Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 142 of 279
Found at i:46034335 original size:14 final size:14
Alignment explanation
Indices: 46034312--46034362 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
46034302 ATGCTGAGGT
*
46034312 CTTTTTAATTTCTG
1 CTTTTCAATTTCTG
46034326 CTTTTCAATTTCTG
1 CTTTTCAATTTCTG
*
46034340 TTTTTTCAATTTCTG
1 -CTTTTCAATTTCTG
*
46034355 TTTTTCAA
1 CTTTTCAA
46034363 AAATCAACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.63
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:46034347 original size:15 final size:15
Alignment explanation
Indices: 46034313--46034359 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
46034303 TGCTGAGGTC
46034313 TTTTT-AATTTCTG-
1 TTTTTCAATTTCTGT
*
46034326 CTTTTCAATTTCTGT
1 TTTTTCAATTTCTGT
46034341 TTTTTCAATTTCTGT
1 TTTTTCAATTTCTGT
46034356 TTTT
1 TTTT
46034360 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 4 0.13
14 8 0.27
15 18 0.60
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTTCAATTTCTGT
Found at i:46035146 original size:30 final size:30
Alignment explanation
Indices: 46035110--46035224 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
46035100 ACTTTTCTCA
*
46035110 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
46035140 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
46035170 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
46035200 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
46035225 CTTGTACCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:46035808 original size:25 final size:25
Alignment explanation
Indices: 46035780--46035838 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
46035770 ATATTACGTA
* *
46035780 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
46035805 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
46035830 TATATATAT
1 TATATATAT
46035839 ATATATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:46035808 original size:27 final size:26
Alignment explanation
Indices: 46035769--46035840 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
46035759 TTTTAAATTT
* *
46035769 TATATTACGTATATATATATTTTATAC
1 TATATTA-TTATATATATATTTAATAC
* * *
46035796 TATTTTATT-TATATATCTTTAATAT
1 TATATTATTATATATATATTTAATAC
46035821 TATATTATTTATATATATAT
1 TATATTA-TTATATATATAT
46035841 ATATATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
25 19 0.53
26 3 0.08
27 14 0.39
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (26 bp):
TATATTATTATATATATATTTAATAC
Found at i:46035823 original size:16 final size:17
Alignment explanation
Indices: 46035782--46035848 Score: 70
Period size: 16 Copynumber: 4.1 Consensus size: 17
46035772 ATTACGTATA
*
46035782 TATATATTTTATACTATT
1 TATATATTATATA-TATT
*
46035800 T-TAT-TTATATATCTT
1 TATATATTATATATATT
46035815 TA-ATATTATAT-TATT
1 TATATATTATATATATT
46035830 TATATATATATATATATT
1 TATATAT-TATATATATT
46035848 T
1 T
46035849 TTTCTACATG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
15 11 0.27
16 16 0.39
17 8 0.20
18 6 0.15
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATATTATATATATT
Found at i:46035912 original size:25 final size:25
Alignment explanation
Indices: 46035864--46035949 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
46035854 ACATGTTATC
*
46035864 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTTTTAACACTATA
*
46035886 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAACACTATA
* *
46035911 TTATGTACATATTTTTAATA-T-TA
1 TTATGTATATATTTTTAACACTATA
* *
46035934 TCATGTATTTATTTTT
1 TTATGTATATATTTTT
46035950 TATATATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.19
23 18 0.34
24 2 0.04
25 23 0.43
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATGTATATATTTTTAACACTATA
Found at i:46035946 original size:23 final size:24
Alignment explanation
Indices: 46035866--46035956 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
46035856 ATGTTATCTT
*
46035866 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
46035888 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
46035913 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
46035936 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
46035957 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:46036101 original size:16 final size:15
Alignment explanation
Indices: 46036077--46036124 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
46036067 TAATTATTAT
*
46036077 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
46036093 TATTTTAATATTTTA
1 TATTTTAATATTTTA
46036108 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
46036124 T
1 T
46036125 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:46036112 original size:7 final size:8
Alignment explanation
Indices: 46036077--46036128 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
46036067 TAATTATTAT
*
46036077 TATTCTAA
1 TATTTTAA
*
46036085 TATTTTGA
1 TATTTTAA
46036093 TATTTTAA
1 TATTTTAA
46036101 TATTTT-A
1 TATTTTAA
46036108 TATTTTATA
1 TATTTTA-A
*
46036117 TATTTTAT
1 TATTTTAA
46036125 TATT
1 TATT
46036129 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:46049893 original size:5 final size:5
Alignment explanation
Indices: 46049883--46049909 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46049873 TAAAATTATG
46049883 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
46049910 TTATAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:46064724 original size:53 final size:53
Alignment explanation
Indices: 46064643--46064793 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
46064633 CTTACACGGT
* *
46064643 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
46064698 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
46064751 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
46064794 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:46074024 original size:30 final size:30
Alignment explanation
Indices: 46073990--46074050 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46073980 TCCTTAACTC
46073990 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46074020 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46074050 A
1 A
46074051 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46090016 original size:42 final size:42
Alignment explanation
Indices: 46089952--46090033 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
46089942 ATTACACATG
46089952 TTAGTTTTATATTTATTATAGGTTAATAATAGTATAATAATT
1 TTAGTTTTATATTTATTATAGGTTAATAATAGTATAATAATT
*
46089994 TTAGTTTTATATTTATTTTAGGTTAATAATAGTATAATAA
1 TTAGTTTTATATTTATTATAGGTTAATAATAGTATAATAA
46090034 GTAAAATTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (42 bp):
TTAGTTTTATATTTATTATAGGTTAATAATAGTATAATAATT
Found at i:46091414 original size:50 final size:50
Alignment explanation
Indices: 46091355--46091459 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
46091345 TTACATGACT
46091355 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
46091405 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
46091455 -ATACT
1 AATACT
46091460 CACATTAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 5 0.09
50 50 0.91
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:46092888 original size:24 final size:24
Alignment explanation
Indices: 46092856--46092908 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
46092846 GCTTCTTATG
*
46092856 GTGTGGGTTGAATGTTAGAGATGA
1 GTGTGGGTTGAATGCTAGAGATGA
46092880 GTGTGGGTTGAATGCTAGAGATGA
1 GTGTGGGTTGAATGCTAGAGATGA
46092904 GTGTG
1 GTGTG
46092909 TGAGGTACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.02, G:0.43, T:0.32
Consensus pattern (24 bp):
GTGTGGGTTGAATGCTAGAGATGA
Found at i:46093875 original size:16 final size:16
Alignment explanation
Indices: 46093856--46093898 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
46093846 TAAAAATAAT
46093856 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
*
46093872 TTAATATATATATATTTA
1 TTAA-A-ATATAAATTTA
*
46093890 TTAATATAT
1 TTAAAATAT
46093899 GTAAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:46093882 original size:18 final size:18
Alignment explanation
Indices: 46093861--46093903 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
46093851 ATAATTTAAA
46093861 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
46093879 ATATATATTTATTAATAT
1 ATATAAATTTATTAATAT
*
46093897 ATGTAAA
1 ATATAAA
46093904 AACAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:46094003 original size:19 final size:20
Alignment explanation
Indices: 46093979--46094025 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
46093969 CATCCAAACA
*
46093979 CCAGAAAAGTAAGTCA-TTT
1 CCAGAAAAGGAAGTCATTTT
*
46093998 CCAGAAAAGGAATTCATTTT
1 CCAGAAAAGGAAGTCATTTT
46094018 CCAGAAAA
1 CCAGAAAA
46094026 TATTTTACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (20 bp):
CCAGAAAAGGAAGTCATTTT
Found at i:46103446 original size:41 final size:41
Alignment explanation
Indices: 46103372--46103593 Score: 338
Period size: 41 Copynumber: 5.4 Consensus size: 41
46103362 CGTTTCATCA
* * * *
46103372 AAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGGT
*
46103412 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGGT
* *
46103453 AAAACGCCGCTAAAAGTCGGAACATTAGCGGCGCTTTCTGT
1 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGGT
*
46103494 AAAACGCCGCTAAAAGTCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGGT
* * *
46103535 AAAACGCCGCTAAAAGTCGGAGCATTAACGTCGCTTTCGAT
1 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGGT
46103576 AAAACGCCGCTAAAAGTC
1 AAAACGCCGCTAAAAGTC
46103594 ATATTACTCC
Statistics
Matches: 166, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 15 0.09
