Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005091.1 Hibiscus syriacus cultivar Beakdansim tig00011448_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: 62545
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:6665 original size:25 final size:25
Alignment explanation
Indices: 6631--6683 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
6621 AATTGAAAGA
6631 ATCAATCTAAGATGTTTGTCCGAGT
1 ATCAATCTAAGATGTTTGTCCGAGT
6656 ATCAATCTAAGATGTTTGTCCGAGT
1 ATCAATCTAAGATGTTTGTCCGAGT
6681 ATC
1 ATC
6684 TCATAGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (25 bp):
ATCAATCTAAGATGTTTGTCCGAGT
Found at i:6889 original size:117 final size:117
Alignment explanation
Indices: 6748--6987 Score: 471
Period size: 117 Copynumber: 2.1 Consensus size: 117
6738 TGATATACAT
6748 TGCAAAATAAGATTAAAAGAATCAATCTAAGATGTTTGTCCGAGTTACATGCTTTACCCAGATGA
1 TGCAAAATAAGATTAAAAGAATCAATCTAAGATGTTTGTCCGAGTTACATGCTTTACCCAGATGA
6813 GAGAGAATCAATTTGAATTGCATCTCAAGTATCGAACTTGGCTCCAGAACCA
66 GAGAGAATCAATTTGAATTGCATCTCAAGTATCGAACTTGGCTCCAGAACCA
6865 TGCAAAATAAGATTAAAAGAATCAATCTAAGATGTTTGTCCGAGTTACATGCTTTACCCAGATGA
1 TGCAAAATAAGATTAAAAGAATCAATCTAAGATGTTTGTCCGAGTTACATGCTTTACCCAGATGA
*
6930 GAGAGAATCAATTTGAATTGCATCTCAAGTATCGAACTTGGTTCCAGAACCA
66 GAGAGAATCAATTTGAATTGCATCTCAAGTATCGAACTTGGCTCCAGAACCA
6982 TGCAAA
1 TGCAAA
6988 CATTTCAGTA
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 122 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (117 bp):
TGCAAAATAAGATTAAAAGAATCAATCTAAGATGTTTGTCCGAGTTACATGCTTTACCCAGATGA
GAGAGAATCAATTTGAATTGCATCTCAAGTATCGAACTTGGCTCCAGAACCA
Found at i:8906 original size:37 final size:37
Alignment explanation
Indices: 8856--8937 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
8846 TGCCGAATGA
*
8856 GACGCCGCGGTTGGGAGGCTGTGAGGTGTCTTCTTGC
1 GACGCCGAGGTTGGGAGGCTGTGAGGTGTCTTCTTGC
8893 GACGCCGAGGTTGGGAGGCTGTGAGGTGTCTTCTTGC
1 GACGCCGAGGTTGGGAGGCTGTGAGGTGTCTTCTTGC
8930 GACGCCGA
1 GACGCCGA
8938 CGATGGGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.11, C:0.22, G:0.43, T:0.24
Consensus pattern (37 bp):
GACGCCGAGGTTGGGAGGCTGTGAGGTGTCTTCTTGC
Found at i:8945 original size:37 final size:37
Alignment explanation
Indices: 8867--8945 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
8857 ACGCCGCGGT
* *
8867 TGGGAGGCTGTGAGGTGTCTTCTTGCGACGCCGAGGT
1 TGGGAGGCTGTGAGGTGTCTTCTTGCGACGCCGACGA
8904 TGGGAGGCTGTGAGGTGTCTTCTTGCGACGCCGACGA
1 TGGGAGGCTGTGAGGTGTCTTCTTGCGACGCCGACGA
8941 TGGGA
1 TGGGA
8946 AACTGAGAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.13, C:0.19, G:0.43, T:0.25
Consensus pattern (37 bp):
TGGGAGGCTGTGAGGTGTCTTCTTGCGACGCCGACGA
Found at i:16260 original size:15 final size:15
Alignment explanation
Indices: 16240--16292 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
16230 TATGTCAACG
16240 AAATTTAATATTGAA
1 AAATTTAATATTGAA
** *
16255 AAATTTAAT-GGGAG
1 AAATTTAATATTGAA
*
16269 AAATTTGATATTGAA
1 AAATTTAATATTGAA
16284 AAATTTAAT
1 AAATTTAAT
16293 GGGAGAAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (15 bp):
AAATTTAATATTGAA
Found at i:16274 original size:14 final size:14
Alignment explanation
Indices: 16255--16303 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
16245 TAATATTGAA
16255 AAATTTAATGGGAG
1 AAATTTAATGGGAG
* *
16269 AAATTTGATAT-TGAA
1 AAATTT-A-ATGGGAG
16284 AAATTTAATGGGAG
1 AAATTTAATGGGAG
16298 AAATTT
1 AAATTT
16304 CTCATTGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 2 0.07
14 15 0.54
15 9 0.32
16 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (14 bp):
