Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002821.1 Hibiscus syriacus cultivar Beakdansim tig00005803_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: 91636
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:2616 original size:17 final size:18
Alignment explanation
Indices: 2596--2630 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2586 GTCAATATAG
2596 TGGTCAACGG-TGGTCAA
1 TGGTCAACGGTTGGTCAA
2613 TGGTCAACGGTTGGTCAA
1 TGGTCAACGGTTGGTCAA
2631 CGAGTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
TGGTCAACGGTTGGTCAA
Found at i:2643 original size:13 final size:13
Alignment explanation
Indices: 2625--2656 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2615 GTCAACGGTT
2625 GGTCAACGAGTCA
1 GGTCAACGAGTCA
2638 GGTCAACGAGTCA
1 GGTCAACGAGTCA
2651 GGTCAA
1 GGTCAA
2657 TGGGTCGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (13 bp):
GGTCAACGAGTCA
Found at i:2678 original size:18 final size:18
Alignment explanation
Indices: 2655--2689 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2645 GAGTCAGGTC
2655 AATGGGTCGGGTAGGGTT
1 AATGGGTCGGGTAGGGTT
*
2673 AATGGGTCGGGTCGGGT
1 AATGGGTCGGGTAGGGT
2690 CAGATCGGGT
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:0.14, C:0.09, G:0.51, T:0.26
Consensus pattern (18 bp):
AATGGGTCGGGTAGGGTT
Found at i:6410 original size:58 final size:59
Alignment explanation
Indices: 6319--6432 Score: 212
Period size: 58 Copynumber: 1.9 Consensus size: 59
6309 CGTACACGAA
6319 TGTACCCCATATAAGATCGATCAATAATCACTCCACCTCATAGCATGTCAATTGTATCG
1 TGTACCCCATATAAGATCGATCAATAATCACTCCACCTCATAGCATGTCAATTGTATCG
*
6378 TGTA-CCCATATAAGATCGATCGATAATCACTCCACCTCATAGCATGTCAATTGTA
1 TGTACCCCATATAAGATCGATCAATAATCACTCCACCTCATAGCATGTCAATTGTA
6433 CCAATGATTC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
58 50 0.93
59 4 0.07
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (59 bp):
TGTACCCCATATAAGATCGATCAATAATCACTCCACCTCATAGCATGTCAATTGTATCG
Found at i:7569 original size:10 final size:11
Alignment explanation
Indices: 7546--7574 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
7536 TAACACTTAT
7546 ATAATTTTTCC
1 ATAATTTTTCC
7557 ATAATTTTT-C
1 ATAATTTTTCC
7567 ATAATTTT
1 ATAATTTT
7575 CTTCACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (11 bp):
ATAATTTTTCC
Found at i:10913 original size:13 final size:13
Alignment explanation
Indices: 10895--10921 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10885 AATTCCCCCC
10895 CCCCCATAATTTT
1 CCCCCATAATTTT
10908 CCCCCATAATTTT
1 CCCCCATAATTTT
10921 C
1 C
10922 ATCTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (13 bp):
CCCCCATAATTTT
Found at i:16533 original size:31 final size:31
Alignment explanation
Indices: 16480--16598 Score: 118
Period size: 32 Copynumber: 3.8 Consensus size: 31
16470 GTTCTAAGGA
16480 ACATATGGACAGAATTACCTATGTATTTCGAG
1 ACATATGGACAGAATTACCTATGT-TTTCGAG
* * * *
16512 ACATATGGATAGTA-TACCTATGTTCT-AAGG
1 ACATATGGACAGAATTACCTATGTTTTCGA-G
*
16542 AATATATGGACAGAATTACCTATGTCTTTCGAG
1 -ACATATGGACAGAATTACCTATGT-TTTCGAG
* *
16575 ATATATGGACAGTA-TACCTATGTT
1 ACATATGGACAGAATTACCTATGTT
16599 CTAAGGAACA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
29 1 0.01
30 4 0.06
31 29 0.40
32 34 0.47
33 3 0.04
34 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (31 bp):
ACATATGGACAGAATTACCTATGTTTTCGAG
Found at i:16559 original size:63 final size:63
Alignment explanation
Indices: 16460--16625 Score: 280
Period size: 63 Copynumber: 2.7 Consensus size: 63
16450 AGAGTTGAGG
*
16460 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTATTTCGAGACATATGGATA
1 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTATTTCGAGACATATGGACA
* * *
