Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 272 of 328
Found at i:81412084 original size:29 final size:29
Alignment explanation
Indices: 81412025--81412087 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
81412015 ATACTTTTAT
** **
81412025 AAAATGTCCAATGTGGTATTTTTACTCTG
1 AAAATGTCCAATGTGGTACATGCACTCTG
*
81412054 AAAATGTCCAATGTGGTACATGCACTTTG
1 AAAATGTCCAATGTGGTACATGCACTCTG
81412083 AAAAT
1 AAAAT
81412088 CCTTATTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (29 bp):
AAAATGTCCAATGTGGTACATGCACTCTG
Found at i:81413087 original size:63 final size:62
Alignment explanation
Indices: 81413000--81413119 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 62
81412990 ACAGTATTAG
* *
81413000 CACAACTCAAAATCTAGGCCAATAAATTGTCAATAACTCAAATATGGACACAGGCTTATCAA
1 CACAACCCAAAATCTAGGCCAATAAATTGTCAATAACTCAAATATGGACACAAGCTTATCAA
* *
81413062 CACAACCCAAAAATCTAGGCTAATAAATTGTCATTAACTCAAATATGGACACAAGCTT
1 CACAACCC-AAAATCTAGGCCAATAAATTGTCAATAACTCAAATATGGACACAAGCTT
81413120 TTTCGTCACA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 7 0.13
63 46 0.87
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (62 bp):
CACAACCCAAAATCTAGGCCAATAAATTGTCAATAACTCAAATATGGACACAAGCTTATCAA
Found at i:81415834 original size:20 final size:22
Alignment explanation
Indices: 81415802--81415867 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 22
81415792 AAATATTTCA
**
81415802 ATAAATAAAAAATAAAAATA-T
1 ATAAATATTAAATAAAAATAGT
*
81415823 -TAAATATTAAATTAAAATAGT
1 ATAAATATTAAATAAAAATAGT
*
81415844 ATAAATATT-TA-AAAAATAGT
1 ATAAATATTAAATAAAAATAGT
81415864 ATAA
1 ATAA
81415868 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
20 28 0.74
21 2 0.05
22 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (22 bp):
ATAAATATTAAATAAAAATAGT
Found at i:81421686 original size:54 final size:54
Alignment explanation
Indices: 81421604--81421720 Score: 173
Period size: 54 Copynumber: 2.2 Consensus size: 54
81421594 AAATATGGGT
* *
81421604 TGGTAATCCCACCATTACTCTGTGAGCTTATGTTATAAGGGATTTAGCCTAGAC
1 TGGTAATCCCACCATTACTCTATGAGCTTATGTTATAAGGGATTTAGACTAGAC
**
81421658 TGGTAATCCCGA-CATTACTCTATGAGCTTATGTTATGGGGGATTTAGACTAGAC
1 TGGTAATCCC-ACCATTACTCTATGAGCTTATGTTATAAGGGATTTAGACTAGAC
*
81421712 TAGTAATCC
1 TGGTAATCC
81421721 TGCCGTAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
TGGTAATCCCACCATTACTCTATGAGCTTATGTTATAAGGGATTTAGACTAGAC
Found at i:81424516 original size:40 final size:40
Alignment explanation
Indices: 81424461--81424602 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
81424451 TATTTGGATG
*
81424461 ATATCTGGGCTAAGTCCTGAAGGCATTTATGCTAGTGACT
1 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
81424501 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
** * *
81424541 ATATCCAGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CT
1 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
* *
81424581 ATATC-CGGCTAATTCCCGAAGG
1 ATATCTGGGCTAAGTCCCGAAGG
81424603 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 14 0.15
40 75 0.82
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:81432530 original size:40 final size:40
Alignment explanation
Indices: 81432475--81432696 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
81432465 TATTCGGATG
* *
81432475 ATATCCGGGCTAAGTCCCGAAGGTATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
81432515 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
81432555 ATATCCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
81432595 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
81432635 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
81432675 ATAT-CTGGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
81432697 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.09
40 151 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:81435700 original size:15 final size:15
Alignment explanation
Indices: 81435668--81435696 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
81435658 ATTTTCTGTG
81435668 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
81435683 TTTATTA-GTGTGAA
1 TTTATTATGTGTGAA
81435697 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:81442638 original size:40 final size:40
Alignment explanation
Indices: 81442593--81442759 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
81442583 CGGAATATAA
81442593 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
81442633 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
81442673 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
81442713 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
81442752 CCGGATAT
1 CCGGATAT
81442760 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:81442743 original size:80 final size:79
Alignment explanation
Indices: 81442593--81442759 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
81442583 CGGAATATAA
* *
81442593 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
81442658 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
81442673 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
81442735 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
81442752 CCGGATAT
1 CCGGATAT
81442760 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:81443607 original size:17 final size:19
Alignment explanation
Indices: 81443584--81443629 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
81443574 AAGAAGCATG
81443584 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
81443602 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
81443620 AATCATGCTC
1 AATCATGCTC
81443630 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:81450652 original size:40 final size:40
Alignment explanation
Indices: 81450607--81450773 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
81450597 CGGAATATAA
81450607 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
81450647 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
81450687 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
81450727 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
81450766 CCGGATAT
1 CCGGATAT
81450774 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:81450757 original size:80 final size:79
Alignment explanation
Indices: 81450607--81450773 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
81450597 CGGAATATAA
* *
81450607 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
81450672 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
81450687 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
81450749 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
81450766 CCGGATAT
1 CCGGATAT
81450774 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:81451621 original size:17 final size:19
Alignment explanation
Indices: 81451598--81451643 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
81451588 AAGAAGCATG
81451598 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
81451616 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
81451634 AATCATGCTC
1 AATCATGCTC
81451644 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:81452992 original size:57 final size:57
Alignment explanation
Indices: 81452854--81453010 Score: 201
Period size: 57 Copynumber: 2.8 Consensus size: 57
81452844 TATCATATAA
* * ** *
81452854 TAGGATTACCAGTTCAGGCTAAATCCTATCTCCAACATATGCTCACAAGAGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTTTCTGTAACATATGCTCACAAGAGCTCAAT
* *
81452911 TAGGATTACCAGTCCAAGCTAAATCCTTTCTGTAACATATGCTCAGAAGAGCTCAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTTTCTGTAACATATGCTCACAAGAGCTCAAT
**
81452968 TAGGATTACCAGTCCAGGAAAAAT-CTTAAT-TGTAACATATGCT
1 TAGGATTACCAGTCCAGGCTAAATCCTT--TCTGTAACATATGCT
81453011 TGAGAGGGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
56 3 0.03
57 84 0.95
58 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (57 bp):
TAGGATTACCAGTCCAGGCTAAATCCTTTCTGTAACATATGCTCACAAGAGCTCAAT
Found at i:81453233 original size:8 final size:8
Alignment explanation
Indices: 81453220--81453245 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
81453210 TCTCATATAT
81453220 TTATGCAA
1 TTATGCAA
81453228 TTATGCAA
1 TTATGCAA
81453236 TTATGCAA
1 TTATGCAA
81453244 TT
1 TT
81453246 CAAATGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (8 bp):
