Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 141 of 284
Found at i:47310304 original size:26 final size:27
Alignment explanation
Indices: 47310275--47310337 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
47310265 AACTTTTTTT
*
47310275 AATTTTT-AATTTTTTTAAA-ATATATA
1 AATTTTTAAATTTTTATAAATAT-TATA
* *
47310301 AATTTTGAAATTTTTATAAATATTTTA
1 AATTTTTAAATTTTTATAAATATTATA
47310328 AATTTTTAAA
1 AATTTTTAAA
47310338 GAGATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 6 0.19
27 23 0.74
28 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
AATTTTTAAATTTTTATAAATATTATA
Found at i:47310318 original size:18 final size:19
Alignment explanation
Indices: 47310297--47310335 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47310287 TTTTAAAATA
47310297 TATAAAT-TTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
47310315 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
47310334 TA
1 TA
47310336 AAGAGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:47310336 original size:8 final size:8
Alignment explanation
Indices: 47310253--47310337 Score: 53
Period size: 8 Copynumber: 9.9 Consensus size: 8
47310243 TTTAAAATTA
*
47310253 TTTTAAAA
1 TTTTAAAT
*
47310261 TTTTAACTT
1 TTTTAA-AT
*
47310270 TTTTTAAT
1 TTTTAAAT
*
47310278 TTTTAATTT
1 TTTTAA-AT
47310287 TTTTAAAAT
1 TTTT-AAAT
* *
47310296 ATATAAAT
1 TTTTAAAT
*
47310304 TTTGAAATT
1 TTTTAAA-T
47310313 TTTATAAAT
1 TTT-TAAAT
47310322 ATTTTAAAT
1 -TTTTAAAT
47310331 TTTTAAA
1 TTTTAAA
47310338 GAGATAAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
8 27 0.47
9 23 0.40
10 8 0.14
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (8 bp):
TTTTAAAT
Found at i:47311857 original size:30 final size:30
Alignment explanation
Indices: 47311821--47311900 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
47311811 TTTTCCATTG
*
47311821 AAATTTTTAGAAAATTTTA-ATTAATCCCTT
1 AAATTTTTA-AAAATTTTATATTAAACCCTT
* *
47311851 AAA-TTTTAAAAATTCTCATTTTAAACCCTT
1 AAATTTTTAAAAATT-TTATATTAAACCCTT
47311881 AAGATTTTTAAAAATTTTAT
1 AA-ATTTTTAAAAATTTTAT
47311901 TAGACCTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 6 0.14
29 7 0.17
30 14 0.33
31 4 0.10
32 11 0.26
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATTTTTAAAAATTTTATATTAAACCCTT
Found at i:47312227 original size:21 final size:21
Alignment explanation
Indices: 47312201--47312240 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
47312191 TCAATATGCC
47312201 ATTATATACATGAACTTTGTA
1 ATTATATACATGAACTTTGTA
47312222 ATTATATACATGAACTTTG
1 ATTATATACATGAACTTTG
47312241 ATCATGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
ATTATATACATGAACTTTGTA
Found at i:47312717 original size:15 final size:15
Alignment explanation
Indices: 47312697--47312726 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47312687 CATTTCAAAG
47312697 ATTAATCTATTGGAT
1 ATTAATCTATTGGAT
47312712 ATTAATCTATTGGAT
1 ATTAATCTATTGGAT
47312727 CGGCCTGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
ATTAATCTATTGGAT
Found at i:47314621 original size:21 final size:23
Alignment explanation
Indices: 47314596--47314640 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47314586 CATCTAAATA
47314596 TTTAA-TT-AAAAATTTAATTTT
1 TTTAATTTCAAAAATTTAATTTT
*
47314617 TTTAATTTCAAGAATTTAATTTT
1 TTTAATTTCAAAAATTTAATTTT
47314640 T
1 T
47314641 ACAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 2 0.10
23 14 0.67
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAATTTCAAAAATTTAATTTT
Found at i:47315152 original size:30 final size:30
Alignment explanation
Indices: 47315116--47315189 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
47315106 TTAATAAACG
*
47315116 TAAAATTATATTTTAATCCCTTAAAAATGA
1 TAAAATTATATTTTAATCCCTTAAAAATAA
* * ** *
47315146 TAAAATTTTAATTTAATCTTTTTAAAATAA
1 TAAAATTATATTTTAATCCCTTAAAAATAA
47315176 TAAAATTATATTTT
1 TAAAATTATATTTT
47315190 TACTATAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (30 bp):
TAAAATTATATTTTAATCCCTTAAAAATAA
Found at i:47315189 original size:22 final size:23
Alignment explanation
Indices: 47315164--47315208 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
47315154 TAATTTAATC
47315164 TTTTTAAAATAATA-AAATTATA
1 TTTTTAAAATAATACAAATTATA
**
47315186 TTTTTACTATAATACAAATTATA
1 TTTTTAAAATAATACAAATTATA
47315209 ATTTAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTTAAAATAATACAAATTATA
Found at i:47315213 original size:22 final size:22
Alignment explanation
Indices: 47315172--47315213 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47315162 TCTTTTTAAA
*
47315172 ATAATAAAATTATATTTTTACT
1 ATAATAAAATTATATATTTACT
47315194 ATAATACAAATTATA-ATTTA
1 ATAATA-AAATTATATATTTA
47315214 ATTTCAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAAATTATATATTTACT
Found at i:47315490 original size:35 final size:35
Alignment explanation
Indices: 47315442--47315562 Score: 93
Period size: 35 Copynumber: 3.1 Consensus size: 35
47315432 GCTGACCTTA
47315442 CTTTCTGTTCATTCACTTTGCCTTTTTCTTACTACT
1 CTTT-TGTTCATTCACTTTGCCTTTTTCTTACTACT
* *
47315478 CTTTT-TCTCATTCACGTTTCGACTCTCTATTGCGGCTGACCTTACT
1 CTTTTGT-TCATTCAC-TTT-G-C-CT-T-TT---TCTTA-C-TACT
47315524 -TTTTGTTCATTCACTTTGCCTTTTTCTTACTACT
1 CTTTTGTTCATTCACTTTGCCTTTTTCTTACTACT
47315558 CTTTT
1 CTTTT
47315563 CTAGATATAG
Statistics
Matches: 67, Mismatches: 4, Indels: 29
0.67 0.04 0.29
Matches are distributed among these distances:
34 5 0.07
35 14 0.21
36 10 0.15
37 1 0.01
38 1 0.01
39 4 0.06
40 2 0.03
41 4 0.06
42 1 0.01
43 1 0.01
44 6 0.09
45 13 0.19
46 5 0.07
ACGTcount: A:0.12, C:0.27, G:0.08, T:0.53
Consensus pattern (35 bp):
CTTTTGTTCATTCACTTTGCCTTTTTCTTACTACT
Found at i:47315537 original size:80 final size:80
Alignment explanation
Indices: 47315404--47315562 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
47315394 ATCCCACTCA
47315404 CTCATTCACGTTTCGACTCTCTATTGCGGCTGACCTTACTTTCTGTTCATTCACTTTGCCTTTTT
1 CTCATTCACGTTTCGACTCTCTATTGCGGCTGACCTTACTTTCTGTTCATTCACTTTGCCTTTTT
47315469 CTTACTACTCTTTTT
66 CTTACTACTCTTTTT
*
47315484 CTCATTCACGTTTCGACTCTCTATTGCGGCTGACCTTACTTTTTGTTCATTCACTTTGCCTTTTT
1 CTCATTCACGTTTCGACTCTCTATTGCGGCTGACCTTACTTTCTGTTCATTCACTTTGCCTTTTT
47315549 CTTACTACTCTTTT
66 CTTACTACTCTTTT
47315563 CTAGATATAG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.13, C:0.28, G:0.10, T:0.49
Consensus pattern (80 bp):
CTCATTCACGTTTCGACTCTCTATTGCGGCTGACCTTACTTTCTGTTCATTCACTTTGCCTTTTT
CTTACTACTCTTTTT
Found at i:47316081 original size:6 final size:6
Alignment explanation
Indices: 47316063--47316100 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
47316053 GATGTAGGAC
*
47316063 CAATTT CATTTT CAATTT CAATTT CAATTT CAATTT CA
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CA
47316101 TACTCAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (6 bp):
CAATTT
Found at i:47316107 original size:18 final size:18
Alignment explanation
Indices: 47316072--47316109 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47316062 CCAATTTCAT
*
47316072 TTTCAATTTCAATTTCAA
1 TTTCAATTTCAATCTCAA
47316090 TTTCAATTTC-ATACTCAA
1 TTTCAATTTCAAT-CTCAA
47316108 TT
1 TT
47316110 AGCATTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTCAATTTCAATCTCAA
Found at i:47320990 original size:45 final size:45
Alignment explanation
Indices: 47320923--47321098 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
47320913 TATTGTACAG
*
47320923 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTTAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
47320968 TATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* *
47321013 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * * * *
47321058 CACTATTCGGGCC-TCGAACCTAGCAGGCGA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
47321099 ATGAATTCTG
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
43 10 0.08
44 14 0.12
45 97 0.80
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:47322155 original size:16 final size:16
Alignment explanation
Indices: 47322125--47322154 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47322115 TAATTTTATT
47322125 AAATATTATATTTTTA
1 AAATATTATATTTTTA
47322141 AAAT-TTATATTTTT
1 AAATATTATATTTTT
47322155 TTATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATATTATATTTTTA
Found at i:47322163 original size:17 final size:17
Alignment explanation
Indices: 47322105--47322163 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
47322095 CAAATATTAA
*
47322105 ATTATTTATATAATTTT
1 ATTATTTATATATTTTT
**
47322122 ATTAAATATTATATTTTT
1 ATTATTTA-TATATTTTT
** *
47322140 AAAATTTATATTTTTTT
1 ATTATTTATATATTTTT
47322157 ATTATTT
1 ATTATTT
47322164 TTAATGGTAT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATTTATATATTTTT
Found at i:47324299 original size:28 final size:28
Alignment explanation
Indices: 47324267--47324323 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
47324257 ACACAATTTT
47324267 TTAAAATTCATATAAGAATTATTGTTGA
1 TTAAAATTCATATAAGAATTATTGTTGA
47324295 TTAAAATTCATATAAGAATTATTGTTGA
1 TTAAAATTCATATAAGAATTATTGTTGA
47324323 T
1 T
47324324 GTAATGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.44
Consensus pattern (28 bp):
