Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006314.1 Hibiscus syriacus cultivar Beakdansim tig00015087_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: 77488
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:3167 original size:83 final size:82
Alignment explanation
Indices: 3065--3422 Score: 317
Period size: 83 Copynumber: 4.3 Consensus size: 82
3055 GTACACGTTT
* * * *
3065 TTGCGGCGTTTTTTTTAAAAACGCCACTATAAACAAACATATGGCGGCGTTTGTTCTACAAACG-
1 TTGCGGCATTTTTTGTAAAAACGCCACTATAAACAAACCTATTGCGGCGTTT-TTCTACAAACGC
*
3129 TCGCTAAATTATTAATCTA
65 T-GCTAAATTACTAATCTA
* * *
3148 TTGTGGCATTTTTTGTAAAAAAACGTCGCTATAAACAAACCTATTGCGGCGTTTGTT-TA-ATAA
1 TTGCGGCATTTTTTGT--AAAAACGCCACTATAAACAAACCTATTGCGGCGTTT-TTCTACA-AA
* *
3211 GCGCTGCTAAATTAATTATCTA
62 -CGCTGCTAAATTACTAATCTA
* * * * * * * * * * *
3233 TAGCGTCGTTTGTTGGACAAACGCCACTATAAACAACCCTGTTGCGGCATTTTTATACAAATGCT
1 TTGCGGCATTTTTTGTAAAAACGCCACTATAAACAAACCTATTGCGGCGTTTTTCTACAAACGCT
*
3298 GCTAAATTACTACTCTA
66 GCTAAATTACTAATCTA
* * * * * * * *
3315 TTGCGGCGTTTATTGAAAAAACGCCACTGTAAACAAATCTATTCCGGCGTTTTAGCTATAAACGC
1 TTGCGGCATTTTTTGTAAAAACGCCACTATAAACAAACCTATTGCGGCGTTTT-TCTACAAACGC
* * *
3380 CGCTAAATTACCACTCTA
65 TGCTAAATTACTAATCTA
*
3398 TTGTGGCATTTTTTGTAAAAACGCC
1 TTGCGGCATTTTTTGTAAAAACGCC
3423 GGTAAAGTAT
Statistics
Matches: 221, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
82 61 0.28
83 92 0.42
84 5 0.02
85 62 0.28
86 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (82 bp):
TTGCGGCATTTTTTGTAAAAACGCCACTATAAACAAACCTATTGCGGCGTTTTTCTACAAACGCT
GCTAAATTACTAATCTA
Found at i:5644 original size:14 final size:15
Alignment explanation
Indices: 5625--5654 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5615 TAAACTCAAT
5625 AATAAACAA-ATAAA
1 AATAAACAATATAAA
5639 AATAAACAATATAAA
1 AATAAACAATATAAA
5654 A
1 A
5655 TTATTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAACAATATAAA
Found at i:9941 original size:2 final size:2
Alignment explanation
Indices: 9928--9967 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9918 CAGAACTGAC
*
9928 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9968 TTGCGCGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21605 original size:27 final size:27
Alignment explanation
Indices: 21575--21652 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
21565 TTGACATGCC
* * *
21575 TCTGTTGCTCCCTTGGATCAGG-ATATT
1 TCTGTTGATCCCTAGAATC-GGCATATT
*
21602 TCTGTTGGTCCCTAGAATCGGCATATT
1 TCTGTTGATCCCTAGAATCGGCATATT
*
21629 TCTGTTGATCCCTCGAATCGGCAT
1 TCTGTTGATCCCTAGAATCGGCAT
21653 GCCTCCGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGTTGATCCCTAGAATCGGCATATT
Found at i:21662 original size:27 final size:27
Alignment explanation
Indices: 21605--21668 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
21595 GGATATTTCT
** *
21605 GTTGGTCCCTAGAATCGGCATATTTCT
1 GTTGGTCCCTAGAATCGGCATACCTCC
* * *
21632 GTTGATCCCTCGAATCGGCATGCCTCC
1 GTTGGTCCCTAGAATCGGCATACCTCC
21659 GTTGGTCCCT
1 GTTGGTCCCT
21669 TGGATCTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.14, C:0.30, G:0.23, T:0.33
Consensus pattern (27 bp):
GTTGGTCCCTAGAATCGGCATACCTCC
Found at i:21681 original size:27 final size:27
Alignment explanation
Indices: 21629--21771 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
21619 TCGGCATATT
* * **
21629 TCTGTTGATCCCTCGAATCGGCATGCC
1 TCTGTTGGTCCCTCGGATCTACATGCC
* * * *
21656 TCCGTTGGTCCCTTGGATCTAAATGCT
1 TCTGTTGGTCCCTCGGATCTACATGCC
*
21683 TCTGTTGGTCCCTTGGATCTACATGCC
1 TCTGTTGGTCCCTCGGATCTACATGCC
*
21710 TGTGTTGGTCCCTCGGATCTACATGCC
1 TCTGTTGGTCCCTCGGATCTACATGCC
* * * * *
21737 TGTGTTGGTCTCTCGGATCAACATACA
1 TCTGTTGGTCCCTCGGATCTACATGCC
21764 TCTGTTGG
1 TCTGTTGG
21772 CTTCTCCAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.14, C:0.27, G:0.24, T:0.35
Consensus pattern (27 bp):
TCTGTTGGTCCCTCGGATCTACATGCC
Found at i:29700 original size:181 final size:181
Alignment explanation
Indices: 29345--29817 Score: 655
Period size: 181 Copynumber: 2.6 Consensus size: 181
29335 GATCCAAATT
* * *
29345 AAAAATATGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAA-TATGATAAAACCGGTA-ACAAAATGAT
* * * * * * *
29409 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAATGATCGACACTT
64 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
29474 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAATTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAATTGTCGATACTTTAA
* * * *
29527 AAAAATGTATCGATCCAAAACTATATACCAGGTAAATATATGATAAAACCAGTAACAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAA-ATATGATAAAACCGGTAACAAAATGATA
* *
29592 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
