Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 672 of 770
Found at i:211374560 original size:40 final size:40
Alignment explanation
Indices: 211374433--211374562 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
211374423 ATGCTGGAAA
* *
211374433 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAT-GTGG
* * * **
211374473 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ATGTGG
*
211374513 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGG
211374553 TTATATCCGG
1 TTATATCCGG
211374563 TTATATTCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGG
Found at i:211382289 original size:26 final size:26
Alignment explanation
Indices: 211382257--211382316 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
211382247 TTTACTATAG
*
211382257 TAAAATTTTAACGA-TTTACTACCC-AA
1 TAAAATTTTAACAATTTTAC--CCCTAA
*
211382283 TAAAATTTTTACAATTTTACCCCTAA
1 TAAAATTTTAACAATTTTACCCCTAA
211382309 TAAAATTT
1 TAAAATTT
211382317 CAAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.10
26 22 0.73
27 5 0.17
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAAATTTTAACAATTTTACCCCTAA
Found at i:211383307 original size:20 final size:20
Alignment explanation
Indices: 211383273--211383326 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
211383263 GTCTCTTTCA
*
211383273 ATAAAAA-TACAAAATAATTT
1 ATAAAAATTTCAAAAT-ATTT
* *
211383293 -TCAAATTTTCAAAATATTT
1 ATAAAAATTTCAAAATATTT
211383312 ATAAAAATTTCAAAA
1 ATAAAAATTTCAAAA
211383327 ACAAATTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAAAATTTCAAAATATTT
Found at i:211386960 original size:19 final size:18
Alignment explanation
Indices: 211386936--211386982 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
211386926 GAAATGAAAA
* *
211386936 AAAAAAAAAGAGAATATG
1 AAAAAAAAAGAGAAAAGG
211386954 AAGAAAAACAA-AGAAAAGG
1 AA-AAAAA-AAGAGAAAAGG
211386973 AAAAAAAAAG
1 AAAAAAAAAG
211386983 TGTTCATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.08
18 7 0.29
19 13 0.54
20 2 0.08
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAGAGAAAAGG
Found at i:211388173 original size:29 final size:29
Alignment explanation
Indices: 211388140--211388204 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
211388130 GTGACGAGAT
*
211388140 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
211388169 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
211388198 CGGCACT
1 TGGCACT
211388205 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:211395657 original size:29 final size:29
Alignment explanation
Indices: 211395624--211395734 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
211395614 TGACGAGATT
** *
211395624 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* *
211395653 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* * *
211395682 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
** *
211395711 GGCACTGGGTGTGCGAGCTCGGAA
1 GGCACTAAGTGTGCAAGCT-GGAA
211395735 GGTATGGCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 66 0.94
30 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:211403736 original size:29 final size:29
Alignment explanation
Indices: 211403703--211403813 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
211403693 TGACGAGATT
** *
211403703 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* *
211403732 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* * *
211403761 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
** *
211403790 GGCACTGGGTGTGCGAGCTCGGAA
1 GGCACTAAGTGTGCAAGCT-GGAA
211403814 GGTATGGCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 66 0.94
30 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:211411761 original size:29 final size:28
Alignment explanation
Indices: 211411728--211411809 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
211411718 TGACGAGATT
*
211411728 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
211411757 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * *
211411785 GACACTATGTGTGCAAGCTGGAAAA
1 GGCACTAAGTGTGCATGCTGGAAAA
211411810 AATACGGCAC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:211419813 original size:29 final size:28
Alignment explanation
Indices: 211419780--211419889 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 28
211419770 TGACGAGATT
**
211419780 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCAAGCTGGAAA-ATAA
* *
211419809 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAATAA
* * *
211419837 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGG-AAAATAA
** *
211419866 GGCACTGGGTGTGCGAGCTCGGAA
1 GGCACTAAGTGTGCAAGCT-GGAA
211419890 GGTATGGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 21 0.30
29 46 0.67
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (28 bp):
GGCACTAAGTGTGCAAGCTGGAAAATAA
Found at i:211419851 original size:28 final size:28
Alignment explanation
Indices: 211419782--211419861 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
211419772 ACGAGATTGG
* *
211419782 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
211419811 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* *
211419839 CACTATGTGTGCAAGCTGGAAAA
1 CACTAAGTGTGCATGCTGGAAAA
211419862 ATACGGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:211421924 original size:13 final size:13
Alignment explanation
Indices: 211421908--211421932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
211421898 TTTAGTTTAG
211421908 TATTTTATTTACT
1 TATTTTATTTACT
211421921 TATTTTATTTAC
1 TATTTTATTTAC
211421933 ATTTATACTT
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:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:211427547 original size:40 final size:40
Alignment explanation
Indices: 211427502--211427631 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
211427492 CGGAATACAA
211427502 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
211427542 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
211427582 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
211427622 CCGGATATAA
1 CCGGATATAA
211427632 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:211435523 original size:40 final size:40
Alignment explanation
Indices: 211435478--211435607 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
211435468 CGGAATACAA
211435478 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
211435518 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
211435558 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
211435598 CCGGATATAA
1 CCGGATATAA
211435608 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:211442578 original size:47 final size:47
Alignment explanation
Indices: 211442515--211443045 Score: 863
Period size: 47 Copynumber: 11.4 Consensus size: 47
211442505 CCCTTCGGGA
* *
211442515 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
211442562 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
211442609 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCA-TCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
211442655 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
211442702 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
211442747 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCA-TCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
211442793 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
211442840 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
211442887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
211442934 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
211442981 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
211443028 CTTATCACATATACACAC
1 CTTATCACATATATACAC
211443046 CTTGTACATC
Statistics
Matches: 450, Mismatches: 30, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
45 38 0.08
46 90 0.20
47 322 0.72
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:211442820 original size:138 final size:140
Alignment explanation
Indices: 211442515--211443045 Score: 904
Period size: 138 Copynumber: 3.8 Consensus size: 140
211442505 CCCTTCGGGA
* *
211442515 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * *
211442580 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
211442645 GGCCATCGGC
131 GGCCATCGGC
211442655 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
211442720 TTTCACATTCATCACATCGG-CATTAGG-CTTATCTCATATATACACTTTCACATTCATCACGTT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
211442783 GGCCATCGGC
131 GGCCATCGGC
211442793 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * *
211442858 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
*
211442923 GGCCATTAGGC
131 GGCCA-TCGGC
*
211442934 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
211442999 TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211443046 CTTGTACATC
Statistics
Matches: 372, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
138 129 0.35
139 13 0.03
140 119 0.32
141 111 0.30
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATCGGC
Found at i:211442849 original size:22 final size:22