TTAAAATTCATATAAGAATTATTGTTGA
Found at i:47325395 original size:3 final size:3
Alignment explanation
Indices: 47325387--47325412 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47325377 AGAGGGGTCT
47325387 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
47325413 GGCATTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:47332864 original size:2 final size:2
Alignment explanation
Indices: 47332851--47332888 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
47332841 AACTAACTAA
* *
47332851 CT CT CT CA CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47332889 TCACTTTGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:47334947 original size:35 final size:36
Alignment explanation
Indices: 47334907--47334982 Score: 145
Period size: 35 Copynumber: 2.1 Consensus size: 36
47334897 TCTGCTGTGA
47334907 ATACTCTTATTTTTCACTAATATTTT-AAAAAATAC
1 ATACTCTTATTTTTCACTAATATTTTAAAAAAATAC
47334942 ATACTCTTATTTTTCACTAATATTTTAAAAAAATAC
1 ATACTCTTATTTTTCACTAATATTTTAAAAAAATAC
47334978 ATACT
1 ATACT
47334983 AGTGCCGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 26 0.65
36 14 0.35
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (36 bp):
ATACTCTTATTTTTCACTAATATTTTAAAAAAATAC
Found at i:47360617 original size:43 final size:43
Alignment explanation
Indices: 47360568--47360653 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
47360558 GTCGCCTTGG
47360568 GAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
1 GAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
* *
47360611 GAAAGAGTCTGCTAGTTTGCCAAGACGAGAAGACGGAGTTGAA
1 GAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
47360654 AGTCCGGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.17
Consensus pattern (43 bp):
GAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
Found at i:47369999 original size:87 final size:86
Alignment explanation
Indices: 47369788--47370000 Score: 218
Period size: 89 Copynumber: 2.5 Consensus size: 86
47369778 GGGAGCGGAT
* * * *
47369788 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC-ACACTATCCTATCTCCTTGAGGTT
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATCGACACTATCCTATCTCCCTGAAGTT
* *
47369852 ACAGTGGAGTAGACCGGAGAAT
66 ACAGTGGAGCAGA-CGGAGAAA
** * * * *
47369874 TTCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAA
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATC---GACACTATCCTATCTCCCTGAA
* **
47369938 GTTACAGTGGAGCGGA-TTA-AAA
63 GTTACAGTGGAGCAGACGGAGAAA
*
47369960 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATCG
47370001 CGTCGAGTCT
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
84 1 0.01
85 29 0.29
86 6 0.06
87 32 0.32
89 33 0.33
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (86 bp):
TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATCGACACTATCCTATCTCCCTGAAGTT
ACAGTGGAGCAGACGGAGAAA
Found at i:47381878 original size:29 final size:29
Alignment explanation
Indices: 47381812--47381880 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
47381802 AGTCTTGTGA
47381812 TTCAACTAAAACTCTCTAGATTTTCAAGG
1 TTCAACTAAAACTCTCTAGATTTTCAAGG
* * * *
47381841 CT-AATCTAAAATTACTCTA-ATTTTTATGG
1 TTCAA-CTAAAACT-CTCTAGATTTTCAAGG
47381870 TTCAACTAAAA
1 TTCAACTAAAA
47381881 ACCCTCCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
28 2 0.06
29 23 0.72
30 7 0.22
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (29 bp):
TTCAACTAAAACTCTCTAGATTTTCAAGG
Found at i:47383915 original size:42 final size:42
Alignment explanation
Indices: 47383854--47384015 Score: 173
Period size: 42 Copynumber: 3.7 Consensus size: 42
47383844 TCGTTTTCTT
** *
47383854 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-ATC
* *
47383896 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATATC
*
47383938 GATGCCATAGCTCAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATATC
* *
47383987 GATGCCATAACCCAGCTATGGGCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
47384016 GAATCACATA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
41 2 0.02
42 62 0.61
45 2 0.02
48 1 0.01
49 34 0.34
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATATC
Found at i:47383995 original size:49 final size:48
Alignment explanation
Indices: 47383922--47384027 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
47383912 TATGGTCTTA
* * * *
47383922 CACATATTCATATATCGATGCCATAGCTCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAACCCAGCTATGGGCTTACACG-AAT
47383972 CACATATCACATATCGATGCCATAACCCAGCTATGGGCTTACACGAAT
1 CACATATCACATATCGATGCCATAACCCAGCTATGGGCTTACACGAAT
47384020 CACATATC
1 CACATATC
47384028 TCACTGATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.67
50 6 0.12
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAACCCAGCTATGGGCTTACACGAAT
Found at i:47387863 original size:43 final size:42
Alignment explanation
Indices: 47387792--47387954 Score: 211
Period size: 43 Copynumber: 3.8 Consensus size: 42
47387782 AAACGCCGCT
47387792 AAAGCGCCGCTAAAAGTCACGGACTTTAGCGGCATTTGTGGGA
1 AAAGCGCCGCTAAAAGTCACGG-CTTTAGCGGCATTTGTGGGA
* * * * *
47387835 AAAGTGCCGCTAAAAGGCACGGCTTTTAGCAGCGTTTGTGGGT
1 AAAGCGCCGCTAAAAGTCACGGC-TTTAGCGGCATTTGTGGGA
* *
47387878 AAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAAGTCACG-GCTTTAGCGGCATTTGTGGGA
47387921 AAAGCGCCGCTAAATA-TCACGGCTTTTAGCGGCA
1 AAAGCGCCGCTAAA-AGTCACGGC-TTTAGCGGCA
47387955 CTTTTTTCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.02
43 100 0.96
44 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (42 bp):
AAAGCGCCGCTAAAAGTCACGGCTTTAGCGGCATTTGTGGGA
Found at i:47387942 original size:86 final size:86
Alignment explanation
Indices: 47387791--47387950 Score: 268
Period size: 86 Copynumber: 1.9 Consensus size: 86
47387781 AAAACGCCGC
* *
47387791 TAAAGCGCCGCTAAAAGTCACGGACTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAAGGCACG
1 TAAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGGCACG
47387856 GCTTTTAGCAGCGTTTGTGGG
66 GCTTTTAGCAGCGTTTGTGGG
* *
47387877 TAAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAATA-TCAC
1 TAAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAA-AGGCAC
47387941 GGCTTTTAGC
65 GGCTTTTAGC
47387951 GGCACTTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 68 0.99
87 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (86 bp):
TAAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGGCACG
GCTTTTAGCAGCGTTTGTGGG
Found at i:47387972 original size:86 final size:86
Alignment explanation
Indices: 47387792--47387976 Score: 239
Period size: 86 Copynumber: 2.2 Consensus size: 86
47387782 AAACGCCGCT
* *
47387792 AAAGCGCCGCTAAAAGTCACGGACTTTAGCGGCATTTGTGGGAAAAGTGCCGCTAAAAGGCACGG
1 AAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGGCACGG
* ***
47387857 CTTTTAGCAGCGTTTGTGGGT
66 CTTTTAGCAGCCTTTGTGCAC
* *
47387878 AAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAATA-TCACG
1 AAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAA-AGGCACG
* * *
47387942 GCTTTTAGCGGCACTTTTTTCAC
65 GCTTTTAGCAGC-CTTTGTGCAC
47387965 AAA-CGCCGCTAA
1 AAAGCGCCGCTAA
47387977 TTTTGGCAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 78 0.91
87 8 0.09
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (86 bp):
AAAGCGCCGCTAAAAGTCACGAACTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGGCACGG
CTTTTAGCAGCCTTTGTGCAC
Found at i:47388063 original size:31 final size:31
Alignment explanation
Indices: 47388028--47388094 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
47388018 CTTCCTGCAT
* *
47388028 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
47388059 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
47388090 TAAAA
1 TAAAA
47388095 AAATACAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:47393988 original size:9 final size:9
Alignment explanation
Indices: 47393989--47394101 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
47393979 TGTGTAAGTT
*
47393989 GTTATGTAC
1 GTTATGTAA
*
47393998 GTTATGTGA
1 GTTATGTAA
47394007 GTTATGTAA
1 GTTATGTAA
*
47394016 ATTATGTAA
1 GTTATGTAA
*
47394025 GTTATGTGA
1 GTTATGTAA
47394034 GTTATGTAA
1 GTTATGTAA
47394043 GTTGTTATGTAA
1 ---GTTATGTAA
*
47394055 ATTATGTAA
1 GTTATGTAA
* *
47394064 GTTATATGA
1 GTTATGTAA
47394073 GTTATGTAA
1 GTTATGTAA
47394082 GTTATGTAA
1 GTTATGTAA
* *
47394091 TTTATTTAA
1 GTTATGTAA
47394100 GT
1 GT
47394102 AATGATCAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 76 0.89
12 9 0.11
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:47394101 original size:57 final size:57
Alignment explanation
Indices: 47393974--47394101 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
47393964 ATGTATTAGT
* ** * *
47393974 TAAGTTGTGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
47394031 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
47394088 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
47394102 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:47394832 original size:241 final size:241
Alignment explanation
Indices: 47394221--47395107 Score: 1648
Period size: 241 Copynumber: 3.7 Consensus size: 241
47394211 TGAATATAGT
* *
