Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009167.1 Hibiscus syriacus cultivar Beakdansim tig00112703_pilon, whole genome shotgun sequence
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: 189278
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 2
Found at i:90976 original size:33 final size:33
Alignment explanation
Indices: 90918--90995 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
90908 GAAATGAAAA
***
90918 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
90951 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
90984 TCGCGTTGCGAT
1 TCGCATTGCGAT
90996 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:91102 original size:14 final size:14
Alignment explanation
Indices: 91083--91119 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
91073 CATCAATTAA
91083 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
91097 ACAAATCATCTTTT
1 ACAAATCAACATTT
91111 ACAAATCAA
1 ACAAATCAA
91120 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:93026 original size:20 final size:19
Alignment explanation
Indices: 92991--93057 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
92981 GAAACTTAAA
92991 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
93010 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
93030 ATCACAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
93049 ATCGCAACG
1 ATCGCAACG
93058 ACAAAATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:93142 original size:14 final size:14
Alignment explanation
Indices: 93123--93180 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
93113 TTTCATTTCG
93123 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
93137 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
93153 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
93169 CGTTGTGATTTT
1 CGTTGCGATTTT
93181 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:93187 original size:33 final size:33
Alignment explanation
Indices: 93106--93196 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
93096 ACAAATCGCA
*
93106 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
93139 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
93171 TTGTGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
93197 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:93215 original size:20 final size:19
Alignment explanation
Indices: 93181--93235 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
93171 TTGTGATTTT
*
93181 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
93200 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
93220 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
93236 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:93743 original size:18 final size:18
Alignment explanation
Indices: 93717--93761 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
93707 GTCGATCAGA
*
93717 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
93735 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
93753 TGATGGCTC
1 TGATGGCTC
93762 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:95123 original size:20 final size:20
Alignment explanation
Indices: 95080--95117 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95070 AATAGTTTCT
95080 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
95100 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
95118 GAGAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:95624 original size:20 final size:20
Alignment explanation
Indices: 95599--95692 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
95589 GATTATGTAT
95599 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
95619 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
95639 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
95660 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
95680 TATCGCATTGCGA
1 TATCGCGTTGCGA
95693 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:95664 original size:41 final size:41
Alignment explanation
Indices: 95619--95696 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
95609 CGAAAGTCAG
* * *
95619 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
95660 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
95697 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:95693 original size:20 final size:20
Alignment explanation
Indices: 95579--95693 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
95569 CGCTTTGAAA
*
95579 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
95600 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
95620 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
95640 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
95661 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
95681 ATCGCATTGCGAT
1 ATCGCATTGCGAT
95694 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:95712 original size:41 final size:41
Alignment explanation
Indices: 95619--95714 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
95609 CGAAAGTCAG
* * * ** *
95619 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
95660 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
95702 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
95715 TTACTTATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:103254 original size:34 final size:34
Alignment explanation
Indices: 103152--103337 Score: 133
Period size: 34 Copynumber: 5.3 Consensus size: 34
103142 TTTTGACGAA
* *
103152 ATATATTATATAATTTTCAGAAAACGATTTTCGAAATCTT
1 ATATAATATATAATTTT--GAAAAC-ATTTT-GAAA--AT
* ** *
103192 ATATATTATATGGTTTTTGAAAACATTTTTAAAAT
1 ATATAATATAT-AATTTTGAAAACATTTTGAAAAT
* * * *
103227 ATGTAATATATAGTTTTGAAAATATTTTGAAAAC
1 ATATAATATATAATTTTGAAAACATTTTGAAAAT
* * *
103261 AT-TTATATAATATTTTTAAAAACATTTTGAAAACT
1 ATATAATAT-ATAATTTTGAAAACATTTTGAAAA-T
* * *
103296 ATATAATGTATAATTTTGAAAAC-TTTTTAAAAA
1 ATATAATATATAATTTTGAAAACATTTTGAAAAT
103329 ATATAATAT
1 ATATAATAT
103338 TGTTTAAAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 15
0.76 0.15 0.10
Matches are distributed among these distances:
33 13 0.11
34 49 0.41
35 24 0.20
36 4 0.03
37 3 0.03
38 5 0.04
39 6 0.05
40 11 0.09
41 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (34 bp):
ATATAATATATAATTTTGAAAACATTTTGAAAAT
Found at i:103333 original size:33 final size:33
Alignment explanation
Indices: 103206--103370 Score: 124
