Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008201.1 Hibiscus syriacus cultivar Beakdansim tig00110821_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: 276706
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:206877 original size:34 final size:34
Alignment explanation
Indices: 206839--206921 Score: 166
Period size: 34 Copynumber: 2.4 Consensus size: 34
206829 AACAAAAAGG
206839 GGGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
1 GGGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
206873 GGGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
1 GGGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
206907 GGGAGAAGTGTTAAA
1 GGGAGAAGTGTTAAA
206922 GTAAGGGGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.33
Consensus pattern (34 bp):
GGGAGAAGTGTTAAATGTGTTTTAAATGATAAAT
Found at i:212688 original size:21 final size:21
Alignment explanation
Indices: 212646--212689 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
212636 ACTCCGGGAG
*
212646 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
212667 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
212688 CT
1 CT
212690 CCGGCACCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:213828 original size:65 final size:63
Alignment explanation
Indices: 213735--213894 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 63
213725 AATTAAATCG
* *
213735 AACATCGAATGCATTTCATGCA-CTGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATC-GATGCACA-ACCATGCACCGATGCACTCAGGATATTT-TG
213798 AA
63 -A
* * * *
213800 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTGA
* *
213864 AACATCGAATGCACTTGATGCATTGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
213895 TCTTAGTACA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 29 0.35
65 48 0.57
66 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:231065 original size:33 final size:33
Alignment explanation
Indices: 231027--231092 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
231017 ATGTTGCTTT
231027 CCCTCGCACTATTTGACAACACTTCCCCAACAA
1 CCCTCGCACTATTTGACAACACTTCCCCAACAA
231060 CCCTCGCACTATTTGACAACACTTCCCCAACAA
1 CCCTCGCACTATTTGACAACACTTCCCCAACAA
231093 ACATAGGGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.42, G:0.06, T:0.21
Consensus pattern (33 bp):
CCCTCGCACTATTTGACAACACTTCCCCAACAA
Found at i:233816 original size:20 final size:21
Alignment explanation
Indices: 233791--233842 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
233781 TTTTCCCAAT
*
233791 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
233811 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
233832 TCGCAATGCGA
1 TCGCAATGCGA
233843 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:233856 original size:20 final size:20
Alignment explanation
Indices: 233831--233931 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
233821 AATTGGAAAA
233831 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
233851 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
233871 ATCGCAATACGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
233892 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
233912 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
233932 TTCACAACGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.03
20 50 0.76
21 12 0.18
22 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:233875 original size:61 final size:61
Alignment explanation
Indices: 233828--233944 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
233818 GCGAATTGGA
* * * * **
233828 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATACGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
233889 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCACAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
233945 TTACATAGCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:233932 original size:20 final size:20
Alignment explanation
Indices: 233893--233945 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
233883 TAATACAAAA
* *
233893 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
233913 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
233933 TCACAACGCGATT
1 TCGCAACGCGATT
233946 TACATAGCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:234212 original size:21 final size:21
Alignment explanation
Indices: 234182--234246 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
234172 TCACAGTCAA
234182 AAATCCCTCACAATCATTCAG
1 AAATCCCTCACAATCATTCAG
*
234203 AAATCGCTCACAATCATTCAG
1 AAATCCCTCACAATCATTCAG
234224 AAATCCCTCACAATCATTCAG
1 AAATCCCTCACAATCATTCAG
234245 AA
1 AA
234247 CCGTCCAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.40, C:0.31, G:0.06, T:0.23