47394221 AATTTTTTAAGATTCATCGTACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
* *
47394286 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAACA
66 TCGATATAAAGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
47394351 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
* *
47394416 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTTTAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGGTAGAAC-TTTTTTCAAGTCTTTTTG
*
47394463 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
*
47394528 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAAGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
47394593 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
47394658 ATTCAATAGTAAATGAGCTCGGTAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGGTAGAACTTTTTTCAAGTCTTTTTG
47394704 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
*
47394769 TCGATATAAAGCAACCCGTCAGGGTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAAGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
47394834 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAACTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
*
47394899 ATTCAATAGAAAATGAGCTCGGTAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGGTAGAACTTTTTTCAAGTCTTTTTG
47394945 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
47395010 TCGATATAAAGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAAGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
47395075 AGGTTGGAGAGAAGGTCAGCTATTGTTTTAATT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATT
47395108 GCTTATAACT
Statistics
Matches: 632, Mismatches: 13, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
241 413 0.65
242 219 0.35
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGACCCATTATATCTTACAGC
TCGATATAAAGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGGTAGAACTTTTTTCAAGTCTTTTTG
Found at i:47397399 original size:20 final size:18
Alignment explanation
Indices: 47397354--47397391 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47397344 CTTAGGCTGA
*
47397354 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
47397372 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
47397391 G
1 G
47397392 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:47397447 original size:18 final size:18
Alignment explanation
Indices: 47397424--47397458 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47397414 GAGAATGGCT
47397424 GAGAAAGAAAAAGGAATC
1 GAGAAAGAAAAAGGAATC
*
47397442 GAGAAAGAAAAGGGAAT
1 GAGAAAGAAAAAGGAAT
47397459 TGGGGGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.31, T:0.06
Consensus pattern (18 bp):
GAGAAAGAAAAAGGAATC
Found at i:47397613 original size:39 final size:39
Alignment explanation
Indices: 47397562--47397637 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
47397552 ATTTTTTATG
* *
47397562 GCGTTTTCATCATAAACGCCACTATTGCTTGCCTTTTAC
1 GCGTTTTCATCATAAACGCCACTAATGCTTGACTTTTAC
* * *
47397601 GCGTTTTTATCATAAATGCCGCTAATGCTTGACTTTT
1 GCGTTTTCATCATAAACGCCACTAATGCTTGACTTTT
47397638 TTACAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (39 bp):
GCGTTTTCATCATAAACGCCACTAATGCTTGACTTTTAC
Found at i:47398782 original size:40 final size:40
Alignment explanation
Indices: 47398683--47398784 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
47398673 TTGAGCATTT
* *
47398683 GCGGCGTTTTTTATAAAAGCGCCGCTAATGCTCAATCTATA
1 GCGGCGTTTTTTGTAAAA-CGCCGCTAATGCTCAAACTATA
* * * * *
47398724 GTGGCGCTTTTAGAAAAACGCCGCTAATGCT-AAACTCTA
1 GCGGCGTTTTTTGTAAAACGCCGCTAATGCTCAAACTATA
47398763 GCGGCGTTTTTTGCTAAAACGC
1 GCGGCGTTTTTTG-TAAAACGC
47398785 GGCGAAAAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 16 0.33
40 20 0.41
41 13 0.27
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTTTGTAAAACGCCGCTAATGCTCAAACTATA
Found at i:47402965 original size:20 final size:20
Alignment explanation
Indices: 47402940--47402979 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47402930 CATTTTATTG
47402940 GTGGTTTGAGTGATATTGAA
1 GTGGTTTGAGTGATATTGAA
47402960 GTGGTTTGAGTGATATTGAA
1 GTGGTTTGAGTGATATTGAA
47402980 CAGGGCAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (20 bp):
GTGGTTTGAGTGATATTGAA
Found at i:47405093 original size:19 final size:20
Alignment explanation
Indices: 47405060--47405132 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 20
47405050 TATTTTTTAT
47405060 TAAAAATTAGAAAAAGATTA
1 TAAAAATTAGAAAAAGATTA
*
47405080 TAAAAATT-GTAAAAGATTA
1 TAAAAATTAGAAAAAGATTA
* ** *
47405099 TCAAGTTTA-AAAAAAATTA
1 TAAAAATTAGAAAAAGATTA
47405118 TAAAATATATAGAAA
1 TAAAA-AT-TAGAAA
47405133 TATATTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 26 0.65
20 9 0.22
21 2 0.05
22 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAAATTAGAAAAAGATTA
Found at i:47405342 original size:9 final size:9
Alignment explanation
Indices: 47405330--47405423 Score: 77
Period size: 9 Copynumber: 10.4 Consensus size: 9
47405320 TTTTTATGCA
47405330 TTTTATAAT
1 TTTTATAAT
*
47405339 TTTTATAAAA
1 TTTTAT-AAT
*
47405349 TTTTATAAAA
1 TTTTAT-AAT
**
47405359 TTTTATTTT
1 TTTTATAAT
*
47405368 TTTTA-AAG
1 TTTTATAAT
*
47405376 TTTAATAAT
1 TTTTATAAT
47405385 TTTTATAAT
1 TTTTATAAT
*
47405394 TTTTATTGAT
1 TTTTA-TAAT
47405404 TTTTAT--T
1 TTTTATAAT
47405411 TTTTATAAT
1 TTTTATAAT
47405420 TTTT
1 TTTT
47405424 TTTGTCATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
7 7 0.10
8 4 0.06
9 32 0.46
10 26 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47405352 original size:10 final size:10
Alignment explanation
Indices: 47405329--47405364 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
47405319 CTTTTTATGC
47405329 ATTTTAT-AA
1 ATTTTATAAA
*
47405338 TTTTTATAAA
1 ATTTTATAAA
47405348 ATTTTATAAA
1 ATTTTATAAA
47405358 ATTTTAT
1 ATTTTAT
47405365 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTATAAA
Found at i:47405686 original size:90 final size:90
Alignment explanation
Indices: 47405567--47405777 Score: 221
Period size: 91 Copynumber: 2.3 Consensus size: 90
47405557 CAAAAAAAAG
* * * * *
47405567 AAAAAAAAAGGGGGGCTTAATTGCTTTTTT-GAAAAAATTTGAA-GCTCTTTTTTATGCATTTTG
1 AAAAAAAAAGAGGGGCTTAATTGTTTTTTTCGAAAAAACTTGAAGGC-ATTTTTGATGCATTTTG
47405630 ACAA-TTTAAGTATACAATTGAGTGCA
65 A-AAGTTTAAGTATACAATTGAGTGCA
**** *
47405656 AAAAAAAAAGCAGGGGCTTAATTGTTTTTTTCTTTTAAGCTTGAAGGCATTTTTGATGCATTTTG
1 AAAAAAAAAG-AGGGGCTTAATTGTTTTTTTCGAAAAAACTTGAAGGCATTTTTGATGCATTTTG
*
47405721 AAAGTTTAAGTATCCAATTGAGTGCA
65 AAAGTTTAAGTATACAATTGAGTGCA
* * * * *
47405747 AAACAAATAGGAGAGTCTTAATTATTTTTTT
1 AAA-AAAAAAGAGGGGCTTAATTGTTTTTTT
47405778 TTATTTTGAG
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
89 10 0.10
90 20 0.20
91 64 0.63
92 7 0.07
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (90 bp):
AAAAAAAAAGAGGGGCTTAATTGTTTTTTTCGAAAAAACTTGAAGGCATTTTTGATGCATTTTGA
AAGTTTAAGTATACAATTGAGTGCA
Found at i:47411460 original size:43 final size:43
Alignment explanation
Indices: 47411396--47411709 Score: 332
Period size: 43 Copynumber: 7.3 Consensus size: 43
47411386 TTATTTAAAA
* * * * *
47411396 AAACGCCACTAAAGACTATGACCTTTAGCGACACTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
*
47411439 AAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCTCGA-
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC-AC
* ** * *
47411482 AAACGCCGCTACAA-ACCATGACCTTTAACAACGCTTTTCCCGC
1 AAACGCCGCTA-AAGACCATGACCTTTAGCGGCGCTTTTCTCAC
*
47411525 AAACGCCGCTACAGACCATGACCTTTAGCGGCGCTTTTCTCGA-
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC-AC
* * * *
47411568 AAACGCCGTTACAGACCATGACCTTTAGCGGCGCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
** * *
47411611 AAACGCCGCTACGGAACA-AACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
** * * * *
47411653 AAACGCCGCTACGGAACA-AACCTTTAGCGGCACTTTTCTCAT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
47411695 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
47411710 ATATAAGCTT
Statistics
Matches: 236, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
42 76 0.32
43 157 0.67
44 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
Found at i:47415205 original size:17 final size:18
Alignment explanation
Indices: 47415172--47415205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47415162 TATCTCTTAA
47415172 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
47415190 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
47415206 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:47415889 original size:12 final size:12
Alignment explanation
Indices: 47415874--47415899 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47415864 CGTTTTTTAT
47415874 AAAACGCCGCTA
1 AAAACGCCGCTA
47415886 AAAACGCCGCTA
1 AAAACGCCGCTA
47415898 AA
1 AA
47415900 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:47421256 original size:26 final size:30
Alignment explanation
Indices: 47421222--47421275 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
47421212 CCATTTTTTT
47421222 CAAGTTGATA-CC-AATT-TTTTTTTATCA
1 CAAGTTGATACCCAAATTATTTTTTTATCA
47421249 CAAG-TGATACCCAAATTATTTTTTTAT
1 CAAGTTGATACCCAAATTATTTTTTTAT
47421276 TGCCATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 4 0.17