Alignment explanation
Indices: 211442821--211442896 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
211442811 TTTCACATTC
211442821 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
211442843 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
211442867 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
211442890 ATCACAT
1 ATCACAT
211442897 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:211447036 original size:40 final size:40
Alignment explanation
Indices: 211446981--211447252 Score: 433
Period size: 40 Copynumber: 6.9 Consensus size: 40
211446971 ATTTTGTCCA
*
211446981 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
211447020 AGCACGAATGCTCTTCGGGACTTAGCCCGG-TACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
211447059 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
211447099 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* * * * *
211447139 AGCACGAATGCTCTTCGGAACCTAGTCTGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* *
211447179 AGCACGAATGCTCTTCGGGACTTAGCCCAG-TATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
211447218 AGCACTAATGCTCTTCGGGACTTAGCCCGGATACA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
211447253 ACATACTGAA
Statistics
Matches: 216, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 87 0.40
40 129 0.60
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:211447133 original size:119 final size:119
Alignment explanation
Indices: 211446981--211447252 Score: 431
Period size: 119 Copynumber: 2.3 Consensus size: 119
211446971 ATTTTGTCCA
* * *
211446981 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAG
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACCTAG
*
211447045 CCCGG-TACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
66 CCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCAG-TACATCACC
*
211447099 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACCTAG
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACCTAG
* * * *
211447164 TCTGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCAGTATATCACC
66 CCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCAGTACATCACC
*
211447218 AGCACTAATGCTCTTCGGGACTTAGCCCGGATACA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
211447253 ACATACTGAA
Statistics
Matches: 141, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
118 11 0.08
119 93 0.66
120 37 0.26
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.21
Consensus pattern (119 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACCTAG
CCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCAGTACATCACC
Found at i:211449165 original size:47 final size:47
Alignment explanation
Indices: 211449102--211449624 Score: 791
Period size: 47 Copynumber: 11.4 Consensus size: 47
211449092 CCCTTCGGGA
* *
211449102 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
211449149 CTTATCACATATATACACCTTCACATCCATCACATCGG-CATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
211449195 CTTATCTCATAT-TACACTTTCACATTCATCACATTGGCCA-TCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
211449240 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
211449286 C--ATCACATATATACACTTTCACA-TCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
211449329 CTTAT--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
211449374 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGTC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
211449421 CTTAT-ACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
211449467 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
211449514 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
211449561 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
211449607 CTTATCACATATACACAC
1 CTTATCACATATATACAC
211449625 CTTGTACATC
Statistics
Matches: 435, Mismatches: 31, Indels: 21
0.89 0.06 0.04
Matches are distributed among these distances:
43 37 0.09
44 40 0.09
45 43 0.10
46 134 0.31
47 181 0.42
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:211449460 original size:93 final size:94
Alignment explanation
Indices: 211449102--211449624 Score: 818
Period size: 93 Copynumber: 5.7 Consensus size: 94
211449092 CCCTTCGGGA
* * * *
211449102 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * * *
211449167 CTTCACATCCATCACATCGG-CATTAGGT
66 TTTCACATTCATCACATTGGCCATTCGGC
* * *
211449195 CTTATCTCATAT-TACACTTTCACATTCATCACATTGGCCA-TCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211449258 TTTCACATTCATCACATTGGCCATTCGG-
66 TTTCACATTCATCACATTGGCCATTCGGC
211449286 C--ATCACATATATACACTTTCACA-TCATCACATCGGCCATTAGG-CTTAT--CATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211449345 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
* *
211449374 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGTCCTTAT-ACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211449438 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
*
211449467 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211449532 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
*
211449561 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211449625 CTTGTACATC
Statistics
Matches: 405, Mismatches: 15, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
87 39 0.10
88 1 0.00
89 27 0.07
90 37 0.09
91 59 0.15
92 38 0.09
93 146 0.36
94 58 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:211449522 original size:140 final size:141
Alignment explanation
Indices: 211449102--211449624 Score: 827
Period size: 140 Copynumber: 3.8 Consensus size: 141
211449092 CCCTTCGGGA
* *
211449102 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * *
211449167 CTTCACATCCATCACATCGG-CATTAGGTCTTATCTCATAT-TACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
211449230 GGCCA-TCGGC
131 GGCCATTCGGC
211449240 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG-C--ATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
211449302 TTTCACA-TCATCACATCGGCCATTAGG-CTTAT--CATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
211449363 GGCCATTCGGC
131 GGCCATTCGGC
* * *
211449374 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGTCCTTAT-ACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * *
211449438 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
*
211449503 GGCCATTAGGC
131 GGCCATTCGGC
*
211449514 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
211449579 -TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
211449625 CTTGTACATC
Statistics
Matches: 356, Mismatches: 18, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
132 5 0.01
133 28 0.08
134 64 0.18
135 29 0.08
136 19 0.05
137 21 0.06
138 49 0.14
140 129 0.36
141 12 0.03
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTCGGC
Found at i:211453766 original size:66 final size:68
Alignment explanation
Indices: 211453690--211453876 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
211453680 TAGTACCACT
*
211453690 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
211453752 CACG
65 CACG
211453756 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
211453821 ATCACG
63 ATCACG
211453827 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
211453877 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:211453801 original size:71 final size:71
Alignment explanation
Indices: 211453713--211453876 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
211453703 CGATTTGTCT
211453713 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
211453778 CTTTCA
66 CTTTCA
211453784 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
211453849 CTTTCA
66 CTTTCA
211453855 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
211453877 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:211453914 original size:71 final size:70
Alignment explanation
Indices: 211453713--211453910 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
211453703 CGATTTGTCT
* * *
211453713 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
211453778 CTTTCA
65 CTTTCA
* * *
211453784 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
211453849 CTTTCA
65 CTTTCA
* *
211453855 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
211453911 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:211460119 original size:124 final size:124
Alignment explanation
Indices: 211459897--211460121 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
211459887 GAATTATGTG
* * * ** * * *
211459897 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
211459962 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
211460021 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
211460086 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
211460122 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:211460243 original size:40 final size:40
Alignment explanation
Indices: 211460116--211460245 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
211460106 ATGCTGGAAA
* *
211460116 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