Consensus pattern (21 bp):
AAATCCCTCACAATCATTCAG
Found at i:234404 original size:219 final size:219
Alignment explanation
Indices: 234025--234425 Score: 775
Period size: 219 Copynumber: 1.8 Consensus size: 219
234015 ATCGGAAACT
234025 GAACCGTCCACAGTAATCGCAACTCATAACCTCAAACCCAAAATCACAACACTCAGTCCCATCTC
1 GAACCGTCCACAGTAATCGCAACTCATAACCTCAAACCCAAAATCACAACACTCAGTCCCATCTC
* *
234090 CATCTCTCACTCTCTACGGCGAAATCCGTCCCCATCTCCGAAGATTTTCGTCCCCATCGCCGGTG
66 CATCTCTCACTCTCTACGGCGAAATCCGTCCCCATCTCCGAAGATTTCCGTCCCCATCGCCGGCG
234155 AAATCCCTCACAACCATTCACAGTCAAAAATCCCTCACAATCATTCAGAAATCGCTCACAATCAT
131 AAATCCCTCACAACCATTCACAGTCAAAAATCCCTCACAATCATTCAGAAATCGCTCACAATCAT
234220 TCAGAAATCCCTCACAATCATTCA
196 TCAGAAATCCCTCACAATCATTCA
*
234244 GAACCGTCCAGAGTAATCGCAACTCATAACCTCAAACCCAAAATCACAACACTCAGTCCCATCTC
1 GAACCGTCCACAGTAATCGCAACTCATAACCTCAAACCCAAAATCACAACACTCAGTCCCATCTC
234309 CATCTCTCACTCTCTACGGCGAAATCCGTCCCCATCTCCGAAGATTTCCGTCCCCATCGCCGGCG
66 CATCTCTCACTCTCTACGGCGAAATCCGTCCCCATCTCCGAAGATTTCCGTCCCCATCGCCGGCG
234374 AAATCCCTCACAACCATTCACAGTCAAAAATCCCTCACAATCATTCAGAAAT
131 AAATCCCTCACAACCATTCACAGTCAAAAATCCCTCACAATCATTCAGAAAT
234426 GGAAAATCAA
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 179 1.00
ACGTcount: A:0.32, C:0.37, G:0.10, T:0.21
Consensus pattern (219 bp):
GAACCGTCCACAGTAATCGCAACTCATAACCTCAAACCCAAAATCACAACACTCAGTCCCATCTC
CATCTCTCACTCTCTACGGCGAAATCCGTCCCCATCTCCGAAGATTTCCGTCCCCATCGCCGGCG
AAATCCCTCACAACCATTCACAGTCAAAAATCCCTCACAATCATTCAGAAATCGCTCACAATCAT
TCAGAAATCCCTCACAATCATTCA
Found at i:234756 original size:19 final size:19
Alignment explanation
Indices: 234720--234761 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
234710 ATGAGAGAAT
*
234720 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
234739 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
234758 CGCA
1 CGCA
234762 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:234779 original size:19 final size:19
Alignment explanation
Indices: 234757--234835 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
234747 GAAACCAAAA
*
234757 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
234776 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* * * *
234795 TCGCGTTTCAATTCTAATT
1 TCGCGTTGCGATTTTCATT
*
234814 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
234834 TC
1 TC
234836 AACCAAAAGA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
19 32 0.70
20 14 0.30
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:236173 original size:14 final size:14
Alignment explanation
Indices: 236154--236211 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
236144 TTTCATTTCG
236154 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
236168 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
236184 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
236200 CGTTGCGATTTT
1 CGTTGCGATTTT
236212 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:236185 original size:32 final size:33
Alignment explanation
Indices: 236130--236227 Score: 180
Period size: 33 Copynumber: 3.0 Consensus size: 33
236120 CCTGATCGAC
*
236130 TTTGTCGTTGCGATTTTCATTTCGCGTTGCGAT
1 TTTGTCGTTGCGATTTTCATTTCGCATTGCGAT
236163 TTTGTCGTTGCGA-TTTCATTTCGCATTGCGAT
1 TTTGTCGTTGCGATTTTCATTTCGCATTGCGAT
236195 TTTGTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TTTGTCGTTGCGATTTTCATTTCGCATTGCGAT
236228 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.49
33 32 0.51
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTTGTCGTTGCGATTTTCATTTCGCATTGCGAT
Found at i:236246 original size:20 final size:19
Alignment explanation
Indices: 236212--236266 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
236202 TTGCGATTTT
*
236212 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
236231 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
236251 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
236267 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:236774 original size:18 final size:18
Alignment explanation
Indices: 236748--236792 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
236738 GTCGATCAGA
*
236748 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
236766 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
236784 TGATGGCTC
1 TGATGGCTC
236793 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:238167 original size:20 final size:20
Alignment explanation
Indices: 238109--238167 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
238099 AATAGTTTCT
** *
238109 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
*
238129 GAAAATGACTATCACAACGC
