Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 186 of 345
Found at i:52912798 original size:22 final size:21
Alignment explanation
Indices: 52912749--52912841 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 21
52912739 AAACTCCAAC
*
52912749 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* *
52912770 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAAACCATAAA
**
52912792 CCTTAAA--ATAGTAACTCATACG
1 CCTTAAACCATA--AAC-CATAAA
* *
52912814 CTTTAAACCCTAAACCATAAA
1 CCTTAAACCATAAACCATAAA
*
52912835 CCCTAAA
1 CCTTAAA
52912842 TTATAATGAT
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
19 3 0.06
21 17 0.32
22 31 0.58
24 2 0.04
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:52912953 original size:7 final size:7
Alignment explanation
Indices: 52912941--52913082 Score: 63
Period size: 7 Copynumber: 20.0 Consensus size: 7
52912931 AATAATTAAT
52912941 CTAAACC
1 CTAAACC
*
52912948 CTAAACTT
1 CTAAAC-C
* *
52912956 TTAATCC
1 CTAAACC
*
52912963 CTAATCC
1 CTAAACC
52912970 CTAAACC
1 CTAAACC
* *
52912977 TTAAAAC
1 CTAAACC
* *
52912984 ATAAAAC
1 CTAAACC
*
52912991 ATAAACC
1 CTAAACC
*
52912998 TTAAACC
1 CTAAACC
* *
52913005 ATGAACC
1 CTAAACC
*
52913012 CTTAACC
1 CTAAACC
*
52913019 CTTAACC
1 CTAAACC
*
52913026 CTTAACC
1 CTAAACC
*
52913033 CTTAACCC
1 C-TAAACC
*
52913041 CTAACCC
1 CTAAACC
52913048 CT-AACAC
1 CTAAAC-C
52913055 CTAAACC
1 CTAAACC
*
52913062 TTAAACC
1 CTAAACC
*
52913069 C-CAACC
1 CTAAACC
52913075 CTTAAACC
1 C-TAAACC
52913083 ACCCTTAAAC
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
6 7 0.07
7 84 0.79
8 16 0.15
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:52913018 original size:14 final size:14
Alignment explanation
Indices: 52913008--52913079 Score: 76
Period size: 14 Copynumber: 5.1 Consensus size: 14
52912998 TTAAACCATG
52913008 AACCCTTAACCCTT
1 AACCCTTAACCCTT
52913022 AACCCTTAACCCTT
1 AACCCTTAACCCTT
* *
52913036 AACCCCTAACCCCT
1 AACCCTTAACCCTT
*
52913050 AACACC-TAAACCTT
1 AAC-CCTTAACCCTT
*
52913064 AAACCC-CAACCCTT
1 -AACCCTTAACCCTT
52913078 AA
1 AA
52913080 ACCACCCTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
13 2 0.04
14 43 0.86
15 5 0.10
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTTAACCCTT
Found at i:52913040 original size:21 final size:20
Alignment explanation
Indices: 52913008--52913079 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
52912998 TTAAACCATG
52913008 AACCCTTAACCCTTAACCCTT
1 AACCCTTAACCCTTAACCC-T
*
52913029 AACCCTTAACCCCTAACCCCT
1 AACCCTTAACCCTTAA-CCCT
* *
52913050 AACACC-TAAACCTTAAACCCC
1 AAC-CCTTAACCCTT-AACCCT
52913071 AACCCTTAA
1 AACCCTTAA
52913080 ACCACCCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 2 0.05
21 34 0.79
22 7 0.16
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCCTTAACCCTTAACCCT
Found at i:52913105 original size:25 final size:25
Alignment explanation
Indices: 52913060--52913107 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
52913050 AACACCTAAA
*
52913060 CCTTAAACCCCAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
52913085 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
52913108 CATAATCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:52913110 original size:15 final size:15
Alignment explanation
Indices: 52913088--52913122 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
52913078 AAACCACCCT
*
52913088 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
52913102 TAAACCCATAATCCA
1 TAAACCCATAATCCA
52913117 TAAACC
1 TAAACC
52913123 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:52913127 original size:22 final size:22
Alignment explanation
Indices: 52913083--52913127 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
52913073 CCCTTAAACC
* *
52913083 ACCCTTAAACCATAATCCCTAA
1 ACCCATAAACCATAAACCCTAA
* *
52913105 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCCTAA
52913127 A
1 A
52913128 ATAGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCATAAACCATAAACCCTAA
Found at i:52913970 original size:40 final size:40
Alignment explanation
Indices: 52913926--52914012 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
52913916 TATAGCGACG
*
52913926 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGTGGCA
1 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGCGGCA
** * *
52913966 TTTTTCGAAAAGCGCTGCTAATGCTCGTTCTTTAGCGGCA
1 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGCGGCA
52914006 TTTTTTA
1 TTTTTTA
52914013 TTCAAACGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGCGGCA
Found at i:52915936 original size:66 final size:66
Alignment explanation
Indices: 52915830--52915956 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
52915820 AACTAATAAG
52915830 TAAAACTCCAGAAGACATTTAGGTACCTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCG
1 TAAAACTCCAGAAGACATTTAGGTACCTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCG
52915895 A
66 A
* * *
52915896 TAAAACTCTAGAAGACATTTAGGTACTTGAACTGAAGATTAAAATAATGAAAATTAGAGAT
1 TAAAACTCCAGAAGACATTTAGGTACCTGAACTGAAGATTAAAATAATGAAAATAAGAGAT
52915957 GTCAATAAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (66 bp):
TAAAACTCCAGAAGACATTTAGGTACCTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCG
A
Found at i:52917854 original size:76 final size:76
Alignment explanation
Indices: 52917732--52917917 Score: 194
Period size: 76 Copynumber: 2.4 Consensus size: 76
52917722 ATAACACCGA
* * * * * **
52917732 CACAAAGCCTACTAGACACAGAGCTTGAAAAACACTAGCACGAAGCCTGTTAGACACAGAG-TCT
1 CACAAAGCCTACTAGGCACAGAGCCTGAATAACACCAGCACAAAGCCTACTAGACACAGAGCTC-
52917796 GAATAACACTAG
65 GAATAACACTAG
* * * * *
52917808 CACAAAGCCAACTAGGCATAGAGCCTGAATAACACCAGTACAAAGCCTACTAGGCATAGAGCTCG
1 CACAAAGCCTACTAGGCACAGAGCCTGAATAACACCAGCACAAAGCCTACTAGACACAGAGCTCG
* *
52917873 AATAACATTGG
66 AATAACACTAG
* * * *
52917884 CACGAAGCCTGCTAGGCACATAGCCCGAATAACA
1 CACAAAGCCTACTAGGCACAGAGCCTGAATAACA
52917918 TTATGCTTCT
Statistics
Matches: 89, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
76 87 0.98
77 2 0.02
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.15
Consensus pattern (76 bp):
CACAAAGCCTACTAGGCACAGAGCCTGAATAACACCAGCACAAAGCCTACTAGACACAGAGCTCG
AATAACACTAG
Found at i:52917919 original size:38 final size:38
Alignment explanation
Indices: 52917732--52917917 Score: 174
Period size: 38 Copynumber: 4.9 Consensus size: 38
52917722 ATAACACCGA
* ** *
52917732 CACAAAGCCTACTAGACACAGAGCTTGAAAAACACTAG
1 CACAAAGCCTACTAGGCACAGAGCCCGAATAACACTAG
* ** * * *
52917770 CACGAAGCCTGTTAGACACAGAGTCTGAATAACACTAG
1 CACAAAGCCTACTAGGCACAGAGCCCGAATAACACTAG
* * * *
52917808 CACAAAGCCAACTAGGCATAGAGCCTGAATAACACCAG
1 CACAAAGCCTACTAGGCACAGAGCCCGAATAACACTAG
* * * * *
52917846 TACAAAGCCTACTAGGCATAGAGCTCGAATAACATTGG
1 CACAAAGCCTACTAGGCACAGAGCCCGAATAACACTAG
* * *
52917884 CACGAAGCCTGCTAGGCACATAGCCCGAATAACA
1 CACAAAGCCTACTAGGCACAGAGCCCGAATAACA
52917918 TTATGCTTCT
Statistics
Matches: 121, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 121 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.15
Consensus pattern (38 bp):
CACAAAGCCTACTAGGCACAGAGCCCGAATAACACTAG
Found at i:52921328 original size:39 final size:39
Alignment explanation
Indices: 52921197--52921387 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
52921187 GGATATAACG
* ** **
52921197 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
52921237 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
52921277 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52921315 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
52921355 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
52921388 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52921332 original size:78 final size:80
Alignment explanation
Indices: 52921237--52921387 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
52921227 GGTTATAGCG
* * * *
52921237 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
52921299 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
52921315 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
52921380 AGCCCGGA
66 AGCCCGGA
52921388 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:52929349 original size:39 final size:39
Alignment explanation
Indices: 52929218--52929407 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
52929208 GGATATAACG
* ** **
52929218 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
52929258 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
52929298 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52929336 ACTCGCACGAATGCCTTC--GATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
52929375 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
52929408 CATCATTCGA
Statistics
Matches: 122, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
37 1 0.01
38 22 0.18
39 44 0.36
40 51 0.42
41 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52929353 original size:78 final size:79
Alignment explanation
Indices: 52929258--52929407 Score: 198
Period size: 78 Copynumber: 1.9 Consensus size: 79
52929248 GGTTATAGCG
* * * *
52929258 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC--GATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
52929320 TAGCCCGGATTTATTA
64 TAGCCCGGATTTATTA
** *
52929336 ACTCGCACGAATGCCTTCGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA
1 ACTCGCACGAATGCCTTCGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
52929401 GCCCGGA
66 GCCCGGA
52929408 CATCATTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 2 0.03
77 16 0.26
78 33 0.53
79 11 0.18
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
ACTCGCACGAATGCCTTCGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
GCCCGGATTTATTA
Found at i:52933470 original size:39 final size:39
Alignment explanation
Indices: 52933414--52933596 Score: 321
Period size: 39 Copynumber: 4.7 Consensus size: 39
52933404 CCAACATAAT
* *
52933414 TGCCTTCGAGACTTAGCCCGGATATAACACCAGTACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