29 9 0.38
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (30 bp):
CAAGTTGATACCCAAATTATTTTTTTATCA
Found at i:47421678 original size:28 final size:26
Alignment explanation
Indices: 47421613--47421701 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 26
47421603 TAGGCTTAAT
* * *
47421613 AAATTAAAATATAATTAAAATTTTAGA
1 AAATTAAAATA-AATTAAAAATTAAAA
47421640 AAATTACAAAATAAATTAAAAATTAAAA
1 AAATT--AAAATAAATTAAAAATTAAAA
* * *
47421668 TAAATTGAAAACAAATGGAAAAATTCAAA
1 -AAATT-AAAATAAAT-TAAAAATTAAAA
47421697 AAATT
1 AAATT
47421702 TACTATTGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.10
28 25 0.49
29 21 0.41
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATTAAAATAAATTAAAAATTAAAA
Found at i:47423519 original size:25 final size:25
Alignment explanation
Indices: 47423491--47423539 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
47423481 CAAACATGTA
* *
47423491 AACGAAAAGCTCTTTCGAGCCATAT
1 AACGAAAAGCTCATCCGAGCCATAT
**
47423516 AACGGGAAGCTCATCCGAGCCATA
1 AACGAAAAGCTCATCCGAGCCATA
47423540 ATTGGGAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (25 bp):
AACGAAAAGCTCATCCGAGCCATAT
Found at i:47423570 original size:24 final size:24
Alignment explanation
Indices: 47423506--47423570 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
47423496 AAAGCTCTTT
* *
47423506 CGAGCCATATAACGGGAAGCTCATC
1 CGAGCCA-ATATCGGGAAGCTCAAC
* * *
47423531 CGAGCC-ATAATTGGGAAGTTCAAG
1 CGAGCCAAT-ATCGGGAAGCTCAAC
47423555 CGAGCCAATATCGGGA
1 CGAGCCAATATCGGGA
47423571 TGGAAGCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.69
25 8 0.25
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (24 bp):
CGAGCCAATATCGGGAAGCTCAAC
Found at i:47434825 original size:16 final size:16
Alignment explanation
Indices: 47434804--47434834 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47434794 TCCAATGGGG
*
47434804 TAATTTCGTAATTTCA
1 TAATTTAGTAATTTCA
47434820 TAATTTAGTAATTTC
1 TAATTTAGTAATTTC
47434835 TTTAAAGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (16 bp):
TAATTTAGTAATTTCA
Found at i:47435059 original size:31 final size:30
Alignment explanation
Indices: 47435023--47435125 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 30
47435013 TAATCAAATT
47435023 AATATTAAATTAATATAATTTTATCTAGATA
1 AATATTAAATTAATA-AATTTTATCTAGATA
* * *
47435054 AATATTAAA-T--TAAATTTAATCTCATATT
1 AATATTAAATTAATAAATTTTATCT-AGATA
** *
47435082 AATATTAAATTAATAAAATACTATTTAGATA
1 AATATTAAATTAAT-AAATTTTATCTAGATA
* *
47435113 AATTTTAAGTTAA
1 AATATTAAATTAA
47435126 ATTTAATATC
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 9 0.16
28 14 0.25
29 1 0.02
30 1 0.02
31 24 0.43
32 7 0.12
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (30 bp):
AATATTAAATTAATAAATTTTATCTAGATA
Found at i:47435086 original size:59 final size:61
Alignment explanation
Indices: 47435020--47435147 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 61
47435010 AATTAATCAA
* **
47435020 ATTAATATTAAATTAATATAATTTTATCTAGATAAATATTAAATTAAATTT-A-ATCTCAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
* * *
47435079 ATTAATATTAAATTAATAAAATACTATTTAGATAAATTTTAAGTTAAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
47435140 ATTAATAT
1 ATTAATAT
47435148 CTACATAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 45 0.74
60 1 0.02
61 15 0.25
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
Found at i:47438375 original size:239 final size:239
Alignment explanation
Indices: 47437956--47438628 Score: 1114
Period size: 239 Copynumber: 2.8 Consensus size: 239
47437946 AGCCTTATCC
* * * * * *
47437956 TCTTCATTATCAAACTTAACAACATAAAAG-CTATTAGCTATATCAATACATTCAAAATTGCCCA
1 TCTTCATTATTAAACTTAACGACATAGAAGTC-ATTACCCATATCAATGCATTCAAAATTGCCCA
* * * * * * * * * *
47438020 CCAAAGTACAAAGAATGGAGATTTGAGACAGTAGCATCCTGAAAGTTAAAGTTTTGCTTAAAATT
65 CCAAAGTATAAAGAATGGAGATTCGAGACACTAGTATTCTGTAAGCTAAAGTTTTACCTAAAAGT
* * *
47438085 TTGATTATGAGAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCATTTTTTTAATCCAAAACCA
130 TTGATGATGAAAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCATTTTTTTTATCCAAAACCA
47438150 TCGTAGGAGAACACCATCGTAACAATCAAAACTTTAGCCCTGTCT
195 TCGTAGGAGAACACCATCGTAACAATCAAAACTTTAGCCCTGTCT
*
47438195 TCTTCATTATTAAACTTAACGACATAGAAGTCATTACCCATATCATTGCATTCAAAATTGCCCAC
1 TCTTCATTATTAAACTTAACGACATAGAAGTCATTACCCATATCAATGCATTCAAAATTGCCCAC
47438260 CAAAGTATAAAGAATGGAGATTCGAGACACTAGTATTCTGTAAGCTAAAGTTTTACCTAAAAGTT
66 CAAAGTATAAAGAATGGAGATTCGAGACACTAGTATTCTGTAAGCTAAAGTTTTACCTAAAAGTT
47438325 TGATGATGAAAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCATTTTTTTTATCCAAAACCAT
131 TGATGATGAAAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCATTTTTTTTATCCAAAACCAT
47438390 CGTAGGAGAACACCATCGTAACAATCAAAACTTTAGCCCTGTCT
196 CGTAGGAGAACACCATCGTAACAATCAAAACTTTAGCCCTGTCT
* *
47438434 TCTTCATTATTAAACTTAACGACATAGAAGTCATTACCCATATCAATGCATTCAAAATTACCCAT
1 TCTTCATTATTAAACTTAACGACATAGAAGTCATTACCCATATCAATGCATTCAAAATTGCCCAC
47438499 CAAAGTATAAAGAATGGAGATTCGAGACACTAGTATTCTGTAAGCTAAAGTTTTACCTAAAAGTT
66 CAAAGTATAAAGAATGGAGATTCGAGACACTAGTATTCTGTAAGCTAAAGTTTTACCTAAAAGTT
*
47438564 TGGTGATGAAAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCATTTTTTTTTATCCAAAACCA
131 TGATGATGAAAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCA-TTTTTTTTATCCAAAACCA
47438629 ACATAAGCAT
Statistics
Matches: 408, Mismatches: 24, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
239 388 0.95
240 20 0.05
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (239 bp):
TCTTCATTATTAAACTTAACGACATAGAAGTCATTACCCATATCAATGCATTCAAAATTGCCCAC
CAAAGTATAAAGAATGGAGATTCGAGACACTAGTATTCTGTAAGCTAAAGTTTTACCTAAAAGTT
TGATGATGAAAGCCTTCCACCAAGGCTTTCTCAAATTCCTCTTCATTTTTTTTATCCAAAACCAT
CGTAGGAGAACACCATCGTAACAATCAAAACTTTAGCCCTGTCT
Found at i:47440642 original size:26 final size:28
Alignment explanation
Indices: 47440612--47440669 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
47440602 ATGTTTAAAA
*
47440612 ATAATATAAAAAT-AATAATTAAA-CAT
1 ATAATATAAAAATAAATAATAAAAGCAT
* * *
47440638 ATAATTTGAAACTAAATAATAAAAGCAT
1 ATAATATAAAAATAAATAATAAAAGCAT
47440666 ATAA
1 ATAA
47440670 AATATGTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 10 0.38
27 9 0.35
28 7 0.27
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (28 bp):
ATAATATAAAAATAAATAATAAAAGCAT
Found at i:47441467 original size:24 final size:24
Alignment explanation
Indices: 47441440--47441486 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
47441430 GTAAATTGAA
47441440 TCAAAATAAAAGTTCGGTGTATAT
1 TCAAAATAAAAGTTCGGTGTATAT
47441464 TCAAAATAAAAGTTCGGTGTATA
1 TCAAAATAAAAGTTCGGTGTATA
47441487 CATTTGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.32
Consensus pattern (24 bp):
TCAAAATAAAAGTTCGGTGTATAT
Found at i:47441552 original size:28 final size:29
Alignment explanation
Indices: 47441499--47441555 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
47441489 TTTGAATCAT
*
47441499 AATCAAAGTTTATTGTATATAATTGTACA
1 AATCAAAATTTATTGTATATAATTGTACA
47441528 AATCAAAATTTA-TGTAT-TGAATTGTACA
1 AATCAAAATTTATTGTATAT-AATTGTACA
47441556 TTGAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 14 0.54
29 11 0.42
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (29 bp):
AATCAAAATTTATTGTATATAATTGTACA
Found at i:47442402 original size:5 final size:5
Alignment explanation
Indices: 47442392--47442425 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
47442382 TACTAAATAT
47442392 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
47442426 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:47444609 original size:22 final size:21
Alignment explanation
Indices: 47444569--47444725 Score: 157
Period size: 21 Copynumber: 8.1 Consensus size: 21
47444559 GAATAAACAA
47444569 AATTA-TTTTTATAATAATATT
1 AATTATTTTTTA-AATAATATT
47444590 AATTATTTTTTAAATAA-A-T
1 AATTATTTTTTAAATAATATT
*
47444609 -ATT-TTTTAT-AATAATATT
1 AATTATTTTTTAAATAATATT
47444627 AATTATTTTTTAAATAA-A-T
1 AATTATTTTTTAAATAATATT
*
47444646 -ATT-TTTTAT-AATAATATT
1 AATTATTTTTTAAATAATATT
47444664 AATTATTTTTTAAATAA-A-T
1 AATTATTTTTTAAATAATATT
*
47444683 -ATT-TTTTAT-AATAATATT
1 AATTATTTTTTAAATAATATT
47444701 AATTATTTTTTAAATAAATATT
1 AATTATTTTTTAAAT-AATATT
47444723 AAT
1 AAT
47444726 GTTGAGTTGA
Statistics
Matches: 113, Mismatches: 6, Indels: 33
0.74 0.04 0.22
Matches are distributed among these distances:
16 15 0.13
17 18 0.16
18 12 0.11
19 12 0.11
20 18 0.16
21 23 0.20
22 15 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTATTTTTTAAATAATATT
Found at i:47444621 original size:37 final size:37
Alignment explanation
Indices: 47444574--47444722 Score: 298
Period size: 37 Copynumber: 4.0 Consensus size: 37
47444564 AACAAAATTA
47444574 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
1 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
47444611 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
1 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
47444648 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
1 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
47444685 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
