Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 272 of 427
Found at i:78504409 original size:38 final size:39
Alignment explanation
Indices: 78504363--78504440 Score: 149
Period size: 38 Copynumber: 2.0 Consensus size: 39
78504353 ACGTTGTGAT
78504363 AGATCTAGAAGGTAAATAAAATAACCATT-CCTAATAGA
1 AGATCTAGAAGGTAAATAAAATAACCATTCCCTAATAGA
78504401 AGATCTAGAAGGTAAATAAAATAACCATTCCCTAATAGA
1 AGATCTAGAAGGTAAATAAAATAACCATTCCCTAATAGA
78504440 A
1 A
78504441 TTTGCTAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 29 0.74
39 10 0.26
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (39 bp):
AGATCTAGAAGGTAAATAAAATAACCATTCCCTAATAGA
Found at i:78512784 original size:12 final size:12
Alignment explanation
Indices: 78512767--78512799 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
78512757 CGGCCCACCC
78512767 ATATTAATTTTT
1 ATATTAATTTTT
78512779 ATATT-ATTTTT
1 ATATTAATTTTT
78512790 ATA-TAATTTT
1 ATATTAATTTT
78512800 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:78513057 original size:11 final size:11
Alignment explanation
Indices: 78513023--78513062 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
78513013 TAATAACAAC
*
78513023 AAAATAGTAGC
1 AAAATAGTAGT
* *
78513034 AATATAATAGT
1 AAAATAGTAGT
78513045 AAAATAGTAGT
1 AAAATAGTAGT
78513056 AAAATAG
1 AAAATAG
78513063 GGAGAAAATA
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:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:78517840 original size:18 final size:18
Alignment explanation
Indices: 78517817--78517853 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
78517807 AAAATCAAAG
78517817 TAAAAGCACGGTGGCCCA
1 TAAAAGCACGGTGGCCCA
*
78517835 TAAAAGCACGGTGGGCCA
1 TAAAAGCACGGTGGCCCA
78517853 T
1 T
78517854 GGGTGACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.30, T:0.14
Consensus pattern (18 bp):
TAAAAGCACGGTGGCCCA
Found at i:78521499 original size:13 final size:13
Alignment explanation
Indices: 78521483--78521517 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
78521473 ACGAGCATGG
78521483 GACACGGGCCATA
1 GACACGGGCCATA
*
78521496 GACAAGGGCCATA
1 GACACGGGCCATA
78521509 GACACGGGC
1 GACACGGGC
78521518 GTGTGTCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.34, T:0.06
Consensus pattern (13 bp):
GACACGGGCCATA
Found at i:78521537 original size:99 final size:99
Alignment explanation
Indices: 78521403--78521590 Score: 304
Period size: 99 Copynumber: 1.9 Consensus size: 99
78521393 GAGGGACACA
*
78521403 GGCCATAGACACGAGCGTGTGTTAGGCCATGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
1 GGCCATAGACACGAGCGTGTGTCAGGCCATGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
78521468 TTCACACGAGCATGGGACACGGGCCATAGACAAG
66 TTCACACGAGCATGGGACACGGGCCATAGACAAG
* ** * *
78521502 GGCCATAGACACGGGCGTGTGTCAGGCTTTGTGAAAACCTCTGTAGGTTTGAATTTAGAATTTAA
1 GGCCATAGACACGAGCGTGTGTCAGGCCATGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
* *
78521567 TTTACACGGGCATGGGACACGGGC
66 TTCACACGAGCATGGGACACGGGC
78521591 GTGTCCCTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 81 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (99 bp):
GGCCATAGACACGAGCGTGTGTCAGGCCATGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
TTCACACGAGCATGGGACACGGGCCATAGACAAG
Found at i:78537951 original size:39 final size:40
Alignment explanation
Indices: 78537837--78538021 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
78537827 GCTACTCGTT
* *
78537837 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
78537877 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
78537917 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
78537956 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
78537997 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78538022 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78538005 original size:79 final size:80
Alignment explanation
Indices: 78537837--78538021 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 80
78537827 GCTACTCGTT
* * *
78537837 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
78537901 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
78537918 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
78537981 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
78537997 CAAAGCCTTCGAGACTTAGCCCGGA
1 CAAAGCCTTCG-GGCTTAGCCCGGA
78538022 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.63
80 26 0.30
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:78539958 original size:40 final size:38
Alignment explanation
Indices: 78539909--78540054 Score: 123
Period size: 40 Copynumber: 3.7 Consensus size: 38
78539899 GTGACTCGCT
*
78539909 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCACA
1 CAAAAGCCTTCGGGACATAGCCCGGTT-TAGTA-CTCACA
* * * * *
78539949 CAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCA
1 CAAAAGCCTTCGGGACATAGCCCGG-TTTAGT-ACTCACA
* * *
78539989 CAAATGCCTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCA
1 CAAAAGCCTTCGGGACATAG-CCCGG-TTTAGT-ACTCA-CA
*
78540030 CAAAAGCCTTCGGGACTTAGCCCGG
1 CAAAAGCCTTCGGGACATAGCCCGG
78540055 ATACCATTCG
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
39 1 0.01
40 57 0.68
41 24 0.29
42 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CAAAAGCCTTCGGGACATAGCCCGGTTTAGTACTCACA
Found at i:78540043 original size:41 final size:40
Alignment explanation
Indices: 78539947--78540056 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
78539937 TAATAGCTCA
* * * *
78539947 CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTAG
* *
78539987 CACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAG
1 CACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC-TAG
* * *
78540028 CACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CACAAATGCCTTCGGGAATTAACCCGGAT
78540057 ACCATTCGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 32 0.54
41 27 0.46
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTAG
Found at i:78549249 original size:39 final size:40
Alignment explanation
Indices: 78549135--78549319 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
78549125 GCTACTCGTT
* *
78549135 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
78549175 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
78549215 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
78549254 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
78549295 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78549320 CATCATTCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78549303 original size:79 final size:80
Alignment explanation
Indices: 78549135--78549319 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
78549125 GCTACTCGTT
* * *
78549135 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
78549199 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
78549216 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
78549279 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
78549295 CAAAGCCTTCAGGACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
78549320 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:78558562 original size:46 final size:46
Alignment explanation
Indices: 78558456--78558584 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
78558446 TATGAGGCAT
* * *
78558456 CCGAACTCGTTGAGTTGCATTCCGAGTTCACCTATGGATGCAAACAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAACAC
* * *
78558503 CCGAACTCATTGAGTTGTGTTCCGAGTTCATTATGGATGCGAACAC
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
* *
78558549 CCGAGCTCGTTGAGTTGCGTTTCGAGTTCATTATGG
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
78558585 GTGAGATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 45 0.62
47 27 0.38
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
Found at i:78578062 original size:40 final size:40
Alignment explanation
Indices: 78577995--78578171 Score: 304
Period size: 40 Copynumber: 4.5 Consensus size: 40
78577985 ACCCAAGTAT
*
78577995 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
78578034 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
78578074 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
78578114 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
78578154 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
78578172 TTATCATCCG
Statistics
Matches: 131, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 120 0.92
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:78583334 original size:5 final size:5
Alignment explanation
Indices: 78583310--78583399 Score: 73
Period size: 5 Copynumber: 17.8 Consensus size: 5
78583300 CCTCCTATCT
78583310 TTTTA TTCTTA TTCTTA TTTTA TTTTA -TTTA TTTTA TTTTTA TTTTTA
1 TTTTA TT-TTA TT-TTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
* *
78583358 TTTT- TATT- TTTTA TTTTCA TTTCA GTTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTT
78583400 GAAAGACATG
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
3 3 0.04
4 10 0.14
5 30 0.41
6 30 0.41
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:78583352 original size:25 final size:25
Alignment explanation
Indices: 78583311--78583399 Score: 94
Period size: 25 Copynumber: 3.5 Consensus size: 25
78583301 CTCCTATCTT
*
78583311 TTTATTCTTATTCTTATTTTATTTTA
1 TTTATT-TTATTTTTATTTTATTTTA
78583337 TTTATTTTATTTTTATTTTTATTTT-
1 TTTATTTTATTTTTA-TTTTATTTTA
* *
78583362 TATT-TTTTATTTTCATTTCAGTTTTA
1 T-TTATTTTATTTTTATTTTA-TTTTA
78583388 -TTATTTTATTTT
1 TTTATTTTATTTT
78583400 GAAAGACATG
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
24 6 0.11
25 32 0.58
26 17 0.31
