Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006732.1 Hibiscus syriacus cultivar Beakdansim tig00016881_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: 121374
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:1308 original size:22 final size:20
Alignment explanation
Indices: 1283--1322 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1273 ATGTTTGTTT
1283 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
1305 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
1323 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:8545 original size:20 final size:21
Alignment explanation
Indices: 8522--8565 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
8512 TTCTTTTCTT
*
8522 TGCTTTTTC-TTCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
8542 TGC--TTTCAATCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
8561 TGCTT
1 TGCTT
8566 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (21 bp):
TGCTTTTTCAATCTTTTTGAG
Found at i:12314 original size:20 final size:21
Alignment explanation
Indices: 12291--12334 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
12281 TTCTTTTCTT
*
12291 TGCTTTTTC-TTCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
12311 TGC--TTTCAATCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
12330 TGCTT
1 TGCTT
12335 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (21 bp):
TGCTTTTTCAATCTTTTTGAG
Found at i:16081 original size:20 final size:21
Alignment explanation
Indices: 16058--16101 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
16048 TTCTTTTCTT
*
16058 TGCTTTTTC-TTCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
16078 TGC--TTTCAATCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
16097 TGCTT
1 TGCTT
16102 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (21 bp):
TGCTTTTTCAATCTTTTTGAG
Found at i:19849 original size:20 final size:21
Alignment explanation
Indices: 19826--19869 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
19816 TTCTTTTCTT
*
19826 TGCTTTTTC-TTCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
19846 TGC--TTTCAATCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
19865 TGCTT
1 TGCTT
19870 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (21 bp):
TGCTTTTTCAATCTTTTTGAG
Found at i:23615 original size:20 final size:21
Alignment explanation
Indices: 23592--23635 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
23582 TTCTTTTCTT
*
23592 TGCTTTTTC-TTCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
23612 TGC--TTTCAATCTTTTTGAG
1 TGCTTTTTCAATCTTTTTGAG
23631 TGCTT
1 TGCTT
23636 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (21 bp):
TGCTTTTTCAATCTTTTTGAG
Found at i:26294 original size:22 final size:20
Alignment explanation
Indices: 26269--26308 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26259 ATGTTTGTTT
26269 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
26291 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
26309 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:29910 original size:22 final size:20
Alignment explanation
Indices: 29885--29924 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29875 ATGTTTGTTT
29885 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
29907 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
29925 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:34173 original size:22 final size:20
Alignment explanation
Indices: 34148--34187 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34138 ATGTTTGTTT
