Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009739.1 Corchorus capsularis cultivar CVL-1 contig09760, 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: 122416
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--26 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1 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
27 TAATTTTAAA
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:7144 original size:43 final size:42
Alignment explanation
Indices: 7080--7160 Score: 153
Period size: 43 Copynumber: 1.9 Consensus size: 42
7070 TTTCCTATTC
7080 TTCAGTCGTGCCTAGATTAATTTCCTCTTTTGTTTTTGATTG
1 TTCAGTCGTGCCTAGATTAATTTCCTCTTTTGTTTTTGATTG
7122 TTCAGTCGTGCCCTAGATTAATTTCCTCTTTTGTTTTTG
1 TTCAGTCGTG-CCTAGATTAATTTCCTCTTTTGTTTTTG
7161 TCAAAGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
42 10 0.26
43 28 0.74
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.52
Consensus pattern (42 bp):
TTCAGTCGTGCCTAGATTAATTTCCTCTTTTGTTTTTGATTG
Found at i:11483 original size:2 final size:2
Alignment explanation
Indices: 11476--11504 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11466 CCGCTGGTCC
11476 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 T
11505 TTTATATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23447 original size:54 final size:54
Alignment explanation
Indices: 23363--23470 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
23353 TCGTTGGTAG
*
23363 ACTCACCCAACATATCCAGATGCGCGACATGGATCGGATTCGGATTAGTCAGGC
1 ACTCACCCAACATATCCAGATGCGCAACATGGATCGGATTCGGATTAGTCAGGC
23417 ACTCACCCAACATATCCAGATGCGCAACATGGATCGGATTCGGATTAGTCAGGC
1 ACTCACCCAACATATCCAGATGCGCAACATGGATCGGATTCGGATTAGTCAGGC
23471 CTGGATACCG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (54 bp):
ACTCACCCAACATATCCAGATGCGCAACATGGATCGGATTCGGATTAGTCAGGC
Found at i:26364 original size:126 final size:125
Alignment explanation
Indices: 26169--26631 Score: 608
Period size: 124 Copynumber: 3.7 Consensus size: 125
26159 ATATATATAT
* * * *
26169 TATACCGATGTTTACAAATGTCGGAACAAGTTCTTCACATCATTTGATTTTGACGTATTCCGACA
1 TATACCGACGTTTGCAAATGTCGGAACAAGTTTTTCACATCATTTGATTTCGACGTATTCCGACA
26234 TTTGTAAGTGTCGGTATAGATATTATATCGTGACATTTACTAAACATCGCTAAGAAAATAC
66 TTTGTAAGTGTCGGTATAGATATTATATCGTGACATTTACTAAACATCGCTAA-AAAATAC
* * *** **
26295 TATACCGACATTTGCAAATGTCGGAATAAGTTTTTCACATCATTTGATTTCGTTATATTTTGACA
1 TATACCGACGTTTGCAAATGTCGGAACAAGTTTTTCACATCATTTGATTTCGACGTATTCCGACA
*
26360 TTTGTAAGTATCGGTATAGATATTATATC-TGACATTTACTAAACATCGCTAAAAAATAC
66 TTTGTAAGTGTCGGTATAGATATTATATCGTGACATTTACTAAACATCGCTAAAAAATAC
* * * * *
26419 TATACCAATGTTTGCAAATGTCGGAATAAGTTTTTCACGTCATTTGATTTCGACGTATTCCGATA
1 TATACCGACGTTTGCAAATGTCGGAACAAGTTTTTCACATCATTTGATTTCGACGTATTCCGACA
* * * * * * *
26484 -TTGTAAGTGTTGGTATATATATTATATAGTGACATTTATTATACGTCGCTAAAAAATAA
66 TTTGTAAGTGTCGGTATAGATATTATATCGTGACATTTACTAAACATCGCTAAAAAATAC
** * * *
26543 TATACCGACGTTTGCAAATGTCATAACAA-TTTCTTCACATCATTTGTTTTCGATGTATTCCAAC
1 TATACCGACGTTTGCAAATGTCGGAACAAGTTT-TTCACATCATTTGATTTCGACGTATTCCGAC
* *
26607 ATTTGTAAGCGTTGGTATAGATATT
65 ATTTGTAAGTGTCGGTATAGATATT
26632 CGTGACATTT
Statistics
Matches: 292, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
123 27 0.09
124 139 0.48
125 44 0.15
126 82 0.28