211460156 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
211460196 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
211460236 TTATATCCGG
1 TTATATCCGG
211460246 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:211460244 original size:80 final size:80
Alignment explanation
Indices: 211460078--211460245 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
211460068 CAATTGAATG
* * *
211460078 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
211460143 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
211460158 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
211460222 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
211460238 ATATCCGG
1 ATATCCGG
211460246 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:211466333 original size:42 final size:46
Alignment explanation
Indices: 211466268--211466416 Score: 135
Period size: 48 Copynumber: 3.2 Consensus size: 46
211466258 ATACCTAGCT
* ** *
211466268 ATGGTCTTATACGATGTCTCATATCGATGCC-ATG-T-T-CCAGAC
1 ATGGTCTTACACGAAATCACATATCGATGCCAATGCTATCCCAGAC
** *
211466310 ATGGTCTTACACGAAATCACATATAAATGCCAATGCCATATCCCAGAT
1 ATGGTCTTACACGAAATCACATATCGATGCCAATG-C-TATCCCAGAC
* ** *
211466358 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATCGATGCCAATG-C-TATCCCAGAC
211466406 ATGGTCTTACA
1 ATGGTCTTACA
211466417 TAGGACCACA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 25 0.29
43 3 0.03
46 1 0.01
47 1 0.01
48 57 0.66
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (46 bp):
ATGGTCTTACACGAAATCACATATCGATGCCAATGCTATCCCAGAC
Found at i:211466417 original size:48 final size:48
Alignment explanation
Indices: 211466294--211466431 Score: 177
Period size: 48 Copynumber: 2.9 Consensus size: 48
211466284 TCTCATATCG
* * **
211466294 ATGCCATGTTCCAGACATGGTCTTACACGAAATCACATATAAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAAATGCCA
* * **
211466342 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAAATGCCA
* * *
211466390 ATGCCATGTCCCAGACATGGTCTTACATAGGACCACACATAA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAA
211466432 CCCTAATGTC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAAATGCCA
Found at i:211475979 original size:78 final size:81
Alignment explanation
Indices: 211475852--211476042 Score: 223
Period size: 78 Copynumber: 2.4 Consensus size: 81
211475842 AGATATAACG
* ** *
211475852 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTC-GGATC
* *
211475915 TTAACCCGGGTTTAGTA
65 TTAACCCGGATATAGTA
*
211475932 ACTCGCACAAATGCCTTC-GG-CTTAGCCCGGATT-TATTAACTCGCACGAACGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCT
** *
211475994 TAGTCCGGATATAGTC
66 TAACCCGGATATAGTA
*
211476010 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
211476043 CATCATTCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.03
78 50 0.53
79 14 0.15
80 28 0.29
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAACGCCTTCGGATCT
TAACCCGGATATAGTA
Found at i:211476042 original size:40 final size:39
Alignment explanation
Indices: 211475852--211476042 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 39
211475842 AGATATAACG
* ** *
211475852 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
211475892 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
211475932 ACTCGCACAAATGCCTTC-GG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
211475970 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
211476010 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
211476043 CATCATTCAA
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 31 0.25
39 6 0.05
40 78 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:211492864 original size:164 final size:164
Alignment explanation
Indices: 211492594--211492938 Score: 665
Period size: 164 Copynumber: 2.1 Consensus size: 164
211492584 ATTAAAAGGT
211492594 GATTTCAC-TTTTTTTTCTCCTTCATTTTAGATCTGCTTGTGATTTTTTATCATAGAAAATGAAA
1 GATTTCACTTTTTTTTTCTCCTTCATTTTAGATCTGCTTGTGATTTTTTATCATAGAAAATGAAA
211492658 AGCGTGTTTTGAAACAACACCGATGAAAGCCCACACGTCTCAGAAACATGGAGATTCGGGCTAGG
66 AGCGTGTTTTGAAACAACACCGATGAAAGCCCACACGTCTCAGAAACATGGAGATTCGGGCTAGG
211492723 ATTGTTTTCTTTATTATTATTTTTATTTTCATCA
131 ATTGTTTTCTTTATTATTATTTTTATTTTCATCA
211492757 GATTTCACTTTTTTTTTCTCCTTCATTTTAGATCTGCTTGTGATTTTTTATCATAGAAAATGAAA
1 GATTTCACTTTTTTTTTCTCCTTCATTTTAGATCTGCTTGTGATTTTTTATCATAGAAAATGAAA
211492822 AGCGTGTTTTGAAACAACACCGATGAAAGCCCACACGTCTCAGAAACATGGAGATTCGGGCTAGG
66 AGCGTGTTTTGAAACAACACCGATGAAAGCCCACACGTCTCAGAAACATGGAGATTCGGGCTAGG
211492887 ATTGTTTTCTTTATTATTATTTTTATTTTCATCA
131 ATTGTTTTCTTTATTATTATTTTTATTTTCATCA
*
211492921 GATTTTACTTTGTTTTTT
1 GATTTCACTTT-TTTTTT
211492939 GGTAGAATAG
Statistics
Matches: 179, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
163 8 0.04
164 165 0.92
165 6 0.03
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (164 bp):
GATTTCACTTTTTTTTTCTCCTTCATTTTAGATCTGCTTGTGATTTTTTATCATAGAAAATGAAA
AGCGTGTTTTGAAACAACACCGATGAAAGCCCACACGTCTCAGAAACATGGAGATTCGGGCTAGG
ATTGTTTTCTTTATTATTATTTTTATTTTCATCA
Found at i:211506876 original size:17 final size:17
Alignment explanation
Indices: 211506854--211506889 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
211506844 TCAGATTTTA
211506854 AAGTTCCTGATTTGACT
1 AAGTTCCTGATTTGACT
211506871 AAGTTCCTGATTTGACT
1 AAGTTCCTGATTTGACT
211506888 AA
1 AA
211506890 CTCAGCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (17 bp):
AAGTTCCTGATTTGACT
Found at i:211516107 original size:5 final size:5
Alignment explanation
Indices: 211516097--211516160 Score: 69
Period size: 5 Copynumber: 12.2 Consensus size: 5
211516087 TGAATCCTCC
211516097 TATTT TATTTT TATTT T-TATT TATTCT TATTTT TATTT TATTT TA-TT
1 TATTT TA-TTT TATTT TAT-TT TATT-T TA-TTT TATTT TATTT TATTT
211516144 TATTT TATTCT TATTT T
1 TATTT TATT-T TATTT T
211516161 TCTTTTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.10
5 28 0.54
6 17 0.33
7 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:211516110 original size:6 final size:6
Alignment explanation
Indices: 211516099--211516178 Score: 69
Period size: 6 Copynumber: 13.7 Consensus size: 6
211516089 AATCCTCCTA
* *
211516099 TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTA- TTTTAT TTTATTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT
* * *
211516145 ATTTTAT TCTTAT TTTTCT TTTT-T TTTGAT TTTT
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
211516179 CAATTTTCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
4 4 0.07
5 9 0.15
6 39 0.66
7 4 0.07
8 3 0.05
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:211516121 original size:16 final size:16
Alignment explanation
Indices: 211516100--211516178 Score: 81
Period size: 16 Copynumber: 4.9 Consensus size: 16
211516090 ATCCTCCTAT
211516100 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
*
211516116 TTTATTCTTATTTTTA
1 TTTATTTTTATTTTTA
*
211516132 TTT-TATTTTATTTAT-
1 TTTAT-TTTTATTTTTA
* *
211516147 TTTATTCTTATTTTTC
1 TTTATTTTTATTTTTA
*
211516163 TTTTTTTTTGATTTTT
1 TTTATTTTT-ATTTTT
211516179 CAATTTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
15 12 0.23
16 34 0.65
17 6 0.12
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:211519068 original size:2 final size:2
Alignment explanation
Indices: 211519061--211519096 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
211519051 ACATCAGCTA
211519061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
211519097 AGAATGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:211531985 original size:19 final size:19
Alignment explanation
Indices: 211531952--211531990 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
211531942 GTCATCTTCT
* *
211531952 CGATTTGGTTTGTTTGGTC
1 CGATTTGGCTCGTTTGGTC
*
211531971 CGATTTGGCTCGTTTTGTC
1 CGATTTGGCTCGTTTGGTC
211531990 C
1 C
211531991 CTTTAAGCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.18, G:0.28, T:0.49
Consensus pattern (19 bp):
CGATTTGGCTCGTTTGGTC
Found at i:211534356 original size:40 final size:39
Alignment explanation
Indices: 211534188--211534367 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
211534178 AGAAATTGAA
* *
211534188 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
211534228 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
211534268 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
211534308 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
211534348 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
211534368 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:211542172 original size:20 final size:20
Alignment explanation
Indices: 211542127--211542175 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
211542117 ATTTAAGGAG
*
211542127 AATAATATATATAATAAGTAAT
1 AATAATATATATAAT-A-TAAA
211542149 AATAATAGTATATAAT-TAAA
1 AATAATA-TATATAATATAAA
211542169 AATAATA
1 AATAATA
211542176 CTCATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
22 7 0.28
23 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AATAATATATATAATATAAA
Found at i:211542172 original size:23 final size:22
Alignment explanation
