Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000371.1 Hibiscus syriacus cultivar Beakdansim tig00000673_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: 55215
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:2578 original size:15 final size:15
Alignment explanation
Indices: 2555--2588 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2545 CTAGCAGAAA
*
2555 AAGATGCACATCAGG
1 AAGACGCACATCAGG
2570 AAGACGCACATCAGG
1 AAGACGCACATCAGG
2585 AAGA
1 AAGA
2589 ACAAGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.09
Consensus pattern (15 bp):
AAGACGCACATCAGG
Found at i:6454 original size:2 final size:2
Alignment explanation
Indices: 6447--6501 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
6437 CCCATTTCGC
6447 TA TA TA TA TA TA T- 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 TA TA TA TA TA TA
6488 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
6502 GCAAACTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8444 original size:76 final size:75
Alignment explanation
Indices: 8353--8517 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 75
8343 TTAAACTCAA
*
8353 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAAT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAAT
8417 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * * *
8429 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAATAT
*
8494 TTTAATTAGG
66 TTTAATTAAG
*
8504 ATTTAGAATATTAT
1 ATTTAGGATATTAT
8518 ATTATTTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 36 0.46
76 43 0.54
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAATAT
TTTAATTAAG
Found at i:8503 original size:19 final size:19
Alignment explanation
Indices: 8475--8537 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
8465 TGTATTTTAG
*
8475 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
8494 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
8513 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
8534 TTTA
1 TTTA
8538 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:9055 original size:16 final size:16
Alignment explanation
Indices: 9034--9067 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9024 TTAATCTCTT
9034 TTATTTGTTTATTTAA
1 TTATTTGTTTATTTAA
*
9050 TTATTTTTTTATTTAA
1 TTATTTGTTTATTTAA
9066 TT
1 TT
9068 CTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTGTTTATTTAA
Found at i:9075 original size:16 final size:16
Alignment explanation
Indices: 9041--9075 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9031 CTTTTATTTG
*
9041 TTTATTTAATTATTTT
1 TTTATTTAATTATTAT
*
9057 TTTATTTAATTCTTAT
1 TTTATTTAATTATTAT
9073 TTT
1 TTT
9076 TTATTTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTAATTATTAT
Found at i:9084 original size:19 final size:17
Alignment explanation
Indices: 9032--9081 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
9022 TCTTAATCTC
9032 TTTTATTTGTTTATTTAA
1 TTTTATTT-TTTATTTAA
*
9050 TTAT-TTTTTTATTTAA
1 TTTTATTTTTTATTTAA
9066 TTCTTATTTTTTATTT
1 TT-TTATTTTTTATTT
9082 TAACCATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTTATTTAA
Found at i:16060 original size:69 final size:67
Alignment explanation
Indices: 15914--16145 Score: 191
Period size: 69 Copynumber: 3.4 Consensus size: 67
15904 GAGCCTTGAT
* * * * * * ** *
15914 GGATTAGAGTGACTCGCAAGGGAGCACCTAATCGTGATTA-TTCTTGGTTACTCACACGAAAGCC
1 GGATTAGAGTGACT--CAAAGGAGAACCTAATCATAATTACTTC-GGGTGACTTGCACGAGAGCC
*
15978 CCTAA
