Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005035.1 Hibiscus syriacus cultivar Beakdansim tig00011304_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: 63448
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:618 original size:47 final size:48
Alignment explanation
Indices: 544--646 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 48
534 TTCGATTTGA
*
544 ATTCTGATCTGATACTTGACATGGATTCTGATCTGATA-TCGACATGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTCGACATGG
* * * *
591 ATTCTGATCTGATACTTGACTTTGATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTCGACATGG
*
639 ATTTTGAT
1 ATTCTGAT
647 ATGACTTGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 35 0.71
48 14 0.29
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (48 bp):
ATTCTGATCTGATACTTGACATGGATTCTGATATGATACTCGACATGG
Found at i:650 original size:24 final size:24
Alignment explanation
Indices: 544--646 Score: 145
Period size: 24 Copynumber: 4.3 Consensus size: 24
534 TTCGATTTGA
544 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
568 ATTCTGATCTGATA-TCGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
591 ATTCTGATCTGATACTTGACTTTG
1 ATTCTGATCTGATACTTGACATGG
* *
615 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
639 ATTTTGAT
1 ATTCTGAT
647 ATGACTTGAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
23 22 0.31
24 48 0.69
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:656 original size:22 final size:22
Alignment explanation
Indices: 590--663 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 22
580 TATCGACATG
* * *
590 GATTCTGATCTGATACTTGACTTT
1 GATTTTGATATGA-ACTTGAC-CT
*
614 GATTCTGATATGATACTTGACCT
1 GATTTTGATATGA-ACTTGACCT
637 GGATTTTGATATG-ACTTGACCT
1 -GATTTTGATATGAACTTGACCT
659 GATTT
1 GATTT
664 ATGTTTTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.11
22 9 0.20
23 1 0.02
24 31 0.67
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (22 bp):
GATTTTGATATGAACTTGACCT
Found at i:6004 original size:24 final size:24
Alignment explanation
Indices: 5976--6091 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
5966 TTCGATTTGA
* *
5976 ATTCTGATATGATATTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
6000 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
6024 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
6048 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
6072 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
6092 GTGATTTACG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:7470 original size:45 final size:45
Alignment explanation
Indices: 7401--7525 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
7391 ATTCAAGATT
7401 TTACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTA-T-ACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * **
7448 TTACCATTTATCCCATAAGCTCGTAAGCTTATCTTACCATTATAC
1 TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
7493 TTTCCA-TTATTCTATAAGCTCGTAAGCTTATTT
1 TTACCATTTATACCATAAGCTCGTAAGCTTATTT
7526 GCGTGGTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 24 0.34
45 35 0.50
46 1 0.01
47 10 0.14
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (45 bp):
TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:11605 original size:93 final size:93
Alignment explanation
Indices: 11486--11676 Score: 292
Period size: 93 Copynumber: 2.1 Consensus size: 93
11476 AAGAAGATGA
* * * * * *
11486 ATAAGAATGATTAAAATTGAACGAATCGATACCGTAAGAGATCAAAATCATTCTTTTTGTAAATC
1 ATAAGAATAACTAAAATCGAACGAATCGATACAGTAAAAGATCAAAATCATTCTTTTTGTAAATA
*
11551 GATAACCAAAATCAGTCATATCAAAAAT
66 GATAACCAAAATCAGTCATACCAAAAAT
*
11579 ATAAGAATAACTAAAATCGAACGAATCGATACAGTAAAAGATCAAAATCATTTTTTTTGTAAATA
1 ATAAGAATAACTAAAATCGAACGAATCGATACAGTAAAAGATCAAAATCATTCTTTTTGTAAATA
* *
11644 GGTAATCAAAATCAGTCATACCAAAAAT
66 GATAACCAAAATCAGTCATACCAAAAAT
11672 ATAAG
1 ATAAG
11677 GGGCTATCTG
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (93 bp):
ATAAGAATAACTAAAATCGAACGAATCGATACAGTAAAAGATCAAAATCATTCTTTTTGTAAATA
GATAACCAAAATCAGTCATACCAAAAAT
Found at i:18918 original size:2 final size:2
Alignment explanation
Indices: 18911--18938 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18901 GCACTTGGTT
18911 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18939 ATACATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19203 original size:21 final size:22
Alignment explanation
Indices: 19174--19218 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
19164 TTAGACACCC
*
