Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008093.1 Hibiscus syriacus cultivar Beakdansim tig00110609_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: 75264
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Found at i:1932 original size:100 final size:103
Alignment explanation
Indices: 1812--2015 Score: 308
Period size: 100 Copynumber: 2.0 Consensus size: 103
1802 AATTTTAACT
* * *
1812 AGTCACATATTTGTTAAAAAAATCCAAACATGTATAACACATTGCAAA-ATAATGGATGTTGTTT
1 AGTCACATATTTGATAAAAAAATCCAAACATGTATAACAAATTGCAAATAAAATGGATGTTGTTT
1876 ATAGGTAGTAAAG-TATATATT-AAATGGTATGAGGTA
66 ATAGGTAGTAAAGATATATATTAAAATGGTATGAGGTA
*
1912 AGTCACATATTTCGAT-AAAAAATCCAAACATGTATAACAAATTTCAAATAAAATGGATGTTGTT
1 AGTCACATATTT-GATAAAAAAATCCAAACATGTATAACAAATTGCAAATAAAATGGATGTTGTT
* *
1976 TATAGGTCGTAAAGTATATATATTAAAATGGTTTGAGGTA
65 TATAGGTAGTAAAG-ATATATATTAAAATGGTATGAGGTA
2016 GCGAGGGTGG
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
100 42 0.45
101 29 0.31
103 8 0.09
104 14 0.15
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (103 bp):
AGTCACATATTTGATAAAAAAATCCAAACATGTATAACAAATTGCAAATAAAATGGATGTTGTTT
ATAGGTAGTAAAGATATATATTAAAATGGTATGAGGTA
Found at i:3651 original size:33 final size:34
Alignment explanation
Indices: 3613--3676 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
3603 TGTGTGCTTG
3613 GTTCGTTTA-GTTCACGAACAAACTCATTTATGA
1 GTTCGTTTATGTTCACGAACAAACTCATTTATGA
* * *
3646 GTTCGTTTATGTTCATGAACAAGCTCGTTTA
1 GTTCGTTTATGTTCACGAACAAACTCATTTA
3677 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (34 bp):
GTTCGTTTATGTTCACGAACAAACTCATTTATGA
Found at i:3796 original size:189 final size:193
Alignment explanation
Indices: 3558--3940 Score: 695
Period size: 191 Copynumber: 2.0 Consensus size: 193
3548 ACGAGTATAA
3558 ACAAAAATTTTATGTTCGTTTAATAAACGAATGAATACAAACATATGTGTGCTTGGTTCGTTTAG
1 ACAAAAATTTTATGTTCGTTTAATAAACGAATGAATACAAACATATGTGTGCTTGGTTCGTTTAG
3623 TTCACGAACAAACTCATTTATGAGTTCG-TT-TATGTTCATGAACAAGCTCGTTTAA-TTTTTTT
66 TTCACGAACAAACTCATTTATG-GTTCGTTTATATGTTCATGAACAAGCTCGTTTAATTTTTTTT
3685 ATATTTTAAATATCAGTGAAGGTACATATTAAATTAAATACACGGTAAAACATGGAGTTTAAAT
130 ATATTTTAAATATCAGTGAAGGTACATATTAAATTAAATACACGGTAAAACATGGAGTTTAAAT
*
3749 ACAAACATTTTATGTTCG-TTAAT-AACGAATGAATACAAACATATGTGTGCTTGGTTCGTTTAG
1 ACAAAAATTTTATGTTCGTTTAATAAACGAATGAATACAAACATATGTGTGCTTGGTTCGTTTAG
* *
3812 TTCACGAACAAACTCATTTATGTTTCGTTTATATGTTCATGAACAAGTTCGTTTAATTTTTTTTA
66 TTCACGAACAAACTCATTTATGGTTCGTTTATATGTTCATGAACAAGCTCGTTTAATTTTTTTTA
3877 TATTTTAAATATCAGTGAAGGTACATATTAAATTAAATACACGGTAAAACATGGAGTTTAAAT
131 TATTTTAAATATCAGTGAAGGTACATATTAAATTAAATACACGGTAAAACATGGAGTTTAAAT
3940 A
1 A
3941 ATAATACTAA
Statistics
Matches: 186, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
188 4 0.02
189 64 0.34
190 29 0.16
191 89 0.48
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (193 bp):
ACAAAAATTTTATGTTCGTTTAATAAACGAATGAATACAAACATATGTGTGCTTGGTTCGTTTAG
TTCACGAACAAACTCATTTATGGTTCGTTTATATGTTCATGAACAAGCTCGTTTAATTTTTTTTA
TATTTTAAATATCAGTGAAGGTACATATTAAATTAAATACACGGTAAAACATGGAGTTTAAAT
Found at i:5041 original size:19 final size:19
Alignment explanation
Indices: 5017--5059 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5007 TGTACCCAAT
*
5017 AATCTAG-TTTCTAACCTAA
1 AATCTAGATTTC-AAACTAA
5036 AATCTAGATTTCAAACTAA
1 AATCTAGATTTCAAACTAA
5055 AATCT
1 AATCT
5060 GAATTCCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCTAGATTTCAAACTAA
Found at i:5073 original size:19 final size:19