34148 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
34170 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
34188 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:38442 original size:22 final size:20
Alignment explanation
Indices: 38417--38456 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38407 ATGTTTGTTT
38417 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
38439 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
38457 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:42713 original size:22 final size:20
Alignment explanation
Indices: 42688--42727 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42678 ATGTTTGTTT
42688 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
42710 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
42728 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:46327 original size:22 final size:20
Alignment explanation
Indices: 46302--46341 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46292 ATGTTTGTTT
46302 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
46324 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
46342 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:50587 original size:22 final size:20
Alignment explanation
Indices: 50562--50601 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50552 ATGTTTGTTT
50562 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
50584 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
50602 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:52706 original size:24 final size:23
Alignment explanation
Indices: 52646--52691 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
52636 AGTTTCAAGG
52646 TAAGCTAGATGAGTGTCTTGGTA
1 TAAGCTAGATGAGTGTCTTGGTA
52669 TAAGCTAGATGAGTGTCTTGGTA
1 TAAGCTAGATGAGTGTCTTGGTA
52692 GCTAACTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (23 bp):
TAAGCTAGATGAGTGTCTTGGTA
Found at i:57258 original size:20 final size:19
Alignment explanation
Indices: 57221--57259 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
57211 GAGATAATGC
*
57221 ATGAAGCATAAGAGCTAAT
1 ATGAAGCATAAGAACTAAT
*
57240 ATGAATGCATATGAACTAAT
1 ATGAA-GCATAAGAACTAAT
57260 GAAATGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (19 bp):
ATGAAGCATAAGAACTAAT
Found at i:59307 original size:20 final size:19
Alignment explanation
Indices: 59270--59308 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
59260 GAGATAATGC
*
59270 ATGAAGCATAAGAGCTAAT
1 ATGAAGCATAAGAACTAAT
*
59289 ATGAATGCATATGAACTAAT
1 ATGAA-GCATAAGAACTAAT
59309 GAAATGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (19 bp):
ATGAAGCATAAGAACTAAT
Found at i:64553 original size:24 final size:22
Alignment explanation
Indices: 64521--64565 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
64511 TTGGCTCATT
* *
64521 CTTTTAAATTTCAAGAGGTACATC
1 CTTTGAAATGTCAA-AGG-ACATC
64545 CTTTGAAATGTCAAAGGACAT
1 CTTTGAAATGTCAAAGGACAT
64566 ATCTTGTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
CTTTGAAATGTCAAAGGACATC
Found at i:65847 original size:190 final size:187
Alignment explanation
Indices: 65517--65894 Score: 729
Period size: 190 Copynumber: 2.0 Consensus size: 187
65507 TTTTTCCTCT
65517 CGATTCTTTGTCTCAAGTTCTAGAGAACTTTACTCAAGACTATATCAAGTAAATTTTAATTGTTT
1 CGATTCTTTGTCTCAAGTTCTAGAGAACTTTACTCAAGACTATATCAAGTAAATTTTAATTGTTT
65582 GGCATCGGCTGCAAAAGGGTTAGTAGGAATGGAAAGCAAAATATAATGAAAGGGTGGCATAGAAA
66 GGCATCGGCTGCAAAAGGGTTAGTAGGAATGGAAAGCAAAATATAATGAAAGGGTGGCATAGAAA
