Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008673.1 Hibiscus syriacus cultivar Beakdansim tig00111686_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: 15709
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Found at i:1481 original size:22 final size:22
Alignment explanation
Indices: 1440--1481 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1430 TTATATATTT
* *
1440 AATTTTTAATTCTTTCTTTTCA
1 AATTTTTAATTATTTATTTTCA
*
1462 AATTTTTATTTATTTATTTT
1 AATTTTTAATTATTTATTTT
1482 TTTATAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (22 bp):
AATTTTTAATTATTTATTTTCA
Found at i:11948 original size:1 final size:1
Alignment explanation
Indices: 11942--12017 Score: 62
Period size: 1 Copynumber: 76.0 Consensus size: 1
11932 ATTATGCTTG
* * * * * ** * *
11942 AAAAAAAAAAAAAAAGAAAGAAAAAAGAAAAAGAAAGAAAAAAAAAAGGAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
12007 AGAAAAAAAAA
1 AAAAAAAAAAA
12018 GGGGTTAAGG
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:11983 original size:28 final size:27
Alignment explanation
Indices: 11941--12018 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 27
11931 TATTATGCTT
*
11941 GAAAAA-AAAAAAAAAAGAAAGAAAAAA
1 GAAAAAGAAAGAAAAAA-AAAGAAAAAA
*
11968 GAAAAAGAAAGAAAAAAAAAAGGAAAAA
1 GAAAAAGAAAG-AAAAAAAAAGAAAAAA
11996 GAAAAAGAAAAAGAAAAAAAAAG
1 GAAAAAG--AAAGAAAAAAAAAG
12019 GGGTTAAGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.13
28 19 0.42
29 16 0.36
30 4 0.09
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (27 bp):
GAAAAAGAAAGAAAAAAAAAGAAAAAA
Found at i:11983 original size:34 final size:32
Alignment explanation
Indices: 11944--12017 Score: 114
Period size: 34 Copynumber: 2.3 Consensus size: 32
11934 TATGCTTGAA
*
11944 AAAAAAAAAAAAAGAAAGA-AAAAAGAAAAAG
1 AAAAAAAAAAAAAGAAAAAGAAAAAGAAAAAG
11975 AAAGAAAAAAAAAAGGAAAAAGAAAAAGAAAAAG
1 AAA-AAAAAAAAAA-GAAAAAGAAAAAGAAAAAG
12009 AAAAAAAAA
1 AAAAAAAAA
12018 GGGGTTAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 3 0.08
32 10 0.26
33 11 0.28
34 15 0.38
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAAAAGAAAAAGAAAAAGAAAAAG
Found at i:12383 original size:18 final size:17
Alignment explanation
Indices: 12345--12389 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
12335 CTATTTCAAG
*
12345 TTCAATTTA-TTTGAGA
1 TTCAATTTATTTTGAAA
12361 TTCAATTTATTTTGGAAA
1 TTCAATTTATTTT-GAAA
12379 TTCAATTTATT
1 TTCAATTTATT
12390 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
17 3 0.12
18 14 0.54
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (17 bp):
TTCAATTTATTTTGAAA
Found at i:13071 original size:49 final size:50
Alignment explanation
Indices: 12997--13296 Score: 477
Period size: 49 Copynumber: 6.0 Consensus size: 50
12987 GCATCAGAAC
12997 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
13047 ATAGCATCTTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCATAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CA-GA
13097 CATAGCATC-T-TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 -ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG-A
*
13147 CATAGCATCTTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
1 -ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
13197 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT-GACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
13246 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
13296 A
1 A
13297 CCATAGTGAT
Statistics
Matches: 234, Mismatches: 6, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
48 2 0.01
49 93 0.40
50 92 0.39
51 46 0.20
52 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (50 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
Found at i:13173 original size:101 final size:100
Alignment explanation
Indices: 12989--13290 Score: 497
Period size: 101 Copynumber: 3.0 Consensus size: 100
12979 ATGGAAAAGC
12989 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATAGCAT
1 ATCA-AACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATAGCAT
13054 CTTCTGAAGTGTTCTTTGAGTTATCTGATCTGGTTG
65 CTTCTGAAGTGTTCTTTGAGTTATCTGATCTGGTTG
13090 ATCATAACATAGCATC-T-TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGC
1 ATCA-AACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG-A-ATAGC
13153 ATCTTCTGAAGTGTTCTTTGAGTTATCTGATCTGGTTAG
63 ATCTTCTGAAGTGTTCTTTGAGTTATCTGATCTGGTT-G
* *
13192 A-CAGA-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT-GACAGAATAGCATC
1 ATCAAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATAGCATC
13254 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTG
