Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000166.1 Hibiscus syriacus cultivar Beakdansim tig00000292_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: 87627
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:6826 original size:21 final size:21
Alignment explanation
Indices: 6800--6846 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
6790 AAGATATTTG
6800 TGAAAAGAATGGCATAATTCA
1 TGAAAAGAATGGCATAATTCA
6821 TGAAAAGAATGGCATAATTCA
1 TGAAAAGAATGGCATAATTCA
6842 TGAAA
1 TGAAA
6847 CTTCAGCGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (21 bp):
TGAAAAGAATGGCATAATTCA
Found at i:7204 original size:20 final size:19
Alignment explanation
Indices: 7179--7219 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7169 TCTCATTACG
*
7179 TTTTTTT-ATTTATTTATCT
1 TTTTTTTAATTAATTTAT-T
7198 TTTTTTTAATTAATTTATT
1 TTTTTTTAATTAATTTATT
7217 TTT
1 TTT
7220 AAGTCGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTAATTAATTTATT
Found at i:9441 original size:22 final size:22
Alignment explanation
Indices: 9413--9455 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9403 GAAAGTCAAC
9413 GGTCAACGGACCGGTCGGGTCG
1 GGTCAACGGACCGGTCGGGTCG
* *
9435 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGACCGGTCGGGTC
9456 AACGGTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.47, T:0.16
Consensus pattern (22 bp):
GGTCAACGGACCGGTCGGGTCG
Found at i:9461 original size:17 final size:17
Alignment explanation
Indices: 9424--9462 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9414 GTCAACGGAC
9424 CGGTCGGGTCGGGTCAA
1 CGGTCGGGTCGGGTCAA
9441 CGGTCGGGTCGGGTCAA
1 CGGTCGGGTCGGGTCAA
9458 CGGTC
1 CGGTC
9463 AAACCGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.26, G:0.46, T:0.18
Consensus pattern (17 bp):
CGGTCGGGTCGGGTCAA
Found at i:16714 original size:26 final size:26
Alignment explanation
Indices: 16658--16716 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
16648 AGAAAGTCAA
*
16658 CGGTCAACGGACCGGTCGGTCGGGTC
1 CGGTCAACGGACCGGTCGGTCGGGAC
* * *
16684 GGGTCAACGGTCGGGTCGGGTC-GGAC
1 CGGTCAACGGACCGGTC-GGTCGGGAC
16710 CGGTCAA
1 CGGTCAA
16717 ACCGGTTCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.14, C:0.27, G:0.44, T:0.15
Consensus pattern (26 bp):
CGGTCAACGGACCGGTCGGTCGGGAC
Found at i:16759 original size:20 final size:22
Alignment explanation
Indices: 16734--16783 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
16724 CAGACTGGTC
16734 AAACCGGTTC-GAACCAGTTG-
1 AAACCGGTTCAGAACCAGTTGA
*
16754 AAACCGG-TCAGAACCGGTTGA
1 AAACCGGTTCAGAACCAGTTGA
16775 AAACCGGTT
1 AAACCGGTT
16784 TCCATCAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 16 0.62
21 7 0.27
22 1 0.04
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (22 bp):
AAACCGGTTCAGAACCAGTTGA
Found at i:22593 original size:2 final size:2
Alignment explanation
Indices: 22588--22616 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22578 AATTATGATT
22588 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22617 TAAAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23867 original size:17 final size:16
Alignment explanation
Indices: 23843--23886 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
23833 TACTTGATAA
*
23843 AATTAAATATTAATTT
1 AATTAAATATTAAATT
23859 AACTTAAATATTAAATT
1 AA-TTAAATATTAAATT
23876 AATTAAA-ATTA
1 AATTAAATATTA
23887 TAATAACTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 7 0.27
17 15 0.58
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAAATATTAAATT
Found at i:31671 original size:23 final size:23
Alignment explanation
Indices: 31653--31713 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
31643 CTCATATAAA
*
31653 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
31676 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
31699 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
31714 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:31900 original size:103 final size:103
Alignment explanation
Indices: 31729--31946 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
31719 TAATGTCCAT
31729 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
31794 GACTTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
31832 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
31897 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
