Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_418 ID=scaffold_418-JGI_221_v2.0
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: 7484
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.27
Warning! 239 characters in sequence are not A, C, G, or T
Found at i:3152 original size:10 final size:10
Alignment explanation
Indices: 3137--3171 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
3127 TTTAGACTAG
3137 AAAAAAAAT-
1 AAAAAAAATA
3146 AAAAAAAATA
1 AAAAAAAATA
3156 AAAAAAAATA
1 AAAAAAAATA
3166 AAAAAA
1 AAAAAA
3172 TCAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:3185 original size:9 final size:9
Alignment explanation
Indices: 3137--3181 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
3127 TTTAGACTAG
3137 AAAAAAAAT
1 AAAAAAAAT
3146 AAAAAAAAT
1 AAAAAAAAT
3155 AAAAAAAA-
1 AAAAAAAAT
3163 ATAAAAAAAT
1 A-AAAAAAAT
*
3173 CAAAAAAAT
1 AAAAAAAAT
3182 CAAAGTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
8 1 0.03
9 32 0.97
ACGTcount: A:0.87, C:0.02, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:3207 original size:6 final size:6
Alignment explanation
Indices: 3198--3240 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
3188 CAAAATAGAA
*
3198 AAAAAG AAAAAG AAAAA- AAGAGAAG AAAACG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-A-AAG AAAAAG AAAAAG AAAAAG
3241 GAGGGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 25 0.78
7 3 0.09
8 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3216 original size:24 final size:25
Alignment explanation
Indices: 3189--3239 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
3179 AATCAAAGTC
*
3189 AAAATAGAA-AAAAAGAAAAAGAAA
1 AAAAGAGAAGAAAAAGAAAAAGAAA
*
3213 AAAAGAGAAGAAAACGAAAAAGAAA
1 AAAAGAGAAGAAAAAGAAAAAGAAA
3238 AA
1 AA
3240 GGAGGGGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAGAAGAAAAAGAAAAAGAAA
Found at i:3629 original size:14 final size:14
Alignment explanation
Indices: 3575--3619 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
3565 TCAAAAAAGA
*
3575 AAAAGATGAAGAATG
1 AAAA-ATGAAAAATG
*
3590 -AAAATGGAAAATG
1 AAAAATGAAAAATG
3603 AAAAATGAAAAATG
1 AAAAATGAAAAATG
3617 AAA
1 AAA
3620 GAGTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:4905 original size:43 final size:42
Alignment explanation
Indices: 4857--4993 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 42
4847 AAACACAAGC
*
4857 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAACCAGAT
1 CTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGAA-CAGAT
* * * * * * *
4900 CTTGCCTTCC-T-GCATTAACAGCGAAGCAGATCAAA-AACAAAGT
1 CTTGCC-TCCATCG-ATT-GCAGTGGAGCTGGTTAAAGAACAGA-T
4943 CTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGA-A-CAGAT
4987 CTTGCCT
1 CTTGCCT
4994 TTCTGCGTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
42 19 0.27
43 23 0.33
44 25 0.36
45 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (42 bp):
CTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGAACAGAT
Found at i:5182 original size:175 final size:176
Alignment explanation
Indices: 4846--5617 Score: 1035
Period size: 175 Copynumber: 4.4 Consensus size: 176
4836 AGTGAAGATA
* * * *
4846 AAAACACAAGCCTTGCCTC-CATCGGTTG-CAGTGGAGCTGGTTAAAGA-ACCAGATCTTGCCTT
1 AAAACACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * ** *
4908 CCTGCATTAACAGCGAAGCAGATCAAAAAC-AAAGTCTTGCCTC-CATC-GATTG-CAGTGGAGC
64 CCTGCATTGACAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTC-TCAG-TTGTGA-TGGAGC
* * ** * * *
4969 TGGTTAAAGATAGCAGATCTTGCCTTTCTGCGTTAACAGTGAAGCAGATCG
126 TGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
5020 AAAACA-AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
*
5084 TGCATTGTCAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTT
66 TGCATTGACAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTT
* *
5149 GAAGACAAAAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCG
131 GAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
* * *
5195 AAAACA-AAACCTTGCCTCCCTCAGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCATTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
* *
5259 TGCATTGTCAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTCTTAGTTGTGATGGAGCTGGTT
66 TGCATTGACAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTT
* * *
5324 GAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCG
131 GAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
* * * * *
5370 AAGACACAAACCTTGCCTCTCTTGGTGGTGATGGAGCTGGTTGAAAACAAAAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