TTATGCAA
Found at i:81458928 original size:18 final size:18
Alignment explanation
Indices: 81458907--81458968 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
81458897 GCATATAATG
*
81458907 CTTAGTAAGTCCGTATAA
1 CTTAGTAAGTCTGTATAA
81458925 CTTAGTAAGTCTGTATAA
1 CTTAGTAAGTCTGTATAA
81458943 CTTAGTAAGTCTGTATAA
1 CTTAGTAAGTCTGTATAA
*
81458961 CTTGGTAA
1 CTTAGTAA
81458969 TTAATTTACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (18 bp):
CTTAGTAAGTCTGTATAA
Found at i:81459151 original size:141 final size:141
Alignment explanation
Indices: 81458974--81459257 Score: 550
Period size: 141 Copynumber: 2.0 Consensus size: 141
81458964 GGTAATTAAT
81458974 TTACCAACTATTCATATTAAAGATAAACATGTAAATCAGAATCAACCATTTGATCCCAAGCCCTA
1 TTACCAACTATTCATATTAAAGATAAACATGTAAATCAGAATCAACCATTTGATCCCAAGCCCTA
81459039 ACACATATTCTCATCACCCTTGTTAGTAACTGATTTTATATAAACATCAAGAAACACATATATGA
66 ACACATATTCTCATCACCCTTGTTAGTAACTGATTTTATATAAACATCAAGAAACACATATATGA
81459104 GCCCAACAATA
131 GCCCAACAATA
81459115 TTACCAACTATTCATATTAAAGATAAACATGTAAATCAGAATCAACCATTTGATCCCAAGCCCTA
1 TTACCAACTATTCATATTAAAGATAAACATGTAAATCAGAATCAACCATTTGATCCCAAGCCCTA
* *
81459180 ACATATATTCTCATCACCCTTGTTAGTAACTTATTTTATATAAACATCAAGAAACACATATATGA
66 ACACATATTCTCATCACCCTTGTTAGTAACTGATTTTATATAAACATCAAGAAACACATATATGA
81459245 GCCCAACAATA
131 GCCCAACAATA
81459256 TT
1 TT
81459258 CGGATTCTCA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (141 bp):
TTACCAACTATTCATATTAAAGATAAACATGTAAATCAGAATCAACCATTTGATCCCAAGCCCTA
ACACATATTCTCATCACCCTTGTTAGTAACTGATTTTATATAAACATCAAGAAACACATATATGA
GCCCAACAATA
Found at i:81477660 original size:25 final size:27
Alignment explanation
Indices: 81477632--81477690 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
81477622 TTGAGGCCTT
81477632 GCCTCTTTT-AAT-AACTGGGGCATAA
1 GCCTCTTTTCAATAAACTGGGGCATAA
**
81477657 GCCT-TTTTCGGTAAACTGGGGCATAA
1 GCCTCTTTTCAATAAACTGGGGCATAA
81477683 GCC-CTTTT
1 GCCTCTTTT
81477691 GCACTTCCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 5 0.17
26 20 0.69
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (27 bp):
GCCTCTTTTCAATAAACTGGGGCATAA
Found at i:81477765 original size:20 final size:20
Alignment explanation
Indices: 81477740--81477806 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
81477730 TTATGAATAC
81477740 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
81477760 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
81477780 GTCATGTGCATATCGTATCA-
1 ATCATGTGCATATCATA-CAT
81477800 ATCATGT
1 ATCATGT
81477807 ATATCAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:81477771 original size:11 final size:11
Alignment explanation
Indices: 81477740--81477793 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
81477730 TTATGAATAC
81477740 ATCATGTGCAT
1 ATCATGTGCAT
*
81477751 ATCA--TACAT
1 ATCATGTGCAT
81477760 ATCATGTGCAT
1 ATCATGTGCAT
*
81477771 ATCA--TACAT
1 ATCATGTGCAT
*
81477780 GTCATGTGCAT
1 ATCATGTGCAT
81477791 ATC
1 ATC
81477794 GTATCAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:81484621 original size:28 final size:27
Alignment explanation
Indices: 81484555--81484624 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
81484545 ATAGTGAGTC
*
81484555 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
81484582 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
81484610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
81484625 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:81488281 original size:68 final size:70
Alignment explanation
Indices: 81488209--81488406 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
81488199 ACACCCTGTA
* * * *
81488209 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
81488271 ATAAAT
65 ATAAAT
*
81488277 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
81488342 ATAAAT
65 ATAAAT
*
81488348 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
81488407 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:81488320 original size:41 final size:41
Alignment explanation
Indices: 81488275--81488392 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
81488265 TGAAAGATAA
81488275 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
81488316 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81488346 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81488387 ATGTAG
1 ATGTAG
81488393 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:81488332 original size:71 final size:71
Alignment explanation
Indices: 81488243--81488406 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
81488233 GAGATGTATC
81488243 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81488308 AGGACA
66 AGGACA
81488314 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81488379 AGGACA
66 AGGACA
81488385 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
81488407 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:81494677 original size:68 final size:70
Alignment explanation
Indices: 81494605--81494802 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
81494595 ACACCCTGTA
* * * *
81494605 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
81494667 ATAAAT
65 ATAAAT
*
81494673 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
81494738 ATAAAT
65 ATAAAT
*
81494744 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
81494803 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:81494716 original size:41 final size:41
Alignment explanation
Indices: 81494671--81494788 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
81494661 TGAAAGATAA
81494671 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
81494712 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81494742 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81494783 ATGTAG
1 ATGTAG
81494789 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:81494728 original size:71 final size:71
Alignment explanation
Indices: 81494639--81494802 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
81494629 GAGATGTATC
81494639 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81494704 AGGACA
66 AGGACA
81494710 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81494775 AGGACA
66 AGGACA
81494781 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
81494803 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:81501862 original size:28 final size:27
Alignment explanation
Indices: 81501796--81501865 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
81501786 ATAGTGAGTC
*
81501796 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
81501823 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
81501851 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
81501866 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:81505978 original size:32 final size:32
Alignment explanation
Indices: 81505942--81506006 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
81505932 CCTTTTCATA
*
81505942 TTTCATAT-TCCATAACACTGGGCTGAAGCCTT
1 TTTCATATCT-CATAACACTGGGCCGAAGCCTT
**
81505974 TTTCATATCTCATATTACTGGGCCGAAGCCTT
1 TTTCATATCTCATAACACTGGGCCGAAGCCTT
81506006 T
1 T
81506007 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (32 bp):
TTTCATATCTCATAACACTGGGCCGAAGCCTT
Found at i:81506348 original size:20 final size:20
Alignment explanation
Indices: 81506323--81506389 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
81506313 TTATGAATAC
81506323 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
81506343 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
81506363 GTCATGTTCATATCGTATCA-
1 ATCATGTGCATATCATA-CAT
81506383 ATCATGT
1 ATCATGT
81506390 ATATCAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:81524446 original size:33 final size:33
Alignment explanation
Indices: 81524399--81524464 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
81524389 GGCTAGACAG
*
81524399 AGATGGTGTTTAGTAGATGAGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
*
81524432 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
81524465 TATGATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (33 bp):
AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
Found at i:81525664 original size:31 final size:31
Alignment explanation
