Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004501.1 Kokia drynarioides strain JFW-HI SEQ_117942, 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: 58139
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Found at i:2525 original size:25 final size:22
Alignment explanation
Indices: 2469--2712 Score: 317
Period size: 22 Copynumber: 10.7 Consensus size: 22
2459 TTTTGTTACC
*
2469 CAGCACTGTGTATGCTTCTGTT
1 CAGCACTGTGTGTGCTTCTGTT
2491 CAGCACTGTGTGTGCTTCTGTT
1 CAGCACTGTGTGTGCTTCTGTT
2513 GCCCAGCACTGTGTGTGCTTCTGTT
1 ---CAGCACTGTGTGTGCTTCTGTT
* *
2538 CAGCACTATGTGTTCTTCTGTT
1 CAGCACTGTGTGTGCTTCTGTT
2560 GCCCAGCACTGTGTGTGCTTCTGTT
1 ---CAGCACTGTGTGTGCTTCTGTT
2585 GCCCAGCACTGTGTGTGCTTCTGTT
1 ---CAGCACTGTGTGTGCTTCTGTT
*
2610 CAGCACTGTGCGTGCTTCTGTT
1 CAGCACTGTGTGTGCTTCTGTT
* *
2632 CAGCACTGTGCGTGCTTTTGTT
1 CAGCACTGTGTGTGCTTCTGTT
* *
2654 CAGCACTGTGCGTGCTTTTGTT
1 CAGCACTGTGTGTGCTTCTGTT
* *
2676 CAGCACTGTGCGTGCTTTTGTT
1 CAGCACTGTGTGTGCTTCTGTT
2698 CAGCACTGTGTGTGC
1 CAGCACTGTGTGTGC
2713 CTACTGTTTC
Statistics
Matches: 208, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
22 141 0.68
25 67 0.32
ACGTcount: A:0.10, C:0.25, G:0.27, T:0.39
Consensus pattern (22 bp):
CAGCACTGTGTGTGCTTCTGTT
Found at i:2654 original size:44 final size:44
Alignment explanation
Indices: 2469--2712 Score: 317
Period size: 47 Copynumber: 5.3 Consensus size: 44
2459 TTTTGTTACC
*
2469 CAGCACTGTGTATGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT
1 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT
* *
2513 GCCCAGCACTGTGTGTGCTTCTGTTCAGCACTATGTGTTCTTCTGTT
1 ---CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT
2560 GCCCAGCACTGTGTGTGCTTCTGTTGCCCAGCACTGTGTGTGCTTCTGTT
1 ---CAGCACTGTGTGTGCTTCTGTT---CAGCACTGTGTGTGCTTCTGTT
* * *
2610 CAGCACTGTGCGTGCTTCTGTTCAGCACTGTGCGTGCTTTTGTT
1 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT
* * * *
2654 CAGCACTGTGCGTGCTTTTGTTCAGCACTGTGCGTGCTTTTGTT
1 CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT
2698 CAGCACTGTGTGTGC
1 CAGCACTGTGTGTGC
2713 CTACTGTTTC
Statistics
Matches: 184, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
44 77 0.42
47 87 0.47
50 20 0.11
ACGTcount: A:0.10, C:0.25, G:0.27, T:0.39
Consensus pattern (44 bp):
CAGCACTGTGTGTGCTTCTGTTCAGCACTGTGTGTGCTTCTGTT
Found at i:2744 original size:24 final size:25
Alignment explanation
Indices: 2716--2769 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
2706 TGTGTGCCTA
* *
2716 CTGTTT-CCCATCACTTATGTGCTT
1 CTGTTTCCCCAGCACTTATGCGCTT
*
2740 CTGTTTCCCCAGCACTTATGCGTTT
1 CTGTTTCCCCAGCACTTATGCGCTT
2765 CTGTT
1 CTGTT
2770 AATTACTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.11, C:0.30, G:0.15, T:0.44
Consensus pattern (25 bp):
CTGTTTCCCCAGCACTTATGCGCTT
Found at i:6494 original size:16 final size:17