41 151 0.91
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTCGGT
Found at i:46103559 original size:123 final size:122
Alignment explanation
Indices: 46103372--46103593 Score: 390
Period size: 123 Copynumber: 1.8 Consensus size: 122
46103362 CGTTTCATCA
*
46103372 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCGGAGCAT
*
46103437 TAGCGGCGCTTTCGATAAAACGCCGCTAAAAGTCGGAACATTAGCGGCGCTTTCTGT
66 TAACGGCGCTTTCGATAAAACGCCGCTAAAAGTCGGAACATTAGCGGCGCTTTCTGT
* *
46103494 AAAACGCCGCTAAAAGTCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCGGAGCA
1 AAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCGGAGCA
*
46103559 TTAACGTCGCTTTCGATAAAACGCCGCTAAAAGTC
65 TTAACGGCGCTTTCGATAAAACGCCGCTAAAAGTC
46103594 ATATTACTCC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 15 0.16
123 79 0.84
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (122 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCGGAGCAT
TAACGGCGCTTTCGATAAAACGCCGCTAAAAGTCGGAACATTAGCGGCGCTTTCTGT
Found at i:46109115 original size:12 final size:12
Alignment explanation
Indices: 46109086--46109115 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46109076 AAAAATTTAC
*
46109086 TTAAACAATATT
1 TTAAATAATATT
46109098 TTAAATAATATT
1 TTAAATAATATT
46109110 TTAAAT
1 TTAAAT
46109116 TAAACTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAATAATATT
Found at i:46112319 original size:33 final size:33
Alignment explanation
Indices: 46112277--46112343 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
46112267 GCGGCCTGTG
46112277 AGTTCACTTACATCTCTGGTTACAAATTACCAT
1 AGTTCACTTACATCTCTGGTTACAAATTACCAT
46112310 AGTTCACTTACATCTCTGGTTACAAATTACCAT
1 AGTTCACTTACATCTCTGGTTACAAATTACCAT
46112343 A
1 A
46112344 CTTTCATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (33 bp):
AGTTCACTTACATCTCTGGTTACAAATTACCAT
Found at i:46114179 original size:9 final size:9
Alignment explanation
Indices: 46114145--46114185 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
46114135 TATTTAAACG
*
46114145 ATTAATTGA
1 ATTAATTAA
46114154 ATTGAATTAA
1 ATT-AATTAA
46114164 TATTAATTAA
1 -ATTAATTAA
46114174 ATTAATTAA
1 ATTAATTAA
46114183 ATT
1 ATT
46114186 TTTTAATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.52
10 11 0.38
11 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (9 bp):
ATTAATTAA
Found at i:46121724 original size:8 final size:8
Alignment explanation
Indices: 46121713--46121739 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46121703 TTTATTCATT
46121713 TTTATATA
1 TTTATATA
46121721 TTTATATA
1 TTTATATA
46121729 TTTATATA
1 TTTATATA
46121737 TTT
1 TTT
46121740 CTTTAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATA
Found at i:46124089 original size:6 final size:6
Alignment explanation
Indices: 46124080--46124118 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
46124070 AAAGGAAGAC
46124080 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAG
1 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAG
46124119 ACGGTTTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:46131897 original size:32 final size:32
Alignment explanation
Indices: 46131855--46131916 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
46131845 CCGGTTATGC
* *
46131855 TTTTTGAAATAGATAA-ATATAGATAATTTTAG
1 TTTTTGAAATA-AAAATATATAAATAATTTTAG
*
46131887 TTTTTTAAATAAAAATATATAAATAATTTT
1 TTTTTGAAATAAAAATATATAAATAATTTT
46131917 TTGTAAGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (32 bp):
TTTTTGAAATAAAAATATATAAATAATTTTAG
Found at i:46138404 original size:3 final size:3
Alignment explanation
Indices: 46138396--46138425 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46138386 GCATAGGAAT
*
46138396 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46138426 ACCTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:46143663 original size:25 final size:24
Alignment explanation
Indices: 46143622--46143686 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
46143612 CACTTTTTAA
* *
46143622 TTTTATAAAAAAATTATTTAATAAT
1 TTTTAT-AAAAATTTATATAATAAT
*
46143647 TTGTTATAAAAATTTATATAATTAT
1 TT-TTATAAAAATTTATATAATAAT
*
46143672 TTTTACCAAAAATTT
1 TTTTA-TAAAAATTT
46143687 CTTGAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 27 0.79
26 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTATAAAAATTTATATAATAAT
Found at i:46143852 original size:19 final size:19
Alignment explanation
Indices: 46143824--46143875 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
46143814 TTAGGTGAGT
46143824 AAAA-TTTGATTTAATTTA
1 AAAATTTTGATTTAATTTA
** *
46143842 AAAATTTTGATAAAATTTT
1 AAAATTTTGATTTAATTTA
* *
46143861 TAAATTTTGAATTAA
1 AAAATTTTGATTTAA
46143876 ATAGTTTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (19 bp):
AAAATTTTGATTTAATTTA
Found at i:46143883 original size:21 final size:19
Alignment explanation
Indices: 46143843--46143887 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
46143833 TTTAATTTAA
*
46143843 AAATTTTGATAAAATTTTT
1 AAATTTTGATAAAATGTTT
*
46143862 AAATTTTGAATTAAATAGTTT
1 AAATTTTG-ATAAAAT-GTTT
46143883 AAATT
1 AAATT
46143888 ATTTGAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
AAATTTTGATAAAATGTTT
Found at i:46146024 original size:23 final size:22
Alignment explanation
Indices: 46145985--46146027 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46145975 GACATTCGAG
46145985 TTTTTGAAAATTCTAAATTTAA
1 TTTTTGAAAATTCTAAATTTAA
* *
46146007 TTTTTTAAAATTTTTAAATTT
1 TTTTTGAAAA-TTCTAAATTT
46146028 TAAAATTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTGAAAATTCTAAATTTAA
Found at i:46147177 original size:106 final size:106
Alignment explanation
Indices: 46147066--46147489 Score: 778
Period size: 106 Copynumber: 4.0 Consensus size: 106
46147056 CAACTCTTAA
* * * ** * *
46147066 ATTTTTTTTAATTTAACCCTTAATTATAAGTATTAATTAATTTACCGATATTTATCAGACCAAGC
1 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
46147131 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
66 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
46147172 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
1 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
46147237 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
66 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
46147278 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
1 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
46147343 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
66 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
46147384 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
1 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
46147449 GAAAACGTATATAATAATTTCAAGTACAA-TTTTTTATTTT
66 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
46147489 A
1 A
46147490 AATCTTATAA
Statistics
Matches: 311, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
105 12 0.04
106 299 0.96
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (106 bp):
ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
Found at i:46148820 original size:16 final size:17
Alignment explanation
Indices: 46148799--46148844 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
46148789 TATTATCTAA
46148799 GAAAAATATAAAAAT-T
1 GAAAAATATAAAAATGT
*
46148815 GAAAAATTATGAAAATGT
1 GAAAAA-TATAAAAATGT
*
46148833 G-AGAATATAAAA
1 GAAAAATATAAAA
46148845 GTAACATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 12 0.48
17 11 0.44
18 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (17 bp):
GAAAAATATAAAAATGT
Found at i:46151238 original size:80 final size:79
Alignment explanation
Indices: 46151105--46151273 Score: 302
Period size: 80 Copynumber: 2.1 Consensus size: 79
46151095 TTAAATTATA
*
46151105 AATTATAATAATTATTATTATATTATGAAATAAGTTAAATAAAGACAAATGTATGGTAATGATTT
1 AATTATAATAATAATTATTATATTATGAAATAAGTTAAATAAAGACAAATGTATGGTAATGATTT
*
46151170 AATACAAGTGCTGTT
66 AATACAAGTG-TATT
46151185 AATTATAATAATAATTATTATATTATGAAATAAGTTAAATAAAGACAAATGTATGGTAATGATTT
1 AATTATAATAATAATTATTATATTATGAAATAAGTTAAATAAAGACAAATGTATGGTAATGATTT
46151250 AATACAAGTGTATT
66 AATACAAGTGTATT
*
46151264 AATTAAAATA
1 AATTATAATA
46151274 CATACAATTG
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 12 0.14
80 74 0.86
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (79 bp):
AATTATAATAATAATTATTATATTATGAAATAAGTTAAATAAAGACAAATGTATGGTAATGATTT
AATACAAGTGTATT
Found at i:46153425 original size:69 final size:70
Alignment explanation
Indices: 46153314--46153454 Score: 230
Period size: 69 Copynumber: 2.0 Consensus size: 70
46153304 AATAGGTATT
* * *
46153314 TAGAGTCTCGGTTCGGCATCTAGGCGATCCTGACTCTAGCGC-AAACTCGGTGATGTATTCTTCT
1 TAGAGTCTCGGTTCGGCATCCAGGCGATCCCGACTCTAGCGCAAAACTCGGTAATGTATTCTTCT
46153378 TTTGG
66 TTTGG
* *
46153383 TAGAGTCTCGGTTCTGCATCCAGGCGATCCCGACTCTAGCGCAAAACTCGGTAATGTATTTTTCT
1 TAGAGTCTCGGTTCGGCATCCAGGCGATCCCGACTCTAGCGCAAAACTCGGTAATGTATTCTTCT
46153448 TTTGG
66 TTTGG
46153453 TA
1 TA
46153455 AAAGTGACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 39 0.59
70 27 0.41
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (70 bp):
TAGAGTCTCGGTTCGGCATCCAGGCGATCCCGACTCTAGCGCAAAACTCGGTAATGTATTCTTCT
TTTGG
Found at i:46153990 original size:21 final size:21
Alignment explanation
Indices: 46153966--46154034 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
46153956 GGGTGTTACA
46153966 CGTTCAACCCTAATGGGTTTC
1 CGTTCAACCCTAATGGGTTTC
* * * *
46153987 CGTTCAACTC-ATTTGAGCTTC
1 CGTTCAACCCTA-ATGGGTTTC
* * *
46154008 AGTTTAACCCTTATGGGTTTC
1 CGTTCAACCCTAATGGGTTTC
46154029 CGTTCA
1 CGTTCA
46154035 GCTCTTATGA
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
CGTTCAACCCTAATGGGTTTC
Found at i:46154061 original size:42 final size:42