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTATTTTATTTTTATTTTATTTTA
Found at i:78583353 original size:31 final size:30
Alignment explanation
Indices: 78583310--78583379 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
78583300 CCTCCTATCT
*
78583310 TTTTATTCTTATTCTTA-TTTTATTTTATTTA
1 TTTTATTTTTATTCTTATTTTTA-TTT-TTTA
*
78583341 TTTTATTTTTATTTTTATTTTTATTTTTTA
1 TTTTATTTTTATTCTTATTTTTATTTTTTA
78583371 TTTTCATTT
1 TTTT-ATTT
78583380 CAGTTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 8 0.23
31 22 0.63
32 5 0.14
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTATTTTTATTCTTATTTTTATTTTTTA
Found at i:78592862 original size:13 final size:13
Alignment explanation
Indices: 78592846--78592878 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
78592836 TGAAATTAAA
*
78592846 TTAGTTAATTAGT
1 TTAGATAATTAGT
78592859 TTAGATAATTAGT
1 TTAGATAATTAGT
78592872 TTA-ATAA
1 TTAGATAA
78592879 ACAAACCCTT
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:78599081 original size:47 final size:45
Alignment explanation
Indices: 78599013--78599275 Score: 140
Period size: 48 Copynumber: 5.5 Consensus size: 45
78599003 ATTGTGTACT
* * *
78599013 AGTGTAAGACATGTTTAGGACATGCATCAACCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAGAGCC
* * *
78599059 AGTGTAAGACCATGTCTGGGACATGGCATCG--GCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATT---ATGAGAGCC
* *
78599107 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCAC-ATTATG-AGAGCC
* * * * * *
78599153 AATGTAAGATCATGTCTGGGACGTGGCATCGGCAC-GTATAGAGGTGAC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATTAT-GA-GAGCC
* * * *
78599201 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCAC--AT-TATGAGAGCC
* *
78599251 AGAGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
78599276 GCGTTGGCCT
Statistics
Matches: 169, Mismatches: 28, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
45 4 0.02
46 30 0.18
47 45 0.27
48 59 0.35
49 2 0.01
50 25 0.15
51 2 0.01
52 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGAGAGCC
Found at i:78599111 original size:48 final size:48
Alignment explanation
Indices: 78599050--78599335 Score: 224
Period size: 48 Copynumber: 5.9 Consensus size: 48
78599040 CAACCACATT
78599050 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * *
78599098 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * *
78599144 ATGTA-AGCCAATGTAAGATCATGTCTGGGACGTGGCATCGGCACGTAT-AG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAG
* * * ** *
78599194 A-G-GTGACAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * * * * *
78599240 ATGTGAGAGCTAGAGTAAGACCATGTCTAGGACATGGCGTTGGCCTTGAT
1 A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * * * * *
78599290 TTCGATAGCCAGTGTAAAACCATGCCTGAGACATGACATCAGCATT
1 AT-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
78599336 ATACCCTATG
Statistics
Matches: 184, Mismatches: 41, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
46 27 0.15
47 28 0.15
48 57 0.31
49 33 0.18
50 39 0.21
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
Found at i:78599172 original size:94 final size:94
Alignment explanation
Indices: 78599010--78599225 Score: 244
Period size: 94 Copynumber: 2.3 Consensus size: 94
78599000 TTAATTGTGT
* * * *
78599010 ACTAGTGTAAGACATGTTTAGGACATGCATCAACCACATTATGAGAGCCAGTGTAAGACCATGTC
1 ACTAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGAGAGCCAATGTAAGACCATGTC
78599075 TGGGACATGGCATCGGCA-T-TGAGACGAG
66 TGGGACATGGCATCGGCACTAT-AGACGAG
** * *
78599103 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCCAATGTAAGATCAT
1 A-CTAGTGTAAGACATGTCTGGGACATGCATCAACCAC-ATGATG-AGAGCCAATGTAAGACCAT
* * *
78599166 GTCTGGGACGTGGCATCGGCACGTATAGAGGTG
63 GTCTGGGACATGGCATCGGCAC-TATAGACGAG
78599199 AC-AGTGTAAGACCATGTCTGGGACATG
1 ACTAGTGTAAGA-CATGTCTGGGACATG
78599226 GCATTGGCAC
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
93 1 0.01
94 78 0.74
95 18 0.17
96 7 0.07
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
ACTAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGAGAGCCAATGTAAGACCATGTC
TGGGACATGGCATCGGCACTATAGACGAG
Found at i:78605295 original size:40 final size:40
Alignment explanation
Indices: 78605232--78605357 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
78605222 CTTAATTTTG
* *
78605232 ACCTGATAATATCTCGATCGAAGGTCAGTTTTTGAAAACA
1 ACCTTATAATATCCCGATCGAAGGTCAGTTTTTGAAAACA
* *
78605272 ACCTTATAATATCCCGATTGAAGGTTAGTTTTTGAAAACA
1 ACCTTATAATATCCCGATCGAAGGTCAGTTTTTGAAAACA
* * * * *
78605312 ACTTTATAATATCCTGGTCAAAGGTCATTTTTTGAAAACA
1 ACCTTATAATATCCCGATCGAAGGTCAGTTTTTGAAAACA
78605352 ACCTTA
1 ACCTTA
78605358 CTCTCTTGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (40 bp):
ACCTTATAATATCCCGATCGAAGGTCAGTTTTTGAAAACA
Found at i:78609297 original size:41 final size:41
Alignment explanation
Indices: 78609236--78609317 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
78609226 AAGAGTTAGT
*
78609236 TTAGAGACTCAACTGTTAAAGATGTTTAATAGCTCGGGCAC
1 TTAGAGACTCAACTGATAAAGATGTTTAATAGCTCGGGCAC
**
78609277 TTAGAGACTCAA-TAGATAAAGATGTTTTGTAGCTCGGGCAC
1 TTAGAGACTCAACT-GATAAAGATGTTTAATAGCTCGGGCAC
78609318 CAGGCCTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (41 bp):
TTAGAGACTCAACTGATAAAGATGTTTAATAGCTCGGGCAC
Found at i:78610767 original size:2 final size:2
Alignment explanation
Indices: 78610760--78610791 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78610750 CAATATTAGC
78610760 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
78610792 CATGCACAAG
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:78611564 original size:2 final size:2
Alignment explanation
Indices: 78611557--78611601 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
78611547 CCGAGCTGAG
78611557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78611599 TA T
1 TA T
78611602 CAGGTTACCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78616616 original size:39 final size:38
Alignment explanation
Indices: 78616572--78616696 Score: 130
Period size: 39 Copynumber: 3.3 Consensus size: 38
78616562 CGGAATACAA
78616572 CCGGATATAACCACGTGCACGAAGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAAGCCTTCGGGTCTTAGC
* * *
78616611 CCGGATAGAACGACTTGCACGATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAAGCCTTCGGGTCTTAGC
* * * *
78616650 CCGGATGTAGCTA--GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTGCACGAA--GCCTTCGGGTCTTAGC
78616687 CCGGATATAA
1 CCGGATATAA
78616697 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
35 1 0.01
36 4 0.06
37 23 0.32
39 44 0.61
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (38 bp):
CCGGATATAACCACTGCACGAAGCCTTCGGGTCTTAGC
Found at i:78616683 original size:37 final size:39
Alignment explanation
Indices: 78616595--78616693 Score: 132
Period size: 37 Copynumber: 2.6 Consensus size: 39
78616585 CGTGCACGAA
* *
78616595 GCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACGAT
1 GCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAT
*
78616634 GCCTTCGGGTCTTAGCCCGGAT-GTA-G-CTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAA-T
*
78616671 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
78616694 TAATTTCCAG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
36 7 0.13
37 23 0.43
38 2 0.04
39 22 0.41
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAT
Found at i:78624652 original size:40 final size:39
Alignment explanation
Indices: 78624607--78624736 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
78624597 CGGAATACAA
78624607 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
78624647 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
78624687 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
78624727 CCGGATATAA
1 CCGGATATAA
78624737 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:78627788 original size:40 final size:39
Alignment explanation
Indices: 78627743--78627907 Score: 158
Period size: 39 Copynumber: 4.2 Consensus size: 39
78627733 CGGAATACAA
78627743 CGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGCC
* *
78627783 CGGATAGAACGACTTGCACG-ATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGCC
* * * *
78627822 CGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAACC
1 CGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGCC
** * *
78627862 CGGATATAATTCCA--GCATAAATGTCTTCGGGACTTAGCC
1 CGGATATAA--CCACTGCACGAATGCCTTCGGGTCTTAGCC
78627901 CGGATAT
1 CGGATAT
78627908 CATTCAATTG
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 57 0.55
40 43 0.42
42 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGCC
Found at i:78627815 original size:39 final size:39
Alignment explanation
Indices: 78627743--78627867 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 39
78627733 CGGAATACAA
* * *
78627743 CGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATAGAACGACTTGCACG-ATGCCTTCGGGTCTTAGCC
78627783 CGGATAGAACGACTTGCACGATGCCTTCGGGTCTTAGCC
1 CGGATAGAACGACTTGCACGATGCCTTCGGGTCTTAGCC
* * * *
78627822 CGGAT-GTAGCCG-CTAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATAG-A-ACGACTTGCACGA-TGCCTTCGGGTCTTAGCC
78627862 CGGATA
1 CGGATA
78627868 TAATTCCAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.43
40 41 0.55
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (39 bp):
CGGATAGAACGACTTGCACGATGCCTTCGGGTCTTAGCC
Found at i:78635634 original size:40 final size:39
Alignment explanation
Indices: 78635589--78635718 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
78635579 CGGAATACAA
78635589 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
78635629 CCGGATAGAACGACTTGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * * *
78635669 CTGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
78635709 CCGGATATAA
1 CCGGATATAA
78635719 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:78640532 original size:45 final size:45
Alignment explanation
Indices: 78640468--78640558 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
78640458 CACGCTTGTC
78640468 TACTAGGTGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
1 TACTAGGTGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
78640513 TACTAGGTGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
1 TACTAGGTGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
78640558 T
1 T
78640559 CTTGCTCGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (45 bp):
TACTAGGTGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
Found at i:78642351 original size:46 final size:46
Alignment explanation
Indices: 78642301--78642476 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
78642291 TGGTTGAGCA
*
78642301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
78642347 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
78642394 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
78642440 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78642477 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:78642457 original size:93 final size:93
Alignment explanation
Indices: 78642298--78642469 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
78642288 GGATGGTTGA
* * * *
78642298 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
78642363 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
78642391 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
78642456 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
78642470 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:78645150 original size:59 final size:59
Alignment explanation
Indices: 78645058--78645175 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
78645048 TTGCCTCAAA
*
78645058 TTATCATTCATCACATCTTCTAAAATGATACCAAATCTATCTCCAATATAATATCAATT
1 TTATCAGTCATCACATCTTCTAAAATGATACCAAATCTATCTCCAATATAATATCAATT
78645117 TTATCAGTCATCACATCTTCTAAAATGATACCAAATCTATCTCCAATATAATATCAATT
1 TTATCAGTCATCACATCTTCTAAAATGATACCAAATCTATCTCCAATATAATATCAATT
78645176 CAAATTACTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (59 bp):
TTATCAGTCATCACATCTTCTAAAATGATACCAAATCTATCTCCAATATAATATCAATT
Found at i:78646382 original size:23 final size:24
Alignment explanation
Indices: 78646344--78646397 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
78646334 TTCATATAAA
78646344 TTAAAAAATATATTTTAGATTAAT
1 TTAAAAAATATATTTTAGATTAAT
* *
78646368 TATAAAAAA-AT-TTTTAGTTTTAT
1 T-TAAAAAATATATTTTAGATTAAT
78646391 TTAAAAA
1 TTAAAAA
78646398 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 6 0.22
23 11 0.41
24 3 0.11
25 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TTAAAAAATATATTTTAGATTAAT
Found at i:78650386 original size:19 final size:18
Alignment explanation
Indices: 78650359--78650401 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
78650349 CGAGTTATTC
* *
78650359 GAATTATTCAAGTGAACTT
1 GAATAATTCAAAT-AACTT
*
78650378 GAATAATTCAAATAATTT
1 GAATAATTCAAATAACTT
78650396 GAATAA
1 GAATAA
78650402 CAGATTGGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (18 bp):
GAATAATTCAAATAACTT
Found at i:78652108 original size:24 final size:25
Alignment explanation
Indices: 78652069--78652115 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
78652059 TAAATAAACT
* *
78652069 AATTTTTAAGAGTAAAAATTAATAA
1 AATTTTTAACAGTAAAAACTAATAA
78652094 AATTTTTAACA-TAAAAACTAAT
1 AATTTTTAACAGTAAAAACTAAT
78652116 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTTTAACAGTAAAAACTAATAA
Found at i:78652444 original size:1 final size:1
Alignment explanation
Indices: 78652438--78652480 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
78652428 CTTAAAGGGC
* * *
78652438 AAAAAAAAAAAAAAAAAAAAACAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
78652481 GTAATGACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:78653235 original size:21 final size:21
Alignment explanation
Indices: 78653198--78653238 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78653188 ATTAGAAAAA
*
78653198 CTTATAAAAAATTCATAAATG
1 CTTATAAAAAATCCATAAATG
78653219 CTTATAAATAAA-CCATAAAT
1 CTTATAAA-AAATCCATAAAT
78653239 AATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (21 bp):
CTTATAAAAAATCCATAAATG
Found at i:78653277 original size:10 final size:10
Alignment explanation
Indices: 78653264--78653306 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
78653254 ATGAACGTAT
78653264 AAAACTTATA
1 AAAACTTATA
78653274 AAAACTTATA
1 AAAACTTATA
* *
78653284 AAAAATCATA
1 AAAACTTATA
*
78653294 AAAACCTATA
1 AAAACTTATA
78653304 AAA
1 AAA
78653307 TGTAAAAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAACTTATA
Found at i:78654081 original size:18 final size:18
Alignment explanation
Indices: 78654041--78654085 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
78654031 AATATAAGTT
*
78654041 TTTTAATGATTTTTTTATT
1 TTTT-ATGATTTTTTTATG
78654060 TTTTATGA-TTTTTTATAG
1 TTTTATGATTTTTTTAT-G
78654078 TTTTATGA
1 TTTTATGA
78654086 ATATTTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTTATGATTTTTTTATG
Found at i:78654774 original size:13 final size:13
Alignment explanation
Indices: 78654756--78654780 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78654746 GTAAAGTAGT
78654756 TAAAAATCCAAAG
1 TAAAAATCCAAAG
78654769 TAAAAATCCAAA
1 TAAAAATCCAAA
78654781 ATGGTCCAAA
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAAATCCAAAG
Found at i:78666163 original size:49 final size:49
Alignment explanation
Indices: 78666108--78666345 Score: 262
Period size: 49 Copynumber: 4.8 Consensus size: 49
78666098 TAGCCAAAGC
* **
78666108 TATCTGGTACGCACAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
78666157 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * * * * *
78666207 CAACTGATACACGTAGCAGCCTGTACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * * *
78666258 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
78666307 AAT-TCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACA
78666346 CGTGACCTAA
Statistics
Matches: 155, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
49 76 0.49
50 45 0.29
51 34 0.22
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:78666298 original size:101 final size:98
Alignment explanation
Indices: 78666125--78666352 Score: 296
Period size: 100 Copynumber: 2.3 Consensus size: 98
78666115 TACGCACAGT
* * * *
78666125 AGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTAGTAC
1 AGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTTAGTAC
*
78666190 TACACATGTGACCTAACCAACT-GATACACGTAGC
66 TACACATGCGA-CTAA-CAACTCGATACACGTAGC
* * * *
78666224 AGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCTTGCACTTAGT
1 AGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACTTAGT
* * * *
78666289 ACTACACATGCGACTAATAATTCGGTACACGTAGT
64 ACTACACATGCGACTAACAACTCGATACACGTAGC
78666324 AGCCTGCACTTAGTACTACACACGTGACC
1 AGCCTGCACTTAGTACTACACACGTGACC
78666353 TAACAATAGA
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 28 0.25
100 43 0.39
101 40 0.36
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (98 bp):
AGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTTAGTAC
TACACATGCGACTAACAACTCGATACACGTAGC
Found at i:78671616 original size:49 final size:50
Alignment explanation
Indices: 78671563--78671793 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
78671553 CTGGTACGCA
* * *
78671563 TAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACTAATTCGGTACACG
* *
78671612 TAGTA-CCTGCACTTAGTACTACACATGTGACCTAACCAATT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACTAATTCGGTACACG
* * * * * * *
78671661 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAACTAATTCGGTACACG
*
78671712 TAGTAGCCTGCACTTAGTACTACACATGTGACCCA-TAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACTAATTCGGTACACG
*
78671761 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
78671794 TAACAATAGA
Statistics
Matches: 156, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
48 26 0.17
49 61 0.39
50 33 0.21
51 36 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACTAATTCGGTACACG
Found at i:78671771 original size:100 final size:98
Alignment explanation
Indices: 78671563--78671793 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 98
78671553 CTGGTACGCA
* * *
78671563 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTACCTGCACTTAG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTACCTGCACTTAG
78671628 TACTACACATGTGACCTAACCAATTGATACACG
66 TACTACACATGTGACCTAACCAATTGATACACG
* ** *
78671661 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTA-CCTGCACT
* * *
78671726 TAGTACTACACATGTGACC-CA-TAATTCGGTACACG
63 TAGTACTACACATGTGACCTAACCAATT-GATACACG
78671761 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
78671794 TAACAATAGA
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 29 0.25
99 8 0.07
100 54 0.46
101 27 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTACCTGCACTTAG
TACTACACATGTGACCTAACCAATTGATACACG
Found at i:78675309 original size:2 final size:2
Alignment explanation
Indices: 78675302--78675337 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
78675292 GGAAGGTAAG
78675302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
78675338 GATGAAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78678549 original size:35 final size:35