19174 AAATCAATTGTCATTTTAATAA
1 AAATCAATTGTAATTTTAATAA
* *
19196 AAAT-AATTTTAATTTTATTAA
1 AAATCAATTGTAATTTTAATAA
19217 AA
1 AA
19219 CGTCTTAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATCAATTGTAATTTTAATAA
Found at i:21339 original size:16 final size:15
Alignment explanation
Indices: 21319--21361 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
21309 AATATATGGC
21319 CAATGATATATCTAA
1 CAATGATATATCTAA
*
21334 CTAATGATAATAACTAA
1 C-AATGAT-ATATCTAA
*
21351 CAATAATATAT
1 CAATGATATAT
21362 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (15 bp):
CAATGATATATCTAA
Found at i:23152 original size:4 final size:4
Alignment explanation
Indices: 23143--23175 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
23133 GAACTCTTCT
23143 TTTA TTTA TTTA -TTA TTTA -TTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
23176 TTTCATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:23158 original size:11 final size:10
Alignment explanation
Indices: 23142--23177 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
23132 TGAACTCTTC
23142 TTTTATTTAT
1 TTTTATTTAT
23152 TTATTATTTAT
1 TT-TTATTTAT
23163 TATTTATTTAT
1 T-TTTATTTAT
23174 TTTT
1 TTTT
23178 TCATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 18 0.75
12 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:23160 original size:7 final size:8
Alignment explanation
Indices: 23143--23175 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
23133 GAACTCTTCT
23143 TTTATTTA
1 TTTATTTA
23151 TTTA-TTA
1 TTTATTTA
23158 TTTA-TTA
1 TTTATTTA
23165 TTTATTTA
1 TTTATTTA
23173 TTT
1 TTT
23176 TTTCATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.58
8 10 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTTA
Found at i:23183 original size:8 final size:8
Alignment explanation
Indices: 23172--23222 Score: 57
Period size: 8 Copynumber: 5.8 Consensus size: 8
23162 TTATTTATTT
23172 ATTTTTTC
1 ATTTTTTC
23180 ATTTTTTTTC
1 A--TTTTTTC
23190 ATTTTTTC
1 ATTTTTTC
23198 ATTTTTCTTTC
1 A--TTT-TTTC
23209 ATTTTTTC
1 ATTTTTTC
23217 ATTTTT
1 ATTTTT
23223 CTTTCATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
8 19 0.50
9 3 0.08
10 11 0.29
11 5 0.13
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTTTTTC
Found at i:23203 original size:19 final size:19
Alignment explanation
Indices: 23172--23232 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
23162 TTATTTATTT
23172 ATTTTTTCATTTTT-TTTC
1 ATTTTTTCATTTTTCTTTC
23190 ATTTTTTCATTTTTCTTTC
1 ATTTTTTCATTTTTCTTTC
23209 ATTTTTTCATTTTTCTTTC
1 ATTTTTTCATTTTTCTTTC
23228 ATTTT
1 ATTTT
23233 CTCTATCTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 14 0.33
19 28 0.67
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTTTCATTTTTCTTTC
Found at i:26515 original size:24 final size:24
Alignment explanation
Indices: 26449--26517 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
26439 ACATGACCTG
*
26449 GATTCTGTTCTGATTTCTAATCTA
1 GATTCTGTTCTGATTTCTGATCTA
* * *
26473 GATTTTGTTCTGATATCTGAT-TT
1 GATTCTGTTCTGATTTCTGATCTA
*
26496 GAATTCTGTTTTGATTTCTGAT
1 G-ATTCTGTTCTGATTTCTGAT
26518 ATCTTTGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 2 0.05
24 35 0.95
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.54
Consensus pattern (24 bp):
GATTCTGTTCTGATTTCTGATCTA
Found at i:31039 original size:48 final size:48
Alignment explanation
Indices: 30963--31054 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
30953 TCCGACTTGA
*
30963 ATTCTATTCTGATACATGACTTGGATTCTATTCTGATTTCTGATCTGG
1 ATTCTATTCTGATACATGACTTGAATTCTATTCTGATTTCTGATCTGG
* * * * *
31011 ATTCTGTTCTGATATC-TGATTTGAATTCTGTTTTGATTTTTGAT
1 ATTCTATTCTGATA-CATGACTTGAATTCTATTCTGATTTCTGAT
31055 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 36 0.97
49 1 0.03
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (48 bp):
ATTCTATTCTGATACATGACTTGAATTCTATTCTGATTTCTGATCTGG
Found at i:31047 original size:24 final size:24
Alignment explanation
Indices: 30959--31039 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
30949 AATTTCCGAC
*
30959 TTGAATTCTATTCTGATA-CATGAC
1 TTGAATTCTATTCTGATATC-TGAT
* *
30983 TTGGATTCTATTCTGATTTCTGAT
1 TTGAATTCTATTCTGATATCTGAT
* * *
31007 CTGGATTCTGTTCTGATATCTGAT
1 TTGAATTCTATTCTGATATCTGAT
31031 TTGAATTCT
1 TTGAATTCT
31040 GTTTTGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (24 bp):
TTGAATTCTATTCTGATATCTGAT
Found at i:31054 original size:24 final size:24
Alignment explanation
Indices: 30987--31054 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