66 TTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTTG
13290 A
1 A
13291 ACAGAACCAT
Statistics
Matches: 192, Mismatches: 3, Indels: 15
0.91 0.01 0.07
Matches are distributed among these distances:
98 14 0.07
99 77 0.40
100 9 0.05
101 90 0.47
102 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (100 bp):
ATCAAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATAGCATC
TTCTGAAGTGTTCTTTGAGTTATCTGATCTGGTTG
Found at i:13263 original size:150 final size:151
Alignment explanation
Indices: 12991--13302 Score: 524
Period size: 150 Copynumber: 2.1 Consensus size: 151
12981 GGAAAAGCAT
*
12991 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATAGCATCT
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAATAGCATCT
*
13056 TCTGAAGTGTTCTTTGAGTTATCTGATCTGGTTGATCATAACATAGCATCTTGGAAGTGTTCTTT
66 TCTGAAGTGTTCTTTGAGTTATCTGATCTGATTGATCATAACATAGCATCTTGGAAGTGTTCTTT
*
13121 GAGTTATCTGATCTGGTTGGA
131 GAGTTATCTGATCTGGTTGAA
13142 CAGAACATAGCATCTTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAATAGCATCT
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAATAGCATCT
*
13206 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGA-CA-GA-ATAGCATCTTCTGGAAGTGTTC
66 TCT-GAAGTGTTCTTTGAGTTATCTGATCTGATTGATCATAACATAGCATC-T-TGGAAGTGTTC
13268 TTTGAGTTATCTGATCTGGTTGAA
128 TTTGAGTTATCTGATCTGGTTGAA
13292 CAGAACCATAG
1 CAGAA-CATAG
13303 TGATTTAGAA
Statistics
Matches: 153, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
148 8 0.05
149 2 0.01
150 89 0.58
151 54 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (151 bp):
CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAATAGCATCT
TCTGAAGTGTTCTTTGAGTTATCTGATCTGATTGATCATAACATAGCATCTTGGAAGTGTTCTTT
GAGTTATCTGATCTGGTTGAA
Found at i:13384 original size:50 final size:50
Alignment explanation
Indices: 13325--13553 Score: 340
Period size: 50 Copynumber: 4.6 Consensus size: 50
13315 TGAATTTGCC
13325 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
13375 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* *
13425 -A-AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTATCATA-A-
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-G-ATTAGACAG
* * *
13473 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
13523 AACATAGCATTTTCTGGAAGTGTTCTTTGAG
1 -A-ATAGCATCTTCTGGAAGTGTTCTTTGAG
13554 ATATATCTAT
Statistics
Matches: 163, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
48 39 0.24
49 6 0.04
50 91 0.56
52 27 0.17
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:13497 original size:98 final size:100
Alignment explanation
Indices: 13325--13553 Score: 340
Period size: 98 Copynumber: 2.3 Consensus size: 100
13315 TGAATTTGCC
*
13325 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATCAGACAGAATAGCATCTTCTGG
13390 AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
66 AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* *
13425 -A-AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTATCATA-A-CATAGCATCTTCT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-G-ATCAGACAGAATAGCATCTTCT
* *
13486 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
64 GGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
13523 AACATAGCATTTTCTGGAAGTGTTCTTTGAG
1 -A-ATAGCATCTTCTGGAAGTGTTCTTTGAG
13554 ATATATCTAT
Statistics
Matches: 117, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
98 84 0.72
99 3 0.03
100 4 0.03
101 1 0.01
102 25 0.21
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (100 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATCAGACAGAATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:13611 original size:277 final size:276
Alignment explanation
Indices: 13046--13643 Score: 817
Period size: 277 Copynumber: 2.2 Consensus size: 276
13036 GGTTGGACAG
*
13046 AATAGCATCTTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTTGATCATAACATAGCATCTTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGATCATAACATAGCATCTTGG
* *
13110 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGAAGTGTTCTTTGAG
66 AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG-A-ATAGCATCTTCTGAAGTGTTCTTTGAG
13175 TTATCTGATCTGGTTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT
129 TTATCTGATCTGGTTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT
*
13240 GACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCATAGTG
194 GACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAACA-AACCATA-TG
*
13305 ATTTAGAAAATGAATTTGCC
257 ATGTAGAAAATGAATTTGCC
*
13325 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA-CA-GA-ATAGCATCTTC