1 GAAAATGACTATCGCAACGC
**
238149 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
238168 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:238685 original size:20 final size:20
Alignment explanation
Indices: 238660--238732 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
238650 GATTATGTAT
238660 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
238680 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
238700 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
238720 TATCTCGTTGCGA
1 TATCGCGTTGCGA
238733 TTTTGTATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:238807 original size:20 final size:20
Alignment explanation
Indices: 238782--238834 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
238772 GATTTTCCCA
*
238782 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
238802 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
238822 ATTCGCATTGCGA
1 ATTCGCATTGCGA
238835 ATTGGGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:239986 original size:30 final size:30
Alignment explanation
Indices: 239952--240022 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
239942 GAGGACGGGG
* *
239952 ACGGGGATGTGAAAAACCCATTTATTTCAA
1 ACGGGGACGGGAAAAACCCATTTATTTCAA
* * *
239982 ACGGGGACGGGAAAAATCTATTTATTTTAA
1 ACGGGGACGGGAAAAACCCATTTATTTCAA
240012 ACGGGGACGGG
1 ACGGGGACGGG
240023 GACGAGTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (30 bp):
ACGGGGACGGGAAAAACCCATTTATTTCAA
Found at i:240076 original size:13 final size:13
Alignment explanation
Indices: 240058--240083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
240048 ATTACCCAAA
240058 TACCCGCCCCGAT
1 TACCCGCCCCGAT
240071 TACCCGCCCCGAT
1 TACCCGCCCCGAT
240084 ATCTGACCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (13 bp):
TACCCGCCCCGAT
Found at i:240156 original size:24 final size:26
Alignment explanation
Indices: 240129--240193 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
240119 ATATATATAC
*
240129 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
240153 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
240177 ATATATATATATATATA
1 ATA-ATATAAATATATA
240194 CTCGGCCCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 18 0.53
25 1 0.03
26 1 0.03
27 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:240171 original size:19 final size:19
Alignment explanation
Indices: 240147--240186 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
240137 AATAAATTTA
240147 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
240166 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
240185 AT
1 AT
240187 ATATATACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:240239 original size:12 final size:12
Alignment explanation
Indices: 240191--240244 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
240181 ATATATATAT
* *
240191 ATACTCGGCCCG
1 ATACCCGGCCCA
*
240203 ATTCCCGGCCCA
1 ATACCCGGCCCA
*
240215 ATA-CCGACCCA
1 ATACCCGGCCCA
240226 ATACCCGGCCCA
1 ATACCCGGCCCA
240238 ATACCCG
1 ATACCCG
240245 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.24, C:0.46, G:0.17, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:250960 original size:23 final size:23
Alignment explanation
Indices: 250919--250964 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
250909 ATTTTAAAAT
*
250919 ATTTTAAAAAGAAATATAAATAAA
1 ATTTTAAAAAGAAAGAT-AATAAA
*
250943 ATTTTAAAATG-AAGATAATAAA
1 ATTTTAAAAAGAAAGATAATAAA
250965 TTATAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (23 bp):
ATTTTAAAAAGAAAGATAATAAA
Found at i:251341 original size:17 final size:19
Alignment explanation
Indices: 251308--251343 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
251298 TTGTGCATTC
251308 TTTTAATAAATTTATATAA
1 TTTTAATAAATTTATATAA
251327 TTTTAA-AAA-TTATATAA
1 TTTTAATAAATTTATATAA
251344 AGCATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTAATAAATTTATATAA
Found at i:270565 original size:35 final size:35
Alignment explanation
Indices: 270521--270590 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
270511 GCTTAATGGA
270521 TTTTTTAATATTTAAATTTAAAACAATTAAAGGTT
1 TTTTTTAATATTTAAATTTAAAACAATTAAAGGTT
*
270556 TTTTTTAATATTTAAATTTGAAACAATTAAAGGTT
1 TTTTTTAATATTTAAATTTAAAACAATTAAAGGTT
270591 AAGTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (35 bp):
TTTTTTAATATTTAAATTTAAAACAATTAAAGGTT
Found at i:273578 original size:2 final size:2
Alignment explanation
Indices: 273571--273596 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
273561 TAATAAGGTG
273571 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
273597 ATTTTATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.