Alignment explanation
Indices: 5029--5176 Score: 127
Period size: 19 Copynumber: 7.5 Consensus size: 19
5019 TCTAGTTTCT
* *
5029 AACCTAAAATCTAGATTTC
1 AACCTAAAATCTGGATTCC
* *
5048 AAACTAAAATCTGAATTCC
1 AACCTAAAATCTGGATTCC
*
5067 AACCTAACTTAAAATTTGGATTCC
1 AA-C---C-TAAAATCTGGATTCC
* * *
5091 AACTTAAAATCTAGTTTCC
1 AACCTAAAATCTGGATTCC
*
5110 AACCTAAAATTTGGATTCC
1 AACCTAAAATCTGGATTCC
*
5129 AACC-CAAATCTGGATTCCC
1 AACCTAAAATCTGGATT-CC
* *
5148 AACCTAAAATTTGGATTTC
1 AACCTAAAATCTGGATTCC
5167 AACCTAAAAT
1 AACCTAAAAT
5177 ATTAGGTTCT
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
18 10 0.10
19 65 0.64
20 10 0.10
23 2 0.02
24 15 0.15
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (19 bp):
AACCTAAAATCTGGATTCC
Found at i:5345 original size:112 final size:112
Alignment explanation
Indices: 5147--5369 Score: 421
Period size: 112 Copynumber: 2.0 Consensus size: 112
5137 TCTGGATTCC
5147 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
1 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
5212 TATTAATTTTCATTATGATATTTAATTTAATGTGTTTTTTCTTTTATG
66 TATTAATTTTCATTATGATATTTAATTTAATGT-TTTTTTCTTTTATG
5260 CAACCTAAAATTTGGATTTCAACCTAAAATA-TAGGTTCTGAATATCTAGTTTTATTTCATTATT
1 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
*
5324 TATTAATTTTTATTATGATATTTAATTTAATGTTTTTTTCTTTTAT
66 TATTAATTTTCATTATGATATTTAATTTAATGTTTTTTTCTTTTAT
5370 AAAGTTTAGG
Statistics
Matches: 109, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
111 13 0.12
112 65 0.60
113 31 0.28
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.52
Consensus pattern (112 bp):
CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
TATTAATTTTCATTATGATATTTAATTTAATGTTTTTTTCTTTTATG
Found at i:11175 original size:32 final size:33
Alignment explanation
Indices: 11139--11203 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
11129 ATTGTCCTAT
11139 TAAAATTACTTGTCTTGGTAG-TCTATCTAAGG
1 TAAAATTACTTGTCTTGGTAGTTCTATCTAAGG
*
11171 TAAAATTACTTGTCTTGGTAGTTCTGTCTAAGG
1 TAAAATTACTTGTCTTGGTAGTTCTATCTAAGG
11204 AGAGTTAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (33 bp):
TAAAATTACTTGTCTTGGTAGTTCTATCTAAGG
Found at i:17012 original size:23 final size:23
Alignment explanation
Indices: 16986--17060 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
16976 TAACATGCTT
*
16986 ACGAACATGTTCATAAACGCTAA
1 ACGAACATGTTCATAAACGTTAA
17009 ACGAACATGTTCATAAACGTTAA
1 ACGAACATGTTCATAAACGTTAA
17032 ACGAACATGTTCATAAACGTTAA
1 ACGAACATGTTCATAAACGTTAA
17055 ACGAAC
1 ACGAAC
17061 GCTAAACGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (23 bp):
ACGAACATGTTCATAAACGTTAA
Found at i:17068 original size:34 final size:34
Alignment explanation
Indices: 17024--17104 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
17014 CATGTTCATA
* *
17024 AACGTTAAACGAACATGTTCATAAACGTTAAACG
1 AACGCTAAACGAACATGTTCACAAACGTTAAACG
* * *
17058 AACGCTAAACGAACATGTTTACAAATGTTAAATG
1 AACGCTAAACGAACATGTTCACAAACGTTAAACG
17092 AACGCTAAACGAA
1 AACGCTAAACGAA
17105 TGTTAAATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (34 bp):
AACGCTAAACGAACATGTTCACAAACGTTAAACG
Found at i:17121 original size:22 final size:22
Alignment explanation
Indices: 17081--17127 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17071 CATGTTTACA
*
17081 AATGTTAAATGAACGCTAAACG
1 AATGTTAAATGAACACTAAACG
* *
17103 AATGTTAAATGAGCACTAAATG
1 AATGTTAAATGAACACTAAACG
17125 AAT
1 AAT
17128 ACATTCACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (22 bp):
