
Indices: 5971741--5971771 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5971731 GCCCGCGAAC
5971741 GGCGACGGCGCGGCG
1 GGCGACGGCGCGGCG
*
5971756 GGCGACTGCGCGGCG
1 GGCGACGGCGCGGCG
5971771 G
1 G
5971772 CGGCCCGGCT
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:0.32, G:0.58, T:0.03
Consensus pattern (15 bp):
GGCGACGGCGCGGCG
Found at i:5985928 original size:21 final size:21
Alignment explanation
Indices: 5985904--5985947 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
5985894 ACCGCCCGGG
* *
5985904 GGCGGATACTGTCCGGGCGGC
1 GGCGGATACTGGCCGGGAGGC
* *
5985925 GGCGGGTATTGGCCGGGAGGC
1 GGCGGATACTGGCCGGGAGGC
5985946 GG
1 GG
5985948 ATACTGGCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.55, T:0.14
Consensus pattern (21 bp):
GGCGGATACTGGCCGGGAGGC
Found at i:5985955 original size:18 final size:18
Alignment explanation
Indices: 5985897--5985971 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
5985887 AGTACTGACC
5985897 GCCCGGGGGCGGATACTG
1 GCCCGGGGGCGGATACTG
* * * *
5985915 TCCGGGCGGCGGCGGGTATTG
1 GCC---CGGGGGCGGATACTG
5985936 G-CCGGGAGGCGGATACTG
1 GCCCGGG-GGCGGATACTG
*
5985954 GCCCGGGGGCGGGTACTG
1 GCCCGGGGGCGGATACTG
5985972 CGACATGAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
17 3 0.07
18 22 0.51
19 5 0.12
20 1 0.02
21 12 0.28
ACGTcount: A:0.09, C:0.25, G:0.52, T:0.13
Consensus pattern (18 bp):
GCCCGGGGGCGGATACTG
Found at i:5991001 original size:18 final size:18
Alignment explanation
Indices: 5990978--5991036 Score: 118
Period size: 18 Copynumber: 3.3 Consensus size: 18
5990968 GGCGGACACC
5990978 GGCAGTGGCTCCTCGGCG
1 GGCAGTGGCTCCTCGGCG
5990996 GGCAGTGGCTCCTCGGCG
1 GGCAGTGGCTCCTCGGCG
5991014 GGCAGTGGCTCCTCGGCG
1 GGCAGTGGCTCCTCGGCG
5991032 GGCAG
1 GGCAG
5991037 CGGCGACAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.07, C:0.32, G:0.46, T:0.15
Consensus pattern (18 bp):
GGCAGTGGCTCCTCGGCG
Found at i:6007995 original size:17 final size:17
Alignment explanation
Indices: 6007973--6008006 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6007963 TCGCCGAACA
6007973 GCTTCGAGCACGACAGC
1 GCTTCGAGCACGACAGC
6007990 GCTTCGAGCACGACAGC
1 GCTTCGAGCACGACAGC
6008007 AAGGAGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.12
Consensus pattern (17 bp):
GCTTCGAGCACGACAGC
Found at i:6013760 original size:10 final size:10
Alignment explanation
Indices: 6013745--6013818 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
6013735 TCCGGGTTCG
6013745 CGGCGGGCGT
1 CGGCGGGCGT
6013755 CGGCGGG-GT
1 CGGCGGGCGT
6013764 C--CGGGTCCG-
1 CGGCGGG--CGT
6013773 CGGCGGGCGT
1 CGGCGGGCGT
6013783 CGGCGGGC-T
1 CGGCGGGCGT
6013792 C--CGGGTTCG-
1 CGGCGGG--CGT
6013801 CGGCGGGCGT
1 CGGCGGGCGT
6013811 CGGCGGGC
1 CGGCGGGC
6013819 TCCGGGGTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 24
0.68 0.00 0.32
Matches are distributed among these distances:
7 8 0.15
9 12 0.23
10 24 0.46
11 8 0.15
ACGTcount: A:0.00, C:0.32, G:0.57, T:0.11
Consensus pattern (10 bp):
CGGCGGGCGT
Found at i:6013761 original size:28 final size:28
Alignment explanation
Indices: 6013726--6013862 Score: 197