30977 CATGACTTGG
* *
30987 ATTCTATTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATTTCTGATCTGA
* *
31011 ATTCTGTTCTGATATCTGATTTGA
1 ATTCTGTTCTGATTTCTGATCTGA
* *
31035 ATTCTGTTTTGATTTTTGAT
1 ATTCTGTTCTGATTTCTGAT
31055 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.54
Consensus pattern (24 bp):
ATTCTGTTCTGATTTCTGATCTGA
Found at i:31222 original size:2 final size:2
Alignment explanation
Indices: 31215--31279 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
31205 CGGATGAAGG
31215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31257 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
31280 GTTTTAAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35308 original size:2 final size:2
Alignment explanation
Indices: 35301--35389 Score: 178
Period size: 2 Copynumber: 44.5 Consensus size: 2
35291 AATAGAATGA
35301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35385 AT AT A
1 AT AT A
35390 AGAATGAAGA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38926 original size:19 final size:20
Alignment explanation
Indices: 38904--38941 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
38894 AATGCGATAT
38904 ATAAAATGCA-ATGCAAAAA
1 ATAAAATGCAGATGCAAAAA
*
38923 ATAAAATGTAGATGCAAAA
1 ATAAAATGCAGATGCAAAA
38942 TGTAGGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.13, T:0.18
Consensus pattern (20 bp):
ATAAAATGCAGATGCAAAAA
Found at i:47915 original size:21 final size:21
Alignment explanation
Indices: 47890--47934 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47880 TTGGACATCC
* *
47890 AAAATGATTGTCATTTTAATA
1 AAAATAATTGTAATTTTAATA
* *
47911 AAAATAATTTTAATTTTATTA
1 AAAATAATTGTAATTTTAATA
47932 AAA
1 AAA
47935 CAACGTCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
AAAATAATTGTAATTTTAATA
Found at i:48918 original size:2 final size:2
Alignment explanation
Indices: 48911--48936 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48901 ATTATACTTA
48911 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48937 GATTCAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55195 original size:21 final size:21
Alignment explanation
Indices: 55154--55195 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
55144 TTACGTTTAA
* *
55154 TAAATTATTTAATAAATACAT
1 TAAATTATTAAATAAAAACAT
55175 TAAATT-TTAAATAGAAAACAT
1 TAAATTATTAAATA-AAAACAT
55196 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATTATTAAATAAAAACAT
Found at i:59006 original size:40 final size:41
Alignment explanation
Indices: 58962--59059 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
58952 GTTGGCCACA
* *
58962 CTTCTGCTATGGTTGAACAGAGATGAT-TT-TGATCCAACTC
1 CTTCTGCTATGGATGAACA-AAATGATATTCTGATCCAACTC
*
59002 CTTCTG-TGATGGATGAGCAAAATGATAATTCTGATCCAACTC
1 CTTCTGCT-ATGGATGAACAAAATGAT-ATTCTGATCCAACTC
* *
59044 CTTATGCGATGGATGA
1 CTTCTGCTATGGATGA
59060 TCCAAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
39 7 0.15
40 15 0.31
41 2 0.04
42 24 0.50
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (41 bp):
CTTCTGCTATGGATGAACAAAATGATATTCTGATCCAACTC
Found at i:59358 original size:36 final size:37
Alignment explanation
Indices: 59311--59403 Score: 134
Period size: 39 Copynumber: 2.5 Consensus size: 37
59301 AGATTTAATA
* *
59311 AGTTCTTCTCATTATGAACTTC-TCCCCCATTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCCCCCATCGAATG
*
59347 AGTTCTTCTCATTATGAACTTCTTATCCCTCATCGAATG
1 AGTTCTTCTCATTATGAACTTC-T-TCCCCCATCGAATG
59386 AGTTCTTCTCATTATGAA
1 AGTTCTTCTCATTATGAA
59404 TTGTCCATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 22 0.43
39 29 0.57
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.41
Consensus pattern (37 bp):
AGTTCTTCTCATTATGAACTTCTTCCCCCATCGAATG
Found at i:60570 original size:14 final size:14
Alignment explanation
Indices: 60547--60592 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
60537 TTGAATCCTC
*
60547 TTTTTATTTTCATT
1 TTTTTTTTTTCATT
*
60561 TTTTTTTTTTCCTT
1 TTTTTTTTTTCATT
*
60575 TTTTCTTTTTCATT
1 TTTTTTTTTTCATT
60589 TTTT
1 TTTT
60593 CTTTAAGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTCATT
Found at i:60593 original size:14 final size:14
Alignment explanation
Indices: 60553--60596 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
60543 CCTCTTTTTA
*
60553 TTTTCATTTTTTTT
1 TTTTCATTTTTTCT
*
60567 TTTTCCTTTTTTCT
1 TTTTCATTTTTTCT
60581 TTTTCATTTTTTCT
1 TTTTCATTTTTTCT
60595 TT
1 TT
60597 AAGCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCATTTTTTCT
Done.