31935 AAGGACCACATA
1 AAGGACCACATA
31947 GACCCTCGAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:36741 original size:23 final size:23
Alignment explanation
Indices: 36715--36783 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
36705 CACCACAGCT
*
36715 CATATAAATACACCGAAGTGCCA
1 CATAGAAATACACCGAAGTGCCA
* * * *
36738 CATAGAATTGCACCGTAGTGCCG
1 CATAGAAATACACCGAAGTGCCA
* * * *
36761 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAAATACACCGAAGTGCCA
36784 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
CATAGAAATACACCGAAGTGCCA
Found at i:36919 original size:103 final size:103
Alignment explanation
Indices: 36799--37016 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
36789 TAATGTCCAT
*
36799 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAA
* *
36864 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAAAATACATATATCTCCCG
36902 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAA
*
36967 GACTTCATACATGTTCCAAAAAATACATATATCTCCCG
66 GACTTCACACATGTTCCAAAAAATACATATATCTCCCG
37005 AAGGACCACATA
1 AAGGACCACATA
37017 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAA
GACTTCACACATGTTCCAAAAAATACATATATCTCCCG
Found at i:38684 original size:23 final size:23
Alignment explanation
Indices: 38658--38716 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
38648 CACCACATCT
*
38658 CATATAAATACACCGAAGTGCCA
1 CATAGAAATACACCGAAGTGCCA
* * * *
38681 CATAGAATTGCACCGTAGTGCCG
1 CATAGAAATACACCGAAGTGCCA
* *
38704 CGTAGAATTACAC
1 CATAGAAATACAC
38717 TGTAGTTCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (23 bp):
CATAGAAATACACCGAAGTGCCA
Found at i:38721 original size:23 final size:23
Alignment explanation
Indices: 38666--38722 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
38656 CTCATATAAA
*
38666 TACACCGAAGTGCCACATAGAAT
1 TACACCGTAGTGCCACATAGAAT
* * *
38689 TGCACCGTAGTGCCGCGTAGAAT
1 TACACCGTAGTGCCACATAGAAT
*
38712 TACACTGTAGT
1 TACACCGTAGT
38723 TCCATATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
TACACCGTAGTGCCACATAGAAT
Found at i:38869 original size:103 final size:103
Alignment explanation
Indices: 38742--38959 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
38732 TAATGTCCAT
*
38742 AAGGACCACATATCATTCCATAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCATAAGAATCAAATACATATACTAGGGATCAAGTATGTGTCTCACCA
38807 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
38845 AAGGACCACATATCATTCCTTAAGAATCAAATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCATAAGAATCAAATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
38910 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
38948 AAGGACCACATA
1 AAGGACCACATA
38960 GACCCTTGAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCATAAGAATCAAATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:40597 original size:21 final size:23
Alignment explanation
Indices: 40553--40599 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
40543 CCAGAAATCA
*
40553 CATTTTGAGCTCGAAAATCACTT
1 CATTTTCAGCTCGAAAATCACTT
*
40576 CATTTTCAGCTC-ACAA-CACTT
1 CATTTTCAGCTCGAAAATCACTT
40597 CAT
1 CAT
40600 ACTTCACTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 11 0.50
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (23 bp):
CATTTTCAGCTCGAAAATCACTT
Found at i:49109 original size:24 final size:24
Alignment explanation
Indices: 49080--49125 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
49070 TCTCCACCTA
**
49080 AATAAAAAATTTGTTAATAATTTT
1 AATAAAAAAACTGTTAATAATTTT
49104 AATAAAAAAACTGTTAATAATT
1 AATAAAAAAACTGTTAATAATT
49126 CACAAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (24 bp):
AATAAAAAAACTGTTAATAATTTT
Found at i:53171 original size:22 final size:23
Alignment explanation
Indices: 53143--53199 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
53133 ATTTTTTAAC
53143 ATAATGAAAATA-TC-CTAAATAA
1 ATAATGAAAATATTCAC-AAATAA
53165 ATAATGAAAAGTATTCACAAATAA
1 ATAATGAAAA-TATTCACAAATAA
*
53189 TTAAT-AAAATA
1 ATAATGAAAATA
53200 GTTAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 12 0.39
23 6 0.19
24 12 0.39
25 1 0.03
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (23 bp):
ATAATGAAAATATTCACAAATAA
Found at i:58508 original size:64 final size:65
Alignment explanation
Indices: 58440--58564 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 65
