Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002560.1 Hibiscus syriacus cultivar Beakdansim tig00005194_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: 73359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2251 original size:21 final size:22
Alignment explanation
Indices: 2221--2263 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2211 CAGAGACGAG
*
2221 CTATGGAAGTAAGGCGCCTTGA
1 CTATGGAAGTAAAGCGCCTTGA
*
2243 CTAT-GAAGTAAAGCTCCTTGA
1 CTATGGAAGTAAAGCGCCTTGA
2264 TTCTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (22 bp):
CTATGGAAGTAAAGCGCCTTGA
Found at i:5744 original size:24 final size:24
Alignment explanation
Indices: 5695--5747 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
5685 GTAGTGAACC
*
5695 ATGTG-TTTATATGTATATGGGAT
1 ATGTGATTTATATGTATATGAGAT
*
5718 ATGTGATTTATATG-ATGATGAGCT
1 ATGTGATTTATATGTAT-ATGAGAT
5742 ATGTGA
1 ATGTGA
5748 AAGAACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (24 bp):
ATGTGATTTATATGTATATGAGAT
Found at i:6001 original size:98 final size:100
Alignment explanation
Indices: 5864--6063 Score: 350
Period size: 98 Copynumber: 2.0 Consensus size: 100
5854 GGTCTATGTG
5864 GTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
1 GTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
* *
5929 CTTGGCATATGTATATGATTCTTAAGGAATG-TAT
66 CCTAGCATATGTATATGATTCTTAAGGAATGATAT
*
5963 GTCCTTCGGGACATATA-GTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
1 GTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
*
6027 CCTAGTATATGTATATGATTCTTAAGGAATGATAT
66 CCTAGCATATGTATATGATTCTTAAGGAATGATAT
6062 GT
1 GT
6064 GGTCCTTATG
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 74 0.77
99 22 0.23
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (100 bp):
GTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
CCTAGCATATGTATATGATTCTTAAGGAATGATAT
Found at i:6119 original size:23 final size:23
Alignment explanation
Indices: 6086--6153 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
6076 CATTATATAT
6086 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
6109 GGCACTCCGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
* * *
6132 GGCACTTCGATGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
6154 AGCTATGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:7176 original size:45 final size:45
Alignment explanation
Indices: 7095--7202 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
7085 TTTTTGATAT
** * *
7095 TTTCAAAACCTTCGGGTCATCTGTAAGCCTTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCATAAGCCTTACAGTGCAGGATGC
* *
7140 TTTCAAAACCTTCGGGTCATCCATAAGACC-TACAGTGTAGGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAG-CCTTACAGTGCAGGATGC
7185 TTTCAAAAGGCCTTCGGG
1 TTTCAAAA--CCTTCGGG
7203 AGCTTTTTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 44 0.81
46 2 0.04
47 8 0.15
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAGCCTTACAGTGCAGGATGC
Found at i:7329 original size:77 final size:76
Alignment explanation
Indices: 7140--7345 Score: 306
Period size: 76 Copynumber: 2.7 Consensus size: 76
7130 TGCATGATGC
* * *
7140 TTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAGGCCTTCGGGAG
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCCTCGGGAG
7205 CTTTTTGATAT
66 CTTTTTGATAT
*
7216 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCCTCGGGAG
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCCTCGGGAG
7281 CTTTTTTGATAT
66 C-TTTTTGATAT
** * * *
7293 TTTCAAAACCTTCGGGTCATCTGTAAG-CTCTTCAGTGCATGATGCTTTCAAAA
1 TTTCAAAACCTTCGGGTCATCCATAAGAC-CTACAGTGCAGGATGTTTTCAAAA
7346 CCTTCGGATC
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
76 63 0.53
77 56 0.47
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (76 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCCTCGGGAG
CTTTTTGATAT