**
29656 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTAT-AATGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAT-TGTCGATACTTTAA
* *
29708 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGT-AAAATATGATAAAACCGGTAACAAAATGATA
* *
29773 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
29818 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
180 3 0.01
181 158 0.61
182 96 0.37
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (181 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAATATGATAAAACCGGTAACAAAATGATAA
AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAATTGTCGATACTTTAA
Found at i:29761 original size:20 final size:19
Alignment explanation
Indices: 29738--29784 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
29728 CGATATAACA
29738 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
29758 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
29778 GGTAAAA
1 GGTAAAA
29785 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:29786 original size:17 final size:19
Alignment explanation
Indices: 29747--29789 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
29737 AGGTAAAAAT
29747 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
29767 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
29784 ATGATA
1 ATGATA
29790 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:32047 original size:21 final size:21
Alignment explanation
Indices: 32020--32084 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
32010 AAGACAATCA
*
32020 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
32041 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
32062 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
32083 AG
1 AG
32085 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:32159 original size:32 final size:32
Alignment explanation
Indices: 32118--32178 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
32108 AAATAGATGG
*
32118 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
32150 AGTGGTGAAAGAAGTTGGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
32179 GTGATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:33996 original size:19 final size:19
Alignment explanation
Indices: 33972--34020 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
33962 AATGTAGGGT
33972 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
33991 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
34010 TATTTTTGTAT
1 TAATTTTGTAT
34021 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:34631 original size:198 final size:198
Alignment explanation
Indices: 34139--35305 Score: 2081
Period size: 198 Copynumber: 5.9 Consensus size: 198
34129 CAATATGGCC
* * * *
34139 AACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAAGTGTCAATCCCAAAAACATGGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
34203 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
34268 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
34333 TGGAA
194 TGGAA
** *
34338 AACAGTTTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCACAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34403 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
34468 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
34533 GAA
196 GAA
34536 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34601 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
34666 AATATATATAAATAATATGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
34731 GAA
196 GAA
* *
34734 AACAGGGTACACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAGTCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
34799 CAAAAGTATAATGTAATATGTAATTTTTCGATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
34864 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
34929 GAA
196 GAA
* *
34932 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34997 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
35062 AATATGTATAAATAATGTGTCGACACGT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
131 AATATGTATAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
35126 TGGAA
194 TGGAA
35131 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
35196 CAAAAGTATAAAGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35261 AATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
131 AATATGTATAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
35306 CTAATTTAAA
Statistics
Matches: 935, Mismatches: 30, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
198 594 0.64
199 319 0.34
200 22 0.02
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:36789 original size:12 final size:12