58430 TACACTAGGG
* * * * * * *
58440 GTGCATCGGTACACTAATTATATTCGATGTTTTAAAAT-GCCAGGAGTGCATCGATGCATGGTCT
1 GTGCATCAGTACACAAAATACATTCGATGTGTCAAAATAGCCAAGAGTGCATCGATGCATGGTCT
* **
58504 GTGCATCAGTACACAAAATGCATTCGATGTGTCAAAATATTCAAGAGTGCATCGATGCATG
1 GTGCATCAGTACACAAAATACATTCGATGTGTCAAAATAGCCAAGAGTGCATCGATGCATG
58565 ACTAGTGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
64 31 0.62
65 19 0.38
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (65 bp):
GTGCATCAGTACACAAAATACATTCGATGTGTCAAAATAGCCAAGAGTGCATCGATGCATGGTCT
Found at i:58573 original size:19 final size:19
Alignment explanation
Indices: 58549--58595 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
58539 AATATTCAAG
58549 AGTGCATCGATGCAT-GACT
1 AGTGCATCGATGCATAG-CT
58568 AGTGCATCGATGCATAGCT
1 AGTGCATCGATGCATAGCT
*
58587 TGTGCATCG
1 AGTGCATCG
58596 GTACACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (19 bp):
AGTGCATCGATGCATAGCT
Found at i:61874 original size:14 final size:15
Alignment explanation
Indices: 61852--61880 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61842 TTTATATATA
61852 TTATCTTATTTATTT
1 TTATCTTATTTATTT
61867 TTAT-TTATTTATTT
1 TTATCTTATTTATTT
61881 AAATTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATCTTATTTATTT
Found at i:62702 original size:13 final size:14
Alignment explanation
Indices: 62686--62738 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
62676 GTGTCATTTA
62686 TTTATTTATC-TAT
1 TTTATTTATCATAT
*
62699 TTTATTTGTCATAT
1 TTTATTTATCATAT
* *
62713 TATATTTGATAATAT
1 TTTATTT-ATCATAT
*
62728 TATATTTATCA
1 TTTATTTATCA
62739 GAGAGCGGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 9 0.27
14 12 0.36
15 12 0.36
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (14 bp):
TTTATTTATCATAT
Found at i:62729 original size:15 final size:14
Alignment explanation
Indices: 62696--62734 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
62686 TTTATTTATC
* *
62696 TATTTTATTTGTCA
1 TATTATATTTGTAA
62710 TATTATATTTGATAA
1 TATTATATTTG-TAA
62725 TATTATATTT
1 TATTATATTT
62735 ATCAGAGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATATTTGTAA
Found at i:75280 original size:22 final size:23
Alignment explanation
Indices: 75249--75315 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
75239 CATTTTTGGT
75249 ACAGAGGGAATCGATACCCCCTTG
1 ACAG-GGGAATCGATACCCCCTTG
* * *
75273 A-AGGGGAACCGATTCCCCC--C
1 ACAGGGGAATCGATACCCCCTTG
75293 ACAGGGGAATCGATA-CCCCTTG
1 ACAGGGGAATCGATACCCCCTTG
75315 A
1 A
75316 GGGTTCTGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
20 5 0.15
21 11 0.32
22 15 0.44
23 2 0.06
24 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.25, T:0.15
Consensus pattern (23 bp):
ACAGGGGAATCGATACCCCCTTG
Found at i:76902 original size:18 final size:19
Alignment explanation
Indices: 76876--76923 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
76866 GACGACTCCG
* *
76876 ACGATGAACCAGAAC-AGC
1 ACGAGGAACAAGAACGAGC
*
76894 ACGAGGAACAAGCACGAGC
1 ACGAGGAACAAGAACGAGC
76913 A-GAGGAACAAG
1 ACGAGGAACAAG
76924 CACATCCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.46, C:0.23, G:0.29, T:0.02
Consensus pattern (19 bp):
ACGAGGAACAAGAACGAGC
Found at i:76924 original size:18 final size:19
Alignment explanation
Indices: 76891--76926 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
76881 GAACCAGAAC
76891 AGCACGAGGAACAAGCACG
1 AGCACGAGGAACAAGCACG
76910 AGCA-GAGGAACAAGCAC
1 AGCACGAGGAACAAGCAC
76927 ATCCAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.44, C:0.25, G:0.31, T:0.00
Consensus pattern (19 bp):
AGCACGAGGAACAAGCACG
Found at i:77613 original size:16 final size:16
Alignment explanation
Indices: 77592--77623 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
77582 AGGGGGAGTA
77592 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
77608 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
77624 CAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTCAAACTTGATTT
Found at i:78811 original size:23 final size:23
Alignment explanation
Indices: 78772--78815 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
78762 ATAGGAAAAC
78772 ATTTTAATATTTAAAAAAATAAA
1 ATTTTAATATTTAAAAAAATAAA
*
78795 ATTTTAA-ATTATTAAAAAATA
1 ATTTTAATATT-TAAAAAAATA
78816 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTTAATATTTAAAAAAATAAA
Done.