63 CCGAA
* * * *
15983 AGAATAGAGTGACTCATACAGGAGAACCTAATCATAATTATTTCGGGTGACTTGCAC-AGGATCC
1 GGATTAGAGTGACTCA-A-AGGAGAACCTAATCATAATTACTTCGGGTGACTTGCACGA-GAGCC
16047 CCGAA
63 CCGAA
* * * * *
16052 GGATTAGAGTAACTTGCAAGGGAGCACCTAATCATAATTACTTCGGTTGACTTGCACGAGAGCTC
1 GGATTAGAGTGAC-T-CAAAGGAGAACCTAATCATAATTACTTCGGGTGACTTGCACGAGAGCCC
16117 CGAA
64 CGAA
16121 GGATTAGAGTGACTCACAAGG-GAAC
1 GGATTAGAGTGACTCA-AAGGAGAAC
16146 ATATTATCGT
Statistics
Matches: 130, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
67 7 0.05
68 6 0.05
69 109 0.84
70 6 0.05
71 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (67 bp):
GGATTAGAGTGACTCAAAGGAGAACCTAATCATAATTACTTCGGGTGACTTGCACGAGAGCCCCG
AA
Found at i:17214 original size:76 final size:76
Alignment explanation
Indices: 17081--17559 Score: 593
Period size: 76 Copynumber: 6.3 Consensus size: 76
17071 CAATATACTA
* * * * *
17081 GTGTAAGTCAATGTTCAGTTTCACTCCTTGACTTATGTGAAAAGTTTAGTGCTAGAATTACGTAT
1 GTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
17146 TCATTTCACTG
66 TCATTTCACTG
* * * * * *
17157 GTTTAAGTCAATGTTAAGTTTCACTACTGGAATTAGGTGATAAATTTAATGATAGAATTATGTAT
1 GTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
17222 TCATTTCGA-TG
66 TCATTTC-ACTG
* * *
17233 GTGTAAGTCAATGTTAAGTTTCACTGCAGGAATTATGTGATAAGTTTAGTGCTGGAATTACGTAT
1 GTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
* *
17298 TCATTTCTCTT
66 TCATTTCACTG
* * * *** *
17309 GTATAAGTTAATGTTAAGTTTCATTACTGGAATTATGTGATAAGTTTAGCATTGGAATTACGTAT
1 GTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
*
17374 TCATTTTACTG
66 TCATTTCACTG
* * * * *
17385 GTGTAAGTCAATGTTAAATTTCACTGCTGAAATGATGTGATAAGTTTAGTGCTTGAATTACGTAT
1 GTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
17450 TCATTTCACTG
66 TCATTTCACTG
* * * * *
17461 GTGTAAGTCAATGATAAATTTCACT-GTGGGAATTATGTGATAAGTTTAGTGCTATAATTACATA
1 GTGTAAGTCAATGTTAAGTTTCACTACT-GGAATTATGTGATAAGTTTAGTGCTAGAATTACGTA
17525 TTCATTTCACTG
65 TTCATTTCACTG
* * *
17537 ATGTAAGTCAATATTAAGCTTCA
1 GTGTAAGTCAATGTTAAGTTTCA
17560 AAGTTTAGTG
Statistics
Matches: 343, Mismatches: 57, Indels: 6
0.84 0.14 0.01
Matches are distributed among these distances:
75 1 0.00
76 341 0.99
77 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (76 bp):
GTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
TCATTTCACTG
Found at i:17600 original size:134 final size:134
Alignment explanation
Indices: 17426--17687 Score: 364
Period size: 134 Copynumber: 2.0 Consensus size: 134
17416 ATGATGTGAT
*
17426 AAGTTTAGTGCTTGAATTACGTATTCATTTCACTGGTGTAAGTCAATGATAAATTTCACTGTGGG
1 AAGTTTAGTGCTTGAATTACGTATTCATTTCACTGATGTAAGTCAATGATAAATTTCACTGTGGG
* *
17491 AATTATGTGATAAGTTTAGTGCTATAATTACATATTCATTTCACTGATGTAAGTCAATATTAAGC
66 AATTATGTGATAAGTTTAGTGCTAGAATTACATACTCATTTCACTGATGTAAGTCAATATTAAGC
17556 TTCA
131 TTCA
* * * ** *
17560 AAGTTTAGTG-TTGGAGTTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCGTTGTTG
1 AAGTTTAGTGCTT-GAATTACGTATTCATTTCACTGATGTAAGTCAATGATAAATTTCACTGTGG
* * * * * * *
17624 GAATTGTGTGATAAGTTTAGTGTTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAA
65 GAATTATGTGATAAGTTTAGTGCTAGAATTACATACTCATTTCACTGATGTAAGTCAATATTAA
17688 ATTTCATTAC
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 2 0.02
134 109 0.98
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (134 bp):
AAGTTTAGTGCTTGAATTACGTATTCATTTCACTGATGTAAGTCAATGATAAATTTCACTGTGGG
AATTATGTGATAAGTTTAGTGCTAGAATTACATACTCATTTCACTGATGTAAGTCAATATTAAGC
