Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008263.1 Hibiscus syriacus cultivar Beakdansim tig00110917_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: 50677
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:7639 original size:45 final size:45
Alignment explanation
Indices: 7570--7656 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
7560 GTAGGATACA
*
7570 AGGATCAATCAAGTTTTGAATTAATCATAAGGCTCAAAAAGATTG
1 AGGATCAATCAAGGTTTGAATTAATCATAAGGCTCAAAAAGATTG
* *
7615 AGGATCAATCAAGGTTTGATTTAATCATAAGTCTCAAAAAGA
1 AGGATCAATCAAGGTTTGAATTAATCATAAGGCTCAAAAAGA
7657 AGATCGAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (45 bp):
AGGATCAATCAAGGTTTGAATTAATCATAAGGCTCAAAAAGATTG
Found at i:15985 original size:20 final size:20
Alignment explanation
Indices: 15960--16013 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
15950 CGATTTTAGA
15960 AAATCGCAATGCGAATTTGT
1 AAATCGCAATGCGAATTTGT
15980 AAATCGCAATGCGAATTTGT
1 AAATCGCAATGCGAATTTGT
*
16000 AAATCGCAACGCGA
1 AAATCGCAATGCGA
16014 TTCTGGCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (20 bp):
AAATCGCAATGCGAATTTGT
Found at i:16046 original size:20 final size:20
Alignment explanation
Indices: 16002--16051 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
15992 GAATTTGTAA
*
16002 ATCGCAACGCGATTCTGGCT
1 ATCGCAACGCGATTCTGACT
*
16022 ATCGCAACGCGATTCTGATT
1 ATCGCAACGCGATTCTGACT
*
16042 GTCGCAACGC
1 ATCGCAACGC
16052 TGAATTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:19194 original size:18 final size:18
Alignment explanation
Indices: 19171--19205 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19161 AGAAAAAGGC
19171 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
19189 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
19206 CAACTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:19515 original size:140 final size:140
Alignment explanation
Indices: 19263--19545 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
19253 GCAAACGTTG
* *
19263 TATTATGTGTATTTTATGTGTAATCTTTTAATATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
*
19328 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
19393 CGAATTTGAC
131 CGAATTTGAC
19403 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
19468 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
19533 CGAATTTGAC
131 CGAATTTGAC
19543 TAT
1 TAT
19546 CGCAACGCGA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:19541 original size:20 final size:20
Alignment explanation
Indices: 19516--19606 Score: 146
Period size: 20 Copynumber: 4.5 Consensus size: 20
19506 TTACACATTC
*
19516 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
19536 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
19556 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
19576 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
19596 ATTTGACTATC
1 ATTTGACTATC
19607 TCAATGAGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:21274 original size:42 final size:42
Alignment explanation
Indices: 21215--21336 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
21205 GTGAATCGGG
* * * * *
21215 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGACCTCTTAAACGATGACAGAGGA
* ** *
21257 CTCTTGAACGATGGGAGGGGA-CTCTTGAGGGATGATAGAGGA
1 CTCTTGAACGATGGGA-GGGACCTCTTAAACGATGACAGAGGA
* *
21299 CTCTTGAACGATAGCAGAGG-CCTCTTAAACGATGACAG
1 CTCTTGAACGATGGGAG-GGACCTCTTAAACGATGACAG
21337 TTGAGTCAGG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.02
42 58 0.92
43 4 0.06
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGATGGGAGGGACCTCTTAAACGATGACAGAGGA
Found at i:21275 original size:21 final size:21
Alignment explanation
Indices: 21215--21332 Score: 83
Period size: 21 Copynumber: 5.6 Consensus size: 21
21205 GTGAATCGGG
* * * *
21215 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGGCAGGGGC
* *
21236 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGCAGGGGC
* *
21257 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGCAGGGGC
** ** * *
21278 CTCTTGAGGGATGATAGAGGA
1 CTCTTGAACGATGGCAGGGGC
* *
21299 CTCTTGAACGATAGCAGAGGC
1 CTCTTGAACGATGGCAGGGGC
*
21320 CTCTTAAACGATG
1 CTCTTGAACGATG
21333 ACAGTTGAGT
Statistics