Indices: 211542127--211542175 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
211542117 ATTTAAGGAG
*
211542127 AATAATATATATAATAAGTAAT
1 AATAATATATATAATAAGAAAT
211542149 AATAATAGTATATAATTAA-AAAT
1 AATAATA-TATATAA-TAAGAAAT
211542172 AATA
1 AATA
211542176 CTCATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAATATATATAATAAGAAAT
Found at i:211543833 original size:83 final size:83
Alignment explanation
Indices: 211543710--211543868 Score: 255
Period size: 83 Copynumber: 1.9 Consensus size: 83
211543700 CTTGAATTTG
* * * * * *
211543710 TTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
211543775 CAAATCATCTTTAGTCTA
66 CAAATCATCTTTAGTCTA
*
211543793 TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
211543858 CAAATCATCTT
66 CAAATCATCTT
211543869 GGATCTGTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (83 bp):
TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
CAAATCATCTTTAGTCTA
Found at i:211544006 original size:119 final size:119
Alignment explanation
Indices: 211543792--211544226 Score: 674
Period size: 119 Copynumber: 3.7 Consensus size: 119
211543782 TCTTTAGTCT
* * * * * * * * * * *
211543792 ATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTATAAACACAAGAATA
1 ATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
* ** **
211543857 CCAAATCATCTTGGATCTGTTTCAGCATAAACATCTGAAGGT-TAGATCTGCTAT
66 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAA-GTCTAGATCTGCTGC
*
211543911 ATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATG
1 ATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
211543976 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGC
66 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGC
* *
211544030 CTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
1 ATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
211544095 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGC
66 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGC
*
211544149 CTTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
1 ATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
211544214 CCAAATCATCTTG
66 CCAAATCATCTTG
211544227 AGTCTATTTG
Statistics
Matches: 294, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
118 2 0.01
119 292 0.99
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (119 bp):
ATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGC
Found at i:211552822 original size:37 final size:37
Alignment explanation
Indices: 211552770--211552897 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
211552760 TTATTACGAA
* *
211552770 GTCTTACCCGAACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
211552807 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
211552844 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
211552881 GTCTTACCCGGAACATA
1 GTCTTACCCGG-ACATA
211552898 TTTCCAAGTT
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
37 83 0.94
38 5 0.06
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:211552992 original size:48 final size:48
Alignment explanation
Indices: 211552937--211553088 Score: 241
Period size: 48 Copynumber: 3.2 Consensus size: 48
211552927 TATTACAACA
211552937 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
211552985 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
211553033 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
211553081 TTCACATT
1 TTCACATT
211553089 CATCACATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:211553133 original size:49 final size:49
Alignment explanation
Indices: 211553080--211553270 Score: 368
Period size: 49 Copynumber: 3.9 Consensus size: 49
211553070 CACACATATA
211553080 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
211553129 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
211553178 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
211553225 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
211553271 TCTCATACAT
Statistics
Matches: 140, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
47 47 0.34
49 93 0.66
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:211553263 original size:96 final size:97
Alignment explanation
Indices: 211553080--211553270 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 97
211553070 CACACATATA
211553080 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
211553145 TCGGCCATTAGGCCTTATCACATATATATACAC
65 TCGGCCATTAGGCCTTATCACATATATATACAC
211553178 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
211553242 CGGCCATTAGGCCTTATCACATATATATA
66 CGGCCATTAGGCCTTATCACATATATATA
211553271 TCTCATACAT
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 56 0.60
98 37 0.40
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (97 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATATACAC
Found at i:211556307 original size:40 final size:40
Alignment explanation
Indices: 211556242--211556319 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
211556232 TTTAACCGGA
* * *
211556242 TATAGCGACTCGCTCGATTGTCTTCGGGACATAGCCCGAT
1 TATAGCGACTCGCACAATTGCCTTCGGGACATAGCCCGAT
* *
211556282 TATAGTGACTCGCACAATTGCCTTCGGGACTTAGCCCG
1 TATAGCGACTCGCACAATTGCCTTCGGGACATAGCCCG
211556320 GATACCATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
TATAGCGACTCGCACAATTGCCTTCGGGACATAGCCCGAT
Found at i:211557110 original size:40 final size:40
Alignment explanation
Indices: 211557066--211557377 Score: 552
Period size: 40 Copynumber: 7.8 Consensus size: 40
211557056 CCAACATGAT
* * *
211557066 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
211557106 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
211557146 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
211557186 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
211557226 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
211557266 TGCCCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
211557306 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
211557346 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
211557378 CTCAATTCTC
Statistics
Matches: 264, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:211559247 original size:37 final size:37
Alignment explanation
Indices: 211559194--211559323 Score: 188
Period size: 37 Copynumber: 3.5 Consensus size: 37
211559184 CTTATTACGA
* *
211559194 AGTCTTACCCGAACATAATCTCCACATGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
211559231 AGTCTTACCCGGACATAATCTCCACAGGTAGTCATCG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
211559268 GGTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 AGTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
* *
211559306 GGTCTCACCCGGAACATA
1 AGTCTTACCCGG-ACATA
211559324 TTTCCAAGTT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
37 69 0.80
38 12 0.14
39 5 0.06
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:211559418 original size:48 final size:48
Alignment explanation
Indices: 211559363--211559514 Score: 241
Period size: 48 Copynumber: 3.2 Consensus size: 48
211559353 TATTACAACA
211559363 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
211559411 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
211559459 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
211559507 TTCACATT
1 TTCACATT
211559515 CATCACATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:211559559 original size:49 final size:49
Alignment explanation
Indices: 211559506--211559696 Score: 368
Period size: 49 Copynumber: 3.9 Consensus size: 49
211559496 CACACATATA
211559506 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
211559555 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
211559604 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
211559651 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
211559697 TCTCATACAT
Statistics
Matches: 140, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
47 47 0.34
49 93 0.66
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:211559689 original size:96 final size:97
Alignment explanation
Indices: 211559506--211559696 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 97
211559496 CACACATATA
211559506 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
211559571 TCGGCCATTAGGCCTTATCACATATATATACAC
65 TCGGCCATTAGGCCTTATCACATATATATACAC
211559604 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
211559668 CGGCCATTAGGCCTTATCACATATATATA
66 CGGCCATTAGGCCTTATCACATATATATA
211559697 TCTCATACAT
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 56 0.60
98 37 0.40
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (97 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATATACAC
Found at i:211567056 original size:36 final size:34
Alignment explanation
Indices: 211567016--211567104 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 34
211567006 ATATAAGAAT
211567016 TATAATAGATATAATATAAAATAACATGT-AAATATA
1 TATAATA-ATATAATATAAAATAACATGTGAAA-A-A
* *
211567052 TATAATTAATA-AATATATAAT-ATATGTGAAAAA
1 TATAA-TAATATAATATAAAATAACATGTGAAAAA