Alignment explanation
Indices: 78678510--78678579 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
78678500 GGCCTATACA
78678510 AGGGACGAGATGTTCATGATTGAAAGGTTTTAAAT
1 AGGGACGAGATGTTCATGATTGAAAGGTTTTAAAT
*
78678545 AGGGACGTGATGTTCATGATTGAAAGGTTTTAAAT
1 AGGGACGAGATGTTCATGATTGAAAGGTTTTAAAT
78678580 TCAAATGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (35 bp):
AGGGACGAGATGTTCATGATTGAAAGGTTTTAAAT
Found at i:78694884 original size:39 final size:39
Alignment explanation
Indices: 78694830--78695031 Score: 169
Period size: 39 Copynumber: 5.2 Consensus size: 39
78694820 ATTTGATGTG
*
78694830 TATCCGGACTTAGGGTCCGCAAGCTAT-GTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAAGCT-TCGTGCTGGAAATA
* *
78694869 TATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAAGCTTCGTGCTGGAAATA
* ** * *
78694908 TATCCGGGC-TAAAGTCCTGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCC-GCAAGCTTCGTGCTGGAAATA
* ** * *
78694947 TATCCGGGC-TAAAGTCCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGT-CCGCAAGCTTCGTGCTGGAAATA
* * ** * *
78694986 TATCCGGGC-CAAAGTCCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGT-CCGCAAGCTTCGTGCTGGAAATA
78695025 TATCCGG
1 TATCCGG
78695032 GTTAAAGTCC
Statistics
Matches: 153, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
38 7 0.05
39 144 0.94
40 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAAGCTTCGTGCTGGAAATA
Found at i:78695032 original size:39 final size:39
Alignment explanation
Indices: 78694885--78695057 Score: 310
Period size: 39 Copynumber: 4.4 Consensus size: 39
78694875 GACTTAGGGT
78694885 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
*
78694924 CTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
*
78694963 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
*
78695002 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
*
78695041 CCGCAGGCTTTGTGCTG
1 CCGCAGGCTTCGTGCTG
78695058 ATAATATAAT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 128 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
Found at i:78700937 original size:15 final size:15
Alignment explanation
Indices: 78700917--78700946 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78700907 TAAAGTATAA
78700917 GCCCTTAGTGAGATC
1 GCCCTTAGTGAGATC
78700932 GCCCTTAGTGAGATC
1 GCCCTTAGTGAGATC
78700947 CTCTTTCTGT
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:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (15 bp):
GCCCTTAGTGAGATC
Found at i:78711238 original size:25 final size:26
Alignment explanation
Indices: 78711202--78711266 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
78711192 AATATATATT
* *
78711202 GAAAATAGTAAATATGCAAAATAAATA
1 GAAAATAATAAATAGGCAAAATAAA-A
* *
78711229 -AAAA-AATAAAAAGGCATAATAAAA
1 GAAAATAATAAATAGGCAAAATAAAA
78711253 GAAAATAATAAATA
1 GAAAATAATAAATA
78711267 AAAAAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.03
25 19 0.61
26 11 0.35
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.18
Consensus pattern (26 bp):
GAAAATAATAAATAGGCAAAATAAAA
Found at i:78712885 original size:44 final size:44
Alignment explanation
Indices: 78712821--78712943 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
78712811 CCACTGCAAA
* * * * *
78712821 TTCATGGAGATAAGACTTGTAGCTTCGATTTATTCCAATGTAAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
* * **
78712865 TTTAGGGAGAAAAGATTTGTAGCTTTAATCTACTCCAATGTAAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
* * *
78712909 TTCAAAGAGAAGAGGTTTGTAGCTTCGATCTACTC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTC
78712944 TGCTGGAACT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (44 bp):
TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
Found at i:78713106 original size:45 final size:45
Alignment explanation
Indices: 78713030--78713429 Score: 269
Period size: 45 Copynumber: 8.8 Consensus size: 45
78713020 TTGTAGCTTA
* *
78713030 AATCTGTTTCACTGCAACTTCAAGGGA-ATAAGATCTGCTATCTTC
1 AATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCTGCTATCTTC
* * *
78713075 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAT-CTTC
* * * * * *
78713120 AGTCTACTCCACTGTAACTTCAAGGAGATAAGA-CTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTC
* *
78713164 AATCTGCTCCACTGCAACTTCAGGAAGATAAGAT-TCGCCTTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-G-C-T-A----T--CTTC
* * * * * * * *
78713218 AATCTGTTCCATTGCAACGTCAGAGAAACAAGATTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTC
* * *
78713263 AATTTGCTCCGCTGCAACTTCAGGGAGATAAGA-CTTG-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTC
* * * * *
78713307 CACCTGCTCCACTGCAACTTCAGGGAGATGAGGTTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTC
* * * * *
78713352 AATCTGCTCCACTACGACTTTAGGGAGATAAGA-CTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGCTATCTTC
* * *
78713396 AATCTGCTCCAATGCAACTTCAAGGAGACAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
78713430 TAGCCAGGGT
Statistics
Matches: 270, Mismatches: 63, Indels: 44
0.72 0.17 0.12
Matches are distributed among these distances:
43 4 0.01
44 102 0.38
45 123 0.46
46 3 0.01
47 2 0.01
48 1 0.00
51 1 0.00
53 1 0.00
54 32 0.12
55 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTC
Found at i:78713358 original size:188 final size:185
Alignment explanation
Indices: 78712950--78713384 Score: 430
Period size: 188 Copynumber: 2.3 Consensus size: 185
78712940 ACTCTGCTGG
* * * ** * * *
78712950 AACTTAAAAGAGATAAGAATTGGTAATTTCAA-CTGCTTCGCTGCAACTTCAGGGAGATAGGATT
1 AACTTCAAGGAGATAAGACTT-GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * * *
78713014 TGTAATTTGTAGCTTAAATCTGTTTCACTGCAACTTCAAGGGAATAAGATCTGCTATCTTCAACC
65 CGTAACTTGTAGCTTAAATCTGTTCCACTGCAACGTCAAGGAAACAAGATCTGCCATCTTCAACC
** * * *
78713079 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCCTTAGTCTACTCCACTGT
130 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATACTTAGCCTACTCCACTGC
* *
78713135 AACTTCAAGGAGATAAGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC
1 AACTTCAAGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
78713200 GCCTTAACTTGTAGCTTTAATCTGTTCCATTGCAACGTC-AGAGAAACAAGATTTGCCATCTTCA
66 G---TAACTTGTAGCTTAAATCTGTTCCACTGCAACGTCAAG-GAAACAAGATCTGCCATCTTCA
** * *
78713264 ATTTGCTCCGCTGCAACTTCAGGGAGATAAGACTTG-TA-ACTTCCA-CCTGCTCCACTGC
127 ACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATACTT--AGCCTACTCCACTGC
* * ** * * * *
78713322 AACTTCAGGGAGATGAGGTTTGCTATCTTCAATCTGCTCCACTACGACTTTAGGGAGATAAGA
1 AACTTCAAGGAGATAAGACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
78713385 CTTGTAGCTT
Statistics
Matches: 203, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
184 7 0.03
185 47 0.23
186 3 0.01
187 32 0.16
188 114 0.56
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (185 bp):
AACTTCAAGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC
GTAACTTGTAGCTTAAATCTGTTCCACTGCAACGTCAAGGAAACAAGATCTGCCATCTTCAACCT
GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATACTTAGCCTACTCCACTGC
Found at i:78713361 original size:89 final size:89
Alignment explanation
Indices: 78713251--78713423 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 89
78713241 AGAAACAAGA
* * * *
78713251 TTTGCCATCTTCAATTTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCCACCTGCTC
1 TTTGCCATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC
* *
78713316 CACTGCAACTTCAGGGAGATGAGG
66 CAATGCAACTTCAAGGAGATGAGG
* * * * * *
78713340 TTTGCTATCTTCAATCTGCTCCACTACGACTTTAGGGAGATAAGACTTGTAGCTTTAATCTGCTC
1 TTTGCCATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC
78713405 CAATGCAACTTCAAGGAGA
66 CAATGCAACTTCAAGGAGA
78713424 CAAGATTAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (89 bp):
TTTGCCATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTC
CAATGCAACTTCAAGGAGATGAGG
Found at i:78713423 original size:44 final size:44
Alignment explanation
Indices: 78713206--78713428 Score: 194
Period size: 44 Copynumber: 5.0 Consensus size: 44
78713196 ATTCGCCTTA
* * * * * * *
78713206 ACTTGTAGCTTTAATCTGTTCCATTGCAACGTCAGAGAAACAAG
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
78713250 ATTTGCCATCTTCAATTTGCTCCGCTGCAACTTCAGGGAGATAAG
1 ACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
78713295 ACTTGTAACTTCCACCTGCTCCACTGCAACTTCAGGGAGATGAG
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * *
78713339 GTTTGCTATCTTCAATCTGCTCCACTACGACTTTAGGGAGATAAG
1 ACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
78713384 ACTTGTAGCTTTAATCTGCTCCAATGCAACTTCAAGGAGACAAG
1 ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
78713428 A
1 A
78713429 TTAGCCAGGG
Statistics
Matches: 138, Mismatches: 39, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
44 71 0.51
45 67 0.49
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
ACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:78719748 original size:18 final size:18
Alignment explanation
Indices: 78719725--78719761 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
78719715 AACCAAACTG
78719725 AAAGATCCAGGAAGTTTT
1 AAAGATCCAGGAAGTTTT
*
78719743 AAAGATCTAGGAAGTTTT
1 AAAGATCCAGGAAGTTTT
78719761 A
1 A
78719762 CTATTCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (18 bp):
AAAGATCCAGGAAGTTTT
Found at i:78734196 original size:3 final size:3
Alignment explanation
Indices: 78734188--78734268 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
78734178 AATATAGGGG
*
78734188 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * **
78734236 A-C ATA AGTA ACA ACC ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