Alignment explanation
Indices: 36772--36854 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
36762 GGTCGCAGAA
*
36772 GATGAAGCTGAC
1 GATGAAGATGAC
36784 GATGAAGATGAC
1 GATGAAGATGAC
*
36796 GATGATGATGAC
1 GATGAAGATGAC
* *
36808 GATGAAGCTGGC
1 GATGAAGATGAC
*
36820 GATGAAGATGAT
1 GATGAAGATGAC
* * *
36832 GACGATGATGAT
1 GATGAAGATGAC
*
36844 GATGATGATGA
1 GATGAAGATGA
36855 ACATGATGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:36790 original size:18 final size:18
Alignment explanation
Indices: 36769--36830 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
36759 AGCGGTCGCA
36769 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
36787 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
36805 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
36823 GAAGATGA
1 GAAGATGA
36831 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:36793 original size:6 final size:6
Alignment explanation
Indices: 36769--36860 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
36759 AGCGGTCGCA
* * * * * *
36769 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * * *
36817 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAACAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
36861 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.37, C:0.09, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:36823 original size:36 final size:36
Alignment explanation
Indices: 36772--36848 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
36762 GGTCGCAGAA
*
36772 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
36808 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
36844 GATGA
1 GATGA
36849 TGATGAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:36852 original size:9 final size:9
Alignment explanation
Indices: 36784--36864 Score: 63
Period size: 9 Copynumber: 9.0 Consensus size: 9
36774 TGAAGCTGAC
*
36784 GATGAAGAT
1 GATGATGAT
*
36793 GACGATGAT
1 GATGATGAT
*
36802 GATGACGAT
1 GATGATGAT
* * **
36811 GAAGCTGGC
1 GATGATGAT
*
36820 GATGAAGAT
1 GATGATGAT
*
36829 GATGACGAT
1 GATGATGAT
36838 GATGATGAT
1 GATGATGAT
*
36847 GATGATGAA
1 GATGATGAT
*
36856 CATGATGAT
1 GATGATGAT
36865 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.23
Consensus pattern (9 bp):
GATGATGAT
Found at i:38640 original size:183 final size:183
Alignment explanation
Indices: 38365--39036 Score: 1202
Period size: 183 Copynumber: 3.7 Consensus size: 183
38355 GCAATGCTAT
*
38365 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
38430 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTGTTAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATT-TAAAAAAGTATCGAC
* *
38494 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
38548 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
38613 GTGTTGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
38678 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
38731 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
38796 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
38861 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
* * * * *
38914 CGGTATAAATATACCAGTTTTATGAGTGAATAGGTCTACAACCTATTTCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
38979 GTGTCGGTACTTTATGTCCAAATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
66 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGT
39037 GTCGGTAATT
Statistics
Matches: 473, Mismatches: 15, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
183 470 0.99
184 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:41539 original size:25 final size:25
Alignment explanation
Indices: 41505--41569 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
41495 TTATCATTAA
41505 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
41530 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
41555 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
41570 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:41972 original size:23 final size:22
Alignment explanation
Indices: 41915--41991 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
41905 ATAGGTAAAC
41915 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
41938 ATATATGTAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCGCTT
* *
41960 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGCGCTT
41983 ATAT-TGTAA
1 ATATATGTAA
41992 AGTGTCTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.10
22 20 0.42
23 23 0.48
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:42432 original size:23 final size:23
Alignment explanation
Indices: 42401--42473 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