AATGTTAAATGAACACTAAACG
Found at i:18902 original size:31 final size:32
Alignment explanation
Indices: 18831--18921 Score: 107
Period size: 31 Copynumber: 2.9 Consensus size: 32
18821 GAATGACCTA
* *
18831 TCCATATGTTCC-GAAGAACATATGTAACACTG
1 TCCATATG-TCCTGAAGGACATAGGTAACACTG
18863 TCCATATGTCCTGAAGGACATAGGTAA-ACTG
1 TCCATATGTCCTGAAGGACATAGGTAACACTG
* *
18894 TCCGTATGT-CTCGAAAGACATAGGTAAC
1 TCCATATGTCCT-GAAGGACATAGGTAAC
18922 CCTCGACTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.04
31 29 0.56
32 21 0.40
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (32 bp):
TCCATATGTCCTGAAGGACATAGGTAACACTG
Found at i:23667 original size:17 final size:18
Alignment explanation
Indices: 23647--23682 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23637 ATTTAGGGTA
23647 ATTTAAG-ATTTTTTATT
1 ATTTAAGAATTTTTTATT
*
23664 ATTTTAGAATTTTTTATT
1 ATTTAAGAATTTTTTATT
23682 A
1 A
23683 ATGAAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
ATTTAAGAATTTTTTATT
Found at i:26542 original size:37 final size:36
Alignment explanation
Indices: 26478--26549 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
26468 AATCAGAGGA
26478 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
1 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
26514 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
1 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
26550 CTGAATTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (36 bp):
AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
Found at i:36638 original size:31 final size:31
Alignment explanation
Indices: 36612--36722 Score: 195
Period size: 31 Copynumber: 3.6 Consensus size: 31
36602 TCCATAGATT
*
36612 CCGAAGAACCTAGGTAAATAGTCCATATGTC
1 CCGAAGAACATAGGTAAATAGTCCATATGTC
36643 CCGAAGAACATAGGTAAATAGTCCATATGTC
1 CCGAAGAACATAGGTAAATAGTCCATATGTC
* *
36674 CCGAAGAACATAGGTAAACAATCCATATGTC
1 CCGAAGAACATAGGTAAATAGTCCATATGTC
36705 CCGAAGAACATAGGTAAA
1 CCGAAGAACATAGGTAAA
36723 CTCTCAACCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAATAGTCCATATGTC
Found at i:36723 original size:31 final size:31
Alignment explanation
Indices: 36599--36723 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
36589 CCCGAAGGAC
* *
36599 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
36630 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
36661 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
36692 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
36723 C
1 C
36724 TCTCAACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:38083 original size:3 final size:3
Alignment explanation
Indices: 38075--38115 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
38065 TCTCGTACAT
* *
38075 GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAT GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
38116 GAATATCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:40772 original size:31 final size:31
Alignment explanation
Indices: 40734--40858 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
40724 CCCGAAGGAC
* *
40734 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
40765 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40796 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40827 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40858 C
1 C
40859 CCTCGACCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:43161 original size:14 final size:14
Alignment explanation