AAATTTAATGGGAG
Found at i:16310 original size:29 final size:29
Alignment explanation
Indices: 16239--16303 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
16229 CTATGTCAAC
*
16239 GAAATTTAATATTGAAAAATTTAATGGGA
1 GAAATTTGATATTGAAAAATTTAATGGGA
16268 GAAATTTGATATTGAAAAATTTAATGGGA
1 GAAATTTGATATTGAAAAATTTAATGGGA
16297 GAAATTT
1 GAAATTT
16304 CTCATTGTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.35
Consensus pattern (29 bp):
GAAATTTGATATTGAAAAATTTAATGGGA
Found at i:23837 original size:14 final size:14
Alignment explanation
Indices: 23818--23845 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23808 TATGTATGTA
23818 TGTATGTGTGTGTG
1 TGTATGTGTGTGTG
23832 TGTATGTGTGTGTG
1 TGTATGTGTGTGTG
23846 ATTTTGGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (14 bp):
TGTATGTGTGTGTG
Found at i:26031 original size:21 final size:21
Alignment explanation
Indices: 25985--26160 Score: 130
Period size: 21 Copynumber: 8.6 Consensus size: 21
25975 TATCACAAAT
* **
25985 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCCAGA
**
26005 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCCAGA
* **
26026 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCCAGA
*
26046 TCGCGTTGCGATAGTCTACAG-
1 TCGCGTTGCGATAGT-TCCAGA
* **
26067 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCCAGA
* *
26087 TCGCGTTGCGATAGTTGCAAA
1 TCGCGTTGCGATAGTTCCAGA
* **
26108 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCCAGA
*
26128 TCGCGTTGCGATAGTCTACAG-
1 TCGCGTTGCGATAGT-TCCAGA
26149 TCGCGTTGCGAT
1 TCGCGTTGCGAT
26161 TTTCCGTTTC
Statistics
Matches: 122, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.02
20 56 0.46
21 57 0.47
22 6 0.05
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCCAGA
Found at i:26042 original size:41 final size:41
Alignment explanation
Indices: 25985--26172 Score: 299
Period size: 41 Copynumber: 4.6 Consensus size: 41
25975 TATCACAAAT
**
25985 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGGAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
26025 ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 -TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
* *
26067 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGCAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAC-AG
26108 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
*
26149 TCGCGTTGCGATTTTCCGTTTCGC
1 TCGCGTTGCGATTTTCCATTTCGC
26173 ATCCATAACT
Statistics
Matches: 137, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
40 2 0.01
41 130 0.95
42 5 0.04
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
Found at i:26085 original size:82 final size:82
Alignment explanation
Indices: 25985--26172 Score: 349
Period size: 82 Copynumber: 2.3 Consensus size: 82
25975 TATCACAAAT
* *
25985 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGCAAATCGCGTTGCGATTTTCCATTTCGC
26050 GTTGCGATAGTCTACAG
66 GTTGCGATAGTCTACAG
26067 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGCAAATCGCGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGCAAATCGCGTTGCGATTTTCCATTTCGC
26132 GTTGCGATAGTCTACAG
66 GTTGCGATAGTCTACAG
*
26149 TCGCGTTGCGATTTTCCGTTTCGC
1 TCGCGTTGCGATTTTCCATTTCGC
26173 ATCCATAACT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 103 1.00
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (82 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGCAAATCGCGTTGCGATTTTCCATTTCGC
GTTGCGATAGTCTACAG
Found at i:26809 original size:121 final size:122
Alignment explanation
Indices: 26591--26826 Score: 332