Found at i:7358 original size:45 final size:45
Alignment explanation
Indices: 7293--7381 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
7283 TTTTTGATAT
* * *
7293 TTTCAAAACCTTCGGGTCATCTGTAAG-CTCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGATCATCTGTAAGAC-CTACAGTGCAAGATGC
7338 TTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCAAGATG
1 TTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCAAGATG
7382 ATAGGACTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
TTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCAAGATGC
Found at i:7541 original size:9 final size:9
Alignment explanation
Indices: 7527--7575 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
7517 AATTTTTTCA
7527 TATTATTTT
1 TATTATTTT
7536 TATTATTTT
1 TATTATTTT
*
7545 TATT-TTAT
1 TATTATTTT
7553 T-TTATTTT
1 TATTATTTT
*
7561 TATTATTAT
1 TATTATTTT
7570 TATTAT
1 TATTAT
7576 ATATATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 2 0.06
8 8 0.23
9 25 0.71
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTATTTT
Found at i:13879 original size:8 final size:8
Alignment explanation
Indices: 13866--13893 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13856 TACTGTTCAA
13866 TTATGTAT
1 TTATGTAT
13874 TTATGTAT
1 TTATGTAT
13882 TTATGTAT
1 TTATGTAT
13890 TTAT
1 TTAT
13894 TTATACATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (8 bp):
TTATGTAT
Found at i:14082 original size:23 final size:22
Alignment explanation
Indices: 14044--14095 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 22
14034 TTTGTTGTTG
14044 TTGTTTATTTATATTTATATT-TTA
1 TTGTTTA--TATATTTA-ATTATTA
14068 TATGTTTATATATTTAATTATTA
1 T-TGTTTATATATTTAATTATTA
14091 TTGTT
1 TTGTT
14096 ATTATTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 1 0.04
25 6 0.23
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TTGTTTATATATTTAATTATTA
Found at i:27264 original size:59 final size:59
Alignment explanation
Indices: 27182--27318 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 59
27172 CAGCAGGCTG
** * * *
27182 CATATTCGGGAATACACTAAAGGATACATAGTGTATATGGTGGGCACGATCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
* ** * *
27241 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
27300 CATATTCGGG-ATAACACTA
1 CATATTCGGGAAT-ACACTA
27319 CGGTGCTTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
58 1 0.02
59 62 0.98
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACATAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:27513 original size:47 final size:45
Alignment explanation
Indices: 27419--27544 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
27409 GTAAGCATAC
* *
27419 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
27463 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
27510 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
27545 GGATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 40 0.53
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:28604 original size:28 final size:28
Alignment explanation
Indices: 28550--28605 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
28540 AATTCCTACC
* * * * *
28550 ACTCATGTGAATATTTTTTTTTTATTTA
1 ACTCATGTGAATATATATATATCATTTA
28578 ACTCATGTGAATATATATATATCATTTA
1 ACTCATGTGAATATATATATATCATTTA
28606 TTTTAAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (28 bp):
ACTCATGTGAATATATATATATCATTTA
Found at i:28727 original size:23 final size:23
Alignment explanation
Indices: 28671--28727 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
28661 TCTTTTATAT
28671 ATTTTT-TA-AAATTTTAAGTTA
1 ATTTTTATATAAATTTTAAGTTA
* * *
28692 AATTATATTTAAATTATTAA-TTA
1 ATTTTTATATAAATT-TTAAGTTA
28715 ATTTTTATATAAA
1 ATTTTTATATAAA
28728 AATAATTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 4 0.15
22 1 0.04
23 18 0.67
24 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTTATATAAATTTTAAGTTA
Found at i:28838 original size:13 final size:13
Alignment explanation
Indices: 28821--28858 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
28811 TAATTTAATG
28821 ATTATAATTAAGA
1 ATTATAATTAAGA
*
28834 TTTATAATATAAGA
1 ATTATAAT-TAAGA
28848 ATTATAATTAA
1 ATTATAATTAA
28859 TATAAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (13 bp):
ATTATAATTAAGA
Found at i:29688 original size:23 final size:21
Alignment explanation
Indices: 29650--29692 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
29640 GTAATTATTT
29650 AAAAAATTAAATAAAAATATA
1 AAAAAATTAAATAAAAATATA
*
29671 AAAAATATTTAATAAAAA-ATA
1 AAAAA-ATTAAATAAAAATATA
29692 A
1 A
29693 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATA
Found at i:30179 original size:16 final size:16
Alignment explanation
Indices: 30155--30200 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
30145 TTCTAATTTT
*
30155 TTTTTGAGTTCAAGCC
1 TTTTCGAGTTCAAGCC
*
30171 TTTTCGAGTTCAAACC
1 TTTTCGAGTTCAAGCC
30187 TTTTCGAGTTCAAG
1 TTTTCGAGTTCAAG
30201 TTTCAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (16 bp):
TTTTCGAGTTCAAGCC
Found at i:32082 original size:27 final size:27
Alignment explanation
Indices: 32052--32109 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
32042 TATTTCGGTC
32052 AATTTT-TGAATTAATCAAAAAAATT-AA
1 AATTTTAT-AATTAAT-AAAAAAATTGAA
* *
32079 AATTTTATAATTTATATAAAAATTGAA
1 AATTTTATAATTAATAAAAAAATTGAA
32106 AATT
1 AATT
32110 ATTTAACCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.30
27 18 0.67
28 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (27 bp):
AATTTTATAATTAATAAAAAAATTGAA
Found at i:33238 original size:18 final size:19
Alignment explanation
Indices: 33203--33239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
33193 CACGGAATGT
33203 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
33223 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
33240 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:33411 original size:15 final size:15
Alignment explanation
Indices: 33393--33423 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33383 AAATCATAAA
33393 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
33408 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
33423 T
1 T
33424 TCATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:39941 original size:16 final size:16
Alignment explanation
Indices: 39920--39952 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39910 AAAAATTGTA
39920 AAGAAAGGGAGAAGAG
1 AAGAAAGGGAGAAGAG
*
39936 AAGAAAGGGAGAGGAG
1 AAGAAAGGGAGAAGAG
39952 A
1 A
39953 GGAGAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (16 bp):
AAGAAAGGGAGAAGAG
Found at i:40028 original size:26 final size:26
Alignment explanation
Indices: 39992--40048 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
39982 GAATTTTTCG
*
39992 CAGAGGCAAGGGGAGAAGAAGATACA
1 CAGAGGCAAGGCGAGAAGAAGATACA
*
40018 CAGAGGCAAGGCGAGAAGAAGATACG
1 CAGAGGCAAGGCGAGAAGAAGATACA
40044 CAGAG
1 CAGAG
40049 ACAAACGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.39, T:0.04
Consensus pattern (26 bp):
CAGAGGCAAGGCGAGAAGAAGATACA
Found at i:41630 original size:2 final size:2
Alignment explanation
Indices: 41589--41621 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41579 TTTTAATTTA
41589 AT AT 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 AT AT A
41622 CTTTATATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44714 original size:2 final size:2
Alignment explanation
Indices: 44707--44736 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44697 CAAATTTTAT
44707 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
44737 AATTATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45928 original size:70 final size:69
Alignment explanation