211567085 TATAATAATAT-ATA-AAAATA
1 TATAATAATATAATATAAAATA
211567105 GTGATAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
31 4 0.09
32 8 0.17
33 6 0.13
34 6 0.13
35 12 0.26
36 8 0.17
37 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (34 bp):
TATAATAATATAATATAAAATAACATGTGAAAAA
Found at i:211567089 original size:18 final size:18
Alignment explanation
Indices: 211567045--211567104 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
211567035 AATAACATGT
211567045 AAATATATATAAT-TAATAA
1 AAATATA-ATAATAT-ATAA
* *
211567064 ATATATAAT-ATATGTGAA
1 AAATATAATAATATAT-AA
211567082 AAATATAATAATATATAA
1 AAATATAATAATATATAA
211567100 AAATA
1 AAATA
211567105 GTGATAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 3 0.09
18 20 0.59
19 11 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATATAATAATATATAA
Found at i:211571856 original size:40 final size:39
Alignment explanation
Indices: 211571820--211571926 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
211571810 ATATCCGGAC
*
211571820 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
211571860 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
211571899 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
211571927 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:211571927 original size:40 final size:40
Alignment explanation
Indices: 211571826--211571964 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
211571816 GGACTAAGAT
* * *
211571826 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
211571865 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
211571905 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
* *
211571945 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
211571965 CGTTATATCC
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.38
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:211571988 original size:79 final size:79
Alignment explanation
Indices: 211571825--211571990 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
211571815 CGGACTAAGA
* * *
211571825 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
211571890 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * *
211571904 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
211571967 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
211571983 TCCGAAGG
1 TCCGAAGG
211571991 TACGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 40 0.56
80 32 0.44
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:211579909 original size:39 final size:39
Alignment explanation
Indices: 211579854--211579991 Score: 181
Period size: 39 Copynumber: 3.5 Consensus size: 39
211579844 GGACTAAGAT
* *
211579854 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
211579893 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
211579933 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGTTAAGTC
* *
211579972 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
211579992 CGTTATATCC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 55 0.62
40 32 0.36
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:211587947 original size:39 final size:40
Alignment explanation
Indices: 211587892--211588062 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 40
211587882 GGACTAAGAT
* *
211587892 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
211587931 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
211587970 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
211588010 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
211588050 CCGAAGGCATTTG
1 CCGAAGGCATTTG
211588063 AGCTAGTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 42 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:211590577 original size:27 final size:27
Alignment explanation
Indices: 211590539--211590607 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
211590529 AAATTTGTAC
*
211590539 AGCACTAAGTGTGCGAGTTTATCATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
211590566 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
211590593 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
211590608 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:211590618 original size:27 final size:27
Alignment explanation
Indices: 211590539--211590619 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
211590529 AAATTTGTAC
* *
211590539 AGCACTAAGTGTGCGAGTTTA-TCATAT
1 AGCACTAAGTGTGCGAGCTCACT-ATAT
* * *
211590566 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
211590593 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
211590620 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:211595762 original size:49 final size:47
Alignment explanation
Indices: 211595690--211595839 Score: 255
Period size: 47 Copynumber: 3.1 Consensus size: 47
211595680 TATTAAAATT
211595690 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
211595737 TGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
211595786 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
211595833 TGTGAAA
1 TGTGAAA
211595840 CATATGTGTG
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 51 0.54
49 44 0.46
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:211595885 original size:48 final size:48
Alignment explanation
Indices: 211595831--211596030 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
211595821 CGATGTGATG
*
211595831 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * *
211595879 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCTGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
211595927 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
211595975 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
211596023 AATGTGAA
1 AATGTGAA
211596031 TGTTGTAACA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:211596124 original size:37 final size:37
Alignment explanation
Indices: 211596070--211596158 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
211596060 AACTTGGAAA
*
211596070 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
211596108 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
211596145 TATGTCCGGGTAAG
1 TATGTCCGGGTAAG
211596159 GCTTCGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:211607788 original size:40 final size:39
Alignment explanation
Indices: 211607743--211607872 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
211607733 CGGAATGCAA
*
211607743 CCGGATATAACCA-TGTGCATGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCA-GAATGCCTTCGGGTCTTAGC
* ** *
211607783 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCA-GAATGCCTTCGGGTCTTAGC
* * * *
211607823 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCAGAA-TGCCTTCGGGTCTTAGC
211607863 CCGGATATAA
1 CCGGATATAA
211607873 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 2 0.03
40 70 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTAGCAGAATGCCTTCGGGTCTTAGC
Found at i:211613262 original size:36 final size:36
Alignment explanation
Indices: 211613222--211613302 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
211613212 AATAATAATT
* * *
211613222 AATTATTCAATAGCAATCGGT-TATTCAGTAACGGTC
1 AATTATTCAATAACAATCAGTCT-TTCAGTAACAGTC
* * *
211613258 AATTATTCAGTAACAGTCAGTCTTTCAGTAATAGTC
1 AATTATTCAATAACAATCAGTCTTTCAGTAACAGTC
211613294 AATTATTCA
1 AATTATTCA
211613303 GTACATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (36 bp):
AATTATTCAATAACAATCAGTCTTTCAGTAACAGTC
Found at i:211613263 original size:18 final size:18
Alignment explanation
Indices: 211613242--211613305 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
211613232 TAGCAATCGG
*
211613242 TTATTCAGTAACGGTCAA
1 TTATTCAGTAACAGTCAA
*
211613260 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
*
211613278 TCT-TTCAGTAATAGTCAA
1 T-TATTCAGTAACAGTCAA
211613296 TTATTCAGTA
1 TTATTCAGTA
211613306 CATTTATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
17 1 0.03
18 38 0.95
19 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:211613721 original size:18 final size:19
Alignment explanation
Indices: 211613698--211613734 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
211613688 TAAGCTAATC
*
211613698 ATATATAT-TTTCAGTTCA
1 ATATATATATTTCAATTCA
211613716 ATATATATATTTCAATTCA
1 ATATATATATTTCAATTCA
211613735 CTTTACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (19 bp):
ATATATATATTTCAATTCA
Found at i:211616202 original size:50 final size:51
Alignment explanation
Indices: 211616122--211616250 Score: 163
Period size: 50 Copynumber: 2.5 Consensus size: 51
211616112 GACCATGGCA
* * * *
211616122 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTG
1 ACAAATGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATG
*
211616173 A-AAATGATAAGTGATAGCTTTGGCTACACTTATCTGATCAATGACAAATG
1 ACAAATGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATG
* * *
211616223 ACAAGTGAAAAGTGGTAG-TTTCGGCTAC
1 ACAAATGATAAGTGATAGCTTT-GGCTAC
211616251 CTGATCAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 48 0.71
51 20 0.29
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
ACAAATGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATG
Found at i:211616264 original size:31 final size:31
Alignment explanation
Indices: 211616226--211616374 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
211616216 ACAAATGACA
*
211616226 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
211616257 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
211616288 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
211616319 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
211616350 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
211616375 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:211616545 original size:48 final size:48
Alignment explanation
Indices: 211616474--211616604 Score: 159
Period size: 42 Copynumber: 2.9 Consensus size: 48
211616464 GCATCAGTGA
*
211616474 GATATGTGATTCGTGTAAAACCATAGCT-GACTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAAACCATAGCTGGACTATGGCATCGATATAT
* *
211616521 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAAACCATAGCTGGACTATGGCATCGATATAT
* *
211616570 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTCGTGTAAAACCATAGCTGGACTATGGCATC
211616605 ATTATGTGAA
Statistics
Matches: 79, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
42 29 0.37
44 1 0.01
45 1 0.01
46 1 0.01
47 11 0.14
48 17 0.22
49 19 0.24
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAAACCATAGCTGGACTATGGCATCGATATAT
Found at i:211616580 original size:42 final size:43
Alignment explanation
Indices: 211616534--211616648 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
211616524 ATGTGATTAC
*
211616534 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
211616576 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
211616618 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
211616649 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:211617931 original size:20 final size:18
Alignment explanation
Indices: 211617895--211617939 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
211617885 AAACATTCAA
211617895 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
211617913 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
211617933 -TTTCCCT
1 TTTTCCCT
211617940 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:211618014 original size:2 final size:2
Alignment explanation
Indices: 211618009--211618035 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
211617999 TCATTTGTTT
211618009 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
211618036 TTATGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:211622760 original size:26 final size:26
Alignment explanation
Indices: 211622709--211622815 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
211622699 TGAAATGTCC
*
211622709 ATCATGGAACATTTA-CTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
211622734 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
211622760 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
211622786 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
211622812 ATCA
1 ATCA
211622816 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 15 0.20
26 61 0.80
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:211630581 original size:40 final size:40
Alignment explanation
Indices: 211630522--211630729 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
211630512 CAATTGAATG
* * * *
211630522 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
211630562 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
211630602 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
211630642 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
211630682 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
211630722 ATATCCGG
1 ATATCCGG
211630730 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:211630660 original size:80 final size:80
Alignment explanation
Indices: 211630523--211630729 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
211630513 AATTGAATGA
* * ** * * *
211630523 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
211630588 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
211630601 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
211630666 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
211630683 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
211630730 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:211638726 original size:40 final size:40
Alignment explanation
Indices: 211638667--211638874 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
211638657 CAATTGAATG
* * * *
211638667 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
211638707 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
211638747 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
211638787 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
211638827 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
211638867 ATATCCGG
1 ATATCCGG
211638875 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:211638805 original size:80 final size:80
Alignment explanation
Indices: 211638668--211638874 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
211638658 AATTGAATGA
* * ** * * *
211638668 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
211638733 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
211638746 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
211638811 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
211638828 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
211638875 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:211646545 original size:39 final size:39
Alignment explanation
Indices: 211646464--211646653 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
211646454 TATGGTAACC
* * * *
211646464 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
211646504 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
211646543 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
211646582 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
211646620 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
211646654 CTCGAACATT
Statistics
Matches: 143, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 38 0.27
39 88 0.62
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:211646648 original size:77 final size:78
Alignment explanation
Indices: 211646464--211646654 Score: 330
Period size: 77 Copynumber: 2.4 Consensus size: 78
211646454 TATGGTAACC
* *
211646464 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
211646529 CGGGTATCATAGCT
65 CGGGTATCATAGCT
* *
211646543 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
211646608 -GGTATCATAGCT
66 GGGTATCATAGCT
211646620 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
211646655 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 46 0.43
78 44 0.41
79 17 0.16
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGGTATCATAGCT
Found at i:211648978 original size:17 final size:18
Alignment explanation
Indices: 211648936--211648984 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
211648926 AGTTGAAAAG
211648936 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
211648955 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
211648972 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
211648985 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:211649871 original size:40 final size:40
Alignment explanation
Indices: 211649805--211649971 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
211649795 AAATTGAATG
* * *
211649805 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
211649844 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
211649884 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
211649924 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
211649964 ATATCCGG
1 ATATCCGG
211649972 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:211660238 original size:35 final size:35
Alignment explanation
Indices: 211660192--211660261 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
211660182 TTAATCGTTC
211660192 TTGAAACTAACTATTATAGCGATGTAGGCAAGTGT
1 TTGAAACTAACTATTATAGCGATGTAGGCAAGTGT
211660227 TTGAAACTAACTATTATAGCGATGTAGGCAAGTGT
1 TTGAAACTAACTATTATAGCGATGTAGGCAAGTGT
211660262 ACCTATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (35 bp):
TTGAAACTAACTATTATAGCGATGTAGGCAAGTGT
Found at i:211662424 original size:40 final size:39
Alignment explanation
Indices: 211662265--211662426 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
211662255 TGTGTATGAA
*
211662265 TGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
211662303 TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
211662342 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
211662381 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
211662421 TGTGCG
1 TGTGCG
211662427 GGTTACCATA
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 18 0.16
39 76 0.68
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:211662442 original size:40 final size:40
