Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005232.1 Hibiscus syriacus cultivar Beakdansim tig00011844_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: 78916
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2555 original size:173 final size:179
Alignment explanation
Indices: 2328--2702 Score: 540
Period size: 182 Copynumber: 2.1 Consensus size: 179
2318 ATTTCGAATT
* *
2328 TATATAA-AAATTAA-ATATTTTTAATTCAAAAAACAGTTTAATTAATTTAAATAATATATAA-T
1 TATATAATAATTTAATATTTTTTTAATTCAAAAAACAGTTTAATTAATTTAAATAATATATAATT
2390 ATAAAATAAAAATTTTATATAA-TTTTT-TTAATTAATA-TGATTTAAGTTTAAAAGTTA-AATC
66 ATAAAATAAAAATTTTATATAATTTTTTATTAATTAATATTGATTTAAGTTTAAAAGTTAGAATC
2451 TTAAATTATTAATTGAGTTTTAAATAG-TTGAGCTT-AGT-CATATGTTA
131 TTAAATTATTAATTGAGTTTTAAATAGTTTG-GCTTAAGTCCATATGTTA
2498 TATAT-AT-ATTTAATATTTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATA
1 TATATAATAATTTAATATTTTTTTAATTC-AAAAAACAGTTT--AATTAATTTAAATAATATATA
2561 ATTATAAAATAAAAATTTTATATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA
63 ATTATAAAATAAAAATTTTATATAA-TTTTTT-ATTAATTAATATTGATTTAAGTTTAAAAGTTA
* * *
2626 TGGAATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGTTAAGTCCATATGTTA
126 --GAATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGCTTAAGTCCATATGTTA
2682 TATATAATAAATTTAATATTT
1 TATATAAT-AATTTAATATTT
2703 AAAATTTAAT
Statistics
Matches: 180, Mismatches: 5, Indels: 23
0.87 0.02 0.11
Matches are distributed among these distances:
169 6 0.03
170 17 0.09
171 12 0.07
173 22 0.12
174 23 0.13
176 5 0.03
178 10 0.06
179 20 0.11
182 32 0.18
183 6 0.03
184 14 0.08
185 2 0.01
187 11 0.06
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (179 bp):
TATATAATAATTTAATATTTTTTTAATTCAAAAAACAGTTTAATTAATTTAAATAATATATAATT
ATAAAATAAAAATTTTATATAATTTTTTATTAATTAATATTGATTTAAGTTTAAAAGTTAGAATC
TTAAATTATTAATTGAGTTTTAAATAGTTTGGCTTAAGTCCATATGTTA
Found at i:2840 original size:27 final size:28
Alignment explanation
Indices: 2784--2852 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 28
2774 CCGTTAATCG
2784 ACCGAACTAATTCGGTGATTGATCGAATTA
1 ACCGAACTAATT--GTGATTGATCGAATTA
*
2814 ACCGAACTAATT-TGATTCGGTCG-ATTA
1 ACCGAACTAATTGTGATT-GATCGAATTA
*
2841 ACCGAATTAATT
1 ACCGAACTAATT
2853 CAAAAATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 20 0.56
28 4 0.11
30 12 0.33
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (28 bp):
ACCGAACTAATTGTGATTGATCGAATTA
Found at i:3598 original size:15 final size:15
Alignment explanation
Indices: 3580--3634 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
3570 TGATAATATT
3580 TATTATTAATGTTTA
1 TATTATTAATGTTTA
3595 TATTATTAA-GATTATA
1 TATTATTAATG-TT-TA
* *
3611 TATTTTTATATGTTAA
1 TATTATTA-ATGTTTA
3627 TATT-TTAA
1 TATTATTAA
3635 ATAATTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 2 0.06
15 14 0.41
16 14 0.41
17 3 0.09
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (15 bp):
TATTATTAATGTTTA
Found at i:5073 original size:23 final size:23
Alignment explanation
Indices: 5031--5147 Score: 99
Period size: 23 Copynumber: 5.0 Consensus size: 23
5021 TATAAATGAG
* *
5031 CATGTTCGCGAACGCCAAACGAA
1 CATGTTCACGAACGCTAAACGAA
* * *
5054 CATATTCACGAACTCTAAACAAA
1 CATGTTCACGAACGCTAAACGAA
* * * *
5077 CATGTTTACGAATGTTTAAATGAA
1 CATGTTCACGAACG-CTAAACGAA
* **
5101 TATGTTCATAAACGCTAAACGAA
1 CATGTTCACGAACGCTAAACGAA
**
5124 CATGTTCGTGAACGCTAAACGAA
1 CATGTTCACGAACGCTAAACGAA
5147 C
1 C
5148 GATAAACGAA