Alignment explanation
Indices: 46153966--46154085 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
46153956 GGGTGTTACA
* * *
46153966 CGTTCAACCCTAATGGGTTTCCGTTCAACTCATT-TGAGCTTC
1 CGTTTAACCCTTATGGGTTTCCGTTCAGCTC-TTATGAGCTTC
*
46154008 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
1 CGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
* * *
46154050 CGTTTAACCCTT-TCGGGTTTCTGTTTAGCACTTATG
1 CGTTTAACCCTTAT-GGGTTTCCGTTCAGCTCTTATG
46154086 GCCTTTTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.04
42 65 0.96
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (42 bp):
CGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
Found at i:46155101 original size:12 final size:12
Alignment explanation
Indices: 46155084--46155109 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46155074 TATTTGTTGC
46155084 TTGTTTTAATAT
1 TTGTTTTAATAT
46155096 TTGTTTTAATAT
1 TTGTTTTAATAT
46155108 TT
1 TT
46155110 TTAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:46155122 original size:24 final size:25
Alignment explanation
Indices: 46155093--46155153 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
46155083 CTTGTTTTAA
*
46155093 TATTTGTTTTAATAT-TTTTAAATG
1 TATTTGATTTAATATATTTTAAATG
*
46155117 TATTTGATTTATTATATTTTAAAT-
1 TATTTGATTTAATATATTTTAAATG
* *
46155141 TTTTTTATTTAAT
1 TATTTGATTTAAT
46155154 GAAATAAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (25 bp):
TATTTGATTTAATATATTTTAAATG
Found at i:46161278 original size:98 final size:98
Alignment explanation
Indices: 46161158--46162195 Score: 1986
Period size: 98 Copynumber: 10.6 Consensus size: 98
46161148 AGTACTTCTA
* **
46161158 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161223 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161256 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161321 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161354 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161419 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161452 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161517 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161550 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161615 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161648 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161713 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161746 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161811 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161844 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46161909 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
46161942 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
46162007 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
*
46162040 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
* *
46162105 GTGATAAGTGATAGCTTCGGCTATACTTATCTA
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
* ** *
46162138 ATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46162196 AGTGATAAGT
Statistics
Matches: 930, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 930 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
GTGATAAGTAATAGCTTCGGCTATACTTATCTG
Found at i:46162196 original size:46 final size:44
Alignment explanation
Indices: 46162102--46162317 Score: 190
Period size: 37 Copynumber: 5.3 Consensus size: 44
46162092 TGACAAGTGA
* *
46162102 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTAATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
46162148 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
46162194 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
46162231 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
46162268 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
46162304 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
46162318 CATACGTAAG
Statistics
Matches: 159, Mismatches: 6, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 50 0.31
47 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:46162214 original size:37 final size:37
Alignment explanation
Indices: 46162170--46162315 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
46162160 GATAGCTTTA
*
46162170 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46162207 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
46162244 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
46162281 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46162316 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:46177705 original size:3 final size:3
Alignment explanation
Indices: 46177697--46177725 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46177687 TACCAAATCT
46177697 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
46177726 TTGAGTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:46186094 original size:72 final size:75
Alignment explanation
Indices: 46185989--46186128 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 75
46185979 TTCAAGAAAT
* * *
46185989 TAAATTAAAATATTTTAATTAATTCAATCAATT-AATTAAAATT-TATAT-ATTTTTATTTTTAA
1 TAAATTAAAATATTTTAATTAATTCAATCAATTAAATTAAAATTACATATAATTTATATTATTAA
46186051 TTAAAACAAA
66 TTAAAACAAA
* *
46186061 TAAATTAATAATA-TTTATTTAA-TCAAATTAATTAAATTAAAATTACATATAATTTATATTATT
1 TAAATTAA-AATATTTTAATTAATTC-AATCAATTAAATTAAAATTACATATAATTTATATTATT
46186124 AATTA
64 AATTA
46186129 TTAAATTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
71 2 0.03
72 23 0.40
73 14 0.24
74 4 0.07
75 15 0.26
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (75 bp):
TAAATTAAAATATTTTAATTAATTCAATCAATTAAATTAAAATTACATATAATTTATATTATTAA
TTAAAACAAA
Found at i:46186097 original size:9 final size:9
Alignment explanation
Indices: 46186079--46186187 Score: 50
Period size: 9 Copynumber: 12.0 Consensus size: 9
46186069 TAATATTTAT
*
46186079 TTAATCAAA
1 TTAATTAAA
46186088 TTAATTAAA
1 TTAATTAAA
*
46186097 TTAAAATTACA
1 TT--AATTAAA
*
46186108 TATAATTTATA
1 T-TAA-TTAAA
46186119 TT-ATT-AA
1 TTAATTAAA
46186126 TT-ATTAAA
1 TTAATTAAA
*
46186134 TTTAATTAAT
1 -TTAATTAAA
46186144 TTAATT-AA
1 TTAATTAAA
* *
46186152 TTATTTAATT
1 TTAATTAA-A
*
46186162 TTAAACTAAA
1 TT-AATTAAA
46186172 TTAATT-AA
1 TTAATTAAA
46186180 -TAATTAAA
1 TTAATTAAA
46186188 ATCTTAAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
7 11 0.14
8 14 0.18
9 23 0.30
10 12 0.16
11 16 0.21
12 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAATTAAA
Found at i:46186139 original size:26 final size:26
Alignment explanation
Indices: 46186086--46186187 Score: 82
Period size: 26 Copynumber: 3.9 Consensus size: 26
46186076 TATTTAATCA
* * * *
46186086 AATTAATTAAATTAA-AATTACATAT
1 AATTAATTTAATTAATTATTAAATTT
*
46186111 AATTTATATT-ATTAATTATTAAATTT
1 AATTAAT-TTAATTAATTATTAAATTT
*
46186137 AATTAATTTAATTAATTATTTAATTTT
1 AATTAATTTAATTAATTA-TTAAATTT
* * *
46186164 AAACTAAATTAATTAATAATTAAA
1 -AATTAATTTAATTAATTATTAAA
46186188 ATCTTAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
25 13 0.21
26 22 0.36
27 11 0.18
28 15 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATTAATTTAATTAATTATTAAATTT
Found at i:46186166 original size:33 final size:31
Alignment explanation
Indices: 46186110--46186185 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 31
46186100 AAATTACATA
* * *
46186110 TAATTTAT-ATTATTAATTATTAAATTTAAT
1 TAATTAATAATTATTAATTATTAAACTAAAT
46186140 TAATTTAATTAATTATTTAATT-TTAAACTAAAT
1 TAA-TTAA-TAATTA-TTAATTATTAAACTAAAT
46186173 TAATTAATAATTA
1 TAATTAATAATTA
46186186 AAATCTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 3 0.08
31 9 0.23
32 5 0.13
33 16 0.41
34 6 0.15
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
TAATTAATAATTATTAATTATTAAACTAAAT
Found at i:46190874 original size:29 final size:29
Alignment explanation
Indices: 46190818--46190874 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
46190808 CAGCAGTGAA
* * *
46190818 GTAATATTTTGGATTTATGGTTAGTGTTT
1 GTAAGATTTAGGATTTATGGTTAATGTTT
46190847 GTAAGATTTAGGATTTA-GGATTAATGTT
1 GTAAGATTTAGGATTTATGG-TTAATGTT
46190875 AATATTTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (29 bp):
GTAAGATTTAGGATTTATGGTTAATGTTT
Found at i:46200188 original size:20 final size:20
Alignment explanation
Indices: 46200165--46200202 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46200155 ACAAAAAAAT
*
46200165 TATAAATTTATAAAAGAATA
1 TATAAATATATAAAAGAATA
46200185 TATAAATATATAAAAGAA
1 TATAAATATATAAAAGAA
46200203 CTAAAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
TATAAATATATAAAAGAATA
Found at i:46200315 original size:19 final size:17
Alignment explanation
Indices: 46200291--46200341 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 17
46200281 TTAAAAAACC
46200291 TTTTTATATTTTTTATTAA
1 TTTTTATATTTTTTA--AA
46200310 TTTTTATA--TTTTAAA
1 TTTTTATATTTTTTAAA
46200325 TTTTTATATATTTTTAA
1 TTTTTATAT-TTTTTAA
46200342 TTTCAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.34
17 5 0.17
18 6 0.21
19 8 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATATTTTTTAAA
Found at i:46200334 original size:17 final size:17
Alignment explanation
Indices: 46200291--46200344 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
46200281 TTAAAAAACC
*
46200291 TTTTTATATTTTTTATTAA
1 TTTTTATATATTTTA--AA
46200310 -TTTT-TATATTTTAAA
1 TTTTTATATATTTTAAA
*
46200325 TTTTTATATATTTTTAA
1 TTTTTATATATTTTAAA
46200342 TTT
1 TTT
46200345 CAAAACAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 4 0.13
17 21 0.68
18 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATATATTTTAAA
Found at i:46203819 original size:20 final size:22
Alignment explanation
Indices: 46203790--46203836 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