1 TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
47444722 T
1 T
47444723 AATGTTGAGT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 112 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (37 bp):
TTTTTATAATAATATTAATTATTTTTTAAATAAATAT
Found at i:47444722 original size:15 final size:16
Alignment explanation
Indices: 47444593--47444700 Score: 94
Period size: 15 Copynumber: 6.2 Consensus size: 16
47444583 TAATATTAAT
47444593 TATTTTTTA-AATAAA
1 TATTTTTTATAATAAA
47444608 TATTTTTTATAATAATA
1 TATTTTTTATAATAA-A
*
47444625 TTAATTATTTTTTAAATAAA
1 -T-ATT-TTTTAT-AATAAA
47444645 TATTTTTTATAATAATA
1 TATTTTTTATAATAA-A
*
47444662 TTAATTATTTTTTAAATAAA
1 -T-ATT-TTTTAT-AATAAA
47444682 TATTTTTTATAAT-AA
1 TATTTTTTATAATAAA
47444697 TATT
1 TATT
47444701 AATTATTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
15 15 0.19
16 13 0.17
17 12 0.15
18 8 0.10
19 8 0.10
20 12 0.15
21 10 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTTTATAATAAA
Found at i:47444840 original size:61 final size:59
Alignment explanation
Indices: 47444688--47444846 Score: 153
Period size: 61 Copynumber: 2.6 Consensus size: 59
47444678 TAAATATTTT
* * * *
47444688 TTATAATAATATTAATTATTTTTTAAATAAATATTAATGTTGAGTTGACTTGTTATATTGAT
1 TTATAAT-ATATT-ATTGTTTTTTTAAT-AATATTAATGTTGAGTTGACTTGATATATTGAC
*
47444750 TTATAATAATATTAATTGTTTTTTAAATAATATTAATGTTGAGTTGACTTGATAGTCATTGAC
1 TTATAAT-ATATT-ATTGTTTTTTTAATAATATTAATGTTGAGTTGACTTGATA-T-ATTGAC
*
47444813 TTAGTCAAT-TATT-TT-TTATTTTTAATAAAATTAA
1 TTA-T-AATATATTATTGTT-TTTTTAATAATATTAA
47444847 AAAGTATAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
60 2 0.02
61 41 0.47
62 28 0.32
63 12 0.14
64 1 0.01
65 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.51
Consensus pattern (59 bp):
TTATAATATATTATTGTTTTTTTAATAATATTAATGTTGAGTTGACTTGATATATTGAC
Found at i:47445109 original size:16 final size:16
Alignment explanation
Indices: 47445090--47445122 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47445080 TGTTATAAAA
47445090 ATAT-TATGTT-AATT
1 ATATATATGTTAAATT
47445104 ATATATATGTTAAATT
1 ATATATATGTTAAATT
47445120 ATA
1 ATA
47445123 ATAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATATATGTTAAATT
Found at i:47445912 original size:48 final size:48
Alignment explanation
Indices: 47445860--47445953 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
47445850 AGAATATAAT
47445860 AAAAAT-AAAATAAAATTA-TAAATTATAAGAAAAAATCAATATTCTTAG
1 AAAAATCAAAATAAAA-TACTAAATTATAA-AAAAAATCAATATTCTTAG
** * *
47445908 AAAAATCGTAATTAAATACTAAATTATAAAAAAAATGAATATTCTT
1 AAAAATCAAAATAAAATACTAAATTATAAAAAAAATCAATATTCTT
47445954 GATAAAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 24 0.60
49 16 0.40
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (48 bp):
AAAAATCAAAATAAAATACTAAATTATAAAAAAAATCAATATTCTTAG
Found at i:47450133 original size:7 final size:7
Alignment explanation
Indices: 47450123--47450147 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47450113 CTTGTCAAGT
47450123 TTTGAAA
1 TTTGAAA
47450130 TTTGAAA
1 TTTGAAA
47450137 TTTGAAA
1 TTTGAAA
47450144 TTTG
1 TTTG
47450148 GGTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (7 bp):
TTTGAAA
Found at i:47469986 original size:24 final size:25
Alignment explanation
Indices: 47469944--47469993 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
47469934 TTTCTTTTGT
*
47469944 TTACTTAATAAATAATTAATATTAA
1 TTACTTAATAAATAATTAAAATTAA
*
47469969 TTACTTAA-AAATATTTAAAATTAA
1 TTACTTAATAAATAATTAAAATTAA
47469993 T
1 T
47469994 ATTATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTACTTAATAAATAATTAAAATTAA
Found at i:47472102 original size:29 final size:27
Alignment explanation
Indices: 47472054--47472128 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 27
47472044 ATTTGGTTAC
* *
47472054 ATTAAAAA-TAACAAGAATTTGT-AAAA
1 ATTAAAAATTAAAAAAAATTT-TAAAAA
47472080 A-TATAAAATTATATAAAAAATTTTAAAAA
1 ATTA-AAAATTA-A-AAAAAATTTTAAAAA
47472109 ATTAAAAATTAAAAAAAATT
1 ATTAAAAATTAAAAAAAATT
47472129 GATCAGTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 10 0.24
28 3 0.07
29 19 0.46
30 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (27 bp):
ATTAAAAATTAAAAAAAATTTTAAAAA
Found at i:47472297 original size:31 final size:31
Alignment explanation
Indices: 47472245--47472322 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
47472235 TAAATTTCTA
* *
47472245 AAAAATTGAATTTTT-TTTATTTTTA-TATTTT
1 AAAAATT--ATTTTTATATATTTTTAGAATTTT
* *
47472276 TAATATTATTTGTTATATATTTTTAGAATTTT
1 AAAAATTATTT-TTATATATTTTTAGAATTTT
47472308 AAAAATTATTTTTAT
1 AAAAATTATTTTTAT
47472323 TTTGTTAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 4 0.11
30 2 0.05
31 18 0.47
32 14 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (31 bp):
AAAAATTATTTTTATATATTTTTAGAATTTT
Found at i:47472486 original size:19 final size:19
Alignment explanation
Indices: 47472462--47472508 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
47472452 AAAGTTTATA
47472462 AATTTTTTGATTTTTTTTC
1 AATTTTTTGATTTTTTTTC
** *
47472481 AATTTTAAGATTTTTTTTT
1 AATTTTTTGATTTTTTTTC
47472500 ATATTTTTT
1 A-ATTTTTT
47472509 AAGAATGATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
AATTTTTTGATTTTTTTTC
Found at i:47475695 original size:31 final size:31
Alignment explanation
Indices: 47475585--47475698 Score: 99
Period size: 31 Copynumber: 3.7 Consensus size: 31
47475575 AGTGCTTAAT
*
47475585 TTTTTATCTAATTTGGTACCTAAACTTGACAC
1 TTTTT-TCTAATTTGGTACCTAAACTTGACTC
* * *
47475617 -TTTTTCTTAAATTGGTACTTAAACTTTA-T-
1 TTTTTTC-TAATTTGGTACCTAAACTTGACTC
*** * * *
47475646 TTAGGTCCAATTTAGTACCTGAACTTGACTC
1 TTTTTTCTAATTTGGTACCTAAACTTGACTC
47475677 TTTTTTCTAATTTGGTACCTAA
1 TTTTTTCTAATTTGGTACCTAA
47475699 TTTTTTTGTT
Statistics
Matches: 59, Mismatches: 19, Indels: 9
0.68 0.22 0.10
Matches are distributed among these distances:
29 15 0.25
30 6 0.10
31 38 0.64
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (31 bp):
TTTTTTCTAATTTGGTACCTAAACTTGACTC
Found at i:47480379 original size:14 final size:15
Alignment explanation
Indices: 47480334--47480388 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
47480324 AATTGGTGGA
*
47480334 ATATTTTATTATTAT
1 ATATTTTATTATAAT
47480349 CATATTATTATTAATAAT
1 -ATATT-TTATT-ATAAT
47480367 -TATTTTATTATAAT
1 ATATTTTATTATAAT
47480381 ATATTTTA
1 ATATTTTA
47480389 ATATTTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 5 0.14
15 12 0.34
16 9 0.26
17 5 0.14
18 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTTATTATAAT
Found at i:47481550 original size:9 final size:8
Alignment explanation
Indices: 47481533--47481561 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
47481523 TTTTTTATTT
47481533 AATAAAAA
1 AATAAAAA
47481541 AATAAAAA
1 AATAAAAA
47481549 AATAAAAA
1 AATAAAAA
47481557 AATAA
1 AATAA
47481562 TATGGTCGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:47486910 original size:24 final size:24
Alignment explanation
Indices: 47486878--47486926 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47486868 CCAAACCCTT
47486878 TGAGGAAGGTTCAATTATGCAAAA
1 TGAGGAAGGTTCAATTATGCAAAA
47486902 TGAGGAAGGTTCAATTATGCAAAA
1 TGAGGAAGGTTCAATTATGCAAAA
47486926 T
1 T
47486927 TTCAATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (24 bp):
TGAGGAAGGTTCAATTATGCAAAA
Found at i:47493755 original size:25 final size:25
Alignment explanation
Indices: 47493706--47493755 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47493696 TAGATGAACT
*
47493706 CCTACAACTCATATTTAGAAAATAA
1 CCTACAACCCATATTTAGAAAATAA
47493731 CCTACAACCCATATTTAGAAAATAA
1 CCTACAACCCATATTTAGAAAATAA
47493756 TCTCATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (25 bp):
CCTACAACCCATATTTAGAAAATAA
Found at i:47505488 original size:16 final size:16
Alignment explanation
Indices: 47505469--47505503 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47505459 TTTAGATGGC
* *
47505469 TTTGTGTTTGGGTTAT
1 TTTGTATTTGAGTTAT
47505485 TTTGTATTTGAGTTAT
1 TTTGTATTTGAGTTAT
47505501 TTT
1 TTT
47505504 AGGTTATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.23, T:0.66
Consensus pattern (16 bp):
TTTGTATTTGAGTTAT
Found at i:47506761 original size:11 final size:11
Alignment explanation
Indices: 47506745--47506784 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
47506735 TATTTACCGC
47506745 TATTTTGCTAT
1 TATTTTGCTAT
47506756 TATTTTGCTAT
1 TATTTTGCTAT
* * *
47506767 TATATTACTAA
1 TATTTTGCTAT
47506778 TATTTTG
1 TATTTTG
47506785 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:47509512 original size:21 final size:22
Alignment explanation
Indices: 47509488--47509542 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
47509478 CAAGTATTCT
47509488 AAAACTCAAAACACA-ACTCGA
1 AAAACTCAAAACACACACTCGA
* * *
47509509 AAAACTTACAACTCACACTCGA
1 AAAACTCAAAACACACACTCGA
*
47509531 AAATACCCAAAA
1 AAA-ACTCAAAA
47509543 ACTATTACAC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.55, C:0.29, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAACTCAAAACACACACTCGA
Found at i:47511305 original size:137 final size:137
Alignment explanation
Indices: 47511059--47511332 Score: 406
