Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000683.1 Hibiscus syriacus cultivar Beakdansim tig00001333_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: 93667
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Found at i:4054 original size:41 final size:42
Alignment explanation
Indices: 3955--4054 Score: 96
Period size: 42 Copynumber: 2.4 Consensus size: 42
3945 GTTCCTCAGC
* * * * * **
3955 CGTTAATCCTCATGAACCCATTAACGGAATTTTTTTCTCGGT
1 CGTTAATCCTCATTAACCCACTAACAGAAGTTTTCTCTCAAT
* *
3997 CGTTAATTCC-CGTTAACCCACTAATAGAAGTTTTCT-TCAAT
1 CGTTAA-TCCTCATTAACCCACTAACAGAAGTTTTCTCTCAAT
4038 CGTTAATCCTCATTAAC
1 CGTTAATCCTCATTAAC
4055 GAAAGTCTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
40 3 0.07
41 15 0.33
42 25 0.54
43 3 0.07
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (42 bp):
CGTTAATCCTCATTAACCCACTAACAGAAGTTTTCTCTCAAT
Found at i:9643 original size:16 final size:16
Alignment explanation
Indices: 9622--9661 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 16
9612 GCTGATTGCT
9622 GACGGCAGCGGCAGAC
1 GACGGCAGCGGCAGAC
*
9638 GAC-G--GCGACAGAC
1 GACGGCAGCGGCAGAC
9651 GACGGCAGCGG
1 GACGGCAGCGG
9662 ACGATGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 6
0.70 0.07 0.22
Matches are distributed among these distances:
13 11 0.58
14 1 0.05
15 1 0.05
16 6 0.32
ACGTcount: A:0.25, C:0.30, G:0.45, T:0.00
Consensus pattern (16 bp):
GACGGCAGCGGCAGAC
Found at i:10016 original size:77 final size:77
Alignment explanation
Indices: 9889--10045 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
9879 CTCTTACGGA
9889 AGCTGCTCTCAACCTGGTGTTGGGGATAGCCTACTATCTTACCTCCCCCTTACCCCATACATATG
1 AGCTGCTCTCAACCTGGTGTTGGGGATAGCCTACTATCTTACCTCCCCCTTACCCCATACATATG
9954 GGAAAAAGGGAC
66 GGAAAAAGGGAC
* *
9966 AGCTGCTCTCAACCTGGTGTTGGGGGTAGCCTACTATCTTACCTCCCCCTTATCCCATACATATG
1 AGCTGCTCTCAACCTGGTGTTGGGGATAGCCTACTATCTTACCTCCCCCTTACCCCATACATATG
10031 GGAAAAAGGGAC
66 GGAAAAAGGGAC
10043 AGC
1 AGC
10046 CATTTTATAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (77 bp):
AGCTGCTCTCAACCTGGTGTTGGGGATAGCCTACTATCTTACCTCCCCCTTACCCCATACATATG
GGAAAAAGGGAC
Found at i:16880 original size:30 final size:30
Alignment explanation
Indices: 16845--16944 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 30
16835 CTTTAAAGGC
16845 AATAGTGCATTTATGCTTTATTTTTAAAAA
1 AATAGTGCATTTATGCTTTATTTTTAAAAA
* * * * **
16875 AATAGTTAG-ATTCAAGC-CTAGGTCCTTTAAAGGC
1 AATAG-T-GCATTTATGCTTTA--T-TTTTAAA-AA
16909 AATAGTGCATTTATGCTTTATTTTTAAAAA
1 AATAGTGCATTTATGCTTTATTTTTAAAAA
16939 AATAGT
1 AATAGT
16945 TAGATTCAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 16
0.64 0.15 0.21
Matches are distributed among these distances:
30 13 0.26
31 13 0.26
32 4 0.08
33 13 0.26
34 7 0.14
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (30 bp):
AATAGTGCATTTATGCTTTATTTTTAAAAA
Found at i:16914 original size:64 final size:64
Alignment explanation
Indices: 16835--16963 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
16825 AAATAATATA
16835 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGATTCAAGCCTAGGTC
1 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGATTCAAGCCTAGGTC
16899 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGATTCAAGCCTAGGTC
1 CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGATTCAAGCCTAGGTC
16963 C
1 C
16964 CTCTCTGCTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (64 bp):
CTTTAAAGGCAATAGTGCATTTATGCTTTATTTTTAAAAAAATAGTTAGATTCAAGCCTAGGTC
Found at i:18417 original size:16 final size:17
Alignment explanation
Indices: 18372--18419 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
18362 TATTTATGAG
*
18372 GGAATTGAAATTTGTGAA
1 GGAATTGAAATCTGT-AA
* *
18390 GAAATTGGAATCTGT-A
1 GGAATTGAAATCTGTAA
18406 GGAATTGAAATCTG
1 GGAATTGAAATCTG
18420 AATCTGAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.52
18 12 0.48
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (17 bp):
GGAATTGAAATCTGTAA
Found at i:19242 original size:32 final size:31
Alignment explanation
Indices: 19198--19282 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
19188 GAAAAGAGCG
* *
19198 GGGCCACGGGGCCTACCTAAGAACACATCTTA
1 GGGCCACAGGGCCTACCTAAGAA-ACATCTCA
* ** **
19230 GGGCCGCAGGGCCTACCCGAGAATGATCTCA
1 GGGCCACAGGGCCTACCTAAGAAACATCTCA
*
19261 GGGCCACAGAGCCTACCTAAGA
1 GGGCCACAGGGCCTACCTAAGA
19283 GTCACATTAG
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.27, C:0.32, G:0.28, T:0.13
Consensus pattern (31 bp):
GGGCCACAGGGCCTACCTAAGAAACATCTCA