42391 ATAGGTAAAC
*
42401 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
42424 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
42447 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
42470 ATAT
1 ATAT
42474 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:42595 original size:488 final size:485
Alignment explanation
Indices: 41569--42640 Score: 2036
Period size: 486 Copynumber: 2.2 Consensus size: 485
41559 AGGTATATAC
41569 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
41634 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGG--TATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
41699 TTTGGTTAATGTTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAAATAA
128 TTTGGTTAATGTTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAAATAA
41764 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAA
193 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAA
41829 AATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
258 AATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
41894 CTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATATGTAATAGGTATCGTT
323 CTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATATGTAATAGGTATCGTT
41959 TATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC
388 TATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC
*
42024 TTTTTTCACTGTGGAAAACATTAATTTAAGGTT
453 TTTTTTCACTGTGGAAAACATTAATTTAAAGTT
42057 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
42122 GTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 GTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
42187 GGTTAATGTTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATT
131 GGTTAATGTTGTTAAATTTAAATTCT-AATAATATTTTATAAAATATCAAAACAATCAAATAATT
42252 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAA
195 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAA
42317 TTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
260 TTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
42382 TTCAATATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
325 TTCAATATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATAT-ATGTAATAGGTATCGTTT
42447 ATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACT
389 ATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC-
42512 TTTTTTCACTGTGGAAAACATTAATTTAAAGTT
453 TTTTTTCACTGTGGAAAACATTAATTTAAAGTT
*
42545 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
42610 GTTACGATATATATTTTTATTAAATTAAAAA
66 GTTACGGTATATA---TTATTAAATTAAAAA
42641 TTCTAAATAT
Statistics
Matches: 575, Mismatches: 3, Indels: 9
0.98 0.01 0.02
Matches are distributed among these distances:
485 80 0.14
486 218 0.38
487 82 0.14
488 180 0.31
491 15 0.03
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (485 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
GGTTAATGTTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAAT
TGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
TCAATATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATATGTAATAGGTATCGTTTAT
ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
TTTCACTGTGGAAAACATTAATTTAAAGTT
Found at i:42777 original size:25 final size:25
Alignment explanation
Indices: 42743--42799 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
42733 ACAACAAATC
* *
42743 AATTAAACATTGTTGTGGGTACATT
1 AATTGAACATTGTTATGGGTACATT
42768 AATTGAACATTGTTATGGGTACATT
1 AATTGAACATTGTTATGGGTACATT
*
42793 ATTTGAA
1 AATTGAA
42800 AAAATAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (25 bp):
AATTGAACATTGTTATGGGTACATT
Found at i:43203 original size:18 final size:18
Alignment explanation
Indices: 43182--43218 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43172 GTAATTGGAG
43182 TTTGAATTTCAATTTCAA
1 TTTGAATTTCAATTTCAA
* *
43200 TTTGAGTTTGAATTTCAA
1 TTTGAATTTCAATTTCAA
43218 T
1 T
43219 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTCAATTTCAA
Found at i:43226 original size:24 final size:24
Alignment explanation
Indices: 43174--43220 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
43164 TTTCATATGT
* *
43174 AATTGGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATC
43198 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTCAATAT
43221 ATATTTCGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATC
Found at i:43520 original size:39 final size:39
Alignment explanation
Indices: 43477--43563 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
43467 TCCGATGCTC
*
43477 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
43516 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
43555 ATCAAAATC
1 ATCAAAATC