Alignment explanation
Indices: 6473--6507 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6463 AATTGGTTTA
6473 AAAAAATT-ATTTAATT
1 AAAAAATTAATTTAATT
*
6489 AAAAAATTAATTTAGTT
1 AAAAAATTAATTTAATT
6506 AA
1 AA
6508 TTTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAAAATTAATTTAATT
Found at i:7931 original size:7 final size:7
Alignment explanation
Indices: 7889--7947 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
7879 TTCTTTAGAT
7889 TAAATTA
1 TAAATTA
7896 TTAAATT-
1 -TAAATTA
7903 T-AATTA
1 TAAATTA
*
7909 TTAA--A
1 TAAATTA
7914 TAAATTA
1 TAAATTA
7921 -AAATTA
1 TAAATTA
*
7927 TAAATTT
1 TAAATTA
7934 TAAATTA
1 TAAATTA
7941 TAAATTA
1 TAAATTA
7948 AACGGATCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
5 8 0.19
6 8 0.19
7 21 0.49
8 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TAAATTA
Found at i:14174 original size:53 final size:54
Alignment explanation
Indices: 14061--14190 Score: 181
Period size: 53 Copynumber: 2.4 Consensus size: 54
14051 AGAATGGTTA
* * * *
14061 GCTCTTACGAGCCTAGAATCAGAATAATGCTCTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTTCAAGCC-AGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGAATAAC
*
14116 GCTCTTTCTAGCCAGAATCAGAATAACGCTCTTTCAAG-CAGAATCAGAATAAC
1 GCTCTTTCAAGCCAGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGAATAAC
* *
14169 GCTCTTTCAAGCTATAATCAGA
1 GCTCTTTCAAGCCAGAATCAGA
14191 TTACTGCTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 34 0.50
54 23 0.34
55 11 0.16
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (54 bp):
GCTCTTTCAAGCCAGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGAATAAC
Found at i:14199 original size:27 final size:27
Alignment explanation
Indices: 14061--14190 Score: 181
Period size: 27 Copynumber: 4.8 Consensus size: 27
14051 AGAATGGTTA
* * *
14061 GCTCTTACGAGCCTAGAATCAGAATAAT
1 GCTCTTTCAAGCC-AGAATCAGAATAAC
*
14089 GCTCTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTTCAAGCCAGAATCAGAATAAC
*
14116 GCTCTTTCTAGCCAGAATCAGAATAAC
1 GCTCTTTCAAGCCAGAATCAGAATAAC
14143 GCTCTTTCAAG-CAGAATCAGAATAAC
1 GCTCTTTCAAGCCAGAATCAGAATAAC
* *
14169 GCTCTTTCAAGCTATAATCAGA
1 GCTCTTTCAAGCCAGAATCAGA
14191 TTACTGCTCA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.27
27 57 0.60
28 12 0.13
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (27 bp):
GCTCTTTCAAGCCAGAATCAGAATAAC
Found at i:15668 original size:215 final size:215
Alignment explanation
Indices: 15285--15719 Score: 771
Period size: 215 Copynumber: 2.0 Consensus size: 215
15275 CGAGGTCTCG
*
15285 ATATCTCATTTTCTAAAACCACTTGACTTTTGAACCAAACCACTTACTAACTTTTAATTCAATAA
1 ATATTTCATTTTCTAAAACCACTTGACTTTTGAACCAAACCACTTACTAACTTTTAATTCAATAA
* *
15350 TTAAAATTCGTCAATTCAAAATTTCATATAAAATTATTATAGACTTATTTAATTTAAATACTCAT
66 TTAAAATTCATCAATTCAAAATTTCATATAAAATTATTATAGACTTATTTAATTTAAACACTCAT