46203780 ATAACATTGT
46203790 AATAAATTTAAA-T-TTAACAA
1 AATAAATTTAAAGTGTTAACAA
*
46203810 AATAATTTTAAAGTGTTAACAA
1 AATAAATTTAAAGTGTTAACAA
46203832 AATAA
1 AATAA
46203837 CAATTGCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
21 1 0.04
22 12 0.50
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (22 bp):
AATAAATTTAAAGTGTTAACAA
Found at i:46205599 original size:17 final size:18
Alignment explanation
Indices: 46205565--46205600 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46205555 TGAATTTCTC
46205565 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
46205583 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
46205600 T
1 T
46205601 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:46206241 original size:28 final size:27
Alignment explanation
Indices: 46206205--46206259 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
46206195 GTTATTTAAT
46206205 TAATAAATATCTTTTAACTTATAATAAA
1 TAATAAATATCTTTTAACTTA-AATAAA
*
46206233 TAATAAATATCTTTTTACTTAAATAAA
1 TAATAAATATCTTTTAACTTAAATAAA
46206260 AAGTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATAAATATCTTTTAACTTAAATAAA
Found at i:46206330 original size:13 final size:13
Alignment explanation
Indices: 46206314--46206338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46206304 ACACATGTAT
46206314 ATTTTATTTATTC
1 ATTTTATTTATTC
46206327 ATTTTATTTATT
1 ATTTTATTTATT
46206339 TCCTATAATA
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTTATTC
Found at i:46225118 original size:55 final size:55
Alignment explanation
Indices: 46225049--46225167 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
46225039 GTTGTGCTGG
* * * *
46225049 AATATTACTTCTTTTGGA-TCAATTGTTTTTATGTTTAAATCAATTATCATGTTAA
1 AATATTACTCCTTTT-AATTCAATTGTTTATATATTTAAATCAATTATCATGTTAA
* * * *
46225104 AATATTACTCCTTTTAATTCGATTGTTTATATATTTAAATTAGTTATTATGTTAA
1 AATATTACTCCTTTTAATTCAATTGTTTATATATTTAAATCAATTATCATGTTAA
46225159 AATATTACT
1 AATATTACT
46225168 TGCTGAAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (55 bp):
AATATTACTCCTTTTAATTCAATTGTTTATATATTTAAATCAATTATCATGTTAA
Found at i:46225582 original size:27 final size:27
Alignment explanation
Indices: 46225544--46225598 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
46225534 AAAAGAAGGA
46225544 TGGCGCTTCTTCAGCACTGAAATTCTT
1 TGGCGCTTCTTCAGCACTGAAATTCTT
46225571 TGGCGCTTCTTCAGCACTGAAATTCTT
1 TGGCGCTTCTTCAGCACTGAAATTCTT
46225598 T
1 T
46225599 CTTATCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (27 bp):
TGGCGCTTCTTCAGCACTGAAATTCTT
Found at i:46228435 original size:14 final size:16
Alignment explanation
Indices: 46228403--46228438 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46228393 ATTTACTAAG
46228403 ATTTAATTATATATTT
1 ATTTAATTATATATTT
46228419 ATTTAATTAT-T-TTT
1 ATTTAATTATATATTT
46228433 ATTTAA
1 ATTTAA
46228439 GAATTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTAATTATATATTT
Found at i:46229513 original size:21 final size:21
Alignment explanation
Indices: 46229488--46229530 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
46229478 CTTTACATAG
46229488 TATAGGATTAGAATCCTTGTA
1 TATAGGATTAGAATCCTTGTA
46229509 TATAGGATTAGAATCCTTGTA
1 TATAGGATTAGAATCCTTGTA
46229530 T
1 T
46229531 GAAGGGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
TATAGGATTAGAATCCTTGTA
Found at i:46230108 original size:66 final size:67
Alignment explanation
Indices: 46230004--46230137 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 67
46229994 TGCCAAAACT
* * *
46230004 ATTGCATCTCCCCCCCCCCCCAAAACTACCACCACCACCCCCCCCCCCCTTTTTTTGTTTATGAT
1 ATTGCATCTCCCCCCCCCCCCAAAACTACCACCACCACCACACCCACCCTTTTTTTGTTTATGAT
46230069 GC
66 GC
46230071 ATTGCATCT-CCCCCCCCCCCAAAACTACCACCACCACCACACCCACCCTTTTTTTGTTTATGAT
1 ATTGCATCTCCCCCCCCCCCCAAAACTACCACCACCACCACACCCACCCTTTTTTTGTTTATGAT
46230135 GC
66 GC
46230137 A
1 A
46230138 AAATATTACT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 55 0.86
67 9 0.14
ACGTcount: A:0.21, C:0.48, G:0.06, T:0.25
Consensus pattern (67 bp):
ATTGCATCTCCCCCCCCCCCCAAAACTACCACCACCACCACACCCACCCTTTTTTTGTTTATGAT
GC
Found at i:46239619 original size:31 final size:29
Alignment explanation
Indices: 46239547--46239620 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
46239537 ACAACACCAT
* **
46239547 AACATAAGTGACTAAAATGTAATATTTCA
1 AACATAAATGACTAAAATGTAATAAGTCA
*
46239576 AACATAACTGACTAAAATGTAATCTAAGTCA
1 AACATAAATGACTAAAATGTAA--TAAGTCA
46239607 AACA-ACAATGACTA
1 AACATA-AATGACTA
46239621 TTTTAACAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (29 bp):
AACATAAATGACTAAAATGTAATAAGTCA
Found at i:46248030 original size:19 final size:21
Alignment explanation
Indices: 46248006--46248045 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
46247996 AACAACAAAA
*
46248006 ATAAAATAATA-GAA-AATTT
1 ATAAAAAAATATGAATAATTT
46248025 ATAAAAAAATATGAATAATTT
1 ATAAAAAAATATGAATAATTT
46248046 TATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAAAAAAATATGAATAATTT
Found at i:46253658 original size:16 final size:16
Alignment explanation
Indices: 46253618--46253662 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
46253608 CATATTTAAT
*
46253618 AAAAAT-TTTAATGGA
1 AAAAATATTTAAAGGA
46253633 AATGAAATATTTAAAGGA
1 AA--AAATATTTAAAGGA
46253651 AAAAATATTTAA
1 AAAAATATTTAA
46253663 GTTGATGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 4 0.15
18 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (16 bp):
AAAAATATTTAAAGGA
Found at i:46263452 original size:6 final size:6
Alignment explanation
Indices: 46263441--46263478 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
46263431 CGACGCGAGC
46263441 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GA
1 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GA
46263479 CACATAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (6 bp):
GAGAGT
Found at i:46276268 original size:23 final size:24
Alignment explanation
Indices: 46276242--46276303 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
46276232 TTCAATTATA
46276242 TTAAGTATATATTATTT-AATTTT
1 TTAAGTATATATTATTTAAATTTT
46276265 TTAA-TA-A-ATTATTTAAAAATTTT
1 TTAAGTATATATTATTT--AAATTTT
*
46276288 TAAAGTGATATATTAT
1 TTAAGT-ATATATTAT
46276304 ACAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
22 2 0.06
23 13 0.42
24 1 0.03
25 1 0.03
26 1 0.03
27 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (24 bp):
TTAAGTATATATTATTTAAATTTT
Found at i:46276446 original size:40 final size:40
Alignment explanation
Indices: 46276401--46276527 Score: 95
Period size: 40 Copynumber: 3.1 Consensus size: 40
46276391 GTCAACAATT
46276401 TAAAGTTGATATCTACGGTACCATTTTGACTTTTTTTAAA
1 TAAAGTTGATATCTACGGTACCATTTTGACTTTTTTTAAA
* * * * **
46276441 TAAAGTTTGAGA--TA-GCATA--ATTTCATGAC-GTGTCAACAA
1 TAAAG-TTGATATCTACG-GTACCATTT--TGACTTTTTTTA-AA
46276480 TTTAAAGTTGATATCTACGGTACCATTTTGACTTTTTTTAAA
1 --TAAAGTTGATATCTACGGTACCATTTTGACTTTTTTTAAA
46276522 TAAAGT
1 TAAAGT
46276528 GATTAATTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 26
0.62 0.12 0.26
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 10 0.16
40 16 0.26
41 10 0.16
42 10 0.16
43 4 0.06
44 4 0.06
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (40 bp):
TAAAGTTGATATCTACGGTACCATTTTGACTTTTTTTAAA
Found at i:46276468 original size:81 final size:81
Alignment explanation
Indices: 46276366--46276527 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
46276356 GTTAAATCGA
46276366 TTGAGATAGCATAATTGCATGACGTGTCAACAATTTAAAGTTGATATCTACGGTACCATTTTGAC
1 TTGAGATAGCATAATTGCATGACGTGTCAACAATTTAAAGTTGATATCTACGGTACCATTTTGAC
46276431 TTTTTTTAAATAAAGT
66 TTTTTTTAAATAAAGT
*
46276447 TTGAGATAGCATAATTTCATGACGTGTCAACAATTTAAAGTTGATATCTACGGTACCATTTTGAC
1 TTGAGATAGCATAATTGCATGACGTGTCAACAATTTAAAGTTGATATCTACGGTACCATTTTGAC
46276512 TTTTTTTAAATAAAGT
66 TTTTTTTAAATAAAGT
46276528 GATTAATTTA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (81 bp):
TTGAGATAGCATAATTGCATGACGTGTCAACAATTTAAAGTTGATATCTACGGTACCATTTTGAC
TTTTTTTAAATAAAGT
Found at i:46280864 original size:16 final size:16
Alignment explanation
Indices: 46280843--46280878 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46280833 TATTGAATTA
*
46280843 TCAAGATAATTCAAAT
1 TCAAGAGAATTCAAAT
*
46280859 TCAAGAGAATTTAAAT
1 TCAAGAGAATTCAAAT
46280875 TCAA
1 TCAA
46280879 ACGGTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (16 bp):
TCAAGAGAATTCAAAT
Found at i:46285697 original size:18 final size:18
Alignment explanation
Indices: 46285674--46285766 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
46285664 CCCAACTACT
*
46285674 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
46285692 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
46285710 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
46285728 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
46285746 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
46285764 GTA
1 GTA
46285767 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:46285726 original size:36 final size:36
Alignment explanation
Indices: 46285674--46285766 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
46285664 CCCAACTACT
* *
46285674 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
46285710 GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
46285746 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
46285767 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:46290407 original size:18 final size:18
Alignment explanation
Indices: 46290384--46290440 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
46290374 CCCAACTACT
*
46290384 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
