Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1161_ERROPOS94589
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: 94589
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:2496 original size:40 final size:40
Alignment explanation
Indices: 2439--2569 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
2429 GACTAAAGAT
2439 CCGAAGGCATTTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
2480 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
2520 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGT-
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
2559 CCGAAGGCATT
1 CCGAAGGCATT
2570 GTATGAGTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 12 0.15
40 61 0.75
41 8 0.10
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:7829 original size:20 final size:19
Alignment explanation
Indices: 7806--7848 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7796 AAACTGATTA
*
7806 AATGACATTGAATTAAGTTG
1 AATGACATTGAA-TAAATTG
* *
7826 AATGGCATTGTATAAATTG
1 AATGACATTGAATAAATTG
7845 AATG
1 AATG
7849 GCTTTGGGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (19 bp):
AATGACATTGAATAAATTG
Found at i:24225 original size:18 final size:18
Alignment explanation
Indices: 24202--24238 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24192 TGCAAATGGA
*
24202 TCATTTCCATTTTCATTT
1 TCATTTCCATTCTCATTT
*
24220 TCATTTCTATTCTCATTT
1 TCATTTCCATTCTCATTT
24238 T
1 T
24239 TGGAAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (18 bp):
TCATTTCCATTCTCATTT
Found at i:26299 original size:17 final size:17
Alignment explanation
Indices: 26267--26300 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26257 AAAATTATAC
*
26267 TTGAAAACTTAGCTTGT
1 TTGAAAACATAGCTTGT
*
26284 TTGAAAACATATCTTGT
1 TTGAAAACATAGCTTGT
26301 ATAGCATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (17 bp):
TTGAAAACATAGCTTGT
Found at i:27466 original size:28 final size:28
Alignment explanation
Indices: 27390--27480 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 28
27380 ACAACTTACA
* *
27390 TGGCGAACCACC-AGTTCGCCAAACAAAC
1 TGGCGAACC-CCTAGCTCGCCAAATAAAC
* * *
27418 TGGTGAA-CCCTAACTCGCCAAATAGAC
1 TGGCGAACCCCTAGCTCGCCAAATAAAC
*
27445 TGGCGAACCCCTAGCTCACCAAATAAAC
1 TGGCGAACCCCTAGCTCGCCAAATAAAC
*
27473 TGACGAAC
1 TGGCGAAC
27481 ATGACTTTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
26 2 0.04
27 19 0.37
28 30 0.59
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.14
Consensus pattern (28 bp):
TGGCGAACCCCTAGCTCGCCAAATAAAC
Found at i:37291 original size:30 final size:30
Alignment explanation
Indices: 37257--37317 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
37247 AGTTAAAGCA
37257 ATAATATACACCCAGCAAAAATATTTAGTT
1 ATAATATACACCCAGCAAAAATATTTAGTT
37287 ATAATATACACCCAGCAAAAATATTTAGTT
1 ATAATATACACCCAGCAAAAATATTTAGTT
37317 A
1 A
37318 GGTGCCAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.30
Consensus pattern (30 bp):
ATAATATACACCCAGCAAAAATATTTAGTT
Found at i:38299 original size:123 final size:123
Alignment explanation
Indices: 38132--38500 Score: 648
Period size: 123 Copynumber: 3.0 Consensus size: 123
38122 TCCCCACATA
* * * *
38132 GAATCCCGCTTCCTCTTATTTGAAGAAAATTTTCCCTTAATGTCACTTGAACCCAACTTCACAAC
1 GAATCCCTCTTCCTCTTATTTGAAGACAATTTTTCCTTAATGTCACTTGAATCCAACTTCACAAC
** *
38197 ATCATCATCACTATGTGTATATTTCTTACATTCAACAAAATCCTCCATAATTGCACTT
66 ATCATCATCACTATGTGTGCATTTCTTACATTCAACAGAATCCTCCATAATTGCACTT
38255 GAATCCCTCTTCCTCTTATTTGAAGACAATTTTTCCTTAATGTCACTTGAATCCAACTTCACAAC
1 GAATCCCTCTTCCTCTTATTTGAAGACAATTTTTCCTTAATGTCACTTGAATCCAACTTCACAAC
* *
38320 ATCATCATCATTATGTGTGCATTTCTTACATTCAATAGAATCCTCCATAATTGCACTT
66 ATCATCATCACTATGTGTGCATTTCTTACATTCAACAGAATCCTCCATAATTGCACTT
*
38378 GAATCCCTCTTCCTCTTATTTGAAGACAATTTTTCCTTAATGTCACTCGAATCCAACTTCACAAC