Indices: 45812--45950 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 69
45802 CTTTTTTTCT
*
45812 TCAAGTTTTCATGCAAATAATGGCCCATCTACTGGGTTTTATGTCTATGAAAAAATGATTCTAAA
1 TCAAGTTTTCATGCAAATAATGGCCCATCTACTGGGTTTTACGTCTATG-AAAAATGATTCTAAA
45877 AGTTG
65 AGTTG
45882 TCAAGTTTTCATGCAAATAATGGCCCATCTACTGGGTTTTACGTCTATGAAAAATGATTCTAAAA
1 TCAAGTTTTCATGCAAATAATGGCCCATCTACTGGGTTTTACGTCTATGAAAAATGATTCTAAAA
45947 GTTG
66 GTTG
45951 GGTAAGTGGA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 20 0.29
70 48 0.71
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (69 bp):
TCAAGTTTTCATGCAAATAATGGCCCATCTACTGGGTTTTACGTCTATGAAAAATGATTCTAAAA
GTTG
Found at i:47123 original size:13 final size:13
Alignment explanation
Indices: 47107--47141 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
47097 TCAATCAATC
47107 CTCAAATTTCACT
1 CTCAAATTTCACT
47120 CTCAAATTTCACT
1 CTCAAATTTCACT
*
47133 -TAAAATTTC
1 CTCAAATTTC
47142 GTCACCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (13 bp):
CTCAAATTTCACT
Found at i:52125 original size:50 final size:50
Alignment explanation
Indices: 52066--52195 Score: 116
Period size: 50 Copynumber: 2.6 Consensus size: 50
52056 TACTCGTAGC
* * * * * * * *
52066 AGTAAAGCGCATCTCCTGAATCACGTTATACGTTGATTTGGTGCTACGTG
1 AGTATAGCGCACCTCCTGAACCACGATATACGGTGATCTGGCGCCACGTG
* * **
52116 GGTATAGCGCGCCTCCTGTCCCACGATATACGGTGATCTGGCGCCACGTG
1 AGTATAGCGCACCTCCTGAACCACGATATACGGTGATCTGGCGCCACGTG
* * * *
52166 AGTATAGCGCGCCCCCTGATCCACGTTATA
1 AGTATAGCGCACCTCCTGAACCACGATATA
52196 TCTGAGTATC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (50 bp):
AGTATAGCGCACCTCCTGAACCACGATATACGGTGATCTGGCGCCACGTG
Found at i:52324 original size:10 final size:10
Alignment explanation
Indices: 52309--52348 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
52299 TTTATCACAC
52309 CAAATTCTCT
1 CAAATTCTCT
52319 CAAATTCTCT
1 CAAATTCTCT
52329 -AAATTTCTCT
1 CAAA-TTCTCT
*
52339 CAAATACTCT
1 CAAATTCTCT
52349 ATCTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:52669 original size:111 final size:110
Alignment explanation
Indices: 52475--52907 Score: 697
Period size: 111 Copynumber: 4.0 Consensus size: 110
52465 TGGAAATCAT
52475 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTC-ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
52540 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
*
52586 ATATCTCAACACTTTGCTGATACGGTAACATTTTAACGTTATAATTTAATTTAAATTATTAGTAA
1 ATATCTC-ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
52651 TAATTATTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
52697 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTC-ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
52762 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATT--
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
* *
52806 A-AT-T-----TTTG-TAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAATAAT
1 ATATCTCACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
*
52863 AATTAGTTGATTTATTTAATGCATGATTATTAGAGTAATAATTAA
66 AATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
52908 TTTTTGTAAT
Statistics
Matches: 309, Mismatches: 11, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
100 89 0.29
101 4 0.01
107 1 0.00
108 2 0.01
109 1 0.00
111 212 0.69
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (110 bp):
ATATCTCACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
AATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
Found at i:54429 original size:18 final size:18
Alignment explanation
Indices: 54403--54437 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54393 CAGCAGCCAC
54403 CGCAGCCATATATGATGT
1 CGCAGCCATATATGATGT
*
54421 CGCATCCATATATGATG
1 CGCAGCCATATATGATG
54438 CCGCCATCGC
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:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