* * * *
5435 TGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
66 TGCATTGACAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTT
* *
5500 GAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCG
131 GAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
* *
5546 AAGACACAAACCTTGCCTCTCTC-GTTGT-AGTGGAGATGGTTGAAGACAACAGATCTTGCCTTC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCTTC
* *
5609 TTGCCTTGA
65 CTGCATTGA
5618 TAGGGAAACA
Statistics
Matches: 543, Mismatches: 46, Indels: 17
0.90 0.08 0.03
Matches are distributed among these distances:
173 33 0.06
174 50 0.09
175 280 0.52
176 180 0.33
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (176 bp):
AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
TGCATTGACAGCGAAGCAGGTCAAAAACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTT
GAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCG
Found at i:5634 original size:87 final size:88
Alignment explanation
Indices: 4846--5650 Score: 993
Period size: 88 Copynumber: 9.2 Consensus size: 88
4836 AGTGAAGATA
* * * *
4846 AAAACACAAGCCTTGCCTC-CATCGGTTG-CAGTGGAGCTGGTTAAAGA-ACCAGATCTTGCCTT
1 AAAACACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* *
4908 CCTGCATTAACAGCGAAGCAGATC-
64 CCTGCATTGACAGCGAAGCAGGTCG
* * * * * *
4932 AAAA-ACAAAGTCTTGCCTC-CATCGATTG-CAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 AAAACACAAA-CCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCT
* * * * *
4994 TTCTGCGTTAACAGTGAAGCAGATCG
63 TCCTGCATTGACAGCGAAGCAGGTCG
5020 AAAACA-AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
* *
5084 TGCATTGTCAGCGAAGCAGGTCA
66 TGCATTGACAGCGAAGCAGGTCG
* * *
5107 AAAACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
* * * *
5172 TGCGTTAACAGTGAAGCAGATCG
66 TGCATTGACAGCGAAGCAGGTCG
* * *
5195 AAAACA-AAACCTTGCCTCCCTCAGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCATTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
* *
5259 TGCATTGTCAGCGAAGCAGGTCA
66 TGCATTGACAGCGAAGCAGGTCG
* ** *
5282 AAAACAAAAACCTTGCCTCTCTTAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
*
5347 TGTATTGACAGCGAAGCAGGTCG
66 TGCATTGACAGCGAAGCAGGTCG
* * * * *
5370 AAGACACAAACCTTGCCTCTCTTGGTGGTGATGGAGCTGGTTGAAAACAAAAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
5435 TGCATTGACAGCGAAGCAGGTCG
66 TGCATTGACAGCGAAGCAGGTCG
* *
5458 AAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
5523 TGCATTGACAGCGAAGCAGGTCG
66 TGCATTGACAGCGAAGCAGGTCG
* *
5546 AAGACACAAACCTTGCCTCTCTC-GTTGT-AGTGGAGATGGTTGAAGACAACAGATCTTGCCTTC
1 AAAACACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCTTC
* * * * * *
5609 TTGCCTTGATAGGGAAACAGATCG
65 CTGCATTGACAGCGAAGCAGGTCG
* * *
5633 AAGACACCAGCCTTGCCT
1 AAAACACAAACCTTGCCT
5651 TCCTGTACTG
Statistics
Matches: 647, Mismatches: 63, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
85 4 0.01
86 40 0.06
87 250 0.39
88 352 0.54
89 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
AAAACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
TGCATTGACAGCGAAGCAGGTCG
Found at i:5916 original size:98 final size:99
Alignment explanation
Indices: 5742--5999 Score: 358
Period size: 98 Copynumber: 2.6 Consensus size: 99
5732 AGTTTTCAAT
* * * *
5742 TCAAAAGATTGAAGCTACAACAGCGGATCTTACATTCCAAGCGGTGCAGCGGAACAGATTGAAGC
1 TCAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGCGGTGCAGTGGAACAGATTGAAGC
*
5807 TACAACGGCGGATCTCACTTCCCTGACATTGCAA
66 TACAACAGCGGATCTCACTTCCCTGACATTGCAA
* * * *
5841 TCCAAAGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAACAGATTGAAGC
1 TCAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGCGGTGCAGTGGAACAGATTGAAGC
*
5905 TACAACAGCGGATCTTACTTCCCTGACATTGCAA
66 TACAACAGCGGATCTCACTTCCCTGACATTGCAA
* * * *
5939 TTAAGAAGATTGAAGCTACAACAGC-AGATCTTACTTTCCTGACGTTGCAGTGGAACAGATT
1 TCAA-AAGATTGAAGCTACAACAGCGA-ATCTTACTTTCCAGGCGGTGCAGTGGAACAGATT
6000 AAAACCACAT
Statistics
Matches: 138, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
98 64 0.46
99 50 0.36
100 24 0.17
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (99 bp):
TCAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGCGGTGCAGTGGAACAGATTGAAGC
TACAACAGCGGATCTCACTTCCCTGACATTGCAA
Found at i:5999 original size:50 final size:50
Alignment explanation
Indices: 5747--5999 Score: 244
Period size: 50 Copynumber: 5.1 Consensus size: 50
5737 TCAATTCAAA
* * * *
5747 AGATTGAAGCTACAACAGCGGATCTTACATTCC-AAGCGGTGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CGTTGCAGTGGAAC
* * * * * **
5797 AGATTGAAGCTACAACGGCGGATCTCACTTCCCTGACATTGCAATCCAA-