16523 GTATACCTATGTTCTAAGGAATATATGGACAGAATTACCTATGTCTTTCGAGATATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTATTTCGAGACATATGGACA
*
16586 GTATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTA
1 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTA
16626 GGTTCTTCGG
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 7 0.07
63 90 0.93
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (63 bp):
GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTATTTCGAGACATATGGACA
Found at i:16612 original size:31 final size:31
Alignment explanation
Indices: 16460--16649 Score: 179
Period size: 31 Copynumber: 6.1 Consensus size: 31
16450 AGAGTTGAGG
16460 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* ** *
16491 GAATTACCTATGTAT-T-TCGAGACATATGGATA
1 GTA-TACCTATGT-TCTAAGGA-ACATATGGACA
*
16523 GTATACCTATGTTCTAAGGAATATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* *** *
16554 GAATTACCTATG-TCTTTCGAGATATATGGACA
1 GTA-TACCTATGTTCTAAGGA-ACATATGGACA
16586 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* * ** *
16617 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
16648 GT
1 GT
16650 TGCTGAGGAT
Statistics
Matches: 128, Mismatches: 23, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
30 1 0.01
31 76 0.59
32 50 0.39
33 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (31 bp):
GTATACCTATGTTCTAAGGAACATATGGACA
Found at i:21190 original size:31 final size:32
Alignment explanation
Indices: 21137--21254 Score: 143
Period size: 32 Copynumber: 3.8 Consensus size: 32
21127 GTTCTAAGGA
*
21137 ACATATGGATAGAATTACCTATGTCTTTCGAG
1 ACATATGGACAGAATTACCTATGTCTTTCGAG
* ***
21169 ACATATGGACAGTA-TACCTATGTTCTAAGGA-
1 ACATATGGACAGAATTACCTATG-TCTTTCGAG
*
21200 ATATATGGACAGAATTACCTATGTCTTTCGAG
1 ACATATGGACAGAATTACCTATGTCTTTCGAG
*
21232 ACATATGGACAGTA-TACCTATGT
1 ACATATGGACAGAATTACCTATGT
21255 TCTAAGGAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
31 34 0.48
32 37 0.52
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (32 bp):
ACATATGGACAGAATTACCTATGTCTTTCGAG
Found at i:21216 original size:63 final size:63
Alignment explanation
Indices: 21117--21282 Score: 289
Period size: 63 Copynumber: 2.7 Consensus size: 63
21107 AGAGTTGAGG
*
21117 GTATACCTATGTTCTAAGGAACATATGGATAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
*
21180 GTATACCTATGTTCTAAGGAATATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
* *
21243 GTATACCTATGTTCTAAGGAACATAAGGACAG-TTTACCTA
1 GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTA
21283 GGTTCTTCGG
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
62 7 0.07
63 91 0.93
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (63 bp):
GTATACCTATGTTCTAAGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
Found at i:21267 original size:31 final size:31
Alignment explanation
Indices: 21117--21306 Score: 186
Period size: 31 Copynumber: 6.1 Consensus size: 31
21107 AGAGTTGAGG
*
21117 GTATACCTATGTTCTAAGGAACATATGGATA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* ***
21148 GAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTAAGGA-ACATATGGACA
*
21180 GTATACCTATGTTCTAAGGAATATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* ***
21211 GAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTAAGGA-ACATATGGACA
*
21243 GTATACCTATGTTCTAAGGAACATAAGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* * ** *
21274 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
21305 GT
1 GT
21307 TGCCGAGGAT
Statistics
Matches: 127, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
31 77 0.61
32 50 0.39
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTAAGGAACATATGGACA
Found at i:21345 original size:30 final size:30