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (125 bp):
TATACCGACGTTTGCAAATGTCGGAACAAGTTTTTCACATCATTTGATTTCGACGTATTCCGACA
TTTGTAAGTGTCGGTATAGATATTATATCGTGACATTTACTAAACATCGCTAAAAAATAC
Found at i:27841 original size:13 final size:13
Alignment explanation
Indices: 27823--27852 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
27813 TAATAGATGA
27823 TAATACCTATTTT
1 TAATACCTATTTT
27836 TAATACCTATTTT
1 TAATACCTATTTT
27849 TAAT
1 TAAT
27853 TATGTGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATACCTATTTT
Found at i:28594 original size:215 final size:214
Alignment explanation
Indices: 28229--29046 Score: 1121
Period size: 215 Copynumber: 3.8 Consensus size: 214
28219 TTAAGAAACT
* * * *
28229 TCAATTTAAAAAAGAGTTGTAAGGTGCTGCGAC--CTATAAAATGTCACATATTAAAACGACGTT
1 TCAATTTAAAAAAGAGTCGCAAGGTACTGCGACGTTTATAAAATGTCACATATTAAAACGACGTT
* *
28292 TCC--AAAACGTTGTTATAAATGTCGGAAAAGTTCATCTTAAAGCGGCGTTTGTTAAAAAATGTC
66 TCCGAAAAACGTTGTTATAAATGTCGGAAAAGTCCATCTTAAAGCGGCATTTGTTAAAAAATGTC
* *
28355 ACATGATTGAACGACGTTTGAGAAAAACGTCTCTATAAACGTCACAAAAACATAAACAAGAGCGA
131 ACATGATTGAACGACGTTTGAGAAAAACGTCTCTACAAACGTCGCAAAAACATAAACAAGAGCGA
*
28420 CGTTATTAAAAAACGTCAT
196 CGTTATTAAAAAACGTCAC
*
28439 TCAATTTAAAAAAGAGTCGCAAGGTACTGCGACGTATATTAAAATGTCACATATTAAAACGACGT
1 TCAATTTAAAAAAGAGTCGCAAGGTACTGCGACGTTTA-TAAAATGTCACATATTAAAACGACGT
*
28504 TTCCGAAAAACGTTGTTATAAATGTCGGAAAAGTCCATCTTAAAGCGGCGTTTGTTAAAAAATGT
65 TTCCGAAAAACGTTGTTATAAATGTCGGAAAAGTCCATCTTAAAGCGGCATTTGTTAAAAAATGT
* * * *
28569 CGCATGATTGAGCGACGTTTGAGAAAAACGTCTATACAAACGTCGCAAAAGCATAAACAAGAGCG
130 CACATGATTGAACGACGTTTGAGAAAAACGTCTCTACAAACGTCGCAAAAACATAAACAAGAGCG
28634 ACGTTATTAAAAAACGTCAC
195 ACGTTATTAAAAAACGTCAC
* ** *
28654 TCAATTTAAAAAAGAGTCGCAAGGTACTGCGACGTTTCTTATTATGTCATATATTAAAACGACGT
1 TCAATTTAAAAAAGAGTCGCAAGGTACTGCGACGTTT-ATAAAATGTCACATATTAAAACGACGT
* * * * *
28719 TTCCGAAAACCGTTGTTATAAATGTTGGAAAAATCTATCTTAAAGCGACATTTGTTAAAAAAATG
65 TTCCGAAAAACGTTGTTATAAATGTCGGAAAAGTCCATCTTAAAGCGGCATTTGTT-AAAAAATG
* *
28784 TCACATGATTGAACGACGTTTGA-AAAAACGTCTCTACAAGCGTCGCAAAAATATAAACAAGAGC
129 TCACATGATTGAACGACGTTTGAGAAAAACGTCTCTACAAACGTCGCAAAAACATAAACAAGAGC
**
28848 GACGCAATTAAAAAACGTCAC
194 GACGTTATTAAAAAACGTCAC
* * ** * **
28869 ACAATTTTAAAAAAGAGTCGCAAGATTTTACGACGTTTATAAAATGTCATTTATT-AAACGACGT
1 TCAA-TTTAAAAAAGAGTCGCAAGGTACTGCGACGTTTATAAAATGTCACATATTAAAACGACGT
** * * *
28933 TTCCTTAAAATGTTGTTATAAATGTCGGAAAAGTCTATCTTAAAACGAG-ATTTGTT-AAAAATG
65 TTCCGAAAAACGTTGTTATAAATGTCGGAAAAGTCCATCTTAAAGCG-GCATTTGTTAAAAAATG
* * * * * *
28996 TCGCATGATTGAACGACGTTTGACAAAAATGTCTTTACAAATGTCGTAAAA
129 TCACATGATTGAACGACGTTTGAGAAAAACGTCTCTACAAACGTCGCAAAA
29047 GCGTGATCAA
Statistics
Matches: 544, Mismatches: 54, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
210 30 0.06
212 31 0.06
213 52 0.10
214 56 0.10
215 317 0.58
216 58 0.11
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (214 bp):
TCAATTTAAAAAAGAGTCGCAAGGTACTGCGACGTTTATAAAATGTCACATATTAAAACGACGTT
TCCGAAAAACGTTGTTATAAATGTCGGAAAAGTCCATCTTAAAGCGGCATTTGTTAAAAAATGTC
ACATGATTGAACGACGTTTGAGAAAAACGTCTCTACAAACGTCGCAAAAACATAAACAAGAGCGA
CGTTATTAAAAAACGTCAC
Found at i:29513 original size:3 final size:3
Alignment explanation