43564 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:43999 original size:23 final size:23
Alignment explanation
Indices: 43968--44040 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
43958 ATAGGTAAAC
*
43968 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
43991 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
44014 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
44037 ATAT
1 ATAT
44041 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:44882 original size:22 final size:23
Alignment explanation
Indices: 44847--44889 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
44837 TATTGTACTT
**
44847 TATAATATTTCCGGT-TAAATAA
1 TATAATATAACCGGTCTAAATAA
44869 TATAATATAACCGGTCTAAAT
1 TATAATATAACCGGTCTAAAT
44890 TTTAGCCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (23 bp):
TATAATATAACCGGTCTAAATAA
Found at i:48475 original size:24 final size:24
Alignment explanation
Indices: 48448--48493 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
48438 TAATTTTTAT
48448 TGGGTTATAT-ATTTAATGAGTTAG
1 TGGGTTA-ATCATTTAATGAGTTAG
*
48472 TGGGTTAATCATTTATTGAGTT
1 TGGGTTAATCATTTAATGAGTT
48494 TAAATGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (24 bp):
TGGGTTAATCATTTAATGAGTTAG
Found at i:59278 original size:12 final size:13
Alignment explanation
Indices: 59249--59279 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
59239 GTATCTACCT
59249 TAAAAACAACAAG
1 TAAAAACAACAAG
59262 TAAAAACAACAAG
1 TAAAAACAACAAG
59275 -AAAAA
1 TAAAAA
59280 TCCAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.74, C:0.13, G:0.06, T:0.06
Consensus pattern (13 bp):
TAAAAACAACAAG
Found at i:63027 original size:56 final size:55
Alignment explanation
Indices: 62958--63139 Score: 301
Period size: 56 Copynumber: 3.3 Consensus size: 55
62948 CCCTATTTTC
*
62958 TAGATATATTCGATTTCGGGCCTCCTATTTTTATGCTTCTTAATGGCAACAACTGA
1 TAGATATACTCGATTTCGGGCC-CCTATTTTTATGCTTCTTAATGGCAACAACTGA
*
63014 TAGATATACTCGATTTCGGAGCCCCTATTTTTATGATTCTTAATGGCAACAACTGA
1 TAGATATACTCGATTTCGG-GCCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
* *
63070 TAGATATACTGGATTTCGGGGCCCCTATTTTTATGCTTATTAATGGCAACAACTGA
1 TAGATATACTCGATTTC-GGGCCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
63126 TAGATATACTCGAT
1 TAGATATACTCGAT
63140 CCCTACTCGA
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
56 113 0.96
57 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (55 bp):
TAGATATACTCGATTTCGGGCCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
Found at i:73821 original size:20 final size:20
Alignment explanation
Indices: 73796--73883 Score: 149
Period size: 20 Copynumber: 4.4 Consensus size: 20
73786 CCGACTATCA
73796 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
*
73816 CAATGCGAGTATGTAAATCG
1 CAATGCGAATATGTAAATCG
**
73836 CAATGCGAATATGTAAATTA
1 CAATGCGAATATGTAAATCG
73856 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
73876 CAATGCGA
1 CAATGCGA
73884 TTCTGACTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
CAATGCGAATATGTAAATCG
Found at i:74752 original size:24 final size:24
Alignment explanation
Indices: 74720--74773 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
74710 GTATTCGAAA
74720 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
74744 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
74768 TTTGAT
1 TTTGAT
74774 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:77060 original size:18 final size:18
Alignment explanation
Indices: 77037--77071 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77027 AGAAAAAGGC
*
77037 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
77055 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
77072 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:77435 original size:20 final size:20
Alignment explanation
Indices: 77410--77458 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
77400 TAACTCAAAA
* *
77410 ATCGCAACGCGGATTTGACT
1 ATCGCAACGCGAATATGACT
*
77430 ATCGCAACACGAATATGACT
1 ATCGCAACGCGAATATGACT
77450 ATCGCAACG
1 ATCGCAACG
77459 AAAAAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAATATGACT
Found at i:77453 original size:54 final size:54
Alignment explanation
Indices: 77368--77488 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
77358 TTACACATTC
* * * * * * ** *
77368 ATTTGAATATCACAACGCGAATTTGATTATCGTAACTCAAAAATCGCAACGCGG
1 ATTTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGA
77422 ATTTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGA
*
77476 ATTTGTCTATCGC
1 ATTTGACTATCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (54 bp):
ATTTGACTATCGCAACACGAATATGACTATCGCAACGAAAAAATCGCAACGCGA
Done.