Period size: 137 Copynumber: 2.0 Consensus size: 137
47511049 ATCAAAAAAA
* * *
47511059 AAATGCTAACTTTATACTACACTTGAGTTGTCTTGAAATCATGTCTAGACTGTTGTCCAAAAGTT
1 AAATGCTAACTTTATACTACACTTGAGTTGTCCTAAAATCATGTCTAGACTGTCGTCCAAAAGTT
** * *
47511124 AATCTAGACAACTATTTGAATAAGGGATTAAACACAGTGACAAAACATGTAGTTCAATGAGCTAT
66 AATCTAGACAACTATTCAAATAAGGGATTAAACACAGTGACAAAACATGCAGTTCAAGGAGCTAT
47511189 CAAACAT
131 CAAACAT
* * *
47511196 AAATGCTCACTTTATACTACACTTGAGTTGTCCTAAAAGT-TTGTCTAGACTGTCGTTCAAAAGT
1 AAATGCTAACTTTATACTACACTTGAGTTGTCCTAAAA-TCATGTCTAGACTGTCGTCCAAAAGT
* * * *
47511260 TAGTTTAGACAACTGTTCAAATAAGGGATTAAACACAGTGACAAAACATGCAGTTCAAGGGGCTA
65 TAATCTAGACAACTATTCAAATAAGGGATTAAACACAGTGACAAAACATGCAGTTCAAGGAGCTA
47511325 TCAAACAT
130 TCAAACAT
47511333 GAAGAAAAAC
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
137 121 0.99
138 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (137 bp):
AAATGCTAACTTTATACTACACTTGAGTTGTCCTAAAATCATGTCTAGACTGTCGTCCAAAAGTT
AATCTAGACAACTATTCAAATAAGGGATTAAACACAGTGACAAAACATGCAGTTCAAGGAGCTAT
CAAACAT
Found at i:47512332 original size:51 final size:51
Alignment explanation
Indices: 47512251--47512373 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
47512241 AGAACTAAGT
* * ** *
47512251 TATCTGGATGAAATATGAAGCTCTTGTTGAAACTAGAGTAATAAAGTAATA
1 TATCCGGATGAAATATGAAGTTCTTGTTGAAACTAGAACAACAAAGTAATA
*
47512302 TATCCGGATGAAATATGAAGTTCTTGTTGAAGCTAGAACAACAAAGTAATA
1 TATCCGGATGAAATATGAAGTTCTTGTTGAAACTAGAACAACAAAGTAATA
*
47512353 -ATTCCGGATGAAGTATGAAGT
1 TA-TCCGGATGAAATATGAAGT
47512374 AAGTTTGGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (51 bp):
TATCCGGATGAAATATGAAGTTCTTGTTGAAACTAGAACAACAAAGTAATA
Found at i:47513748 original size:51 final size:51
Alignment explanation
Indices: 47513693--47514051 Score: 637
Period size: 51 Copynumber: 7.0 Consensus size: 51
47513683 TAATGACAAG
47513693 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
* * *
47513744 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAG
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
47513795 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
* * *
47513846 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAG
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
47513897 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
* * *
47513948 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAG
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
47513999 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
47514050 TG
1 TG
47514052 TGATCAGTGT
Statistics
Matches: 290, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 290 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (51 bp):
TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
Found at i:47513826 original size:102 final size:102
Alignment explanation
Indices: 47513640--47514051 Score: 739
Period size: 102 Copynumber: 4.1 Consensus size: 102
47513630 ACTTCTGATC
* * * *
47513640 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACATTTATCTGAT---T---AA-TGACAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
47513698 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
47513735 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
47513800 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
47513837 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
47513902 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
47513939 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
47514004 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
47514041 AGTGATAAATG
1 AGTGATAAATG
47514052 TGATCAGTGT
Statistics
Matches: 306, Mismatches: 4, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
95 40 0.13
98 1 0.00
101 2 0.01
102 263 0.86
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:47513915 original size:153 final size:152
Alignment explanation
Indices: 47513640--47514051 Score: 665
Period size: 153 Copynumber: 2.7 Consensus size: 152
47513630 ACTTCTGATC
* * *
47513640 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACATTTATCTGAT--T---AA-TGACAAGTGATAA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATGACAAGTGATAAGTGATAA
47513699 GTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTTAGC
66 GTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTTAGC
47513764 TACACTTATCTGATCAATGACA
131 TACACTTATCTGATCAATGACA
* *
47513786 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA-TGACAAGTGATAAGTGATA
* * * *
47513851 AGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATAAGTGGTAGTTTTAG
65 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTTAG
*
47513916 CTACACTTATCTGATCAGTGACA
130 CTACACTTATCTGATCAATGACA
*
47513939 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-ATGACAAGTGATAAGTGATA
47514004 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
65 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
47514052 TGATCAGTGT
Statistics
Matches: 242, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
146 40 0.17
149 1 0.00
152 2 0.01
153 198 0.82
154 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (152 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATGACAAGTGATAAGTGATAA
GTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTTAGC
TACACTTATCTGATCAATGACA
Found at i:47515897 original size:3 final size:3
Alignment explanation
Indices: 47515889--47515914 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47515879 ATTTTTATAA
47515889 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
47515915 TTTACGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:47517918 original size:11 final size:10
Alignment explanation
Indices: 47517902--47517968 Score: 62
Period size: 11 Copynumber: 6.2 Consensus size: 10
47517892 TCCAATACCA
47517902 AATCATAGTCG
1 AATCAT-GTCG
* *
47517913 AATCATTTCA
1 AATCATGTCG
47517923 AATCACTGTCG
1 AATCA-TGTCG
47517934 AATCATTGTCG
1 AATCA-TGTCG
*
47517945 AATCATTGTCA
1 AATCA-TGTCG
47517956 AATCATGGTCG
1 AATCAT-GTCG
47517967 AA
1 AA
47517969 CAAGTTCATA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
10 8 0.17
11 39 0.83
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (10 bp):
AATCATGTCG
Found at i:47517926 original size:21 final size:21
Alignment explanation
Indices: 47517900--47517961 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
47517890 TTTCCAATAC
47517900 CAAATCATAGTCGAATCATT-T
1 CAAATCAT-GTCGAATCATTGT
47517921 CAAATCACTGTCGAATCATTGT
1 CAAATCA-TGTCGAATCATTGT
* *
47517943 CGAATCATTGTCAAATCAT
1 CAAATCA-TGTCGAATCAT
47517962 GGTCGAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
CAAATCATGTCGAATCATTGT
Found at i:47517938 original size:32 final size:33
Alignment explanation
Indices: 47517902--47517968 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
47517892 TCCAATACCA
47517902 AATCATAGTCGAATCATT-TCAAATCACT-GTCG
1 AATCATAGTCGAATCATTGTCAAATCA-TGGTCG
*
47517934 AATCATTGTCGAATCATTGTCAAATCATGGTCG
1 AATCATAGTCGAATCATTGTCAAATCATGGTCG
47517967 AA
1 AA
47517969 CAAGTTCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (33 bp):
AATCATAGTCGAATCATTGTCAAATCATGGTCG
Found at i:47517954 original size:22 final size:22
Alignment explanation
Indices: 47517902--47517968 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
47517892 TCCAATACCA
* *
47517902 AATCATAGTCGAATCATT-TCA
1 AATCATTGTCGAATCATTGTCG
*
47517923 AATCACTGTCGAATCATTGTCG
1 AATCATTGTCGAATCATTGTCG
* *
47517945 AATCATTGTCAAATCATGGTCG
1 AATCATTGTCGAATCATTGTCG
47517967 AA
1 AA
47517969 CAAGTTCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (22 bp):
AATCATTGTCGAATCATTGTCG
Found at i:47522799 original size:18 final size:19
Alignment explanation
Indices: 47522778--47522815 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47522768 GTTTTGAAAT
* *
47522778 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATGTTGAA
47522796 TTTTAAAAATTATGTTGAA
1 TTTTAAAAATTATGTTGAA
47522815 T
1 T
47522816 CTTTGGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATTATGTTGAA
Found at i:47526545 original size:18 final size:18
Alignment explanation
Indices: 47526522--47526561 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
47526512 TATTATTTTA
*
47526522 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
47526540 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
47526558 AAAA
1 AAAA
47526562 TAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:47526659 original size:30 final size:30
Alignment explanation
Indices: 47526623--47526685 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
47526613 ACTTAATAAG
47526623 CAAATGTC-TCTAAAATAATAACAAAATTAA
1 CAAATGTCAT-TAAAATAATAACAAAATTAA
*
47526653 CAAATGTCATTAAAATAATAATAAAATTAA
1 CAAATGTCATTAAAATAATAACAAAATTAA
47526683 CAA
1 CAA
47526686 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCATTAAAATAATAACAAAATTAA
Found at i:47526692 original size:17 final size:17
Alignment explanation
Indices: 47526661--47526693 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47526651 AACAAATGTC
47526661 ATTAAAATAATAATAAA
1 ATTAAAATAATAATAAA
47526678 ATTAACAATAA-AATAA
1 ATTAA-AATAATAATAA
47526694 GTTTTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