Period size: 28 Copynumber: 4.9 Consensus size: 28
6013716 CCAGGGGCCA
*
6013726 TCGGCGGGGTCCGGGTTCGCGGCGGGCG
1 TCGGCGGGCTCCGGGTTCGCGGCGGGCG
* *
6013754 TCGGCGGGGTCCGGGTCCGCGGCGGGCG
1 TCGGCGGGCTCCGGGTTCGCGGCGGGCG
6013782 TCGGCGGGCTCCGGGTTCGCGGCGGGCG
1 TCGGCGGGCTCCGGGTTCGCGGCGGGCG
* *
6013810 TCGGCGGGCTCCGGGGTT-GCGGCGGCCA
1 TCGGCGGGCTCC-GGGTTCGCGGCGGGCG
6013838 TCGGCGGGCTCCGGGGTT-GCGGCGG
1 TCGGCGGGCTCC-GGGTTCGCGGCGG
6013863 CCATGGTCGC
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
28 98 0.95
29 5 0.05
ACGTcount: A:0.01, C:0.31, G:0.55, T:0.14
Consensus pattern (28 bp):
TCGGCGGGCTCCGGGTTCGCGGCGGGCG
Found at i:6014493 original size:18 final size:18
Alignment explanation
Indices: 6014297--6014494 Score: 227
Period size: 18 Copynumber: 11.1 Consensus size: 18
6014287 AGCACTGGTT
* *
6014297 CGGGCTCAGCGGCGGGTT
1 CGGGCTCAGCGGCCGGTC
*
6014315 CGGGCTCAGCGGCCGGTT
1 CGGGCTCAGCGGCCGGTC
*
6014333 CGGGCTCAGCGGCCGGTT
1 CGGGCTCAGCGGCCGGTC
* * *
6014351 CGGGCTCAGCCGCTGGTT
1 CGGGCTCAGCGGCCGGTC
*
6014369 CGGGCTC-GCGGCTGGTC
1 CGGGCTCAGCGGCCGGTC
* *
6014386 TGGGCTCAGCGGCCAGTC
1 CGGGCTCAGCGGCCGGTC
*
6014404 CGGGCTCAGCGGCCAGTC
1 CGGGCTCAGCGGCCGGTC
* * *
6014422 CGCGCTGAGCGGCCAGTC
1 CGGGCTCAGCGGCCGGTC
* *
6014440 CGCGCTGAGCGGCCGGTC
1 CGGGCTCAGCGGCCGGTC
*
6014458 CGGGCTCAGCCGCCGGTC
1 CGGGCTCAGCGGCCGGTC
*
6014476 CGGGCTCAGCCGCCGGTC
1 CGGGCTCAGCGGCCGGTC
6014494 C
1 C
6014495 TATCCCGTGC
Statistics
Matches: 164, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
17 14 0.09
18 150 0.91
ACGTcount: A:0.07, C:0.37, G:0.42, T:0.15
Consensus pattern (18 bp):
CGGGCTCAGCGGCCGGTC
Found at i:6014711 original size:18 final size:18
Alignment explanation
Indices: 6014700--6014837 Score: 206
Period size: 18 Copynumber: 7.7 Consensus size: 18
6014690 GAGTTCGCCG
* *
6014700 CCACCCACGAGTTCGC-C
1 CCACCCACCAGTCCGCGC
6014717 GCCACCCACCAGTCCGCGC
1 -CCACCCACCAGTCCGCGC
* *
6014736 CCACCCACGAATCCGCGC
1 CCACCCACCAGTCCGCGC
6014754 CCACCCACCAGTCCGCGC
1 CCACCCACCAGTCCGCGC
6014772 CCACCCACCAGTCCGCGC
1 CCACCCACCAGTCCGCGC
*
6014790 CCACCCACCAGTCCACGC
1 CCACCCACCAGTCCGCGC
*
6014808 CCACCCACCAGTCCACGC
1 CCACCCACCAGTCCGCGC
6014826 CCACCCACCAGT
1 CCACCCACCAGT
6014838 AGGGGCTCGA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
18 111 0.99
19 1 0.01
ACGTcount: A:0.20, C:0.59, G:0.15, T:0.07
Consensus pattern (18 bp):
CCACCCACCAGTCCGCGC
Found at i:6015335 original size:33 final size:33
Alignment explanation
Indices: 6015297--6015433 Score: 220
Period size: 33 Copynumber: 4.2 Consensus size: 33
6015287 GTCCCTCGGT
*
6015297 GGCGGCCTTCGCTCGCGAGGCGTCGGCGTCCTC
1 GGCGGCCTTGGCTCGCGAGGCGTCGGCGTCCTC
*
6015330 GGCGGCATTGGCTCGCGAGGCGTCGGCGTCCTC
1 GGCGGCCTTGGCTCGCGAGGCGTCGGCGTCCTC
*
6015363 GGCGGCGTTGGCTCGCGAGGCGTCGGCGTCCTC
1 GGCGGCCTTGGCTCGCGAGGCGTCGGCGTCCTC
* *
6015396 GGCGGCCTTGGCCCGCGAGGCGTCGACGTCCTC
1 GGCGGCCTTGGCTCGCGAGGCGTCGGCGTCCTC
*
6015429 CGCGG
1 GGCGG
6015434 ACTGCCGGCG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 97 1.00
ACGTcount: A:0.04, C:0.36, G:0.42, T:0.17
Consensus pattern (33 bp):
GGCGGCCTTGGCTCGCGAGGCGTCGGCGTCCTC
Done.