Matches: 74, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGGCAGGGGC
Found at i:21866 original size:20 final size:20
Alignment explanation
Indices: 21843--21910 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
21833 GAAACTTAAA
*
21843 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
21863 ATCGTAACGC-AGAAATGACT
1 ATCGCAACGCGA-AAATGACT
**
21883 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
21903 ATCGCAAC
1 ATCGCAAC
21911 AAGATAATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:21978 original size:19 final size:19
Alignment explanation
Indices: 21916--21969 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
21906 GCAACAAGAT
* **
21916 AATCGCAATGCGAAATAAA
1 AATCGCAACGCGAAACCAA
21935 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
*
21954 AATCGCAACGTGAAAC
1 AATCGCAACGCGAAAC
21970 TAAATTCGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:21999 original size:20 final size:20
Alignment explanation
Indices: 21974--22011 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21964 TGAAACTAAA
21974 TTCGCGTTGCAATTTTCATT
1 TTCGCGTTGCAATTTTCATT
*
21994 TTCGCGTTGCGATTTTCA
1 TTCGCGTTGCAATTTTCA
22012 CGTTGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCAATTTTCATT
Found at i:22010 original size:14 final size:14
Alignment explanation
Indices: 21991--22023 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21981 TGCAATTTTC
*
21991 ATTTTCGCGTTGCG
1 ATTTTCACGTTGCG
22005 ATTTTCACGTTGCG
1 ATTTTCACGTTGCG
22019 ATTTT
1 ATTTT
22024 ATTTCGCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTTTCACGTTGCG
Found at i:22078 original size:20 final size:19
Alignment explanation
Indices: 22024--22098 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
22014 TTGCGATTTT
*
22024 ATTTCGCATTGCGATAGTC
1 ATTTCGCGTTGCGATAGTC
* * *
22043 AAATTCGTGTTACGATAGTC
1 -ATTTCGCGTTGCGATAGTC
22063 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATAGTC
22083 ATTTTCGCGTTGCGAT
1 A-TTTCGCGTTGCGAT
22099 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.87
21 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGTC
Found at i:22115 original size:40 final size:38
Alignment explanation
Indices: 22005--22117 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 38
21995 TCGCGTTGCG
* *
22005 ATTTTCACGTTGCGATTTTATTTCGCATTGCGATAGTC
1 ATTTTCGCGTTGCGATTTTATTTCGCGTTGCGATAGTC
** * * * *
22043 AAATTCGTGTTACGATAGTCATTTCCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGAT-TTTATTT-CGCGTTGCGATAGTC
*
22083 ATTTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 ATTTTCGCGTTGCGATTTT-A-TTTCGCGTTGCGA
22118 CTATTCTTCT
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
38 11 0.20
39 6 0.11
40 36 0.64
41 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (38 bp):
ATTTTCGCGTTGCGATTTTATTTCGCGTTGCGATAGTC
Found at i:24046 original size:20 final size:20
Alignment explanation
Indices: 24023--24108 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
24013 TCTGAAACTT
24023 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
24043 AAAACCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
24063 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
24082 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
24101 AAAATCGC
1 AAAATCGC
24109 GTTGCAATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 25 0.44
20 32 0.56
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:24526 original size:22 final size:22
Alignment explanation
Indices: 24498--24548 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
24488 GATGGATATA
24498 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
24520 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
24542 GATGGAT
1 GACGGAT
24549 GTCGCCGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.12, G:0.45, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:24780 original size:21 final size:21
Alignment explanation
Indices: 24756--24796 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24746 ATTTACATAT
*
24756 TCGCATTGCGAATTTGGAAAA
1 TCGCATTGCGAATCTGGAAAA
*
24777 TCGCGTTGCGAATCTGGAAA
1 TCGCATTGCGAATCTGGAAA
24797 CTGATTTGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGAATCTGGAAAA
Found at i:29851 original size:20 final size:20
