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 5 of 7
Found at i:1929627 original size:15 final size:14
Alignment explanation
Indices: 1929609--1929680 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 14
1929599 CGTTACAGCG
*
1929609 CCGACCGTTTCGGAC
1 CCGACCGGTTCGG-C
*
1929624 CCGAGCGGTTCGGC
1 CCGACCGGTTCGGC
* *
1929638 GCCGAGCGCTTCGGCC
1 -CCGACCGGTTCGG-C
*
1929654 CCGACCGGTTCGGTG
1 CCGACCGGTTCGG-C
1929669 CCGACCGGTTCG
1 CCGACCGGTTCG
1929681 ACGAGGACGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 46 0.96
16 1 0.02
ACGTcount: A:0.08, C:0.39, G:0.36, T:0.17
Consensus pattern (14 bp):
CCGACCGGTTCGGC
Found at i:1929640 original size:30 final size:30
Alignment explanation
Indices: 1929606--1929680 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
1929596 GATCGTTACA
* *
1929606 GCGCCGACCGTTTCGGACCCGAGCGGTTCG
1 GCGCCGACCGCTTCGGACCCGACCGGTTCG
* *
1929636 GCGCCGAGCGCTTCGGCCCCGACCGGTTCG
1 GCGCCGACCGCTTCGGACCCGACCGGTTCG
* *
1929666 GTGCCGACCGGTTCG
1 GCGCCGACCGCTTCG
1929681 ACGAGGACGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.08, C:0.39, G:0.37, T:0.16
Consensus pattern (30 bp):
GCGCCGACCGCTTCGGACCCGACCGGTTCG
Found at i:1935761 original size:18 final size:18
Alignment explanation
Indices: 1935738--1935787 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
1935728 AGCGCCGGCA
1935738 GTTCCGGATCGGGCTCCG
1 GTTCCGGATCGGGCTCCG
*
1935756 GTTCCGGATCGGGGTCCG
1 GTTCCGGATCGGGCTCCG
* *
1935774 GCTCCGGCTCGGGC
1 GTTCCGGATCGGGC
1935788 AGCTCCAGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.04, C:0.34, G:0.42, T:0.20
Consensus pattern (18 bp):
GTTCCGGATCGGGCTCCG
Found at i:1948329 original size:15 final size:15
Alignment explanation
Indices: 1948306--1948352 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
1948296 TCGATGGTGC
*
1948306 CGGGATCGAGGGCGT
1 CGGGGTCGAGGGCGT
*
1948321 TGGGGTCGAGGGCGT
1 CGGGGTCGAGGGCGT
1948336 CGGGGTCGAGGGCGT
1 CGGGGTCGAGGGCGT
1948351 CG
1 CG
1948353 CGCAGCTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.09, C:0.19, G:0.57, T:0.15
Consensus pattern (15 bp):
CGGGGTCGAGGGCGT
Found at i:1949731 original size:15 final size:15
Alignment explanation
Indices: 1949713--1949742 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1949703 CGTTCTCCTC
*
1949713 TCCCTTGCTCTCGGA
1 TCCCTTGCGCTCGGA
1949728 TCCCTTGCGCTCGGA
1 TCCCTTGCGCTCGGA
1949743 ATCGGTGGGC
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:0.07, C:0.40, G:0.23, T:0.30
Consensus pattern (15 bp):
TCCCTTGCGCTCGGA
Found at i:1967435 original size:15 final size:15
Alignment explanation
Indices: 1967412--1967460 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1967402 TGAACTGTTC
*
1967412 GATCCAATACGCGGT
1 GATCGAATACGCGGT
1967427 GATCGAATAC-CGGGT
1 GATCGAATACGC-GGT
*
1967442 GATCGAATACGGGGT
1 GATCGAATACGCGGT
1967457 GATC
1 GATC
1967461 CAATGCGGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (15 bp):
GATCGAATACGCGGT
Found at i:1972650 original size:9 final size:9
Alignment explanation
Indices: 1972636--1972660 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1972626 CGTTCCACGT
1972636 CGGCGGCCG
1 CGGCGGCCG
1972645 CGGCGGCCG
1 CGGCGGCCG
1972654 CGGCGGC
1 CGGCGGC
1972661 GTCGTAGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (9 bp):
CGGCGGCCG
Found at i:1987945 original size:13 final size:13
Alignment explanation
Indices: 1987929--1987963 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1987919 CGGAGCGGAA
1987929 ACGCTGAGCCGAG
1 ACGCTGAGCCGAG
*
1987942 ACGCCGAGCCGAG
1 ACGCTGAGCCGAG
*
1987955 AGGCTGAGC
1 ACGCTGAGC
1987964 GTGGCACGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.40, T:0.06
Consensus pattern (13 bp):
ACGCTGAGCCGAG
Found at i:2023440 original size:77 final size:77
Alignment explanation
Indices: 2023273--2023547 Score: 471
Period size: 77 Copynumber: 3.6 Consensus size: 77
2023263 GACCGGTCAC
* *
2023273 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGT-ATCGGATGTCGCCCGAGCGGGGCG
1 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCT-GGAT-TTGCCCGAGCGGGGCG
2023337 GCCTGCGTGGTGAT
64 GCCTGCGTGGTGAT
*
2023351 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCTGGATTTGCCCGGGCGGGGCGGC
1 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCTGGATTTGCCCGAGCGGGGCGGC
2023416 CTGCGTGGTGAT
66 CTGCGTGGTGAT
*
2023428 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCTGGATTTGCCCGAGTGGGGCGGC
1 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCTGGATTTGCCCGAGCGGGGCGGC
2023493 CTGCGTGGTGAT
66 CTGCGTGGTGAT
* *
2023505 GCTGCGCTGCCACCTCCGGCCGCTGACCCGCTCGGGCGGTGCT
1 GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCT
2023548 CGCGGCCCGG
Statistics
Matches: 189, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
77 144 0.76
78 44 0.23
79 1 0.01
ACGTcount: A:0.05, C:0.36, G:0.40, T:0.19
Consensus pattern (77 bp):
GCTGCGCTGCCGCCTCCGGCCGCTGACCCGCTCGGGCTGTGCTGGATTTGCCCGAGCGGGGCGGC
CTGCGTGGTGAT
Found at i:2034902 original size:18 final size:18
Alignment explanation
Indices: 2034879--2034913 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2034869 CCGCCACCGA
*
2034879 CTCCGCCTCCAACTCCGC
1 CTCCGCCACCAACTCCGC
*
2034897 CTCCGCCACCGACTCCG
1 CTCCGCCACCAACTCCG
2034914 ACTTCGGCGA
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:0.11, C:0.60, G:0.14, T:0.14
Consensus pattern (18 bp):
CTCCGCCACCAACTCCGC
Found at i:2035108 original size:15 final size:15
Alignment explanation
Indices: 2035048--2035112 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
2035038 GGCAGACACC
* *
2035048 TCCGCCGCCGACCAG
1 TCCGCTGCCGACAAG
*
2035063 CCCGCTGCCGACAAG
1 TCCGCTGCCGACAAG
2035078 TCCGGCT-CCG-CGAAG
1 TCC-GCTGCCGAC-AAG
2035093 TCCGCTGCCGACAAG
1 TCCGCTGCCGACAAG
2035108 TCCGC
1 TCCGC
2035113 CGGGAAGTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 4 0.10
15 34 0.81
16 4 0.10
ACGTcount: A:0.15, C:0.46, G:0.28, T:0.11
Consensus pattern (15 bp):
TCCGCTGCCGACAAG
Found at i:2035490 original size:45 final size:45
Alignment explanation
Indices: 2035426--2035512 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
2035416 GGGCGCGGGC
* *
2035426 CAGCAGCCGTACGGCCAGCAGAGTGACCCGTACGCGCAGCAGCCG
1 CAGCAGCCCTACGGCCAGCAGAGCGACCCGTACGCGCAGCAGCCG
* *
2035471 CAGCAGCCCTACGGGCAGCAGAGCGATCCGTACGCGCAGCAG
1 CAGCAGCCCTACGGCCAGCAGAGCGACCCGTACGCGCAGCAG
2035513 GCGGCCTACG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.23, C:0.37, G:0.33, T:0.07
Consensus pattern (45 bp):
CAGCAGCCCTACGGCCAGCAGAGCGACCCGTACGCGCAGCAGCCG
Found at i:2035504 original size:21 final size:21
Alignment explanation
Indices: 2035432--2035512 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 21
2035422 GGGCCAGCAG
*
2035432 CCGTACG-GCCAGCAGAGTGAC
1 CCGTACGCG-CAGCAGAGCGAC
*
2035453 CCGTACGCGCAGCAGCCGCAGCAGC
1 CCGTACGCGCAGCAG-AGC-G-A-C
* *
2035478 CC-TACGGGCAGCAGAGCGAT
1 CCGTACGCGCAGCAGAGCGAC
2035498 CCGTACGCGCAGCAG
1 CCGTACGCGCAGCAG
2035513 GCGGCCTACG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 2 0.04
21 25 0.52
22 3 0.06
23 3 0.06
24 12 0.25
25 3 0.06
ACGTcount: A:0.22, C:0.37, G:0.33, T:0.07
Consensus pattern (21 bp):
CCGTACGCGCAGCAGAGCGAC
Found at i:2035512 original size:24 final size:24
Alignment explanation
Indices: 2035441--2035512 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
2035431 GCCGTACGGC
*
2035441 CAGCAGAGTGACCCGTACGCGCAG
1 CAGCAGAGCGACCCGTACGCGCAG
*
2035465 CAGCCGCAGC-AGCCC-TACG-G--G