Indices: 81525582--81525653 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
81525572 TTAACAGCCT
* *
81525582 AGTGACTTAAA-AAAAACTTTTGAATAATTC
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
* *
81525612 AGTGACTTAAATGAAAATTTTTGAATAGTTT
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
81525643 AGTGAC-TAAAT
1 AGTGACTTAAAT
81525654 TGTAACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATGAAAATTTTTGAATAATTC
Found at i:81527129 original size:40 final size:40
Alignment explanation
Indices: 81527084--81527250 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
81527074 CGGAATATAA
81527084 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
81527124 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
81527164 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
81527204 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
81527243 CCGGATAT
1 CCGGATAT
81527251 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:81528518 original size:58 final size:58
Alignment explanation
Indices: 81528446--81528557 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
81528436 CCCCCTTTTC
81528446 CCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTCTTT
1 CCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAACAAATTTTTTTCTTTTCTTT
*** **
81528504 CCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTTT
1 CCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTT
81528558 TTTTTTCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 43 0.91
59 4 0.09
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (58 bp):
CCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTTCTTT
Found at i:81530152 original size:19 final size:19
Alignment explanation
Indices: 81530128--81530167 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
81530118 ACTATAATTC
81530128 ATGAAGGACCAAGTTAGAA
1 ATGAAGGACCAAGTTAGAA
81530147 ATGAAGGACCAAGTTAGAA
1 ATGAAGGACCAAGTTAGAA
81530166 AT
1 AT
81530168 AATGCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.25, T:0.17
Consensus pattern (19 bp):
ATGAAGGACCAAGTTAGAA
Found at i:81532709 original size:31 final size:31
Alignment explanation
Indices: 81532674--81532757 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
81532664 CATTTAATTA
81532674 AAAAAGTTACAATTT-AGTCACTAAACTATTC
1 AAAAAGTTAC-ATTTAAGTCACTAAACTATTC
* * * *
81532705 AAAAATTTTCATTTAAGTCACTGAATTATTC
1 AAAAAGTTACATTTAAGTCACTAAACTATTC
***
81532736 -AAAAGTTTTTTTTAAGTCACTA
1 AAAAAGTTACATTTAAGTCACTA
81532758 GGCTGTTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 22 0.50
31 22 0.50
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.39
Consensus pattern (31 bp):
AAAAAGTTACATTTAAGTCACTAAACTATTC
Found at i:81532719 original size:30 final size:30
Alignment explanation
Indices: 81532685--81532757 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
81532675 AAAAGTTACA
81532685 ATTT-AGTCACTAAACTATTCAAAAATTTT
1 ATTTAAGTCACTAAACTATTCAAAAATTTT
* * *
81532714 CATTTAAGTCACTGAATTATTCAAAAGTTTT
1 -ATTTAAGTCACTAAACTATTCAAAAATTTT
*
81532745 TTTTAAGTCACTA
1 ATTTAAGTCACTA
81532758 GGCTGTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTTAAGTCACTAAACTATTCAAAAATTTT
Found at i:81533906 original size:14 final size:14
Alignment explanation
Indices: 81533887--81533938 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
81533877 TATCCTACCC
81533887 CCATCTACTACACA
1 CCATCTACTACACA
*
81533901 CCATCTACATATCCTACC
1 CCATCTAC-TA--C-ACA
*
81533919 CCATCTACTAAACA
1 CCATCTACTACACA
81533933 CCATCT
1 CCATCT
81533939 CTGTCTAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 16 0.52
15 2 0.06
17 3 0.10
18 10 0.32
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (14 bp):
CCATCTACTACACA
Found at i:81533924 original size:18 final size:18
Alignment explanation
Indices: 81533874--81533926 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
81533864 CATAATCATA
81533874 ACATATCCTACCCCCATCT
1 ACATATCCTA-CCCCATCT
*
81533893 AC-TA--C-ACACCATCT
1 ACATATCCTACCCCATCT
81533907 ACATATCCTACCCCATCT
1 ACATATCCTACCCCATCT
81533925 AC
1 AC
81533927 TAAACACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 1 0.04
17 1 0.04
18 12 0.43
19 2 0.07
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (18 bp):
ACATATCCTACCCCATCT
Found at i:81533926 original size:32 final size:33
Alignment explanation
Indices: 81533874--81533938 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
81533864 CATAATCATA
*
81533874 ACATATCCTACCCCCATCTACTACACACCATCT
1 ACATATCCTACCCCCATCTACTAAACACCATCT
81533907 ACATATCCTA-CCCCATCTACTAAACACCATCT
1 ACATATCCTACCCCCATCTACTAAACACCATCT
81533939 CTGTCTAGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.25
Consensus pattern (33 bp):
ACATATCCTACCCCCATCTACTAAACACCATCT
Found at i:81537609 original size:58 final size:59
Alignment explanation
Indices: 81537512--81537624 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
81537502 TAGGAAAAAA
81537512 AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
81537571 AAAAG-AAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
81537625 GAAAAGGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.04
58 37 0.79
59 8 0.17
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (59 bp):
AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:81538886 original size:40 final size:40
Alignment explanation
Indices: 81538820--81538986 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
81538810 AAATTGAATG
* * *
81538820 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
81538859 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
81538899 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
81538939 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
81538979 ATATCCGG
1 ATATCCGG
81538987 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:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:81540441 original size:31 final size:31
Alignment explanation
Indices: 81540406--81540489 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
81540396 CATTTAATTA
81540406 AAAAAGTTACAATTT-AGTCACTAAACTATTC
1 AAAAAGTTAC-ATTTAAGTCACTAAACTATTC
* * * *
81540437 AAAAATTTTCATTTAAGTCACTGAATTATTC
1 AAAAAGTTACATTTAAGTCACTAAACTATTC
***
81540468 -AAAAGTTTTTTTTAAGTCACTA
1 AAAAAGTTACATTTAAGTCACTA
81540490 GGCTGTTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 22 0.50
31 22 0.50
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.39
Consensus pattern (31 bp):
AAAAAGTTACATTTAAGTCACTAAACTATTC
Found at i:81540451 original size:30 final size:30
Alignment explanation
Indices: 81540417--81540489 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
81540407 AAAAGTTACA
81540417 ATTT-AGTCACTAAACTATTCAAAAATTTT
1 ATTTAAGTCACTAAACTATTCAAAAATTTT
* * *
81540446 CATTTAAGTCACTGAATTATTCAAAAGTTTT
1 -ATTTAAGTCACTAAACTATTCAAAAATTTT
*
81540477 TTTTAAGTCACTA
1 ATTTAAGTCACTA
81540490 GGCTGTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTTAAGTCACTAAACTATTCAAAAATTTT
Found at i:81541648 original size:33 final size:33
Alignment explanation
Indices: 81541606--81541671 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
81541596 CATAATCATA
*
81541606 ACATATCCTACCCCCATCTACTACACACCATCT
1 ACATATCCTACCCCCATCTACTAAACACCATCT
*
81541639 ACATATCCTACCCTCATCTACTAAACACCATCT
1 ACATATCCTACCCCCATCTACTAAACACCATCT
81541672 CTGTCTAGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (33 bp):
ACATATCCTACCCCCATCTACTAAACACCATCT
Found at i:81546453 original size:29 final size:28
Alignment explanation
Indices: 81546416--81546524 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 28
81546406 GTGCCATACC
**
81546416 TTCCGAGCTCGCACACCCAGTGCCGTATTT
1 TTCC-AGCTCGCACACATAGTGCC-TATTT
* *
81546446 TTCCAGCTTGCACACATAGTGTCATATTT
1 TTCCAGCTCGCACACATAGTG-CCTATTT
* *
81546475 TTCCAGCAT-GCACACTTAGTGCCT-TAT
1 TTCCAGC-TCGCACACATAGTGCCTATTT
* *
81546502 TTCCAGCACGCACACTTAGTGCC
1 TTCCAGCTCGCACACATAGTGCC
81546525 AATCTCGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 23 0.34
28 2 0.03
29 37 0.54
30 6 0.09
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (28 bp):
TTCCAGCTCGCACACATAGTGCCTATTT
Found at i:81546504 original size:27 final size:28
Alignment explanation
Indices: 81546434--81546524 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
81546424 TCGCACACCC