Period size: 121 Copynumber: 1.9 Consensus size: 122
26581 TTTTTTGTCA
* * *
26591 TTGTTTTCGTTTATCTTTTTTCTCAGGGTTGGATTTGACATCCCCGCGACTGATCAAGATGACAC
1 TTGTTTTCGTTTATCTTTTTTCTCAAGGTTGGATTTGACATCCCCACGACTGATCAAAATGACAC
*
26656 TTATTTGTTATCATGTTGATCTTCCCTACTTTGGA-CTCTCGAATT-ATTTTTTGAAG
66 TCATTTGTTATCATGTTGATCTTCCCTACTTTGGACCT-TCGAATTGATTTTTTGAAG
** * * *
26712 TTGTTTTCGTTTATCTTTTTTCTCAAGGTTGGATTTGACATTGCCACGATTGATTAAAATGACGC
1 TTGTTTTCGTTTATCTTTTTTCTCAAGGTTGGATTTGACATCCCCACGACTGATCAAAATGACAC
* ** *
26777 TCATTTGTTATCATGTTGATTTTTTCTGCTTTGGACCTTCGAATTGATTT
66 TCATTTGTTATCATGTTGATCTTCCCTACTTTGGACCTTCGAATTGATTT
26827 GAATACACGT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 94 0.94
122 6 0.06
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (122 bp):
TTGTTTTCGTTTATCTTTTTTCTCAAGGTTGGATTTGACATCCCCACGACTGATCAAAATGACAC
TCATTTGTTATCATGTTGATCTTCCCTACTTTGGACCTTCGAATTGATTTTTTGAAG
Found at i:29375 original size:12 final size:12
Alignment explanation
Indices: 29358--29382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29348 CTCAAACAGA
29358 GAGAATGAACGT
1 GAGAATGAACGT
29370 GAGAATGAACGT
1 GAGAATGAACGT
29382 G
1 G
29383 TTGCATGGCA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:29455 original size:29 final size:29
Alignment explanation
Indices: 29411--29466 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
29401 TCCCAACACA
* *
29411 TAGGTCGTCATTCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
29440 TAGGTCGCCATGCCCTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
29467 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.11, C:0.38, G:0.29, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:29507 original size:33 final size:33
Alignment explanation
Indices: 29470--29544 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
29460 GCGACCTACC
* *
29470 CTCGCTCGGCTT-CCCTCAGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCAGATGCCCTCACATAG
* *
29503 CTCGCTCGGTTGCTCTCGGATGCCCTCACATAG
1 CTCGCTCGGTTGCCCTCAGATGCCCTCACATAG
*
29536 CTCGTTCGG
1 CTCGCTCGG
29545 ATGGCCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 2 0.06
33 34 0.94
ACGTcount: A:0.11, C:0.39, G:0.23, T:0.28
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCAGATGCCCTCACATAG
Found at i:29554 original size:33 final size:32
Alignment explanation
Indices: 29483--29554 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
29473 GCTCGGCTTC
* * * *
29483 CCTCAGATTCCCTCGCATAGCTCGCTCGGTTG
1 CCTCGGATGCCCTCACATAGCTCGCTCGGTGG
*
29515 CTCTCGGATGCCCTCACATAGCTCGTTCGGATGG
1 C-CTCGGATGCCCTCACATAGCTCGCTCGG-TGG
29549 CCTCGG
1 CCTCGG
29555 TCGGATGGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.88
34 3 0.09
ACGTcount: A:0.12, C:0.36, G:0.25, T:0.26
Consensus pattern (32 bp):
CCTCGGATGCCCTCACATAGCTCGCTCGGTGG
Found at i:29558 original size:14 final size:14
Alignment explanation
Indices: 29536--29568 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
29526 CCTCACATAG
*
29536 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
29550 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
29564 CTCGG
1 CTCGG
29569 ATGCCCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:30175 original size:17 final size:18
Alignment explanation
Indices: 30143--30182 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
30133 TCTCTCTGAA
30143 ATTTTAAAATTATTATAT
1 ATTTTAAAATTATTATAT
*
30161 ATTTT-AAATTTTTATAT
1 ATTTTAAAATTATTATAT
30178 ATTTT
1 ATTTT
30183 TGTGAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAAAATTATTATAT
Found at i:32547 original size:25 final size:22