46290402 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
46290420 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
46290438 GTA
1 GTA
46290441 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:46293525 original size:38 final size:39
Alignment explanation
Indices: 46293473--46293553 Score: 155
Period size: 38 Copynumber: 2.1 Consensus size: 39
46293463 AAATAATCTA
46293473 AACTAATCAGTGTTTGATTGAAACAAGTAAACAGAGTTT
1 AACTAATCAGTGTTTGATTGAAACAAGTAAACAGAGTTT
46293512 AACT-ATCAGTGTTTGATTGAAACAAGTAAACAGAGTTT
1 AACTAATCAGTGTTTGATTGAAACAAGTAAACAGAGTTT
46293550 AACT
1 AACT
46293554 GAAAGACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 38 0.90
39 4 0.10
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (39 bp):
AACTAATCAGTGTTTGATTGAAACAAGTAAACAGAGTTT
Found at i:46298382 original size:24 final size:24
Alignment explanation
Indices: 46298337--46298459 Score: 81
Period size: 24 Copynumber: 4.8 Consensus size: 24
46298327 TGTGTACGAA
* *
46298337 ACTAATATGCATGGTTGAATGGTC
1 ACTAATATGCATGGATGGATGGTC
46298361 ACTAATATGCATGGATGGATGGAAGGATGGTC
1 ACTAATATGC----ATGGAT----GGATGGTC
*
46298393 ACTAATATGCATCGATGGATGG--
1 ACTAATATGCATGGATGGATGGTC
* *
46298415 A-TGGATGGATGGATGGATGGATGGTC
1 ACT-AAT--ATGCATGGATGGATGGTC
46298441 ACTAATATGCATGGATGGA
1 ACTAATATGCATGGATGGA
46298460 CACTAAGCGA
Statistics
Matches: 77, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
21 1 0.01
22 3 0.04
24 42 0.55
26 3 0.04
27 1 0.01
28 10 0.13
32 17 0.22
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.28
Consensus pattern (24 bp):
ACTAATATGCATGGATGGATGGTC
Found at i:46298391 original size:32 final size:32
Alignment explanation
Indices: 46298355--46298422 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
46298345 GCATGGTTGA
*
46298355 ATGGTCACTAATATGCATGGATGGATGGAAGG
1 ATGGTCACTAATATGCATCGATGGATGGAAGG
*
46298387 ATGGTCACTAATATGCATCGATGGATGGATGG
1 ATGGTCACTAATATGCATCGATGGATGGAAGG
46298419 ATGG
1 ATGG
46298423 ATGGATGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.26
Consensus pattern (32 bp):
ATGGTCACTAATATGCATCGATGGATGGAAGG
Found at i:46298415 original size:4 final size:4
Alignment explanation
Indices: 46298406--46298438 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
46298396 AATATGCATC
46298406 GATG GATG GATG GATG GATG GATG GATG GATG G
1 GATG GATG GATG GATG GATG GATG GATG GATG G
46298439 TCACTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (4 bp):
GATG
Found at i:46305078 original size:47 final size:47
Alignment explanation
Indices: 46305009--46305161 Score: 182
Period size: 47 Copynumber: 3.2 Consensus size: 47
46304999 TTTGGAGAAA
* *
46305009 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
46305056 TGTGATATGTGCTACTGTATAAGACCATATCTAGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * ** * *
46305103 TGTGATATGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
46305149 TATGTGATATGTG
1 --TGTGATATGTG
46305162 ACTATGTGCA
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
46 25 0.28
47 54 0.60
48 11 0.12
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:46307910 original size:21 final size:21
Alignment explanation
Indices: 46307885--46307939 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
46307875 AACAGTGGAG
46307885 ATAGGAAAAACAGGTTCCAAA
1 ATAGGAAAAACAGGTTCCAAA
46307906 ATAGGAAAAACAGGTTCCAAA
1 ATAGGAAAAACAGGTTCCAAA
* *
46307927 ACAGGAATAACAG
1 ATAGGAAAAACAG
46307940 TGGCTGTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.15, G:0.20, T:0.13
Consensus pattern (21 bp):
ATAGGAAAAACAGGTTCCAAA
Found at i:46317599 original size:628 final size:625
Alignment explanation
Indices: 46316061--46319152 Score: 5248
Period size: 626 Copynumber: 4.9 Consensus size: 625
46316051 TTCTTGGTCT
* * * *
46316061 CTTCTTCCAAGTTATTCCTCT-TGTTTTGCACCGTTACCTCCATATTTGTGATGTCTCTTAGCCC
1 CTTC-TCCAAGTTATTCCT-TATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTC
* * * *
46316125 GAGCCTCTCTGGGTTACTTTC--T-TTATGGTCAGCTTCTGCTAGAGAGTTTGAAAGGATGTTCT
64 GAGCCTCTCTGGTTTACTTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCT
* * *
46316187 CAAAATATGCATGCCTAAATAAAAAAATTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGT
129 GAAAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGT
* * * *
46316252 GAGCACATTAGCCTTGCGTCCATAAATGTTGTATACCTTTGGACAAGAGAGGTGTTCTCATGTGA
194 GAGCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGA
* *
46316317 CAGCTTCAGATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCATCCGGATATTGATGTCCAA
259 CAGCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAA
*
46316382 AATCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATACTC-CAA
324 AATCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATAGTCAC-A
*
46316446 GTTTAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGTCA
388 GTTTAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCA
46316511 TTACCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAG
453 TTACCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAG
* * * *
46316576 ATCCTACACGCAGAAGAGAATCAGATTTGATCCAAAAAAATAAGCAACTTCAATTACATATATAT
518 ATCCTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAATT-TATATATAT
* *
46316641 ATATATGCCCTAATCTCTTCTTCCAATTTCTTCTTTTCACGAGC
582 ATATATGCCCTGATCTCTTCTTCCAATTTCTTCCTTTCACGAGC
*
46316685 CTTCTCCAAGTTGTTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
1 CTTCTCCAAGTTATTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
*
46316750 GCCTCTCTGGTTTACTTTCTACATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
66 GCCTCTCTGGTTTACTTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
46316815 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
131 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
* * *
46316880 GCATATTAACATTGCGTCAATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGACA
196 GCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGACA
46316945 GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
261 GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
*
46317010 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATACTTCA-AGT
326 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATA-GTCACAGT
*
46317074 TTAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGTCATT
390 TTAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCATT
*
46317139 ACCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAAAACCACAGTGACGAAAGAT
455 ACCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAGAT
* * *
46317204 CCTATACGCAGAAGAGAATCAGATTTGATCCAAAAAAATAAACAACTTCAATTACATATATATAT
520 CCTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAATT---TATATATAT
*
46317269 ATATATGCCCT-AGTCTCTTCTTCCAATTTCTTCTTTTCACGAGC
582 ATATATGCCCTGA-TCTCTTCTTCCAATTTCTTCCTTTCACGAGC
46317313 CTTCTCCAAGTTATTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
1 CTTCTCCAAGTTATTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
* *
46317378 GCCTCTCTGGTTTACGTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGGAAGGATGTTCTGA
66 GCCTCTCTGGTTTACTTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
**
46317443 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTAAAAATATCTCAGTGA
131 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
*
46317508 GCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATGTGACA
196 GCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGACA
*
46317573 GCTTCATATTCTCTTGATTCGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
261 GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
46317638 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATAGTCACAGTT
326 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATAGTCACAGTT
46317703 TAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCATTA
391 TAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCATTA
* * *
46317768 CCTGGCAGATGATGGTTTTCCAAATCATTTTTTTCCACATCAAAGAACCAAAGTGACGAAAGATC
456 CCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAGATC
46317833 CTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAA-TTATATATATATAT
521 CTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAATTTATATATATATAT
*
46317897 GTGCCCTGATCTCTTCTTCCAATTTCTTCCTTTCACGAGC
586 ATGCCCTGATCTCTTCTTCCAATTTCTTCCTTTCACGAGC
* * *
46317937 ATTCTCCAAGTTATTCCTTATGCTTTGCATCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
1 CTTCTCCAAGTTATTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
* *
46318002 GCCTATCTGGTTTACTTTCTATATAATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
66 GCCTCTCTGGTTTACTTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
46318067 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
131 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
* *
46318132 GCACATTAGCATTGCGTCTATAAATGTTGTATACCCTTGGACAGGAGAGATGTTCTCATATGACA
196 GCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGACA
46318197 GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
261 GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
* **
46318262 TCT-AAGGATATTAATGTTGACAATTGACAAGGATAAGACCATTAAGATTATTATAGTCACACCT
326 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATAGTCACAGTT
*
46318326 TAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATGATAGAATATCAACTTGCAGCCATTA
391 TAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCATTA
** * *
46318391 CCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACTGCGGTGACAAAAGATC
456 CCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAGATC
46318456 CTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAATTTTATATATATATA
521 CTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAA-TTTATATATATATA
46318521 TATGCCCTGATCTCTTCTTCCAATTTCTTCCTTTCACGAGC
585 TATGCCCTGATCTCTTCTTCCAATTTCTTCCTTTCACGAGC