1 GAATCCCTCTTCCTCTTATTTGAAGACAATTTTTCCTTAATGTCACTTGAATCCAACTTCACAAC
38443 ATCATCATCACTATGTGTGCATTTCTTACATTCAACAGAATCCTCCATAATTGCACTT
66 ATCATCATCACTATGTGTGCATTTCTTACATTCAACAGAATCCTCCATAATTGCACTT
38501 TTCACCTCAT
Statistics
Matches: 234, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 234 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (123 bp):
GAATCCCTCTTCCTCTTATTTGAAGACAATTTTTCCTTAATGTCACTTGAATCCAACTTCACAAC
ATCATCATCACTATGTGTGCATTTCTTACATTCAACAGAATCCTCCATAATTGCACTT
Found at i:44937 original size:64 final size:64
Alignment explanation
Indices: 44869--44993 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 64
44859 ATGTATAACT
* *
44869 TGCAAGAAAA-TAAACATACTT-AAAATAACATAAAAATGCCAAAATAACACCAACTTATTCTTT
1 TGCAAGAAAACAAAACATACTTAAAAACAACAT-AAAATGCCAAAATAACACCAACTT-TTCTTT
44932 A
64 A
**
44933 TGCAAGAAAACAAAACATACTTAAAAACAACATAAAATGCTGAAATAACACCAACTTTTCT
1 TGCAAGAAAACAAAACATACTTAAAAACAACATAAAATGCCAAAATAACACCAACTTTTCT
44994 AATGCTTCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
64 14 0.25
65 32 0.58
66 9 0.16
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.23
Consensus pattern (64 bp):
TGCAAGAAAACAAAACATACTTAAAAACAACATAAAATGCCAAAATAACACCAACTTTTCTTTA
Found at i:49899 original size:18 final size:17
Alignment explanation
Indices: 49876--49910 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49866 AATGGACCGG
49876 AATGGGCCGAGTGGGCCC
1 AATGGG-CGAGTGGGCCC
*
49894 AATGGGCTAGTGGGCCC
1 AATGGGCGAGTGGGCCC
49911 TACGCGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.26, G:0.43, T:0.14
Consensus pattern (17 bp):
AATGGGCGAGTGGGCCC
Found at i:50156 original size:27 final size:27
Alignment explanation
Indices: 50120--50257 Score: 145
Period size: 27 Copynumber: 5.1 Consensus size: 27
50110 GGTTGTTAAT
* *
50120 TGACCAAAATACCTTCGAAGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* *
50147 TTACTGAAAT-CCCTCGAAGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* * * *
50173 TGACCAAAACACTCTTGAAGGGTAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
*
50200 TGACCGAAATACCCTCGAAGGATAAAA
1 TGACCGAAATACCCTCGAAGGGTAAAA
* * *
50227 TGATCAAAATACCC-CCATAGGGTAAAA
1 TGACCGAAATACCCTCGA-AGGGTAAAA
50254 TGAC
1 TGAC
50258 TGTTATAACC
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
26 23 0.26
27 66 0.74
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
TGACCGAAATACCCTCGAAGGGTAAAA
Found at i:50200 original size:53 final size:54
Alignment explanation
Indices: 50120--50257 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
50110 GGTTGTTAAT
* * * *
50120 TGACCAAAATACCTTCGAAGGGTAAAATTACTGAAAT-CCCTCGAAGGGTAAAA
1 TGACCAAAACACCTTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAA
50173 TGACCAAAACACTCTT-GAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAA
1 TGACCAAAACAC-CTTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAA
* * * *
50227 TGATCAAAATACC-CCCATAGGGTAAAATGAC
1 TGACCAAAACACCTTCGA-AGGGTAAAATGAC
50258 TGTTATAACC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
53 32 0.44
54 41 0.56
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (54 bp):
TGACCAAAACACCTTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAA
Found at i:54079 original size:43 final size:42
Alignment explanation
Indices: 53992--54111 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 42
53982 GGCTCGTACA
* * *
53992 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACAGATCG
1 ATGCC-ACGTCCTAGACGTGGTCTTACACGAAAACACAGATCG
54035 ATGCCACTGTCCTAGACAG-GGTCTTACACGAAAACACA-AGTCG
1 ATGCCAC-GTCCTAGAC-GTGGTCTTACACGAAAACACAGA-TCG
* * * *
54078 ATGCCAACGTCCCAAATGTGGTCTTACACAAAAA
1 ATGCC-ACGTCCTAGACGTGGTCTTACACGAAAA
54112 TACTTTTCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 4 0.06
43 58 0.89
44 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCACGTCCTAGACGTGGTCTTACACGAAAACACAGATCG
