Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006062.1 Hibiscus syriacus cultivar Beakdansim tig00014339_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: 76392
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:1647 original size:19 final size:21
Alignment explanation
Indices: 1589--1652 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1579 CAAAGCAGCC
* * * *
1589 AGAGCAGCAGTGAAAGCAGAG
1 AGAGAAGCAGCGACAGCACAG
*
1610 AAAGAAGCAGCGACAGCACAG
1 AGAGAAGCAGCGACAGCACAG
1631 AGAGAA-CAGCG-CAGCACAG
1 AGAGAAGCAGCGACAGCACAG
1650 AGA
1 AGA
1653 AGCAACATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 11 0.30
20 5 0.14
21 21 0.57
ACGTcount: A:0.45, C:0.20, G:0.33, T:0.02
Consensus pattern (21 bp):
AGAGAAGCAGCGACAGCACAG
Found at i:1653 original size:17 final size:20
Alignment explanation
Indices: 1612--1656 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 20
1602 AAGCAGAGAA
1612 AGAAGCAGCGACAGCACAGAG
1 AGAAGCAGCGACAGCACA-AG
1633 AGAA-CAGCG-CAGCAC-AG
1 AGAAGCAGCGACAGCACAAG
1650 AGAAGCA
1 AGAAGCA
1657 ACATATCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 6 0.26
20 5 0.22
21 4 0.17
ACGTcount: A:0.44, C:0.24, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAGCAGCGACAGCACAAG
Found at i:2168 original size:43 final size:43
Alignment explanation
Indices: 2104--2313 Score: 267
Period size: 43 Copynumber: 4.9 Consensus size: 43
2094 GTTGTCTAAA
* * *
2104 AAACGCTGCTAAATATTAACACCTATTGCGGCATTTTTATGAC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
* * * * * *
2147 AAACGTCGCTTAATATCAACACCTATTGCGGTGTTTGTCTGCC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
* * * * * *
2190 AAACGCCACTAAATATCAACACTTATTGCGACGTTTGTCTGAA
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
*
2233 AAACGCTGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
*
2276 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTTT
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTT
2314 TGTGAAAAAA
Statistics
Matches: 141, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
Found at i:7974 original size:21 final size:21
Alignment explanation
Indices: 7950--8006 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
7940 TATGAGTATT
7950 TTGTAAGGGTAGTATCGATAC
1 TTGTAAGGGTAGTATCGATAC
7971 TTGTTGAAGAGGTA-T-T-GATAC
1 TTG-T-AAG-GGTAGTATCGATAC
7992 -TGTAAGGGTAGTATC
1 TTGTAAGGGTAGTATC
8007 AGTACCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
17 4 0.13
18 4 0.13
19 2 0.07
20 2 0.07
21 8 0.27
22 2 0.07
23 4 0.13
24 4 0.13
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (21 bp):
TTGTAAGGGTAGTATCGATAC
Found at i:8876 original size:21 final size:21
Alignment explanation
Indices: 8843--8882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8833 TTCTACGTGG
*
8843 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
8864 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
8883 GGTACTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:8960 original size:18 final size:18
Alignment explanation
Indices: 8936--8988 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
8926 GTTCTTAAGG
*
8936 AGTGGTCATTCGGGATAT
1 AGTGGTCATTCGGGACAT
*
8954 TGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
8972 AGTGGTCCTTCGGGACA
1 AGTGGTCATTCGGGACA
8989 AATTCTACGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:12056 original size:20 final size:20
Alignment explanation
Indices: 12000--12056 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
11990 ATGAGTATTT
12000 TGTAAGAGTAGTATCGATAC
1 TGTAAGAGTAGTATCGATAC
12020 ATGTTGAAGAG--GTATCGATAC
1 -TG-T-AAGAGTAGTATCGATAC
*
12041 TGTAAGGGTAGTATCG
1 TGTAAGAGTAGTATCG
12057 GTACCTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 4 0.13
19 1 0.03
20 8 0.26
21 12 0.39
22 1 0.03
23 5 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (20 bp):
TGTAAGAGTAGTATCGATAC
Found at i:12066 original size:20 final size:20
Alignment explanation
Indices: 12031--12081 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
12021 TGTTGAAGAG
*
12031 GTATCGATA-CTGTAAGGGTA
1 GTATCGATACCT-TAAGGATA
* *
12051 GTATCGGTACCTTAAGGATG
1 GTATCGATACCTTAAGGATA
12071 GTATCGATACC
1 GTATCGATACC
12082 CTTGAAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (20 bp):
GTATCGATACCTTAAGGATA
Found at i:12180 original size:20 final size:20
Alignment explanation
Indices: 12157--12195 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12147 GTATCGGTAC
12157 TGTTAGGGTGGTACCGATAT
1 TGTTAGGGTGGTACCGATAT
12177 TGTTAGGGTGGTACCGATA
1 TGTTAGGGTGGTACCGATA
12196 CTTCAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.36, T:0.33
Consensus pattern (20 bp):