52933453 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
52933492 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
52933531 TGCTTTCGGGACTTAGCCCTGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
52933570 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
52933597 ATCTCACACA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:52934237 original size:2 final size:2
Alignment explanation
Indices: 52934230--52934261 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
52934220 TGAATTTAAC
52934230 TA TA TA TA TA TA TA GTA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA T
52934262 TCAAATGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52934250 original size:15 final size:15
Alignment explanation
Indices: 52934230--52934258 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52934220 TGAATTTAAC
52934230 TATATATATATATAG
1 TATATATATATATAG
52934245 TATATATATATATA
1 TATATATATATATA
52934259 TATTCAAATG
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATATATATATATAG
Found at i:52934316 original size:2 final size:2
Alignment explanation
Indices: 52934303--52934343 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
52934293 TCAGGCATAA
* *
52934303 AT AT AC AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52934344 GTGCATGCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:52934320 original size:12 final size:12
Alignment explanation
Indices: 52934303--52934343 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
52934293 TCAGGCATAA
52934303 ATATACATATAT
1 ATATACATATAT
52934315 ATATACATATAT
1 ATATACATATAT
*
52934327 ATATATATATAT
1 ATATACATATAT
52934339 ATATA
1 ATATA
52934344 GTGCATGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATACATATAT
Found at i:52936645 original size:6 final size:6
Alignment explanation
Indices: 52936627--52936720 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
52936617 AAGAAACATT
* *
52936627 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCA-A GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
52936676 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT
52936721 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 58 0.81
7 6 0.08
8 3 0.04
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:52936677 original size:31 final size:31
Alignment explanation
Indices: 52936636--52936720 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
52936626 TATCAGAACT
*
52936636 AGAATCAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAAC
* * *
52936667 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAAC
* *
52936698 AGAATCAAAATCAAAATCAGAAT
1 AGAATCAGAATCAGAATCAGAAT
52936721 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAAGTAAC
Found at i:52936903 original size:2 final size:2
Alignment explanation
Indices: 52936896--52936927 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52936886 ACTAGAACAG
52936896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52936928 GTGTGGCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52937289 original size:27 final size:27
Alignment explanation
Indices: 52937259--52937402 Score: 157
Period size: 27 Copynumber: 5.3 Consensus size: 27
52937249 GGGTAAAATG
* *
52937259 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
52937286 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
52937313 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTCA
*
52937340 GT-ATTTCTACCCTATAAGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCA
* *
52937367 GT-ATTTCTACCCTAAAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCA
52937394 GTAATTTTA
1 GTAATTTTA
52937403 TAAATCGAGG
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 95 0.93
28 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:52937413 original size:27 final size:26
Alignment explanation
Indices: 52937383--52937723 Score: 308
Period size: 27 Copynumber: 12.7 Consensus size: 26
52937373 CTACCCTAAA
* *
52937383 AGGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAA-CG
**** * *
52937410 AGGGTAAAACGGTAATTCTGTA-AATCA
1 AGGGTATTTTGGTAATT-T-TACAAACG
* *
52937437 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAA-ACG
*** **
52937464 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACA-AACG
* **
52937491 AGGGTATTTTAGTAATTTTACAAATT
1 AGGGTATTTTGGTAATTTTACAAACG
*
52937517 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACG
* *
52937544 AGGGGTATTTTGATAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACG
52937571 AGGGGTATTTTGGTAATTTTACAAACCG
1 A-GGGTATTTTGGTAATTTTACAAA-CG
*
52937599 -GGGTATTTTGGTAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACG
*
52937624 AGGGGTATTTTGGTAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACG
* *
52937651 AGGGGTATTTTGGTAATTTTATAAACAA
1 A-GGGTATTTTGGTAATTTTACAAAC-G
* *
52937679 AGGGTATTTTAGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAACG
52937705 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
52937724 GGTAAACTAA
Statistics
Matches: 269, Mismatches: 34, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.01
26 28 0.10
27 231 0.86
28 5 0.02
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACG
Found at i:52937577 original size:81 final size:80
Alignment explanation
Indices: 52937438--52937723 Score: 360
Period size: 81 Copynumber: 3.5 Consensus size: 80
52937428 TGTAAATCAA
* * * ** ***
52937438 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTATTTT
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACCAG-GGGTATTTT
* *
52937501 AGTAATTTTACAAATTAG
64 GGTAATTTTACAAA-AAG
52937519 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
**
52937584 TAATTTTACAAACCG
66 TAATTTTACAAAAAG
* *
52937599 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
* *
52937664 TAATTTTATAAACAAA
66 TAATTTTACAAA-AAG
* *
52937680 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTT
52937724 GGTAAACTAA
Statistics
Matches: 183, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
80 75 0.41
81 103 0.56
82 5 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
TAATTTTACAAAAAG
Found at i:52937642 original size:107 final size:108
Alignment explanation
Indices: 52937492--52937723 Score: 367
Period size: 107 Copynumber: 2.2 Consensus size: 108
52937482 TACAGGTCGA
* ** *
52937492 GGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA
* * * *
52937557 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC-CG
66 TAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
*
52937599 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA
*
52937664 TAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
66 TAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
52937707 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
52937724 GGTAAACTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 96 0.84
108 18 0.16
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (108 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA
TAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:52937732 original size:27 final size:27
Alignment explanation
Indices: 52937492--52937723 Score: 358
Period size: 27 Copynumber: 8.6 Consensus size: 27
52937482 TACAGGTCGA
* *
52937492 GGGTATTTTAGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
52937519 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
52937546 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
52937573 GGGTATTTTGGTAATTTTACAAAC-CG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
52937599 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
52937626 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
52937653 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
52937680 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
52937707 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
52937724 GGTAAACTAA
Statistics
Matches: 189, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 25 0.13
27 164 0.87
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:52943261 original size:39 final size:39
Alignment explanation
Indices: 52943162--52943342 Score: 285
Period size: 38 Copynumber: 4.7 Consensus size: 39
52943152 CCAACACAAT
*
52943162 TGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
52943201 TGCC-TCGGGACATAGCCCGGATATAACACCAGCATGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
52943239 TGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
52943278 TGCCTTC-GGACTTAGCCCTGATATAACACCAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
52943316 TGCCTTCGGGACTTAGCCCGAATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
52943343 ATCTCACACA
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
38 71 0.55
39 58 0.45
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:52943294 original size:77 final size:77
Alignment explanation
Indices: 52943156--52943342 Score: 286
Period size: 77 Copynumber: 2.4 Consensus size: 77
52943146 ACATTTCCAA
* *
52943156 CACAATTGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTCGGGACATAGCCCGG
1 CACAAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTCGGGACATAGCCCGG
52943221 ATATAACACCAG
66 ATATAACACCAG
** * * *
52943233 CATGAATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC-GGACTTAGCCCT
1 CACAAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC-TCGGGACATAGCCCG
52943297 GATATAACACCAG
65 GATATAACACCAG
*
52943310 CACAAATGCCTTCGGGACTTAGCCCGAATATAA
1 CACAAATGCCTTCGGGACTTAGCCCGGATATAA
52943343 ATCTCACACA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 96 0.98
78 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (77 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTCGGGACATAGCCCGG
ATATAACACCAG
Found at i:52943996 original size:2 final size:2
Alignment explanation
Indices: 52943989--52944023 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
52943979 ATTTATGTAG
52943989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52944024 TCAAACGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52950292 original size:35 final size:35
