Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000496.1 Hibiscus syriacus cultivar Beakdansim tig00000943_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: 71291
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Found at i:991 original size:17 final size:16
Alignment explanation
Indices: 958--994 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
948 TTATGTATGA
958 ATATATTTTACATATT
1 ATATATTTTACATATT
*
974 ATATATTTATATATATT
1 ATATATTT-TACATATT
991 ATAT
1 ATAT
995 TAAGTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATATTTTACATATT
Found at i:2788 original size:28 final size:28
Alignment explanation
Indices: 2748--2804 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2738 CAATAATAAT
2748 ACGCTTAAGACTAACATGTTATTGATTG
1 ACGCTTAAGACTAACATGTTATTGATTG
2776 ACGCTTAAGACTAACATGTTATTGATTG
1 ACGCTTAAGACTAACATGTTATTGATTG
2804 A
1 A
2805 TGACAATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (28 bp):
ACGCTTAAGACTAACATGTTATTGATTG
Found at i:25222 original size:34 final size:33
Alignment explanation
Indices: 25184--25274 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 33
25174 TTTTTATCTC
*
25184 TCATTTTTATCTCTTTTTC-TTTTC-TTTCTCGTTT
1 TCATTTTT-T-TCTTTTTCGTTTTCATTT-TCATTT
25218 TCATTTTTTTCTTTTTCGTTTTCATTTTCATTT
1 TCATTTTTTTCTTTTTCGTTTTCATTTTCATTT
*
25251 TCTATTTTTTTCTTCTTCTGTTTT
1 TC-ATTTTTTTCTTTTTC-GTTTT
25275 TTTCTATATA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
32 8 0.16
33 13 0.25
34 25 0.49
35 5 0.10
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.73
Consensus pattern (33 bp):
TCATTTTTTTCTTTTTCGTTTTCATTTTCATTT
Found at i:25227 original size:27 final size:25
Alignment explanation
Indices: 25197--25251 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
25187 TTTTTATCTC
*
25197 TTTTTCTTTTCTTTCTCGTTTTCATT
1 TTTTTCTTTTCTTT-TCATTTTCATT
25223 TTTTTCTTTTTCGTTTTCATTTTCATT
1 TTTTTC-TTTTC-TTTTCATTTTCATT
25250 TT
1 TT
25252 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 17 0.65
28 3 0.12
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTCTTTTCTTTTCATTTTCATT
Found at i:25229 original size:21 final size:21
Alignment explanation
Indices: 25203--25245 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
25193 TCTCTTTTTC
25203 TTTTCTTTCTCGTTTTCATTT
1 TTTTCTTTCTCGTTTTCATTT
*
25224 TTTTCTTTTTCGTTTTCATTT
1 TTTTCTTTCTCGTTTTCATTT
25245 T
1 T
25246 CATTTTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTCTTTCTCGTTTTCATTT
Found at i:26377 original size:6 final size:6
Alignment explanation
Indices: 26366--26390 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26356 ACACTTGTAT
26366 CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC C
26391 CATAGGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:32188 original size:30 final size:30
Alignment explanation
Indices: 32147--32209 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
32137 TATCTCTCAT
* *
32147 TTTTTTCTCTTTTCTTTCTTTCTCGTTTTCA
1 TTTTTTCTCTTTTCTTTCGTT-TCATTTTCA
32178 TTTTTT-TCTTTTCTTTCGTTTCATTTTCA
1 TTTTTTCTCTTTTCTTTCGTTTCATTTTCA
32207 TTT
1 TTT
32210 CTATTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.37
30 13 0.43
31 6 0.20
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (30 bp):
TTTTTTCTCTTTTCTTTCGTTTCATTTTCA
Found at i:32226 original size:28 final size:29
Alignment explanation
Indices: 32154--32220 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
32144 CATTTTTTTC
* * * *
32154 TCTTTTCTTTCTTTCTCGTTTTCATTTTTT
1 TCTTTTCTTTCGTT-TCATTTTCATTTCTA
32184 TCTTTTCTTTCGTTTCATTTTCATTTCTA