1 CAGCAG-AGCGA-CCCGTACGCGCAG
*
2035486 CAGCAGAGCGATCCGTACGCGCAG
1 CAGCAGAGCGACCCGTACGCGCAG
2035510 CAG
1 CAG
2035513 GCGGCCTACG
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
20 5 0.14
21 11 0.30
22 1 0.03
23 1 0.03
24 14 0.38
25 5 0.14
ACGTcount: A:0.24, C:0.36, G:0.33, T:0.07
Consensus pattern (24 bp):
CAGCAGAGCGACCCGTACGCGCAG
Found at i:2035537 original size:15 final size:15
Alignment explanation
Indices: 2035517--2035558 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
2035507 CAGCAGGCGG
2035517 CCTACGGCCAGCAGC
1 CCTACGGCCAGCAGC
2035532 CCTACGGCCAGCAGC
1 CCTACGGCCAGCAGC
*
2035547 CGTACGGCCAGC
1 CCTACGGCCAGC
2035559 CCGGCTACGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.19, C:0.45, G:0.29, T:0.07
Consensus pattern (15 bp):
CCTACGGCCAGCAGC
Found at i:2035567 original size:15 final size:15
Alignment explanation
Indices: 2035549--2035578 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2035539 CCAGCAGCCG
2035549 TACGGCCAGCCCGGC
1 TACGGCCAGCCCGGC
*
2035564 TACGGTCAGCCCGGC
1 TACGGCCAGCCCGGC
2035579 GGCTACCCGC
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:0.13, C:0.43, G:0.33, T:0.10
Consensus pattern (15 bp):
TACGGCCAGCCCGGC
Found at i:2046223 original size:27 final size:28
Alignment explanation
Indices: 2046193--2046270 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
2046183 GGGATGGCGT
*
2046193 CGAGCCGGGCGG-CGAGCGGGCCGGGGC
1 CGAGCCGGGCGGCCGAGCAGGCCGGGGC
*
2046220 CGAGCC-GGCGGCCGGGCAGGCCGGGGC
1 CGAGCCGGGCGGCCGAGCAGGCCGGGGC
*
2046247 CGAGCCGGAG-GG-CGGGCAGGCCGG
1 CGAGCCGG-GCGGCCGAGCAGGCCGG
2046271 CGGGGAGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.11
27 37 0.80
28 3 0.07
29 1 0.02
ACGTcount: A:0.09, C:0.33, G:0.58, T:0.00
Consensus pattern (28 bp):
CGAGCCGGGCGGCCGAGCAGGCCGGGGC
Found at i:2049531 original size:12 final size:14
Alignment explanation
Indices: 2049512--2049551 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 14
2049502 TCAAGGCCAT
2049512 GTCCTACGGGCTG-
1 GTCCTACGGGCTGA
2049525 G-CCTACGGGCTGA
1 GTCCTACGGGCTGA
2049538 GTTCCTACGGGCTG
1 G-TCCTACGGGCTG
2049552 TCCGCCCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
15 11 0.46
ACGTcount: A:0.10, C:0.30, G:0.38, T:0.23
Consensus pattern (14 bp):
GTCCTACGGGCTGA
Found at i:2054246 original size:18 final size:17
Alignment explanation
Indices: 2054220--2054282 Score: 99
Period size: 17 Copynumber: 3.6 Consensus size: 17
2054210 GTGCATCGGC
2054220 GGTAGCGCGGCAAGGGT
1 GGTAGCGCGGCAAGGGT
2054237 GGTCAGCGCGGCAAGGGT
1 GGT-AGCGCGGCAAGGGT
* *
2054255 GGAAGCGCGGCCAGGGT
1 GGTAGCGCGGCAAGGGT
2054272 GGTAGCGCGGC
1 GGTAGCGCGGC
2054283 GAGCCGGACG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
17 26 0.62
18 16 0.38
ACGTcount: A:0.16, C:0.22, G:0.52, T:0.10
Consensus pattern (17 bp):
GGTAGCGCGGCAAGGGT
Found at i:2059498 original size:16 final size:16
Alignment explanation
Indices: 2059479--2059512 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2059469 GCGAGCCCGA
*
2059479 GCCGGTGGGTTGAGCG
1 GCCGGTGGGCTGAGCG
2059495 GCCGGTGGGCTGAGCG
1 GCCGGTGGGCTGAGCG
2059511 GC
1 GC
2059513 TCAGAGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.56, T:0.15
Consensus pattern (16 bp):
GCCGGTGGGCTGAGCG
Found at i:2085546 original size:21 final size:23
Alignment explanation
Indices: 2085504--2085547 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
2085494 CGTCGCGCCC
2085504 GCCCACCCGCGCCTGCTGGACGG
1 GCCCACCCGCGCCTGCTGGACGG
*
2085527 GCCCACCC-CG-CTGGTGGACGG
1 GCCCACCCGCGCCTGCTGGACGG
2085548 ACTCACGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 2 0.10
23 8 0.40
ACGTcount: A:0.09, C:0.45, G:0.36, T:0.09
Consensus pattern (23 bp):
GCCCACCCGCGCCTGCTGGACGG
Found at i:2090333 original size:15 final size:15
Alignment explanation
Indices: 2090321--2090372 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
2090311 GCCCAAGAGT
2090321 GCGGCCGCGAAGAAG
1 GCGGCCGCGAAGAAG
*
2090336 GCAGCCGCGAAGAAG
1 GCGGCCGCGAAGAAG
*
2090351 GCGGCGGCGAAGAAG
1 GCGGCCGCGAAGAAG
2090366 GCGGCCG
1 GCGGCCG
2090373 GGGAGTCGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.48, T:0.00
Consensus pattern (15 bp):
GCGGCCGCGAAGAAG
Found at i:2094863 original size:27 final size:28
Alignment explanation
Indices: 2094833--2094892 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
2094823 CCGAGGCGTT
* *
2094833 CGAGGCGCGCCG-CGCGGTGCTGCTGGC
1 CGAGGCGCGACGCCGCGGTGCTGCTCGC
*
2094860 CGA-GCGCGACGCCGCGGTGCTGGTCGC
1 CGAGGCGCGACGCCGCGGTGCTGCTCGC
2094887 CGAGGC
1 CGAGGC
2094893 CATCGACGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.07, C:0.37, G:0.47, T:0.10
Consensus pattern (28 bp):
CGAGGCGCGACGCCGCGGTGCTGCTCGC
Found at i:2096130 original size:15 final size:15
Alignment explanation
Indices: 2096110--2096138 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2096100 TCCTGGTGCT
2096110 CGAGCCGGGCACCGC
1 CGAGCCGGGCACCGC
2096125 CGAGCCGGGCACCG
1 CGAGCCGGGCACCG
2096139 ACGCCAACGA
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:0.14, C:0.45, G:0.41, T:0.00
Consensus pattern (15 bp):
CGAGCCGGGCACCGC
Found at i:2148243 original size:21 final size:20
Alignment explanation
Indices: 2148219--2148257 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2148209 GCCGCCGGAA
*
2148219 GAGCCGGTCGAACTCGGCGAC
1 GAGCCGGACGAAC-CGGCGAC
2148240 GAGCCGGACGAACCGGCG
1 GAGCCGGACGAACCGGCG
2148258 GTCGACGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.33, G:0.41, T:0.05
Consensus pattern (20 bp):
GAGCCGGACGAACCGGCGAC
Found at i:2149787 original size:13 final size:13
Alignment explanation
Indices: 2149769--2149801 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2149759 TCACAGCACG
2149769 GTAGGGCAGTGCA
1 GTAGGGCAGTGCA
*
2149782 GTAGGGCAGTGCG
1 GTAGGGCAGTGCA
2149795 GTAGGGC
1 GTAGGGC
2149802 CAGGAGCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.52, T:0.15
Consensus pattern (13 bp):
GTAGGGCAGTGCA
Found at i:2161037 original size:16 final size:16
Alignment explanation
Indices: 2161016--2161053 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2161006 TGGCCGCCTC
*
2161016 AATTCA-TCGTGTGTTG
1 AATTCACTC-TGTGGTG
2161032 AATTCACTCTGTGGTG
1 AATTCACTCTGTGGTG
2161048 AATTCA
1 AATTCA
2161054 ACGCCTCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (16 bp):
AATTCACTCTGTGGTG
Found at i:2161741 original size:20 final size:20
Alignment explanation
Indices: 2161704--2161743 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2161694 TCTCGGCCTA
*
2161704 CCGGCGCAGCCCCCGTGCGC
1 CCGGCGCAGCCACCGTGCGC
* *
2161724 CCGGCGCGGCCACGGTGCGC
1 CCGGCGCAGCCACCGTGCGC
2161744 GCCCCGCGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.50, G:0.40, T:0.05
Consensus pattern (20 bp):
CCGGCGCAGCCACCGTGCGC
Found at i:2169293 original size:18 final size:18
Alignment explanation
Indices: 2169270--2169318 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 18
2169260 TTCGACCGGA
2169270 CGCGGCGGCTACGAGCAG
1 CGCGGCGGCTACGAGCAG
* *
2169288 CGCGGCGG-T-CG-GGAT
1 CGCGGCGGCTACGAGCAG
2169303 CGCGGCGGCTACGAGC
1 CGCGGCGGCTACGAGC
2169319 GGACCTCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 10 0.40
16 3 0.12
17 3 0.12
18 9 0.36
ACGTcount: A:0.12, C:0.33, G:0.47, T:0.08
Consensus pattern (18 bp):
CGCGGCGGCTACGAGCAG
Found at i:2186213 original size:12 final size:12
Alignment explanation
Indices: 2186196--2186223 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2186186 CCGAGGGCGA