Indices: 43142--43168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43132 AAATCTTCAG
43142 CAAAAACCTTTCTC
1 CAAAAACCTTTCTC
43156 CAAAAACCTTTCT
1 CAAAAACCTTTCT
43169 GAAGCTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
CAAAAACCTTTCTC
Found at i:45898 original size:28 final size:28
Alignment explanation
Indices: 45858--45924 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
45848 TATTAATAAC
45858 CATATATTTAACTAAACTCAAATTCATA
1 CATATATTTAACTAAACTCAAATTCATA
*
45886 CATATATTTAACTAAATTCAAATTCATA
1 CATATATTTAACTAAACTCAAATTCATA
45914 CATATATTTAA
1 CATATATTTAA
45925 AATATTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (28 bp):
CATATATTTAACTAAACTCAAATTCATA
Found at i:48453 original size:17 final size:17
Alignment explanation
Indices: 48423--48465 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
48413 TGCATAAAGT
*
48423 TAGTTTATTGATTAAAC
1 TAGTTCATTGATTAAAC
*
48440 TAGTTCATTTATTAAAC
1 TAGTTCATTGATTAAAC
48457 TAGTTCATT
1 TAGTTCATT
48466 AACCAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (17 bp):
TAGTTCATTGATTAAAC
Found at i:48473 original size:17 final size:17
Alignment explanation
Indices: 48436--48476 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
48426 TTTATTGATT
* **
48436 AAACTAGTTCATTTATT
1 AAACTAGTTCATTAACC
48453 AAACTAGTTCATTAACC
1 AAACTAGTTCATTAACC
48470 AAACTAG
1 AAACTAG
48477 CTCCTAAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (17 bp):
AAACTAGTTCATTAACC
Found at i:55881 original size:24 final size:23
Alignment explanation
Indices: 55833--55878 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
55823 TTATAAAAAA
55833 ATATGTCTTTGTGACACGCTTTT
1 ATATGTCTTTGTGACACGCTTTT
55856 ATATG-CTCTTGTGACACGCTTTT
1 ATATGTCT-TTGTGACACGCTTTT
55879 TATCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (23 bp):
ATATGTCTTTGTGACACGCTTTT
Found at i:56514 original size:50 final size:50
Alignment explanation
Indices: 56439--56549 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
56429 GTAGCAGTAA
* * * *
56439 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCAAGTGGGTAT
1 AGCGCACCCCCTGAACCGCGATATACGCTGATTCGACGCCAAGTGGGTAT
** * * *
56489 AGCGCACCCCCTGTCCCGCGATATACGGTGATTCGACGCTACGTGGGTAT
1 AGCGCACCCCCTGAACCGCGATATACGCTGATTCGACGCCAAGTGGGTAT
*
56539 AGCGCCCCCCC
1 AGCGCACCCCC
56550 GATTCGTGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (50 bp):
AGCGCACCCCCTGAACCGCGATATACGCTGATTCGACGCCAAGTGGGTAT
Found at i:56798 original size:17 final size:17
Alignment explanation
Indices: 56756--56794 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
56746 TTACTATTAT
*
56756 GTATTTAATTTATTTAA
1 GTATTTACTTTATTTAA
56773 GTATTTACTTTATTTAA
1 GTATTTACTTTATTTAA
56790 -TATTT
1 GTATTT
56795 TACTAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTACTTTATTTAA
Found at i:59229 original size:35 final size:33
Alignment explanation
Indices: 59190--59274 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
59180 ATATTTCAGT
59190 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
* *
59225 TAATTTGGTTATCATTTACCATTTTATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
59260 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
59275 TAAATACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 3 0.07
38 11 0.26
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:64152 original size:21 final size:20
Alignment explanation
Indices: 64118--64156 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