1 TCTTTTCTTTCGTTTCATTTTCATTTCTA
32213 T-TTTTCTT
1 TCTTTTCTT
32221 CTGTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 7 0.21
29 13 0.39
30 13 0.39
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (29 bp):
TCTTTTCTTTCGTTTCATTTTCATTTCTA
Found at i:33299 original size:6 final size:6
Alignment explanation
Indices: 33288--33312 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33278 AACACTTGAT
33288 CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC C
33313 CATAGGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:34566 original size:161 final size:167
Alignment explanation
Indices: 34377--34700 Score: 606
Period size: 161 Copynumber: 2.0 Consensus size: 167
34367 TTATTTTCTT
34377 AAATAGTAAATGATATTATAAAATTATCATATCATAAAATTACGTTTCGTTGTACCCAATTTAAT
1 AAATAGTAAATGATATTATAAAATTATCATATCATAAAATTACGTTTCGTTGTACCCAATTTAAT
34442 TCAAAATA-TTTTATTTTAT-AA-AGTG-ATAGTA-CCGAATAGTGAACAGTGGGGGAATCGATT
66 TCAAAATATTTTTATTTTATAAATAGTGAATAGTACCCGAATAGTGAACAGTGGGGGAATCGATT
34502 CCCTATAGCAGGGGAATCGGTA-CCCAAATATACTTA
131 CCCTATAGCAGGGGAATCGGTACCCCAAATATACTTA
34538 AAATAGTAAATGATATTATAAAATTATCATATCATAAAATTACGTTTCGTTGTACCCAATTTAAT
1 AAATAGTAAATGATATTATAAAATTATCATATCATAAAATTACGTTTCGTTGTACCCAATTTAAT
34603 TCAAAATATTTTTATTTTATAAATAGTGAATAGTACCCGAATAGTGAACAGTGGGGGAATCGATT
66 TCAAAATATTTTTATTTTATAAATAGTGAATAGTACCCGAATAGTGAACAGTGGGGGAATCGATT
34668 CCCTATAGCAGGGGAATCGGTACCCCAAATATA
131 CCCTATAGCAGGGGAATCGGTACCCCAAATATA
34701 TTCTGGAAAA
Statistics
Matches: 157, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
161 73 0.46
162 11 0.07
163 2 0.01
164 4 0.03
165 6 0.04
166 51 0.32
167 10 0.06
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (167 bp):
AAATAGTAAATGATATTATAAAATTATCATATCATAAAATTACGTTTCGTTGTACCCAATTTAAT
TCAAAATATTTTTATTTTATAAATAGTGAATAGTACCCGAATAGTGAACAGTGGGGGAATCGATT
CCCTATAGCAGGGGAATCGGTACCCCAAATATACTTA
Found at i:35191 original size:48 final size:45
Alignment explanation
Indices: 35135--35250 Score: 133
Period size: 48 Copynumber: 2.5 Consensus size: 45
35125 ACCTTTTTTC
35135 CCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCA-TT--ATT
* ** * *
35183 CCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCATTATT
1 CCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCATTATT
**
35229 CTGTAAGCTCATAAGCTTATTT
1 CCATAAGCTCATAAGCTTATTT
35251 GTATGGTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 3 0.05
46 19 0.32
48 20 0.34
49 17 0.29
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (45 bp):
CCATAAGCTCATAAGCTTATTTTTACCAAAATACTTACCATTATT
Found at i:35248 original size:46 final size:48
Alignment explanation
Indices: 35135--35250 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 48
35125 ACCTTTTTTC
35135 CCATAAGCTCATAAGCTTA-TTTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTT-AATT
* ** * *
35183 CCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA-TT-ATT
1 CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTTAATT
**
35229 CTGTAAGCTCATAAGCTTATTT
1 CCATAAGCTCATAAGCTTATTT
35251 GTATGGTTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 22 0.37
48 20 0.34
49 17 0.29
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (48 bp):
CCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCATTTAATT
Found at i:35312 original size:21 final size:22
Alignment explanation
Indices: 35271--35324 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
35261 CATTTATTAA
*
35271 CCAATAAAACATAATCCATAG-
1 CCAATAAAACATAATCAATAGC
*
35292 CCAATAAACCATAGA-CAATAGC
1 CCAATAAAACATA-ATCAATAGC
*