Indices: 29505--29531 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29495 TGTTTCCATT
29505 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
29532 TCTATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:29787 original size:13 final size:12
Alignment explanation
Indices: 29764--29806 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
29754 TTGATATAGG
*
29764 TATCGACGGATG
1 TATCGACGGATA
29776 TATCGAACGGATA
1 TATCG-ACGGATA
29789 TATCGACGGATA
1 TATCGACGGATA
29801 TATCGA
1 TATCGA
29807 GGTATCGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (12 bp):
TATCGACGGATA
Found at i:32606 original size:27 final size:23
Alignment explanation
Indices: 32551--32599 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
32541 CAAACAATCT
*
32551 TGAGCACTCTCGCTTGGTCTCTA
1 TGAGCACTCTCGCTCGGTCTCTA
32574 TGAGCACTCTCGCTCGGTCTCTA
1 TGAGCACTCTCGCTCGGTCTCTA
32597 TGA
1 TGA
32600 ACTAGCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.14, C:0.31, G:0.22, T:0.33
Consensus pattern (23 bp):
TGAGCACTCTCGCTCGGTCTCTA
Found at i:33917 original size:2 final size:2
Alignment explanation
Indices: 33910--33937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33900 AAACCACTTA
33910 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
33938 TCACACACAC
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):
AT
Found at i:35952 original size:2 final size:2
Alignment explanation
Indices: 35945--35973 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35935 AGATAACATA
35945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35974 ACTACCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65686 original size:2 final size:2
Alignment explanation
Indices: 65679--65710 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
65669 AATGAAAAAT
65679 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65711 TTAAATTTAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:65852 original size:2 final size:2
Alignment explanation
Indices: 65847--65881 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
65837 ACACACCCAC
65847 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
65882 TTACAGCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:78680 original size:29 final size:29
Alignment explanation
Indices: 78647--78702 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
78637 TTGCTTATTC
*
78647 TATCTTTCAATTG-TTGATTTGAATTGCCA
1 TATCTTGCAATTGATTGA-TTGAATTGCCA
*
78676 TATCTTGCTATTGATTGATTGAATTGC
1 TATCTTGCAATTGATTGATTGAATTGC
78703 AATTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (29 bp):
TATCTTGCAATTGATTGATTGAATTGCCA
Found at i:89379 original size:31 final size:31
Alignment explanation
Indices: 89344--89405 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
89334 AAAGTCATTA
* *
89344 ATGAATATTGTGATTATTCATGAATTAAGAG
1 ATGAATATTGTAATTATTCATGAATCAAGAG
89375 ATGAATATTGTAATTATTCATGAATCAAGAG
1 ATGAATATTGTAATTATTCATGAATCAAGAG
89406 TTTTCTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (31 bp):
ATGAATATTGTAATTATTCATGAATCAAGAG
Found at i:92577 original size:31 final size:31
Alignment explanation
Indices: 92542--92603 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
92532 AAAGTCATTA
*
92542 ATGAATATTGTGATTATTCATGAATCAAGAG
1 ATGAATATTGTAATTATTCATGAATCAAGAG