Alignment explanation
Indices: 52950253--52950323 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
52950243 TCTAGGATCA
*
52950253 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* *
52950288 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
52950323 C
1 C
52950324 TCCGAAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:52955484 original size:35 final size:35
Alignment explanation
Indices: 52955445--52955516 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
52955435 TCTAGGATCA
52955445 CATATCTTTGAAGATCCT-CTTT-CATATTTGCCAAG
1 CATATCTTTGAAGAT--TACTTTCCATATTTGCCAAG
*
52955480 CATATCTTTGAAGATTACTTTCCATATTTTCCAAG
1 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
52955515 CA
1 CA
52955517 CCGAAGATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 1 0.03
34 4 0.12
35 29 0.85
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (35 bp):
CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
Found at i:52957983 original size:50 final size:52
Alignment explanation
Indices: 52957873--52958004 Score: 178
Period size: 50 Copynumber: 2.6 Consensus size: 52
52957863 ATGAACAAAT
* * * *
52957873 GAGTTACTTAATGCATGACTTAATTTAATGATACAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGTCATAATTTAATGATACAAACTTTAACTAACATGA
* *
52957925 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGTCATAATTTAATGATACAAACTTTAACTAACATGA
* *
52957975 GAGTTACATAATGCATGTCATTATTAAATG
1 GAGTTACATAATGCATGTCATAATTTAATG
52958005 CAGAACACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 35 0.49
51 13 0.18
52 23 0.32
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATGTCATAATTTAATGATACAAACTTTAACTAACATGA
Found at i:52960068 original size:39 final size:39
Alignment explanation
Indices: 52959984--52960136 Score: 207
Period size: 39 Copynumber: 3.9 Consensus size: 39
52959974 TATGGTAACC
** * *
52959984 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
52960024 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
52960063 CGCACAATTGCCTTCGGTCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52960102 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
52960137 TCGAACATTC
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 84 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52960109 original size:78 final size:79
Alignment explanation
Indices: 52959953--52960135 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
52959943 TCGTTCAAAC
* * **
52959953 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
52960018 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * * *
52960033 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTC-GGTCTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
52960097 CAATTTGCACAATT
66 CAATTTGCACAATT
52960111 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
52960136 CTCGAACATT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 55 0.59
79 29 0.31
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:52963599 original size:39 final size:40
Alignment explanation
Indices: 52963510--52963723 Score: 330
Period size: 40 Copynumber: 5.4 Consensus size: 40
52963500 GATGATAACG
52963510 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
52963550 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
52963589 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
52963629 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
52963669 GGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
52963708 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
52963724 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
38 8 0.05
39 71 0.43
40 85 0.52
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:52963641 original size:79 final size:80
Alignment explanation
Indices: 52963510--52963723 Score: 330
Period size: 79 Copynumber: 2.7 Consensus size: 80
52963500 GATGATAACG
52963510 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGT
**
52963574 GCGAGTTACTAT-TCC
65 GCGAACTACTATATCC
52963589 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
52963654 CGAACTACTATATCC
66 CGAACTACTATATCC
* * *
52963669 GGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
52963724 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
78 16 0.13
79 98 0.77
80 13 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAACTACTATATCC
Found at i:52971615 original size:40 final size:40
Alignment explanation
Indices: 52971510--52971725 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
52971500 CGGATGATAA
* *
52971510 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
52971550 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
52971589 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
52971629 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
52971669 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
52971709 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
52971726 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 53 0.32
40 111 0.67
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:52971684 original size:80 final size:80
Alignment explanation
Indices: 52971510--52971725 Score: 307
Period size: 79 Copynumber: 2.7 Consensus size: 80
52971500 CGGATGATAA
* *
52971510 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGT-CCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTG
**
52971573 TGCGAGTTACTAATTC
65 TGCGAACTACTAATTC
52971589 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
52971654 GCGAACTACT-ATATC
66 GCGAACTACTAAT-TC
* * *
52971669 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
52971726 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
79 64 0.51
80 62 0.49
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAACTACTAATTC
Found at i:52980665 original size:40 final size:39
Alignment explanation
Indices: 52980559--52980687 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
52980549 TGCTGGAAAT
* * * *
52980559 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
52980599 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
52980639 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ATGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
52980679 TATATCCGG
1 TATATCCGG
52980688 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:52984421 original size:47 final size:48
Alignment explanation
Indices: 52984367--52984498 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
52984357 CTCAATCGAT
* * * *
52984367 AAGTACCTATACCATGGCCTGTATCCAAATCAAGGT-A-ACTTATCTCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACACTTCTC-CA
* * *
52984414 AAGTACCTATACCATGACCCATAGCCAAATTAAGGTAACACTTCTCCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACACTTCTCCA
* * *
52984462 AAATACTTATACCATGGCCCGTAGACAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
52984499 TCGCTTGCAC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
47 31 0.44
48 33 0.47
49 6 0.09
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACACTTCTCCA
Found at i:52990017 original size:16 final size:17
Alignment explanation
Indices: 52989996--52990028 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52989986 CACATTGAAG
52989996 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
52990012 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
52990029 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:52991053 original size:22 final size:22
Alignment explanation
Indices: 52991025--52991083 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52991015 TAAATACATT
*
52991025 TGGCACAAAGCCATAGTCATGA
1 TGGCACAAAGCCATAGTCACGA
* ** * *
52991047 TGGCACAGAGCCATTTTTACGT
1 TGGCACAAAGCCATAGTCACGA
52991069 TGGCACAAAGCCATA
1 TGGCACAAAGCCATA
52991084 ATCAGATTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCACGA
Found at i:52991519 original size:54 final size:54
Alignment explanation
Indices: 52991433--52991754 Score: 300
Period size: 54 Copynumber: 6.0 Consensus size: 54
52991423 TAACCCTACA
* * **
52991433 AGGGTATTTCGGTAATCTTACACTAC-AAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACA-AACTGGGGGTATTTCGATAATTTTACAAATCG
* * * * **
52991487 GGGGTAATTT-GGTAGTTTTACAAACTGGGGGTATTTTGGTAATTTT-GTAATCTG
1 AGGGT-ATTTCGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATC-G
* * **
52991541 AGGGTATTTCGGTAATCTTACACTAC-AAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACA-AACTGGGGGTATTTCGATAATTTTACAAATCG
* * * * **
52991595 GGGGTAATTT-GGTAGTTTTACAAACTGGGGGTATTTTGGTAATTTT-GTAATCTG
1 AGGGT-ATTTCGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATC-G
* * *
52991649 AGGGTATTTCGGTAATTTTAC-AACTTGAGGGTATTTCAATCATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAC-TGGGGGTATTTCGATAATTTTACAAATCG
*
52991703 AGGGTATTTCGATAATTTTACAAACTGGGGGTATTTTCG-TAATTTTACAAAT
1 AGGGTATTTCGGTAATTTTACAAACTGGGGGTA-TTTCGATAATTTTACAAAT
52991755 TGGGGTTTTA
Statistics
Matches: 211, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
53 23 0.11
54 163 0.77
55 25 0.12
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATCG
Found at i:52991563 original size:108 final size:108
Alignment explanation
Indices: 52991433--52991748 Score: 519
Period size: 108 Copynumber: 2.9 Consensus size: 108
52991423 TAACCCTACA
52991433 AGGGTATTTCGGTAATCTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTAATTTG
1 AGGGTATTTCGGTAATCTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTAATTTG
52991498 GTAGTTTTACAAACTGGGGGTATTTTGGTAATTTTGTAATCTG
66 GTAGTTTTACAAACTGGGGGTATTTTGGTAATTTTGTAATCTG
52991541 AGGGTATTTCGGTAATCTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTAATTTG
1 AGGGTATTTCGGTAATCTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTAATTTG
52991606 GTAGTTTTACAAACTGGGGGTATTTTGGTAATTTTGTAATCTG
66 GTAGTTTTACAAACTGGGGGTATTTTGGTAATTTTGTAATCTG
* ** * * *
52991649 AGGGTATTTCGGTAATTTTACAACT-TGAGGGTATTTCAATCATTTTACAAATCGAGGGT-ATTT
1 AGGGTATTTCGGTAATCTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTAATTT
* * *
52991712 CGATAATTTTACAAACTGGGGGTATTTTCGTAATTTT
65 -GGTAGTTTTACAAACTGGGGGTATTTTGGTAATTTT
52991749 ACAAATTGGG
Statistics
Matches: 197, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
107 4 0.02
108 190 0.96
109 3 0.02
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (108 bp):
AGGGTATTTCGGTAATCTTACACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTAATTTG
GTAGTTTTACAAACTGGGGGTATTTTGGTAATTTTGTAATCTG
Found at i:52991599 original size:27 final size:27
Alignment explanation
Indices: 52991434--52991759 Score: 231
Period size: 27 Copynumber: 12.1 Consensus size: 27
52991424 AACCCTACAA
* * **
52991434 GGGTATTTCGGTAATCTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGG
*
52991461 GGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGG
*
52991488 GGGTAATTT-GGTAGTTTTACAAA-CTGG
1 GGGT-ATTTCGGTAATTTTACAAATC-GG
* ** *
52991515 GGGTATTTTGGTAATTTT-GTAATCTGA
1 GGGTATTTCGGTAATTTTACAAATC-GG
* * **
52991542 GGGTATTTCGGTAATCTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGG
*
52991569 GGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGG
*
52991596 GGGTAATTT-GGTAGTTTTACAAA-CTGG
1 GGGT-ATTTCGGTAATTTTACAAATC-GG
* ** *
52991623 GGGTATTTTGGTAATTTT-GTAATCTGA
1 GGGTATTTCGGTAATTTTACAAATC-GG
* * *
52991650 GGGTATTTCGGTAATTTTACAACTTGA
1 GGGTATTTCGGTAATTTTACAAATCGG
** * *
52991677 GGGTATTTCAATCATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGG
*
52991704 GGGTATTTCGATAATTTTACAAA-CTGG
1 GGGTATTTCGGTAATTTTACAAATC-GG
*
52991731 GGGTATTTTC-GTAATTTTACAAATTGG
1 GGGTA-TTTCGGTAATTTTACAAATCGG
52991758 GG
1 GG
52991760 TTTTAACGAC
Statistics
Matches: 241, Mismatches: 42, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
26 15 0.06
27 207 0.86
28 19 0.08
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGG
Found at i:52996014 original size:13 final size:13
Alignment explanation
Indices: 52995996--52996020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52995986 GGTTTTTTTA
52995996 TTAAACTAATTAT
1 TTAAACTAATTAT
52996009 TTAAACTAATTA
1 TTAAACTAATTA
52996021 ACTGATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:53016097 original size:48 final size:48
Alignment explanation
Indices: 53016040--53016358 Score: 228
Period size: 48 Copynumber: 6.6 Consensus size: 48
53016030 TGTGTGTCAA
**
53016040 TGTAAGACCATGTCTGGGACATGGTGTCGGCCACGATATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
* ** * * * * * *
53016088 TGTAAGACCATGTTTGAAACATGGCATTGGCGATGTTGTGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
* * * * * **
53016136 TGTAAGACTATGTCTGGGACATGGCATCAG-CATTGATATGTGCGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCAG
* * * *
53016184 TGTAAAACCATGTCTGGGACATGGTATCGGCCACGTTATAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
* * * * * * * *
53016232 TGTAAGACCATGTTTGGGATATGGCATTGG-CATTGAGACGAGAGCTAC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCAG
* * * * ** * * *
53016280 TGTAAGACCATATCTGGGACGTGGCACCGACCTTGACATGTGAGCCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
* * *
53016328 TGTAAGACCATGTTTGGAACATGGCACCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
53016359 AATTCATCCT
Statistics
Matches: 200, Mismatches: 67, Indels: 8
0.73 0.24 0.03
Matches are distributed among these distances:
47 3 0.01
48 194 0.97
49 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
Found at i:53016285 original size:144 final size:144
Alignment explanation
Indices: 53016025--53016305 Score: 377
Period size: 144 Copynumber: 2.0 Consensus size: 144
53016015 GACATTTGGG
* * * *
53016025 TGATATGTGTGTCAATGTAAGACCATGTCTGGGACATGGTGTCGGCCACGATATGAGAGCCAGTG
1 TGATATGTGCGTCAATGTAAAACCATGTCTGGGACATGGTATCGGCCACGATATAAGAGCCAGTG
* * * *
53016090 TAAGACCATGTTTGAAACATGGCATTGGCGATGTTGTGAGAGCCAATGTAAGACTATGTCTGGGA
66 TAAGACCATGTTTGAAACATGGCATTGGCGATGTAGCGAGAGCCAATGTAAGACCATATCTGGGA
53016155 CATGGCATCAGCAT
131 CATGGCATCAGCAT
* * *
53016169 TGATATGTGCGTTAGTGTAAAACCATGTCTGGGACATGGTATCGGCCACGTTATAAGAGCCAGTG
1 TGATATGTGCGTCAATGTAAAACCATGTCTGGGACATGGTATCGGCCACGATATAAGAGCCAGTG
** * * *
53016234 TAAGACCATGTTTGGGATATGGCATTGGC-AT-TGAGACGAGAGCTACTGTAAGACCATATCTGG
66 TAAGACCATGTTTGAAACATGGCATTGGCGATGT-AG-CGAGAGCCAATGTAAGACCATATCTGG
*
53016297 GACGTGGCA
129 GACATGGCA
53016306 CCGACCTTGA
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
142 1 0.01
143 3 0.03
144 114 0.97
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (144 bp):
TGATATGTGCGTCAATGTAAAACCATGTCTGGGACATGGTATCGGCCACGATATAAGAGCCAGTG
TAAGACCATGTTTGAAACATGGCATTGGCGATGTAGCGAGAGCCAATGTAAGACCATATCTGGGA
CATGGCATCAGCAT
Found at i:53016331 original size:144 final size:144
Alignment explanation
Indices: 53016040--53016351 Score: 369
Period size: 144 Copynumber: 2.2 Consensus size: 144
53016030 TGTGTGTCAA
* *
53016040 TGTAAGACCATGTCTGGGACATGGTGTCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTTGA
1 TGTAAGACCATGTCTGGGACATGGTATCGGCCACGATATAAGAGCCAGTGTAAGACCATGTTTGA
* * * * *
53016105 AACATGGCATTGGCGATGTTGTGAGAGCCAATGTAAGACTATGTCTGGGACATGGCATCAGCATT
66 AACATGGCATTGGCGATGTAGCGAGAGCCAATGTAAGACCATATCTGGGACATGGCACCAGCATT
* * **
53016170 GATATGTGCGTTAG
131 GACATGTGAGCCAG
* * *
53016184 TGTAAAACCATGTCTGGGACATGGTATCGGCCACGTTATAAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGTATCGGCCACGATATAAGAGCCAGTGTAAGACCATGTTTGA
* * * * *
53016249 GATATGGCATTGGC-AT-TGAGACGAGAGCTACTGTAAGACCATATCTGGGACGTGGCACC-GAC
66 AACATGGCATTGGCGATGT-AG-CGAGAGCCAATGTAAGACCATATCTGGGACATGGCACCAG-C
* *
53016311 CTTGACATGTGAGCCGG
128 ATTGACATGTGAGCCAG
* *
53016328 TGTAAGACCATGTTTGGAACATGG
1 TGTAAGACCATGTCTGGGACATGG
53016352 CACCGGCAAT
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
142 1 0.01
143 4 0.03
144 136 0.96
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (144 bp):
TGTAAGACCATGTCTGGGACATGGTATCGGCCACGATATAAGAGCCAGTGTAAGACCATGTTTGA
AACATGGCATTGGCGATGTAGCGAGAGCCAATGTAAGACCATATCTGGGACATGGCACCAGCATT
GACATGTGAGCCAG
Found at i:53022057 original size:28 final size:28
Alignment explanation
Indices: 53022017--53022073 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
53022007 GACCGAAGAT
*
53022017 AAAGTTAAGGTAATTTGTTATTGTTTGA
1 AAAGTTAAGGTAATTAGTTATTGTTTGA
53022045 AAAGTTAAGGTAATTAGTTATTGTTTGA
1 AAAGTTAAGGTAATTAGTTATTGTTTGA
53022073 A
1 A
53022074 GGCCGCTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (28 bp):
AAAGTTAAGGTAATTAGTTATTGTTTGA
Found at i:53023483 original size:12 final size:12
Alignment explanation
Indices: 53023466--53023491 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53023456 GAAATGCATA
53023466 GATTAATATGAT
1 GATTAATATGAT
53023478 GATTAATATGAT
1 GATTAATATGAT
53023490 GA
1 GA
53023492 CTAAATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (12 bp):
GATTAATATGAT
Found at i:53023800 original size:48 final size:45
Alignment explanation
Indices: 53023710--53024028 Score: 183
Period size: 48 Copynumber: 6.7 Consensus size: 45
53023700 TGTGTGTCAA
* * * **
53023710 TGTAAGACCATGTCTGGGACATGGCGTCGGCCACGAAATGAGAGCCAG
1 TGTAAGACCATGT-TTGGACATGGCATCGG-CA-TATTTGAGAGCCAG
* * *
53023758 TGTAAGACCATGTTTGGAACATGACATTGGCGATATTGTGAGAGCTAG
1 TGTAAGACCATGTTTGG-ACATGGCATCGGC-ATATT-TGAGAGCCAG
* * * * *
53023806 TGTAAGACCTTGTCTGGGACATGGCATCGGCATTGATTTGTGTGCTAG
1 TGTAAGACCATGT-TTGGACATGGCATCGGCA-T-ATTTGAGAGCCAG
* * * *
53023854 TATAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGGGCCAG
1 TGTAAGACCATGT-TTGGACATGGCATCGG-CATATT-TGAGAGCCAG
* *** **
53023902 TGTAAGACCAAT-TCTGGGACATGGCATCGGCATTGAGACGAGAGTTAG
1 TGTAAGACC-ATGT-TTGGACATGGCATCGGCA-T-ATTTGAGAGCCAG
* * * ** *
53023950 TGTAAGACCATGTCTGGGCCATGGCATCGGCCTCGACATGTGAGCCAG
1 TGTAAGACCATGT-TTGGACATGGCATCGGCAT--ATTTGAGAGCCAG
53023998 TGTAAGACCAT-TTTGGAACATGGCATCGGCA
1 TGTAAGACCATGTTTGG-ACATGGCATCGGCA
53024029 ATTCACCCTC
Statistics
Matches: 217, Mismatches: 40, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
46 3 0.01
47 27 0.12
48 176 0.81
49 11 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (45 bp):
TGTAAGACCATGTTTGGACATGGCATCGGCATATTTGAGAGCCAG
Found at i:53023876 original size:96 final size:96
Alignment explanation
Indices: 53023710--53024028 Score: 281
Period size: 96 Copynumber: 3.3 Consensus size: 96
53023700 TGTGTGTCAA
* * * *
53023710 TGTAAGACCATGTCTGGGACATGGCGTCGGCCA-CGAAATGAGAGCCAGTGTAAGACCATGTTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAAATGAGAGCCAGTATAAGACCATGTTAG
* * * * *
53023774 GAACATGACATTGGCGATATTGTGAGAGCTAG
65 GAACATGACATCGGCCACATTATGAGAGCCAG
* ** * * *
53023806 TGTAAGACCTTGTCTGGGACATGGCATCGGCATTGATTTGTGTGCTAGTATAAGACCATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAATGAGAGCCAGTATAAGACCATGT-TAG
* *
53023871 G-ACATGGCATCGGCCACATTATGAGGGCCAG
65 GAACATGACATCGGCCACATTATGAGAGCCAG
* * ** *
53023902 TGTAAGACCAAT-TCTGGGACATGGCATCGGCATTGAGACGAGAGTTAGTGTAAGACCATGTCT-
1 TGTAAGACC-ATGTCTGGGACATGGCATCGGCATTGAAATGAGAGCCAGTATAAGACCATGT-TA
** * * * *
53023965 GGGCCATGGCATCGGCCTCGA-CATGTGAGCCAG
64 GGAACATGACATCGGCCAC-ATTATGAGAGCCAG
* *
53023998 TGTAAGACCAT-TTTGGAACATGGCATCGGCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA
53024029 ATTCACCCTC
Statistics
Matches: 186, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
95 24 0.13
96 157 0.84
97 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAATGAGAGCCAGTATAAGACCATGTTAGG
AACATGACATCGGCCACATTATGAGAGCCAG
Found at i:53024004 original size:144 final size:144
Alignment explanation
Indices: 53023710--53024027 Score: 360
Period size: 144 Copynumber: 2.2 Consensus size: 144
53023700 TGTGTGTCAA
* * *
53023710 TGTAAGACCATGTCTGGGACATGGCGTCGGCCACGAAATGAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCACGAAATGAGAGCCAGTGTAAGACCATGTCTGG
* * * * *
53023775 AACATGACATTGGCGATATTGTGAGAGCTAGTGTAAGACCTTGTCTGGGACATGGCATCGGCATT
66 AACATGACATCGGCGATATAGCGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
** * *
53023840 GATTTGTGTGCTAG
131 GACATGTGAGCCAG
* * *