Found at i:19780 original size:26 final size:26
Alignment explanation
Indices: 19751--19800 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
19741 TGTTTTTTCC
19751 ATTCATTTC-AAAGCTTGATGATATCT
1 ATTCATTTCTAAA-CTTGATGATATCT
*
19777 ATTCATTTCTAAACTTGGTGATAT
1 ATTCATTTCTAAACTTGATGATAT
19801 TCTTGAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (26 bp):
ATTCATTTCTAAACTTGATGATATCT
Found at i:33820 original size:31 final size:31
Alignment explanation
Indices: 33782--33856 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
33772 AAGTTTTAAA
33782 ATAATAAATT-AGTCACTAACGTTATCAATTT
1 ATAATAAATTGA-TCACTAACGTTATCAATTT
33813 ATAATAAATTGATCACTAACGTTATCAATTT
1 ATAATAAATTGATCACTAACGTTATCAATTT
*
33844 ATAACAAATTGAT
1 ATAATAAATTGAT
33857 TACTGGATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (31 bp):
ATAATAAATTGATCACTAACGTTATCAATTT
Found at i:49061 original size:28 final size:28
Alignment explanation
Indices: 49016--49076 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
49006 CTTGAGTTTG
*
49016 TATATAGTCAACTTTACT-ATCTGAATAA
1 TATATAGTCAACTTTACTGCT-TGAATAA
*
49044 TATATAGTTAA-TTCTACTGCTTGAATAA
1 TATATAGTCAACTT-TACTGCTTGAATAA
49072 TATAT
1 TATAT
49077 GTTTGGTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 26 0.90
29 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (28 bp):
TATATAGTCAACTTTACTGCTTGAATAA
Found at i:50524 original size:31 final size:31
Alignment explanation
Indices: 50475--50535 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
50465 CAAGTTAAAT
* * *
50475 AATAAAAATATTTGTAATTATTTTTTTATAA
1 AATAAAAATATATATAATTATATTTTTATAA
*
50506 AATATAAATATATATAATTATATTTTTATA
1 AATAAAAATATATATAATTATATTTTTATA
50536 CTTTATGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
AATAAAAATATATATAATTATATTTTTATAA
Found at i:71360 original size:21 final size:22
Alignment explanation
Indices: 71334--71388 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
71324 GTGTTGCATT
71334 TCGCGTTGCGATTA-TTGAAAA
1 TCGCGTTGCGATTAGTTGAAAA
71355 TCGCGTTGCGA-TAGTTGAAAA
1 TCGCGTTGCGATTAGTTGAAAA
71376 TCGCGTTGCGATT
1 TCGCGTTGCGATT
71389 TTCCATTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (22 bp):
TCGCGTTGCGATTAGTTGAAAA
Found at i:71401 original size:20 final size:20
Alignment explanation
Indices: 71376--71629 Score: 284
Period size: 20 Copynumber: 12.6 Consensus size: 20
71366 TAGTTGAAAA
*
71376 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
*
71396 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
71416 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
71436 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
** *
71458 TATCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCC-AGT
* *
71479 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
71499 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
*
71520 T--CGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
71538 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
71558 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
*
71578 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
*
71598 TCGTGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
*
71618 TCGTGTTGCGAT
1 TCGCGTTGCGAT
71630 AGTCTACAGT
Statistics
Matches: 205, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.01
19 23 0.11
20 145 0.71
21 9 0.04
22 25 0.12
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:71464 original size:22 final size:21
Alignment explanation
Indices: 71439--71510 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
71429 TTCCAGTTCG
71439 CGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATAGTCTACAGTT-T
* * **
71461 CGTTGCGAT--TTTCCAAATT
1 CGTTGCGATAGTCTACAGTTT
71480 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTT-T
71502 CGTTGCGAT
1 CGTTGCGAT
71511 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTTT
Found at i:71494 original size:41 final size:41
Alignment explanation
Indices: 71419--71529 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
71409 TTCCATTTCG
*
71419 CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTAT
*
71461 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTAT
71502 CGTTGCGATTTTCCAAATTCGTTGCGAT
1 CGTTGCGATTTTCCAAATTCGTTGCGAT
71530 TTTCCATTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 49 0.74
42 14 0.21
43 3 0.05
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTAT
Found at i:72322 original size:6 final size:6
Alignment explanation
Indices: 72311--72373 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