65647 TAGAAAGAAATGAATAAAAAGGGGTTACTTACACAAGTCACTTTACAACCTTCTATCAC
131 TAGAAAGAAATGAAT--AAAGGGGTTACTTACACAAGTCACTTTACAACCTTCTATCAC
65706 CGATTCTCTTGTCTCAAGTTCTAGAGAACTTTACTCAAGACTATATCAAGTAAATTTTAATTGTT
1 CGATTCT-TTGTCTCAAGTTCTAGAGAACTTTACTCAAGACTATATCAAGTAAATTTTAATTGTT
65771 TGGCATCGGCTGCAAAAGGGTTAGTAGGAATGGAAAGCAAAATATAATGAAAGGGTGGCATAGAA
65 TGGCATCGGCTGCAAAAGGGTTAGTAGGAATGGAAAGCAAAATATAATGAAAGGGTGGCATAGAA
65836 ATAGAAAGAAATGAATAAAGGGGTTACTTACACAAGTCACTTTACAACCTTCTATCAC
130 ATAGAAAGAAATGAATAAAGGGGTTACTTACACAAGTCACTTTACAACCTTCTATCAC
65894 C
1 C
65895 ACAATCAATT
Statistics
Matches: 188, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
188 43 0.23
189 7 0.04
190 138 0.73
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (187 bp):
CGATTCTTTGTCTCAAGTTCTAGAGAACTTTACTCAAGACTATATCAAGTAAATTTTAATTGTTT
GGCATCGGCTGCAAAAGGGTTAGTAGGAATGGAAAGCAAAATATAATGAAAGGGTGGCATAGAAA
TAGAAAGAAATGAATAAAGGGGTTACTTACACAAGTCACTTTACAACCTTCTATCAC
Found at i:66748 original size:12 final size:12
Alignment explanation
Indices: 66731--66755 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66721 GACTTTTGAA
66731 TGCATTTGGAAG
1 TGCATTTGGAAG
66743 TGCATTTGGAAG
1 TGCATTTGGAAG
66755 T
1 T
66756 TATGTGGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TGCATTTGGAAG
Found at i:76482 original size:22 final size:21
Alignment explanation
Indices: 76445--76485 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
76435 CCATCTCCAT
76445 TTCATCATCAACACCATCATC
1 TTCATCATCAACACCATCATC
*
76466 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
76486 ATTCCACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.37, G:0.02, T:0.27
Consensus pattern (21 bp):
TTCATCATCAACACCATCATC
Found at i:76871 original size:18 final size:16
Alignment explanation
Indices: 76850--76889 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
76840 AGAAAAATTC
76850 AGAAAAGAAGAAAAGAAA
1 AGAAAAGAA-AAAA-AAA
76868 AGAAAAGAAAAAAAAA
1 AGAAAAGAAAAAAAAA
76884 AGAAAA
1 AGAAAA
76890 CAAGCCAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAAAAAAA
Found at i:78192 original size:24 final size:24
Alignment explanation
Indices: 78139--78197 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
78129 ATTCAAAAAT
*
78139 CATGGCTTTTGAAAAACCAAAAGA
1 CATGACTTTTGAAAAACCAAAAGA
** * *
78163 TGTGACTTTTGAAAAACCAATAGC
1 CATGACTTTTGAAAAACCAAAAGA
78187 CATGACTTTTG
1 CATGACTTTTG
78198 GTGATTCACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (24 bp):
CATGACTTTTGAAAAACCAAAAGA
Found at i:81831 original size:23 final size:23
Alignment explanation
Indices: 81777--81836 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
81767 AAAATCCAGC
81777 AAAGAAATCAAAGCACTCAAAAG
1 AAAGAAATCAAAGCACTCAAAAG
* *
81800 AAGAAAAATC-TAGCACTCAAAAAG
1 AA-AGAAATCAAAGCACTC-AAAAG
*
81824 AAAGAAATAAAAG
1 AAAGAAATCAAAG
81837 TTGAAAGAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.10
Consensus pattern (23 bp):
AAAGAAATCAAAGCACTCAAAAG
Found at i:90235 original size:14 final size:15
Alignment explanation
Indices: 90218--90252 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
90208 AAAAAAAGGC
*
90218 AAAAATAAAACAA-A
1 AAAAATAAAAAAATA
90232 AAAAATAAAAAAATA
1 AAAAATAAAAAAATA
90247 AAAAAT
1 AAAAAT
90253 TTCAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:94114 original size:15 final size:17
Alignment explanation
Indices: 94091--94124 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
94081 TTAAGATATG
94091 TTTAGTTTATTA-TTAT
1 TTTAGTTTATTAGTTAT
94107 TTTA-TTTATTAGTTAT
1 TTTAGTTTATTAGTTAT
94123 TT