TTCA
Found at i:17686 original size:76 final size:76
Alignment explanation
Indices: 17560--17819 Score: 396
Period size: 76 Copynumber: 3.4 Consensus size: 76
17550 TTAAGCTTCA
* * *
17560 AAGTTTAGTGTTGGAGTTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCGTTGTTGG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCGTTGTTGG
*
17625 AATTGTGTGAT
66 AATTATGTGAT
* * * * * **
17636 AAGTTTAGTGTTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAAATTTCATTACTGG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCGTTGTTGG
17701 AATTATGTGAT
66 AATTATGTGAT
*
17712 AAGTTTAGTGCTGGAATTCCGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCAG-TGTTG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTC-GTTGTTG
17776 GAATTATGTGAT
65 GAATTATGTGAT
17788 AAGTTTAGTGCTGGAATTACGTATTCATTTCA
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCA
17820 TGATTATTCT
Statistics
Matches: 165, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
76 165 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (76 bp):
AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCGTTGTTGG
AATTATGTGAT
Found at i:17712 original size:210 final size:210
Alignment explanation
Indices: 17350--17769 Score: 594
Period size: 210 Copynumber: 2.0 Consensus size: 210
17340 ATTATGTGAT
* *
17350 AAGTTTAGCATTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAATTTCACTGCTGA
1 AAGTTTAGCATTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAATTTCACTGCTGA
*
17415 AATGATGTGATAAGTTTAGTGCTTGAATTACGTATTCATTTCACTGGTGTAAGTCAATGATAAAT
66 AATGATGTGATAAGTTTAGTGCTTGAATTACGTACTCATTTCACTGGTGTAAGTCAATGATAAAT
* *
17480 TTCACTGTGGGAATTATGTGATAAGTTTAGTGCTATAATTACATATTCATTTCACTGATGTAAGT
131 TTCACTCTGGGAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCACTGATGTAAGT
17545 CAATATTAAGCTTCA
196 CAATATTAAGCTTCA
** * * ** *
17560 AAGTTTAGTGTTGGAGTTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCGTTGTTGG
1 AAGTTTAGCATTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAATTTCACTGCT-G
* * *
17625 AATTG-TGTGATAAGTTTAGTG-TTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAA
65 AAATGATGTGATAAGTTTAGTGCTT-GAATTACGTACTCATTTCACTGGTGTAAGTCAATGATAA
* * * * *
17688 ATTTCATTACT-GGAATTATGTGATAAGTTTAGTGCTGGAATTCCGTATTCATTTCACTGGTGTA
129 ATTTCACT-CTGGGAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCACTGATGTA
* *
17752 AGTCAATGTTAAGTTTCA
193 AGTCAATATTAAGCTTCA
17770 GTGTTGGAAT
Statistics
Matches: 185, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
209 2 0.01
210 177 0.96
211 6 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (210 bp):
AAGTTTAGCATTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAATTTCACTGCTGA
AATGATGTGATAAGTTTAGTGCTTGAATTACGTACTCATTTCACTGGTGTAAGTCAATGATAAAT
TTCACTCTGGGAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCACTGATGTAAGT
CAATATTAAGCTTCA
Found at i:17725 original size:25 final size:25
Alignment explanation
Indices: 17697--17811 Score: 76
Period size: 25 Copynumber: 4.6 Consensus size: 25
17687 AATTTCATTA
17697 CTGGAATTATGTGATAAGTTT-AGTG
1 CTGGAATTATGT-ATAAGTTTCAGTG
** * *
17722 CTGGAATTCCGTATTCA-TTTCACTG
1 CTGGAATTATGTA-TAAGTTTCAGTG
* * *
17747 GTGTAAGTCAATGT-TAAGTTTCAGTG
1 CTGGAA-T-TATGTATAAGTTTCAGTG
*
17773 TTGGAATTATGTGATAAGTTT-AGTG
1 CTGGAATTATGT-ATAAGTTTCAGTG
*
17798 CTGGAATTACGTAT
1 CTGGAATTATGTAT
17812 TCATTTCATG
Statistics
Matches: 67, Mismatches: 16, Indels: 15
0.68 0.16 0.15
Matches are distributed among these distances:
24 10 0.15
25 36 0.54
26 19 0.28
27 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (25 bp):
CTGGAATTATGTATAAGTTTCAGTG
Found at i:17786 original size:286 final size:285
Alignment explanation
Indices: 17274--17823 Score: 850
Period size: 286 Copynumber: 1.9 Consensus size: 285
17264 ATTATGTGAT
* *
17274 AAGTTTAGTGCTGGAATTACGTATTCATTTCTCTTGTATAAGTTAATGTTAAGTTTCATTACTGG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTTGTATAAGTCAATGTTAAGTTTCATTACTGG
*
17339 AATTATGTGATAAGTTTAGCATTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAAT
66 AATTATGTGATAAGTTTAGCATTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAAAT
* *
17404 TTCACTGCTGAAATGATGTGATAAGTTTAGTGCTTGAATTACGTATTCATTTCACTGGTGTAAGT
131 TTCACTACTGAAATGATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGT
*
17469 CAATGATAAATTTCACTGTGGGAATTATGTGATAAGTTTAGTGCTATAATTACATATTCATTTCA
196 CAATGATAAATTTCACTGTGGGAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCA
17534 CTGATGTAAGTCAATATTAAGCTTCA
261 -TGATGTAAGTCAATATTAAGCTTCA
* * * * **
17560 AAGTTTAGTGTTGGAGTTACGTATTCATTTCAC-TGATGTAAGTCAATGTTAAGTTTCGTTGTTG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTTG-TATAAGTCAATGTTAAGTTTCATTACTG
* **
17624 GAATTGTGTGATAAGTTTAGTGTTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAAA
65 GAATTATGTGATAAGTTTAGCATTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAAA
* * * *
17689 TTTCATTACTGGAATTATGTGATAAGTTTAGTGCTGGAATTCCGTATTCATTTCACTGGTGTAAG
130 TTTCACTACTGAAATGATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAG
* * * * * *
17754 TCAATGTTAAGTTTCAGTGTTGGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTC
195 TCAATGATAAATTTCACTGTGGGAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTC
17819 ATGAT
260 ATGAT
17824 TATTCTTGGT
Statistics
Matches: 238, Mismatches: 25, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
285 6 0.03
286 232 0.97
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (285 bp):
AAGTTTAGTGCTGGAATTACGTATTCATTTCACTTGTATAAGTCAATGTTAAGTTTCATTACTGG
AATTATGTGATAAGTTTAGCATTGGAATTACGTACTCATTTTACTGGTGTAAGTCAATGTTAAAT
TTCACTACTGAAATGATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGT
CAATGATAAATTTCACTGTGGGAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCA
TGATGTAAGTCAATATTAAGCTTCA
Found at i:20686 original size:26 final size:26
Alignment explanation
Indices: 20620--20689 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
20610 TCATTATTCC
* *
20620 TATCTCTTTTATTTATTTTTAATCTT
1 TATCTTTTTTATTTCTTTTTAATCTT
20646 TATCTTTTTTATTTCTTTTTAATCTT
1 TATCTTTTTTATTTCTTTTTAATCTT
20672 TATCTTTTTTATTTCTTT
1 TATCTTTTTTATTTCTTT
20690 AAATAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (26 bp):
TATCTTTTTTATTTCTTTTTAATCTT
Found at i:34255 original size:20 final size:20
Alignment explanation
Indices: 34218--34256 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34208 AAAGCCTATG
* *
34218 TAGGATCATATCGATGCATT
1 TAGGAGCATATAGATGCATT
*
34238 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
34257 GTGGTGGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:45951 original size:20 final size:20
Alignment explanation
Indices: 45922--45960 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45912 TTACCACAAC
*
45922 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
45942 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
45961 TATGAGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Done.