* * *
81546434 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCC-TATATTTCCAGCATGCACACTT
* *
81546463 AGTGTCATATTTTTCCAGCATGCACACTT
1 AGTG-CCTATATTTCCAGCATGCACACTT
*
81546492 AGTGCCT-TATTTCCAGCACGCACACTT
1 AGTGCCTATATTTCCAGCATGCACACTT
81546519 AGTGCC
1 AGTGCC
81546525 AATCTCGTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.44
28 2 0.04
29 28 0.51
30 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (28 bp):
AGTGCCTATATTTCCAGCATGCACACTT
Found at i:81554520 original size:29 final size:29
Alignment explanation
Indices: 81554463--81554593 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 29
81554453 AATTTAAGCC
* **
81554463 CGCACACACAGTGCCATA-CCTTCCGAGCT
1 CGCACACATAGTGCCATATTTTTCC-AGCT
** *
81554492 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
* *
81554521 TGCACACATAGTGTCATA-TTTTCCAGCAT
1 CGCACACATAGTGCCATATTTTTCCAGC-T
* * * *
81554550 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCT
*
81554578 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
81554594 ATCTCGTCAC
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 23 0.28
29 56 0.67
30 4 0.05
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCT
Found at i:81554552 original size:28 final size:28
Alignment explanation
Indices: 81554501--81554593 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
81554491 TCGCACACCC
* * *
81554501 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATA-TTTTCCAGCATGCACACTT
*
81554530 AGTGTCATATTTTCCAGCATGCACACTT
1 AGTGCCATATTTTCCAGCATGCACACTT
* *
81554558 AGTGCCTTATATTTCCAGCACGCACACTT
1 AGTGCCATAT-TTTCCAGCATGCACACTT
81554587 AGTGCCA
1 AGTGCCA
81554594 ATCTCGTCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 25 0.45
29 30 0.55
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (28 bp):
AGTGCCATATTTTCCAGCATGCACACTT
Found at i:81559857 original size:22 final size:21
Alignment explanation
Indices: 81559832--81559874 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
81559822 CGTTTTCCAG
* *
81559832 ATTATGATATTTTATTTTATAT
1 ATTATGA-AATTTATATTATAT
81559854 ATTATGAAATTTATATTATAT
1 ATTATGAAATTTATATTATAT
81559875 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
ATTATGAAATTTATATTATAT
Found at i:81559912 original size:28 final size:25
Alignment explanation
Indices: 81559860--81559920 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 25
81559850 ATATATTATG
*
81559860 AAAT-TTATATTATATGAAAATTAA
1 AAATATTAAATTATATGAAAATTAA
*
81559884 ATATATTAAATTATAATGTAAATATTAA
1 AAATATTAAATTAT-ATG-AAA-ATTAA
81559912 AAATATTAA
1 AAATATTAA
81559921 GTTGTGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 8 0.27
26 3 0.10
27 3 0.10
28 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (25 bp):
AAATATTAAATTATATGAAAATTAA
Found at i:81560600 original size:24 final size:22
Alignment explanation
Indices: 81560551--81560607 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
81560541 AAAATTATAT
*
81560551 TTATTTTGTTAATTTGTTCATTA
1 TTATTTT-TTAATTTGTTCATCA
*
81560574 TTATTTTTTAATTTAGTTTGATCA
1 TTATTTTTTAATTT-G-TTCATCA
81560598 TTATCTTTTT
1 TTAT-TTTTT
81560608 TTTAAAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
24 9 0.31
25 5 0.17
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (22 bp):
TTATTTTTTAATTTGTTCATCA
Found at i:81572337 original size:57 final size:59
Alignment explanation
Indices: 81572260--81572386 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
81572250 TAACCCAGTT
*
81572260 CAAA-AACAACTCTAAAAATAATATTATAAAT-AAAATGAA-TGAGACATAAAATACAA
1 CAAATAACAACTCTAAAAATAATATTATAAATAAAAATGAATTGAGACATAAAATAAAA
* * * * * *
81572316 TAAATAACAAGTCTAAGAATAATGTTCTGAATAAAAATGAATTGAGACATAAAATAAAA
1 CAAATAACAACTCTAAAAATAATATTATAAATAAAAATGAATTGAGACATAAAATAAAA
81572375 CAAATAACAACT
1 CAAATAACAACT
81572387 AACCAATGTG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 3 0.05
57 22 0.37
58 8 0.14
59 26 0.44
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (59 bp):
CAAATAACAACTCTAAAAATAATATTATAAATAAAAATGAATTGAGACATAAAATAAAA
Found at i:81574261 original size:89 final size:89
Alignment explanation
Indices: 81574107--81574285 Score: 268
Period size: 89 Copynumber: 2.0 Consensus size: 89
81574097 TAACCACATG
* * * * * * * *
81574107 CACTTCTACACTTATGACGCAAGATCATCACAAACTTGATGTTAAAATTATCTGCAATTATATCA
1 CACTTCTACACTTACGACACAAGATCACCACAAACTTGATGTCAAAACTATCTACAACTACATCA
*
81574172 TGCCAATGGTGAAGGACATGCTGA
66 TGCCAATGGTGAAGGACATCCTGA
*
81574196 CACTTCTACACTTACGACACAAGATCACCGCAAACTTGATGTCAAAACTATCTACAACTACATCA
1 CACTTCTACACTTACGACACAAGATCACCACAAACTTGATGTCAAAACTATCTACAACTACATCA
81574261 TGCCAATGGTGAAGGACATCCTGA
66 TGCCAATGGTGAAGGACATCCTGA
81574285 C
1 C
81574286 CATTCCTGTT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (89 bp):
CACTTCTACACTTACGACACAAGATCACCACAAACTTGATGTCAAAACTATCTACAACTACATCA
TGCCAATGGTGAAGGACATCCTGA
Found at i:81576104 original size:46 final size:46
Alignment explanation
Indices: 81576029--81576126 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
81576019 GTGTCTTAGT
* *
81576029 ATCATAGCAAAGGGTCGTCTGTTCGGACACAACACATACACTCGTG
1 ATCATAGCAAAGGGTCGTCTATTCAGACACAACACATACACTCGTG
81576075 ATCATAGCAAAGGGTCGTCTATTCAGACACAACACATACACTCGTG
1 ATCATAGCAAAGGGTCGTCTATTCAGACACAACACATACACTCGTG
81576121 ATCATA
1 ATCATA
81576127 CTACCGTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (46 bp):
ATCATAGCAAAGGGTCGTCTATTCAGACACAACACATACACTCGTG
Found at i:81582466 original size:44 final size:44
Alignment explanation
Indices: 81582403--81582491 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
81582393 TTCCAGAAAA
81582403 TGGTTTCTGGAAAATGGCTTATTTTTCCAGAAAAGTTAATACTT
1 TGGTTTCTGGAAAATGGCTTATTTTTCCAGAAAAGTTAATACTT
81582447 TGGTTTCTGGAAAATGGCTTATTTTTCCAGAAAAGTTAATACTT
1 TGGTTTCTGGAAAATGGCTTATTTTTCCAGAAAAGTTAATACTT
81582491 T
1 T
81582492 CCGATGTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (44 bp):
TGGTTTCTGGAAAATGGCTTATTTTTCCAGAAAAGTTAATACTT
Found at i:81584271 original size:11 final size:11
Alignment explanation
Indices: 81584257--81584297 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
81584247 TCTTTCAACA
81584257 TTCTCTCAAA-
1 TTCTCTCAAAT
81584267 TT-TCTCAAAT
1 TTCTCTCAAAT
*
81584277 TTCTCTTAAAT
1 TTCTCTCAAAT
*
81584288 TCCTCTCAAA
1 TTCTCTCAAA
81584298 ACTCTCGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
9 7 0.27
10 4 0.15
11 15 0.58
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:81584353 original size:16 final size:15
Alignment explanation
Indices: 81584324--81584354 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
81584314 TCAAAAAAGC
*
81584324 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
81584339 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
81584354 T
1 T
81584355 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:81586115 original size:18 final size:18
Alignment explanation
Indices: 81586092--81586134 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
81586082 TGCCAGGTAC
*
81586092 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
81586110 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
81586128 GTTTCCT
1 GTATCCT
81586135 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:81587044 original size:115 final size:116
Alignment explanation
Indices: 81586517--81587126 Score: 1088
Period size: 116 Copynumber: 5.3 Consensus size: 116
81586507 TATTTATACA
*
81586517 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
81586582 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
81586633 AACATTTTGAGTATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
81586698 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
81586749 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
81586814 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
81586865 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAA-TAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
81586929 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
81586980 AACATTTTGAATATTTTTATATTATTTCATGTGA-TA-ATAAAAAGGTTGTTTTAAATAAAGTAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGAT-AAAAGGTTGTTTTAAATAAAGTAA
* * *
81587043 TTATAATTTAC-TTT-TATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
65 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