TGTTAGGGTGGTACCGATAT
Found at i:12992 original size:21 final size:21
Alignment explanation
Indices: 12959--12998 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12949 TTCTACGTGG
*
12959 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
12980 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
12999 GGTACTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:13076 original size:18 final size:18
Alignment explanation
Indices: 13053--13102 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
13043 TTCTTAAATT
*
13053 CTTCAGGATATAGTGGTC
1 CTTCAGGACATAGTGGTC
13071 CTTCAGGACATAGTGGTC
1 CTTCAGGACATAGTGGTC
*
13089 CTTCGGGACATAGT
1 CTTCAGGACATAGT
13103 AGTCATTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (18 bp):
CTTCAGGACATAGTGGTC
Found at i:13111 original size:18 final size:18
Alignment explanation
Indices: 13062--13116 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
13052 TCTTCAGGAT
*
13062 ATAGTGGTCCTTCAGGAC
1 ATAGTGGTCCTTCGGGAC
13080 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
* * *
13098 ATAGTAGTCATTCGAGAC
1 ATAGTGGTCCTTCGGGAC
13116 A
1 A
13117 AATTCTACGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:14571 original size:29 final size:29
Alignment explanation
Indices: 14534--14614 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
14524 TTTAAAAAAG
*
14534 AACAGGGAAACTTCTTATCAGTTCAAGAA
1 AACATGGAAACTTCTTATCAGTTCAAGAA
14563 AACATGGAAACTTCTTATCAGTTCAAGAA
1 AACATGGAAACTTCTTATCAGTTCAAGAA
*
14592 AACATGGAAACTTCTTCTCAGTT
1 AACATGGAAACTTCTTATCAGTT
14615 GAGTTTTTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (29 bp):
AACATGGAAACTTCTTATCAGTTCAAGAA
Found at i:25838 original size:27 final size:26
Alignment explanation
Indices: 25768--25839 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
25758 TGGTTGAATG
** *
25768 AAATAACTGAAATACCCTAAAAGCTA
1 AAATAACCAAAATACCCTAAAACCTA
* *
25794 AAATGACCAAAATAACCCTAAAACCCTG
1 AAATAACCAAAAT-ACCCTAAAA-CCTA
*
25822 AAATAATCAAAATACCCT
1 AAATAACCAAAATACCCT
25840 TGTATTTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.27
27 14 0.38
28 13 0.35
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (26 bp):
AAATAACCAAAATACCCTAAAACCTA
Found at i:26634 original size:17 final size:16
Alignment explanation
Indices: 26614--26653 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
26604 TCATGAAATA
26614 TGATTTATTGAAGTTAC
1 TGATTTATTG-AGTTAC
*
26631 TGATGTATTGAGTTAC
1 TGATTTATTGAGTTAC
26647 T-ATTTAT
1 TGATTTAT
26654 GAACTATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (16 bp):
TGATTTATTGAGTTAC
Found at i:26954 original size:32 final size:32
Alignment explanation
Indices: 26873--26976 Score: 111
Period size: 32 Copynumber: 3.2 Consensus size: 32
26863 CATTTCCTTG
* *
26873 GGTAGGCTCTAAGGCCCCAAGGTACTCCATTG
1 GGTAGGCTCTAAGGCCCTAAGGTACTCCATTA
* *
26905 GGTAGGCTCTTAGGCCCTAAGGTATTCTC-TTA
1 GGTAGGCTCTAAGGCCCTAAGGTACTC-CATTA
* ** *
26937 GGTAGGCTCTAAAGCCCTAAGAAACTCCCTTA
1 GGTAGGCTCTAAGGCCCTAAGGTACTCCATTA
*
26969 GGTTGGCT
1 GGTAGGCT
26977 TCTGCGCCCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
31 1 0.02
32 58 0.97
33 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (32 bp):
GGTAGGCTCTAAGGCCCTAAGGTACTCCATTA
Found at i:27794 original size:45 final size:45
Alignment explanation
Indices: 27739--27837 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
27729 ACACCATGAT
* *
27739 TCCTCGCATATCAGCAAACAAACAAGTATATAATGAACATAATAG
1 TCCTCACATATAAGCAAACAAACAAGTATATAATGAACATAATAG
*
27784 TCCTCACATATAAGCAAACAAACAAGTATATAGTGAACATAATAG
1 TCCTCACATATAAGCAAACAAACAAGTATATAATGAACATAATAG
27829 TCCTCACAT
1 TCCTCACAT
27838 TTTATTGAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.23
Consensus pattern (45 bp):
TCCTCACATATAAGCAAACAAACAAGTATATAATGAACATAATAG
Found at i:32025 original size:2 final size:2
Alignment explanation
Indices: 32018--32054 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32008 GGTTATTGTT
32018 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
32055 TAGGATATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44069 original size:20 final size:20
Alignment explanation
Indices: 44044--44081 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44034 AGTCAAAGAA
*
44044 AGTCAACGGTCAACGGTCAC
1 AGTCAACGGTAAACGGTCAC
*
44064 AGTCAATGGTAAACGGTC
1 AGTCAACGGTAAACGGTC
44082 GGGTCGGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTCAACGGTAAACGGTCAC
Found at i:44101 original size:17 final size:17
Alignment explanation
Indices: 44079--44128 Score: 100
Period size: 17 Copynumber: 2.9 Consensus size: 17
44069 ATGGTAAACG
44079 GTCGGGTCGGGTCAACA