64108 CTTTATATTA
*
64118 TTAAAAATATATTTATAAAGC
1 TTAAAAATACATTT-TAAAGC
*
64139 TTAAATATACATTTTAAA
1 TTAAAAATACATTTTAAA
64157 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TTAAAAATACATTTTAAAGC
Found at i:64213 original size:46 final size:40
Alignment explanation
Indices: 64139--64226 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 40
64129 TTTATAAAGC
* *
64139 TTAAATATACATTTTAAATATTTTAAAAAATTGAAATTTA
1 TTAAATATACATTTTAAATATTTTAAAAAATTAAAATATA
64179 TTAAATATACATTTTAAAATTACTTGATTAAAAAAATTAAAATATA
1 TTAAATATACATTTT-AAA-TA-TT--TT-AAAAAATTAAAATATA
64225 TT
1 TT
64227 TTTATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
40 15 0.38
41 3 0.08
42 2 0.05
43 2 0.05
45 2 0.05
46 16 0.40
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (40 bp):
TTAAATATACATTTTAAATATTTTAAAAAATTAAAATATA
Found at i:64850 original size:2 final size:2
Alignment explanation
Indices: 64804--64833 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
64794 ATTGATTTAA
64804 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
64834 TATTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66469 original size:15 final size:15
Alignment explanation
Indices: 66451--66493 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
66441 TTTAAATTAT
*
66451 TTAAATTTAATTCGA
1 TTAAATTTAATTCAA
*
66466 TTAAAATTTAATTTAA
1 TT-AAATTTAATTCAA
*
66482 ATAAATTTAATT
1 TTAAATTTAATT
66494 TAAATTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTAAATTTAATTCAA
Found at i:66494 original size:15 final size:15
Alignment explanation
Indices: 66469--66498 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66459 AATTCGATTA
66469 AAATTTAATTTAAAT
1 AAATTTAATTTAAAT
66484 AAATTTAATTTAAAT
1 AAATTTAATTTAAAT
66499 TCTTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTAATTTAAAT
Found at i:66961 original size:3 final size:3
Alignment explanation
Indices: 66953--66983 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
66943 TCAAAATTAT
66953 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
66984 AACTCTATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:68362 original size:17 final size:17
Alignment explanation
Indices: 68330--68363 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68320 AATAAACATT
**
68330 ATTATAAAATTTTATAA
1 ATTATAAAATAATATAA
68347 ATTATAAAATAATATAA
1 ATTATAAAATAATATAA
68364 TTAATATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTATAAAATAATATAA
Found at i:69609 original size:18 final size:18
Alignment explanation
Indices: 69586--69621 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69576 GTTTTAAGGT
69586 TTCCTGATGGGTTTGGGC
1 TTCCTGATGGGTTTGGGC
69604 TTCCTGATGGGTTTGGGC
1 TTCCTGATGGGTTTGGGC
69622 CAGTTGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.17, G:0.39, T:0.39
Consensus pattern (18 bp):
TTCCTGATGGGTTTGGGC
Found at i:69688 original size:3 final size:3
Alignment explanation
Indices: 69682--69730 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
69672 TAATATTTAT
69682 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
69726 TAA TA
1 TAA TA
69731 TTTAAATGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.86
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:70090 original size:120 final size:118
Alignment explanation
Indices: 69878--70142 Score: 363
Period size: 120 Copynumber: 2.2 Consensus size: 118
69868 ATTCTTCTCT
* * * *
69878 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGACCTATTTCCTTAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGCTAACCTATCTCCTTAT
* *
69943 GTGATAGAGTCATTCAAAAGGTTGAACAAGCTCTTCTCATTGTGAAATTCTTC
66 GTGATAGAATCATACAAAAGGTTGAACAAGCTCTTCTCATTGTGAAATTCTTC
* * **
69996 TTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAAGCTGATGCTAATTTATCTCCT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---AGATGATGCTAACCTATCTCCT
* **
70060 TATGTGATAGAATTATACAAAAGGTTGAACAAGCTCTTCTCATTGTGACCTTCTTC
63 TATGTGATAGAATCATACAAAAGGTTGAACAAGCTCTTCTCATTGTGAAATTCTTC
*
70116 TTCTTCAGATTAG-TCTTCTCATTATGA
1 TTCTTCAGATGAGTTCTTCTCATTATGA
70143 CTCTACCTGG
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
117 5 0.04
118 33 0.25
119 14 0.11
120 78 0.60
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (118 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGCTAACCTATCTCCTTAT
GTGATAGAATCATACAAAAGGTTGAACAAGCTCTTCTCATTGTGAAATTCTTC
Found at i:70307 original size:113 final size:113
Alignment explanation
Indices: 70077--71180 Score: 1328
Period size: 113 Copynumber: 9.9 Consensus size: 113
70067 TAGAATTATA
* ** * *
70077 CAAAAGGTTGAACAAGCTCTTCTCATTGTG-AC--CTTCTT-CTTCTTCAGATTAG-TCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
70137 TTATG-ACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
* * *
70184 CAAAAGGTTGAACAAATTCTTCTCATTATTAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** *
70249 TTATGAACTCGAACTGGTAATGCTGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
* *
70297 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * ** *
70362 TTATGAACTCGAACTGGTAATGCTGATCTATTGAATCATGAATTCAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
*
70410 CAAAAAG-TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** *
70474 TTATGAACTCGAACTGGTAATGCTGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
* * *
70522 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * ** *
70587 TTATGAACTCGAACTGGTAATGATGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
* *
70635 AAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * * **
70700 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
* * * *
70748 CAAAAGGTTGAACAAAGTCTTCTCA-T-TGAATTTCTTCTTCCTTCTTCAGATGAG-TCTTCTTA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * **
70810 TTATGAACT-TTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
*
70857 C-AAAAGTTGAACAAATT-TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * * **
70920 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
* *
70968 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * **
71033 TTATGAACTTTTTCTGGAAAAT-CTGATCCATCAAATGATGGATTTGAG
66 TTATGAACTCTAACTGG-AAATGCTGATCCATCAAATGATGAATTCAAG
* * *
71081 CAAAATGTTGAATAAA-TCTTTTCATTATGAA----TTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** *
71141 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATG
71181 GATTTGAATC
Statistics
Matches: 926, Mismatches: 56, Indels: 29
0.92 0.06 0.03
Matches are distributed among these distances:
107 35 0.04
108 81 0.09
109 67 0.07
110 38 0.04
111 78 0.08
112 153 0.17
113 471 0.51
114 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAG
Found at i:70431 original size:225 final size:226
Alignment explanation
Indices: 70077--71176 Score: 1322
Period size: 225 Copynumber: 4.9 Consensus size: 226
70067 TAGAATTATA
* * *
70077 CAAAAGGTTGAACAAGCTCTTCTCATTGTG-AC--CTTCTT-CTTCTTCAGATTAG-TCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * *
70137 TTATG-ACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAAT
66 TTATGAACTCGAACTGGTAATGCTGATCCATCAAATCATGAATTCAAGCAAAAAGTTGAACAAAT
* *
70201 TCTTCTCATTATTAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * **
70266 TAATGCTGATCCATTGAATCATGAATTCAAG
196 AAAAGCTGATCCATCAAATCATGAATTCAAG
* *
70297 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** *
70362 TTATGAACTCGAACTGGTAATGCTGATCTATTGAATCATGAATTCAAGCAAAAAG-TGAACAAGT
66 TTATGAACTCGAACTGGTAATGCTGATCCATCAAATCATGAATTCAAGCAAAAAGTTGAACAAAT
70426 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * **
70491 TAATGCTGATCCATTGAATCATGAATTCAAG
196 AAAAGCTGATCCATCAAATCATGAATTCAAG
* * *
70522 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
70587 TTATGAACTCGAACTGGTAATGATGATCCATTGAATCATGAATTCAAGAAAAAAGTTGAACAAGT
66 TTATGAACTCGAACTGGTAATGCTGATCCATCAAATCATGAATTCAAGCAAAAAGTTGAACAAAT
****
70652 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * **
70717 AAAAGCTGATCCATCAAATGATGGATTTGAG
196 AAAAGCTGATCCATCAAATCATGAATTCAAG
* *
70748 CAAAAGGTTGAACAAAG-TCTTCTCA-T-TGAATTTCTTCTTCCTTCTTCAGATGAG-TCTTCTT
1 CAAAAGGTTGAAC-AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*** * * * * **
70809 ATTATGAACT-TTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC-AAAAGTTGAACAAA
65 ATTATGAACTCGAACTGGTAATGCTGATCCATCAAATCATGAATTCAAGCAAAAAGTTGAACAAA
* ****
70872 TT-TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* * **
70936 GAAAAGCTGATCCATCAAATGATGGATTTGAG
195 GAAAAGCTGATCCATCAAATCATGAATTCAAG
* *
70968 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * * ** * *
71033 TTATGAACTTTTTCTGGAAAAT-CTGATCCATCAAATGATGGATTTGAGCAAAATGTTGAATAAA
66 TTATGAACTCGAACTGG-TAATGCTGATCCATCAAATCATGAATTCAAGCAAAAAGTTGAACAAA
* ****
71097 -TCTTTTCATTATGAA----TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
71157 GAAAAGCTGATCCATCAAAT
195 GAAAAGCTGATCCATCAAAT
71177 GATGGATTTG
Statistics
Matches: 804, Mismatches: 60, Indels: 31
0.90 0.07 0.03
Matches are distributed among these distances:
219 2 0.00
220 140 0.17
221 83 0.10
222 54 0.07
223 38 0.05
224 74 0.09
225 259 0.32
226 151 0.19
227 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGTAATGCTGATCCATCAAATCATGAATTCAAGCAAAAAGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAAAGCTGATCCATCAAATCATGAATTCAAG
Found at i:70544 original size:338 final size:335
Alignment explanation
Indices: 70077--71180 Score: 1440
Period size: 338 Copynumber: 3.3 Consensus size: 335
70067 TAGAATTATA
* * *
70077 CAAAAGGTTGAACAAGCTCTTCTCATTGTG-ACCTTCTT-CTTCTTCAGATTAGTCTTCTCATTA
1 CAAAAAGTTGAACAAG-TCTTCTCATTATGAACCTTCTTCCTTCTTCAGATGAGTCTTCTCATTA
* * * * *
70140 TG-ACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCT
65 TGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCT
*
70204 TCTCATTATTAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAA
130 TCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAA
*
70269 TGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCT
195 TGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCT
**** * * ** *
70334 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAATGCTGATCTATTGAATC
260 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAATGCTGATCCATCAAATG
* **
70399 ATGAATTCAAG
325 ATGGATTTGAG
70410 CAAAAAG-TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAG-TCTTCTCATTATGAAC--CTTCTTCCTTCTTCAGATGAG-TCTTCTCA
* * ** * *
70474 TTATGAACTCGAACTGGTAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGT
62 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAAT
*
70539 TCTTCTTATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGG
127 TCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* *
70604 TAATGATGATCCATTGAATCATGAATTCAAGAAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
192 TAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
*
70669 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAA
257 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAATGCTGATCCATCAA
70734 ATGATGGATTTGAG
322 ATGATGGATTTGAG
* * *
70748 CAAAAGGTTGAACAAAGTCTTCTCA-T-TGAATTTCTTCTTCCTTCTTCAGATGAGTCTTCTTAT
1 CAAAAAGTTGAAC-AAGTCTTCTCATTATGAA--CCTTCTTCCTTCTTCAGATGAGTCTTCTCAT
** * * **
70811 TATGAACT-TTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC-AAAAGTTGAACAAATT
63 TATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATT
* * **** *
70874 -TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
128 CTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGGT
* ** * * ** * * *
70938 AAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTT
193 AATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT
71003 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAT-CTGATCCATCAA
258 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGG-AAATGCTGATCCATCAA
71067 ATGATGGATTTGAG
322 ATGATGGATTTGAG
* * * *
71081 CAAAATGTTGAATAAATCTTTTCATTATGAA--TTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 CAAAAAGTTGAACAAGTCTTCTCATTATGAACCTTCTTCCTTCTTCAGATGAG-TCTTCTCATTA
* ** *
71144 TGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATG
65 TGAACTCTAACTGGAAATGCTGATCCATCAAATGATG
71181 GATTTGAATC
Statistics
Matches: 683, Mismatches: 73, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
330 20 0.03
331 16 0.02
332 59 0.09
333 202 0.30
334 22 0.03
335 34 0.05
336 29 0.04
337 38 0.06
338 247 0.36
339 13 0.02
340 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (335 bp):
CAAAAAGTTGAACAAGTCTTCTCATTATGAACCTTCTTCCTTCTTCAGATGAGTCTTCTCATTAT
GAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTT
CTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTCGAACTGGTAAT
GCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTT
CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAATGCTGATCCATCAAATGA
TGGATTTGAG
Found at i:71609 original size:22 final size:22
Alignment explanation
Indices: 71584--71639 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
71574 GATAAAGGTT
* *
71584 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
* *
71606 TCATCTTTTAAAAAGGGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
71629 TCATCTTTGAA
1 TCATCTTTGAA
71640 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:73022 original size:74 final size:74
Alignment explanation
Indices: 72871--73037 Score: 210
Period size: 74 Copynumber: 2.3 Consensus size: 74
72861 ATGATGGGCC
* * * *
72871 TTCAGCATGCCCCAACAATTGCTGATACGAACGTTCAAATACATCAACATTATTCATTCTGATTG
1 TTCAGCATGCCCCAACATTTGCTGATACAAACATTCAAATACATCAACATTACTCATTCTGATTG
72936 AAAAAGGCT
66 AAAAAGGCT
* * * * * *
72945 TTCAGCATGCCCCAACATTTGTTGATATAAATATTCAGGATACATCAACATTCCTGATTCTGATT
1 TTCAGCATGCCCCAACATTTGCTGATACAAACATTCA-AATACATCAACATTACTCATTCTGATT
* *
73010 G-AAAGGGTT
65 GAAAAAGGCT
73019 TTCAGCATGCCCCAACATT
1 TTCAGCATGCCCCAACATT
73038 GCTTCTTGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
74 56 0.70
75 24 0.30
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (74 bp):
TTCAGCATGCCCCAACATTTGCTGATACAAACATTCAAATACATCAACATTACTCATTCTGATTG
AAAAAGGCT
Done.