Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000672.1 Hibiscus syriacus cultivar Beakdansim tig00001306_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: 103416
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:10340 original size:17 final size:17
Alignment explanation
Indices: 10311--10343 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10301 TAACGATTTT
10311 ATAAATATGTTTTTTAC
1 ATAAATATGTTTTTTAC
10328 ATAACATAT-TTTTTTA
1 ATAA-ATATGTTTTTTA
10344 ATCCTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (17 bp):
ATAAATATGTTTTTTAC
Found at i:19138 original size:89 final size:86
Alignment explanation
Indices: 18972--19138 Score: 244
Period size: 86 Copynumber: 1.9 Consensus size: 86
18962 CCTCCTTGGC
* *
18972 ACCAAGTATTTTTCTTCTTGTAATAGAAGGGGGTTACTACTGTTTTCAGTATTTTTTTTAAAAAT
1 ACCAAGTATTTTTCTTCTTGTAATAGAAGAGAGTTACTACTGTTTTCAGTATTTTTTTTAAAAAT
*
19037 TTTACATGTGAGAAAAACTTG
66 TGTACATGTGAGAAAAACTTG
* * **
19058 ACCAAGTATTTTTCTTCTTTTAATAGAAGAGAGTTATTACTGTTTTCAGTATTAATTTTTTTTGA
1 ACCAAGTATTTTTCTTCTTGTAATAGAAGAGAGTTACTACTGTTTTCAGTA-T--TTTTTTTAAA
19123 AATTGTACATGTGAGA
63 AATTGTACATGTGAGA
19139 GATAATTTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
86 47 0.66
87 1 0.01
89 23 0.32
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (86 bp):
ACCAAGTATTTTTCTTCTTGTAATAGAAGAGAGTTACTACTGTTTTCAGTATTTTTTTTAAAAAT
TGTACATGTGAGAAAAACTTG
Found at i:27565 original size:2 final size:2
Alignment explanation
Indices: 27558--27587 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27548 TCCCCACCAT
*
27558 TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27588 CTGTGCTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:35899 original size:18 final size:18
Alignment explanation
Indices: 35876--35911 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35866 GGCTTCTTTT
*
35876 GAATTTTGAGTTTAAATA
1 GAATTTTGAATTTAAATA
35894 GAATTTTGAATTTAAATA
1 GAATTTTGAATTTAAATA
35912 CATATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (18 bp):
GAATTTTGAATTTAAATA
Found at i:44586 original size:13 final size:14
Alignment explanation
Indices: 44560--44588 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44550 CTTGTCTGTG
44560 TTTTCTCACATATA
1 TTTTCTCACATATA
44574 TTTTCTC-CATATA
1 TTTTCTCACATATA
44587 TT
1 TT
44589 ATTGCTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTCTCACATATA
Found at i:45366 original size:70 final size:70
Alignment explanation
Indices: 45253--45392 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
45243 GATGAGGAGG
45253 TTAAGCATGTAACAAATGTTGAAATGTCGAAGCAAGCAAATGGGGCGACATGGGGTGGCTGAATT
1 TTAAGCATGTAACAAATGTTGAAATGTCGAAGCAAGCAAATGGGGCGACATGGGGTGGCTGAATT
45318 TGGTC
66 TGGTC
45323 TTAAGCATGTAACAAATGTTGAAATGTCGAAGCAAGCAAATGGGGCGACATGGGGTGGCTGAATT
1 TTAAGCATGTAACAAATGTTGAAATGTCGAAGCAAGCAAATGGGGCGACATGGGGTGGCTGAATT
45388 TGGTC
66 TGGTC
45393 CATGTTGGCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (70 bp):
TTAAGCATGTAACAAATGTTGAAATGTCGAAGCAAGCAAATGGGGCGACATGGGGTGGCTGAATT
TGGTC
Found at i:50264 original size:34 final size:34
Alignment explanation
Indices: 50225--50304 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
50215 TTCTTGAGAG
50225 TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
50259 TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
50293 TTGTTTTCTCCT
1 TTGTTTTCTCCT
50305 TAGTAGATCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (34 bp):
TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
Found at i:50319 original size:36 final size:34
Alignment explanation
Indices: 50225--50319 Score: 127
Period size: 34 Copynumber: 2.7 Consensus size: 34
50215 TTCTTGAGAG
**
50225 TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTATAGATCAAGAGAGAATTATCA
**
50259 TTGTTTTCTCCTATTTATCAAGAGAGAATTATCA
1 TTGTTTTCTCCTATAGATCAAGAGAGAATTATCA
*
50293 TTGTTTTCTCCTTAGTAGATCGAGAGA
1 TTGTTTTCTCC-TA-TAGATCAAGAGA
50320 AGTTGTAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
34 45 0.80
35 2 0.04
36 9 0.16
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (34 bp):
TTGTTTTCTCCTATAGATCAAGAGAGAATTATCA
Found at i:54214 original size:8 final size:8
Alignment explanation
Indices: 54184--54213 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
54174 ACATTGGTGA
54184 TGTGTGCG
1 TGTGTGCG
54192 TGTGTGCG
1 TGTGTGCG
*
54200 TGTGTGTG
1 TGTGTGCG
54208 TGTGTG
1 TGTGTG
54214 TTGGGGGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.07, G:0.50, T:0.43
Consensus pattern (8 bp):
TGTGTGCG
Found at i:61208 original size:37 final size:40
Alignment explanation
Indices: 61153--61227 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
61143 AACAAAAACA
61153 TCAACAACAAAAGGAAACA-AATAA-CAAAAAAGAAAAATT
1 TCAACAACAAAAGGAAACACAA-AATCAAAAAAGAAAAATT
*
61192 TCAA-AAC-AAAGGAAACACAAAATCAACAAAGAAAAA
1 TCAACAACAAAAGGAAACACAAAATCAAAAAAGAAAAA
61228 GAAATATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 12 0.36
38 17 0.52
39 4 0.12
ACGTcount: A:0.69, C:0.15, G:0.08, T:0.08
Consensus pattern (40 bp):
TCAACAACAAAAGGAAACACAAAATCAAAAAAGAAAAATT
Found at i:64759 original size:23 final size:23
Alignment explanation
Indices: 64733--64777 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
64723 TTTCTCATCC
64733 CTATT-TAATATGATTTATTTTCA
1 CTATTATAATAT-ATTTATTTTCA
*
64756 CTATTGATGATATATTTATTTT
1 CTATT-ATAATATATTTATTTT
64778 TATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 9 0.47
25 5 0.26
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (23 bp):
CTATTATAATATATTTATTTTCA
Found at i:66290 original size:23 final size:22
Alignment explanation
Indices: 66260--66304 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
66250 ACACAAATCA
*
66260 CATAAAAA-TCATGTCATAAAAG
1 CATAAAAAGT-ATGCCATAAAAG
66282 CATAGAAAAGTATGCCATAAAAG
1 CATA-AAAAGTATGCCATAAAAG
66305 AAATGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 15 0.75
24 1 0.05
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (22 bp):
CATAAAAAGTATGCCATAAAAG
Found at i:71383 original size:43 final size:44
Alignment explanation
Indices: 71305--71413 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 44
71295 AAACATATGT
* * *
71305 TACCGAAAATATTAATATTTTTTTTAATATTATTAATA-AAG-TGA
1 TACCTAAAATATT-AT-TTTTTTTTAAAAATATTAATATAAGATGA
* * *
71349 TACTTAAAATATTATTTTTTTATTAAAAATATTAATATTAGATGC
1 TACCTAAAATATTATTTTTTT-TTAAAAATATTAATATAAGATGA
71394 TACCTAAAATATTATTTTTT
1 TACCTAAAATATTATTTTTT
71414 CTACAAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 6 0.11
43 15 0.27
44 13 0.24
45 21 0.38
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (44 bp):
TACCTAAAATATTATTTTTTTTTAAAAATATTAATATAAGATGA
Found at i:71450 original size:47 final size:45
Alignment explanation
Indices: 71354--71450 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 45
71344 AGTGATACTT
** * *
71354 AAAATATTATTTTTTTATTAAAAATATTAATATTAGATGCTACCT