2186196 CGGCGAATCCGG
1 CGGCGAATCCGG
2186208 CGGCGAATCCGG
1 CGGCGAATCCGG
2186220 CGGC
1 CGGC
2186224 TTCCGGCTCA
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:0.14, C:0.36, G:0.43, T:0.07
Consensus pattern (12 bp):
CGGCGAATCCGG
Found at i:2231950 original size:30 final size:29
Alignment explanation
Indices: 2231894--2231953 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
2231884 GTGAAGTGCC
2231894 GTGTCGACCGCCTGAGTGAGCGCGGCGGCG
1 GTGTCGACCGCC-GAGTGAGCGCGGCGGCG
*
2231924 GTGTCGACCGCC-AGTGCGACGCCGGCGGCG
1 GTGTCGACCGCCGAGTGAG-CG-CGGCGGCG
2231954 CGGGCGCGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 5 0.19
29 2 0.07
30 20 0.74
ACGTcount: A:0.10, C:0.33, G:0.45, T:0.12
Consensus pattern (29 bp):
GTGTCGACCGCCGAGTGAGCGCGGCGGCG
Found at i:2276721 original size:18 final size:18
Alignment explanation
Indices: 2276698--2276737 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2276688 GCAGGTAGCG
2276698 GGCGGTGATCA-CGCGGTC
1 GGCGGTGATCATCGC-GTC
*
2276716 GGCGGTGGTCATCGCGTC
1 GGCGGTGATCATCGCGTC
2276734 GGCG
1 GGCG
2276738 TAGTCGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.07, C:0.28, G:0.47, T:0.17
Consensus pattern (18 bp):
GGCGGTGATCATCGCGTC
Found at i:2288913 original size:16 final size:17
Alignment explanation
Indices: 2288894--2288926 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2288884 GAGGTCGAGA
2288894 GGGGAAG-AGGTCAGGC
1 GGGGAAGTAGGTCAGGC
*
2288910 GGGGGAGTAGGTCAGGC
1 GGGGAAGTAGGTCAGGC
2288927 AGTTGGCGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.12, G:0.58, T:0.09
Consensus pattern (17 bp):
GGGGAAGTAGGTCAGGC
Found at i:2291926 original size:10 final size:10
Alignment explanation
Indices: 2291897--2291930 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2291887 CCACGCATTC
2291897 GGCGAGCGCG
1 GGCGAGCGCG
*
2291907 GCCGAGGCGCG
1 GGCGA-GCGCG
2291918 GGCGAGCGCG
1 GGCGAGCGCG
2291928 GGC
1 GGC
2291931 AGATCGACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.32, G:0.59, T:0.00
Consensus pattern (10 bp):
GGCGAGCGCG
Found at i:2298644 original size:24 final size:24
Alignment explanation
Indices: 2298590--2298647 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
2298580 GTTCGCACTC
* *
2298590 GTCGAAGTGGCCGTCGTGGGCGCG
1 GTCGATGTGGCCGTCGTGGGCGCA
* * *
2298614 GTGGATGTGTCCGTCGTGGGCGTA
1 GTCGATGTGGCCGTCGTGGGCGCA
2298638 GTCGATGTGG
1 GTCGATGTGG
2298648 TCGGCGTGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.09, C:0.19, G:0.48, T:0.24
Consensus pattern (24 bp):
GTCGATGTGGCCGTCGTGGGCGCA
Found at i:2304166 original size:16 final size:16
Alignment explanation
Indices: 2304145--2304176 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2304135 TAGGCCATCA
2304145 GGGTCATGTCACAGGC
1 GGGTCATGTCACAGGC
2304161 GGGTCATGTCACAGGC
1 GGGTCATGTCACAGGC
2304177 ACGTCATGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.38, T:0.19
Consensus pattern (16 bp):
GGGTCATGTCACAGGC
Found at i:2304182 original size:16 final size:16
Alignment explanation
Indices: 2304147--2304184 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2304137 GGCCATCAGG
**
2304147 GTCATGTCACAGGCGG
1 GTCATGTCACAGGCAC
2304163 GTCATGTCACAGGCAC
1 GTCATGTCACAGGCAC
2304179 GTCATG
1 GTCATG
2304185 CGCACCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (16 bp):
GTCATGTCACAGGCAC
Found at i:2304205 original size:14 final size:14
Alignment explanation
Indices: 2304186--2304220 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2304176 CACGTCATGC
2304186 GCACCGTTGCGTGT
1 GCACCGTTGCGTGT
2304200 GCACCGTTGCGTGT
1 GCACCGTTGCGTGT
2304214 GCACCGT
1 GCACCGT
2304221 GGCATGTGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.26
Consensus pattern (14 bp):
GCACCGTTGCGTGT
Found at i:2304228 original size:14 final size:14
Alignment explanation
Indices: 2304181--2304240 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
2304171 ACAGGCACGT
* *
2304181 CATGCGCACCGTTG
1 CATGTGCACCGTGG
* *
2304195 CGTGTGCACCGTTG
1 CATGTGCACCGTGG
*
2304209 CGTGTGCACCGTGG
1 CATGTGCACCGTGG
2304223 CATGTGCGCACCGTGG
1 CATGT--GCACCGTGG
2304239 CA
1 CA
2304241 CGCGCTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 29 0.72
16 11 0.28
ACGTcount: A:0.12, C:0.32, G:0.35, T:0.22
Consensus pattern (14 bp):
CATGTGCACCGTGG
Found at i:2362393 original size:15 final size:15
Alignment explanation
Indices: 2362373--2362403 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2362363 CGCCCCGAGT
2362373 CGTTCGGTGGTCGGG
1 CGTTCGGTGGTCGGG
2362388 CGTTCGGTGGTCGGG
1 CGTTCGGTGGTCGGG
2362403 C
1 C
2362404 TCATCGCGGC
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:0.00, C:0.23, G:0.52, T:0.26
Consensus pattern (15 bp):
CGTTCGGTGGTCGGG
Found at i:2397626 original size:14 final size:14
Alignment explanation
Indices: 2397607--2397633 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2397597 CTCGGATCGA
2397607 CGAGCCCGACTCGG
1 CGAGCCCGACTCGG
2397621 CGAGCCCGACTCG
1 CGAGCCCGACTCG
2397634 ACGGGTCGGA
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:0.15, C:0.44, G:0.33, T:0.07
Consensus pattern (14 bp):
CGAGCCCGACTCGG
Found at i:2399143 original size:9 final size:9
Alignment explanation
Indices: 2399129--2399158 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2399119 ACCGTTGCAG
2399129 GTCGGTGCT
1 GTCGGTGCT
2399138 GTCGGTGCT
1 GTCGGTGCT
*
2399147 GTCGGTGGT
1 GTCGGTGCT
2399156 GTC
1 GTC
2399159 CGACGGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.47, T:0.33
Consensus pattern (9 bp):
GTCGGTGCT
Found at i:2433665 original size:18 final size:18
Alignment explanation
Indices: 2433644--2433678 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2433634 TGGCCGCCCG
2433644 CAGCACCGGCAGCGCCGA
1 CAGCACCGGCAGCGCCGA
* *
2433662 CAGCAGCGGCGGCGCCG
1 CAGCACCGGCAGCGCCG
2433679 TGGTCGCCAT
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:0.43, G:0.40, T:0.00
Consensus pattern (18 bp):
CAGCACCGGCAGCGCCGA
Found at i:2445981 original size:21 final size:20
Alignment explanation
Indices: 2445953--2445994 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2445943 GACGATCGAC
**
2445953 CCGCCGCCCGCGGCCGCCAT
1 CCGCCGCCCGCCACCGCCAT
2445973 CCGCGCGCCCGCCACCGCCAT
1 CCGC-CGCCCGCCACCGCCAT
2445994 C
1 C
2445995 AACCGGAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.07, C:0.62, G:0.26, T:0.05
Consensus pattern (20 bp):
CCGCCGCCCGCCACCGCCAT
Found at i:2459295 original size:12 final size:12
Alignment explanation
Indices: 2459278--2459306 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2459268 TCGGCGGCGC
2459278 CGCCGCCTACGA
1 CGCCGCCTACGA
2459290 CGCCGCCTACGA
1 CGCCGCCTACGA
2459302 C-CCGC
1 CGCCGC
2459307 GCGTCACGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.14, C:0.55, G:0.24, T:0.07
Consensus pattern (12 bp):
CGCCGCCTACGA
Found at i:2463444 original size:16 final size:15
Alignment explanation
Indices: 2463371--2463443 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
2463361 CTCCCGTGTT
2463371 GTCGCGAACCCTGTC
1 GTCGCGAACCCTGTC
**
2463386 GTCGCGAACTTTGTC
1 GTCGCGAACCCTGTC
* *
2463401 GTCGCGGACCCCGTC
1 GTCGCGAACCCTGTC
2463416 GTCGCAGAACCCGTGTC
1 GTCGC-GAACCC-TGTC
*
2463433 CTCGCGAACCC
1 GTCGCGAACCC
2463444 GCTTCTTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
15 29 0.62
16 11 0.23
17 7 0.15
ACGTcount: A:0.14, C:0.40, G:0.27, T:0.19
Consensus pattern (15 bp):
GTCGCGAACCCTGTC
Found at i:2486733 original size:15 final size:16