Alignment explanation
Indices: 29793--29852 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
29783 CTCAAAAATA
29793 TAAT-ATATTAATATTTTATTT
1 TAATAATATTAATATTTTA--T
* **
29814 TAA-AA-ATAAATAAATTAT
1 TAATAATATTAATATTTTAT
29832 TAATAATATTAATATTTTAT
1 TAATAATATTAATATTTTAT
29852 T
1 T
29853 GATTTGCCGG
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
18 4 0.13
19 2 0.07
20 20 0.67
21 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATAATATTAATATTTTAT
Found at i:31083 original size:14 final size:14
Alignment explanation
Indices: 31059--31086 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31049 TTTTCAGAAT
31059 CTGTTTTTAATAAA
1 CTGTTTTTAATAAA
31073 CTGTTTTTAATAAA
1 CTGTTTTTAATAAA
31087 AAGCATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
CTGTTTTTAATAAA
Found at i:34717 original size:49 final size:50
Alignment explanation
Indices: 34626--34723 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 50
34616 CTATACCACG
* *
34626 CTATATGCTGATATGGCGTCACGTGGGATAAGACGCGCCCCTGCACCGCA
1 CTATATGCTGACATGGCATCACGTGGGATAAGACGCGCCCCTGCACCGCA
34676 CTATATGCTGACATGG-ATACACGT-GGATAAGACGCGCCCCTGCACCGC
1 CTATATGCTGACATGGCAT-CACGTGGGATAAGACGCGCCCCTGCACCGC
34724 GCCTTACACC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 25 0.56
50 20 0.44
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (50 bp):
CTATATGCTGACATGGCATCACGTGGGATAAGACGCGCCCCTGCACCGCA
Found at i:35101 original size:10 final size:10
Alignment explanation
Indices: 35086--35117 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
35076 AATATTATAA
35086 TAATTATTTT
1 TAATTATTTT
35096 TAATTATTTT
1 TAATTATTTT
35106 TAATTAATTTT
1 TAATT-ATTTT
35117 T
1 T
35118 GTGTTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TAATTATTTT
Found at i:36563 original size:9 final size:9
Alignment explanation
Indices: 36528--36584 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
36518 TTTATATCTA
*
36528 TAAAAAAAT
1 TAAATAAAT
*
36537 TATATAAA-
1 TAAATAAAT
*
36545 TAAA-ATAT
1 TAAATAAAT
36553 TAAATAAAT
1 TAAATAAAT
*
36562 TAAAT-ACT
1 TAAATAAAT
36570 TAAATAAAT
1 TAAATAAAT
36579 TAAATA
1 TAAATA
36585 CAAAATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
7 2 0.05
8 14 0.37
9 22 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAATAAAT
Found at i:36565 original size:17 final size:17
Alignment explanation
Indices: 36530--36582 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
36520 TATATCTATA
* *
36530 AAAAAATTATATAAA-T
1 AAAATATTAAATAAATT
36546 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
36563 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
36580 AAA
1 AAA
36583 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
17 12 0.38
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:36583 original size:17 final size:17
Alignment explanation
Indices: 36540--36585 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
36530 AAAAAATTAT
*
36540 ATAAATAAAATA-TTAA
1 ATAAATTAAATACTTAA
36556 ATAAATTAAATACTTAA
1 ATAAATTAAATACTTAA
36573 ATAAATTAAATAC
1 ATAAATTAAATAC
36586 AAAATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATTAAATACTTAA
Found at i:37832 original size:29 final size:29
Alignment explanation
Indices: 37798--37856 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37788 CCTAAATTAA
37798 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
37827 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
37856 T
1 T
37857 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:42514 original size:29 final size:29
Alignment explanation
Indices: 42480--42538 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
42470 CCTAAATTAA
42480 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
42509 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
42538 T
1 T
42539 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:47010 original size:20 final size:21
Alignment explanation
Indices: 46972--47011 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
46962 TTCCTAGAGG
46972 TGGGAAGAACAAAAAGAAGAA
1 TGGGAAGAACAAAAAGAAGAA
* *
46993 TGGGAA-AACAGAATGAAGA
1 TGGGAAGAACAAAAAGAAGA
47012 TGCTGGAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TGGGAAGAACAAAAAGAAGAA
Done.