1 AAAATATTATTTTTTTAAAAAAAATATTAATATTAGATGATACCA
* *
71399 AAAATATTATTTTTTCTACAAAAAAATGTTAATATTA-AGTTATACCA
1 AAAATATTATTTTTT-TA-AAAAAAATATTAATATTAGA-TGATACCA
71446 AAAAT
1 AAAAT
71451 TAATTAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
45 15 0.35
46 3 0.07
47 25 0.58
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (45 bp):
AAAATATTATTTTTTTAAAAAAAATATTAATATTAGATGATACCA
Found at i:71920 original size:27 final size:26
Alignment explanation
Indices: 71870--71935 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
71860 GTCCATTTAA
71870 ATTTGATTTAATATAATTTAATTTTG
1 ATTTGATTTAATATAATTTAATTTTG
* * *
71896 ATTTGATTTAAATATATTTTTATTTTT
1 ATTTGATTT-AATATAATTTAATTTTG
*
71923 ATTTTTATTTAAT
1 A-TTTGATTTAAT
71936 TCAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.26
27 18 0.53
28 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (26 bp):
ATTTGATTTAATATAATTTAATTTTG
Found at i:72242 original size:20 final size:22
Alignment explanation
Indices: 72217--72260 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
72207 AAACCTATCC
72217 TATAAT-TAA-CT-AATTATTTA
1 TATAATCTAACCTAAATT-TTTA
72237 TATAATCTAACCTAAATTTTTA
1 TATAATCTAACCTAAATTTTTA
72259 TA
1 TA
72261 ATGTTGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 8 0.38
23 4 0.19
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (22 bp):
TATAATCTAACCTAAATTTTTA
Found at i:74407 original size:16 final size:17
Alignment explanation
Indices: 74386--74420 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
74376 TACTATTTAC
74386 GTGAATAGTG-AATTTT
1 GTGAATAGTGAAATTTT
74402 GTGAATAGTGAAATTTT
1 GTGAATAGTGAAATTTT
74419 GT
1 GT
74421 CGGCGATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (17 bp):
GTGAATAGTGAAATTTT
Found at i:75555 original size:16 final size:17
Alignment explanation
Indices: 75534--75565 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75524 CTATTCATGT
75534 GAATAGT-AAATTTTGC
1 GAATAGTGAAATTTTGC
75550 GAATAGTGAAATTTTG
1 GAATAGTGAAATTTTG
75566 TCATGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (17 bp):
GAATAGTGAAATTTTGC
Found at i:75576 original size:22 final size:22
Alignment explanation
Indices: 75528--75589 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
75518 TCATTACTAT
75528 TCATGTGAATAGT-AAATTTTG
1 TCATGTGAATAGTGAAATTTTG
75549 -C----GAATAGTGAAATTTTG
1 TCATGTGAATAGTGAAATTTTG
75566 TCATGTGAATAGTGAAATTTTG
1 TCATGTGAATAGTGAAATTTTG
75588 TC
1 TC
75590 GGCGATACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 7 0.20
17 8 0.23
18 1 0.03
20 1 0.03
22 18 0.51
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (22 bp):
TCATGTGAATAGTGAAATTTTG
Found at i:83056 original size:30 final size:29
Alignment explanation
Indices: 82979--83070 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 29
82969 ATATACATAA
* ** *
82979 ATTATTTTATAATCGTTTAAATGTTTAACG
1 ATTATTTTATAA-CATTTAAAAATTTAATG
* * *
83009 ATCATTTTGTGAACATTTAGAACATTTAATG
1 ATTATTTTAT-AACATTTA-AAAATTTAATG
*
83040 ATTATTTTATAACATTTAAAAATTTATTG
1 ATTATTTTATAACATTTAAAAATTTAATG
83069 AT
1 AT
83071 AAAAAATTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 11 0.22
30 21 0.42
31 18 0.36
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (29 bp):
ATTATTTTATAACATTTAAAAATTTAATG
Found at i:86280 original size:2 final size:2
Alignment explanation
Indices: 86273--86297 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86263 CAACTGCGTG