* * * **
15415 TATAAAAATTTTTTCGTCGATTTTGTAGTTCTCAAAACCACTGTTTCCAACACCACTGAAAAATG
131 TATAAAAATTTTCTCGTCGATTTTATAGTTCCCAAAACCACAATTTCCAACACCACTGAAAAATG
15480 GGCTGTTACATGGTGTTTAT
196 GGCTGTTACATGGTGTTTAT
15500 ATATTTCATTTTCTAAAACCACTTGACTTTTGAACCAAACCACTTACTAACTTTTAATTCAATAA
1 ATATTTCATTTTCTAAAACCACTTGACTTTTGAACCAAACCACTTACTAACTTTTAATTCAATAA
*
15565 TTAAAATTCATCAATTCAAAATTTCATATAAAATTATTATAGACTTATTTAATTTTAACACTCAT
66 TTAAAATTCATCAATTCAAAATTTCATATAAAATTATTATAGACTTATTTAATTTAAACACTCAT
* *
15630 TATAAAAATTTTCTCGTCGGTTTTATAGTTCCCAAAACCACAATTTCTAACACCACTGAAAAATG
131 TATAAAAATTTTCTCGTCGATTTTATAGTTCCCAAAACCACAATTTCCAACACCACTGAAAAATG
15695 GGCTGTTACATGGTGTTTAT
196 GGCTGTTACATGGTGTTTAT
15715 ATATT
1 ATATT
15720 AGTTATAATA
Statistics
Matches: 209, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
215 209 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.39
Consensus pattern (215 bp):
ATATTTCATTTTCTAAAACCACTTGACTTTTGAACCAAACCACTTACTAACTTTTAATTCAATAA
TTAAAATTCATCAATTCAAAATTTCATATAAAATTATTATAGACTTATTTAATTTAAACACTCAT
TATAAAAATTTTCTCGTCGATTTTATAGTTCCCAAAACCACAATTTCCAACACCACTGAAAAATG
GGCTGTTACATGGTGTTTAT
Found at i:16024 original size:9 final size:9
Alignment explanation
Indices: 16010--16063 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
16000 TTTTTAATAA
16010 AATTTTTAT
1 AATTTTTAT
16019 AA-TTTTA-
1 AATTTTTAT
16026 AATATTTTAT
1 AAT-TTTTAT
16036 AATTTTTTTAT
1 AA--TTTTTAT
16047 AATTTTTAT
1 AATTTTTAT
*
16056 GATTTTTA
1 AATTTTTA
16064 AATAAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
7 2 0.05
8 5 0.13
9 21 0.54
10 2 0.05
11 8 0.21
12 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
AATTTTTAT
Found at i:16026 original size:20 final size:20
Alignment explanation
Indices: 16001--16077 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 20
15991 ATATTGTTAT
16001 TTTTAATAAAATTTTTATAA
1 TTTTAATAAAATTTTTATAA
*
16021 TTTT-A-AATA-TTTTATAA
1 TTTTAATAAAATTTTTATAA
** * *
16038 TTTTTTTATAATTTTTATGAT
1 TTTTAATAAAATTTTTAT-AA
*
16059 TTTTAAATAAATTTTTTAT
1 TTTT-AATAAAATTTTTAT
16078 TTTAAAAGGG
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
17 12 0.28
18 3 0.07
19 3 0.07
20 10 0.23
21 5 0.12
22 10 0.23
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTTAATAAAATTTTTATAA
Found at i:17345 original size:20 final size:20
Alignment explanation
Indices: 17320--17366 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
17310 CTTATCTCTT
17320 CAAATTAAAAAAATTCATAA
1 CAAATTAAAAAAATTCATAA
17340 CAAATTAAAAAAATTCATAA
1 CAAATTAAAAAAATTCATAA
*
17360 CTAATTA
1 CAAATTA
17367 TTATAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (20 bp):
CAAATTAAAAAAATTCATAA
Found at i:21886 original size:23 final size:23
Alignment explanation
Indices: 21830--21880 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
