Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga10g00926.P44
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: 69406
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:18214 original size:20 final size:22
Alignment explanation
Indices: 18173--18218 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
18163 TAAATATTCA
18173 TTTATACATATTTATTAGTAAT
1 TTTATACATATTTATTAGTAAT
*
18195 TTTATATATATTT-TTA-TAAT
1 TTTATACATATTTATTAGTAAT
18215 TTTA
1 TTTA
18219 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:18948 original size:28 final size:28
Alignment explanation
Indices: 18914--18976 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
18904 TCTCATATTA
18914 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
18942 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
18970 ATGGGGT
1 ATGGGGT
18977 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:23836 original size:93 final size:93
Alignment explanation
Indices: 23707--23878 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23697 GCCCATAAGT
* * *
23707 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23772 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23800 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23865 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
23879 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:23874 original size:46 final size:46
Alignment explanation
Indices: 23699--23874 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
23689 TGTAACCCGC
* * * *
23699 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
23745 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
23795 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
23838 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23875 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:23893 original size:46 final size:45
Alignment explanation
Indices: 23750--23893 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
23740 CGCATCCATA
* *
23750 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
23798 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
23843 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
23889 AGTGA
1 AGTGA
23894 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:34620 original size:107 final size:107
Alignment explanation
Indices: 34429--34642 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
34419 TATCTGTTGA
* * *
34429 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAGAAAGGCTAACTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
*
34494 CAACTTTCCCTATGCTAAATACTTTGATTTAAACAATGATAC
66 CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
* *
34536 AATGCATGCAAAAGGGAAGGGAAAAGAGAGATATATAAAAAGACAAAGTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
* *
34601 CAACTCTT-CTTAAGTTAAATACTTTGATTTAAACAATGATAC
66 CAACT-TTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
34643 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:35400 original size:2 final size:2
Alignment explanation
Indices: 35395--35426 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35385 TATACTCTTG
35395 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
35427 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:35966 original size:26 final size:26
Alignment explanation
Indices: 35930--36039 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
35920 TGATACAAAT
35930 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
35956 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
35982 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
36008 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
36034 TGATAA
1 TGATAA
36040 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:37700 original size:27 final size:27
Alignment explanation
Indices: 37659--37797 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
37649 GAGGAAGCGT
*
37659 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
37686 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
37713 TCTGGTGGCTCTGCCACATATATCTG-
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
37739 TTTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
37767 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
37793 TCTGG
1 TCTGG
37798 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:37883 original size:19 final size:22
Alignment explanation
Indices: 37859--37898 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37849 CTCCCCACAC
37859 GGTGTA-A-GGTTGGA-ATGGG
1 GGTGTATACGGTTGGATATGGG
37878 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
37899 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:46497 original size:40 final size:40
Alignment explanation
Indices: 46437--46550 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
46427 AAGAAAATGA
*
46437 CCTTGAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
* *
46477 CCTTAAATGCACATACGTGCCCCTGCTTAGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
** * * *
46517 TTTTAAATGCACATAAGTGCCCCTATTTGTACTT
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTT
46551 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:49665 original size:25 final size:25
Alignment explanation
Indices: 49637--49686 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
49627 GAATTTAAGT
49637 TAGATCAACTACCAGTTGTTAATGA
1 TAGATCAACTACCAGTTGTTAATGA
49662 TAGATCAACTACCAGTTGTTAATGA
1 TAGATCAACTACCAGTTGTTAATGA
49687 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:54994 original size:36 final size:33
Alignment explanation
Indices: 54935--55001 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 33
54925 TCTTTTTATA
* *
54935 TATTATAATATTAATTAATAAAATATTATTACT
1 TATTAAAATATTAATTAATAAAATATCATTACT
54968 TATTAAAATATTATTATTAATAAAAATATCATTA
1 TATTAAAATATTA--ATTAAT-AAAATATCATTA
55002 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:55001 original size:18 final size:17
Alignment explanation
Indices: 54943--54992 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
54933 TATATTATAA
54943 TATTAATTAATAAAATAT
1 TATT-ATTAATAAAATAT
*
54961 TATTACTTATTAAAATAT
1 TATTA-TTAATAAAATAT
54979 TATTATTAATAAAA
1 TATTATTAATAAAA
54993 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:55925 original size:22 final size:22
Alignment explanation
Indices: 55875--55926 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
55865 AAAAACCTTT
*
55875 TTAAATATATTTTTTAATTATAA
1 TTAAA-ATATTTTCTAATTATAA
** *
55898 AAAAAATATTTTCTAATTTTAA
1 TTAAAATATTTTCTAATTATAA
55920 TTAAAAT
1 TTAAAAT
55927 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:60746 original size:28 final size:28
Alignment explanation
Indices: 60712--60774 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
60702 TCTCATATTA
60712 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
60740 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
60768 ATGGGGT
1 ATGGGGT
60775 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:66156 original size:28 final size:28
Alignment explanation
Indices: 66124--66186 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
66114 TCCCATATTA
66124 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
66152 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
66180 ATGGGGT
1 ATGGGGT
66187 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:66544 original size:54 final size:54
Alignment explanation
Indices: 66486--66595 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
66476 AATTTGAGGT
*
66486 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTGTTAAGCC
1 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
66540 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
1 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
66594 AA
1 AA
66596 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:68558 original size:234 final size:234
Alignment explanation
Indices: 68149--68613 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
68139 TGAGTACTTG
68149 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
68214 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
68279 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
68344 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
68383 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
* *
68448 TACTTATTTGTATGTAATGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGTTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
*
68513 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTTGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
68578 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
68614 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.