* *
46318562 CTTCTCCAAGTTATTCTTTATGCTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
1 CTTCTCCAAGTTATTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
* * *
46318627 GCCTCTCTGGTTTGCTTTCTATATTATGATCAGCTTCAGTTAGAGAGTTTGTAAGGATGTTCTGA
66 GCCTCTCTGGTTTACTTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
*
46318692 AAATCTGCATGCCTAAATGAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
131 AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
* * *
46318757 GCACATTAACATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGATGTTCTCATTTGACA
196 GCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGACA
* * * * *
46318822 GCTTCATATTGTCTTGATTTGCTCTTGCCTTACTGCTGCCTTCATCCGGATATTGATGTCCAAAA
261 GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
*
46318887 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAAACCATTAAGATTATTATAGTCACAGTT
326 TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATAGTCACAGTT
** *
46318952 TAAGAATGTAGAGACCAAATTATTTCTGTAAAATGACATAATAGAATATCAACTTGCAGCCACTA
391 TAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCATTA
* *
46319017 CCTGGCAGATGATGGTTTTCCAAACCATATTTTTCCACATCAAAGAACCACAGTGACGAAAGATC
456 CCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAGATC
* * * *
46319082 CTATATGAAGAAGAGAAGCAGACTTGATCCAAAAAAATAAGCAACTTCAACTATATATATATATA
521 CTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAA-TTTATATATATATA
46319147 TATGCC
585 TATGCC
46319153 AAACCTTACC
Statistics
Matches: 2344, Mismatches: 110, Indels: 26
0.95 0.04 0.01
Matches are distributed among these distances:
622 1 0.00
623 302 0.13
624 368 0.16
625 365 0.16
626 704 0.30
627 7 0.00
628 597 0.25
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (625 bp):
CTTCTCCAAGTTATTCCTTATGTTTTGCACCCTTACCTCTATATTTGTGATGTCTTTTAGCTCGA
GCCTCTCTGGTTTACTTTCTATATTATGGTCAGCTTCAGTTAGAGAGTTTGCAAGGATGTTCTGA
AAATCTGCATGCCTAAATAAAAAACTTGTTATCAGTATGAGGGTGCTTTTGAAATATCTCAGTGA
GCACATTAGCATTGCGTCCATAAATGTTGTATACCCTTGGACAGGAGAGGTGTTCTCATATGACA
GCTTCATATTCTCTTGATTTGCTCTGGCATCACTGCTGCCTTCACCCGGATATTGATGTCCAAAA
TCTAAAGGATATTAATGTTGACAATTGACAAGTATAAGACCATTAAGATTATTATAGTCACAGTT
TAAGAATGTAGAGACCAAATTATTTCTGTAAGTTGACATAATAGAATATCAACTTGCAGCCATTA
CCTGGCAGATGACGGTTTTCCAAATCATATTTTTCCACATCAAAGAACCACAGTGACGAAAGATC
CTATATGCAGAAGAGAATCAGAATTGATCCAAAAAAATAAGCAACTTCAATTTATATATATATAT
ATGCCCTGATCTCTTCTTCCAATTTCTTCCTTTCACGAGC
Found at i:46320306 original size:13 final size:13
Alignment explanation
Indices: 46320288--46320312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46320278 ACTAAATTAA
46320288 AAAAAATAAAAAT
1 AAAAAATAAAAAT
46320301 AAAAAATAAAAA
1 AAAAAATAAAAA
46320313 AACAACTACA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:46326425 original size:38 final size:39
Alignment explanation
Indices: 46326374--46326448 Score: 125
Period size: 38 Copynumber: 1.9 Consensus size: 39
46326364 GATACTCCTC
* *
46326374 GAATTATAAGTAACAGGTGAATATTTCCT-AAATATTCT
1 GAATTATAAGTAACAGGTAAATATCTCCTAAAATATTCT
46326412 GAATTATAAGTAACAGGTAAATATCTCCTAAAATATT
1 GAATTATAAGTAACAGGTAAATATCTCCTAAAATATT
46326449 TGAGTAGGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 27 0.79
39 7 0.21
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (39 bp):
GAATTATAAGTAACAGGTAAATATCTCCTAAAATATTCT
Found at i:46327116 original size:39 final size:39
Alignment explanation
Indices: 46327073--46327152 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
46327063 GATTGTGGAT
* * *
46327073 CTTGGTTCGTCGCTTCTTATACTATCAATTATCTACATC
1 CTTGGTTCATCGCTCCTTATACTATCAACTATCTACATC
**
46327112 CTTGGTTCATCGCTCCTTATACTATTTACTATCTACATC
1 CTTGGTTCATCGCTCCTTATACTATCAACTATCTACATC
46327151 CT
1 CT
46327153 CCCCTATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.20, C:0.28, G:0.09, T:0.44
Consensus pattern (39 bp):
CTTGGTTCATCGCTCCTTATACTATCAACTATCTACATC
Found at i:46328244 original size:20 final size:20
Alignment explanation
Indices: 46328219--46328270 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
46328209 TAAATACATG
46328219 CAAATAATCACAGAAATTAA
1 CAAATAATCACAGAAATTAA
46328239 CAAATAATCACAGAAATTAA
1 CAAATAATCACAGAAATTAA
46328259 CAAATAATCACA
1 CAAATAATCACA
46328271 AAAAAAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (20 bp):
CAAATAATCACAGAAATTAA
Found at i:46328577 original size:11 final size:11
Alignment explanation
Indices: 46328561--46328602 Score: 84
Period size: 11 Copynumber: 3.8 Consensus size: 11
46328551 TTTTGTCTTA
46328561 CGCTACAGTGT
1 CGCTACAGTGT
46328572 CGCTACAGTGT
1 CGCTACAGTGT
46328583 CGCTACAGTGT
1 CGCTACAGTGT
46328594 CGCTACAGT
1 CGCTACAGT
46328603 ATCTAATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (11 bp):
CGCTACAGTGT
Found at i:46337015 original size:24 final size:24
Alignment explanation
Indices: 46336983--46337032 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46336973 TTGGGAAACT
46336983 ATGATGCCAGAGAAAATCAAGACA
1 ATGATGCCAGAGAAAATCAAGACA
46337007 ATGATGCCAGAGAAAATCAAGACA
1 ATGATGCCAGAGAAAATCAAGACA
46337031 AT
1 AT
46337033 ATGAAGCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.20, T:0.14
Consensus pattern (24 bp):
ATGATGCCAGAGAAAATCAAGACA
Found at i:46337410 original size:42 final size:42
Alignment explanation
Indices: 46337364--46337497 Score: 180
Period size: 42 Copynumber: 3.2 Consensus size: 42
46337354 AGGAAAGACG
* *
46337364 AACTGAAGGTGGAGAAGGGAGAAGCTGATTTAAAAGAAAACA
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
*
46337406 AACTGAAGGTGGAGAAGGGCGAAGCTGAGTTAAAAGAAAACC
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
* * * *
46337448 AAGTGAAGCTGGAGAA-GGACAAAGCTGAGTTAGAAGAAAACC
1 AACTGAAGGTGGAGAAGGGA-GAAGCTGAGTTAAAAGAAAACC
*
46337490 TACTGAAG
1 AACTGAAG
46337498 CTGAAAACGA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 2 0.02
42 79 0.98
ACGTcount: A:0.45, C:0.10, G:0.31, T:0.13
Consensus pattern (42 bp):
AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
Found at i:46337686 original size:76 final size:78
Alignment explanation
Indices: 46337554--46337718 Score: 244
Period size: 76 Copynumber: 2.1 Consensus size: 78
46337544 TGAAATACAT
* *
46337554 TCTCAATGGTTTATTGAGGATGTTGCTGAACTGAAGATACAAACAGTATGTGTTTAT-GTGATGG
1 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTATTTATCGTGATGG
46337618 TTTTGTGTTTGAA
66 TTTTGTGTTTGAA
* * * *
46337631 TCTCAATGGTTTATTG-GGATGTTTATGAGCTGAAGATACAGACAGTTTGTATTTATGCGTGATG
1 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTATTTAT-CGTGATG
46337695 GTTTTGTGTTTGAA
65 GTTTTGTGTTTGAA
*
46337709 TCTCGATGGT
1 TCTCAATGGT
46337719 CTAAGTGATA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
76 34 0.43
77 16 0.20
78 29 0.37
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (78 bp):
TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTATTTATCGTGATGG
TTTTGTGTTTGAA
Found at i:46342925 original size:47 final size:47
Alignment explanation
Indices: 46342856--46342949 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
46342846 ATTTCATTAG
46342856 GCACTTAAACGGCATGAGTGGTTACAACAAATATTCGAAATCAAATT
1 GCACTTAAACGGCATGAGTGGTTACAACAAATATTCGAAATCAAATT
46342903 GCACTTAAACGGCATGAGTGGTTACAACAAATATTCGAAATCAAATT
1 GCACTTAAACGGCATGAGTGGTTACAACAAATATTCGAAATCAAATT
46342950 ATTATTGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (47 bp):
GCACTTAAACGGCATGAGTGGTTACAACAAATATTCGAAATCAAATT
Found at i:46344747 original size:42 final size:42
Alignment explanation
Indices: 46344698--46344831 Score: 180
Period size: 42 Copynumber: 3.2 Consensus size: 42
46344688 AGGAAAGACG
* *
46344698 AACTGAAGGTGGAGAAGGGAGAAGCTGATTTAAAAGAAAACA
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
* *
46344740 AACTGAAGGTGGAGCAGGGCGAAGCTGAGTTAAAAGAAAACC
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
* * *
46344782 AACTGAAGCTGGAGAA-GGACAAAGCTGAGTTAGAAGAAAACC
1 AACTGAAGGTGGAGAAGGGA-GAAGCTGAGTTAAAAGAAAACC
*
46344824 TACTGAAG
1 AACTGAAG
46344832 CTACAAACGT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 2 0.02
42 79 0.98
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.13
Consensus pattern (42 bp):
AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
Found at i:46345020 original size:76 final size:78
Alignment explanation
Indices: 46344888--46345052 Score: 253
Period size: 76 Copynumber: 2.1 Consensus size: 78
46344878 TGAAATACAT
*
46344888 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTGTTTA-TGTGATGG
1 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTATTTAGTGTGATGG
46344952 TTTTGTGTTTGAA
66 TTTTGTGTTTGAA
* * * *
46344965 TCTCAATGGTTTATTG-GGATGTTTATGAGCTGAAGATACAGACAGTTTGTATTTATGTGTGATG
1 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTATTTA-GTGTGATG
46345029 GTTTTGTGTTTGAA
65 GTTTTGTGTTTGAA
*
46345043 TCTCGATGGT
1 TCTCAATGGT
46345053 GTAAGTGAGA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
76 34 0.43
77 16 0.20
78 30 0.38
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (78 bp):
TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTATTTAGTGTGATGG
TTTTGTGTTTGAA
Found at i:46345877 original size:21 final size:23
Alignment explanation
Indices: 46345851--46345910 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
46345841 ATTTTAAAAA
*
46345851 TTGTTTTAGTA-TTATTTTTAT-
1 TTGTTTTAATATTTATTTTTATG
*
46345872 TTGTTTTAATATTTGTTTTTATG
1 TTGTTTTAATATTTATTTTTATG
*
46345895 TT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
46345911 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.48
22 15 0.45
23 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTGTTTTAATATTTATTTTTATG
Found at i:46352032 original size:20 final size:22
Alignment explanation
Indices: 46352002--46352046 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