21820 ATAACATCCA
* *
21830 AACAATCAAAATAACAGTAAAAAT
1 AACAA-CAAAATAACAGCAAAAAC
*
21854 AGCAACAAAATAACAGCAAAAAC
1 AACAACAAAATAACAGCAAAAAC
21877 AACA
1 AACA
21881 CGAAAACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.10
Consensus pattern (23 bp):
AACAACAAAATAACAGCAAAAAC
Found at i:28826 original size:21 final size:21
Alignment explanation
Indices: 28786--28827 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
28776 TATCATTGTA
*
28786 GTTCAATAAAAATTGGTGTTT
1 GTTCAATAAAAATTGATGTTT
* *
28807 GTTCAATAATATTTGATGTTT
1 GTTCAATAAAAATTGATGTTT
28828 TAAACTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (21 bp):
GTTCAATAAAAATTGATGTTT
Found at i:31104 original size:156 final size:156
Alignment explanation
Indices: 30820--31136 Score: 607
Period size: 156 Copynumber: 2.0 Consensus size: 156
30810 ATAAATATAT
*
30820 ATTTTTATAAAGCACTTTTAATTTCAATTAAGTCTCCAAAAATAATAGATTATATTATAATCCAC
1 ATTTTTAAAAAGCACTTTTAATTTCAATTAAGTCTCCAAAAATAATAGATTATATTATAATCCAC
30885 AATTTGGTATTAGGTTTGGGAGTTCAATTACATGTTGAGTTAGGTTTCAGAGTTCAATTACATGT
66 AATTTGGTATTAGGTTTGGGAGTTCAATTACATGTTGAGTTAGGTTTCAGAGTTCAATTACATGT
30950 CCCAATTTTATAAAATATTTAATTAC
131 CCCAATTTTATAAAATATTTAATTAC
*
30976 ATTTTTAAAAATCACTTTTAATTTCAATTAAGTCTCCAAAAATAATAGATTATATTATAATCCAC
1 ATTTTTAAAAAGCACTTTTAATTTCAATTAAGTCTCCAAAAATAATAGATTATATTATAATCCAC
31041 AATTTGGTATTAGGTTTGGGAGTTCAATTACATGTTGAGTTAGGTTTCAGAGTTCAATTACATGT
66 AATTTGGTATTAGGTTTGGGAGTTCAATTACATGTTGAGTTAGGTTTCAGAGTTCAATTACATGT
31106 CCCAATTTTATAAAATATTTAATTAC
131 CCCAATTTTATAAAATATTTAATTAC
*
31132 CTTTT
1 ATTTT
31137 ATTATTTTAT
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 158 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (156 bp):
ATTTTTAAAAAGCACTTTTAATTTCAATTAAGTCTCCAAAAATAATAGATTATATTATAATCCAC
AATTTGGTATTAGGTTTGGGAGTTCAATTACATGTTGAGTTAGGTTTCAGAGTTCAATTACATGT
CCCAATTTTATAAAATATTTAATTAC
Found at i:42750 original size:18 final size:18
Alignment explanation
Indices: 42727--42763 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42717 ACACTTTTCC
* *
42727 TCTGTCTTGTGGCACGTT
1 TCTGTCTTATGACACGTT
42745 TCTGTCTTATGACACGTT
1 TCTGTCTTATGACACGTT
42763 T
1 T
42764 TCGTTTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (18 bp):
TCTGTCTTATGACACGTT
Found at i:47115 original size:16 final size:15
Alignment explanation
Indices: 47089--47118 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47079 TGATAATCTT
47089 TCTTATTTTCTTTCC
1 TCTTATTTTCTTTCC
47104 TCTTACTTTTCTTTC
1 TCTTA-TTTTCTTTC
47119 TTACCAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTTATTTTCTTTCC
Found at i:52731 original size:15 final size:17
Alignment explanation
Indices: 52706--52747 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
52696 TTTAATTTTT
52706 TAAATATTATTAAAAT-A