53023854 TATAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAGGGCCAGTGTAAGACCAAT-TCT
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCACGA-AATGAGAGCCAGTGTAAGACC-ATGTCT
* * * *
53023917 GGGACATGGCATCGGC-AT-TGAGACGAGAGTTAGTGTAAGACCATGTCTGGGCCATGGCATCGG
64 GGAACATGACATCGGCGATAT-AG-CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
*
53023980 CCTCGACATGTGAGCCAG
127 CATCGACATGTGAGCCAG
*
53023998 TGTAAGACCAT-T-TTGGAACATGGCATCGGC
1 TGTAAGACCATGTCTAGG-ACATGGCATCGGC
53024028 AATTCACCCT
Statistics
Matches: 147, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
142 4 0.03
143 18 0.12
144 123 0.84
145 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (144 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCCACGAAATGAGAGCCAGTGTAAGACCATGTCTGG
AACATGACATCGGCGATATAGCGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
GACATGTGAGCCAG
Found at i:53032219 original size:30 final size:30
Alignment explanation
Indices: 53032174--53032233 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
53032164 ATTTAATACG
* *
53032174 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
53032204 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
53032234 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:53038280 original size:47 final size:47
Alignment explanation
Indices: 53038218--53038559 Score: 549
Period size: 47 Copynumber: 7.3 Consensus size: 47
53038208 ATAAGATATG
* * * *
53038218 TATATGTGGTAAGGCCGAATGGCCAATGTGACGAATGTGAATATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
53038265 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
53038312 TATATGTGATAAGGCCGACTGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
53038359 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
53038406 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
53038453 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* * * *
53038500 TATATGTGATAAGGCCAAATGGCCAATGTAATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
53038547 TAAATGTGATAAG
1 TATATGTGATAAG
53038560 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
Found at i:53041166 original size:40 final size:40
Alignment explanation
Indices: 53041105--53041340 Score: 370
Period size: 40 Copynumber: 6.0 Consensus size: 40
53041095 AGGTCTTGAC
53041105 GATG-ATCCGGG-TAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53041143 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53041183 GATGTATCCGGGCTAAGCCCCGAAG-GCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53041222 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
53041262 GATATATCCGCGGCTAAGCCCCGAAGGGCATTCGTGCTAGT
1 GATGTATCCG-GGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
53041303 GATGTATCCGGGCTAAGTTCCGAAGAGTATTCGTGCTA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
53041341 NATGTTTAAC
Statistics
Matches: 180, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 4 0.02
39 44 0.24
40 96 0.53
41 36 0.20
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:53041216 original size:79 final size:79
Alignment explanation
Indices: 53041105--53041340 Score: 404
Period size: 79 Copynumber: 3.0 Consensus size: 79
53041095 AGGTCTTGAC
*
53041105 GATG-ATCCGGG-TAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
1 GATGTATCCGGGCTAAGCCCCGAAG-GCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
53041168 AGCATTCGTGCTAGT
65 AGCATTCGTGCTAGT
53041183 GATGTATCCGGGCTAAGCCCCGAAGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGA
1 GATGTATCCGGGCTAAGCCCCGAAGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGA
53041248 GCATTCGTGCTAGT
66 GCATTCGTGCTAGT
*
53041262 GATATATCCGCGGCTAAGCCCCGAAGGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAA
1 GATGTATCCG-GGCTAAGCCCCGAA-GGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAA
*
53041327 GAGTATTCGTGCTA
64 GAGCATTCGTGCTA
53041341 NATGTTTAAC
Statistics
Matches: 151, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
78 4 0.03
79 70 0.46
80 25 0.17
81 52 0.34
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (79 bp):
GATGTATCCGGGCTAAGCCCCGAAGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGA
GCATTCGTGCTAGT
Found at i:53042282 original size:28 final size:28
Alignment explanation
Indices: 53042243--53042314 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
53042233 AAATTTGTAC
**
53042243 AGCACTAAGTGTGCGAATTTGA-TTATAT
1 AGCACTAAGTGTGCG-AGCTGATTTATAT
*
53042271 AGCACTATGTGTGCGAGCTGATTTTATAT
1 AGCACTAAGTGTGCGAGCTGA-TTTATAT
53042300 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53042315 GATTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.11
28 14 0.37
29 20 0.53
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGATTTATAT
Found at i:53044057 original size:2 final size:2
Alignment explanation
Indices: 53044050--53044088 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
53044040 ACATACATGA
*
53044050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53044089 AACTTAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:53044821 original size:39 final size:40
Alignment explanation
Indices: 53044737--53044821 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
53044727 ACTTAATTCA
* * *
53044737 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
53044777 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
53044816 TCAGCA
1 CCAGCA
53044822 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:53044996 original size:47 final size:46
Alignment explanation
Indices: 53044890--53045045 Score: 181
Period size: 47 Copynumber: 3.3 Consensus size: 46
53044880 TGCACACTTT
* * * *
53044890 TCACAATTGGTCATTCGGCCTTATCACA-TATTCAATTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** * *
53044936 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
*
53044983 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
53045030 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
53045046 ATCTTAAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
45 19 0.20
46 5 0.05
47 70 0.74
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:53045387 original size:42 final size:42
Alignment explanation
Indices: 53045328--53045412 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
53045318 CCTTAAGCTC
53045328 TTGAGCTTAATCTAAAACAAATTTAACTTATTAAAATCCCAT
1 TTGAGCTTAATCTAAAACAAATTTAACTTATTAAAATCCCAT
53045370 TTGAGCTTAATCTAAAACAAATTTAACTTATTAAAATCCCAT
1 TTGAGCTTAATCTAAAACAAATTTAACTTATTAAAATCCCAT
53045412 T
1 T
53045413 GTGCTTACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (42 bp):
TTGAGCTTAATCTAAAACAAATTTAACTTATTAAAATCCCAT
Found at i:53045953 original size:49 final size:49
Alignment explanation
Indices: 53045897--53045990 Score: 188
Period size: 49 Copynumber: 1.9 Consensus size: 49
53045887 ATTTCCCAAG
53045897 GCCGAATATCACATAAAAACCTTTAATACACATGCAAAGTTTACACTTT
1 GCCGAATATCACATAAAAACCTTTAATACACATGCAAAGTTTACACTTT
53045946 GCCGAATATCACATAAAAACCTTTAATACACATGCAAAGTTTACA
1 GCCGAATATCACATAAAAACCTTTAATACACATGCAAAGTTTACA
53045991 TTAACTAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.27
Consensus pattern (49 bp):
GCCGAATATCACATAAAAACCTTTAATACACATGCAAAGTTTACACTTT
Found at i:53048965 original size:40 final size:39
Alignment explanation
Indices: 53048920--53049049 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
53048910 CGGAATATAA
53048920 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
53048960 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53049000 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
53049040 CCGGATATAA
1 CCGGATATAA
53049050 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53049064 original size:40 final size:40
Alignment explanation
Indices: 53048936--53049087 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
53048926 ATAACCATGT
* * *
53048936 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
53048976 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
53049016 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
53049056 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
53049088 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:53049070 original size:80 final size:80
Alignment explanation
Indices: 53048936--53049085 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
53048926 ATAACCATGT
*
53048936 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
53049000 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
53049016 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
53049079 CCCGGAT
64 CCCGGAT
53049086 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:53056945 original size:40 final size:39
Alignment explanation
Indices: 53056900--53057029 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
53056890 CGGAATATAA
53056900 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
53056940 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53056980 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
53057020 CCGGATATAA
1 CCGGATATAA
53057030 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53057044 original size:40 final size:40
Alignment explanation
Indices: 53056916--53057067 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
53056906 ATAACCATGT
* * *
53056916 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
53056956 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
53056996 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
53057036 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
53057068 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:53057050 original size:80 final size:80
Alignment explanation
Indices: 53056916--53057065 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
53056906 ATAACCATGT
*
53056916 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
53056980 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
53056996 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
53057059 CCCGGAT
64 CCCGGAT