Alignment explanation
Indices: 2486706--2486735 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2486696 GCGATGTGCT
2486706 GCCGCGCACCGGCGCC
1 GCCGCGCACCGGCGCC
2486722 GCCGCG-ACCGGCGC
1 GCCGCGCACCGGCGC
2486736 GCTGCTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.53, G:0.40, T:0.00
Consensus pattern (16 bp):
GCCGCGCACCGGCGCC
Found at i:2504312 original size:19 final size:19
Alignment explanation
Indices: 2504290--2504340 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2504280 TCCGGTCCCG
2504290 GGGGTGTGGGTTCGGTACC
1 GGGGTGTGGGTTCGGTACC
2504309 GGGGTGTGGGTTCGGTACC
1 GGGGTGTGGGTTCGGTACC
2504328 GGGGTGT-GGTTCG
1 GGGGTGTGGGTTCG
2504341 ACGCGGCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.04, C:0.14, G:0.55, T:0.27
Consensus pattern (19 bp):
GGGGTGTGGGTTCGGTACC
Found at i:2515096 original size:15 final size:14
Alignment explanation
Indices: 2515076--2515115 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
2515066 GCCGGGCGCG
2515076 GGCCGACGAGATTCA
1 GGCCGACGAG-TTCA
*
2515091 GGCCGACGCTGTTCA
1 GGCCGACG-AGTTCA
2515106 GGCCGACGAG
1 GGCCGACGAG
2515116 CAGAGGCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (14 bp):
GGCCGACGAGTTCA
Found at i:2515294 original size:15 final size:15
Alignment explanation
Indices: 2515276--2515313 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2515266 CCGGGCCGGG
2515276 GTTCACCGGCGCGGA
1 GTTCACCGGCGCGGA
*
2515291 GTTCAACGGCGCGGA
1 GTTCACCGGCGCGGA
2515306 GTTCACCG
1 GTTCACCG
2515314 TGATCGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.37, T:0.16
Consensus pattern (15 bp):
GTTCACCGGCGCGGA
Found at i:2527946 original size:16 final size:17
Alignment explanation
Indices: 2527919--2527968 Score: 93
Period size: 16 Copynumber: 3.0 Consensus size: 17
2527909 CGGTGACGCG
2527919 GTCGAGCGGGCTGGGAT
1 GTCGAGCGGGCTGGGAT
2527936 GTCGAGC-GGCTGGGAT
1 GTCGAGCGGGCTGGGAT
2527952 GTCGAGCGGGCTGGGAT
1 GTCGAGCGGGCTGGGAT
2527969 ACAGCCTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.50
17 16 0.50
ACGTcount: A:0.12, C:0.18, G:0.52, T:0.18
Consensus pattern (17 bp):
GTCGAGCGGGCTGGGAT
Found at i:2562965 original size:14 final size:15
Alignment explanation
Indices: 2562940--2562968 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2562930 AGGCGGTGCG
2562940 CTCGATGATCGGCGC
1 CTCGATGATCGGCGC
2562955 CTCGATG-TCGGCGC
1 CTCGATGATCGGCGC
2562969 TGTGTGGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.10, C:0.34, G:0.34, T:0.21
Consensus pattern (15 bp):
CTCGATGATCGGCGC
Found at i:2587717 original size:15 final size:15
Alignment explanation
Indices: 2587696--2587747 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
2587686 GACGAACTCC
2587696 TCGGCCCAGAACTGA
1 TCGGCCCAGAACTGA
* *
2587711 TCTGCCCAGAACCGA
1 TCGGCCCAGAACTGA
*
2587726 TCGGCCCAGAACTTA
1 TCGGCCCAGAACTGA
2587741 TCGGCCC
1 TCGGCCC
2587748 GGGGACTAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (15 bp):
TCGGCCCAGAACTGA
Found at i:2602539 original size:18 final size:18
Alignment explanation
Indices: 2602513--2602547 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2602503 TGGTCGTACT
*
2602513 CGACCTCGATCGCGCCGC
1 CGACCTCGAACGCGCCGC
*
2602531 CGACGTCGAACGCGCCG
1 CGACCTCGAACGCGCCG
2602548 ACCGGTCGCG
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:0.46, G:0.31, T:0.09
Consensus pattern (18 bp):
CGACCTCGAACGCGCCGC
Found at i:2604414 original size:13 final size:13
Alignment explanation
Indices: 2604398--2604423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2604388 GAACTGCGCG
2604398 GCCGTGCCCGCAC
1 GCCGTGCCCGCAC
2604411 GCCGTGCCCGCAC
1 GCCGTGCCCGCAC
2604424 CAGATCCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
GCCGTGCCCGCAC
Found at i:2616038 original size:23 final size:23
Alignment explanation
Indices: 2615994--2616038 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2615984 CCACCACCTG
* *
2615994 GGTCAGCTCCGCAAGGCCGGGCT
1 GGTCACCTCCGCAACGCCGGGCT
2616017 GGTCACCTCCG-AACGCCAGGGC
1 GGTCACCTCCGCAACGCC-GGGC
2616039 ATGACGGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.16, C:0.38, G:0.36, T:0.11
Consensus pattern (23 bp):
GGTCACCTCCGCAACGCCGGGCT
Found at i:2630038 original size:18 final size:19
Alignment explanation
Indices: 2629998--2630039 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
2629988 TCATCGGCCG
*
2629998 CCGGAACGCGGGGGGTCGGT
1 CCGGAACGC-GGGGGTCGCT
*
2630018 CCGGAACGC-GGTGTCGCT
1 CCGGAACGCGGGGGTCGCT
2630036 CCGG
1 CCGG
2630040 CTCGTTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.10, C:0.31, G:0.48, T:0.12
Consensus pattern (19 bp):
CCGGAACGCGGGGGTCGCT
Found at i:2632904 original size:14 final size:14
Alignment explanation
Indices: 2632885--2632911 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2632875 GTGCCGGTGC
2632885 GCGGCCGCGGCGCG
1 GCGGCCGCGGCGCG
2632899 GCGGCCGCGGCGC
1 GCGGCCGCGGCGC
2632912 TGTCGCTGTC
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:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (14 bp):
GCGGCCGCGGCGCG
Found at i:2682641 original size:21 final size:20
Alignment explanation
Indices: 2682613--2682653 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2682603 CGCACCACCC
*
2682613 GCGGGAACGCCTCGTGCACG
1 GCGGGAACGCCTCGAGCACG
2682633 GCGGTGAACGCCTCGAGCACG
1 GCGG-GAACGCCTCGAGCACG
2682654 AGATCGTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.34, G:0.39, T:0.10
Consensus pattern (20 bp):
GCGGGAACGCCTCGAGCACG
Found at i:2692825 original size:21 final size:21
Alignment explanation
Indices: 2692800--2692839 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2692790 GAGCGCGCCA
* *
2692800 AGCAGCTCGCCCAGCAGGGCG
1 AGCAGATCGACCAGCAGGGCG
*
2692821 AGCAGATCGACCGGCAGGG
1 AGCAGATCGACCAGCAGGG
2692840 GTGAGGGATG
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:0.23, C:0.33, G:0.40, T:0.05
Consensus pattern (21 bp):
AGCAGATCGACCAGCAGGGCG
Found at i:2703239 original size:21 final size:21
Alignment explanation
Indices: 2703213--2703255 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2703203 GCTGCCCGCA
*
2703213 CACCGCCATCCGCGACGACAT
1 CACCGCCAACCGCGACGACAT
* *
2703234 CACCGCCAACCTCGACGCCAT
1 CACCGCCAACCGCGACGACAT
2703255 C
1 C
2703256 GACGACCTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.51, G:0.16, T:0.09
Consensus pattern (21 bp):
CACCGCCAACCGCGACGACAT
Found at i:2709902 original size:20 final size:19
Alignment explanation
Indices: 2709868--2709907 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2709858 GTCGCGCTGG
*
2709868 CCGGGGCCCGCGCCGCCGC
1 CCGGGGCCCGAGCCGCCGC
*
2709887 CCGGGTGCCCGAGCCGGCGC
1 CCGGG-GCCCGAGCCGCCGC
2709907 C
1 C
2709908 GCCGTTCCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.03, C:0.53, G:0.42, T:0.03
Consensus pattern (19 bp):
CCGGGGCCCGAGCCGCCGC
Found at i:2743265 original size:24 final size:24
Alignment explanation
Indices: 2743238--2743284 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2743228 GATCAGCTGC
2743238 TGGTGATCCCGCTGATCCTGGCGG
1 TGGTGATCCCGCTGATCCTGGCGG
* * * *
2743262 TGGTGTTCCTGGTGCTCCTGGCG
1 TGGTGATCCCGCTGATCCTGGCG
2743285 CTGCTGCGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.04, C:0.28, G:0.38, T:0.30
Consensus pattern (24 bp):
TGGTGATCCCGCTGATCCTGGCGG
Found at i:2746693 original size:15 final size:16
Alignment explanation
Indices: 2746673--2746707 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2746663 CGCGCGTTCG