1 TAAA-ATTATTAAAATAA
52723 T-AAATTATTAAAATAA
1 TAAAATTATTAAAATAA
52739 TAAAATTAT
1 TAAAATTAT
52748 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.48
16 4 0.17
17 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTATTAAAATAA
Found at i:52773 original size:85 final size:83
Alignment explanation
Indices: 52619--52780 Score: 199
Period size: 86 Copynumber: 2.0 Consensus size: 83
52609 AAAATAGATC
* *
52619 TTTTTAAATTTTTAAAATTTTAAATTAATAAAAATAAAATTATATTTTAAATCTCTCTAAAAATA
1 TTTTTAAATTTTTAAAATTATAAATTAATAAAAATAAAATTATATTTTAAATATCTCTAAAAATA
52684 ATAATAATTTAATTTAAT
66 ATAATAATTTAATTTAAT
* * * *
52702 TTTTTAAATATTATTAAAA-TATAAATTATTAAAATAATAAAATTATATTTTTATTAT-TTTAAA
1 TTTTTAAAT-TT-TTAAAATTATAAATTAAT-AAA-AATAAAATTATATTTTAAATATCTCTAAA
52765 AAT--T-ATAATTTAATTT
62 AATAATAATAATTTAATTT
52781 GGACTCTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
82 12 0.17
83 10 0.14
84 11 0.16
85 17 0.25
86 19 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (83 bp):
TTTTTAAATTTTTAAAATTATAAATTAATAAAAATAAAATTATATTTTAAATATCTCTAAAAATA
ATAATAATTTAATTTAAT
Found at i:52791 original size:85 final size:83
Alignment explanation
Indices: 52616--52794 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 83
52606 AAAAAAATAG
* *
52616 ATCTTTTTAAATTTTTAAAATTTTAAATTAATAAAAATAAAATTATATTTTAAATCTCTCTAAAA
1 ATCTTTTTAAATTTTTAAAATTATAAATTAATAAAAATAAAATTATATTTTAAATATCTCTAAAA
52681 ATAATAATAATTTAATTTA
66 AT-ATAATAATTTAATTTA
* * * *
52700 AT-TTTTTAAATATTATTAAAA-TATAAATTATTAAAATAATAAAATTATATTTTTATTAT-TTT
1 ATCTTTTTAAAT-TT-TTAAAATTATAAATTAAT-AAA-AATAAAATTATATTTTAAATATCTCT
52762 AAAAAT-T-ATAATTTAATTTGGA
62 AAAAATATAATAATTTAATTT--A
*
52784 CTCTTTTTAAA
1 ATCTTTTTAAA
52795 AGAATTTTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
82 12 0.15
83 10 0.12
84 15 0.19
85 25 0.31
86 19 0.23
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (83 bp):
ATCTTTTTAAATTTTTAAAATTATAAATTAATAAAAATAAAATTATATTTTAAATATCTCTAAAA
ATATAATAATTTAATTTA
Found at i:55932 original size:30 final size:30
Alignment explanation
Indices: 55865--55934 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
55855 CTCTGCAACC
**
55865 ATTATTGAAGAGCTCTTGTTTTGGCCACAA
1 ATTATTGCTGAGCTCTTGTTTTGGCCACAA
55895 ATTATTGCTGAGCTCTTGTTTTGGCCACAA
1 ATTATTGCTGAGCTCTTGTTTTGGCCACAA
55925 ATTATTGCTG
1 ATTATTGCTG
55935 TACATTGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (30 bp):
ATTATTGCTGAGCTCTTGTTTTGGCCACAA
Found at i:56874 original size:5 final size:5
Alignment explanation
Indices: 56864--56890 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
56854 TGCATCCATC
56864 CCCCA CCCCA CCCCA CCCCA CCCCA CC
1 CCCCA CCCCA CCCCA CCCCA CCCCA CC
56891 GCTTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.81, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCCA
Done.