78734269 TTGAAATCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.01
3 64 0.94
4 3 0.04
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:78734367 original size:24 final size:26
Alignment explanation
Indices: 78734314--78734374 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 26
78734304 GTAAATAAGC
*
78734314 AAAATAAATAAAAAATAAAAAGGCAT
1 AAAATAAATAAAAAATAAAAAGGAAT
*
78734340 --AATAAA-AGAAAATAAAAA-GAAT
1 AAAATAAATAAAAAATAAAAAGGAAT
78734362 AAAAT-AATAAAAA
1 AAAATAAATAAAAA
78734375 GAATGTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
22 3 0.10
23 13 0.45
24 13 0.45
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.15
Consensus pattern (26 bp):
AAAATAAATAAAAAATAAAAAGGAAT
Found at i:78735722 original size:21 final size:23
Alignment explanation
Indices: 78735691--78735736 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
78735681 ATTGTAAAAT
*
78735691 TTGGCTTGTAATTGGGTTT-TAA
1 TTGGCTTGTAAATGGGTTTGTAA
78735713 TTGG-TTGTAAATGGGTTTGTAA
1 TTGGCTTGTAAATGGGTTTGTAA
78735735 TT
1 TT
78735737 TGTTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (23 bp):
TTGGCTTGTAAATGGGTTTGTAA
Found at i:78742241 original size:76 final size:74
Alignment explanation
Indices: 78742145--78742376 Score: 225
Period size: 76 Copynumber: 3.1 Consensus size: 74
78742135 ACAACAGGTT
* ** **
78742145 TGCCTTGTACTAGTCAGATAAACTGACAATGTTTTGCGCCCAGTGCTAGTCAGATAAACTGACTA
1 TGCC-TGTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTC-GATAAACTGACTA
78742210 TATCAAATGTG
64 TATCAAATGTG
* *
78742221 TGCCTAGTACTAGTCGGATAAACCAACAATGAGTTGTGCCCAGTGCTAGTCGAGTAAA-TCGACG
1 TGCCT-GTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTCGA-TAAACT-GACT
**
78742285 ATATCAAAAATG
63 ATATCAAATGTG
* * ** * * *
78742297 TGCTCTGCACTAGTTGGATGTACCAATAATGAGTTGCGTCCAGTGCTAGTCGGGTAAACTGA-TG
1 TGC-CTGTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTC-GATAAACTGACT-
*
78742361 ATATCGAATGTG
63 ATATCAAATGTG
78742373 TGCC
1 TGCC
78742377 CAACACTAGT
Statistics
Matches: 128, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
75 5 0.04
76 119 0.93
77 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (74 bp):
TGCCTGTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTCGATAAACTGACTATA
TCAAATGTG
Found at i:78742384 original size:76 final size:76
Alignment explanation
Indices: 78742178--78742431 Score: 260
Period size: 76 Copynumber: 3.3 Consensus size: 76
78742168 TGACAATGTT
* * * * * **
78742178 TTGCGCCCAGTGCTAGTCAGATAAACTGACT-ATATCAAATGTGTGCCTAGTACTAGTCGGATAA
1 TTGCGCCCAGTGCTAGTCGGGTAAACTGA-TGATATCAAATGTGTGCCCAGCACTAGTTGGATGT
*
78742242 ACCAACAATGAG
65 ACCAATAATGAG
* * * ** * *
78742254 TTGTGCCCAGTGCTAGTCGAGTAAA-TCGACGATATCAAAAATGTGCTCTGCACTAGTTGGATGT
1 TTGCGCCCAGTGCTAGTCGGGTAAACT-GATGATATCAAATGTGTGCCCAGCACTAGTTGGATGT
78742318 ACCAATAATGAG
65 ACCAATAATGAG
* * * *
78742330 TTGCGTCCAGTGCTAGTCGGGTAAACTGATGATATCGAATGTGTGCCCAACACTAGTTTGATGTA
1 TTGCGCCCAGTGCTAGTCGGGTAAACTGATGATATCAAATGTGTGCCCAGCACTAGTTGGATGTA
78742395 CCAATAATGAG
66 CCAATAATGAG
** * * *
78742406 TTGATCCCAGCGCTTGTCGGATAAAC
1 TTGCGCCCAGTGCTAGTCGGGTAAAC
78742432 CGAAAAATAC
Statistics
Matches: 143, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
75 1 0.01
76 141 0.99
77 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (76 bp):
TTGCGCCCAGTGCTAGTCGGGTAAACTGATGATATCAAATGTGTGCCCAGCACTAGTTGGATGTA
CCAATAATGAG
Found at i:78759532 original size:76 final size:76
Alignment explanation
Indices: 78759429--78759641 Score: 257
Period size: 76 Copynumber: 2.8 Consensus size: 76
78759419 ACAACTTTTT
* ** *
78759429 TGTGCCCAGCACTAGTTAGATAAACCAATAAT-AGGTTGCGCCCAGTGGTAGTCGGATAAACTGA
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGA-GTTGCGCCCAGTGCTAGTCGGATAAACTGA
*
78759493 CGATATCATATG
65 CGATATCAAATG
* * ** * * * *
78759505 TGTGTCGAGCACTAGTTGGATGTACCAACGATGAGTTGCTCCTAGTGCTAGTCGGGTAAATTGAC
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCGCCCAGTGCTAGTCGGATAAACTGAC
78759570 GATATCAAATG
66 GATATCAAATG
** * *
78759581 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGATCCCAGCGCTTGTCGGATAAAC
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCGCCCAGTGCTAGTCGGATAAAC
78759642 CGAAAAATAC
Statistics
Matches: 113, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
76 112 0.99
77 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (76 bp):
TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCGCCCAGTGCTAGTCGGATAAACTGAC
GATATCAAATG
Found at i:78759760 original size:2 final size:2
Alignment explanation
Indices: 78759753--78759778 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78759743 AACCATTTCC
78759753 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
78759779 TTCCATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78762409 original size:27 final size:28
Alignment explanation
Indices: 78762344--78762413 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
78762334 AAATTTGTAC
78762344 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
78762372 AGCACTAAGTGTGCGAGTT-GATTATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
78762399 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78762414 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTGGATCATAT
Found at i:78762424 original size:27 final size:27
Alignment explanation
Indices: 78762344--78762425 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
78762334 AAATTTGTAC
* *
78762344 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
78762372 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
78762399 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
78762426 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 27 0.56
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:78768714 original size:17 final size:17
Alignment explanation
Indices: 78768692--78768730 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
78768682 TTTAATTAAC
78768692 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
* *
78768709 TAAATAATTTTTTCAAT
1 TAAATAAATTTCTCAAT
*
78768726 CAAAT
1 TAAAT
78768731 TTTAGTTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:78772159 original size:20 final size:21
Alignment explanation
Indices: 78772126--78772164 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
78772116 ATTAAATATC
78772126 TAAAATTCTAAAAA-AATCCT
1 TAAAATTCTAAAAACAATCCT
78772146 TAAAATT-TAGAAAACAATC
1 TAAAATTCTA-AAAACAATC
78772165 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAATTCTAAAAACAATCCT
Found at i:78790532 original size:33 final size:33
Alignment explanation
Indices: 78790493--78790560 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
78790483 TGACGAGATG
78790493 CATACGCTACCACCTTACTATCCTACATCAATA
1 CATACGCTACCACCTTACTATCCTACATCAATA
78790526 CATACGCTACCACCTTACTATCCTACATCAATA
1 CATACGCTACCACCTTACTATCCTACATCAATA
78790559 CA
1 CA
78790561 CACTCTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.37, G:0.03, T:0.26
Consensus pattern (33 bp):
CATACGCTACCACCTTACTATCCTACATCAATA
Found at i:78794391 original size:40 final size:40
Alignment explanation
Indices: 78794344--78794571 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
78794334 GCCACTAGCT
* *
78794344 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
78794384 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
78794423 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
78794463 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
78794503 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
78794543 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
78794572 CATCCGAACA
Statistics
Matches: 168, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 38 0.23
40 129 0.77
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:78802546 original size:38 final size:40
Alignment explanation
Indices: 78802426--78802678 Score: 261
Period size: 40 Copynumber: 6.5 Consensus size: 40
78802416 AAACCAAGTA
** ** * *
78802426 CCTTCGGGGTTTAG-CCGGATATAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78802465 CCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78802505 CCTTCGGGACTTAGCCC-G-TATAATAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78802543 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78802583 CCTTC-GGACTTAGCCCGGATATAGTAGCT--CACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * *
78802620 CCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
78802660 -CTCTCGGGACTTAGCCCGG
1 CCT-TCGGGACTTAGCCCGG
78802679 TTATCATCCG
Statistics
Matches: 185, Mismatches: 21, Indels: 15
0.84 0.10 0.07
Matches are distributed among these distances:
37 14 0.08
38 52 0.28
39 40 0.22
40 79 0.43
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78802556 original size:78 final size:77
Alignment explanation
Indices: 78802459--78802678 Score: 241
Period size: 78 Copynumber: 2.8 Consensus size: 77
78802449 GCCACTAGCT
* * *
78802459 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCC-G
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGG
78802523 -TATAATAACTCGCA
65 ATATAATAACT--CA
* * *
78802537 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
* *
78802602 TATAGTAGCTCA
66 TATAATAACTCA
* ** * *
78802614 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TC-GGACTTAGCCC
78802677 GG
63 GG
78802679 TTATCATCCG
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
76 3 0.02
77 51 0.42
78 59 0.49
79 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
TATAATAACTCA
Found at i:78807035 original size:2 final size:2
Alignment explanation
Indices: 78807028--78807062 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