Period size: 34 Copynumber: 5.0 Consensus size: 33
103196 ATTATATGGT
* *
103206 TTTTGAAAACATTTTTAAAATATGTAATATATAG
1 TTTTGAAAACATTTTTAAAATATATAAT-TATAA
* * * * * *
103240 TTTTGAAAATATTTTGAAAACATTTATATAATAT
1 TTTTGAAAACATTTTTAAAATATATA-ATTATAA
* *
103274 TTTTAAAAACATTTTGAAAACTATATAATGTATAA
1 TTTTGAAAACATTTTTAAAA-TATATAAT-TATAA
*
103309 TTTTGAAAAC-TTTTTAAAAAATATAA-TAT--
1 TTTTGAAAACATTTTTAAAATATATAATTATAA
* *
103338 TGTTTAAAAACATTTTTTGAAATATAT-ATTATA
1 T-TTTGAAAACA-TTTTTAAAATATATAATTATA
103371 TAGTATTATT
Statistics
Matches: 105, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
29 1 0.01
30 8 0.08
31 4 0.04
32 15 0.14
33 6 0.06
34 53 0.50
35 18 0.17
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (33 bp):
TTTTGAAAACATTTTTAAAATATATAATTATAA
Found at i:120605 original size:15 final size:16
Alignment explanation
Indices: 120585--120618 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
120575 ATTGAATAAA
120585 TATTTC-TATTTTATT
1 TATTTCTTATTTTATT
*
120600 TATTTCTTGTTTTATT
1 TATTTCTTATTTTATT
120616 TAT
1 TAT
120619 AGGTATCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTTCTTATTTTATT
Found at i:124358 original size:23 final size:23
Alignment explanation
Indices: 124328--124373 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
124318 TTCTGTTGCA
124328 TTGCTAATCAGCTCCCCCTCCTC
1 TTGCTAATCAGCTCCCCCTCCTC
124351 TTGCTAATCAGCTCCCCCTCCTC
1 TTGCTAATCAGCTCCCCCTCCTC
124374 ACGTGAGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.48, G:0.09, T:0.30
Consensus pattern (23 bp):
TTGCTAATCAGCTCCCCCTCCTC
Found at i:132615 original size:30 final size:31
Alignment explanation
Indices: 132564--132621 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
132554 CGATTCGTGC
*
132564 TCGTTAAAAAAATTTACTGCTCGACTCGTAT
1 TCGTTAAAAAAATTTACTGCTCAACTCGTAT
**
132595 TCGTT-AAAAAATTTGTTGCTCAACTCG
1 TCGTTAAAAAAATTTACTGCTCAACTCG
132622 ACTCGTTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (31 bp):
TCGTTAAAAAAATTTACTGCTCAACTCGTAT
Found at i:174365 original size:6 final size:6
Alignment explanation
Indices: 174318--174364 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
174308 ATCCATCACA
* *
174318 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATC CCCATC CCCAT
1 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCAT
174365 CGCCGGTGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.55, G:0.11, T:0.17
Consensus pattern (6 bp):
CCCATG
Found at i:177659 original size:27 final size:29
Alignment explanation
Indices: 177618--177676 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
177608 TCATTTTATA
**
177618 ATATTTCAATAAAATCTAATAGTTATTTT
1 ATATTTCAATAAAATCTAATAACTATTTT
*
177647 ATATTT-AAT-AAATTTAATAACTATTTT
1 ATATTTCAATAAAATCTAATAACTATTTT
177674 ATA
1 ATA
177677 ACTTTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 18 0.67
28 3 0.11
29 6 0.22
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (29 bp):
ATATTTCAATAAAATCTAATAACTATTTT
Found at i:182899 original size:20 final size:21
Alignment explanation
Indices: 182866--182906 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
182856 TTTATTATAT
182866 ATATTTATGAATAT-ATAAAA
1 ATATTTATGAATATAATAAAA
**
182886 ATATTTATTCATATAATAAAA
1 ATATTTATGAATATAATAAAA
182907 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATTTATGAATATAATAAAA
Found at i:184286 original size:11 final size:11
Alignment explanation
Indices: 184265--184294 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
184255 CTGTAATTAT
184265 TATTT-ATATA
1 TATTTAATATA
184275 TATTTAATATA
1 TATTTAATATA
184286 TATTTAATA
1 TATTTAATA
184295 ATAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATTTAATATA
Found at i:184298 original size:3 final size:3
Alignment explanation
Indices: 184290--184390 Score: 175
Period size: 3 Copynumber: 33.7 Consensus size: 3
184280 AATATATATT
*
184290 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
184338 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
184386 TAA TA
1 TAA TA
184391 TGGATAAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:184937 original size:112 final size:113
Alignment explanation
Indices: 184711--185262 Score: 922
Period size: 112 Copynumber: 5.0 Consensus size: 113
184701 AGAATTATGC
* * *
184711 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-T--TTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
184773 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
184820 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
184885 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
184933 -AAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
184997 TATGAACTTTCTCTGGAAAAGCTGATCC-TCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
185044 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTC-TCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
185108 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
185156 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** *
185221 TATGAAC-TTCTCTGGAAAAGCTAATCTTTCAAATGATAGATT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATT
185263 TGAATCTTTG
Statistics
Matches: 421, Mismatches: 15, Indels: 11
0.94 0.03 0.02
Matches are distributed among these distances:
109 35 0.08
110 1 0.00
111 76 0.18
112 239 0.57
113 70 0.17
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
Found at i:185823 original size:83 final size:83
Alignment explanation
Indices: 185646--185956 Score: 491
Period size: 83 Copynumber: 3.7 Consensus size: 83
185636 GTTCTTACCA
* * * **
185646 AACCAGATAAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTATCCTT-ATTCTTCCAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGCA-AATTCA-TCTTCCAA
*
185710 ATTCAATGATTGGTTCTGTCC
63 ATTCAATGATTGATTCTGTCC
185731 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
* *
185796 CAATGATTTATTTTGTCC
66 CAATGATTGATTCTGTCC
*
185814 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
185879 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
*
185897 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC-AATTCATCTTCCA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
185957 GTTAATGTTT
Statistics
Matches: 214, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
82 13 0.06
83 155 0.72
84 4 0.02
85 42 0.20
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATT
CAATGATTGATTCTGTCC
Done.