72301 GTCTGTCTCG
72311 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
72359 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
72374 AATACGTGTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:72793 original size:41 final size:41
Alignment explanation
Indices: 72472--72776 Score: 515
Period size: 41 Copynumber: 7.5 Consensus size: 41
72462 ACAACTGTAG
72472 ACTATCGCAA--CGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
72511 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
72552 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * *
72593 ACTATAGCAACACGAAATGGAAAATCACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
72634 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
72675 ACTATCGCAACGCGAAATGAAAAAATCGTAACGCGATTTTCA
1 ACTATCGCAACGCGAAATG-GAAAATCGCAACGCGATTTTCA
* *
72717 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTCCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
72758 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
72777 CAACGCGAAT
Statistics
Matches: 249, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
39 9 0.04
41 201 0.81
42 39 0.16
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:73546 original size:4 final size:4
Alignment explanation
Indices: 73537--73561 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
73527 AACAATTATG
73537 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
73562 AATAGTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:75442 original size:30 final size:29
Alignment explanation
Indices: 75380--75442 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
75370 TACTGCTAAG
* *
75380 GGTGTTAGATCGGAAAATATAATCTGACC
1 GGTGTTAGATCAGAAAATATAATCTCACC
75409 GGTGTTAGATCAGAAAATATATTAT-TCACC
1 GGTGTTAGATCAGAAAATATA--ATCTCACC
75439 GGTG
1 GGTG
75443 ATATATCGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 20 0.67
30 8 0.27
31 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (29 bp):
GGTGTTAGATCAGAAAATATAATCTCACC
Found at i:75888 original size:15 final size:15
Alignment explanation
Indices: 75850--75880 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75840 AAAAAATTAT
75850 ATAAAAATACTAAAA
1 ATAAAAATACTAAAA
75865 ATAAAAATACTAAAA
1 ATAAAAATACTAAAA
75880 A
1 A
75881 ATTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAAATACTAAAA
Found at i:75933 original size:29 final size:28
Alignment explanation
Indices: 75867--75933 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
75857 TACTAAAAAT
*
75867 AAAAATACT-AAAAAATTAAATATATATT
1 AAAAATA-TAAAAAAATTAAATATATATA
75895 AAAAAT-TAAAAAAATTAAATATATATA
1 AAAAATATAAAAAAATTAAATATATATA
75922 ATAAAATATAAA
1 A-AAAATATAAA
75934 TTATTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 1 0.03
27 19 0.54
28 11 0.31
29 4 0.11
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (28 bp):
AAAAATATAAAAAAATTAAATATATATA
Found at i:76542 original size:24 final size:25
Alignment explanation
Indices: 76497--76543 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
76487 TAGTATTTTT
* *
76497 ATTTTTTAAATATTATTATATTTAA
1 ATTTTTAAAATATAATTATATTTAA
*
76522 ATTTTTAAAATA-AATTTTATTT
1 ATTTTTAAAATATAATTATATTT
76544 TAAAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTAAAATATAATTATATTTAA
Found at i:77100 original size:7 final size:7
Alignment explanation
Indices: 77088--77118 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
77078 ATGATCAAGT
77088 GCTGCGG
1 GCTGCGG
77095 GCTGCGG
1 GCTGCGG
77102 GCTGCGG
1 GCTGCGG
77109 GCTGCGG
1 GCTGCGG
77116 GCT
1 GCT
77119 CTACCCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.29, G:0.55, T:0.16
Consensus pattern (7 bp):
GCTGCGG
Found at i:84452 original size:15 final size:15
Alignment explanation
Indices: 84427--84464 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
84417 AAACAAAACT
*
84427 TTTTAAA-TTTTAGA
1 TTTTAAATTTTTAAA
84441 TTTTAAATTTTTAAA
1 TTTTAAATTTTTAAA
*
84456 ATTTAAATT
1 TTTTAAATT
84465 AATTCGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTTAAATTTTTAAA
Found at i:85177 original size:23 final size:21
Alignment explanation
Indices: 85151--85201 Score: 50
Period size: 25 Copynumber: 2.2 Consensus size: 21
85141 ATCAAAACGG
85151 AATTAAAAAATAA-AATTAAGTAT
1 AATTAAAAAA-AATAATTAA--AT
85174 AATTCCAAAAAAAATAATTAAAT
1 AATT--AAAAAAAATAATTAAAT
85197 AATTA
1 AATTA
85202 GAATATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
23 10 0.40
24 2 0.08
25 12 0.48
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AATTAAAAAAAATAATTAAAT
Done.