ATTAAAATAATAATAAA
Found at i:47535450 original size:16 final size:16
Alignment explanation
Indices: 47535429--47535462 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47535419 GTGAATATAT
* *
47535429 GATATATATATAGATA
1 GATATAAATATAAATA
47535445 GATATAAATATAAATA
1 GATATAAATATAAATA
47535461 GA
1 GA
47535463 CAATTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (16 bp):
GATATAAATATAAATA
Found at i:47538797 original size:10 final size:11
Alignment explanation
Indices: 47538769--47538797 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
47538759 CGAATCTACA
47538769 AGATTTTTTCC
1 AGATTTTTTCC
47538780 AGATTTTTTCC
1 AGATTTTTTCC
47538791 AGATTTT
1 AGATTTT
47538798 CACGCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (11 bp):
AGATTTTTTCC
Found at i:47543047 original size:4 final size:4
Alignment explanation
Indices: 47543038--47543066 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47543028 AGCAAACGTG
47543038 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
47543067 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:47545248 original size:44 final size:44
Alignment explanation
Indices: 47545164--47545248 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
47545154 TATGTAATCT
* * *
47545164 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGCCTGAGTTCATGATACATATGACATCC
*
47545208 GAACTCATTGAGTTGTGCCTGAGTTCATGATACGTATGACA
1 GAACTCATTGAGTTGTGCCTGAGTTCATGATACATATGACA
47545249 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGCCTGAGTTCATGATACATATGACATCC
Found at i:47548643 original size:13 final size:13
Alignment explanation
Indices: 47548621--47548653 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47548611 AAGGGTTTGT
47548621 TTAT-TAAACTAA
1 TTATCTAAACTAA
47548633 TTATCTAAACTAA
1 TTATCTAAACTAA
*
47548646 TTAACTAA
1 TTATCTAA
47548654 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:47551554 original size:7 final size:6
Alignment explanation
Indices: 47551520--47551605 Score: 68
Period size: 6 Copynumber: 13.7 Consensus size: 6
47551510 TATGTCTTTG
* * * *
47551520 AAAATGA AATAAT- AAAATA AAAATA AAAATC AAAAGA AAAAGA AAAAGA
1 AAAAT-A AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
47551569 AAAATAA AAAATA AAAA-A AAGAATA AATAGATA AAAA
1 AAAAT-A AAAATA AAAATA AA-AATA AA-A-ATA AAAA
47551606 AAATAAGAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
5 6 0.09
6 41 0.60
7 13 0.19
8 8 0.12
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:47553664 original size:22 final size:23
Alignment explanation
Indices: 47553634--47553676 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
47553624 TTGTCCGTGG
*
47553634 CACGTCCGTGGTTTT-CTATCCC
1 CACGCCCGTGGTTTTCCTATCCC
*
47553656 CACGCCCGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
47553677 AAGTTCACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.09, C:0.37, G:0.16, T:0.37
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCC
Found at i:47556980 original size:13 final size:13
Alignment explanation
Indices: 47556958--47556990 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47556948 AAGGGTTTGT
47556958 TTAT-TAAACTAA
1 TTATCTAAACTAA
47556970 TTATCTAAACTAA
1 TTATCTAAACTAA
*
47556983 TTAACTAA
1 TTATCTAA
47556991 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:47562665 original size:33 final size:33
Alignment explanation
Indices: 47562623--47562689 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
47562613 ACTCATTCCC
*
47562623 ACTTCCATAAAGAAATCTTAACGGGTTGGAGCT
1 ACTTCCATAAAGAAATCTTAACGGGTAGGAGCT
47562656 ACTTCCATAAAGAAATCTTAACGGGTAGGAGCT
1 ACTTCCATAAAGAAATCTTAACGGGTAGGAGCT
47562689 A
1 A
47562690 ACCCGAAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (33 bp):
ACTTCCATAAAGAAATCTTAACGGGTAGGAGCT
Found at i:47572124 original size:17 final size:16
Alignment explanation
Indices: 47572084--47572126 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
47572074 ACCATTTCAC
*
47572084 ATTCAATTATCAATTT
1 ATTCAATTTTCAATTT
*
47572100 ATACCAATTTTGCAATTT
1 AT-TCAATTTT-CAATTT
47572118 ATTCAATTT
1 ATTCAATTT
47572127 AGGCCCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 8 0.36
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTCAATTTTCAATTT
Found at i:47576656 original size:23 final size:23
Alignment explanation
Indices: 47576626--47576669 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47576616 GTATATCTAT
47576626 TTTTTCTCTTCTCCTCCTTCTTC
1 TTTTTCTCTTCTCCTCCTTCTTC
* *
47576649 TTTTTCTCTTCTTCTTCTTCT
1 TTTTTCTCTTCTCCTCCTTCT
47576670 ATTGCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTCTCTTCTCCTCCTTCTTC
Found at i:47577089 original size:20 final size:20
Alignment explanation
Indices: 47577043--47577089 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47577033 AATTTAACAT
*
47577043 GCCCGTACGACATAGGACAC
1 GCCCGTGCGACATAGGACAC
* *
47577063 GCCCGTGCGGCATGGGACAC
1 GCCCGTGCGACATAGGACAC
47577083 GCCCGTG
1 GCCCGTG
47577090 TCCTCAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.36, G:0.34, T:0.11
Consensus pattern (20 bp):
GCCCGTGCGACATAGGACAC
Found at i:47577984 original size:18 final size:18
Alignment explanation
Indices: 47577961--47577995 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47577951 ATAATATTCA
*
47577961 TTTATTCAGTATCAGTCG
1 TTTATTCAGTAACAGTCG
*
47577979 TTTATTCTGTAACAGTC
1 TTTATTCAGTAACAGTC
47577996 AATTATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (18 bp):
TTTATTCAGTAACAGTCG
Found at i:47579207 original size:19 final size:19
Alignment explanation
Indices: 47579179--47579219 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47579169 AAATCCCTAG
47579179 TTTTCCCTTTTTCTT-TTTC
1 TTTTCCC-TTTTCTTCTTTC
*
47579198 TTTTCTCTTTTCTTCTTTC
1 TTTTCCCTTTTCTTCTTTC
47579217 TTT
1 TTT
47579220 CCATGCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTC
Found at i:47579268 original size:13 final size:13
Alignment explanation
Indices: 47579250--47579283 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
47579240 TTCTTTCCTT
47579250 TTTCTTTATTTCA
1 TTTCTTTATTTCA
47579263 TTTCTTTATTTCA
1 TTTCTTTATTTCA
*
47579276 TTTTTTTA
1 TTTCTTTA
47579284 ATTACTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:47593958 original size:26 final size:26
Alignment explanation
Indices: 47593921--47594004 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
47593911 TGATACAAAT
* *
47593921 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47593947 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47593973 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47593999 TGATAA
1 TGATAA
47594005 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:47607147 original size:4 final size:4
Alignment explanation
Indices: 47607134--47607167 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
47607124 TGGTTTTTTA
47607134 AATT -ATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
47607168 TAAAAAACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 22 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:47612839 original size:18 final size:18
Alignment explanation
Indices: 47612808--47612845 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
47612798 AAAGTGAAGA
47612808 GGAAACAAACAAAAAGGT
1 GGAAACAAACAAAAAGGT
47612826 GGAAA-AAACAAAAAGGT
1 GGAAACAAACAAAAAGGT
47612843 GGA
1 GGA
47612846 GAGTGAGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.61, C:0.08, G:0.26, T:0.05
Consensus pattern (18 bp):
GGAAACAAACAAAAAGGT
Found at i:47619154 original size:131 final size:131
Alignment explanation
Indices: 47618998--47619263 Score: 372
Period size: 131 Copynumber: 2.0 Consensus size: 131
47618988 TTTAAATAAT
* * * * *
47618998 TTTTAGAAGATATGAGTGGAATTTTGAAGGGGTATTCGATTATTTT-AAGCAGACGCAAAATTGC
1 TTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAA-CAAACGCAAAATTGC
** * * *
47619062 AAACCAACACGTTAGGGCACAATTCCACGAATTGCTAAATATCGAATCTCGTCTTCGTTTTGAAG
65 AAACCAACACGTTAGGGCACAATTCCACGAATCACCAAACATCGAATCTCATCTTCGTTTTGAAG
47619127 AA
130 AA
* * *
47619129 TTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAACAAATGCGAAATTGCA
1 TTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGCAAAATTGCA
* * *
47619194 ACCCAACACGTTAGGGCACGATTCCTCGAATCACCAAACATCGAATCTCATCTTCGTTTTGAAGA
66 AACCAACACGTTAGGGCACAATTCCACGAATCACCAAACATCGAATCTCATCTTCGTTTTGAAGA
47619259 A
131 A
47619260 TTTT
1 TTTT
47619264 TGAATGAATA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 116 0.98
132 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (131 bp):
TTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGCAAAATTGCA
AACCAACACGTTAGGGCACAATTCCACGAATCACCAAACATCGAATCTCATCTTCGTTTTGAAGA
A
Found at i:47632418 original size:61 final size:61
Alignment explanation
Indices: 47632321--47632442 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
47632311 TTGATTGTAA
*
47632321 AAAATCGACTAAAATGGGTAGTTAGTAAGGGCGGTTACCTAATATACAAATATGTATATGT
1 AAAATCGACTAAAATGGGTAGTTAATAAGGGCGGTTACCTAATATACAAATATGTATATGT
*
47632382 AAAATCGACTAAAATGGGTAGTTAATAAGGGTGGTTACCTAATATACAAATATGTATATGT
1 AAAATCGACTAAAATGGGTAGTTAATAAGGGCGGTTACCTAATATACAAATATGTATATGT