1 TT
94125 AGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTAGTTAT
Found at i:98293 original size:16 final size:16
Alignment explanation
Indices: 98272--98304 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
98262 TAGTTAGCTC
98272 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
98288 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
98304 A
1 A
98305 GGTGGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:103395 original size:342 final size:340
Alignment explanation
Indices: 102761--103442 Score: 1220
Period size: 342 Copynumber: 2.0 Consensus size: 340
102751 GGGTCAAAGT
*
102761 CCTTGTTTGCCATCCCTTAAAGAAGCAATATAAAGTCTCGGTCTTTGTTCTTTAACATTGGTTCT
1 CCTTGTTTACCATCCCTTAAAGAAGCAATATAAAGTCTCGGTCTTTGTTCTTTAACATTGGTTCT
*
102826 TCTTTGAGTCTTCTTTGAGATGCTACTTTTCATATTCACTCCATCACCTTCATTCTACTTCCATT
66 TCTTTGAGTCTTCTTTGAGATACTACTTTTCATATTCACTCCATCACCTTCATTCTACTTCCATT
*
102891 ACCATACTTCATCATTTCCTTTAAACATATCACCAACTTATATATATTTTCCGCTGCCATATTAT
131 ACCATACTTCATCAATTCCTTTAAACATATCACCAACTTATATATATTTTCCGCTGCCATATTAT
102956 CTTTCCATTTCATTACTTCCATTTAACTATTTTTTTGAGCTTTCTTGTTTGTGCAGGATACTTGT
196 CTTTCCATTTCATTACTTCCATTTAACTATTTTTTTGAGCTTTCTTGTTTGTGCAGGATACTTGT
*
103021 TGCTCTCCTAGACCGAAACAATCAAAGGTACAACCTTGACTTCACCATCCATCCAAGTGAGGATA
261 TGCTCTCCTAGACCGAAACAATCAAAGGTACAACCTTAACTTCACCATCCATCCAAGTGAGGATA
103086 GGTTGAACTGTATCA
326 GGTTGAACTGTATCA
*
103101 CCTTGTTTACCATCCCTTAAAGAAGCAATATAAAGTCTGGGTCTTTGTTCTTTAACATTGGTTCT
1 CCTTGTTTACCATCCCTTAAAGAAGCAATATAAAGTCTCGGTCTTTGTTCTTTAACATTGGTTCT
* *
103166 TCTTTGAGTCTTCTTTGAGATACTACTTTTCATATTCATCTCCATCATCTTCATTCTACTTCTAT
66 TCTTTGAGTCTTCTTTGAGATACTACTTTTCATATTCA-CTCCATCACCTTCATTCTACTTCCAT
* * *
103231 TACCATACTTCATCAATTCCTTTAAACATATCACCAACTTATATATATTTTTCGTTGCCGTATTT
130 TACCATACTTCATCAATTCCTTTAAACATATCACCAACTTATATATATTTTCCGCTGCCATA-TT
103296 ATCTTTCCATTTCATTACTTCCATTTAACTATTTTTTTGAGCTTTCTTGTTTGTGCAGGATACTT
194 ATCTTTCCATTTCATTACTTCCATTTAACTATTTTTTTGAGCTTTCTTGTTTGTGCAGGATACTT
* * * *
103361 GTTGCTTTCCTAGATCGAAACAATCAAAGGTACAACCTTAACTTCACCATTCATCCAAGTGAGGC
259 GTTGCTCTCCTAGACCGAAACAATCAAAGGTACAACCTTAACTTCACCATCCATCCAAGTGAGGA
103426 TAGGTTGAACTGTATCA
324 TAGGTTGAACTGTATCA
103443 TATGGTATCA
Statistics
Matches: 326, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
340 100 0.31
341 82 0.25
342 144 0.44
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (340 bp):
CCTTGTTTACCATCCCTTAAAGAAGCAATATAAAGTCTCGGTCTTTGTTCTTTAACATTGGTTCT
TCTTTGAGTCTTCTTTGAGATACTACTTTTCATATTCACTCCATCACCTTCATTCTACTTCCATT
ACCATACTTCATCAATTCCTTTAAACATATCACCAACTTATATATATTTTCCGCTGCCATATTAT
CTTTCCATTTCATTACTTCCATTTAACTATTTTTTTGAGCTTTCTTGTTTGTGCAGGATACTTGT
TGCTCTCCTAGACCGAAACAATCAAAGGTACAACCTTAACTTCACCATCCATCCAAGTGAGGATA
GGTTGAACTGTATCA
Found at i:109871 original size:15 final size:15
Alignment explanation
Indices: 109839--109877 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
109829 CTTTATTATC
109839 TTATTTCATCTTCCGT
1 TTATTT-ATCTTCCGT
**
109855 TTATTTATCTTTTGT
1 TTATTTATCTTCCGT
109870 TTATTTAT
1 TTATTTAT
109878 TCTAATCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (15 bp):
TTATTTATCTTCCGT
Found at i:114444 original size:15 final size:15
Alignment explanation
Indices: 114412--114450 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
114402 CTTTATTATC
114412 TTATTTCATCTTCCGT
1 TTATTT-ATCTTCCGT
**
114428 TTATTTATCTTTTGT
1 TTATTTATCTTCCGT
114443 TTATTTAT
1 TTATTTAT
114451 TCTAATCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (15 bp):
TTATTTATCTTCCGT
Done.