81587093 -ATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
81587127 AAAATATAAA
Statistics
Matches: 479, Mismatches: 12, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
112 31 0.06
113 36 0.08
114 25 0.05
115 101 0.21
116 286 0.60
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:81590386 original size:126 final size:126
Alignment explanation
Indices: 81590144--81590681 Score: 803
Period size: 126 Copynumber: 4.3 Consensus size: 126
81590134 GCCCAAGTTA
* * * *
81590144 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* ** *
81590209 TGCATTCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCATCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
81590270 TTTTAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTC-TTCTAGTAATTTTGCTGAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTC-AGTACTTTTGCTGAAA
*
81590334 ATGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACATGTCTTCTCAAAATTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
81590396 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTCTTTTAGTACTTTTGTTGATAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
81590461 TGCATCCTGCTTGAAGCGTTTTTTACACTAGTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
81590522 TTTCAGATACTACTGTAGCAAAAGAGAATCTACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
81590587 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTA-TT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
81590647 TTTCAGAGACTATTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGT
81590682 AGAAGCTTTT
Statistics
Matches: 372, Mismatches: 36, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
125 36 0.10
126 333 0.90
127 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:81590882 original size:95 final size:96
Alignment explanation
Indices: 81590777--81590963 Score: 263
Period size: 96 Copynumber: 2.0 Consensus size: 96
81590767 CCTAATACCC
* * * * * *
81590777 TAAACCCTAAAATCCTAATCT-ATTTTTTTAATTTA-TAATTAATTTACTCAAGTAAAC-CTAAA
1 TAAACACT-AAATCATAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAA-CAAACACTAAA
*
81590839 CCCTAATTTATTTGATTTTTTCCTTAAAAACCA
64 CCCTAATTTATTTAATTTTTTCCTTAAAAACCA
*
81590872 TAAACACTAAATCATAATCTAATTTTTTAAAATTAGTAATTAATTTAATTAACAAACACTAAACC
1 TAAACACTAAATCATAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAACACTAAACC
81590937 CTAATTTATTTAATTTTTTCCTTAAAA
66 CTAATTTATTTAATTTTTTCCTTAAAA
81590964 CCCTAAAATT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 11 0.14
95 23 0.28
96 47 0.58
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.42
Consensus pattern (96 bp):
TAAACACTAAATCATAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAACACTAAACC
CTAATTTATTTAATTTTTTCCTTAAAAACCA
Found at i:81596886 original size:24 final size:24
Alignment explanation
Indices: 81596851--81596904 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
81596841 CTTCATATCT
81596851 AAGC-TTTAACGACCCTTCTAAGA
1 AAGCTTTTAACGACCCTTCTAAGA
*
81596874 AAGCTTTTGACGACCCTTCTAAGA
1 AAGCTTTTAACGACCCTTCTAAGA
81596898 AAGCTTT
1 AAGCTTT
81596905 CTTCTCTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (24 bp):
AAGCTTTTAACGACCCTTCTAAGA
Found at i:81606914 original size:16 final size:17
Alignment explanation
Indices: 81606889--81606921 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
81606879 ATTTTCTTTC
*
81606889 TTTTTCCTTCTTCTTCA
1 TTTTTCCTTCTCCTTCA
81606906 TTTTT-CTTCTCCTTCA
1 TTTTTCCTTCTCCTTCA
81606922 AGTAGTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTCCTTCTCCTTCA
Found at i:81607894 original size:40 final size:37
Alignment explanation
Indices: 81607850--81607948 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 37
81607840 ACAGTACCAT
81607850 TTGGTGTGTAGGGTAGGATGGGTCGATTTTATCCCCATAC
1 TTGGTGTGTAGGGT-GGATGGGTCGATTTTATCCCC--AC
*
81607890 TTGGTCTGTAGGGCTGGATGGGTCGATTTTATCCCCAC
1 TTGGTGTGTAGGG-TGGATGGGTCGATTTTATCCCCAC
* *
81607928 ATGGTGTGTTGGGTTGGATGG
1 TTGGTGTGTAGGG-TGGATGG
81607949 AGATGGTGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
38 19 0.36
40 33 0.62
41 1 0.02
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.35
Consensus pattern (37 bp):
TTGGTGTGTAGGGTGGATGGGTCGATTTTATCCCCAC
Found at i:81607991 original size:7 final size:7
Alignment explanation
Indices: 81607979--81608012 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
81607969 GGGCATAAAT
81607979 TCTGATA
1 TCTGATA
81607986 TCTGATA
1 TCTGATA
81607993 TCTGATA
1 TCTGATA
*
81608000 CCTGATA
1 TCTGATA
81608007 TCTGAT
1 TCTGAT
81608013 CTATTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (7 bp):
TCTGATA
Found at i:81613286 original size:22 final size:22
Alignment explanation
Indices: 81613261--81613303 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
81613251 CGTGTCGATG
81613261 TTGAGACGCTATCACTCTGATA
1 TTGAGACGCTATCACTCTGATA
*
81613283 TTGAGATGCTATCACTCTGAT
1 TTGAGACGCTATCACTCTGAT
81613304 CCCACTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (22 bp):
TTGAGACGCTATCACTCTGATA
Found at i:81624861 original size:40 final size:40
Alignment explanation
Indices: 81624795--81624961 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
81624785 AAATTGAATG
* * *
81624795 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
81624834 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
81624874 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
81624914 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
81624954 ATATCCGG
1 ATATCCGG
81624962 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:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:81630117 original size:57 final size:54
Alignment explanation
Indices: 81630022--81630132 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 54
81630012 TAGGAAAAAA
81630022 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
81630076 AAAGAAAAGAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
81630133 GAAAAGGGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
54 8 0.16
55 6 0.12
56 2 0.04
57 30 0.61
58 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (54 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:81631392 original size:40 final size:40
Alignment explanation
Indices: 81631326--81631492 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
81631316 AAATTGAATG
* * *
81631326 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
81631365 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
81631405 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
81631445 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
81631485 ATATCCGG
1 ATATCCGG
81631493 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:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:81632864 original size:29 final size:29
Alignment explanation
Indices: 81632831--81632941 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
81632821 TGACGAGATT
** *
81632831 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* *
81632860 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* * *
81632889 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
** *
81632918 GGCACTGGGTGTGCGAGCTCGGAA
1 GGCACTAAGTGTGCAAGCT-GGAA
81632942 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:81640929 original size:28 final size:29
Alignment explanation
Indices: 81640898--81640989 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
81640888 TGACGAGATT
* *
81640898 GGCACTAAGTGTGCGTGCT-GAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
81640926 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
81640955 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
81640984 GGCACT
1 GGCACT
81640990 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.33
29 37 0.67
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:81640989 original size:29 final size:29
Alignment explanation
Indices: 81640898--81641007 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
81640888 TGACGAGATT
** *
81640898 GGCACTAAGTGTGCGTGCT-GAAATATAA
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* *
81640926 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
* * *
81640955 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGGAAAAATAA
** *
81640984 GGCACTGGGTGTGCGAGCTCGGAA
1 GGCACTAAGTGTGCAAGCT-GGAA
81641008 GGTATGGCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
28 18 0.26
29 47 0.68
30 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:81643007 original size:16 final size:16
Alignment explanation
Indices: 81642979--81643018 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 16
81642969 CATTTAGTTC
81642979 TTTTTTATTATTTTATATA
1 TTTTTTA-T-TTTTA-ATA
81642998 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
81643014 TTTTT
1 TTTTT
81643019 GCATTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 5 0.24
18 1 0.05
19 7 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:81643024 original size:17 final size:17
Alignment explanation
Indices: 81642989--81643027 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
81642979 TTTTTTATTA
*
81642989 TTTTATATATTTTTTAT
1 TTTTATATATTTTTCAT
81643006 TTTTA-ATATTTTTGCAT
1 TTTTATATATTTTT-CAT
81643023 TTTTA
1 TTTTA
81643028 GTTTAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTATATATTTTTCAT
Found at i:81643050 original size:13 final size:13
Alignment explanation
Indices: 81643034--81643058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81643024 TTTAGTTTAG
81643034 TATTTTATTTACT
1 TATTTTATTTACT
81643047 TATTTTATTTAC
1 TATTTTATTTAC
81643059 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:81643332 original size:3 final size:3
Alignment explanation
Indices: 81643324--81643361 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
81643314 GTAATTCGCT
81643324 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
81643362 TATGGTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:81650156 original size:16 final size:16
Alignment explanation
Indices: 81650128--81650163 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
81650118 TGTCTTTTTA
81650128 TTATTTTTTACGCAT-
1 TTATTTTTTACGCATG
81650143 TTATTTTATTACGCATG
1 TTATTTT-TTACGCATG
81650160 TTAT
1 TTAT
81650164 CATCGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (16 bp):
TTATTTTTTACGCATG
Found at i:81651085 original size:51 final size:51
Alignment explanation
Indices: 81651029--81651128 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
81651019 AAATTTAGCC
* * * * *
81651029 CTCAAATTTTACATATCA-TATTGATTTGGTCATAATTTTAAAAAATCAACT
1 CTCAAAATTTACAAAT-ATTATTAATTTAGTCATAATTCTAAAAAATCAACT
*
81651080 CTCAAAATTTACAAATATTTTTAATTTAGTCATAATTCTAAAAAATCAA
1 CTCAAAATTTACAAATATTATTAATTTAGTCATAATTCTAAAAAATCAA
81651129 AGAAATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (51 bp):
CTCAAAATTTACAAATATTATTAATTTAGTCATAATTCTAAAAAATCAACT
Found at i:81651234 original size:25 final size:24
Alignment explanation
Indices: 81651197--81651245 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
81651187 TATTAATATG
81651197 TATATTAACATTAAATAAATATAAA
1 TATATTAACATTAAATAAA-ATAAA
*
81651222 TATATTAATATTAAATAAAATAAA
1 TATATTAACATTAAATAAAATAAA
81651246 AATCCCTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TATATTAACATTAAATAAAATAAA
Found at i:81652098 original size:26 final size:26
Alignment explanation
Indices: 81652069--81652121 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
81652059 TTTAAACAAG
81652069 TCTAATTTCTTTTGCTTAATCTCATT
1 TCTAATTTCTTTTGCTTAATCTCATT
*
81652095 TCTAATTTCTTTTGTTTAATCTCATT
1 TCTAATTTCTTTTGCTTAATCTCATT
81652121 T
1 T
81652122 TTTGAGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (26 bp):
TCTAATTTCTTTTGCTTAATCTCATT
Found at i:81658212 original size:25 final size:24
Alignment explanation
Indices: 81658178--81658231 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
81658168 ATTTCATATT
* *
81658178 AATATTTATATTAACATTAAATAA
1 AATAATTATATTAACACTAAATAA
*
81658202 ATATAATTATATTAATACTAAATAA
1 A-ATAATTATATTAACACTAAATAA
81658227 AATAA
1 AATAA
81658232 AAACCTCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
AATAATTATATTAACACTAAATAA
Found at i:81658878 original size:49 final size:47
Alignment explanation
Indices: 81658789--81658881 Score: 116
Period size: 49 Copynumber: 1.9 Consensus size: 47
81658779 ATGTATTTTT
* *
81658789 ATATATTATTTTTTGTTAACAATCATTTTTTATTTATATATATTCAA
1 ATATATTATTTTTTGTTAAAAATCATTTTGTATTTATATATATTCAA
* *
81658836 ATATATTATTATATTTTTTAAAAAT-ATTTATGTATTTTTATATATT
1 ATATATTATT-T-TTTGTTAAAAATCATTT-TGTATTTATATATATT
81658882 TATTTGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 10 0.26
48 5 0.13
49 24 0.62
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (47 bp):
ATATATTATTTTTTGTTAAAAATCATTTTGTATTTATATATATTCAA
Found at i:81658880 original size:18 final size:19
Alignment explanation
Indices: 81658859--81658898 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
81658849 TTTTTTAAAA
81658859 ATATTTATGT-ATTTTTAT
1 ATATTTATGTGATTTTTAT
* *
81658877 ATATTTATTTGATTTTTTT
1 ATATTTATGTGATTTTTAT
81658896 ATA
1 ATA
81658899 ATTAGGATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
ATATTTATGTGATTTTTAT
Found at i:81660011 original size:59 final size:59
Alignment explanation
Indices: 81659932--81660050 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
81659922 ATTACTCTCA
* *
81659932 TAGGGTATAATTAATCTCTTTTAGATAAATCAATTCTCCTAGTATGATCCTATTTTATC
1 TAGGATATAATTAATATCTTTTAGATAAATCAATTCTCCTAGTATGATCCTATTTTATC
*
81659991 TAGGATATAATTAATATCTTTTGGATAAATCAATTCTCCTAGTATGATCCTATTTTATC
1 TAGGATATAATTAATATCTTTTAGATAAATCAATTCTCCTAGTATGATCCTATTTTATC
81660050 T
1 T
81660051 CATGGTAACT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (59 bp):
TAGGATATAATTAATATCTTTTAGATAAATCAATTCTCCTAGTATGATCCTATTTTATC
Found at i:81660630 original size:13 final size:13
Alignment explanation
Indices: 81660612--81660636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81660602 CTATGTTACA
81660612 TTATAATTAAAAT
1 TTATAATTAAAAT
81660625 TTATAATTAAAA
1 TTATAATTAAAA
81660637 ATGAAAGAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATAATTAAAAT
Found at i:81665228 original size:16 final size:16
Alignment explanation
Indices: 81665191--81665229 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
81665181 AGGAAGACCC
*
81665191 CGACGTCATGATGGTG
1 CGACGTCATAATGGTG
*
81665207 CAACGTCATAATGGTG
1 CGACGTCATAATGGTG
*
81665223 TGACGTC
1 CGACGTC
81665230 CTAACGATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (16 bp):
CGACGTCATAATGGTG
Found at i:81666169 original size:23 final size:23
Alignment explanation
Indices: 81666139--81666185 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
81666129 TGTGTATTGT
81666139 TGGAGCATAATAGATCTTTCAAG
1 TGGAGCATAATAGATCTTTCAAG
81666162 TGGAGCATAATAGATCTTTCAAG
1 TGGAGCATAATAGATCTTTCAAG
81666185 T
1 T
81666186 TTGATGAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (23 bp):
TGGAGCATAATAGATCTTTCAAG
Found at i:81672787 original size:21 final size:21
Alignment explanation
Indices: 81672761--81672822 Score: 117
Period size: 20 Copynumber: 3.0 Consensus size: 21
81672751 AAAAAATGAG
81672761 TTTAGATGAAAGATAAACTAA
1 TTTAGATGAAAGATAAACTAA
81672782 TTTAGATGAAAGATAAACT-A
1 TTTAGATGAAAGATAAACTAA
81672802 TTTAGATGAAAGATAAACTAA
1 TTTAGATGAAAGATAAACTAA
81672823 GTATATTAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 20 0.50
21 20 0.50
ACGTcount: A:0.52, C:0.05, G:0.15, T:0.29
Consensus pattern (21 bp):
TTTAGATGAAAGATAAACTAA
Found at i:81675777 original size:13 final size:13
Alignment explanation
Indices: 81675759--81675786 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
81675749 ATACACATAA
81675759 TTTATGTTTAATG
1 TTTATGTTTAATG
81675772 TTTATGTTTAATG
1 TTTATGTTTAATG
81675785 TT
1 TT
81675787 GTTTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTTATGTTTAATG
Found at i:81677302 original size:43 final size:42
Alignment explanation
Indices: 81677241--81677426 Score: 291
Period size: 43 Copynumber: 4.3 Consensus size: 42
81677231 TATTTGAAAA
*
81677241 AAACGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTC-CAC
*
81677284 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACCAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT-CCAC
**
81677327 AAATTCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT-CCAC
*
81677370 AAACGCCGCTAAAGATCATGACCTTTAGCAGCGCTTTTCCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCC-AC
81677413 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