Alignment explanation
Indices: 21294--21365 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
21284 GTTCTTCGGA
* * *
21294 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
21324 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
21354 ACCTCTGGATAG
1 ACCTCTGGATAG
21366 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:29247 original size:20 final size:20
Alignment explanation
Indices: 29222--29259 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29212 AAATTAACCC
*
29222 AAATCAACATTCTAACATCG
1 AAATCAACACTCTAACATCG
*
29242 AAATCAACGCTCTAACAT
1 AAATCAACACTCTAACAT
29260 TTAATTCCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATCAACACTCTAACATCG
Found at i:29728 original size:22 final size:21
Alignment explanation
Indices: 29688--29728 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
29678 GGAATTATAC
*
29688 TGAAGATGATGATGTTGAAGT
1 TGAAGATGATGATGATGAAGT
*
29709 TGAAGGATGATGGTGATGAA
1 TGAA-GATGATGATGATGAA
29729 AATGTATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (21 bp):
TGAAGATGATGATGATGAAGT
Found at i:39615 original size:18 final size:19
Alignment explanation
Indices: 39592--39634 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
39582 GACATCAATG
39592 TTGACCTT-ACACTACGGA
1 TTGACCTTAACACTACGGA
39610 TTGACCTTAACACTACGGA
1 TTGACCTTAACACTACGGA
39629 TTGACC
1 TTGACC
39635 ATTCATATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (19 bp):
TTGACCTTAACACTACGGA
Found at i:51790 original size:20 final size:20
Alignment explanation
Indices: 51760--51811 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
51750 AGAATTAATA
51760 GTATCAAATTAAAAGTGATTT
1 GTAT-AAATTAAAAGTGATTT
51781 GTATAAATTAAAAGTGATTT
1 GTATAAATTAAAAGTGATTT
*
51801 GTAGAAATTAA
1 GTATAAATTAA
51812 CTAAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (20 bp):
GTATAAATTAAAAGTGATTT
Found at i:64400 original size:45 final size:45
Alignment explanation
Indices: 64336--64439 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
64326 GAGAGATAAG
*
64336 TAGGAAATAAGTTGGGTAATCCTGGTAATAACTCTAACATAGTTT
1 TAGGAAATAAGTTGGGTAATCCTGGTAATAACTCCAACATAGTTT
* * * *
64381 TAGGAAACAAGTTGGGTAATGCTGGTAATAGCTCCAACATTGTTT
1 TAGGAAATAAGTTGGGTAATCCTGGTAATAACTCCAACATAGTTT
*
64426 GA-GAAATAAGTTGG
1 TAGGAAATAAGTTGG
64440 AAATCAAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 11 0.21
45 41 0.79
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (45 bp):
TAGGAAATAAGTTGGGTAATCCTGGTAATAACTCCAACATAGTTT
Found at i:72443 original size:19 final size:19
Alignment explanation
Indices: 72421--72459 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
72411 ACCATATCAA
72421 CTACTAATGTTCATACCAT
1 CTACTAATGTTCATACCAT
72440 CTACTAATGTTCATACCAT
1 CTACTAATGTTCATACCAT
72459 C
1 C
72460 AATAGATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (19 bp):
CTACTAATGTTCATACCAT
Found at i:74297 original size:45 final size:44
Alignment explanation
Indices: 74173--74316 Score: 182
Period size: 44 Copynumber: 3.2 Consensus size: 44
74163 GAAATGTAGA
* * *
74173 AAATAAGTTGGGTAATGTTGGTAATAGCTCTAATATAGTTTTAGG
1 AAATAAGTT-GGTAATGCTGGTAATAGCTCTAACATAGTTTTATG
*
74218 AAATAAGTTGGTAATGCTGGTTATAGCTCTAACATAGTTTTATG
1 AAATAAGTTGGTAATGCTGGTAATAGCTCTAACATAGTTTTATG
* * * **
74262 AAATAAGTTAGGTAATGCTGGTAACATCTCCAACATAGTTCGAT-
1 AAATAAGTT-GGTAATGCTGGTAATAGCTCTAACATAGTTTTATG
74306 AAATAAGTTGG
1 AAATAAGTTGG
74317 AAATCCAACA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.02
44 49 0.56
45 37 0.42
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (44 bp):
AAATAAGTTGGTAATGCTGGTAATAGCTCTAACATAGTTTTATG
Found at i:83725 original size:23 final size:24
Alignment explanation