CGCAGCCATATATGATGT
Found at i:54822 original size:18 final size:18
Alignment explanation
Indices: 54801--54835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54791 TGACGATGAT
* *
54801 GATGATGGTGACGGCGAC
1 GATGATGATGACAGCGAC
54819 GATGATGATGACAGCGA
1 GATGATGATGACAGCGA
54836 GGAGTCAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.40, T:0.17
Consensus pattern (18 bp):
GATGATGATGACAGCGAC
Found at i:59548 original size:23 final size:22
Alignment explanation
Indices: 59491--59554 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
59481 AGTATCATTT
59491 TAATAAAAATATTAATTATTAACA
1 TAAT-AAAATA-TAATTATTAACA
* * *
59515 TATTTAAAATATATTTATTAATA
1 TA-ATAAAATATAATTATTAACA
*
59538 TAATAATAATATTATTA
1 TAATAA-AATATAATTA
59555 CAATAATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 3 0.09
23 20 0.62
24 8 0.25
25 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAAATATAATTATTAACA
Found at i:59766 original size:24 final size:22
Alignment explanation
Indices: 59739--59783 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
59729 TCTAATAATA
59739 TTATAAAAATTCCTTAAAATATAT
1 TTATAAAAATT--TTAAAATATAT
* *
59763 TTATTATAATTTTAAAATATA
1 TTATAAAAATTTTAAAATATA
59784 ATATAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATAAAAATTTTAAAATATAT
Found at i:59805 original size:35 final size:35
Alignment explanation
Indices: 59760--59842 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
59750 CCTTAAAATA
*
59760 TATTTATTATA-ATTTTAAAATATAATATAATATTTT
1 TATTT-TTATAGATATT-AAATATAATATAATATTTT
* * *
59796 TATTTTTATAGATATTCAATATAATTTCATATTTT
1 TATTTTTATAGATATTAAATATAATATAATATTTT
*
59831 TATTTTAATAGA
1 TATTTTTATAGA
59843 ATATACTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 32 0.78
36 9 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (35 bp):
TATTTTTATAGATATTAAATATAATATAATATTTT
Found at i:59988 original size:22 final size:20
Alignment explanation
Indices: 59936--59989 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
59926 ATTATTCTAA
*
59936 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
59956 TAAGTTTTTATAATAAATAATAT
1 T-A-TTTTTATAAT-AATAATAT
59979 TATTTATTATA
1 TATTT-TTATA
59990 TTTATATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:61302 original size:22 final size:19
Alignment explanation
Indices: 61266--61313 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 19
61256 TTCTCGTGTT
61266 ACTTAAAAAAACAACAAAG
1 ACTTAAAAAAACAACAAAG
61285 ACTTGAAAAAACATCAACAAAG
1 ACTT-AAAAAA-A-CAACAAAG
61307 ACTTAAA
1 ACTTAAA
61314 TAATCATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 4 0.15
22 12 0.46
ACGTcount: A:0.62, C:0.17, G:0.06, T:0.15
Consensus pattern (19 bp):
ACTTAAAAAAACAACAAAG
Found at i:61573 original size:21 final size:21
Alignment explanation
Indices: 61544--61583 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61534 ATTGTTCATG
61544 TTTTCATAATT-TTGTACAATT
1 TTTTCATAATTATT-TACAATT
*
61565 TTTTTATAATTATTTACAA
1 TTTTCATAATTATTTACAA
61584 ATATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTCATAATTATTTACAATT
Found at i:63751 original size:43 final size:43
Alignment explanation
Indices: 63703--63788 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
63693 TAAACAACTC
* *
63703 TTAGAAATAATTTTATTATTTTATTTAATTGAATATACTTCTT
1 TTAGAAATAATTTTATTATATTATCTAATTGAATATACTTCTT
*
63746 TTAGAAATAATTTTATTATATTATCTAATTGAATATATTTCTT
1 TTAGAAATAATTTTATTATATTATCTAATTGAATATACTTCTT
63789 AAAATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (43 bp):
TTAGAAATAATTTTATTATATTATCTAATTGAATATACTTCTT
Found at i:66960 original size:19 final size:19
Alignment explanation
Indices: 66918--66960 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
66908 ACATTTTAAC
*
66918 AAAAACTTAAACAACATTT
1 AAAAACTTAAACAACATTA
* * *
66937 TAAAATTTAAACGACATTA
1 AAAAACTTAAACAACATTA