53057066 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:53062317 original size:50 final size:49
Alignment explanation
Indices: 53062259--53062398 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 49
53062249 TTCAATATGA
*
53062259 GATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCGATATTTGT
1 GATCCCATGTAAGACCATGTCTGGGA-ATGGCATTGGCATCGATATGTGT
**
53062309 GATCCCATGTAAGACCATGTCTAGGCCATGGCATTGGCATCGATATGTGT
1 GATCCCATGTAAGACCATGTCT-GGGAATGGCATTGGCATCGATATGTGT
* * * *
53062359 GAAT-CTATGTAAGACCATATCTGGGAATGACATTGACATC
1 G-ATCCCATGTAAGACCATGTCTGGGAATGGCATTGGCATC
53062399 TTATTATGTG
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 14 0.18
50 61 0.77
51 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (49 bp):
GATCCCATGTAAGACCATGTCTGGGAATGGCATTGGCATCGATATGTGT
Found at i:53066722 original size:27 final size:27
Alignment explanation
Indices: 53066645--53066724 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
53066635 CACATCGGGA
** * *
53066645 AAAACAGTCACCTTACCATATAACGAC
1 AAAACAGTCATTTTACCATATAAGGGC
*
53066672 AAAACAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
*
53066699 AAAACAGTCATTTTACAATATAAGGG
1 AAAACAGTCATTTTACCATATAAGGG
53066725 GTCTAGGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATATAAGGGC
Found at i:53072472 original size:27 final size:27
Alignment explanation
Indices: 53072442--53072570 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
53072432 ATTACCAAAG
* *
53072442 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACAGAATTATCATTT
*
53072469 TA-CCCTCGATTTACAGAATTACCATTT
1 TACCCCT-GATTTACAGAATTATCATTT
*
53072496 TA-CCCTCGATTTATAGAATTA-CTATTT
1 TACCCCT-GATTTACAGAATTATC-ATTT
* * **
53072523 TACCCTTGATTTACAGAATTGTTGTTT
1 TACCCCTGATTTACAGAATTATCATTT
* *
53072550 TACCCTTGATTTACAAAATTA
1 TACCCCTGATTTACAGAATTA
53072571 CTAAATACCC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.06
27 79 0.91
28 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCCTGATTTACAGAATTATCATTT
Found at i:53072489 original size:54 final size:54
Alignment explanation
Indices: 53072415--53072542 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 54
53072405 ATTATTGAAA
* *
53072415 TACCCTCGACTTGTA-A-AATTACCAAAGTACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTCGA-TT-TACAGAATTACCAAAGTACCCTC-GATTTACAGAATTACT-ATTT
*** *
53072469 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCAAAGTACCCTCGATTTACAGAATTACTATTT
*
53072523 TACCCTTGATTTACAGAATT
1 TACCCTCGATTTACAGAATT
53072543 GTTGTTTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
52 2 0.03
53 3 0.05
54 56 0.89
55 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCAAAGTACCCTCGATTTACAGAATTACTATTT
Found at i:53072551 original size:54 final size:54
Alignment explanation
Indices: 53072445--53072599 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
53072435 ACCAAAGTAC
* * *
53072445 CCCT-GATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACT-ATTTTACCCTTGATTTACAGAATTACCATTTTA
* * ****
53072498 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTGTTGTTTTA
1 CCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTA
* ** * *
53072552 CCCTTGATTTACAAAATTACTA-AATACCCTTGGTTTACAAAATTACCA
1 CCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCA
53072600 AAATACCCTA
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
53 22 0.27
54 58 0.72
55 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTTTA
Found at i:53072648 original size:27 final size:26
Alignment explanation
Indices: 53072564--53072742 Score: 191
Period size: 27 Copynumber: 6.7 Consensus size: 26
53072554 CTTGATTTAC
* **
53072564 AAAATTA-CTAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCC-TGGTTTGT
*
53072590 AAAATTACCAAAATACCCTAGTTTGT
1 AAAATTACCAAAATACCCTGGTTTGT
53072616 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTGGTTTGT
53072643 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTGGTTTGT
* * **
53072670 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-GGTTTGT
* **
53072697 AAAATTACCAAAATACCACTGATTTAC
1 AAAATTACCAAAATACC-CTGGTTTGT
53072724 AAAATTA-CATAAATACCCT
1 AAAATTACCA-AAATACCCT
53072743 TAACTTTCTA
Statistics
Matches: 134, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 35 0.26
27 97 0.72
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGGTTTGT
Found at i:53072696 original size:54 final size:53
Alignment explanation
Indices: 53072559--53072798 Score: 207
Period size: 54 Copynumber: 4.5 Consensus size: 53
53072549 TTACCCTTGA
* ** ** *
53072559 TTTACAAAATTA-CTAAATACCCTTGGTTTACAAAATTACCAAAATACC-CTAG
1 TTTACAAAATTACCGAAATACCC-TAATTTGTAAAATTACCAAAATACCACTGG
** * **
53072611 TTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCACTGG
1 TTTACAAAATTACCGAAATACC-CTAATTTGTAAAATTACCAAAATACCACTGG
*** *
53072665 TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGA
1 TTTACAAAATTACCGAAATACCCT-AATTTGTAAAATTACCAAAATACCACTGG
** * * *
53072719 TTTACAAAATTACATAAATACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACCGAAATACCC-TAA-TTTGT-AAAATTACCA-AAATACCACTGG
*
53072775 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACCGAAATACCCT
53072799 TGGTTTGTAG
Statistics
Matches: 158, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
52 10 0.06
53 33 0.21
54 70 0.44
55 7 0.04
56 38 0.24
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (53 bp):
TTTACAAAATTACCGAAATACCCTAATTTGTAAAATTACCAAAATACCACTGG
Found at i:53072728 original size:81 final size:79
Alignment explanation
Indices: 53072556--53072743 Score: 252
Period size: 81 Copynumber: 2.3 Consensus size: 79
53072546 GTTTTACCCT
* *
53072556 TGATTTACAAAATTACTAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGTTTGTAAAAT
1 TGATTTACAAAATTACAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAATTTGTAAAAT
53072621 TACCAAAATACCAC
66 TACCAAAATACCAC
* ** *** *
53072635 TGGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 TGATTTACAAAATTA-CAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCT-AATTTGTAA
53072699 AATTACCAAAATACCAC
63 AATTACCAAAATACCAC
53072716 TGATTTACAAAATTACATAAATACCCTT
1 TGATTTACAAAATTACA-AAATACCCTT
53072744 AACTTTCTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 12 0.13
80 34 0.37
81 46 0.50
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (79 bp):
TGATTTACAAAATTACAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAATTTGTAAAAT
TACCAAAATACCAC
Found at i:53072792 original size:27 final size:27
Alignment explanation
Indices: 53072550--53072804 Score: 175
Period size: 27 Copynumber: 9.4 Consensus size: 27
53072540 ATTGTTGTTT
* *
53072550 TACCCTTGATTTACAAAATTA-CTAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
53072576 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
53072603 TACCC-TAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
**
53072629 TACCAC-TGGTTTGTAAAATTACCAAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** *
53072656 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
53072683 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
53072710 TACCAC-TGATTTACAAAATTA-CATAAA
1 TACC-CTTGGTTTACAAAATTACCA-AAA
** *
53072737 TACCCTTAACTTT-CTAAAAATTA-TAGAAA
1 TACCCTT-GGTTTAC--AAAATTACCA-AAA
* **
53072766 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
53072793 TACCCTTGGTTT
1 TACCCTTGGTTT
53072805 GTAGATTTAC
Statistics
Matches: 192, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
26 46 0.24
27 120 0.62
28 8 0.04
29 18 0.09
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:53074110 original size:25 final size:25
Alignment explanation
Indices: 53074081--53074128 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
53074071 TTATAATATG
* *
53074081 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53074106 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53074129 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53074212 original size:11 final size:11
Alignment explanation
Indices: 53074176--53074231 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
53074166 CATGGTATGT
53074176 ATGATATGCAC
1 ATGATATGCAC
* *
53074187 ATGACATG--T
1 ATGATATGCAC
53074196 ATGATATGCAC
1 ATGATATGCAC
*
53074207 ATGATATG--T
1 ATGATATGCAC
53074216 ATGATATGCAC
1 ATGATATGCAC
53074227 ATGAT
1 ATGAT
53074232 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:53074231 original size:20 final size:20
Alignment explanation
Indices: 53074165--53074231 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
53074155 ATTTTGATAA
*
53074165 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
53074185 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
53074205 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53074225 ACATGAT
1 ACATGAT
53074232 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53074337 original size:24 final size:23
Alignment explanation
Indices: 53074281--53074432 Score: 169
Period size: 24 Copynumber: 6.4 Consensus size: 23
53074271 GAGGAAGTGA
*
53074281 AAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* * *
53074304 TAAAGGGCTTATGCCCTAATTAT
1 AAAAGGGCTTATGCCCCAGTTAT
53074327 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
53074351 CAAAAGTGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
53074375 TAAAGGGCTTATACCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
53074398 AAAAAGGGCTTTTGCCCCACTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
53074423 AAAAGAGGCT
1 AAAAG-GGCT
53074433 AGGCCTCTAG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
23 40 0.36
24 65 0.59
25 5 0.05
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:53074350 original size:47 final size:47
Alignment explanation
Indices: 53074281--53074432 Score: 171
Period size: 47 Copynumber: 3.2 Consensus size: 47
53074271 GAGGAAGTGA
* * *
53074281 AAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCTAATTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAATTAT
* * * *
53074327 CAAAAGGGCTTATGCCCCAGTTATCAAAAGTGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAATTAT
* * * *
53074375 TAAAGGGCTTATACCCCAGTTATAAAAAGGGCTTTTGCCCCACTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAATTA-T
53074423 AAAAGAGGCT
1 AAAAG-GGCT
53074433 AGGCCTCTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 61 0.69
48 23 0.26
49 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAATTAT
Found at i:53074403 original size:71 final size:71
Alignment explanation
Indices: 53074281--53074432 Score: 205
Period size: 71 Copynumber: 2.1 Consensus size: 71
53074271 GAGGAAGTGA
* * * * *
53074281 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCTAATTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATACCCCAATTATAAAAAGGGCTTATGCCCCA
*
53074346 GTTATC
66 CTTATC
* * *
53074352 AAAAGTGCTTACGCCCCAGTTATTAAAGGGCTTATACCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATACCCCAATTATAAAAAGGGCTTATGCCCCA
*
53074417 CTTATT
66 CTTATC
53074423 AAAAGAGGCT
1 AAAAG-GGCT
53074433 AGGCCTCTAG
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
71 66 0.96
72 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATACCCCAATTATAAAAAGGGCTTATGCCCCA
CTTATC
Found at i:53074684 original size:31 final size:31
Alignment explanation
Indices: 53074630--53074693 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
53074620 GTTTACAGTT
*
53074630 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAAAATGA
* * **
53074661 AAAGGCTTCGGCTCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAATAATATGAAAAATGA
53074692 AA
1 AA
53074694 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAAAATGA
Found at i:53081482 original size:30 final size:30
Alignment explanation
Indices: 53081441--53081509 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
53081431 ACACCAGGGG
* * *
53081441 ACACACAGCCATGTAACTTGACAGTGTGAC
1 ACACACGGCCATGTAACCTGACAGTGTCAC
*
53081471 ACACACGGCCATGTAACCTGACCGTGTCAC
1 ACACACGGCCATGTAACCTGACAGTGTCAC
53081501 ACACACGGC
1 ACACACGGC
53081510 TGGGACACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.16
Consensus pattern (30 bp):
ACACACGGCCATGTAACCTGACAGTGTCAC
Found at i:53087940 original size:12 final size:12
Alignment explanation
Indices: 53087911--53087939 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
53087901 CTAATTTCAA
53087911 TTTTTTCCGAAT
1 TTTTTTCCGAAT
53087923 TTTTTTCC-AAT
1 TTTTTTCCGAAT
53087934 TTTTTT
1 TTTTTT
53087940 TTGAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTTTCCGAAT
Found at i:53088332 original size:13 final size:13
Alignment explanation
Indices: 53088316--53088340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53088306 TGATGAAACG
53088316 AAAGGATGGAACA
1 AAAGGATGGAACA
53088329 AAAGGATGGAAC
1 AAAGGATGGAAC
53088341 TGAATGGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (13 bp):
AAAGGATGGAACA
Found at i:53092783 original size:108 final size:108
Alignment explanation
Indices: 53092652--53092867 Score: 342
Period size: 108 Copynumber: 2.0 Consensus size: 108
53092642 GAAATCATTC
* *
53092652 CGTGAAATTGTAGACGATAAAAATATAATAAAAATAAATTTTCTTACATCGGATTTGTGGTCCCG
1 CGTGAAATTATAGACCATAAAAATATAATAAAAATAAATTTTCTTACATCGGATTTGTGGTCCCG
* * * *
53092717 AAACCACTGTTTCGACTAGTCCCAAAATTGAGCTGTTACAATT
66 AAACCACTGTTCCAACTAGGCCCAAAATCGAGCTGTTACAATT
* *
53092760 CGTGAAATTATAGACCATAAAAATATAATAAAAATAAATTTTCTTGCATCGGATTTGTGGTCCTG
1 CGTGAAATTATAGACCATAAAAATATAATAAAAATAAATTTTCTTACATCGGATTTGTGGTCCCG
* *
53092825 AAACCACTGTTCCAACTAGGCCCGATATCGAGCTGTTACAATT
66 AAACCACTGTTCCAACTAGGCCCAAAATCGAGCTGTTACAATT
53092868 ACCATAAGCA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (108 bp):
CGTGAAATTATAGACCATAAAAATATAATAAAAATAAATTTTCTTACATCGGATTTGTGGTCCCG
AAACCACTGTTCCAACTAGGCCCAAAATCGAGCTGTTACAATT
Found at i:53097162 original size:29 final size:27
Alignment explanation
Indices: 53097128--53097228 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 27
53097118 TACTCAATCA
*
53097128 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
53097157 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
53097186 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
53097215 CGCACACTCAGTGC
1 CGCACACTTAGTGC
53097229 TAATCTCGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.22
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:53097694 original size:14 final size:14
Alignment explanation
Indices: 53097675--53097705 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
53097665 ACACAAGCCT
53097675 TTGGCCGAATGTCC
1 TTGGCCGAATGTCC
53097689 TTGGCCGAATGTCC
1 TTGGCCGAATGTCC
53097703 TTG
1 TTG
53097706 ACCTATAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.29, T:0.32
Consensus pattern (14 bp):
TTGGCCGAATGTCC
Found at i:53107959 original size:65 final size:65
Alignment explanation
Indices: 53107855--53107982 Score: 229
Period size: 65 Copynumber: 2.0 Consensus size: 65
53107845 AGTCCCATGC
*
53107855 ATCAGATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAAACATGCATCCAAGTCAACCTT
1 ATCAGATAATAATAACACGGCATGTAGTAAATAGTAACAGTCAAACATGCATCCAAGTCAACCTT
* *
53107920 ATCAGATAATAATAACACGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACC
1 ATCAGATAATAATAACACGGCATGTAGTAAATAGTAACAGTCAAACATGCATCCAAGTCAACC
53107983 ATAACCCTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (65 bp):
ATCAGATAATAATAACACGGCATGTAGTAAATAGTAACAGTCAAACATGCATCCAAGTCAACCTT
Found at i:53108017 original size:26 final size:26
Alignment explanation
Indices: 53107988--53108065 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
53107978 CAACCATAAC
* *
53107988 CCTAGAGGTATATCAGTAATTTTGCT
1 CCTAGAGGTATATCAGTAATTTTCCA
* * *
53108014 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGAGGTATATCAGT-AATTTTCCA
* *
53108041 CCTATAAAGGTATTTCAGTAATTTT
1 CC--TAGAGGTATATCAGTAATTTT
53108066 ATCAGTTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
26 14 0.36
27 9 0.23
28 6 0.15
29 10 0.26
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (26 bp):
CCTAGAGGTATATCAGTAATTTTCCA
Found at i:53112927 original size:131 final size:131
Alignment explanation
Indices: 53112693--53112954 Score: 416
Period size: 131 Copynumber: 2.0 Consensus size: 131
53112683 ATACACATGA
* * * *
53112693 CAACATAGCATATGTTGCATTCCACCGTGTACAACAATCTAAAATCAATCTCTTATTTGGCAATT
1 CAACATAGCATATGCTGCATTCCACCATGTACAACAATCTAAAATCAACCTCTTATTTGGCAACT
* * * * * *
53112758 GAAGTTGCTTAACAATGTCACTGGACATAGTCAAAGGCATAGTGGATGTTGTGATGTACTTCACA
66 GAAGTTGCTTAACAATATCACTGAACATAGTCAAAGGCACAGTAGATGCTGTAATGTACTTCACA
53112823 C
131 C
*
53112824 CAACATAGCATATGCTGCATTCCACCATGTACAACAATCTAAAATCAACCTCTTATTTGGTAACT
1 CAACATAGCATATGCTGCATTCCACCATGTACAACAATCTAAAATCAACCTCTTATTTGGCAACT
*
53112889 GAAGTTGTTTAACAATATCACTGAACATAGTCAAAGGCACAGTAGATGCTGTAATGTACTTCACA
66 GAAGTTGCTTAACAATATCACTGAACATAGTCAAAGGCACAGTAGATGCTGTAATGTACTTCACA
53112954 C
131 C
53112955 TTTCCCTTAC
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 119 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (131 bp):
CAACATAGCATATGCTGCATTCCACCATGTACAACAATCTAAAATCAACCTCTTATTTGGCAACT
GAAGTTGCTTAACAATATCACTGAACATAGTCAAAGGCACAGTAGATGCTGTAATGTACTTCACA
C
Found at i:53116264 original size:13 final size:13
Alignment explanation
Indices: 53116239--53116276 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
53116229 TCCTACTCTG
53116239 ATCATGTCATAATA
1 ATCATG-CATAATA
53116253 ATCATGCATAATA
1 ATCATGCATAATA
53116266 ATCATGCATAA
1 ATCATGCATAA
53116277 ATGTAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCATGCATAATA
Found at i:53122720 original size:53 final size:53
Alignment explanation
Indices: 53122603--53122744 Score: 167
Period size: 53 Copynumber: 2.6 Consensus size: 53
53122593 AGGAAATCAT
* * * * * * *
53122603 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAAGATACCAC
* * *
53122658 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCAC
*
53122711 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTT
53122745 TAAAAGGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 46 0.62
54 3 0.04
55 25 0.34
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCAC
Found at i:53131114 original size:56 final size:56
Alignment explanation
Indices: 53131047--53131160 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
53131037 GTGTTGTAGC
*
53131047 ATGTTTTTAATGTTTTGATATTATGTGATAAATGTTTTCTTGTTATTATGAGTTAT
1 ATGTTTTTAATGTTTTGATATTATGTGATAAATGTTTTCTTATTATTATGAGTTAT
53131103 ATGTTTTTAATGTTTTGATATTATGTGATAAATGTTTTCTTATTATTATGAGTTAT
1 ATGTTTTTAATGTTTTGATATTATGTGATAAATGTTTTCTTATTATTATGAGTTAT
53131159 AT
1 AT
53131161 ACTTATTGGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (56 bp):
ATGTTTTTAATGTTTTGATATTATGTGATAAATGTTTTCTTATTATTATGAGTTAT
Found at i:53134543 original size:27 final size:27
Alignment explanation
Indices: 53134503--53134568 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
53134493 GTTCGCCAGT
* *
53134503 AGGCCTGACGAGTTAGGGTT-CTCTAGA
1 AGGCCTGGCAAGTTAGGGTTCCT-TAGA
* *
53134530 AGGCTTGGCAAGTTGGGGTTCCTTAGA
1 AGGCCTGGCAAGTTAGGGTTCCTTAGA
*
53134557 GGGCCTGGCAAG
1 AGGCCTGGCAAG
53134569 CTGGTGTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (27 bp):
AGGCCTGGCAAGTTAGGGTTCCTTAGA
Found at i:53136929 original size:2 final size:2
Alignment explanation
Indices: 53136922--53136952 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53136912 GGCTATTATG
53136922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53136953 CACATGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53139031 original size:49 final size:50
Alignment explanation
Indices: 53138959--53139136 Score: 202
Period size: 51 Copynumber: 3.5 Consensus size: 50
53138949 ACTAGTAACT
*
53138959 CAAGTGTGGTACTATGTGAAGGCCACCTTGAGAAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAGATAGCTTTGGTCA
53139008 CAAGTGTGGTACTATAG-GAAGGCCACTTTTTGAAGAA-AGATAGCTTTGGTCA
1 CAAGTGTGGTACTAT-GTGAAGGCCAC--TTTG-AGAAGAGATAGCTTTGGTCA
* * * * *
53139060 CAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAAGGTTGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTTGGTC-A