78807018 AAAATCACAA
78807028 AT AT 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 AT AT A
78807063 AATTTTGGCG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78807248 original size:2 final size:2
Alignment explanation
Indices: 78807241--78807271 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78807231 TAAGAAACTT
78807241 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 T
78807272 TATTGTTGAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78807546 original size:24 final size:24
Alignment explanation
Indices: 78807513--78807559 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
78807503 AGAGTTAAAC
*
78807513 AAAATGTTAAATTTTTTATTTTTT
1 AAAATGTTAAAATTTTTATTTTTT
*
78807537 AAAATTTTAAAATTTTTATTTTT
1 AAAATGTTAAAATTTTTATTTTT
78807560 AGCTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAAATGTTAAAATTTTTATTTTTT
Found at i:78807631 original size:28 final size:26
Alignment explanation
Indices: 78807592--78807659 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
78807582 AAGTTTCTAG
78807592 ATTTTTAAAATTT-ACCAAGTTTTTTA
1 ATTTTTAAAATTTAACCAA-TTTTTTA
*
78807618 ATTTTCTAGAAATTTAACTAATTTTTT-
1 ATTTT-TA-AAATTTAACCAATTTTTTA
*
78807645 ATTTTTGAATATTTA
1 ATTTTT-AAAATTTA
78807660 TTTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 12 0.33
27 8 0.22
28 12 0.33
29 4 0.11
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTTTTAAAATTTAACCAATTTTTTA
Found at i:78811072 original size:11 final size:11
Alignment explanation
Indices: 78811057--78811089 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
78811047 TAAAAGTACA
*
78811057 TAAAAAAT-TA
1 TAAAAAATATT
78811067 TAAAAAATATT
1 TAAAAAATATT
78811078 TAAAAAATATT
1 TAAAAAATATT
78811089 T
1 T
78811090 TTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAAAATATT
Found at i:78811873 original size:39 final size:39
Alignment explanation
Indices: 78811830--78811914 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
78811820 ATTTATACTA
* *
78811830 TTTTTTATATATTATATAATTAAATTT-ACATA-AAAATAT
1 TTTTTTATATATAAT-TAATTAAATTTAAAATATAAAAT-T
* **
78811869 TTTTTGATATATAATTAATTTTATTTAAAATATAAAATT
1 TTTTTTATATATAATTAATTAAATTTAAAATATAAAATT
78811908 TTTTTTA
1 TTTTTTA
78811915 ATCAAATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
38 9 0.24
39 24 0.63
40 5 0.13
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (39 bp):
TTTTTTATATATAATTAATTAAATTTAAAATATAAAATT
Found at i:78811895 original size:38 final size:40
Alignment explanation
Indices: 78811828--78811914 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 40
78811818 TAATTTATAC
* *
78811828 TATTTTTTATATATTATATAATTAAATTT-ACATA-AAAA
1 TATTTTTTATATATAATATAATTAAATTTAAAATATAAAA
**
78811866 TATTTTTTGATATATAAT-TAATTTTATTTAAAATATAAAA
1 TATTTTTT-ATATATAATATAATTAAATTTAAAATATAAAA
*
78811906 TTTTTTTTA
1 TATTTTTTA
78811915 ATCAAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 17 0.41
39 13 0.32
40 11 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (40 bp):
TATTTTTTATATATAATATAATTAAATTTAAAATATAAAA
Found at i:78815395 original size:19 final size:20
Alignment explanation
Indices: 78815356--78815393 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78815346 TCAAATAAAA
78815356 AGTTTTTTACTTTCATTTTG
1 AGTTTTTTACTTTCATTTTG
78815376 AGTTTTTT-CTTTTCATTT
1 AGTTTTTTAC-TTTCATTT
78815394 GATTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.13, C:0.11, G:0.08, T:0.68
Consensus pattern (20 bp):
AGTTTTTTACTTTCATTTTG
Found at i:78816973 original size:30 final size:31
Alignment explanation
Indices: 78816924--78816992 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 31
78816914 CCATGTGGTG
78816924 GTGTGGGTGTGACCCTGTGGGCCACACGAGC
1 GTGTGGGTGTGACCCTGTGGGCCACACGAGC
*
78816955 GTGTGGGTGTGA-CCTGTGGGCCACACGAGT
1 GTGTGGGTGTGACCCTGTGGGCCACACGAGC
78816985 GTGTGGGT
1 GTGTGGGT
78816993 TTTGGGCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.12, C:0.20, G:0.45, T:0.23
Consensus pattern (31 bp):
GTGTGGGTGTGACCCTGTGGGCCACACGAGC
Found at i:78835589 original size:48 final size:48
Alignment explanation
Indices: 78835469--78835699 Score: 293
Period size: 48 Copynumber: 4.8 Consensus size: 48
78835459 AGTGTAAGAT
* *
78835469 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGA-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCGAG
* * *
78835518 TCTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAG
1 GC-CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* ** *
78835567 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
78835615 GTCGGTGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* *
78835663 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT
78835700 TGTCATGCAT
Statistics
Matches: 154, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 121 0.79
49 2 0.01
50 31 0.20
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:78835670 original size:96 final size:97
Alignment explanation
Indices: 78835469--78835699 Score: 383
Period size: 96 Copynumber: 2.4 Consensus size: 97
78835459 AGTGTAAGAT
*
78835469 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGATCTCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-CAATCTCGATGCCATGTTC
*
78835534 CAAACATGGTCTTACACTAGCTCACATGTCGAG
65 CAAACATGGTCTTACACTAGCTCACATATCGAG
* * *
78835567 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA-AATGTCGGTGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATCTCGATGCCATGTTCC
*
78835631 AAACATGGTCTTACACTGGCTCACATATCGAG
66 AAACATGGTCTTACACTAGCTCACATATCGAG
*
78835663 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
78835700 TGTCATGCAT
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 81 0.65
98 44 0.35
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATCTCGATGCCATGTTCC
AAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:78840737 original size:40 final size:40
Alignment explanation
Indices: 78840678--78840885 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
78840668 CAATTGAATG
* * * *
78840678 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
78840718 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
78840758 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
78840798 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
78840838 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
78840878 ATATCCGG
1 ATATCCGG
78840886 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:78840816 original size:80 final size:80
Alignment explanation
Indices: 78840679--78840885 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
78840669 AATTGAATGA
* * ** * * *
78840679 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
78840744 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
78840757 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
78840822 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
78840839 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
78840886 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:78848896 original size:40 final size:40
Alignment explanation
Indices: 78848837--78849044 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
78848827 CAATTGAATG
* * * *
78848837 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
78848877 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
78848917 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
78848957 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
78848997 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
78849037 ATATCCGG
1 ATATCCGG
78849045 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:78848975 original size:80 final size:80
Alignment explanation
Indices: 78848838--78849044 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
78848828 AATTGAATGA
* * ** * * *
78848838 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
78848903 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
78848916 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
78848981 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
78848998 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
78849045 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:78853670 original size:34 final size:31
Alignment explanation
Indices: 78853604--78853670 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
78853594 GTATAAAACC
* *
78853604 TGGTCTTAGTCGCACACATATATCGATGCTA
1 TGGTCTTAGTCGCACACACATATCGATCCTA
78853635 TGGTCTTAGTCGCACATCACATATCGGAATCCTA
1 TGGTCTTAGTCGCACA-CACATATC-G-ATCCTA
78853669 TG
1 TG
78853671 TCATGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 16 0.52
32 7 0.23
33 1 0.03
34 7 0.23
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (31 bp):
TGGTCTTAGTCGCACACACATATCGATCCTA
Found at i:78855443 original size:27 final size:27
Alignment explanation
Indices: 78855424--78855688 Score: 359
Period size: 27 Copynumber: 9.8 Consensus size: 27
78855414 ATTACCAAAG
* * *
78855424 TACCCCCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
78855451 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
78855478 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
78855505 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
78855532 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
78855559 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
78855586 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
78855613 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
78855640 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
78855667 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