Statistics
Matches: 71, Mismatches: 22, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
23 56 0.79
24 15 0.21
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (23 bp):
CATGTTCACGAACGCTAAACGAA
Found at i:10315 original size:32 final size:32
Alignment explanation
Indices: 10260--10347 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 32
10250 ATACCACATA
* * **
10260 ATCACTTAAGTACATGTGTCATATGTCAAGAC
1 ATCACTTATGTACACGTAACATATGTCAAGAC
* *
10292 ATCATTTATGTACACGTAACATATGTCACGAC
1 ATCACTTATGTACACGTAACATATGTCAAGAC
* * *
10324 ATTACTTATGTACATGTGACATAT
1 ATCACTTATGTACACGTAACATAT
10348 ATTATATCAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
ATCACTTATGTACACGTAACATATGTCAAGAC
Found at i:16376 original size:2 final size:2
Alignment explanation
Indices: 16369--16406 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16359 TACCCTTTTA
16369 AT AT AT AT AT 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 AT AT AT AT AT
16407 GTTTTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25266 original size:31 final size:30
Alignment explanation
Indices: 25226--25297 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
25216 ATTTGTACAC
* * * *
25226 TTTTTGTCACTTATATTATCATTTTATTGAG
1 TTTTGGTCACTTACATT-TCATTTCATTAAG
* *
25257 TTTTGGTCACTTACGTTTCGTTTCATTAAG
1 TTTTGGTCACTTACATTTCATTTCATTAAG
25287 TTTTGGTCACT
1 TTTTGGTCACT
25298 CGAAAATGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (30 bp):
TTTTGGTCACTTACATTTCATTTCATTAAG
Found at i:26068 original size:31 final size:31
Alignment explanation
Indices: 26033--26106 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
26023 TTCAACGTTC
26033 AAGTGACCAAAACTTAATAAAACAATAACAT
1 AAGTGACCAAAACTTAATAAAACAATAACAT
* * **
26064 AAGTGATCAAAACTTAATAAAACGATAATGT
1 AAGTGACCAAAACTTAATAAAACAATAACAT
*
26095 AAGTTACCAAAA
1 AAGTGACCAAAA
26107 GCGTACAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACAATAACAT
Found at i:33600 original size:34 final size:34
Alignment explanation
Indices: 33557--33631 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
33547 AAAGGTGCAG
* *
33557 ACAAAAAATCAGGTTATAGA-AGCTAGACCATAAT
1 ACAACAAATCAGATTATA-ATAGCTAGACCATAAT
* *
33591 ACAACAAATCAGATTATAATAGCTAGATCATCAT
1 ACAACAAATCAGATTATAATAGCTAGACCATAAT
*
33625 AGAACAA
1 ACAACAA
33632 TAAGAATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (34 bp):
ACAACAAATCAGATTATAATAGCTAGACCATAAT
Found at i:38793 original size:18 final size:18
Alignment explanation
Indices: 38749--38796 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
38739 TTTTTAAAGA
*
38749 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
*
38768 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
38785 AAATATATAATA
1 AAATATATAATA
38797 AGGATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:42987 original size:24 final size:24
Alignment explanation
Indices: 42920--42980 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
42910 CGTCTTCACT
42920 GTTGACATCATCACCGTCATTTTC
1 GTTGACATCATCACCGTCATTTTC
42944 GTTGACATCATCACCGTCATTTTC
1 GTTGACATCATCACCGTCATTTTC
* *
42968 GTTGTCGTCATCA
1 GTTGACATCATCA
42981 TCATCATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (24 bp):
GTTGACATCATCACCGTCATTTTC
Found at i:42992 original size:12 final size:12
Alignment explanation
Indices: 42975--43025 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
42965 TTCGTTGTCG
*
42975 TCATCATCATCA
1 TCATAATCATCA
42987 TCATCAATC-TCA