81677427 GCCATGAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
42 2 0.02
43 129 0.98
44 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCAC
Found at i:81677719 original size:18 final size:19
Alignment explanation
Indices: 81677682--81677722 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
81677672 ATTTAGAATC
81677682 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
81677701 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
81677719 AAAA
1 AAAA
81677723 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:81677724 original size:31 final size:31
Alignment explanation
Indices: 81677648--81677721 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
81677638 TCAAGTTATC
*
81677648 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
81677680 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
81677710 TTAAATATAAAA
1 TTAAATATAAAA
81677722 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:81678841 original size:16 final size:17
Alignment explanation
Indices: 81678820--81678851 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
81678810 ATGTAAAATA
81678820 AATAGTTAAC-ATAATT
1 AATAGTTAACAATAATT
81678836 AATAGTTAACAATAAT
1 AATAGTTAACAATAAT
81678852 ATGCATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
AATAGTTAACAATAATT
Found at i:81681641 original size:33 final size:33
Alignment explanation
Indices: 81681570--81681642 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
81681560 TCATCTTCAC
81681570 TCTCTTCTTCTTCCTCCTCCCCCGTCTTCTCTT
1 TCTCTTCTTCTTCCTCCTCCCCCGTCTTCTCTT
* * **
81681603 CCTCTTCTTCTTCTTCCTCTTCC-TCGTTCTCTT
1 TCTCTTCTTCTTCCTCCTCCCCCGTC-TTCTCTT
81681636 TCTCTTC
1 TCTCTTC
81681643 AATATCTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (33 bp):
TCTCTTCTTCTTCCTCCTCCCCCGTCTTCTCTT
Found at i:81681907 original size:21 final size:21
Alignment explanation
Indices: 81681851--81681910 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
81681841 AGTAATTCTT
* * *
81681851 TAATTTTTACTATTGTTCAATT
1 TAATTTTTTCTATT-TTTAATA
81681873 TCAATTTTTT-TATTTTTAATA
1 T-AATTTTTTCTATTTTTAATA
81681894 TAATTTTTTCTATTTTT
1 TAATTTTTTCTATTTTT
81681911 TTCTTTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 8 0.24
21 13 0.39
22 5 0.15
23 7 0.21
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (21 bp):
TAATTTTTTCTATTTTTAATA
Found at i:81682465 original size:14 final size:14
Alignment explanation
Indices: 81682446--81682500 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
81682436 ATCATGAACA
*
81682446 CTTAACACTTAACC
1 CTTAACACCTAACC
*
81682460 CTTAACCCCTAACC
1 CTTAACACCTAACC
* *
81682474 CCTAACTCCTAACC
1 CTTAACACCTAACC
*
81682488 CGTAACACCTAAC
1 CTTAACACCTAAC
81682501 ACCTAAACCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.22
Consensus pattern (14 bp):
CTTAACACCTAACC
Found at i:81682479 original size:21 final size:21
Alignment explanation
Indices: 81682455--81682549 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 21
81682445 ACTTAACACT
* *
81682455 TAACCCTTAACCCCTAACCCC
1 TAACCCTTAAACCATAACCCC
* * *
81682476 TAACTCC-TAACCCGTAACACC
1 TAAC-CCTTAAACCATAACCCC
*
81682497 TAACACC-TAAACCTTAAACCCC
1 TAAC-CCTTAAACCAT-AACCCC
*
81682519 -AACCCTTAAACCATAATCCC
1 TAACCCTTAAACCATAACCCC
*
81682539 TAAACCTTAAA
1 TAACCCTTAAA
81682550 ATAGTAACTC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 7 0.11
21 47 0.77
22 7 0.11
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.20
Consensus pattern (21 bp):
TAACCCTTAAACCATAACCCC
Found at i:81683130 original size:41 final size:41
Alignment explanation
Indices: 81683073--81683308 Score: 409
Period size: 41 Copynumber: 5.8 Consensus size: 41
81683063 GTTATATGAC
* *
81683073 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
81683114 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
81683155 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
81683196 TTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
81683237 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTGTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
81683278 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTA
81683309 TTTCTCTATT
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 185 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:81683336 original size:25 final size:26
Alignment explanation
Indices: 81683299--81683349 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
81683289 TTTTACCAAA
81683299 AGCGCCGCTATTTCTCTATTTTTAGC
1 AGCGCCGCTATTTCTCTATTTTTAGC
* *
81683325 AGCG-CGCTATTTTTCTGTTTTTAGC
1 AGCGCCGCTATTTCTCTATTTTTAGC
81683350 GACGTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (26 bp):
AGCGCCGCTATTTCTCTATTTTTAGC
Found at i:81683416 original size:39 final size:40
Alignment explanation
Indices: 81683342--81683418 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 40
81683332 TATTTTTCTG
*
81683342 TTTTTAGCGACGTTTTAACAAAAACGTCGGCATTGCTCCT
1 TTTTTAGCGACGTTTTAACAAAAACGTCCGCATTGCTCCT
* *
81683382 TTTTTAGCGGCGTTTT-ACCAAAACG-CCGCTATTGCTC
1 TTTTTAGCGACGTTTTAACAAAAACGTCCGC-ATTGCTC
81683419 TGTGTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 3 0.09
39 15 0.45
40 15 0.45
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TTTTTAGCGACGTTTTAACAAAAACGTCCGCATTGCTCCT
Found at i:81683427 original size:40 final size:41
Alignment explanation
Indices: 81683329--81683427 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 41
81683319 TTTAGCAGCG
**
81683329 CGCTATTTTTCTGTTTTTAGCGACGTTTTAACAAAAACGTC
1 CGCTATTGCTCTGTTTTTAGCGACGTTTTAACAAAAACGTC
* * *
81683370 GGC-ATTGCTCCT-TTTTTAGCGGCGTTTT-ACCAAAACG-C
1 CGCTATTGCT-CTGTTTTTAGCGACGTTTTAACAAAAACGTC
81683408 CGCTATTGCTCTGTGTTTTA
1 CGCTATTGCTCTGT-TTTTA
81683428 CAATTTTTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
38 5 0.10
39 15 0.31
40 24 0.50
41 4 0.08
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (41 bp):
CGCTATTGCTCTGTTTTTAGCGACGTTTTAACAAAAACGTC
Found at i:81693514 original size:28 final size:28
Alignment explanation
Indices: 81693469--81693545 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
81693459 CAAATATGGT
* *
81693469 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTGCGAAATATTGAGAATGAA
* *
81693497 ACTTAATGTGCGAGATATTGAGAATGAA
1 ACTTAGTGTGCGAAATATTGAGAATGAA
**
81693525 ACTTAGTGTGAAAAATATTGA
1 ACTTAGTGTGCGAAATATTGA
81693546 ATGATTAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (28 bp):
ACTTAGTGTGCGAAATATTGAGAATGAA
Found at i:81693662 original size:39 final size:39
Alignment explanation
Indices: 81693618--81693878 Score: 400
Period size: 39 Copynumber: 6.7 Consensus size: 39
81693608 GACTTTATAA
*
81693618 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
81693657 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATCCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
81693696 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
81693735 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
81693774 TGGTGTTATATCTGGGCTAAG-CCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
81693812 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
81693851 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
81693879 CATGCTTTGT
Statistics
Matches: 205, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 34 0.17
39 153 0.75
40 18 0.09
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:81697243 original size:46 final size:46
Alignment explanation
Indices: 81697016--81697243 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
81697006 TTTGACATGA
* * * * * * *
81697016 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
81697062 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
81697108 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
81697154 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
81697200 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
81697244 AGAGCACACT
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:81699206 original size:20 final size:21
Alignment explanation
Indices: 81699177--81699217 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
81699167 ACATCTTCGA
81699177 TTTTCCCTTTTT-TTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