78855689 AGAAATACCC
Statistics
Matches: 215, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 215 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:78855471 original size:81 final size:81
Alignment explanation
Indices: 78855386--78855635 Score: 203
Period size: 81 Copynumber: 3.1 Consensus size: 81
78855376 CGATTTGTAA
* ** *
78855386 AATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTATCATTT
1 AATTACTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
*
78855451 TACCCCCGATTTACAT
66 TACCCCCGATTTACAG
* *** * **** * *
78855467 AATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 AATTACTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
*
78855532 TACCCTCGATTTACAG
66 TACCCCCGATTTACAG
*** * * **** ** **
78855548 AATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 AATTACTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
** *
78855613 TACCGTCGATTTATAG
66 TACCCCCGATTTACAG
78855629 AATTACT
1 AATTACT
78855636 ATTTTACCCT
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (81 bp):
AATTACTGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
TACCCCCGATTTACAG
Found at i:78855697 original size:27 final size:27
Alignment explanation
Indices: 78855324--78855890 Score: 170
Period size: 27 Copynumber: 20.9 Consensus size: 27
78855314 AATACTTTAG
* * *
78855324 TTTACTAAAATTACCGAAATACCCTTAGT
1 TTTAC-AAAATTACAGAAATACCC-TCGA
*
78855353 TTGTA-AAAA-TACTGAAATACCCTCGA
1 TT-TACAAAATTACAGAAATACCCTCGA
** * *
78855379 TTTGTAAAATTACTGAAATACCTTCGA
1 TTTACAAAATTACAGAAATACCCTCGA
* ** * *
78855406 CTTGTAAAATTACCA-AAGTACCCCCGA
1 TTTACAAAATTA-CAGAAATACCCTCGA
* *** *
78855433 TTTACAGAATTATCA-TTTTACCCCCGA
1 TTTACAAAATTA-CAGAAATACCCTCGA
* * ***
78855460 TTTACATAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACAGAAATACCCTCGA
* ***
78855487 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACAGAAATACCCTCGA
* * ***
78855514 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACAGAAATACCCTCGA
* * ***
78855541 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACAGAAATACCCTCGA
* * *** *
78855568 TTTATAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACAGAAATACCCTCGA
* * *** *
78855595 TTTACAGAATTACTGTTTTACCGTCGA
1 TTTACAAAATTACAGAAATACCCTCGA
* * *** *
78855622 TTTATAGAATTACTA-TTTTACCCTTGA
1 TTTACAAAATTAC-AGAAATACCCTCGA
* ***
78855649 TTTACAGAATTACTA-TTTTACCCTCGA
1 TTTACAAAATTAC-AGAAATACCCTCGA
*
78855676 TTTACAAAATTACAGAAATACCCTCAA
1 TTTACAAAATTACAGAAATACCCTCGA
** *
78855703 TTTGTAAAATTACCA-AAATACCC-CTA
1 TTTACAAAATTA-CAGAAATACCCTCGA
** *
78855729 GTTTGTAAAATTACCA-AAATACCACT-GG
1 -TTTACAAAATTA-CAGAAATACC-CTCGA
*** *
78855757 TTTGTGAAATTACAGAAATACCCTCAA
1 TTTACAAAATTACAGAAATACCCTCGA
**
78855784 TTTGTAAAATTACCA-AAATACCC-CTGA
1 TTTACAAAATTA-CAGAAATACCCTC-GA
* * **
78855811 TTTACAAAGTTACAAAAATACCCTTAA
1 TTTACAAAATTACAGAAATACCCTCGA
* * * *
78855838 CTTT-CTAAAAATTATAGAAATACCATTGG
1 -TTTAC--AAAATTACAGAAATACCCTCGA
*
78855867 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACAGAAATACCCT
78855891 TGGTTTGTAG
Statistics
Matches: 449, Mismatches: 68, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.00
26 19 0.04
27 392 0.87
28 16 0.04
29 19 0.04
30 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACAGAAATACCCTCGA
Found at i:78855725 original size:81 final size:80
Alignment explanation
Indices: 78855640--78855832 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 80
78855630 ATTACTATTT
* ***
78855640 TACCCTTGATTTACAGAATTACTATTTTACC-CTCGATTTACAAAATTACAGAAATACCCTCAAT
1 TACCCTTGATTTACA-AATTACCAAAATACCACT-GATTTACAAAATTACAGAAATACCCTCAAT
78855704 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* * * ***
78855721 TACCCCTAGTTTGTA-AAATTACCAAAATACCACTGGTTTGTGAAATTACAGAAATACCCTCAAT
1 TA-CCCTTGATT-TACAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAAT
78855785 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* *
78855802 TACCCCTGATTTACAAAGTTACAAAAATACC
1 TACCCTTGATTTACAAA-TTACCAAAATACC
78855833 CTTAACTTTC
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
79 2 0.02
80 9 0.10
81 70 0.75
82 10 0.11
83 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:78855980 original size:27 final size:27
Alignment explanation
Indices: 78855949--78856041 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
78855939 TACCCCTATT
*
78855949 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
78855976 GGGTAAAGTGACCGTAAAGCCCTTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
78856003 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
78856030 TGGTAAAATGAC
1 AGGTAAAATGAC
78856042 GAATATGCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:78857300 original size:9 final size:9
Alignment explanation
Indices: 78857288--78857344 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
78857278 TTTGATAAAC
78857288 ATGATATGT
1 ATGATATGT
*
78857297 ATGATATGCAC
1 ATGATATG--T
*
78857308 ATGACATGT
1 ATGATATGT
*
78857317 ATGATATGCAC
1 ATGATATG--T
78857328 ATGATATGT
1 ATGATATGT
78857337 ATGATATG
1 ATGATATG
78857345 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:78857311 original size:20 final size:20
Alignment explanation
Indices: 78857286--78857348 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
78857276 ATTTTGATAA
78857286 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78857306 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78857326 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78857346 ACA
1 ACA
78857349 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78857459 original size:24 final size:23
Alignment explanation
Indices: 78857403--78857569 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
78857393 GAGGAAGTGA
78857403 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
78857426 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
78857449 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
78857473 CAAAAGGGCTTACGCCCCAGCTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
78857497 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
78857520 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
78857545 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
78857569 A
1 A
78857570 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 42 0.33
24 75 0.59
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:78857472 original size:47 final size:47
Alignment explanation
Indices: 78857403--78857569 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
78857393 GAGGAAGTGA
*
78857403 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
78857449 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGCTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
78857497 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
78857545 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
78857570 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 64 0.60
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:78857519 original size:71 final size:71
Alignment explanation
Indices: 78857403--78857554 Score: 250
Period size: 71 Copynumber: 2.1 Consensus size: 71
78857393 GAGGAAGTGA
* * *
78857403 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
78857468 GTTATC
66 GTTATC
*
78857474 AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
78857539 GTTATT
66 GTTATC
78857545 AAAAGAGGCT
1 AAAAG-GGCT
78857555 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 71 0.95
72 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGCTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:78861601 original size:28 final size:28
Alignment explanation
Indices: 78861561--78861630 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
78861551 CATGAGATTG
* *
78861561 GCACTAAGTGTGCGAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGACTATTA-A
78861589 GCACTAAGTGTGCGAGTTCGACTATTAA
1 GCACTAAGTGTGCGAGTTCGACTATTAA
78861617 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78861631 GGCTTATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGACTATTAA
Found at i:78864653 original size:48 final size:48
Alignment explanation
Indices: 78864528--78864908 Score: 406
Period size: 48 Copynumber: 7.9 Consensus size: 48
78864518 AGGGTAAGAT
* *
78864528 GCCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCGAG
* * * * *
78864577 TGTCGATGCTATGTTCCAAACATGGTCTTATACTATG-TCACATGTCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTA-GCTCACATATCGAG
* * ** *
78864626 GCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
78864674 GCCGATGCCATGTTCAAAACATGGTCTTACACTGGCTCATATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
78864722 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * *
78864770 GTCGATGCCATGTTCCAATCATGGTCTTACACTGGCTCATATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
** * * * *
78864818 GTTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * *
78864866 GTCGATGCCATGTTCCAATCATGGTCTTACACTAGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
78864909 ACCCTAGTAT
Statistics
Matches: 271, Mismatches: 57, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.00
48 239 0.88
49 1 0.00
50 29 0.11
51 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:78864735 original size:96 final size:96
Alignment explanation
Indices: 78864528--78864904 Score: 540
Period size: 96 Copynumber: 3.9 Consensus size: 96
78864518 AGGGTAAGAT
* ** *
78864528 GCCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATATCGGTGTCGATGCTATGTTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA--AATGTCGATGCCATGTTC
* * * *
78864593 CAAACATGGTCTTATACTATG-TCACATGTCGAG
