Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga10g00926.P53
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: 66880
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2 characters in sequence are not A, C, G, or T
Found at i:1294 original size:234 final size:234
Alignment explanation
Indices: 885--1349 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
875 TGAGTACTTG
885 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
950 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
1015 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
1080 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
1119 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
* *
1184 TACTTATTTGTATGTAATGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGTTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
*
1249 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTTGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
1314 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
1350 CTTCAAACAG
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 228 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (234 bp):
GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
Found at i:5555 original size:21 final size:21
Alignment explanation
Indices: 5529--5570 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5519 ATAACATAAT
5529 ACTTTTATCATTAGGTTAAGA
1 ACTTTTATCATTAGGTTAAGA
5550 ACTTTTATCATTAGGTTAAGA
1 ACTTTTATCATTAGGTTAAGA
5571 GATTGTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
ACTTTTATCATTAGGTTAAGA
Found at i:7243 original size:107 final size:107
Alignment explanation
Indices: 7054--7267 Score: 358
Period size: 107 Copynumber: 2.0 Consensus size: 107
7044 TATCTGTTGA
* *
7054 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAGAAAGGCTAACTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
*
7119 CAACTTTCCCTATGCTAAATACTTTGATTTAAACAATGATAC
66 CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
* *
7161 AATGCATGCAAAAGGGAAGGGAAAAGAGAGATATATAAAAAGACTAAGTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
*
7226 CAACTCTT-CTTAAGCTAAATACTTTGATTTAAACAATGATAC
66 CAACT-TTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
7268 GGGTTATTGC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 98 0.98
108 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (107 bp):
AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
Found at i:8025 original size:2 final size:2
Alignment explanation
Indices: 8020--8052 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8010 TATACTCTTG
8020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8053 TTGCTAAGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12686 original size:42 final size:43
Alignment explanation
Indices: 12590--12701 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 43
12580 AAACATCGCA
* * *
12590 CAAAGCCTGCTAGGTAATAAACCTGAT-TCAATACACTAGCAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCAGCAT
* *
12632 -AAAGCCTGCTAGGCAATAAGCTTGATATC-ATACACCGGCAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCAGCAT
*
12673 CAAAGCCTACTAGGCAATAAGCCTGATAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATAT
12702 ATCACTGTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 33 0.54
42 28 0.46
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (43 bp):
CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCAGCAT
Found at i:17567 original size:20 final size:22
Alignment explanation
Indices: 17526--17571 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17516 TAAATATTCA
17526 TTTATACATATTTATTAGTAAT
1 TTTATACATATTTATTAGTAAT
*
17548 TTTATATATATTT-TTA-TAAT
1 TTTATACATATTTATTAGTAAT
17568 TTTA
1 TTTA
17572 AAAAATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTATACATATTTATTAGTAAT
Found at i:18301 original size:28 final size:28
Alignment explanation
Indices: 18267--18329 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
18257 TCTCATATTA
18267 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
18295 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
18323 ATGGGGT
1 ATGGGGT
18330 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:23189 original size:93 final size:93
Alignment explanation
Indices: 23060--23231 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23050 GCCCATAAGT
* * *
23060 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23125 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23153 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23218 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
23232 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23227 original size:46 final size:46
Alignment explanation
Indices: 23052--23227 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
23042 TGTAACCCGC
* * * *
23052 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
23098 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
23148 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
23191 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23228 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:23246 original size:46 final size:45
Alignment explanation
Indices: 23103--23246 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
23093 CGCATCCATA
* *
23103 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
23151 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
23196 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
23242 AGTGA
1 AGTGA
23247 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:32094 original size:107 final size:107
Alignment explanation
Indices: 31903--32116 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
31893 TATCTGTTGA
* * *
31903 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAGAAAGGCTAACTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
*
31968 CAACTTTCCCTATGCTAAATACTTTGATTTAAACAATGATAC
66 CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
* *
32010 AATGCATGCAAAAGGGAAGGGAAAAGAGAGATATATAAAAAGACAAAGTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
* *
32075 CAACTCTT-CTTAAGTTAAATACTTTGATTTAAACAATGATAC
66 CAACT-TTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
32117 GGGTTATTGT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 96 0.98
108 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (107 bp):
AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
Found at i:32874 original size:2 final size:2