1 TCAT-AATCATCA
*
42999 TCATAAACATCA
1 TCATAATCATCA
**
43011 AGATAATCATCA
1 TCATAATCATCA
43023 TCA
1 TCA
43026 GAGTCATCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
11 3 0.10
12 24 0.80
13 3 0.10
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.29
Consensus pattern (12 bp):
TCATAATCATCA
Found at i:43053 original size:27 final size:29
Alignment explanation
Indices: 43017--43084 Score: 113
Period size: 30 Copynumber: 2.4 Consensus size: 29
43007 ATCAAGATAA
43017 TCATCATCAGAGTCATC-T-TCCTCACCC
1 TCATCATCAGAGTCATCTTCTCCTCACCC
43044 TCATCATCAGAGTCATCTTCCTCCTCACCC
1 TCATCATCAGAGTCATCTT-CTCCTCACCC
43074 TCATCATCAGA
1 TCATCATCAGA
43085 ATACTCAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 17 0.45
28 1 0.03
30 20 0.53
ACGTcount: A:0.24, C:0.40, G:0.07, T:0.29
Consensus pattern (29 bp):
TCATCATCAGAGTCATCTTCTCCTCACCC
Found at i:44614 original size:34 final size:34
Alignment explanation
Indices: 44571--44645 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
44561 AAAGGTGCAG
* *
44571 ACAAAAAATCAGGTTATAGA-AGCTAGACCATAAT
1 ACAACAAATCAGATTATA-ATAGCTAGACCATAAT
* *
44605 ACAACAAATCAGATTATAATAGCTAGATCATCAT
1 ACAACAAATCAGATTATAATAGCTAGACCATAAT
*
44639 AGAACAA
1 ACAACAA
44646 TAAGAATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (34 bp):
ACAACAAATCAGATTATAATAGCTAGACCATAAT
Found at i:47073 original size:15 final size:15
Alignment explanation
Indices: 47034--47073 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
47024 TCGTTTTTAT
47034 AAATAAAT-TTAAAA
1 AAATAAATATTAAAA
*
47048 AAATTAA-ATTAAAA
1 AAATAAATATTAAAA
47062 AAATAAATATTA
1 AAATAAATATTA
47074 TTATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAAATATTAAAA
Found at i:50525 original size:97 final size:97
Alignment explanation
Indices: 50359--50534 Score: 307
Period size: 97 Copynumber: 1.8 Consensus size: 97
50349 AGTGTAAACC
50359 AGCATCACTGAATTCTCTAGCCGTGTCTTCTAAGCACTGCACATCGAGTTGAGACGTATTTGAAA
1 AGCATCACTGAATTCTCTAGCCGTGTCTTCTAAGCACTGCACATCGAGTTGAGACGTATTTGAAA
50424 CACGACCAGCTTGATTATCCACCAACGAGTGT
66 CACGACCAGCTTGATTATCCACCAACGAGTGT
* * * * *
50456 AGCATCACTGATTTCTCTAGCTGTGTCTTCTAAGCACTGCTCATCGGGTTGAGAGGTATTTGAAA
1 AGCATCACTGAATTCTCTAGCCGTGTCTTCTAAGCACTGCACATCGAGTTGAGACGTATTTGAAA
50521 CACGACCAGCTTGA
66 CACGACCAGCTTGA
50535 ATATTCACAC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 74 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (97 bp):
AGCATCACTGAATTCTCTAGCCGTGTCTTCTAAGCACTGCACATCGAGTTGAGACGTATTTGAAA
CACGACCAGCTTGATTATCCACCAACGAGTGT
Found at i:50725 original size:53 final size:53
Alignment explanation
Indices: 50645--50751 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
50635 AATGCATCCT
50645 TATTAAACTGAACATGCCGCAATATATAAACCTTACCCTCATCATCAAGACAC
1 TATTAAACTGAACATGCCGCAATATATAAACCTTACCCTCATCATCAAGACAC
50698 TATTAAACTGAACATGCCGCAATATATAAACCTTACCCTCATCATCAAGACAC
1 TATTAAACTGAACATGCCGCAATATATAAACCTTACCCTCATCATCAAGACAC
50751 T
1 T
50752 TGTAGCCGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.25
Consensus pattern (53 bp):
TATTAAACTGAACATGCCGCAATATATAAACCTTACCCTCATCATCAAGACAC
Found at i:58893 original size:22 final size:23
Alignment explanation
Indices: 58859--58905 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
58849 ATATGACGAG
58859 TTGAATTTTTTTAATATATATTA
1 TTGAATTTTTTTAATATATATTA
58882 TTGAA-TTTTTTAATATATATTA
1 TTGAATTTTTTTAATATATATTA
58904 TT
1 TT