64 CAAACATGGTCTTACACT-GGCTCATATATCGAG
* * *
78864626 GCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
78864691 AACATGGTCTTACACTGGCTCATATATCGAG
66 AACATGGTCTTACACTGGCTCATATATCGAG
* *
78864722 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
*
78864787 ATCATGGTCTTACACTGGCTCATATATCGAG
66 AACATGGTCTTACACTGGCTCATATATCGAG
** * *
78864818 GTTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
* *
78864883 ATCATGGTCTTACACTAGCTCA
66 AACATGGTCTTACACTGGCTCA
78864905 CATAACCCTA
Statistics
Matches: 256, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
95 1 0.00
96 212 0.83
98 43 0.17
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCATATATCGAG
Found at i:78871689 original size:40 final size:39
Alignment explanation
Indices: 78871524--78871707 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78871514 AAATTGAATG
* * *
78871524 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78871564 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78871604 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78871644 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78871683 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78871708 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78871732 original size:80 final size:81
Alignment explanation
Indices: 78871564--78871746 Score: 183
Period size: 80 Copynumber: 2.3 Consensus size: 81
78871554 GCTGGAAATT
* * * *
78871564 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78871629 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78871645 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78871708 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* *
78871724 ATAACCGGGCTATGTCCCGAAGG
1 ATAACCGGGCTAAGACCCGAAGG
78871747 AGATTGATCG
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 80 0.98
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78878997 original size:40 final size:39
Alignment explanation
Indices: 78878832--78879015 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78878822 AAATTGAATG
* * *
78878832 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78878872 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78878912 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78878952 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78878991 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78879016 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78879040 original size:80 final size:81
Alignment explanation
Indices: 78878872--78879060 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78878862 GCTGGAAATT
* * * *
78878872 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78878937 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78878953 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78879016 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78879032 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78879061 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78884415 original size:40 final size:39
Alignment explanation
Indices: 78884289--78884433 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
78884279 TGCTGGAAAT
* * * * *
78884289 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
78884328 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
78884369 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
78884408 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
78884434 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:78884458 original size:80 final size:81
Alignment explanation
Indices: 78884290--78884478 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78884280 GCTGGAAATT
* * * *
78884290 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78884355 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78884371 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78884434 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78884450 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78884479 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78889903 original size:18 final size:17
Alignment explanation
Indices: 78889881--78889919 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
78889871 CTTTTATTAA
78889881 GTTTTTAAGACTCATTC
1 GTTTTTAAGACTCATTC
* *
78889898 GTTTTTAAGATTCATTT
1 GTTTTTAAGACTCATTC
78889915 GTTTT
1 GTTTT
78889920 CCTTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (17 bp):
GTTTTTAAGACTCATTC
Found at i:78892731 original size:40 final size:40
Alignment explanation
Indices: 78892687--78892905 Score: 359
Period size: 40 Copynumber: 5.5 Consensus size: 40
78892677 AGCTCGAATA
*
78892687 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78892727 CCTTCGGGACTTAGCCCGGATATAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
78892767 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78892807 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78892847 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
78892887 CCTTCGGGACTTTGCCCGG
1 CCTTCGGGACTTAGCCCGG
78892906 TTATCATCCA
Statistics
Matches: 169, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 168 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78901089 original size:7 final size:6
Alignment explanation
Indices: 78901070--78901107 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
78901060 TATAAACACC
*
78901070 TATTATT TATTTT TATTTT TA-TTT TATTTA TATTTT TA
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TA
78901108 AATTACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.18
6 19 0.68
7 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:78901095 original size:17 final size:17
Alignment explanation
Indices: 78901074--78901145 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 17
78901064 AACACCTATT
78901074 ATTTATTTTTATTTTTA
1 ATTTATTTTTATTTTTA
* *
78901091 TTTTATTTATATTTTTA
1 ATTTATTTTTATTTTTA
*
78901108 AATTACTTTTTATTTCCCTTTA
1 ATTTA-TTTTTA-TT---TTTA
78901130 ATATTATTTTTATTTT
1 AT-TTATTTTTATTTT
78901146 ATCTTGAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
17 18 0.42
18 7 0.16
19 2 0.05
21 2 0.05
22 11 0.26
23 3 0.07
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTTTATTTTTA
Found at i:78910038 original size:15 final size:15
Alignment explanation
Indices: 78910003--78910036 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
78909993 AGCAAACGTG
78910003 AGAAAGAAAGAAGAA
1 AGAAAGAAAGAAGAA
78910018 AGAAAGAAAGAA-AA
1 AGAAAGAAAGAAGAA
78910032 AGAAA
1 AGAAA
78910037 AGGGAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAGAA
Found at i:78910857 original size:47 final size:47
Alignment explanation
Indices: 78910793--78910903 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
78910783 GACATTGAGT
*
78910793 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
78910840 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
78910887 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
78910904 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:78918887 original size:18 final size:18
Alignment explanation
Indices: 78918859--78918911 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
78918849 TTTTGGGCCG
*
78918859 TATGGGT-CACACGGGCG
1 TATGGGTCCACACGGGCA
*
78918876 TGTGGGTCCACACGGGCA
1 TATGGGTCCACACGGGCA
*
78918894 TATGGGCCCACACGGGCA
1 TATGGGTCCACACGGGCA
78918912 GGCCACATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.19, C:0.28, G:0.38, T:0.15
Consensus pattern (18 bp):
TATGGGTCCACACGGGCA
Found at i:78919424 original size:41 final size:39
Alignment explanation
Indices: 78919352--78919465 Score: 105
Period size: 41 Copynumber: 3.0 Consensus size: 39
78919342 TGTTATTGAT
*** *
78919352 TAATGTATATCTGATACTGTTACTGTGATGGGCTTAGGCCC
1 TAATG-ATATCTGATACTAAAACTG-AATGGGCTTAGGCCC
*
78919393 TAATGCATATCTGATACTAAAACTGAAATGGGCTAAGGCCC
1 TAATG-ATATCTGATACTAAAACTG-AATGGGCTTAGGCCC
78919434 --A--A-A-CTGATACTAAAACTGAATGGGCTTAGGCC
1 TAATGATATCTGATACTAAAACTGAATGGGCTTAGGCC
78919466 TAGACTGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
33 13 0.20
34 15 0.23
35 1 0.02
36 1 0.02
39 1 0.02
41 34 0.52
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (39 bp):
TAATGATATCTGATACTAAAACTGAATGGGCTTAGGCCC
Found at i:78921669 original size:30 final size:30
Alignment explanation
Indices: 78921633--78921693 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
78921623 CTCGTATAAT
78921633 CCAATTCACATGATCTTTCACTTATTAAAG
1 CCAATTCACATGATCTTTCACTTATTAAAG
*
78921663 CCAATTCACATGGTCTTTCACTTATTAAAG
1 CCAATTCACATGATCTTTCACTTATTAAAG
78921693 C
1 C
78921694 TAATAACAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
CCAATTCACATGATCTTTCACTTATTAAAG
Found at i:78926870 original size:22 final size:22
Alignment explanation
Indices: 78926840--78926882 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
78926830 GAATAACATA
*
78926840 AAACCATTTAAAATAAATAATG
1 AAACAATTTAAAATAAATAATG
* *
78926862 AAACAATTTTAAATAAGTAAT
1 AAACAATTTAAAATAAATAAT
78926883 ACATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AAACAATTTAAAATAAATAATG
Found at i:78927181 original size:22 final size:24
Alignment explanation
Indices: 78927134--78927183 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
78927124 GAAATCTTAA
* *
78927134 AATAAATAATAACAAGAGGTTTAC
1 AATAAATAAGAACAAGAGATTTAC
78927158 AATAAATAAGAA-AAGA-ATTTAC
1 AATAAATAAGAACAAGAGATTTAC
78927180 AATA
1 AATA
78927184 GTTTGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 11 0.46
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (24 bp):
AATAAATAAGAACAAGAGATTTAC
Done.