Alignment explanation
Indices: 32869--32900 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32859 TATACTCTTG
32869 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32901 TTGCTAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33440 original size:26 final size:26
Alignment explanation
Indices: 33404--33513 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
33394 TGATACAAAT
33404 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33430 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
33456 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
33482 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
33508 TGATAA
1 TGATAA
33514 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:35174 original size:27 final size:27
Alignment explanation
Indices: 35133--35271 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
35123 GAGGAAGCGT
*
35133 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
35160 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
35187 TCTGGTGGCTCTGCCACATATATCTG-
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
35213 TTTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
35241 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
35267 TCTGG
1 TCTGG
35272 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 27 0.27
27 59 0.59
28 14 0.14
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:35357 original size:19 final size:22
Alignment explanation
Indices: 35333--35372 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
35323 CTCCCCACAC
35333 GGTGTA-A-GGTTGGA-ATGGG
1 GGTGTATACGGTTGGATATGGG
35352 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
35373 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 7 0.39
22 4 0.22
ACGTcount: A:0.20, C:0.03, G:0.47, T:0.30
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:43971 original size:40 final size:40
Alignment explanation
Indices: 43911--44024 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
43901 AAGAAAATGA
*
43911 CCTTGAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
* *
43951 CCTTAAATGCACATACGTGCCCCTGCTTAGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
** * * *
43991 TTTTAAATGCACATAAGTGCCCCTATTTGTACTT
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTT
44025 CAATATCTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (40 bp):
CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
Found at i:47139 original size:25 final size:25
Alignment explanation
Indices: 47111--47160 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
47101 GAATTTAAGT
47111 TAGATCAACTACCAGTTGTTAATGA
1 TAGATCAACTACCAGTTGTTAATGA
47136 TAGATCAACTACCAGTTGTTAATGA
1 TAGATCAACTACCAGTTGTTAATGA
47161 GTTTACTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
TAGATCAACTACCAGTTGTTAATGA
Found at i:52468 original size:36 final size:33
Alignment explanation
Indices: 52409--52475 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 33
52399 TCTTTTTATA
* *
52409 TATTATAATATTAATTAATAAAATATTATTACT
1 TATTAAAATATTAATTAATAAAATATCATTACT
52442 TATTAAAATATTATTATTAATAAAAATATCATTA
1 TATTAAAATATTA--ATTAAT-AAAATATCATTA
52476 AAAAACAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 12 0.41
35 6 0.21
36 11 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
TATTAAAATATTAATTAATAAAATATCATTACT
Found at i:52475 original size:18 final size:17
Alignment explanation
Indices: 52417--52466 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
52407 TATATTATAA
52417 TATTAATTAATAAAATAT
1 TATT-ATTAATAAAATAT
*
52435 TATTACTTATTAAAATAT
1 TATTA-TTAATAAAATAT
52453 TATTATTAATAAAA
1 TATTATTAATAAAA
52467 ATATCATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATTAATAAAATAT
Found at i:53399 original size:22 final size:22
Alignment explanation
Indices: 53349--53400 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
53339 AAAAACCTTT
*
53349 TTAAATATATTTTTTAATTATAA
1 TTAAA-ATATTTTCTAATTATAA
** *
53372 AAAAAATATTTTCTAATTTTAA
1 TTAAAATATTTTCTAATTATAA
53394 TTAAAAT
1 TTAAAAT
53401 TAAAATATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAATATTTTCTAATTATAA
Found at i:58220 original size:28 final size:28
Alignment explanation
Indices: 58186--58248 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
58176 TCTCATATTA
58186 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
58214 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
58242 ATGGGGT
1 ATGGGGT
58249 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:63630 original size:28 final size:28
Alignment explanation
Indices: 63598--63660 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
63588 TCCCATATTA
63598 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
63626 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
63654 ATGGGGT
1 ATGGGGT
63661 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:64018 original size:54 final size:54
Alignment explanation
Indices: 63960--64069 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
63950 AATTTGAGGT
*
63960 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTGTTAAGCC
1 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
64014 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
1 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
64068 AA
1 AA
64070 TGGTAGGCCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (54 bp):
AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
Found at i:66032 original size:234 final size:234
Alignment explanation
Indices: 65623--66087 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
65613 TGAGTACTTG
65623 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
65688 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
65753 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
65818 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
65857 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
* *
65922 TACTTATTTGTATGTAATGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGTTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
*
65987 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTTGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
66052 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
66088 CTTCAAACAG
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 228 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (234 bp):
GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
Done.