58906 AAACGCATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTGAATTTTTTTAATATATATTA
Found at i:59270 original size:21 final size:20
Alignment explanation
Indices: 59238--59281 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
59228 CCAAAAATAT
* * *
59238 TAAAAAATTAATGTTTTAGA
1 TAAAAAAATAATATTTTAAA
59258 TAAAAATAATAATATTTTAAA
1 TAAAAA-AATAATATTTTAAA
59279 TAA
1 TAA
59282 TTTTTACCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TAAAAAAATAATATTTTAAA
Found at i:68520 original size:30 final size:30
Alignment explanation
Indices: 68480--68546 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
68470 AATGATGATA
*
68480 ATAATTTTTGATAAACTTAATGATTGATTT
1 ATAATATTTGATAAACTTAATGATTGATTT
* * *
68510 ATAATATTTGATAAATTTAATTATTGTTTT
1 ATAATATTTGATAAACTTAATGATTGATTT
68540 ATAATAT
1 ATAATAT
68547 CGTGACAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.52
Consensus pattern (30 bp):
ATAATATTTGATAAACTTAATGATTGATTT
Found at i:69023 original size:22 final size:22
Alignment explanation
Indices: 68998--69058 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
68988 TAGTTTAGAC
*
68998 ACTTACTTTTATATTAATCCTT
1 ACTTATTTTTATATTAATCCTT
*
69020 ACTTATTTTTATATTCATCCTT
1 ACTTATTTTTATATTAATCCTT
*
69042 ACTTTTTTTTATATTAA
1 ACTTATTTTTATATTAA
69059 ACCGATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (22 bp):
ACTTATTTTTATATTAATCCTT
Found at i:71855 original size:34 final size:34
Alignment explanation
Indices: 71743--71857 Score: 99
Period size: 34 Copynumber: 3.4 Consensus size: 34
71733 TGTGTGAATT
*
71743 ATTTAATTTATTTATTTAACTTTTTCTTTATATG
1 ATTTAATTTATTTATTTAACTTTTTCTTTATAGG
* * ** ** * *
71777 ATTTTATTT-TTATCATATAACGATTAGTTT-TTGCT
1 ATTTAATTTATT-T-ATTTAACTTTTTCTTTATAG-G
71812 ATTTAATTTATTTATTTAACTTTTTCTTTATAGG
1 ATTTAATTTATTTATTTAACTTTTTCTTTATAGG
*
71846 ATTTTATTTATT
1 ATTTAATTTATT
71858 ATCAGTACTT
Statistics
Matches: 58, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
33 2 0.03
34 32 0.55
35 22 0.38
36 2 0.03
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.63
Consensus pattern (34 bp):
ATTTAATTTATTTATTTAACTTTTTCTTTATAGG
Found at i:72823 original size:3 final size:3
Alignment explanation
Indices: 72817--72847 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
72807 ATTGTTTATT
72817 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
72848 ATACTAACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:74507 original size:21 final size:21
Alignment explanation
Indices: 74481--74521 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
74471 CCATAATAGG
74481 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
74502 GGGTATCGGTACTCCTTCAT
1 GGGTATCGGTACCCCTTCAT
74522 TCAATTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:74876 original size:21 final size:21
Alignment explanation
Indices: 74852--74891 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
74842 ATGTTTAATG
74852 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
74873 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
74892 CCAATTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:77929 original size:21 final size:21
Alignment explanation
Indices: 77903--77943 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77893 CTATAATAGG
*
77903 GGGTATCGGTACCCCTTCATA
1 GGGTATCGATACCCCTTCATA
*
77924 GGGTATCGATACTCCTTCAT
1 GGGTATCGATACCCCTTCAT
77944 TCAATTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
GGGTATCGATACCCCTTCATA
Done.