46351992 AATTTCCTAA
*
46352002 TATATTATATTATGTTATTT-T
1 TATATTATATTATGTAATTTAT
46352023 TATA-TATATTATGTAATTTAT
1 TATATTATATTATGTAATTTAT
46352044 TAT
1 TAT
46352047 GAAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TATATTATATTATGTAATTTAT
Found at i:46352744 original size:26 final size:24
Alignment explanation
Indices: 46352690--46352771 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 24
46352680 AAAATTCATA
* *
46352690 TAAAA-AATAAATAAAGTTTTAGT
1 TAAAATAATAAATAAAATTTTACT
*
46352713 TGAAATAATAAAATAAAATATTTACT
1 TAAAATAAT-AAATAAAAT-TTTACT
* * *
46352739 TAAAATATTATA-AAAATTATTATT
1 TAAAATAATAAATAAAATT-TTACT
*
46352763 TAATATAAT
1 TAAAATAAT
46352772 TAAAATTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
23 5 0.11
24 19 0.41
25 10 0.22
26 12 0.26
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (24 bp):
TAAAATAATAAATAAAATTTTACT
Found at i:46353797 original size:42 final size:42
Alignment explanation
Indices: 46353717--46353798 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
46353707 AGAATGGAGG
* *
46353717 ATTTAATTTAGAGAGTTTTGAAGAAGAAGAATGGATTTGGAT
1 ATTTAATTTAGAGAGTTTTGAAGAAAAAGAATGAATTTGGAT
* **
46353759 ATTTAATTTA-AGGGTTTTTGAAGAAAAATCATGAATTTGG
1 ATTTAATTTAGAGAG-TTTTGAAGAAAAAGAATGAATTTGG
46353799 GAGTTTGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.09
42 31 0.91
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (42 bp):
ATTTAATTTAGAGAGTTTTGAAGAAAAAGAATGAATTTGGAT
Found at i:46354526 original size:49 final size:49
Alignment explanation
Indices: 46354469--46354566 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
46354459 CGACTTGCCA
* * * *
46354469 ATGACCCTTTGTGGGAGATAGCCTGCAAACGACCCTCCGTTAGGTATCT
1 ATGACCCTTTGTGGGAGACAACATGCAAACAACCCTCCGTTAGGTATCT
* *
46354518 ATGACCCTTTGTGGGGGACAACATGCAAGCAACCCTCCGTTAGGTATCT
1 ATGACCCTTTGTGGGAGACAACATGCAAACAACCCTCCGTTAGGTATCT
46354567 TTTGCAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (49 bp):
ATGACCCTTTGTGGGAGACAACATGCAAACAACCCTCCGTTAGGTATCT
Found at i:46369296 original size:33 final size:33
Alignment explanation
Indices: 46369254--46369410 Score: 296
Period size: 33 Copynumber: 4.8 Consensus size: 33
46369244 TTTCTTCTTG
*
46369254 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
46369287 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
46369320 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
46369353 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
46369386 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
46369411 TGAAACAGAG
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 121 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:46379740 original size:65 final size:65
Alignment explanation
Indices: 46379644--46379769 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 65
46379634 TAAATTTACC
* * *
46379644 ATTATTATATAAATTACCCAAATAAGTATAATACAAAGAGACTAATTTACTTAATTTCTAAATCT
1 ATTATTATATAAATCACCAAAATAAGTATAATACAAAGAGACTAATTTACTCAATTTCTAAATCT
* *
46379709 ATTATTATATAAATCACCAAAATAAGTATAATATAAAGATACTAATTTACTCAATTTCTAA
1 ATTATTATATAAATCACCAAAATAAGTATAATACAAAGAGACTAATTTACTCAATTTCTAA
46379770 GTAAAGAGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (65 bp):
ATTATTATATAAATCACCAAAATAAGTATAATACAAAGAGACTAATTTACTCAATTTCTAAATCT
Found at i:46383537 original size:102 final size:102
Alignment explanation
Indices: 46383361--46383564 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
46383351 TTTACAATTT
*
46383361 TATAATGCTTCAGTGCATTGTTGAATCTATATAACTATAAATAAATTCAAAACATTAATTCTATT
1 TATAATGCTTCAGTGCATTGTTGAATCTATATAACTATAAAGAAATTCAAAACATTAATTCTATT
46383426 AGATAATAAATAATATTTTTTAAATCATAAATTTTAA
66 AGATAATAAATAATATTTTTTAAATCATAAATTTTAA
*
46383463 TATAATGCTTCAGTGCGTTGTTGAATCTATATAACTATAAAGAAATTCAAAACATTAATTCTATT
1 TATAATGCTTCAGTGCATTGTTGAATCTATATAACTATAAAGAAATTCAAAACATTAATTCTATT
*
46383528 ATATAATAAATAATATTTTTTAAATCATAAATTTTAA
66 AGATAATAAATAATATTTTTTAAATCATAAATTTTAA
46383565 AAATTGACTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (102 bp):
TATAATGCTTCAGTGCATTGTTGAATCTATATAACTATAAAGAAATTCAAAACATTAATTCTATT
AGATAATAAATAATATTTTTTAAATCATAAATTTTAA
Found at i:46393968 original size:76 final size:75
Alignment explanation
Indices: 46393843--46393993 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 75
46393833 CCAAAAAACC
46393843 AAGTGTCTCCCCATTTCTGTTTGTTATTTTCTTGGAGGAGCCAGAAAATTTTCTTGGTGTTTTCT
1 AAGTGTCTCCCCATTTCTGTTTGTTATTTTCTTGGAGGAGCCAGAAAATTTTCTTGGTGTTTTCT
46393908 TGGAGGACTT
66 TGGAGGACTT
46393918 AAGTGTCTCCCCATTTCTGTTTGTTTATTTTCTTGGAGGAGCCAGAAAATTTTCTTGGTGTTTTC
1 AAGTGTCTCCCCATTTCTGTTTG-TTATTTTCTTGGAGGAGCCAGAAAATTTTCTTGGTGTTTTC
46393983 TTGGAGGACTT
65 TTGGAGGACTT
46393994 TGAAGACAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 23 0.31
76 52 0.69
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (75 bp):
AAGTGTCTCCCCATTTCTGTTTGTTATTTTCTTGGAGGAGCCAGAAAATTTTCTTGGTGTTTTCT
TGGAGGACTT
Found at i:46395323 original size:17 final size:19
Alignment explanation
Indices: 46395303--46395345 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
46395293 AAAAGAATCT
*
46395303 AAACAAAACCA-GACAT-C
1 AAACAAAACCACCACATCC
*
46395320 AAACCAAACCACCACATCC
1 AAACAAAACCACCACATCC
46395339 AAACAAA
1 AAACAAA
46395346 CTTGCCAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.58, C:0.35, G:0.02, T:0.05
Consensus pattern (19 bp):
AAACAAAACCACCACATCC
Found at i:46400479 original size:32 final size:32
Alignment explanation
Indices: 46400443--46400504 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
46400433 ATTGGGGAGC
*
46400443 GAAAATCAAATCATCGGAGTAAGCTGTAGAGT
1 GAAAATCAAATCATCGGAGCAAGCTGTAGAGT
*
46400475 GAAAATCAAATCATTGGAGCAAGCTGTAGA
1 GAAAATCAAATCATCGGAGCAAGCTGTAGA
46400505 AGCCACACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (32 bp):
GAAAATCAAATCATCGGAGCAAGCTGTAGAGT
Found at i:46402906 original size:17 final size:16
Alignment explanation
Indices: 46402878--46402909 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
46402868 CATATGAACA
46402878 AAATAACAATAATAAT
1 AAATAACAATAATAAT
46402894 AAATAACCAATAATAA
1 AAATAA-CAATAATAA
46402910 AACACAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAACAATAATAAT
Found at i:46405372 original size:75 final size:75
Alignment explanation
Indices: 46405249--46405400 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
46405239 GCTCAACCAG
46405249 AATTTTAAGCATTAAGACATTCAGAGCTTTCAGAAGTTGGCTGCCATCATCCATATGGGGAACC-
1 AATTTTAAGCATTAAGACATTCAGAGCTTTCAGAAGTTGGCTGCCATCATCCATATGGGGAACCA
46405313 CTTTCATCCAA
66 C-TTCATCCAA
46405324 AATTTTAAGCATTAAGACATTCAGAGCTTTCAGAAGTTGGCTGCCATCATCCATATGGGGAACCA
1 AATTTTAAGCATTAAGACATTCAGAGCTTTCAGAAGTTGGCTGCCATCATCCATATGGGGAACCA
46405389 CTTCATCCAA
66 CTTCATCCAA
46405399 AA
1 AA
46405401 GCCAAAGCAG
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
75 75 0.99
76 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (75 bp):
AATTTTAAGCATTAAGACATTCAGAGCTTTCAGAAGTTGGCTGCCATCATCCATATGGGGAACCA
CTTCATCCAA
Found at i:46408379 original size:105 final size:105
Alignment explanation
Indices: 46408191--46408396 Score: 313
Period size: 105 Copynumber: 2.0 Consensus size: 105
46408181 AACAGATTGA
*
46408191 AAGCATCTCAGCAATCACAAAATAAAAGCAAGAAGCCAAGGAGGAATCTAAAAATGAAATGAGCT
1 AAGCATCTCAACAATCACAAAATAAAAGCAAGAAGCCAAGGAGGAATCTAAAAATGAAATGAGCT
* * * * *
46408256 GAAATGATCGGCAAAAAGATACACTTTTGAATGAAAACTC
66 AAAATGACCAGCAAAAAGATACACCTTTGAAAGAAAACTC
* * *
46408296 AAGCATCTCAACAATCACAAAGTAAAATCAAGAAGCCGAGGAGGAATCTAAAAATGAAATGAGCT
1 AAGCATCTCAACAATCACAAAATAAAAGCAAGAAGCCAAGGAGGAATCTAAAAATGAAATGAGCT
* *
46408361 AAAATGACCAGCACAAAGATACGCCTTTGAAAGAAA
66 AAAATGACCAGCAAAAAGATACACCTTTGAAAGAAA
46408397 GCTCTTCGGT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 90 1.00
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (105 bp):
AAGCATCTCAACAATCACAAAATAAAAGCAAGAAGCCAAGGAGGAATCTAAAAATGAAATGAGCT
AAAATGACCAGCAAAAAGATACACCTTTGAAAGAAAACTC
Found at i:46422162 original size:115 final size:115
Alignment explanation
Indices: 46422028--46422238 Score: 361
Period size: 115 Copynumber: 1.8 Consensus size: 115
46422018 TGGCATAAGA
* *
46422028 TTCTTTTTCTTTTTCTTTTTTTCTCTTTTTC-TCTGTGTATAACCAGAGTTATATTGCTCTGTCA
1 TTCTTTTTCTTTTTCTTTTTGTCTCTTTTTCTTC-GTGTATAACCAGAGTTATATTGCTCGGTCA
* * *
46422092 ACTTCGAGATTTTAAAAGAACTGCATATGACTATTAAGATTCTTTTTCTTT
65 ACCTCGAGATTTCAAAAGAAATGCATATGACTATTAAGATTCTTTTTCTTT
46422143 TTCTTTTTCTTTTTCTTTTTGTCTCTTTTTCTTCGTGTATAACCAGAGTTATATTGCTCGGTCAA
1 TTCTTTTTCTTTTTCTTTTTGTCTCTTTTTCTTCGTGTATAACCAGAGTTATATTGCTCGGTCAA
46422208 CCTCGAGATTTCAAAAGAAATGCATATGACT
66 CCTCGAGATTTCAAAAGAAATGCATATGACT
46422239 CTTACAAAGT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 88 0.98
116 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (115 bp):
TTCTTTTTCTTTTTCTTTTTGTCTCTTTTTCTTCGTGTATAACCAGAGTTATATTGCTCGGTCAA
CCTCGAGATTTCAAAAGAAATGCATATGACTATTAAGATTCTTTTTCTTT
Found at i:46422175 original size:6 final size:6
Alignment explanation
Indices: 46422131--46422162 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
46422121 ACTATTAAGA
46422131 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
46422163 GTCTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:46437517 original size:23 final size:22
Alignment explanation
Indices: 46437490--46437551 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
46437480 TTATTTAGAA
*
46437490 ATATTTATTTTAATATTTTTTGT
1 ATATTTATTTTTATATTTTTT-T
46437513 ATATTTGATTTATTATATTTTTTT
1 ATATTT-ATTT-TTATATTTTTTT
46437537 A-ATTTATTTTTATAT
1 ATATTTATTTTTATAT
46437552 AAAAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 6 0.17
22 4 0.11
23 10 0.28