35314 CCAATATAACA
1 CCAATAAAACA
35325 CCCTGAGGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.17
Consensus pattern (22 bp):
CCAATAAAACATAATCAATAGC
Found at i:39151 original size:34 final size:34
Alignment explanation
Indices: 39109--39190 Score: 107
Period size: 33 Copynumber: 2.4 Consensus size: 34
39099 TTTTTATCTC
*
39109 TCATTTTTTTCTCTTTTTC-TTTTC-TTTCTCGTTT
1 TCATTTTTTT-TCTTTTTCGTTTTCATTT-TCATTT
39143 TCA-TTTTTTTCTTTTTCGTTTTCATTTTCATTT
1 TCATTTTTTTTCTTTTTCGTTTTCATTTTCATTT
39176 TCTATTTTTTTTCTT
1 TC-ATTTTTTTTCTT
39191 CATGACTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
32 8 0.19
33 18 0.42
34 7 0.16
35 10 0.23
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.74
Consensus pattern (34 bp):
TCATTTTTTTTCTTTTTCGTTTTCATTTTCATTT
Found at i:39152 original size:27 final size:25
Alignment explanation
Indices: 39122--39176 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
39112 TTTTTTTCTC
*
39122 TTTTTCTTTTCTTTCTCGTTTTCATT
1 TTTTTCTTTTCTTT-TCATTTTCATT
39148 TTTTTCTTTTTCGTTTTCATTTTCATT
1 TTTTTC-TTTTC-TTTTCATTTTCATT
39175 TT
1 TT
39177 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 17 0.65
28 3 0.12
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTCTTTTCTTTTCATTTTCATT
Found at i:39154 original size:21 final size:21
Alignment explanation
Indices: 39128--39170 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
39118 TCTCTTTTTC
39128 TTTTCTTTCTCGTTTTCATTT
1 TTTTCTTTCTCGTTTTCATTT
*
39149 TTTTCTTTTTCGTTTTCATTT
1 TTTTCTTTCTCGTTTTCATTT
39170 T
1 T
39171 CATTTTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTCTTTCTCGTTTTCATTT
Found at i:40250 original size:6 final size:6
Alignment explanation
Indices: 40239--40263 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
40229 ACACTTGTAT
40239 CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC C
40264 CATAGGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:48894 original size:26 final size:25
Alignment explanation
Indices: 48861--48977 Score: 98
Period size: 26 Copynumber: 4.7 Consensus size: 25
48851 ATATAAATAA
48861 TTTTAAAAAATATATATTATATAGT
1 TTTTAAAAAATATATATTATATAGT
* **
48886 TTTT-GAAAATATATAATATATATAAC
1 TTTTAAAAAATATAT-AT-TATATAGT
* *
48912 TTTT-GAAAACATAT-TT-TATAGT
1 TTTTAAAAAATATATATTATATAGT
*
48934 TTTTAAAAATATAACATATTATATAGT
1 TTTTAAAAA-AT-ATATATTATATAGT
* *
48961 TTTTAATATATATATAT
1 TTTTAAAAAATATATAT
48978 ATAGTATACA
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
22 8 0.11
23 4 0.05
24 11 0.15
25 14 0.19
26 23 0.32
27 13 0.18
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTTAAAAAATATATATTATATAGT
Found at i:48996 original size:3 final size:3
Alignment explanation
Indices: 48988--49015 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48978 ATAGTATACA
48988 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49016 TTCTTTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:51023 original size:61 final size:61
Alignment explanation
Indices: 50928--51101 Score: 244
Period size: 61 Copynumber: 2.9 Consensus size: 61
50918 TTCAGTTTAA
* *
50928 CACTATAGTGTATATAAAGGACACTTGGTGCATATGGTGGGCACAACCTTATGTGTATTAG
1 CACTATAGTGTATATAAAGAACACTTAGTGCATATGGTGGGCACAACCTTATGTGTATTAG
* * *
50989 CACTATAGTGTATACAGAGAACACTTAGTGCATATGGTGGG-AAAGACCTTATGTGTATTAG
1 CACTATAGTGTATATAAAGAACACTTAGTGCATATGGTGGGCACA-ACCTTATGTGTATTAG
* * *
51050 AAATATAGTGTATATAAAGGAA-ACTTAGTGCATATAGTGGGCACAACCTTAT
1 CACTATAGTGTATATAAA-GAACACTTAGTGCATATGGTGGGCACAACCTTAT
51102 TTATATTGGC
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
60 2 0.02