Alignment explanation
Indices: 211662284--211662462 Score: 148
Period size: 39 Copynumber: 4.5 Consensus size: 40
211662274 TGTGATATCC
* *** *
211662284 GGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCG
* * * * ** *
211662323 GGCTAAG-CCCAAAGGCAATGGTGCGAGCTATGATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCG
* *** *
211662362 GGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCG
* *
211662401 GGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCG
* *
211662441 GGCTATGTCCCGAAGGCGTTTG
1 GGCTAAGTCCCGAAGGCATTTG
211662463 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 76 0.63
40 45 0.37
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCG
Found at i:211671120 original size:40 final size:39
Alignment explanation
Indices: 211670970--211671122 Score: 261
Period size: 39 Copynumber: 3.9 Consensus size: 39
211670960 GAATGTGCGA
211670970 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
211671009 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
211671048 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
211671087 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
211671123 GGTTACCATA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:211671138 original size:40 final size:39
Alignment explanation
Indices: 211670971--211671153 Score: 258
Period size: 39 Copynumber: 4.6 Consensus size: 39
211670961 AATGTGCGAG
*
211670971 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
211671010 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
211671049 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
211671088 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
211671128 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
211671154 GTTTGAACGA
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:211671180 original size:79 final size:78
Alignment explanation
Indices: 211670977--211671191 Score: 227
Period size: 78 Copynumber: 2.7 Consensus size: 78
211670967 CGAGTGATAT
** * *
211670977 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
211671042 CGAGCTATGATAT
66 CGAGCTACCATAA
** * *
211671055 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
211671120 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
211671134 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
211671192 TATGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 49 0.41
79 45 0.38
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:211678988 original size:39 final size:39
Alignment explanation
Indices: 211678934--211679096 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
211678924 TGTGTATGAA
*
211678934 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
211678973 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
211679012 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
211679051 TGTGCAAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
211679091 TGTGCG
1 TGTGCG
211679097 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 96 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:211679112 original size:40 final size:39
Alignment explanation
Indices: 211678934--211679127 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
211678924 TGTGTATGAA
* *
211678934 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
211678973 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
211679012 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
211679051 TGTGCAAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
211679091 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
211679128 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:211681110 original size:31 final size:31
Alignment explanation
Indices: 211681062--211681147 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
211681052 TCAATCTCAG
211681062 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCTGAAGCCTTTACATTATT
* * *
211681092 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCTGAAGCCTTTACATTATT
211681123 CATATCACTGGGCTGAAGCCTTTAC
1 CATATCACTGGGCTGAAGCCTTTAC
211681148 TGTAAACGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCTGAAGCCTTTACATTATT
Found at i:211681334 original size:25 final size:25
Alignment explanation
Indices: 211681292--211681374 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 25
211681282 CTGAAGGCCT
211681292 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
211681316 AGACCTTTTCAATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
**
211681341 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
211681366 AGCCCTTTT
1 AGCCCTTTT
211681375 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.09
24 6 0.11
25 42 0.79
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:211681438 original size:11 final size:11
Alignment explanation
Indices: 211681422--211681470 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
211681412 TATATGAATT
211681422 TATCATGTGCA
1 TATCATGTGCA
*
211681433 TATCA--TACA
1 TATCATGTGCA
211681442 TATCATGTGCA
1 TATCATGTGCA
211681453 TATCATGT-CA
1 TATCATGTGCA
*
211681463 AATCATGT
1 TATCATGT
211681471 ATATCAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:211683475 original size:24 final size:24
Alignment explanation
Indices: 211683448--211683545 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
211683438 AAGGCTGTCA
211683448 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
211683472 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
211683496 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
211683520 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
211683545 G
1 G
211683546 AGTAGGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:211684846 original size:26 final size:26
Alignment explanation
Indices: 211684794--211684846 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
211684784 TTTACAGTTT
* *
211684794 TACCCCTAGGAGATAAAGTATCGAAA
1 TACCCCTAGGAGATAAACTACCGAAA
*
211684820 TACCCCTAGGAG-TAAACTGACCTAAA
1 TACCCCTAGGAGATAAACT-ACCGAAA
211684846 T
1 T
211684847 GCATGTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (26 bp):
TACCCCTAGGAGATAAACTACCGAAA
Found at i:211685234 original size:33 final size:34
Alignment explanation
Indices: 211685157--211685237 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
211685147 TATGGGTCAT
*
211685157 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
211685191 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
211685224 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
211685238 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:211685242 original size:32 final size:31
Alignment explanation
Indices: 211685157--211685248 Score: 76
Period size: 32 Copynumber: 2.8 Consensus size: 31
211685147 TATGGGTCAT
*
211685157 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
211685191 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
211685224 ACTGTTATCTGAATGGGCTTAGGCC
1 ACTGTTATCTGAATGGGCTAAGGCC
211685249 AAATGGGCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
32 24 0.53
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:211689989 original size:47 final size:47
Alignment explanation
Indices: 211689921--211690131 Score: 368
Period size: 47 Copynumber: 4.5 Consensus size: 47
211689911 CCTGTATATA
* *
211689921 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
211689968 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
211690015 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
211690062 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* *
211690109 TATATGTGGTAAGGCCGAATGGC
1 TATGTGTGATAAGGCCGAATGGC
211690132 TGTGTATGAG
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:211690258 original size:2 final size:2
Alignment explanation
Indices: 211690251--211690277 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
211690241 GTATGAGATG
211690251 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
211690278 GTGGCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:211693038 original size:40 final size:40
Alignment explanation
Indices: 211692537--211693019 Score: 849
Period size: 40 Copynumber: 12.1 Consensus size: 40
211692527 AGTTGTATAG
* * * *
211692537 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692577 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
211692617 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
211692657 CCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692697 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692737 CCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692777 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
211692817 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
211692857 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692897 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692937 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
211692977 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
211693017 CCG
1 CCG
211693020 AGCTGGGTCC
Statistics