24 6 0.17
25 10 0.28
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (22 bp):
ATATTTATTTTTATATTTTTTT
Found at i:46437936 original size:5 final size:5
Alignment explanation
Indices: 46437926--46437952 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46437916 AGTTTTTATA
46437926 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
46437953 AACAAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:46438001 original size:17 final size:18
Alignment explanation
Indices: 46437972--46438011 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
46437962 TAAGTTGTTT
* *
46437972 TATTTTCATAATTTTTAA
1 TATTTTCATAATTATAAA
46437990 TATTTT-ATAATTATAAA
1 TATTTTCATAATTATAAA
46438007 TATTT
1 TATTT
46438012 AATATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTCATAATTATAAA
Found at i:46439110 original size:14 final size:15
Alignment explanation
Indices: 46439061--46439112 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46439051 NTAAAATATA
46439061 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46439076 TATTAAATATATTAT
1 AATTAAATATATTAT
46439091 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46439104 AATTTAATA
1 AATTAAATA
46439113 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46446130 original size:40 final size:40
Alignment explanation
Indices: 46445993--46446132 Score: 239
Period size: 39 Copynumber: 3.5 Consensus size: 40
46445983 TGCTACTTTA
* *
46445993 TTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-
1 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
*
46446032 TTTTATTATTAATTAAAACTATT-CCCCATACTATTTTGT
1 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
46446071 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
1 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
46446111 TTTTATTATTAATTAAAACCAT
1 TTTTATTATTAATTAAAACCAT
46446133 ACTTTATTTT
Statistics
Matches: 97, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
38 15 0.15
39 44 0.45
40 38 0.39
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (40 bp):
TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGT
Found at i:46446783 original size:22 final size:23
Alignment explanation
Indices: 46446735--46446791 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
46446725 AACCCCTTCT
**
46446735 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
46446758 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
46446780 AATACCATCGAT
1 AATACAATCGAT
46446792 CCCCCCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:46447260 original size:13 final size:13
Alignment explanation
Indices: 46447242--46447266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46447232 GAGTTTTAAG
46447242 TTCTTCGATCTGC
1 TTCTTCGATCTGC
46447255 TTCTTCGATCTG
1 TTCTTCGATCTG
46447267 TTCCCTATAA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:46447313 original size:44 final size:44
Alignment explanation
Indices: 46447249--46447730 Score: 439
Period size: 44 Copynumber: 11.0 Consensus size: 44
46447239 AAGTTCTTCG
*
46447249 ATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
46447292 ATCTGCTGTCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* *
46447336 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
46447378 ATGCTGAAATCTTCGATCTGCTTCATTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
46447424 ATCTGCTATCTTCGATCTGTTCCTTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
46447468 ATCTACTGTTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCT-ATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
46447511 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
46447557 ATCTGCTATCTTCGATCTGTTCTCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
46447601 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
46447643 ATGC-GAAATCTTCGATCTGTTTCACTCTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
46447688 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCA
46447731 TGCTGAAATC
Statistics
Matches: 357, Mismatches: 61, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
42 11 0.03
43 52 0.15
44 217 0.61
45 73 0.20
46 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:46447526 original size:133 final size:132
Alignment explanation
Indices: 46447256--46447730 Score: 740
Period size: 133 Copynumber: 3.6 Consensus size: 132
46447246 TCGATCTGCT
* * * * * * * *
46447256 TCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTCTTC-AACTTGTTCCCTAT
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTAT
* * * *
46447319 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
65 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
46447384 AAA
130 AAA
* *
46447387 TCTTCGATCTGCTTCATTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCTTATA
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
*
46447452 AGCACAGGGATGCCAAATCTACTGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AGCACAGGGATGCCAAATCTGCTG-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
46447517 AAA
130 AAA
* *
46447520 TCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCTCTATA
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
46447585 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC-GA
66 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
46447649 AA
131 AA
* *
46447651 TCTTCGATCTGTTTCACTCTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
46447716 AGCACAGGGATGCCA
66 AGCACAGGGATGCCA
46447731 TGCTGAAATC
Statistics
Matches: 317, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
131 91 0.29
132 99 0.31
133 127 0.40
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
AA
Found at i:46448224 original size:205 final size:205
Alignment explanation
Indices: 46447828--46448818 Score: 1607
Period size: 205 Copynumber: 4.8 Consensus size: 205
46447818 AAATCTATTT
* * * * * *
46447828 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
* * * * * *
46447893 GTGAAAGCCAAATCAACTATG-ATTAGATTTGCTCCTTGTAAGCATAAGGATGCAAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
46447957 GGATCCGCTTCAGCAT-AAA-CATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
131 GGATCTGCTTCAG--TGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
46448020 GAAGATGCCAAA
194 GAAGATGCCAAA
*
46448032 CTTCGATTCT-TTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCA
1 CTTCGATT-TGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCA
* *
46448096 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
*
46448161 TGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCGTCAAAGTG
130 TGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
46448226 AAGATGCCAAA
195 AAGATGCCAAA
*
46448237 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCATAATCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
*
46448302 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
46448367 GGATCTACTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCGTCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
46448432 AGATGCCAAA
196 AGATGCCAAA
*
46448442 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
46448507 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
46448572 GGATTTGCTTCAGTGAAATCATCTGAATGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
46448637 AGATGCCAAA
196 AGATGCCAAA
* * *
46448647 CTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
*
46448712 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
46448777 GAATCTGCTTCAGT-ATAA-CATCTGAAGGCCAGATCTGTTATG
131 GGATCTGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATG
46448819 CTGCGACCTA
Statistics
Matches: 741, Mismatches: 40, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
203 1 0.00
204 102 0.14
205 638 0.86
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:46464889 original size:25 final size:24
Alignment explanation
Indices: 46464856--46464904 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
46464846 GTAGGGGATT
46464856 TTATTTTATTTAAGATTAATATAA
1 TTATTTTATTTAAGATTAATATAA
*
46464880 TTATATTTATTTAATATTAATATAA
1 TTAT-TTTATTTAAGATTAATATAA
46464905 AATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTATTTTATTTAAGATTAATATAA
Found at i:46469846 original size:14 final size:15
Alignment explanation
Indices: 46469801--46469846 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
46469791 ACTATATGCT
*
46469801 AAACCATAAATA-AA
1 AAACCATAAACACAA
*
46469815 AAACAATAAACACAA
1 AAACCATAAACACAA
*
46469830 AAACCATAAACATAA
1 AAACCATAAACACAA
46469845 AA
1 AA
46469847 TCACAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (15 bp):
AAACCATAAACACAA
Found at i:46469981 original size:22 final size:23
Alignment explanation
Indices: 46469935--46469985 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
46469925 AAACAATAAA
*
46469935 CTAAAAATCCTAAACTCATAGAT
1 CTAAAAACCCTAAACTCATAGAT
46469958 CTAAAAACCCTGAAACTCA-A-AT
1 CTAAAAACCCT-AAACTCATAGAT
46469980 CTAAAA
1 CTAAAA
46469986 CTATAACTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 11 0.42
24 7 0.27
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.22
Consensus pattern (23 bp):
CTAAAAACCCTAAACTCATAGAT
Found at i:46470104 original size:22 final size:22
Alignment explanation
Indices: 46470079--46470157 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
46470069 CATAGGCACT
* *
46470079 AAAACAAGAAACCCTAAACATA
1 AAAACAATAAACCCTAAAAATA
*
46470101 AAAAC-ATAATACCTTAAAAATA
1 AAAACAATAA-ACCCTAAAAATA
* *
46470123 AAAACACTAAACCCTAAAAACA
1 AAAACAATAAACCCTAAAAATA
46470145 AAAACAATAAACC
1 AAAACAATAAACC
46470158 ATAATTCTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.06
22 42 0.88
23 3 0.06
ACGTcount: A:0.65, C:0.22, G:0.01, T:0.13
Consensus pattern (22 bp):
AAAACAATAAACCCTAAAAATA
Done.