66956 AAAAA
1 AAAAA
66961 AATTACAACA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAACTTAAACAACATTA
Found at i:68948 original size:23 final size:23
Alignment explanation
Indices: 68913--68969 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
68903 ATCAAGTACA
* * *
68913 ATAACATATTAGGTAGCGTTTAT
1 ATAATATAATAGGTAACGTTTAT
68936 ATAATATAATAGGTAACGTTTAT
1 ATAATATAATAGGTAACGTTTAT
*
68959 ATAATAAAATA
1 ATAATATAATA
68970 AACATTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (23 bp):
ATAATATAATAGGTAACGTTTAT
Found at i:69035 original size:23 final size:23
Alignment explanation
Indices: 69000--69047 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
68990 ATCAAGTACA
*
69000 ATAACATATTAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
* *
69023 ATAATATAATAGGTAGCTCTTAT
1 ATAACATAATAGGTAGCACTTAT
69046 AT
1 AT
69048 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:69918 original size:200 final size:198
Alignment explanation
Indices: 69042--69970 Score: 1051
Period size: 201 Copynumber: 4.6 Consensus size: 198
69032 TAGGTAGCTC
* * * * *
69042 TTATATTGACCTATTTTATAAGTAAACTGGTATATTTATACCGATAACATTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAA-TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
69107 TACATTATAATTATCGGTTTCGATGTTTTTTGGATCAATACAATTTT--AAATGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC--TTTTAAAAATGTATCGACACTT
* * *
69170 TATGCGTGCACCTCG-TTGGGCATTCATTCTGGA-AAAAAGTATCGACATAAACTTAAATAGTAT
128 TATGCGTGCACCTCGTTTGAGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAA-AGTGT
69233 CGATACA
192 CGATACA
* ** * * *
69240 TTAT-TTAGACCTATTTTTTTCTTCATTAAAATGGTATATTTCTATCGGGTACATTGTAAATTTA
1 TTATGTT-GACCTA---TTTTC-T-AATAAACCGGTATATTTATACCGGTTACATTGTAAATTTA
* * * *
69304 CCTATCACATTGTAATTATTGGTTTCGATGTTTTTGGGATCGATAGTTTTAATAAATGTATCGAC
60 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAA-AAATGTATCGAC
* * * * *
69369 ATTTTATGCGTGCA-CTCGTTTGA-CATTCATTATGGACAAAATGTATCGACGCAAATTTAATAA
124 ACTTTATGCGTGCACCTCGTTTGAGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAA-AA
* *
69432 GGGTCGATACT
188 GTGTCGATACA
* * * * * *
69443 TTATGATGACTTATTTTATCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTCTAAT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
69508 TACATTATAATTATCGGTTTCGATGCTTTTT-GAATCGATACTTTTTAAAACATGTATCGACACT
65 TACATTATAATTATCGGTTTCGATG-TTTTTGGGATCGATAC-TTTTAAAA-ATGTATCGACACT
* *
69572 TTATGCGTGCAATCCT--TTTG-GAATTCATTTTGGACAAAAAGTATCGACACAAA-TATAAAAT
127 TTATGCGTGC-A-CCTCGTTTGAGCATTCATTCTGGACAAAAAGTATCGACACAAACT-TAAAA-
69633 GTGTCGATACA
188 GTGTCGATACA
* * * * * *
69644 TTATGTTCACCTATTTT-AACATAAAACCAGTATATTTATACTGATTACATTGTAAATTTATCTA
1 TTATGTTGACCTATTTTCTA-AT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* *
69708 TTACATTATAATTATCAGTTTCGAT-TTTATTGGGATCGATACTTTTAATAATTGTATCGACACT
64 TTACATTATAATTATCGGTTTCGATGTTT-TTGGGATCGATACTTTTAA-AAATGTATCGACACT
*
69772 TTATGCGTGCACCTCGTTTGAGCATTCATTCTGGACAATAAGTATCGACACAAA-TTACACAAGT
127 TTATGCGTGCACCTCGTTTGAGCATTCATTCTGGACAAAAAGTATCGACACAAACTTA-A-AAGT
69836 GTCGATACA
190 GTCGATACA
* * *
69845 TTATGTTGACCTGTTTTCTAATTAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATT
1 TTATGTTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* * *
69910 ACATTATAATTATTGGTTTCGATATTTTTTGGATCGATACTTTTAGAAAATGTATCGACAC
66 ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA-AAAATGTATCGACAC
69971 ATATTTAGGT
Statistics
Matches: 619, Mismatches: 77, Indels: 68
0.81 0.10 0.09
Matches are distributed among these distances:
197 2 0.00
198 14 0.02
199 73 0.12
200 168 0.27
201 200 0.32
202 92 0.15
203 68 0.11
204 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (198 bp):
TTATGTTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAAAAATGTATCGACACTTTAT
GCGTGCACCTCGTTTGAGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAGTGTCGAT
ACA
Found at i:69930 original size:401 final size:397
Alignment explanation
Indices: 69042--69970 Score: 1164
Period size: 401 Copynumber: 2.3 Consensus size: 397
69032 TAGGTAGCTC
* * * *
69042 TTATATTGACCTATTTTATAAGTAAACTGGTATATTTATACCGATAACATTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTATAA-TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
69107 TACATTATAATTATCGGTTTCGATGTTTTTTGGATCAATACAATTTT--AAATGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATAC--TTTTAAAAATGTATCGACACTT
* *
69170 TATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACATAAACTTAAATAGTATCG
128 TATGCGTGCACCTC-TTGGGAATTCATTCTGGAAAAAAGTATCGACACAAACTTAAATAGTATCG
* ** ** * *
69235 ATACATTATTTAGACCTATTTTTTTCTTCATTAAAATGGTATATTTCTATCGGGTACATTGTAAA
192 ATACATTATTTACACCTA--TTTTTCAACATTAAAACAGTATATTTATATCGAGTACATTGTAAA
* ** *
69300 TTTACCTATCACATTGTAATTATTGGTTTCGATGTTTTTGGGATCGATAGTTTTAATAAATGTAT
255 TTTACCTATCACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTAT
* * *
69365 CGACATTTTATGCGTGCACTCGTTTGACATTCATTATGGACAAAATGTATCGACGCAAATTTAAT
320 CGACACTTTATGCGTGCACTCGTTTGACATTCATTATGGACAAAATGTATCGACACAAATTTAAC
*
69430 AAGGGTCGATACT
385 AAGGGTCGATACA
* * * * *
69443 TTATGATGACTTATTTTATCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTATAAT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
69508 TACATTATAATTATCGGTTTCGATGCTTTTTGAATCGATACTTTTTAAAACATGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATAC-TTTTAAAA-ATGTATCGACACTT
* *
69573 TATGCGTGCAATCCT-TTTGGAATTCATTTTGGACAAAAAGTATCGACACAAA-TATAAA-ATGT
128 TATGCGTGC-A-CCTCTTGGGAATTCATTCTGGA-AAAAAGTATCGACACAAACT-TAAATA-GT
* *
69635 GTCGATACATTATGTT-CACCTA-TTTT-AACA-TAAAACCAGTATATTTATA-CTGATTACATT
188 ATCGATACATTAT-TTACACCTATTTTTCAACATTAAAA-CAGTATATTTATATC-GAGTACATT
* *
69695 GTAAATTTATCTATTACATTATAATTATCAGTTTCGAT-TTTATTGGGATCGATACTTTTAATAA
250 GTAAATTTACCTATCACATTATAATTATCAGTTTCGATGTTT-TTGGGATCGATACTTTTAATAA
* *
69759 TTGTATCGACACTTTATGCGTGCACCTCGTTTGAGCATTCATTCTGGACAATAA-GTATCGACAC
314 ATGTATCGACACTTTATGCGTGCA-CTCGTTTGA-CATTCATTATGGACAA-AATGTATCGACAC
*
69823 AAA-TTACACAAGTGTCGATACA
376 AAATTTA-ACAAGGGTCGATACA
* * * *
69845 TTATGTTGACCTGTTTTCTAATTAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATT
1 TTATGTTGACCTATTTTATAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* *
69910 ACATTATAATTATTGGTTTCGATATTTTTTGGATCGATACTTTTAGAAAATGTATCGACAC
66 ACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTA-AAAATGTATCGACAC
69971 ATATTTAGGT
Statistics
Matches: 458, Mismatches: 52, Indels: 37
0.84 0.10 0.07
Matches are distributed among these distances:
399 9 0.02
400 117 0.26
401 186 0.41
402 58 0.13
403 42 0.09
404 41 0.09
405 5 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (397 bp):
TTATGTTGACCTATTTTATAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACTTTTAAAAATGTATCGACACTTTAT
GCGTGCACCTCTTGGGAATTCATTCTGGAAAAAAGTATCGACACAAACTTAAATAGTATCGATAC
ATTATTTACACCTATTTTTCAACATTAAAACAGTATATTTATATCGAGTACATTGTAAATTTACC
TATCACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
TTTATGCGTGCACTCGTTTGACATTCATTATGGACAAAATGTATCGACACAAATTTAACAAGGGT
CGATACA
Found at i:70649 original size:40 final size:40
Alignment explanation
Indices: 70605--70724 Score: 240
Period size: 40 Copynumber: 3.0 Consensus size: 40
70595 ATGGGACTAT
70605 AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
1 AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
70645 AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
1 AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
70685 AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
1 AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
70725 TTCAAAGAGG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (40 bp):
AATAATGTTGAATTTACACATAAAGACCTCTACAATGCAC
Done.