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT-GATCATAACATAGCATC-T-
13387 TGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG-A-AGCATCTTCTGGAAGTGTTCTTTG
63 TGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCT-GAAGTGTTCTTTG
* *
13450 AGTTATCTGATCTGGTATCATA-A-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
127 AGTTATCTGATCTGGT-T-AGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
13513 GGTTGGACAGAACATAGCATTTTCTGGAAGTGTTCTTTGAGATATATCT-AT-TGGATAGAATC-
190 GATT-GACAG-A-ATAGCATCTTCTGGAAGTGTTCTTTGAG-T-TATCTGATCTGG-TAGAA-CA
* * *
13575 AAGCAT-TGA-GTGGAAGATGAATTTGCC
248 AACCATATGATGTAGAAAATGAATTTGCC
* *
13602 AATAGCATCTTCTGGAAGCGTTCTTTGAGTTATTTGATCTGA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
13644 AGAAGTGCAT
Statistics
Matches: 290, Mismatches: 15, Indels: 30
0.87 0.04 0.09
Matches are distributed among these distances:
276 10 0.03
277 127 0.44
278 18 0.06
279 18 0.06
280 102 0.35
281 9 0.03
282 6 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (276 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGATCATAACATAGCATCTTGG
AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGA
CAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAACAAACCATATGATGT
AGAAAATGAATTTGCC
Found at i:14599 original size:114 final size:113
Alignment explanation
Indices: 14183--14849 Score: 1069
Period size: 114 Copynumber: 5.8 Consensus size: 113
14173 CAAAGATTTG
14183 AATTCATCAATTGATGGATCATTCATTTT-CAGAGGAA-GTTCATAATGAGAAGAACTCGTCATC
1 AATTCATCAATTGATGGATCATTC-TTTTCCAGA-GAAGGTTCATAATGAGAAGAA--C-TCATC
14246 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT-
61 TGAAGAAGGAAGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
*
14299 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCAATTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
* *
14364 AAGGAAG-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
*
14411 AATTCATCAAATTGATGGATCATT-GTTTCCAGAGAA-GTTCATAATGAGAAGAACTCGTCATCT
1 AATTCATC-AATTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCT
14474 GAAGAAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
62 GAAGAAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
* *
14526 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATGAA
1 AATTCATCAATTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATC-TGAA
14591 GAAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
65 GAAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
*
14640 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCAATTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
* *
14705 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AAGGAAGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
*
14754 AATTCATCAAATTGATGGATCATT-GTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
1 AATTCATC-AATTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
14818 GAAGGAAGAAAAAGTTCATAATGAGAAGAACT
65 GAAGGAAG-AAAAGTTCATAATGAGAAGAACT
14850 CATCAAGAGC
Statistics
Matches: 523, Mismatches: 14, Indels: 30
0.92 0.02 0.05
Matches are distributed among these distances:
111 54 0.10
112 20 0.04
113 50 0.10
114 258 0.49
115 80 0.15
116 61 0.12
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (113 bp):
AATTCATCAATTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTA
Found at i:15099 original size:3 final size:3
Alignment explanation
Indices: 15091--15202 Score: 147
Period size: 3 Copynumber: 36.7 Consensus size: 3
15081 TTTTTATCCA
* *
15091 TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
*
15137 CAT TAT TA- TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15181 TAT TATT TAT TATT TAT TAT TA
1 TAT TA-T TAT TA-T TAT TAT TA
15203 ATATATTAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 12
0.84 0.05 0.10
Matches are distributed among these distances:
2 4 0.04
3 82 0.85
4 11 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:15200 original size:43 final size:43
Alignment explanation
Indices: 15094--15210 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
15084 TTATCCATAT
*
15094 TATTATTA-TTATTA-TTATTAATATTATTATTATCATTATTA
1 TATTATTATTTATTATTTATTATTATTATTATTATCATTATTA
* *
15135 -ATCATTATTATATTATTTATTATTATTATTATTATTATTATTA
1 TATTATTATT-TATTATTTATTATTATTATTATTATCATTATTA
*
15178 TATTATTATTTATTATTTATTATTAATA-TATTA
1 TATTATTATTTATTATTTATTATTATTATTATTA
15211 AATACATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
40 6 0.09
41 1 0.01
42 10 0.15
43 42 0.63
44 8 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (43 bp):
TATTATTATTTATTATTTATTATTATTATTATTATCATTATTA
Done.