*
2746673 CGCCGGCGGGCGCC-T
1 CGCCGGCGGCCGCCAT
2746688 CGCCGGCGGCCGCCAT
1 CGCCGGCGGCCGCCAT
2746704 CGCC
1 CGCC
2746708 TCGAACATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.03, C:0.51, G:0.40, T:0.06
Consensus pattern (16 bp):
CGCCGGCGGCCGCCAT
Found at i:2758265 original size:18 final size:17
Alignment explanation
Indices: 2758242--2758279 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
2758232 TGGCCGGGGT
2758242 CGCCGCGACGTGGTCGCC
1 CGCCGCGACGTGGT-GCC
*
2758260 CGCCGCGATGTGGTGCC
1 CGCCGCGACGTGGTGCC
2758277 CGC
1 CGC
2758280 ACACCTCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.05, C:0.42, G:0.39, T:0.13
Consensus pattern (17 bp):
CGCCGCGACGTGGTGCC
Found at i:2786494 original size:78 final size:78
Alignment explanation
Indices: 2786297--2786538 Score: 459
Period size: 78 Copynumber: 3.1 Consensus size: 78
2786287 CTCGGCCTGC
2786297 CCGCCTGAGCGGGTCAGCGCCCGGAGGTGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
1 CCGCCTGAGCGGGTCAGCGCCCGGAGGTGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
*
2786362 GC-TGATCGGGCA
66 GCGAGATCGGGCA
2786374 CCGCCTGAGCGGGTCAGCGCCCGGAGGTGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
1 CCGCCTGAGCGGGTCAGCGCCCGGAGGTGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
2786439 GCGAGATCGGGCA
66 GCGAGATCGGGCA
*
2786452 CCGCCTGAGCGGGTCAGCGCCCGGAGGCGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
1 CCGCCTGAGCGGGTCAGCGCCCGGAGGTGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
2786517 GCGAGATCGGGCA
66 GCGAGATCGGGCA
2786530 CCGCCTGAG
1 CCGCCTGAG
2786539 TCGCGGCGGT
Statistics
Matches: 162, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
77 67 0.41
78 95 0.59
ACGTcount: A:0.12, C:0.33, G:0.45, T:0.09
Consensus pattern (78 bp):
CCGCCTGAGCGGGTCAGCGCCCGGAGGTGGTAGCGGAGCGTGGCCACGGAGGGCGCCCCGCTCGG
GCGAGATCGGGCA
Found at i:2789850 original size:14 final size:14
Alignment explanation
Indices: 2789831--2789865 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2789821 GGGCCTGAGT
2789831 TCACCGGGGCAGCG
1 TCACCGGGGCAGCG
2789845 TCACCGGGGCAGCG
1 TCACCGGGGCAGCG
2789859 TCACCGG
1 TCACCGG
2789866 TTCGAGGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.37, G:0.40, T:0.09
Consensus pattern (14 bp):
TCACCGGGGCAGCG
Found at i:2799440 original size:21 final size:22
Alignment explanation
Indices: 2799406--2799446 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2799396 GCGCCGTCGC
*
2799406 GGCCGAGCAGGCGCG-GCGGGA
1 GGCCGAGCACGCGCGCGCGGGA
*
2799427 GGCCGAGGACGCGCGCGCGG
1 GGCCGAGCACGCGCGCGCGG
2799447 TCGCCGAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.32, G:0.56, T:0.00
Consensus pattern (22 bp):
GGCCGAGCACGCGCGCGCGGGA
Found at i:2799739 original size:21 final size:22
Alignment explanation
Indices: 2799699--2799739 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2799689 CGAGCCAAGG
*
2799699 CCGCCGCCGAGGTCGAACAGGT
1 CCGCCGCCGAGGCCGAACAGGT
*
2799721 CCGCCG-CGAGGCCGCACAG
1 CCGCCGCCGAGGCCGAACAG
2799740 CAGACCACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.17, C:0.41, G:0.37, T:0.05
Consensus pattern (22 bp):
CCGCCGCCGAGGCCGAACAGGT
Found at i:2799965 original size:21 final size:21
Alignment explanation
Indices: 2799920--2799967 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2799910 ACTCGACACC
*
2799920 GCCCGCGCCGAACTCGGCCGC
1 GCCCGCGCCGAACTCGGCCGA
2799941 GCCCGCGCCGAGAC-C-GCCGAA
1 GCCCGCGCCGA-ACTCGGCCG-A
2799962 GCCCGC
1 GCCCGC
2799968 CGCGGGGCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.12, C:0.52, G:0.33, T:0.02
Consensus pattern (21 bp):
GCCCGCGCCGAACTCGGCCGA
Found at i:2802407 original size:21 final size:18
Alignment explanation
Indices: 2802390--2802428 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2802380 TGCTGGGCAT
2802390 CTGCTCGGTGGCGCTGGGC
1 CTGCT-GGTGGCGCTGGGC
*
2802409 GTGCTGGTGGCGCTGTGGC
1 CTGCTGGTGGCGCTG-GGC
2802428 C
1 C
2802429 GGGCAAGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.00, C:0.28, G:0.49, T:0.23
Consensus pattern (18 bp):
CTGCTGGTGGCGCTGGGC
Found at i:2807314 original size:15 final size:15
Alignment explanation
Indices: 2807286--2807360 Score: 114
Period size: 15 Copynumber: 5.0 Consensus size: 15
2807276 GCACCTGACA
*
2807286 GTCCGGTGGCGAACG
1 GTCCCGTGGCGAACG
* **
2807301 GTCACGCAGCGAACG
1 GTCCCGTGGCGAACG
2807316 GTCCCGTGGCGAACG
1 GTCCCGTGGCGAACG
2807331 GTCCCGTGGCGAACG
1 GTCCCGTGGCGAACG
2807346 GTCCCGTGGCGAACG
1 GTCCCGTGGCGAACG
2807361 CGGTCGGTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (15 bp):
GTCCCGTGGCGAACG
Found at i:2821125 original size:24 final size:25
Alignment explanation
Indices: 2821079--2821125 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2821069 TCGTCGCCGT
*
2821079 CGCGCACCAGGGTGACCACCGCGAA
1 CGCGCACCAGCGTGACCACCGCGAA
* *
2821104 CGCGC-CCAGCGTGCCCAGCGCG
1 CGCGCACCAGCGTGACCACCGCG
2821126 TAGGCGGCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.17, C:0.45, G:0.34, T:0.04
Consensus pattern (25 bp):
CGCGCACCAGCGTGACCACCGCGAA
Found at i:2850342 original size:18 final size:17
Alignment explanation
Indices: 2850319--2850352 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2850309 CCTTGACGAA
*
2850319 CTTGGTGATCGTGGTCCG
1 CTTGGTG-TCGGGGTCCG
2850337 CTTGGTGTCGGGGTCC
1 CTTGGTGTCGGGGTCC
2850353 TGCGCCACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.24, G:0.41, T:0.32
Consensus pattern (17 bp):
CTTGGTGTCGGGGTCCG
Found at i:2878213 original size:27 final size:27
Alignment explanation
Indices: 2878169--2878244 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
2878159 GAAGGGATGG
2878169 CCGGGTTCGGGTTCGGGTGGGAAGGGCA
1 CCGGG-TCGGGTTCGGGTGGGAAGGGCA
*
2878197 CCGGGTCGGGTTCGGGTGGGAAGGGGA
1 CCGGGTCGGGTTCGGGTGGGAAGGGCA
2878224 CCGGGTCGGGTTCGGGTGGGA
1 CCGGGTCGGGTTCGGGTGGGA
2878245 TCGGGTGACC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 42 0.89
28 5 0.11
ACGTcount: A:0.09, C:0.17, G:0.57, T:0.17
Consensus pattern (27 bp):
CCGGGTCGGGTTCGGGTGGGAAGGGCA
Found at i:2878633 original size:15 final size:16
Alignment explanation
Indices: 2878612--2878653 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
2878602 GCCGGTGCCG
2878612 CGGGCAGCACGCCGTT
1 CGGGCAGCACGCCGTT
*
2878628 -GGGCAGCAGGCCGTT
1 CGGGCAGCACGCCGTT
2878643 CGGG-AGCACGC
1 CGGGCAGCACGC
2878654 GCGGCAGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.14, C:0.33, G:0.43, T:0.10
Consensus pattern (16 bp):
CGGGCAGCACGCCGTT
Found at i:2880065 original size:24 final size:24
Alignment explanation
Indices: 2880033--2880087 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
2880023 GCCCAGCACC
*
2880033 TCGGCGGCGT-CGAGCACCGCGCGG
1 TCGGCGGCGTGC-AGCACCGCGCCG
* *
2880057 TCGGTGGCGTGCAGCACCGGGCCG
1 TCGGCGGCGTGCAGCACCGCGCCG
2880081 TCGGCGG
1 TCGGCGG
2880088 GGTCGGGGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.07, C:0.35, G:0.47, T:0.11
Consensus pattern (24 bp):
TCGGCGGCGTGCAGCACCGCGCCG
Found at i:2891829 original size:18 final size:18
Alignment explanation
Indices: 2891806--2891892 Score: 86
Period size: 18 Copynumber: 4.8 Consensus size: 18
2891796 TCTCCTCCTT
*
2891806 GCCGCCTCTGATCTCGTC
1 GCCGCCTCCGATCTCGTC
* *
2891824 GCCGCCTCCGACCTCTTC
1 GCCGCCTCCGATCTCGTC
2891842 GCCGCCTCCGATCTCGGT-
1 GCCGCCTCCGATCTC-GTC
* * *
2891860 GCCGCCCCCGGTCTCTTC
1 GCCGCCTCCGATCTCGTC
* *
2891878 GGCGCCTCCGGTCTC
1 GCCGCCTCCGATCTC
2891893 TTCGGCGGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.02