1 GTCGGGTCGGGTCAACA
44096 GTCGGGTCGGGTCAACA
1 GTCGGGTCGGGTCAACA
44113 GTCGGGTCGGGTCAAC
1 GTCGGGTCGGGTCAAC
44129 CCGGTTCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
GTCGGGTCGGGTCAACA
Found at i:44146 original size:19 final size:19
Alignment explanation
Indices: 44122--44211 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
44112 AGTCGGGTCG
*
44122 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
44141 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
44160 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* *
44179 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
44199 GGTCAAACCGGTT
1 GGTCAAACCGGTT
44212 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.02
19 49 0.75
20 15 0.23
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:44194 original size:10 final size:10
Alignment explanation
Indices: 44124--44211 Score: 94
Period size: 9 Copynumber: 9.1 Consensus size: 10
44114 TCGGGTCGGG
*
44124 TCAACCCGGT
1 TCAAACCGGT
*
44134 TCAGACCGG-
1 TCAAACCGGT
44143 TCAAACCGGT
1 TCAAACCGGT
*
44153 TCAGACCGG-
1 TCAAACCGGT
44162 TCAAACCGGT
1 TCAAACCGGT
*
44172 TCGAACCGG-
1 TCAAACCGGT
44181 TCAAACCGGT
1 TCAAACCGGT
*
44191 TCAAAACTGG-
1 TC-AAACCGGT
44201 TCAAACCGGT
1 TCAAACCGGT
44211 T
1 T
44212 TTCCAGCAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 30 0.47
10 28 0.44
11 6 0.09
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:51217 original size:17 final size:17
Alignment explanation
Indices: 51195--51252 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
51185 CAACGGTCAC
*
51195 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
51212 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
51229 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
51246 GGTCAAC
1 GGTCAAC
51253 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:51270 original size:19 final size:19
Alignment explanation
Indices: 51246--51316 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
51236 AGTCGGGTCG
*
51246 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
51265 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
51284 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
51304 GGTCAAACCGGTT
1 GGTCAAACCGGTT
51317 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:51284 original size:10 final size:10
Alignment explanation
Indices: 51248--51316 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
51238 TCGGGTCGGG
*
51248 TCAACCCGGT
1 TCAAACCGGT
*
51258 TCAGACCGG-
1 TCAAACCGGT
51267 TCAAACCGGT
1 TCAAACCGGT
*
51277 TCAGACCGG-
1 TCAAACCGGT
51286 TCAAACCGGT
1 TCAAACCGGT
*
51296 TCAAAACTGG-
1 TC-AAACCGGT
51306 TCAAACCGGT
1 TCAAACCGGT
51316 T
1 T
51317 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:52136 original size:23 final size:23
Alignment explanation
Indices: 52106--52154 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
52096 ATCCAACAAT
*
52106 GGATGGCGGCGAATTGAAGACGA
1 GGATGGCGGCGAATTGAAAACGA
52129 GGATGGCGGCGAATTGAAAACGA
1 GGATGGCGGCGAATTGAAAACGA
52152 GGA
1 GGA
52155 AGCCGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.43, T:0.12
Consensus pattern (23 bp):
GGATGGCGGCGAATTGAAAACGA
Found at i:54153 original size:90 final size:90
Alignment explanation
Indices: 54000--54177 Score: 284
Period size: 90 Copynumber: 2.0 Consensus size: 90
53990 CCTAACACAC
* * * * *
54000 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTGTTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
54065 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
*
54090 CCTTTTATATCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
54155 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
54178 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:62128 original size:27 final size:26
Alignment explanation
Indices: 62098--62148 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
62088 TTTTGATTAT
*
62098 TTTAGGGTTTTAGGGGTATTTCAGTTA
1 TTTAAGGTTTTA-GGGTATTTCAGTTA
**
62125 TTTAATTTTTTAGGGTATTTCAGT
1 TTTAAGGTTTTAGGGTATTTCAGT
62149 CCTTTCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.20, C:0.04, G:0.24, T:0.53
Consensus pattern (26 bp):
TTTAAGGTTTTAGGGTATTTCAGTTA
Found at i:64207 original size:39 final size:39
Alignment explanation
Indices: 64153--64230 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
64143 CATACATCCC
64153 ACTACATTCGGAACCTACGAATGTATTCAAAACACAAGT
1 ACTACATTCGGAACCTACGAATGTATTCAAAACACAAGT
64192 ACTACATTCGGAACCTACGAATGTATTCAAAACACAAGT
1 ACTACATTCGGAACCTACGAATGTATTCAAAACACAAGT
64231 GAATGTCGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (39 bp):
ACTACATTCGGAACCTACGAATGTATTCAAAACACAAGT
Done.