81699197 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
81699218 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:81704416 original size:48 final size:48
Alignment explanation
Indices: 81704345--81704439 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
81704335 TAAATAAATA
81704345 CGGAAAAGTACAGGTACGTACGGTACCTATGTGGCAGTTGATACTATT
1 CGGAAAAGTACAGGTACGTACGGTACCTATGTGGCAGTTGATACTATT
*
81704393 CGGAAAAGTACAGGTACGTACGGTACCTATGTGGTAGTTGATACTAT
1 CGGAAAAGTACAGGTACGTACGGTACCTATGTGGCAGTTGATACTAT
81704440 GTATATGAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (48 bp):
CGGAAAAGTACAGGTACGTACGGTACCTATGTGGCAGTTGATACTATT
Found at i:81709737 original size:21 final size:21
Alignment explanation
Indices: 81709697--81709739 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
81709687 AAAATTATTG
81709697 TTAAAAATATTTAATGTATTTA
1 TTAAAAATATTTAA-GTATTTA
81709719 TTAAAAATATTTTAA-TATTTA
1 TTAAAAATA-TTTAAGTATTTA
81709740 AAAGGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAAAATATTTAAGTATTTA
Found at i:81717032 original size:16 final size:16
Alignment explanation
Indices: 81717011--81717044 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
81717001 AGCTTGGCTC
81717011 TAAGATAGTTGAGAGT
1 TAAGATAGTTGAGAGT
81717027 TAAGATAGTTGAGAGT
1 TAAGATAGTTGAGAGT
81717043 TA
1 TA
81717045 GGGATGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (16 bp):
TAAGATAGTTGAGAGT
Found at i:81718515 original size:271 final size:271
Alignment explanation
Indices: 81718025--81718559 Score: 899
Period size: 271 Copynumber: 2.0 Consensus size: 271
81718015 GAATTAATCT
* *
81718025 GAAACAGAACAGAAAATTTTGAAAAAAACATGAAAATTTTGGAAATAGGGGTCACACGGCCATGT
1 GAAACAGAACAGAAAATTTTGAAAAAAACATGAAAATTTTAGAAATAGGGGTCACACGGCCATAT
*
81718090 GACATAGCCCAGACCGTATGGACATTCAAAGTCTGGACACACAGTCGTGTCTCAGCCCGTATATG
66 GACATAGCCCAGACCGTATGGACATTCAAAGTCTGGACACACAGTCGTGTCCCAGCCCGTATATG
81718155 AGTACATAGCCGTGTGATCGACGAAAGCATGGTCATACACAGCACACGACCGTGTGGTGGTTCGA
131 AGTACATAGCCGTGTGATCGACGAAAGCATGGTCATACACAGCACACGACCGTGTGGTGGTTCGA
* *
81718220 GTGTGGGCCACACAGGCGTGTGGATCTAAAAGGACATGACACACGGGCGTGTCGATTATTAGGTC
196 GTATGGGCCACACAGGCATGTGGATCTAAAAGGACATGACACACGGGCGTGTCGATTATTAGGTC
81718285 AGGCTGTGTGG
261 AGGCTGTGTGG
* *
81718296 GAAACAGAACAGAAAATTTTGAAAAAAACTTGAAAATTTTAGAAATAGGGGTCACACGGCCGTAT
1 GAAACAGAACAGAAAATTTTGAAAAAAACATGAAAATTTTAGAAATAGGGGTCACACGGCCATAT
*
81718361 GACATAGCCCAGACCGTATGGACATTCAAAGTCTGGACACACGGTCGTGTCCCAGCCCGTATATG
66 GACATAGCCCAGACCGTATGGACATTCAAAGTCTGGACACACAGTCGTGTCCCAGCCCGTATATG
* ** * * * *
81718426 AGTACATAGCCGTGTGATCGACGAAGGCATGGTTGTGCGCAGCACACGACCGTTTGGTGGTTCGC
131 AGTACATAGCCGTGTGATCGACGAAAGCATGGTCATACACAGCACACGACCGTGTGGTGGTTCGA
** * *
81718491 GTATGGGCCACATGGGCATGTGGATCTAAATGGACATGACACACGGGCGTGTCGATTATTGGGTC
196 GTATGGGCCACACAGGCATGTGGATCTAAAAGGACATGACACACGGGCGTGTCGATTATTAGGTC
81718556 AGGC
261 AGGC
81718560 CATGTGGGCC
Statistics
Matches: 245, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
271 245 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (271 bp):
GAAACAGAACAGAAAATTTTGAAAAAAACATGAAAATTTTAGAAATAGGGGTCACACGGCCATAT
GACATAGCCCAGACCGTATGGACATTCAAAGTCTGGACACACAGTCGTGTCCCAGCCCGTATATG
AGTACATAGCCGTGTGATCGACGAAAGCATGGTCATACACAGCACACGACCGTGTGGTGGTTCGA
GTATGGGCCACACAGGCATGTGGATCTAAAAGGACATGACACACGGGCGTGTCGATTATTAGGTC
AGGCTGTGTGG
Found at i:81720601 original size:21 final size:21
Alignment explanation
Indices: 81720577--81720624 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
81720567 CCTCATACGC
*
81720577 CCGTGTGGCTGAGGAACACGA
1 CCGTGTGGCTAAGGAACACGA
* * *
81720598 CCGTGTGTCTAAGGCACACGC
1 CCGTGTGGCTAAGGAACACGA
81720619 CCGTGT
1 CCGTGT
81720625 AAAAATCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (21 bp):
CCGTGTGGCTAAGGAACACGA
Found at i:81725584 original size:23 final size:24
Alignment explanation
Indices: 81725553--81725605 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
81725543 AAAACAAATA
*
81725553 TACAAAATCGAATC-TCTAAGATT
1 TACAAAATCAAATCTTCTAAGATT
*
81725576 TACAGAATCAAATCTTCTAAGATT
1 TACAAAATCAAATCTTCTAAGATT
81725600 T-CAAAA
1 TACAAAA
81725606 CCTCTAAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (24 bp):
TACAAAATCAAATCTTCTAAGATT
Found at i:81726256 original size:5 final size:5
Alignment explanation
Indices: 81726246--81726276 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
81726236 TAACCAAAAA
*
81726246 TTTAT TTTAT TTTAT TTTAT TTTAT GTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
81726277 CATTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:81730719 original size:20 final size:20
Alignment explanation
Indices: 81730696--81730737 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
81730686 CTTTGATTTC
81730696 TTTCTTTCTTCTTTTCTTCT
1 TTTCTTTCTTCTTTTCTTCT
* * *
81730716 TTTCTTTGTTTTTTTTTTCT
1 TTTCTTTCTTCTTTTCTTCT
81730736 TT
1 TT
81730738 CATCCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTCTTTCTTCTTTTCTTCT
Found at i:81731730 original size:29 final size:29
Alignment explanation
Indices: 81731688--81731749 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
81731678 CACACAATTG
*
81731688 TGTGCCAGACTGTGTGAGCCATACGACCA
1 TGTGCCAGACTGTGTGAGCCACACGACCA
* * *
81731717 TGTGCTAGACTGTGTGGGCCACACGACCG
1 TGTGCCAGACTGTGTGAGCCACACGACCA
81731746 TGTG
1 TGTG
81731750 GGCTCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (29 bp):
TGTGCCAGACTGTGTGAGCCACACGACCA
Found at i:81734830 original size:33 final size:33
Alignment explanation
Indices: 81734793--81734962 Score: 183
Period size: 33 Copynumber: 5.3 Consensus size: 33
81734783 CTATCGAATG
* **
81734793 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
** *
81734826 TGAAAAGGCTATGTATACTTTGTGTGTA-C-TCT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCAT-T
**
81734858 T---AA--AAAGGTGGACTTTGTGTGTACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
* *
81734886 TGAAAAGGGAAGGTATACTCTGTGTGTACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
*
81734919 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
81734952 TGAAAAGGAAA
1 TGAAAAGGAAA
81734963 TGTACACCTC
Statistics
Matches: 111, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
27 15 0.14
28 3 0.03
29 3 0.03
31 2 0.02
32 2 0.02
33 86 0.77
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
Found at i:81739753 original size:13 final size:13
Alignment explanation
Indices: 81739735--81739759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81739725 AAAATACTTA
81739735 AAAAATAAATAAT
1 AAAAATAAATAAT
81739748 AAAAATAAATAA
1 AAAAATAAATAA
81739760 CTAATAAAAT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATAAATAAT
Found at i:81741535 original size:40 final size:40
Alignment explanation
Indices: 81741453--81741546 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
81741443 GTCGTGTGTG
* * *
81741453 AGACACGACCGTGTGGTCGATGAAGGCATGGCCATGCACA
1 AGACACGACCGTGTAGTCGAGGAAAGCATGGCCATGCACA
* **
81741493 AGACACGGCCGTGTAGTCGAGGAAAGCATGGTTATG-AGCA
1 AGACACGACCGTGTAGTCGAGGAAAGCATGGCCATGCA-CA
*
81741533 AGACATGACCGTGT
1 AGACACGACCGTGT
81741547 GATGGCGTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.29, C:0.21, G:0.33, T:0.17
Consensus pattern (40 bp):
AGACACGACCGTGTAGTCGAGGAAAGCATGGCCATGCACA
Found at i:81742909 original size:21 final size:22
Alignment explanation
Indices: 81742879--81742942 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 22
81742869 TGATCCTGTA
81742879 AGTAT-TTCTGAAACT-TAGAT
1 AGTATATTCTGAAACTGTAGAT
81742899 AGTATATTCTGAAAACATTGTAGAT
1 AGTATATTCTG-AAAC--TGTAGAT
*
81742924 AGTACATTCTGAAACTGTA
1 AGTATATTCTGAAACTGTA
81742943 CTGAAATAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 5 0.13
21 5 0.13
22 8 0.21
24 5 0.13
25 15 0.39
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (22 bp):
AGTATATTCTGAAACTGTAGAT
Found at i:81751815 original size:13 final size:13
Alignment explanation
Indices: 81751774--81751816 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
81751764 TCAAGCATAA
81751774 TATTTATGTATCTG
1 TATTT-TGTATCTG
* * *
81751788 TATATTATATTTG
1 TATTTTGTATCTG
81751801 TATTTTGTATCTG
1 TATTTTGTATCTG
81751814 TAT
1 TAT
81751817 ATGGGGTGGG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (13 bp):
TATTTTGTATCTG
Done.