18 55 0.96
19 1 0.02
ACGTcount: A:0.03, C:0.49, G:0.24, T:0.23
Consensus pattern (18 bp):
GCCGCCTCCGATCTCGTC
Found at i:2891846 original size:36 final size:36
Alignment explanation
Indices: 2891806--2891892 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
2891796 TCTCCTCCTT
* *
2891806 GCCGCCTCTGATCTC-GTCGCCGCCTCCGACCTCTTC
1 GCCGCCTCCGATCTCGGT-GCCGCCCCCGACCTCTTC
**
2891842 GCCGCCTCCGATCTCGGTGCCGCCCCCGGTCTCTTC
1 GCCGCCTCCGATCTCGGTGCCGCCCCCGACCTCTTC
* *
2891878 GGCGCCTCCGGTCTC
1 GCCGCCTCCGATCTC
2891893 TTCGGCGGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 42 0.95
37 2 0.05
ACGTcount: A:0.03, C:0.49, G:0.24, T:0.23
Consensus pattern (36 bp):
GCCGCCTCCGATCTCGGTGCCGCCCCCGACCTCTTC
Found at i:2891893 original size:18 final size:18
Alignment explanation
Indices: 2891826--2891917 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 18
2891816 ATCTCGTCGC
** *
2891826 CGCCTCCGACCTCTTCGC
1 CGCCTCCGGTCTCTTCGG
* * *
2891844 CGCCTCCGATCTCGGT-GC
1 CGCCTCCGGTCTC-TTCGG
*
2891862 CGCCCCCGGTCTCTTCGG
1 CGCCTCCGGTCTCTTCGG
2891880 CGCCTCCGGTCTCTTCGG
1 CGCCTCCGGTCTCTTCGG
* *
2891898 CGGCT-CGGATCTCCTCGG
1 CGCCTCCGG-TCTCTTCGG
2891916 CG
1 CG
2891918 GCAGGGGCGT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.06
18 57 0.92
19 1 0.02
ACGTcount: A:0.03, C:0.47, G:0.27, T:0.23
Consensus pattern (18 bp):
CGCCTCCGGTCTCTTCGG
Found at i:2891918 original size:18 final size:18
Alignment explanation
Indices: 2891867--2891919 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
2891857 GGTGCCGCCC
*
2891867 CCGGTCTCTTCGGCGCCT
1 CCGGTCTCTTCGGCGGCT
2891885 CCGGTCTCTTCGGCGGCT
1 CCGGTCTCTTCGGCGGCT
*
2891903 -CGGATCTCCTCGGCGGC
1 CCGG-TCTCTTCGGCGGC
2891920 AGGGGCGTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 3 0.09
18 29 0.91
ACGTcount: A:0.02, C:0.42, G:0.32, T:0.25
Consensus pattern (18 bp):
CCGGTCTCTTCGGCGGCT
Found at i:2933935 original size:28 final size:27
Alignment explanation
Indices: 2933903--2933958 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
2933893 GCGGGTTCCT
*
2933903 CGGGGCGCAGCCGCAGCCGTTCGCGCAG
1 CGGGGCGCAGCCGCAGCCG-TCGAGCAG
* * *
2933931 CGGGGTGCAGTCGCGGCCGTCGAGCAG
1 CGGGGCGCAGCCGCAGCCGTCGAGCAG
2933958 C
1 C
2933959 AGCACGATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.11, C:0.36, G:0.45, T:0.09
Consensus pattern (27 bp):
CGGGGCGCAGCCGCAGCCGTCGAGCAG
Found at i:2948121 original size:18 final size:18
Alignment explanation
Indices: 2948098--2948151 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
2948088 ACGCTGGGAT
2948098 TTGCTCTGCGTCTCGGTC
1 TTGCTCTGCGTCTCGGTC
* *
2948116 TTGCTCGGGGTCTCGGTC
1 TTGCTCTGCGTCTCGGTC
*
2948134 TTGCTGTGCGTCTCGGTC
1 TTGCTCTGCGTCTCGGTC
2948152 ACAGCGACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.37
Consensus pattern (18 bp):
TTGCTCTGCGTCTCGGTC
Found at i:2954479 original size:18 final size:16
Alignment explanation
Indices: 2954458--2954492 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
2954448 TGTTCCCCAA
2954458 GGACGCGCTCGGCCTGCC
1 GGACGCGCT-GGCC-GCC
2954476 GGACGCGCTGGCCGCC
1 GGACGCGCTGGCCGCC
2954492 G
1 G
2954493 ACCTGATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.06, C:0.43, G:0.43, T:0.09
Consensus pattern (16 bp):
GGACGCGCTGGCCGCC
Found at i:2954532 original size:27 final size:27
Alignment explanation
Indices: 2954481--2954540 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
2954471 CTGCCGGACG
*
2954481 CGCTGGCCGCCGACCTGATGGCCGCGC
1 CGCTGGCCGCCGACCTGAGGGCCGCGC
2954508 CGCTGGCCGCCGA-C-GACGGGACCGCGC
1 CGCTGGCCGCCGACCTGA-GGG-CCGCGC
2954535 CGCTGG
1 CGCTGG
2954541 TGTCGTCGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.07
26 3 0.10
27 25 0.83
ACGTcount: A:0.08, C:0.43, G:0.40, T:0.08
Consensus pattern (27 bp):
CGCTGGCCGCCGACCTGAGGGCCGCGC
Found at i:2960252 original size:21 final size:21
Alignment explanation
Indices: 2960227--2960266 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2960217 TCCTCGTCGT
2960227 CGCGG-CGGCGGCGCCGCTAAC
1 CGCGGTCGGCGGCG-CGCTAAC
*
2960248 CGCGGTCGGTGGCGCGCTA
1 CGCGGTCGGCGGCGCGCTA
2960267 CCGGTGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.07, C:0.38, G:0.45, T:0.10
Consensus pattern (21 bp):
CGCGGTCGGCGGCGCGCTAAC
Found at i:2971242 original size:15 final size:15
Alignment explanation
Indices: 2971218--2971251 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2971208 GGTTCCCGCT
2971218 GCGA-CTCGATCTGG
1 GCGACCTCGATCTGG
2971232 GCGACCTCGATCTGG
1 GCGACCTCGATCTGG
*
2971247 ACGAC
1 GCGAC
2971252 GCGTTCGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (15 bp):
GCGACCTCGATCTGG
Found at i:2994734 original size:20 final size:20
Alignment explanation
Indices: 2994709--2994757 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 20
2994699 GCTGTGGTGG
* *
2994709 CGCGGGCGGCGGAGCGCGGA
1 CGCGGGCGGCGGACCGCCGA
2994729 CGC--G-GGCGGACCGCCGA
1 CGCGGGCGGCGGACCGCCGA
2994746 CGCGGGCGGCGG
1 CGCGGGCGGCGG
2994758 GTGTGCGGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 14 0.58
18 1 0.04
19 1 0.04
20 8 0.33
ACGTcount: A:0.08, C:0.35, G:0.57, T:0.00
Consensus pattern (20 bp):
CGCGGGCGGCGGACCGCCGA
Found at i:2994738 original size:17 final size:17
Alignment explanation
Indices: 2994716--2994754 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2994706 TGGCGCGGGC
* *
2994716 GGCGGAGCGCGGACGCG
1 GGCGGACCGCCGACGCG
2994733 GGCGGACCGCCGACGCG
1 GGCGGACCGCCGACGCG
2994750 GGCGG
1 GGCGG
2994755 CGGGTGTGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.33, G:0.56, T:0.00
Consensus pattern (17 bp):
GGCGGACCGCCGACGCG
Found at i:3029148 original size:22 final size:22
Alignment explanation
Indices: 3029120--3029162 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3029110 CAGCCGCCGA
* *
3029120 CGGTGCCCGGATTCCACTGAGG
1 CGGTGCCCGAAATCCACTGAGG
3029142 CGGTGCCCGAAATCCACTGAG
1 CGGTGCCCGAAATCCACTGAG
3029163 CAGCAATCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.16
Consensus pattern (22 bp):
CGGTGCCCGAAATCCACTGAGG
Found at i:3035789 original size:16 final size:16
Alignment explanation
Indices: 3035764--3035797 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3035754 TCCGGGCACG
3035764 TCAGCACTCGGCGAAC
1 TCAGCACTCGGCGAAC
*
3035780 TCAGCCCTCGGCGAAC
1 TCAGCACTCGGCGAAC
3035796 TC
1 TC
3035798 GCCGACGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (16 bp):
TCAGCACTCGGCGAAC
Found at i:3038734 original size:18 final size:19
Alignment explanation
Indices: 3038713--3038759 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
3038703 ATCGCGGCCG
*
3038713 GGTGGTCGCGGGC-GGCTC
1 GGTGGTCGCGGGCGGGCGC
*
3038731 GGTGGCCG-GGGCGGGCGC
1 GGTGGTCGCGGGCGGGCGC
*
3038749 GGTCGTCGCGG
1 GGTGGTCGCGG
3038760 AAGCGGCCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 17 0.74
19 2 0.09
ACGTcount: A:0.00, C:0.28, G:0.60, T:0.13
Consensus pattern (19 bp):
GGTGGTCGCGGGCGGGCGC
Found at i:3080803 original size:17 final size:17
Alignment explanation
Indices: 3080781--3080815 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3080771 TCCGCGACGA
3080781 GAACTGAGACCGCAGAG
1 GAACTGAGACCGCAGAG
*
3080798 GAACTGAGATCGCAGAG
1 GAACTGAGACCGCAGAG
3080815 G
1 G
3080816 CCGGGGCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.37, T:0.09
Consensus pattern (17 bp):
GAACTGAGACCGCAGAG
Found at i:3085912 original size:15 final size:15
Alignment explanation