86273 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 T
86298 GAGTTATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96186 original size:285 final size:285
Alignment explanation
Indices: 95676--96244 Score: 1043
Period size: 285 Copynumber: 2.0 Consensus size: 285
95666 CGGAAGTATA
*
95676 TTTGGAGAATGGAATCACTGAGGAGCGAGACTTACCAAGTCCGAAGGAAGAGCTGAGAGAGTGAA
1 TTTGGAGAATGGAATCACCGAGGAGCGAGACTTACCAAGTCCGAAGGAAGAGCTGAGAGAGTGAA
*
95741 AGGATGAGTCAGATTGGGTTCTTTTTGGCTGATGACAAACAGCTTCGGAAAATCTGTTGAGAGAA
66 AGGATGAGTCAGATTGGGTTCTGTTTGGCTGATGACAAACAGCTTCGGAAAATCTGTTGAGAGAA
95806 AATGAGAAACGGTTTGCTCACTAGAAGCTTATATTCTAAATCACTTTTTGTTATTTTTTAGTCTA
131 AATGAGAAACGGTTTGCTCACTAGAAGCTTATATTCTAAATCACTTTTTGTTATTTTTTAGTCTA
*
95871 ATCCCTTTCTCAATTTTATAAAGTAAAATCAATGAAGGGTAAATTACATCATTCCTAATTGAACT
196 ATCCCTTTCTCAATTTTATAAAGTAAAATCAATGAAGGGTAAACTACATCATTCCTAATTGAACT
* *
95936 TTATCTTTTCTCCTATTCTACTCAC
261 TTACCCTTTCTCCTATTCTACTCAC
95961 TTTGGAGAATGGAATCACCGAGGAGCGAGACTTACCAAGTCCGAAGGAAGAGCTGAGAGAGTGAA
1 TTTGGAGAATGGAATCACCGAGGAGCGAGACTTACCAAGTCCGAAGGAAGAGCTGAGAGAGTGAA
*
96026 AGGATGAGTCAGATTGGTTTCTGTTTGGCTGATGAC-AACAGCTTCGGAAAATCT-TTCGAGAGA
66 AGGATGAGTCAGATTGGGTTCTGTTTGGCTGATGACAAACAGCTTCGGAAAATCTGTT-GAGAGA
96089 AAATGAGAAACGGTTTGCTCACTAGAAGCTTATATTCTAAATCACTTTTTGTTATTTTTTTAGTC
130 AAATGAGAAACGGTTTGCTCACTAGAAGCTTATATTCTAAATCACTTTTTGTTA-TTTTTTAGTC
96154 TAATCCCTTTCTCAATTTTATAAAGTAAAATCAATGAAGGGTAAACTACATCATTCCTAATTGAA
194 TAATCCCTTTCTCAATTTTATAAAGTAAAATCAATGAAGGGTAAACTACATCATTCCTAATTGAA
*
96219 CTTTACCCTTTCTCCTATTTTACTCA
259 CTTTACCCTTTCTCCTATTCTACTCA
96245 ATTTACTTTC
Statistics
Matches: 275, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
283 2 0.01
284 78 0.28
285 195 0.71
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (285 bp):
TTTGGAGAATGGAATCACCGAGGAGCGAGACTTACCAAGTCCGAAGGAAGAGCTGAGAGAGTGAA
AGGATGAGTCAGATTGGGTTCTGTTTGGCTGATGACAAACAGCTTCGGAAAATCTGTTGAGAGAA
AATGAGAAACGGTTTGCTCACTAGAAGCTTATATTCTAAATCACTTTTTGTTATTTTTTAGTCTA
ATCCCTTTCTCAATTTTATAAAGTAAAATCAATGAAGGGTAAACTACATCATTCCTAATTGAACT
TTACCCTTTCTCCTATTCTACTCAC
Found at i:96946 original size:16 final size:17
Alignment explanation
Indices: 96917--96950 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
96907 CCGTCTGTTT
96917 TTATTTTATATATTAAA
1 TTATTTTATATATTAAA
96934 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
96950 T
1 T
96951 AAAAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:98714 original size:30 final size:31
Alignment explanation
Indices: 98678--98746 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
98668 TCGTTAAAAA
*
98678 TAAGTGTCTAAC--TTTTTTCTGTTACACTTT
1 TAAGTGTCTAACATTTTTTTC-ATTACACTTT
*
98708 TAAGTGTCTAACATTTTTTTCATTACATTTT
1 TAAGTGTCTAACATTTTTTTCATTACACTTT
98739 TAAGTGTC
1 TAAGTGTC
98747 GATGCAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 12 0.34
31 16 0.46
32 7 0.20
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.52
Consensus pattern (31 bp):
TAAGTGTCTAACATTTTTTTCATTACACTTT
Found at i:99715 original size:31 final size:31
Alignment explanation
Indices: 99656--99720 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
99646 TATTATTGTG
*
99656 TAGGTACCTAAAAGTATAACGGTTAAAACGT
1 TAGGTACCTAAAAGTATAACGGTGAAAACGT
*
99687 TAGGTACCTAAAAGTATAA-TGTCGAAAACGT
1 TAGGTACCTAAAAGTATAACGGT-GAAAACGT
99718 TAG
1 TAG
99721 ACACTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (31 bp):
TAGGTACCTAAAAGTATAACGGTGAAAACGT
Done.