61 92 0.93
62 5 0.05
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (61 bp):
CACTATAGTGTATATAAAGAACACTTAGTGCATATGGTGGGCACAACCTTATGTGTATTAG
Found at i:56846 original size:10 final size:10
Alignment explanation
Indices: 56831--56861 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
56821 ATCTCCCAAC
56831 TTCAATTCCA
1 TTCAATTCCA
56841 TTCAATTCCA
1 TTCAATTCCA
*
56851 ATCAATTCCA
1 TTCAATTCCA
56861 T
1 T
56862 ACCAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
TTCAATTCCA
Found at i:57290 original size:29 final size:30
Alignment explanation
Indices: 57258--57317 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
57248 TGACCAAAAC
*
57258 ATAAATTTTG-AAAGTTTAGTGG-GTAAAGT
1 ATAAATTTAGAAAAGTTTA-TGGAGTAAAGT
57287 ATAAATTTAGAAAAAGTTTATGGAGTAAAGT
1 ATAAATTTAG-AAAAGTTTATGGAGTAAAGT
57318 GGTAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 9 0.33
30 3 0.11
31 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (30 bp):
ATAAATTTAGAAAAGTTTATGGAGTAAAGT
Found at i:59791 original size:91 final size:91
Alignment explanation
Indices: 59680--59862 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
59670 CATGATAGTT
59680 ATATATTTATTAAATAATGAATATGATGTGTATATGTTAAAAAGAAAAGTAATTGATGATAATCA
1 ATATATTTATTAAATAATGAATATGATGTGTATATGTTAAAAAGAAAAGTAATTGATGATAATCA
59745 TGACATATATATAAAGTGTCAAGCTG
66 TGACATATATATAAAGTGTCAAGCTG
*
59771 ATATATTTATTAAATGATGAATATGATGTGTATATGTTAAAAAGAAAAGTAATTGATGATAATCA
1 ATATATTTATTAAATAATGAATATGATGTGTATATGTTAAAAAGAAAAGTAATTGATGATAATCA
59836 TGACATATATATAAAGTGTCAAGCTG
66 TGACATATATATAAAGTGTCAAGCTG
59862 A
1 A
59863 GTGAAATGCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (91 bp):
ATATATTTATTAAATAATGAATATGATGTGTATATGTTAAAAAGAAAAGTAATTGATGATAATCA
TGACATATATATAAAGTGTCAAGCTG
Found at i:59847 original size:42 final size:42
Alignment explanation
Indices: 59710--59847 Score: 107
Period size: 42 Copynumber: 3.1 Consensus size: 42
59700 ATATGATGTG
59710 TATATGTTAAAAAGAAAAGTAATTGATGATAATCATGACATA
1 TATATGTTAAAAAGAAAAGTAATTGATGATAATCATGACATA
*** * * * * ** *
59752 TATATAAAGTGTCAAGCTGATATATTTATTAAATGATGAAT-ATGATGTG
1 TATAT---GT-T-AAAAAGA-AAAGTAATT-GATGAT-AATCATGACATA
59801 TATATGTTAAAAAGAAAAGTAATTGATGATAATCATGACATA
1 TATATGTTAAAAAGAAAAGTAATTGATGATAATCATGACATA
59843 TATAT
1 TATAT
59848 AAAGTGTCAA
Statistics
Matches: 67, Mismatches: 20, Indels: 18
0.64 0.19 0.17
Matches are distributed among these distances:
41 3 0.04
42 20 0.30
43 6 0.09
44 4 0.06
45 3 0.04
46 3 0.04
47 4 0.06
48 6 0.09
49 15 0.22
50 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (42 bp):
TATATGTTAAAAAGAAAAGTAATTGATGATAATCATGACATA
Found at i:60043 original size:22 final size:23
Alignment explanation
Indices: 60028--60072 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
60018 ATCATTGTTT
*
60028 TATATGATGTTTATCA-TGAATA
1 TATATAATGTTTATCATTGAATA
60050 TATATAATGTTTATCA-TGAATA
1 TATATAATGTTTATCATTGAATA
60072 T
1 T
60073 TATTTGGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (23 bp):
TATATAATGTTTATCATTGAATA
Found at i:68026 original size:21 final size:21
Alignment explanation
Indices: 67977--68035 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
67967 GAGGATTGGT
* *
67977 ATACCAAA-GATTGAGTATCC
1 ATACCAAAGGCTTGAGTATCA
67997 ATACCAAAGGCTTGA-TATCA
1 ATACCAAAGGCTTGAGTATCA
*
68017 ATACCTAAAGTGGTTGAGT
1 ATACC-AAAG-GCTTGAGT
68036 GAGTTCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 17 0.53
21 9 0.28
22 5 0.16
23 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (21 bp):
ATACCAAAGGCTTGAGTATCA
Done.