Matches: 426, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 426 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:211696559 original size:47 final size:47
Alignment explanation
Indices: 211696491--211696706 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
211696481 CCTGTATATA
* *
211696491 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
211696538 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
211696585 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
211696632 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
211696679 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
211696707 CGAAATGTGT
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:211696746 original size:46 final size:46
Alignment explanation
Indices: 211696680--211696769 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
211696670 GAACATGTAT
* * *
211696680 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
211696726 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
211696770 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:211700018 original size:29 final size:29
Alignment explanation
Indices: 211699984--211700115 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
211699974 TACTCGATTT
** * *
211699984 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
211700013 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
211700042 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
211700071 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211700100 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
211700116 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:211706573 original size:29 final size:29
Alignment explanation
Indices: 211706539--211706670 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
211706529 TACTCGATTT
** * *
211706539 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
211706568 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
211706597 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
211706626 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
211706655 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
211706671 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:211712853 original size:40 final size:40
Alignment explanation
Indices: 211712808--211712975 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
211712798 CGGAATACAA
211712808 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
211712848 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
211712888 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
211712928 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
211712968 CCGGATAT
1 CCGGATAT
211712976 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:211717409 original size:28 final size:28
Alignment explanation
Indices: 211717348--211717445 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
211717338 TCACAAATTG
** * *
211717348 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
211717377 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
211717405 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
211717433 GCACTAAGTGTGC
1 GCACTAAGTGTGC
211717446 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:211725075 original size:28 final size:28
Alignment explanation
Indices: 211725014--211725111 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
211725004 TCACAAATTG
** * *
211725014 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
211725043 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
211725071 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
211725099 GCACTAAGTGTGC
1 GCACTAAGTGTGC
211725112 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:211729506 original size:2 final size:2
Alignment explanation
Indices: 211729501--211729544 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
211729491 AAAAAGGTTG
* * *
211729501 AT AT AT AC AT AT AT AT AT AC AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
211729543 AT
1 AT
211729545 TTCTGGTAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:211729518 original size:12 final size:12
Alignment explanation
Indices: 211729501--211729544 Score: 70
Period size: 12 Copynumber: 3.5 Consensus size: 12
211729491 AAAAAGGTTG
211729501 ATATATACATAT
1 ATATATACATAT
211729513 ATATATACATATAT
1 ATATATAC--ATAT
211729527 ATATATACATAT
1 ATATATACATAT
211729539 ATATAT
1 ATATAT
211729545 TTCTGGTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.60
14 12 0.40
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATACATAT
Found at i:211729526 original size:14 final size:14
Alignment explanation
Indices: 211729501--211729544 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
211729491 AAAAAGGTTG
211729501 ATATATAC--ATAT
1 ATATATACATATAT
211729513 ATATATACATATAT
1 ATATATACATATAT
211729527 ATATATACATATAT
1 ATATATACATATAT
211729541 ATAT
1 ATAT
211729545 TTCTGGTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.27
14 22 0.73
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATACATATAT
Found at i:211732098 original size:40 final size:40
Alignment explanation
Indices: 211731996--211732179 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
211731986 AAATTGAATG
* * * * *
211731996 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
211732036 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
211732076 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
211732116 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
211732156 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
211732180 CTTGGTGTGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:211740089 original size:39 final size:40
Alignment explanation
Indices: 211740031--211740131 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
211740021 AAATTGAATG
* *
211740031 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
211740070 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
211740110 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
211740132 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:211740124 original size:40 final size:40
Alignment explanation
Indices: 211740031--211740213 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
211740021 AAATTGAATG
* * * * *
211740031 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
211740070 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
211740110 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
211740150 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
211740190 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
211740214 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:211743850 original size:30 final size:30
Alignment explanation
Indices: 211743816--211743876 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
211743806 TCCTTAACTC
211743816 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
211743846 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
211743876 A
1 A
211743877 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:211750955 original size:40 final size:40
Alignment explanation
Indices: 211750847--211751056 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
211750837 CGGGATTTAA
* * * * *
211750847 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
211750887 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
211750927 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
211750967 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
211751007 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
211751047 CCGGATATAT
1 CCGGATATAT
211751057 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:211758930 original size:14 final size:14
Alignment explanation
Indices: 211758911--211758938 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
211758901 TTTGGAAGTG
211758911 TATATATATACATA
1 TATATATATACATA
211758925 TATATATATACATA
1 TATATATATACATA
211758939 AGTATGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATACATA
Found at i:211759468 original size:27 final size:28
Alignment explanation
Indices: 211759409--211759481 Score: 130
Period size: 27 Copynumber: 2.6 Consensus size: 28
211759399 TTAAAATTGG
*
211759409 TATACCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGATTA
211759437 TATAGCACTAAGTGTGCGAG-TTGATTA
1 TATAGCACTAAGTGTGCGAGTTTGATTA
211759464 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
211759482 GAATCACTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTTGATTA
Found at i:211764055 original size:40 final size:39
Alignment explanation
Indices: 211763887--211764057 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
211763877 AGAAATTGAA
* *
211763887 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
211763927 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
211763967 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
211764007 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
211764047 TGATATCCGGG
1 TGATATCCGGG
211764058 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Done.