Found at i:62221 original size:20 final size:19
Alignment explanation
Indices: 62182--62226 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
62172 TGATTTAGCT
**
62182 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAACTTA
*
62201 ATATTTTTGTTTTTAACTTA
1 AT-TTTTTATTTTTAACTTA
62221 ATTTTT
1 ATTTTT
62227 ACATTCTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTTTATTTTTAACTTA
Found at i:65242 original size:13 final size:14
Alignment explanation
Indices: 65226--65254 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
65216 TTTAAAAAAT
65226 AAAATAAAA-TAAA
1 AAAATAAAACTAAA
65239 AAAATAAAACTAAA
1 AAAATAAAACTAAA
65253 AA
1 AA
65255 GAAGACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAACTAAA
Found at i:65686 original size:22 final size:21
Alignment explanation
Indices: 65659--65700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65649 AACTCATTTT
65659 AAATCCCATTTAAAAAAAAACA
1 AAAT-CCATTTAAAAAAAAACA
* *
65681 AAATCCTTTTCAAAAAAAAC
1 AAATCCATTTAAAAAAAAAC
65701 TCTCCCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (21 bp):
AAATCCATTTAAAAAAAAACA
Found at i:65962 original size:21 final size:20
Alignment explanation
Indices: 65936--65975 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
65926 TTTTATCAGT
*
65936 ATAAAAGAAATAAGAAAATAA
1 ATAAAAGAAACAA-AAAATAA
65957 ATAAAAGAAACAAAAAATA
1 ATAAAAGAAACAAAAAATA
65976 TATATCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (20 bp):
ATAAAAGAAACAAAAAATAA
Found at i:66701 original size:44 final size:44
Alignment explanation
Indices: 66635--67041 Score: 425
Period size: 44 Copynumber: 9.2 Consensus size: 44
66625 GTATGGGAAA
66635 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
* * * *
66679 ACAAGATCTG-TCATCATCGATCTACTTCACGCCAATACGTGAAG
1 ACAAGATCTGCT-ATCTTTGATCTACTTCATGCCAATACATGAAG
* * *
66723 ACAAGATCTGTTACCTTTGATCTACTCCATGCCAATACATGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
* *
66767 ACAAGATCTG-TCATCTTCGATCTACTTCATGCCAATACGTGAAG
1 ACAAGATCTGCT-ATCTTTGATCTACTTCATGCCAATACATGAAG
* *
66811 ACAAGATCTGCTACCTTTGATCTACTTCATGCCGATACATGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
* * * ***
66855 ACAAGATCTGCTTTCTTCGAGCTACTTC--GCCACCAGTATGGGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCA--A-TACATGAAG
* * *
66900 ACAATATCTACTACCTTTGATCTACTTCATGCCGAAT-CATGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCC-AATACATGAAG
* * ***
66944 ACAAGATCTGCTTTCTTCGATCTACTTC--GCCACCAGTATGGGAAG
1 ACAAGATCTGCTATCTTTGATCTACTTCATGCCA--A-TACATGAAG
* *
66989 ACAAGATCTACTGA-CTTTGATCTACTTCACGCCAATACATGAAG
1 ACAAGATCTGCT-ATCTTTGATCTACTTCATGCCAATACATGAAG
67033 ACAAGATCT
1 ACAAGATCT
67042 TCGATCCACT
Statistics
Matches: 297, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.00
42 6 0.02
43 3 0.01
44 218 0.73
45 60 0.20
46 1 0.00
47 7 0.02
48 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
ACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACATGAAG
Found at i:66941 original size:89 final size:89
Alignment explanation
Indices: 66602--67041 Score: 572
Period size: 88 Copynumber: 5.0 Consensus size: 89
66592 ACTTGATGCG
* * * *
66602 ATCTTTGATCTACTTCACCACCAGTATGGGAAAACAAGATCTGCTATCTTTGATCTACTTCATGC
1 ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGC
66667 CAATACATGAAGACAAGATCTGTC
66 CAATACATGAAGACAAGATCTGTC
* * * * * * * *
66691 ATCATCGATCTACTTC-ACGCCAATACGTGAAGACAAGATCTGTTACCTTTGATCTACTCCATGC
1 ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGC
66755 CAATACATGAAGACAAGATCTGTC
66 CAATACATGAAGACAAGATCTGTC
* *
66779 ATCTTCGATCTACTTCATGCCA--A-TACGTGAAGACAAGATCTGCTACCTTTGATCTACTTCAT
1 ATCTTCGATCTACTTC--GCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCAT
*
66841 GCCGATACATGAAGACAAGATCTG-C
64 GCCAATACATGAAGACAAGATCTGTC
* * * *