Alignment explanation
Indices: 32516--32583 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
32506 TAAGGAGTTG
*
32516 TAATATTATTAACTATATATTA
1 TAATATTATTAACTATAAATTA
*
32538 TCCTTATATT-TTAAC-ATAAATTA
1 ---TAATATTATTAACTATAAATTA
*
32561 TAATATTATTAACTATAATTTA
1 TAATATTATTAACTATAAATTA
32583 T
1 T
32584 TTATTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.16
21 5 0.14
22 8 0.22
23 7 0.19
24 5 0.14
25 6 0.16
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATATTATTAACTATAAATTA
Found at i:37965 original size:66 final size:66
Alignment explanation
Indices: 37882--38014 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
37872 TTGAAGAGAG
* *
37882 AGATGGTGTTCTTTATCTCGGCTGGATGAATCGAGCCATTGTTGCCTCCTGCGCATGGAGATGTT
1 AGATGGCGTTCTTTATCTCGGCTGGATGAATCGAGCCATTGTCGCCTCCTGCGCATGGAGATGTT
37947 A
66 A
37948 AGATGGCGTTCTTTATCTCGGCTGGATGAATCGAGCCATTGTCGCCTCCTGCGCATGGAGATGTT
1 AGATGGCGTTCTTTATCTCGGCTGGATGAATCGAGCCATTGTCGCCTCCTGCGCATGGAGATGTT
38013 A
66 A
38014 A
1 A
38015 CCGATCGATA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (66 bp):
AGATGGCGTTCTTTATCTCGGCTGGATGAATCGAGCCATTGTCGCCTCCTGCGCATGGAGATGTT
A
Found at i:46821 original size:13 final size:13
Alignment explanation
Indices: 46803--46861 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
46793 TCAAGGTCGC
*
46803 AATAAACGAACAT
1 AATAAACAAACAT
46816 AATAAACAAACAT
1 AATAAACAAACAT
*
46829 AAAGAACAACACAAACAT
1 ----AATAA-ACAAACAT
46847 AATAAACAAACAT
1 AATAAACAAACAT
46860 AA
1 AA
46862 ACGAACAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
13 22 0.58
14 4 0.11
17 4 0.11
18 8 0.21
ACGTcount: A:0.68, C:0.17, G:0.03, T:0.12
Consensus pattern (13 bp):
AATAAACAAACAT
Found at i:46844 original size:18 final size:18
Alignment explanation
Indices: 46821--46877 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
46811 AACATAATAA
46821 ACAAACATAAAGAACAAC
1 ACAAACATAAAGAACAAC
*
46839 ACAAACAT----AATAA-
1 ACAAACATAAAGAACAAC
46852 ACAAACATAAACGAACAAC
1 ACAAACATAAA-GAACAAC
46871 ACAAACA
1 ACAAACA
46878 CACAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
18 12 0.39
19 7 0.23
ACGTcount: A:0.67, C:0.23, G:0.04, T:0.07
Consensus pattern (18 bp):
ACAAACATAAAGAACAAC
Found at i:46849 original size:31 final size:32
Alignment explanation
Indices: 46811--46877 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
46801 GCAATAAACG
46811 AACATAATAAACAAACATAAA-GAACAACACA
1 AACATAATAAACAAACATAAACGAACAACACA
46842 AACATAATAAACAAACATAAACGAACAACACA
1 AACATAATAAACAAACATAAACGAACAACACA
46874 AACA
1 AACA
46878 CACAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.67, C:0.21, G:0.03, T:0.09
Consensus pattern (32 bp):
AACATAATAAACAAACATAAACGAACAACACA
Found at i:47179 original size:26 final size:24
Alignment explanation
Indices: 47129--47193 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
47119 GTCCTCTGTT
*
47129 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACACAAA
**
47153 CGAACATATAATCGAACGTTCAC--A
1 CGAACATA-AAT-GAACGAACACAAA
47177 --AACATAAATGAACGAAC
1 CGAACATAAATGAACGAAC
47194 GAGCCCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 6 0.18
24 9 0.26
25 3 0.09
26 7 0.21
ACGTcount: A:0.52, C:0.20, G:0.12, T:0.15
Consensus pattern (24 bp):
CGAACATAAATGAACGAACACAAA
Found at i:62516 original size:2 final size:2
Alignment explanation
Indices: 62509--62537 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62499 GTTCATATGC
62509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62538 CATACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.