Indices: 3085872--3085912 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3085862 CGGGCCCGCT
**
3085872 GCGGTGATCGATCCA
1 GCGGTGATCGGCCCA
*
3085887 GCGGTGATCGGCCCG
1 GCGGTGATCGGCCCA
3085902 GCGGTGATCGG
1 GCGGTGATCGG
3085913 TTCCGCGCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.27, G:0.44, T:0.17
Consensus pattern (15 bp):
GCGGTGATCGGCCCA
Found at i:3086053 original size:21 final size:21
Alignment explanation
Indices: 3086011--3086053 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3086001 TCGTCGTCGC
* *
3086011 CGTAGCCGTCGTCCCAGTCGT
1 CGTAGCCGCCGTCCCAGCCGT
3086032 CGTAGCCGCCGTCACCA-CCGT
1 CGTAGCCGCCGTC-CCAGCCGT
3086053 C
1 C
3086054 AGCGTCACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.12, C:0.44, G:0.26, T:0.19
Consensus pattern (21 bp):
CGTAGCCGCCGTCCCAGCCGT
Found at i:3098244 original size:15 final size:14
Alignment explanation
Indices: 3098221--3098265 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
3098211 CGTCATCGGT
* *
3098221 GTCGTCGTATCCGTG
1 GTCGCCGTAGCCG-G
3098236 GTCGCCGTAGCCGG
1 GTCGCCGTAGCCGG
3098250 GTTCGCCGTAGCCGG
1 G-TCGCCGTAGCCGG
3098265 G
1 G
3098266 GTCGGCGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 2 0.07
15 25 0.93
ACGTcount: A:0.07, C:0.31, G:0.40, T:0.22
Consensus pattern (14 bp):
GTCGCCGTAGCCGG
Found at i:3109680 original size:18 final size:19
Alignment explanation
Indices: 3109657--3109694 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3109647 GCGATCACCG
*
3109657 CCCGCGAC-CGGGTGCGGC
1 CCCGCGACACGGGTCCGGC
*
3109675 CCCGCGGCACGGGTCCGGC
1 CCCGCGACACGGGTCCGGC
3109694 C
1 C
3109695 GCCTCGGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.47, G:0.42, T:0.05
Consensus pattern (19 bp):
CCCGCGACACGGGTCCGGC
Found at i:3110796 original size:15 final size:15
Alignment explanation
Indices: 3110776--3110806 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3110766 GCGCCGCCAG
3110776 CAGCACCCGCATCGA
1 CAGCACCCGCATCGA
*
3110791 CAGCACTCGCATCGA
1 CAGCACCCGCATCGA
3110806 C
1 C
3110807 CTCGACCGGA
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:0.26, C:0.45, G:0.19, T:0.10
Consensus pattern (15 bp):
CAGCACCCGCATCGA
Found at i:3152424 original size:18 final size:18
Alignment explanation
Indices: 3152401--3152435 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3152391 GCACCCGCAC
* *
3152401 CGGCGAGCAGCACAGCAA
1 CGGCGAGAACCACAGCAA
3152419 CGGCGAGAACCACAGCA
1 CGGCGAGAACCACAGCA
3152436 CCGCCACCGA
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:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (18 bp):
CGGCGAGAACCACAGCAA
Found at i:3155078 original size:63 final size:63
Alignment explanation
Indices: 3155000--3155212 Score: 255
Period size: 63 Copynumber: 3.4 Consensus size: 63
3154990 ACTGTCCTGG
* * **
3155000 GCGGTGGACCGGGCCGATTCGGCCACCCCACCCGCCTCGGCGCTACCCGCAGCGATGCCCGGC
1 GCGGTGGGCTGGGCCGATTCGGCCACCCCACCCGCCTCGGCGCCGCCCGCAGCGATGCCCGGC
** * * * * * *
3155063 GCGGTGGGCTGGGCCGATTCGGCTGCCGCACGCGCCTCGGCGCCGCCCGCAGCCATGTCCTGT
1 GCGGTGGGCTGGGCCGATTCGGCCACCCCACCCGCCTCGGCGCCGCCCGCAGCGATGCCCGGC
* * * * *
3155126 GCGGCGGGCTGGGCCGATTCGGCCACCCCACCTGCCTCGCCGCCGCCCACAGCGAGGCCCGGC
1 GCGGTGGGCTGGGCCGATTCGGCCACCCCACCCGCCTCGGCGCCGCCCGCAGCGATGCCCGGC
* *
3155189 GCGATGGGCGGGGCCGATTCGGCC
1 GCGGTGGGCTGGGCCGATTCGGCC
3155213 GCTGCGCTTG
Statistics
Matches: 122, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
63 122 1.00
ACGTcount: A:0.09, C:0.43, G:0.37, T:0.11
Consensus pattern (63 bp):
GCGGTGGGCTGGGCCGATTCGGCCACCCCACCCGCCTCGGCGCCGCCCGCAGCGATGCCCGGC
Found at i:3155923 original size:21 final size:21
Alignment explanation
Indices: 3155897--3155949 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
3155887 CTGAGCTCGT
*
3155897 CGCCGTCGGCGAGA-ACGGCAC
1 CGCCGTCGGCGA-ATACCGCAC
3155918 CGCCGTCGGCGAATACCGCAC
1 CGCCGTCGGCGAATACCGCAC
*
3155939 CGCCGTAGGCG
1 CGCCGTCGGCG
3155950 GATTCGTCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.17, C:0.40, G:0.36, T:0.08
Consensus pattern (21 bp):
CGCCGTCGGCGAATACCGCAC
Found at i:3184082 original size:75 final size:75
Alignment explanation
Indices: 3183959--3184238 Score: 542
Period size: 75 Copynumber: 3.7 Consensus size: 75
3183949 TACCCGCTCC
* *
3183959 CGGCACGCCGTCCATGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
1 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
3184024 AGCGCCTGCG
66 AGCGCCTGCG
3184034 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
1 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
3184099 AGCGCCTGCG
66 AGCGCCTGCG
3184109 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
1 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
3184174 AGCGCCTGCG
66 AGCGCCTGCG
3184184 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGC
1 CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGC
3184239 GCCGTGCTTG
Statistics
Matches: 203, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 203 1.00
ACGTcount: A:0.12, C:0.46, G:0.30, T:0.11
Consensus pattern (75 bp):
CGGCACGCCCTCCGTGGAAACGCTCCGCTACCGCCTCCGGGCGCACCGCTCAGGCTCGGCCCGAC
AGCGCCTGCG
Found at i:3218247 original size:24 final size:24
Alignment explanation
Indices: 3218220--3218267 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3218210 TGCGCCACAC
* *
3218220 CGTCGACGGGCTCTCCATCGCCGA
1 CGTCGACGAGCTCACCATCGCCGA
*
3218244 CGTCGACGATCTCACCATCGCCGA
1 CGTCGACGAGCTCACCATCGCCGA
3218268 GGCGCTGCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.17
Consensus pattern (24 bp):
CGTCGACGAGCTCACCATCGCCGA
Found at i:3270571 original size:12 final size:12
Alignment explanation
Indices: 3270530--3270580 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
3270520 GAGCCGATGC
3270530 CACCGGCGGCGAG
1 CACC-GCGGCGAG
3270543 CACCG-GGACCGAG
1 CACCGCGG--CGAG
3270556 -ACCGCGGCGAG
1 CACCGCGGCGAG
*
3270567 CACCGCGTCGAG
1 CACCGCGGCGAG
3270579 CA
1 CA
3270581 GCGGCAGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
11 6 0.18
12 17 0.52
13 10 0.30
ACGTcount: A:0.20, C:0.39, G:0.39, T:0.02
Consensus pattern (12 bp):
CACCGCGGCGAG
Found at i:3290368 original size:21 final size:22
Alignment explanation
Indices: 3290335--3290377 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
3290325 TGCGCGGTGG
*
3290335 TGCTGGCGACCAT-GCCGCCGC
1 TGCTGGCGACCATCGCCACCGC
3290356 TGCTGGCCG-CCATCGCCACCGC
1 TGCTGG-CGACCATCGCCACCGC
3290378 GGGGCGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.09, C:0.47, G:0.30, T:0.14
Consensus pattern (22 bp):
TGCTGGCGACCATCGCCACCGC
Found at i:3295145 original size:22 final size:21
Alignment explanation
Indices: 3295107--3295150 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
3295097 CCATGTCCAC
3295107 CACCGTCGTCCGCTCGCCGCGG
1 CACCGTCGTCCGCTCGCC-CGG
*
3295129 CACCGTCCG-CCGGTCGCCCGG
1 CACCGT-CGTCCGCTCGCCCGG
3295150 C
1 C
3295151 CGCCCCGCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 14 0.70
23 2 0.10
ACGTcount: A:0.05, C:0.52, G:0.32, T:0.11
Consensus pattern (21 bp):
CACCGTCGTCCGCTCGCCCGG
Found at i:3296101 original size:18 final size:18
Alignment explanation
Indices: 3296080--3296136 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
3296070 GGCCGGCGCC
*
3296080 CGGGTCAACGCAGCCTTT
1 CGGGTCAACGCAGCCGTT
*
3296098 CGGG-CTGACGCAGCCGTT
1 CGGGTC-AACGCAGCCGTT
*
3296116 CAGGTCAACGCAGCCGTT
1 CGGGTCAACGCAGCCGTT
3296134 CGG
1 CGG
3296137 CCTCGCGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (18 bp):
CGGGTCAACGCAGCCGTT