* *
53139111 CAAGGGTGGTACTATGTGAAAGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
53139137 CGAGTATCCG
Statistics
Matches: 111, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
49 27 0.24
50 7 0.06
51 43 0.39
52 34 0.31
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAGATAGCTTTGGTCA
Found at i:53139072 original size:52 final size:52
Alignment explanation
Indices: 53138959--53139136 Score: 208
Period size: 52 Copynumber: 3.5 Consensus size: 52
53138949 ACTAGTAACT
*
53138959 CAAGTGTGGTACTATGTGAAGGCCAC--CTTG-AGAAGAGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGAGATAGCTTGGTCA
53139008 CAAGTGTGGTACTATAG-GAAGGCCACTTTTTGAAGAA-AGATAGCTTTGGTCA
1 CAAGTGTGGTACTAT-GTGAAGGCCACTTTTTGAAGAAGAGATAGC-TTGGTCA
* * * * *
53139060 CAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAAG-G-TTGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGAGATAGCTTGGTC-A
* *
53139111 CAAGGGTGGTACTATGTGAAAGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
53139137 CGAGTATCCG
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
49 24 0.21
50 5 0.04
51 38 0.34
52 45 0.40
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGAGATAGCTTGGTCA
Found at i:53148394 original size:55 final size:55
Alignment explanation
Indices: 53148255--53148395 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 55
53148245 GAAGGTCCAT
* * * **
53148255 GCCCGTGTTGTTTTGGCAGGTTCGCCTACGGTTGCTTGGCAAGGGCGTGTCGCAC
1 GCCCGTGTTGTTTTGGCAGGTTCTCCCATGGTTGCAAGGCAAGGGCGTGTCGCAC
* * * * * *
53148310 GCCCTTGTT-TATTTGACAAGTT-TGACCATGGTTTCAAGGCACGGGCGTGTCGCAC
1 GCCCGTGTTGT-TTTGGCAGGTTCT-CCCATGGTTGCAAGGCAAGGGCGTGTCGCAC
53148365 GCCCGTGTTGTTTTGGCAGGTTCTCCCATGG
1 GCCCGTGTTGTTTTGGCAGGTTCTCCCATGG
53148396 CCATGTCGCA
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
54 1 0.01
55 64 0.96
56 2 0.03
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (55 bp):
GCCCGTGTTGTTTTGGCAGGTTCTCCCATGGTTGCAAGGCAAGGGCGTGTCGCAC
Found at i:53149617 original size:48 final size:48
Alignment explanation
Indices: 53149545--53149786 Score: 412
Period size: 48 Copynumber: 5.0 Consensus size: 48
53149535 CTTGATAGTG
53149545 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
53149593 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
53149641 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
53149689 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
53149737 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
53149785 AT
1 AT
53149787 ATTTATCTTG
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 183 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:53154173 original size:12 final size:13
Alignment explanation
Indices: 53154148--53154176 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53154138 AGGAAAAAAG
53154148 AAAAATTAGTAAT
1 AAAAATTAGTAAT
53154161 AAAAATTAG-AAT
1 AAAAATTAGTAAT
53154173 AAAA
1 AAAA
53154177 TTTAAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAATTAGTAAT
Found at i:53156756 original size:46 final size:46
Alignment explanation
Indices: 53156706--53156881 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
53156696 TGGTTGAGCA
*
53156706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53156752 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
53156799 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53156845 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53156882 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53156862 original size:93 final size:93
Alignment explanation
Indices: 53156703--53156874 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
53156693 GGATGGTTGA
* *
53156703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53156768 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53156796 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53156861 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53156875 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53159608 original size:15 final size:15
Alignment explanation
Indices: 53159569--53159648 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
53159559 GTATCTTGGG
*
53159569 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
53159584 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53159599 TTTCTTTATTCT-GA
1 TTTCTTTATTCTGGA
*
53159613 GTTTCTCTA-TCTTGGA
1 -TTTCTTTATTC-TGGA
*
53159629 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
53159643 TTTCTT
1 TTTCTT
53159649 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.22
15 39 0.71
16 4 0.07
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53159638 original size:30 final size:30
Alignment explanation
Indices: 53159560--53159639 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
53159550 CATAGTATCG
* * *
53159560 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
53159590 TAT-TCTGGATTTCTTTATTCT-GAGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGA-TCTCTC
53159620 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
53159640 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 3 0.07
30 39 0.91
31 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:53162075 original size:46 final size:46
Alignment explanation
Indices: 53162025--53162199 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
53162015 TGGTTGAGCA
*
53162025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53162071 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
53162118 TCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53162163 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53162200 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 30 0.28
46 36 0.33
47 31 0.29
49 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53162140 original size:47 final size:47
Alignment explanation
Indices: 53162022--53162191 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 47
53162012 GGATGGTTGA
* *
53162022 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
53162070 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
53162115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
53162162 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
53162192 GCTTATGGGC
Statistics
Matches: 104, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
43 6 0.06
45 30 0.29
46 29 0.28
47 33 0.32
48 1 0.01
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:53162187 original size:92 final size:93
Alignment explanation
Indices: 53162022--53162192 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
53162012 GGATGGTTGA
* *
53162022 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53162087 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
53162115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53162179 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53162193 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.58
93 31 0.42
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53164965 original size:29 final size:29
Alignment explanation
Indices: 53164879--53164962 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
53164869 CATAGTATCG
* * * *
53164879 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
53164909 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
53164938 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
53164963 TCTTGTTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.10
29 23 0.48
30 20 0.42
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:53164966 original size:14 final size:15
Alignment explanation
Indices: 53164888--53164966 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
53164878 GTATCTTGGG
*
53164888 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
53164903 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53164918 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
53164932 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
53164947 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
53164961 TTTCTT
1 TTTCTT
53164967 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53167393 original size:46 final size:46
Alignment explanation
Indices: 53167343--53167518 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
53167333 TGGTTGAGCA
*
53167343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53167389 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
53167436 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53167482 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53167519 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53167499 original size:93 final size:93
Alignment explanation
Indices: 53167340--53167511 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
53167330 GGATGGTTGA
* *
53167340 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53167405 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
53167433 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53167498 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53167512 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53168678 original size:28 final size:28
Alignment explanation
Indices: 53168638--53168692 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
53168628 TTTCGTACAT
53168638 TGGCCCATTTTCTCCGTTTTTGCCCCGA
1 TGGCCCATTTTCTCCGTTTTTGCCCCGA
*
53168666 TGGCCCATTTTCTTCGTTTTTGCCCCG
1 TGGCCCATTTTCTCCGTTTTTGCCCCG
53168693 TTTCTTATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.05, C:0.35, G:0.18, T:0.42
Consensus pattern (28 bp):
TGGCCCATTTTCTCCGTTTTTGCCCCGA
Found at i:53174716 original size:33 final size:33
Alignment explanation
Indices: 53174674--53174738 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
53174664 GCTCGAGATG
*
53174674 AATGTGGACCTACTATTGGGTCGGCAAGTATAT
1 AATGTGGACCTACTATTGGGTCAGCAAGTATAT
* *
53174707 AATGTGGACCTGCTATTGGGTCAGTAAGTATA
1 AATGTGGACCTACTATTGGGTCAGCAAGTATA
53174739 CCTAGACCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (33 bp):
AATGTGGACCTACTATTGGGTCAGCAAGTATAT
Done.