92573 ATGAATATTGTAATTATTCATGAATCAAGAG
1 ATGAATATTGTAATTATTCATGAATCAAGAG
92604 TTCTCTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (31 bp):
ATGAATATTGTAATTATTCATGAATCAAGAG
Found at i:93343 original size:32 final size:31
Alignment explanation
Indices: 93307--93368 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
93297 ATATATTGAT
*
93307 AATCAAAATGAGTTTTTACAACCATAGCATAC
1 AATCAAAATGAGTTTTTAC-ACCATACCATAC
*
93339 AATCAAAATGGGTTTTTACACCATACCATA
1 AATCAAAATGAGTTTTTACACCATACCATA
93369 TAACTAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (31 bp):
AATCAAAATGAGTTTTTACACCATACCATAC
Found at i:93564 original size:2 final size:2
Alignment explanation
Indices: 93557--93582 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93547 ATCTTCCTAC
93557 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
93583 GCAATCTATT
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):
TA
Found at i:95076 original size:11 final size:10
Alignment explanation
Indices: 95060--95105 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
95050 TTTAGTATTG
95060 TATATTAAGTA
1 TATATTAA-TA
95071 TATATTAATA
1 TATATTAATA
95081 TATA-T-ATA
1 TATATTAATA
95089 TATATATATATA
1 TATAT-TA-ATA
95101 TATAT
1 TATAT
95106 ACAGGATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.23
9 1 0.03
10 7 0.23
11 8 0.26
12 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
TATATTAATA
Found at i:95083 original size:2 final size:2
Alignment explanation
Indices: 95069--95106 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
95059 GTATATTAAG
95069 TA TA TA T- TA -A 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
95107 CAGGATAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:98715 original size:122 final size:121
Alignment explanation
Indices: 98489--98745 Score: 367
Period size: 122 Copynumber: 2.1 Consensus size: 121
98479 CGTTCAAAAA
* * * * *
98489 TTCCGTAGAAAATTCGGTGACAACTTCCTACAGATTTTCACACAATGGCGTTGGTTGCAAATTGC
1 TTCCATAGAAAATTCGGTGACAACTTCCTACAGATTTTCACACAACGACATTAGTTGCAAATTGC
*
98554 AACACATTTTGCAACAAAAAAAGTCAAGCAAATCGCATATAAT-TTTTTTTACCTTAT
66 AACACATTTTGCAACAAAAAAAGTCAAGAAAATCGCATAT--TGTTTTTTTACCTTAT
* *
98611 TTCCATAGGAAATTCGGTGACAACTTCCTACGGATTTTCACGA-AACGACATTAGTTGCAAATTG
1 TTCCATAGAAAATTCGGTGACAACTTCCTACAGATTTTCAC-ACAACGACATTAGTTGCAAATTG
98675 CAACACATTTTGCAACAAAAAAAG-CTAAGAAAATCGCATATTGTTTTTTTACCTTAT
65 CAACACATTTTGCAACAAAAAAAGTC-AAGAAAATCGCATATTGTTTTTTTACCTTAT
*
98732 TTCCGTATGAAAAT
1 TTCCATA-GAAAAT
98746 CCGTTGGGAA
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
120 1 0.01
121 21 0.17
122 98 0.81
123 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (121 bp):
TTCCATAGAAAATTCGGTGACAACTTCCTACAGATTTTCACACAACGACATTAGTTGCAAATTGC
AACACATTTTGCAACAAAAAAAGTCAAGAAAATCGCATATTGTTTTTTTACCTTAT
Found at i:103231 original size:18 final size:18
Alignment explanation
Indices: 103191--103232 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
103181 ACCATGTCAA
*
103191 ACTCTGTTTTTGATTTTC
1 ACTCTGTTTTTGATCTTC
103209 ACTCTGTTTCTT-ATCTTC
1 ACTCTGTTT-TTGATCTTC
*
103227 CCTCTG
1 ACTCTG
103233 GCTTAAGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.10, C:0.26, G:0.10, T:0.55
Consensus pattern (18 bp):
ACTCTGTTTTTGATCTTC
Done.