Found at i:3313058 original size:27 final size:27
Alignment explanation
Indices: 3312924--3313349 Score: 392
Period size: 27 Copynumber: 15.6 Consensus size: 27
3312914 CGGGCGGTGG
* * * *
3312924 CGGCTCGGTTG-CCCGGCCTGGTCGGT
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
*
3312950 CGGCTCGGTCGCCCCCGGCTCGATCGGA
1 CGGCTCGGTCG-CCCCGGCCCGATCGGA
*
3312978 CGGCTCGGCCGCCCCCGGCCCGATCGGA
1 CGGCTCGGTCG-CCCCGGCCCGATCGGA
*
3313006 CGGCTCGGCCGCCCCCGGCCCGATCGGA
1 CGGCTCGGTCG-CCCCGGCCCGATCGGA
* *
3313034 CGGCTCAGTCGCTCCGGCCCGATCGGA
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
* * * *
3313061 CGGCTCAGTCGCTCCGGCCCGACCGGG
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
* * *
3313088 CGGCTCAGTCGCTCCGGCCCGACCGGA
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
* *
3313115 CGGCTCGATCGCCCCCCCCGGCTCGATCGGA
1 CGGCTCGGTCG----CCCCGGCCCGATCGGA
*
3313146 CGGCTCGGCCGCCCCCGGCCCGATCGGA
1 CGGCTCGGTCG-CCCCGGCCCGATCGGA
* * * **
3313174 CGGCTCGGCCG-CCCGCGTCAG-TCGCC
1 CGGCTCGGTCGCCCCG-GCCCGATCGGA
* *
3313200 CAGCTCGGTCGCCCCGGCCCGATC-GC
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
* *
3313226 CAGGCGCGGTCGCCCCGGCCCGACCGGA
1 C-GGCTCGGTCGCCCCGGCCCGATCGGA
* * * *
3313254 CGGCTCAGTCGCCCGGGCCTGATCGGT
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
* * *
3313281 CGGCTCAGTCGCTCCGGCCCGACCGGA
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
* *
3313308 CGGCTCGATCGCCCCGGCCCGACCGGA
1 CGGCTCGGTCGCCCCGGCCCGATCGGA
*
3313335 CGGCTCGGCCGCCCC
1 CGGCTCGGTCGCCCC
3313350 CGGCGAGATC
Statistics
Matches: 339, Mismatches: 50, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
26 31 0.09
27 183 0.54
28 103 0.30
31 22 0.06
ACGTcount: A:0.08, C:0.46, G:0.35, T:0.11
Consensus pattern (27 bp):
CGGCTCGGTCGCCCCGGCCCGATCGGA
Found at i:3313453 original size:15 final size:15
Alignment explanation
Indices: 3313433--3313474 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
3313423 ACCGGCTGGA
3313433 CGTCGCCGGCGGTGG
1 CGTCGCCGGCGGTGG
* *
3313448 CGTCGCTGTCGGTGG
1 CGTCGCCGGCGGTGG
3313463 CGTCGCCGGCGG
1 CGTCGCCGGCGG
3313475 CATCCGTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.00, C:0.33, G:0.50, T:0.17
Consensus pattern (15 bp):
CGTCGCCGGCGGTGG
Found at i:3316111 original size:15 final size:15
Alignment explanation
Indices: 3316081--3316117 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3316071 GCGGCATCGA
3316081 GCGCGG-CGCGTCGG
1 GCGCGGTCGCGTCGG
3316095 GCGCGGTCGCG-CTGG
1 GCGCGGTCGCGTC-GG
3316110 GCGCGGTC
1 GCGCGGTC
3316118 CAGGCCGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.00, C:0.35, G:0.54, T:0.11
Consensus pattern (15 bp):
GCGCGGTCGCGTCGG
Found at i:3321698 original size:15 final size:15
Alignment explanation
Indices: 3321680--3321739 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
3321670 GCTACCACTG
3321680 GCCGCGCTCGCCGAC
1 GCCGCGCTCGCCGAC
*
3321695 GCCGCGCTCACCG-C
1 GCCGCGCTCGCCGAC
*
3321709 GGCCCGCGC-CGCCGGC
1 -G-CCGCGCTCGCCGAC
* *
3321725 GCCGAGCACGCCGAC
1 GCCGCGCTCGCCGAC
3321740 CTGCGCGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.16
15 24 0.65
16 7 0.19
ACGTcount: A:0.08, C:0.53, G:0.35, T:0.03
Consensus pattern (15 bp):
GCCGCGCTCGCCGAC
Found at i:3325037 original size:15 final size:12
Alignment explanation
Indices: 3325005--3325029 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3324995 ACCGCGATGG
3325005 CGACGGCGGCCA
1 CGACGGCGGCCA
3325017 CGACGGCGGCCA
1 CGACGGCGGCCA
3325029 C
1 C
3325030 CAGCACGGAA
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:0.44, G:0.40, T:0.00
Consensus pattern (12 bp):
CGACGGCGGCCA
Found at i:3342465 original size:21 final size:22
Alignment explanation
Indices: 3342430--3342472 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3342420 ACCGCTGCGG
**
3342430 TCCCGGCCGTGCTC-GCCGCGC
1 TCCCGGCCGCCCTCGGCCGCGC
3342451 TCCCGGCCGCCCTCGGCCGCGC
1 TCCCGGCCGCCCTCGGCCGCGC
3342473 GGGCCCGCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.00, C:0.56, G:0.33, T:0.12
Consensus pattern (22 bp):
TCCCGGCCGCCCTCGGCCGCGC
Found at i:3354260 original size:15 final size:15
Alignment explanation
Indices: 3354240--3354279 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
3354230 CTCGGCCCGT
3354240 GACCCCTGCTGCGAC
1 GACCCCTGCTGCGAC
*
3354255 GACCCCCGCTGCGAC
1 GACCCCTGCTGCGAC
*
3354270 AACGCCCTGC
1 GAC-CCCTGC
3354280 CCGCTGCTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.15, C:0.50, G:0.25, T:0.10
Consensus pattern (15 bp):
GACCCCTGCTGCGAC
Found at i:3355711 original size:27 final size:26
Alignment explanation
Indices: 3355653--3355732 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 26
3355643 CCCGAACGCG
* *
3355653 GCGGCTGCTGACCCGGCTGCCCCCACT
1 GCGGCGGCTGCCCCGGCTG-CCCCACT
*
3355680 GCTGCTGCGGCTGCCCGGGCTGACCCCACT
1 GC-G--GCGGCTGCCCCGGCTG-CCCCACT
3355710 GCGGCGGCTGCCCCGGCTGCCCC
1 GCGGCGGCTGCCCCGGCTGCCCC
3355733 GGCACCGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.09
27 17 0.38
28 1 0.02
29 1 0.02
30 22 0.49
ACGTcount: A:0.05, C:0.47, G:0.34, T:0.14
Consensus pattern (26 bp):
GCGGCGGCTGCCCCGGCTGCCCCACT
Found at i:3355847 original size:33 final size:32
Alignment explanation
Indices: 3355756--3355854 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 32
3355746 CCCACTGGGC
*
3355756 CTGCGGCTGCCCCGGGGTCTG-GCCCCACTGCTG
1 CTGCGGCTGGCCC-GGGTCTGCG-CCCACTGCTG
*
3355789 CTGCGGCT-GCGCGGG-CTGAC-CCCACTGCTG
1 CTGCGGCTGGCCCGGGTCTG-CGCCCACTGCTG
*
3355819 CTGCGGCTGGCCCGGCGTCTGCGACCACTGCTG
1 CTGCGGCTGGCCCGG-GTCTGCGCCCACTGCTG
3355852 CTG
1 CTG
3355855 GGCCTGCTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
30 21 0.38
31 8 0.14
32 4 0.07
33 23 0.41
ACGTcount: A:0.05, C:0.40, G:0.36, T:0.18
Consensus pattern (32 bp):
CTGCGGCTGGCCCGGGTCTGCGCCCACTGCTG
Found at i:3356925 original size:14 final size:15
Alignment explanation
Indices: 3356899--3356927 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3356889 GGCGTCGGAG
3356899 TGCCTGCCCCGGCGC
1 TGCCTGCCCCGGCGC
3356914 TGCCTG-CCCGGCGC
1 TGCCTGCCCCGGCGC
3356928 GGTGATCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.52, G:0.34, T:0.14
Consensus pattern (15 bp):
TGCCTGCCCCGGCGC
Found at i:3375628 original size:15 final size:15
Alignment explanation
Indices: 3375603--3375636 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
3375593 CCGCGACCAG
3375603 CACCAGCGCGGCCGC
1 CACCAGCGCGGCCGC
*
3375618 CACCAGCGCGGCGGC
1 CACCAGCGCGGCCGC
3375633 CACC
1 CACC
3375637 TCCTCCGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.53, G:0.32, T:0.00
Consensus pattern (15 bp):
CACCAGCGCGGCCGC
Found at i:3376974 original size:10 final size:10
Alignment explanation
Indices: 3376959--3376985 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3376949 CTCCGTTCCG
3376959 TGCTGGTTTC
1 TGCTGGTTTC
3376969 TGCTGGTTTC
1 TGCTGGTTTC
3376979 TGCTGGT
1 TGCTGGT
3376986 GTACGCAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.33, T:0.48
Consensus pattern (10 bp):
TGCTGGTTTC
Found at i:3386855 original size:18 final size:18
Alignment explanation
Indices: 3386820--3386859 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3386810 GCGTCCGCCG
*
3386820 GTGG-CGGCGTCGTCGTC
1 GTGGTCGGCGCCGTCGTC
*
3386837 GTGGTCGGCGCCGTGGTC
1 GTGGTCGGCGCCGTCGTC
3386855 GTGGT
1 GTGGT
3386860 GGTCGTAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.00, C:0.25, G:0.50, T:0.25
Consensus pattern (18 bp):
GTGGTCGGCGCCGTCGTC
Done.