66866 TTTCTTCGAGCTACTTCGCCACCAGTATGGGAAGACAATATCTACTACCTTTGATCTACTTCATG
1 -ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATG
66931 CCGAAT-CATGAAGACAAGATCTG-C
65 CC-AATACATGAAGACAAGATCTGTC
* * *
66955 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTGA-CTTTGATCTACTTCAC
1 -ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT-ACCTTTGATCTACTTCAT
67019 GCCAATACATGAAGACAAGATCT
64 GCCAATACATGAAGACAAGATCT
67042 TCGATCCACT
Statistics
Matches: 314, Mismatches: 27, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
86 4 0.01
87 1 0.00
88 156 0.50
89 149 0.47
90 3 0.01
91 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (89 bp):
ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTACTTCATGC
CAATACATGAAGACAAGATCTGTC
Found at i:68030 original size:25 final size:26
Alignment explanation
Indices: 67992--68040 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
67982 GTGTCTTGAA
67992 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
68017 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
68041 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:90471 original size:27 final size:27
Alignment explanation
Indices: 90414--90607 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 27
90404 GGGTATAACA
* *
90414 GTCATTTTACCCTAT-TGGGTATTTCG
1 GTCATTTTACCATATGGGGGTATTTCG
* * * *
90440 ATCATTCTACCATGTGGGGGTATTTTG
1 GTCATTTTACCATATGGGGGTATTTCG
* *
90467 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCATATGGGGGTATTTCG
*
90494 GTCATTTTA-CATTATGGGGGTATTTTG
1 GTCATTTTACCA-TATGGGGGTATTTCG
* * *
90521 GTCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCATATGGGGGTATTTCG
* ** *
90548 GTCATTTTACCTTATGAAGGTATTTCA
1 GTCATTTTACCATATGGGGGTATTTCG
* * **
90575 GTAATTTTACCCTATGAAGGTATTTCG
1 GTCATTTTACCATATGGGGGTATTTCG
90602 GTCATT
1 GTCATT
90608 CATTGACCTC
Statistics
Matches: 136, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
26 12 0.09
27 123 0.90
28 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCATATGGGGGTATTTCG
Found at i:90512 original size:54 final size:54
Alignment explanation
Indices: 90414--90607 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 54
90404 GGGTATAACA
* * * *
90414 GTCATTTTACCCTAT-TGGGTATTTCGATCATTCTACCA-TGTGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTA-CATTATGGGGGTATTTTG
*
90467 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACATTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACATTATGGGGGTATTTTG
* * * ** **
90521 GTCATTCTACCCTATAGGGGTATTTCGGTCATTTTACCTTATGAAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACATTATGGGGGTATTTTG
* **
90575 GTAATTTTACCCTATGAAGGTATTTCGGTCATT
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATT
90608 CATTGACCTC
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 17 0.14
54 104 0.86
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACATTATGGGGGTATTTTG
Found at i:90543 original size:81 final size:81
Alignment explanation
Indices: 90403--90608 Score: 252
Period size: 81 Copynumber: 2.6 Consensus size: 81
90393 TCATCTCCTA
** * * * * *
90403 GGGGTATAACAGTCATTTTACCCTAT-TGGGTATTTCGATCATTCTACCATGTGGGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATAGGGGTATTTCG
90467 GTCATTTTACCCTATG
66 GTCATTTTACCCTATG
** * * *
90483 GGGGTATTTCAGTCATTTTACATTATGGGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATAGGGGTATTTCG
*
90548 GTCATTTTACCTTATG
66 GTCATTTTACCCTATG
** * *
90564 AAGGTATTTCAGTAATTTTACCCTATGAAGGTATTTCGGTCATTC
1 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTC
90609 ATTGACCTCT
Statistics
Matches: 105, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 22 0.21
81 83 0.79
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (81 bp):
GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATAGGGGTATTTCG
GTCATTTTACCCTATG
Done.