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGGAAC
* * * * * * *
5846 AGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGGAAC
* * * * *
5895 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGGAA-C
*
5945 AGATTGAAGCTACAACAGCAGATCTTACTTTCCTGACGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGGAAC
5995 AGATT
1 AGATT
6000 AAAACCACAT
Statistics
Matches: 157, Mismatches: 41, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
48 13 0.08
49 48 0.31
50 93 0.59
51 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGGAAC
Found at i:6020 original size:50 final size:50
Alignment explanation
Indices: 5966--6070 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
5956 ACAACAGCAG
* * * *
5966 ATCTTACTT-TCCTGACGTTGCAGTGGAACAGATTAAAACCACATCGGTGA
1 ATCTTACTTCCCCT-ACATTGCAGTGAAAAAGATTAAAACCACATCGGTGA
* * *
6016 ATCTTGCTTCCCCTACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGA
1 ATCTTACTTCCCCTACATTGCAGTGAAAAAGATTAAAACCACATCGGTGA
6066 ATCTT
1 ATCTT
6071 GATTAAAGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 44 0.94
51 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (50 bp):
ATCTTACTTCCCCTACATTGCAGTGAAAAAGATTAAAACCACATCGGTGA
Found at i:6070 original size:100 final size:98
Alignment explanation
Indices: 5738--6070 Score: 278
Period size: 100 Copynumber: 3.3 Consensus size: 98
5728 CCACAGTTTT
* * * *
5738 CAATTCAAAAGATTGAAGCTACAACAGCGG-ATCTTACATTCCA-AGCGGTGCAGCGGAACAGAT
1 CAATTAAAAAGATTGAAGCCACAAC-G-GGAATCTTA-TTTCCAGA-CGGTGCAGTGGAACAGAT
* * * * * *
5801 TGAAGCTACAACGGCGGATCTCACTTCCCTGACATTG
62 TAAAACCACAACAGCGAATCTTACTTCCCTGACATTG
** * * *
5838 CAA-TCCAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGCAGTGGAACAGATTGA
1 CAATTAAAAAGATTGAAGCCACAACGG-GAATCTTATTTCCAGACGGTGCAGTGGAACAGATTAA
* * *
5902 AGCTACAACAGCGGATCTTACTTCCCTGACATTG
65 AACCACAACAGCGAATCTTACTTCCCTGACATTG
* * * * * *
5936 CAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTGACGTTGCAGTGGAACAGATTA
1 CAATTAAAAAGATTGAAGCCACAACGGGA-ATCTTA-TTTCCAGACGGTGCAGTGGAACAGATTA
* * * *
6001 AAACCACATCGGTGAATCTTGCTTCCCCT-ACATTG
64 AAACCACAACAGCGAATCTTACTT-CCCTGACATTG
* * *
6036 CAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
1 CAATTAAAAAGATTGAAGCCACAACGG-GAATCTT
6071 GATTAAAGCT
Statistics
Matches: 192, Mismatches: 33, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
97 1 0.01
98 63 0.33
99 47 0.24
100 76 0.40
101 5 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (98 bp):
CAATTAAAAAGATTGAAGCCACAACGGGAATCTTATTTCCAGACGGTGCAGTGGAACAGATTAAA
ACCACAACAGCGAATCTTACTTCCCTGACATTG
Found at i:6172 original size:124 final size:123
Alignment explanation
Indices: 5984--6307 Score: 513
Period size: 124 Copynumber: 2.6 Consensus size: 123
5974 TTCCTGACGT
*
5984 TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATT-AAAGCACATCGGTGAATCTTGCTT-CCCTACATTGCAGTTAAAAAGAT
6049 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
64 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
6109 TGCAGTGGAACAGATTAAAGCACATCGGTGAATCTTGCTTCCCTTACATTGCAGTTAAAAAGATT
1 TGCAGTGGAACAGATTAAAGCACATCGGTGAATCTTGCTTCCC-TACATTGCAGTTAAAAAGATT
* *
6174 AAAGCCACATCGGTGAATCTTGATTAAAGCTATAATAGCGAATCTTATGCCCCAAGCGA
65 AAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
* * * * * * *
6233 TGCAGTGGAACAGATTAAAGCCAAATTGGCGAATCTTGTTTCTCCGATATTGTAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAG-CACATCGGTGAATCTTGCTTC-CCTACATTGCAGTTAAAAAGAT
6298 TAAAGCCACA
64 TAAAGCCACA
6308 ATGACGAATC
Statistics
Matches: 186, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
123 3 0.02
124 121 0.65
125 60 0.32
126 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (123 bp):
TGCAGTGGAACAGATTAAAGCACATCGGTGAATCTTGCTTCCCTACATTGCAGTTAAAAAGATTA
AAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
Found at i:6486 original size:44 final size:44
Alignment explanation
Indices: 6438--6598 Score: 148
Period size: 44 Copynumber: 3.7 Consensus size: 44
6428 GTGCAAATAT
* * *
6438 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAG-TAGATCC
* * * * *
6482 TATCTCCCCGAAGTTGCAGAGGAGCGGATTAAAGTAGTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGTAGATCC
* * * *
6526 TATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAA--ATGATTGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-G-TAGATCC
* *
6570 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
6599 CGCATCAGAC
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 94 0.96
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGTAGATCC
Done.