Indices: 83693--83759 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 24
83683 ACATAGTATT
*
83693 ATCCCAAAGGACCGCGTAGAAATG
1 ATCCCGAAGGACCGCGTAGAAATG
* * *
83717 A-CCCGAAGGACCACCTAG-AATT
1 ATCCCGAAGGACCGCGTAGAAATG
*
83739 ATCCCGAATGACCGCGTAGAA
1 ATCCCGAAGGACCGCGTAGAA
83760 CCCTCGACTC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 4 0.12
23 28 0.82
24 2 0.06
ACGTcount: A:0.36, C:0.28, G:0.22, T:0.13
Consensus pattern (24 bp):
ATCCCGAAGGACCGCGTAGAAATG
Found at i:83740 original size:46 final size:46
Alignment explanation
Indices: 83666--83759 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
83656 TGCCATATAT
* *
83666 AAATGCCCCAAAGGACCACATAGTATTATCCCAAAGGACCGCGTAG
1 AAATGACCCAAAGGACCACATAGAATTATCCCAAAGGACCGCGTAG
* * * *
83712 AAATGACCCGAAGGACCACCTAGAATTATCCCGAATGACCGCGTAG
1 AAATGACCCAAAGGACCACATAGAATTATCCCAAAGGACCGCGTAG
83758 AA
1 AA
83760 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.15
Consensus pattern (46 bp):
AAATGACCCAAAGGACCACATAGAATTATCCCAAAGGACCGCGTAG
Found at i:86298 original size:20 final size:20
Alignment explanation
Indices: 86250--86299 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
86240 AAGCACTTTA
* *
86250 GTATCGATACTGACCTCTGG
1 GTATCGATACCGACCCCTGG
*
86270 GTGTCGATACCGACCCCTGG
1 GTATCGATACCGACCCCTGG
*
86290 GTATTGATAC
1 GTATCGATAC
86300 TAGCTGGCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (20 bp):
GTATCGATACCGACCCCTGG
Found at i:90899 original size:103 final size:109
Alignment explanation
Indices: 90781--91023 Score: 372
Period size: 103 Copynumber: 2.3 Consensus size: 109
90771 TACCAATATG
*
90781 AAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACAC-AAAGT-GCATACGGAAATTCAT-
1 AAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACGAAAGTCCCATACGGAAATTCATA
90843 AA-ATTATGAA-TTCTTAGTTTTGCACACAAAGTACCCATACG-
66 AATATTATGAATTTCTTAGTTTTGCACACAAAGTACCCATACGA
* **
90884 GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACGAGGGTCCCATACGGAAATTCATA
1 AAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACGAAAGTCCCATACGGAAATTCATA
* **
90949 AATTATTATGAATTTCTTAGTTTTGCATACAAAGTGTCCATACGA
66 AA-TATTATGAATTTCTTAGTTTTGCACACAAAGTACCCATACGA
90994 AAAATTCATAAACTTATTATGAATTTCTTA
1 AAAATTCATAAACTTATTATGAATTTCTTA
91024 ATTTGTACAC
Statistics
Matches: 125, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
103 40 0.32
104 3 0.02
105 15 0.12
106 2 0.02
108 8 0.06
109 28 0.22
110 29 0.23
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (109 bp):
AAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACGAAAGTCCCATACGGAAATTCATA
AATATTATGAATTTCTTAGTTTTGCACACAAAGTACCCATACGA
Found at i:90956 original size:54 final size:53
Alignment explanation
Indices: 90782--91023 Score: 334
Period size: 55 Copynumber: 4.5 Consensus size: 53
90772 ACCAATATGA
*
90782 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTCCATACGG
90835 AAATTCAT-AA---ATTATGAA-TTCTTAGTTTTGCACACAAAGTACCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGT--CCATACGG
**
90885 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACGAGGGTCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACAC-AAAGT-CCATACGG
* *
90940 AAATTCATAAA-TTATTATGAATTTCTTAGTTTTGCATACAAAGTGTCCATACGAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAA--GTCCATACG-G
90995 AAATTCATAAACTTATTATGAATTTCTTA
1 AAATTCATAAACTTATTATGAATTTCTTA
91024 ATTTGTACAC
Statistics
Matches: 170, Mismatches: 7, Indels: 21
0.86 0.04 0.11
Matches are distributed among these distances:
48 22 0.13
49 8 0.05
50 15 0.09
51 2 0.01
52 2 0.01
53 9 0.05
54 42 0.25
55 50 0.29
56 20 0.12
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (53 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTCCATACGG
Done.