47632443 GTATGTGTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.30
Consensus pattern (61 bp):
AAAATCGACTAAAATGGGTAGTTAATAAGGGCGGTTACCTAATATACAAATATGTATATGT
Found at i:47634455 original size:48 final size:46
Alignment explanation
Indices: 47634378--47634598 Score: 212
Period size: 48 Copynumber: 4.6 Consensus size: 46
47634368 GGGTAAATTA
* *
47634378 CCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCACAAGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAA-T-GAGG
* * * * *
47634426 TCGATGCCATGTCCCAGACATGGTTTTACACTAGATCTCATAACT-ATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACAA-TGAGG
* *
47634474 CCTATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATAATGAGG
1 CCGATGCCATG-TCCCAGACATGGTCTTACACTGG--CTCACAATGAGG
* * * *
47634522 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCACACTGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACAATGAGG
*
47634570 CCAATGCCATGTCCCAGACATGGTCTTAC
1 CCGATGCCATGTCCCAGACATGGTCTTAC
47634599 CCTAGCACAT
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
47 7 0.05
48 124 0.86
49 6 0.04
50 7 0.05
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAATGAGG
Found at i:47634545 original size:96 final size:97
Alignment explanation
Indices: 47634381--47634598 Score: 268
Period size: 96 Copynumber: 2.3 Consensus size: 97
47634371 TAAATTACCG
* *
47634381 ATGCCATGTT-CTAGACATGGTCTTACACTGGCTCACAAGTCGAGGTCGATGCCATGTCCCAGAC
1 ATGCCATGTTCCCAGACATGGTCTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGAC
* *
47634445 ATGGTTTTACACTAGATCTCATAACTAT-GCCT
66 ATGGTCTTACACTAGATCTCA-AACTATGGCCA
* *
47634477 ATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATAA-T-GAGGCCGATGTCATGTCCCAG
1 ATGCCATGTTCCCAGACATGGTCTTACACTGG--CTCACAAGTCGAGGCCGATGCCATGTCCCAG
* * * * *
47634539 ACATGGTCTTACATTGGCTCTCACACTGTGGCCA
64 ACATGGTCTTACACTAGATCTCAAACTATGGCCA
47634573 ATGCCATG-TCCCAGACATGGTCTTAC
1 ATGCCATGTTCCCAGACATGGTCTTAC
47634599 CCTAGCACAT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
95 9 0.08
96 88 0.83
97 3 0.03
98 6 0.06
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (97 bp):
ATGCCATGTTCCCAGACATGGTCTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGATCTCAAACTATGGCCA
Found at i:47648540 original size:19 final size:17
Alignment explanation
Indices: 47648525--47648615 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
47648515 ATTTTTATAG
47648525 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
47648542 TTTAATACTT--ATGTTAA
1 TTTAATA-TTAAAT-TTAA
* **
47648559 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
*
47648573 TTTAATATTAAATTGATTA
1 TTTAATATTAAATT--TAA
*
47648592 TCTTAATATTAAATTAAA
1 T-TTAATATTAAATTTAA
47648610 TTTAAT
1 TTTAAT
47648616 GTTTATGTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 10 0.18
17 17 0.30
18 4 0.07
19 3 0.05
20 13 0.23
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:47648671 original size:12 final size:12
Alignment explanation
Indices: 47648647--47648678 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
47648637 TCTATTATTT
47648647 TATTAAGATTTAA
1 TATTAA-ATTTAA
47648660 TATTAAATTTAA
1 TATTAAATTTAA
47648672 TATTAAA
1 TATTAAA
47648679 AAGATTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TATTAAATTTAA
Found at i:47653122 original size:40 final size:40
Alignment explanation
Indices: 47653067--47653326 Score: 384
Period size: 40 Copynumber: 6.5 Consensus size: 40
47653057 ATGATAACCA
* * *
47653067 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
47653107 GGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATATCCG
*
47653147 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-CAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
47653186 GGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
47653225 GGCTAAGACCCAAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
47653265 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
47653305 GGCTAAGTCCCAAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
47653327 AGCAAGTAGT
Statistics
Matches: 202, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 74 0.37
40 126 0.62
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:47653214 original size:79 final size:78
Alignment explanation
Indices: 47653067--47653326 Score: 378
Period size: 79 Copynumber: 3.3 Consensus size: 78
47653057 ATGATAACCA
* * * * *
47653067 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCTCCGAAGGCATTTGTGC
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATACAGGGCTAAGC-CCGAAGGCATTTGTGC
47653132 GAGTTACTATATCCG
64 GAGTTACTATATCCG
* *
47653147 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACAGGGCTAAGTCCCGAAGGCATTTGTCCG
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATACAGGGCTAAG-CCCGAAGGCATTTGTGCG
47653212 AGTTACTATATCC-
65 AGTTACTATATCCG
* *
47653225 GGCTAAGACCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATA-CAGGGCTAAG-CCCGAAGGCATTTGTGC
*
47653290 GAGTTACTATAACCG
64 GAGTTACTATATCCG
47653305 GGCTAAGTCCCAAAGGCATTTG
1 GGCTAAGTCCCAAAGGCATTTG
47653327 AGCAAGTAGT
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 34 0.21
79 78 0.47
80 53 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATACAGGGCTAAGCCCGAAGGCATTTGTGCGA
GTTACTATATCCG
Found at i:47653348 original size:79 final size:79
Alignment explanation
Indices: 47653060--47653358 Score: 330
Period size: 79 Copynumber: 3.8 Consensus size: 79
47653050 TATTTGGATG
* *
47653060 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCTGGGCTAAG-CTCCGAAG
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGC-AGTAG-CTATATTC-GGGCTAAGAC-CCGAAG
47653122 GCATTTGTGCGAGTTACT
62 GCATTTGTGCGAGTTACT
* * *
47653140 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA--CAGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGC-AG-TAGCTATATTC-GGGCTAAGACCCGAAGG
*
47653202 CATTTGTCCGAGTTACT
63 CATTTGTGCGAGTTACT
* * *
47653219 ATATCC-GGCTAAGACCCAAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGACCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGC-AG-TAGCTATATTCGGGCTAAGACCCGAAGGC
47653282 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
47653298 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAA-ATCCCGAAG
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGC-AGTAGCTATATTCGGGCTAAGA-CCCGAAG
47653359 ATGCTTGGGT
Statistics
Matches: 195, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
78 35 0.18
79 90 0.46
80 68 0.35
81 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCAGTAGCTATATTCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:47653355 original size:158 final size:157
Alignment explanation
Indices: 47653067--47653358 Score: 412
Period size: 158 Copynumber: 1.8 Consensus size: 157
47653057 ATGATAACCA
* * * *
47653067 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCTCCGAAGGCATTTGTGC
1 GGCTAAGACCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCTCCGAAGGCATTTGTGC
* * * *
47653132 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACAGGGCTAAGTCCC
66 GAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCGAGTTACTATACA-GGCTAAATCCC
47653197 GAAGGCATTTGTCCGAGTTACTATATCC
130 GAAGGCATTTGTCCGAGTTACTATATCC
*
47653225 GGCTAAGACCCAAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGAC-CCGAAGGCATTTGT
1 GGCTAAGACCCAAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CTCCGAAGGCATTTGT
*
47653288 GCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTAGTTA-TATTC-GGCTAAA
64 GCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGC--G-AGTTACTATACAGGCTAAA
47653351 TCCCGAAG
126 TCCCGAAG
47653359 ATGCTTGGGT
Statistics
Matches: 119, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
157 2 0.02
158 106 0.89
159 1 0.01
160 5 0.04
161 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (157 bp):
GGCTAAGACCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCTCCGAAGGCATTTGTGC
GAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCGAGTTACTATACAGGCTAAATCCCG
AAGGCATTTGTCCGAGTTACTATATCC
Found at i:47653625 original size:22 final size:21
Alignment explanation
Indices: 47653584--47653627 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
47653574 GAATGTGCAT
47653584 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
47653606 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
47653628 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:47659405 original size:74 final size:74
Alignment explanation
Indices: 47659284--47659432 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
47659274 ATAAACTACC
*
47659284 TGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTATCGATTTCTATTGTGTCGGATAGAG
1 TGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTATCGATTTCTATCGTGTCGGATAGAG
47659349 ATCCGAGAT
66 ATCCGAGAT
47659358 TGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTATCGATTTCTATCGTGTCGGATAGAG
1 TGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTATCGATTTCTATCGTGTCGGATAGAG
47659423 ATCCGAGAT
66 ATCCGAGAT
47659432 T
1 T
47659433 CACCTCACGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (74 bp):
TGAATTGTATGTTTCTCAGATTGTGAGATTACACGGGGTATCGATTTCTATCGTGTCGGATAGAG
ATCCGAGAT
Done.