Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006622.1 Hibiscus syriacus cultivar Beakdansim tig00016270_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: 90278
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:3962 original size:29 final size:30
Alignment explanation
Indices: 3919--4042 Score: 218
Period size: 29 Copynumber: 4.2 Consensus size: 30
3909 TCACACCTTG
3919 ATATATTAACTAATTAAATATCATTTATAC
1 ATATATTAACTAATTAAATATCATTTATAC
3949 -TATATTAACTAATTAAATATCATTTATAC
1 ATATATTAACTAATTAAATATCATTTATAC
3978 ATATATT-ACTAATTAAATATCATTTATAC
1 ATATATTAACTAATTAAATATCATTTATAC
*
4007 -TATATTATCTAATTAAATATCATTTATAC
1 ATATATTAACTAATTAAATATCATTTATAC
4036 ATATATT
1 ATATATT
4043 TTTAATCAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
28 6 0.07
29 72 0.80
30 12 0.13
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (30 bp):
ATATATTAACTAATTAAATATCATTTATAC
Found at i:5598 original size:68 final size:71
Alignment explanation
Indices: 5478--5615 Score: 167
Period size: 68 Copynumber: 2.0 Consensus size: 71
5468 TAATTTGTTA
* * * *
5478 TAATTTAAATTTTATATATTTATTACTTTTAAGTTATTTAATATAAATCATTTTATGTGAT-TTT
1 TAATTAAAAGTTTATATATTTATTAC-TTTAAGTTATTTAATACAAACCATTTTATGTGATGTTT
5542 AGATAATT
65 -GATAATT
* * *
5550 TAATTAAAAGTTTAT-TATTT-TTA-TTTAATTTATTTAATACGAACCATTTTGTGTGATGTTTG
1 TAATTAAAAGTTTATATATTTATTACTTTAAGTTATTTAATACAAACCATTTTATGTGATGTTTG
5612 ATAA
66 ATAA
5616 ATATTAGTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
68 34 0.59
69 3 0.05
70 3 0.05
71 5 0.09
72 13 0.22
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (71 bp):
TAATTAAAAGTTTATATATTTATTACTTTAAGTTATTTAATACAAACCATTTTATGTGATGTTTG
ATAATT
Found at i:7959 original size:82 final size:83
Alignment explanation
Indices: 7816--7975 Score: 234
Period size: 82 Copynumber: 1.9 Consensus size: 83
7806 ATCTTTTCAT
7816 TTTCTACCGTTAATCTCAACCTTTAATTTCTCTAATCCAATGGTCTTAAAAAGGTGCAAAACTAA
1 TTTCTACCGTTAATCTCAACCTTTAATTTCTCTAATCCAATGGTCTTAAAAAGGTGCAAAACTAA
7881 AAGAGTTTTACACCTCAA
66 AAGAGTTTTACACCTCAA
* * * * * *
7899 TTTCTACTGTTAATCTCAGA-C-TTAATTTCTTTCATCTAATGGTCTTAAAAATGTGTAAAACTA
1 TTTCTACCGTTAATCTCA-ACCTTTAATTTCTCTAATCCAATGGTCTTAAAAAGGTGCAAAACTA
*
7962 AAAGCGTTTTACAC
65 AAAGAGTTTTACAC
7976 AATGTAATTG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
82 50 0.72
83 18 0.26
84 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (83 bp):
TTTCTACCGTTAATCTCAACCTTTAATTTCTCTAATCCAATGGTCTTAAAAAGGTGCAAAACTAA
AAGAGTTTTACACCTCAA
Found at i:11454 original size:2 final size:2
Alignment explanation
Indices: 11447--11492 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
11437 ATGCATGTAT
*
11447 AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11489 AG AG
1 AG AG
11493 CAAATAGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13055 original size:2 final size:2
Alignment explanation
Indices: 13042--13116 Score: 71
Period size: 2 Copynumber: 37.5 Consensus size: 2
13032 TTTTGACGTG
* * * * * * *
13042 TA TA TG TA TA TA TA CA TA TA TG TG TC TA TGA TA AA TT TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
13084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13117 TCCATGGATC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.02
2 57 0.95
3 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13935 original size:43 final size:42
Alignment explanation
Indices: 13880--14310 Score: 429
Period size: 43 Copynumber: 10.1 Consensus size: 42
13870 AACAAAAAAT
* * * *
13880 GCCGCAATAGGTCAAGATCTATTGTGGCACTTTTGGAACAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* * * *
13923 GCCGCTAAAGGTCGATATCTATAGCGGCATTTTAGGAACAAAT
1 GCCGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAAC
* * * * * *
13966 GCCGCTAAAGGTCGATATATATATC--AATGTTTTCGGAACAAAT
1 GCCGCAAAAGGTC-AGATCTATAGCGGCAT-TTTT-GGAACAAAC
* * * ***
14009 GCCACAAAAGGTAAAGATCTATAGCGGCGTTTTCAAAACAAAC
1 GCCGCAAAAGGT-CAGATCTATAGCGGCATTTTTGGAACAAAC
* *
14052 GCCGCAAAATGTCAGATCTATAGCGGCATTTTTAGAACCAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAA-CAAAC
* * * *
14095 GCCGCAAAAGGTC-GTTCTATAGCGGC-GTTTTAGATACAAAT
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGA-ACAAAC
* *
14136 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
* *
14178 CCCGCAAAAGGTCAGAATCTATAGCGGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCAG-ATCTATAGC-GGCATTTTTGGAACAAAC
* *
14222 GCCGCAAAAGGTCAGAGCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
* * *
14264 GCCGCAAAAGGTCAGTTCTATAGCGGCTTTTTTAGAACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
14306 GCCGC
1 GCCGC
14311 CAATTATGCA
Statistics
Matches: 330, Mismatches: 47, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
41 26 0.08
42 129 0.39
43 140 0.42
44 34 0.10
45 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAAC
Found at i:14879 original size:20 final size:20
Alignment explanation
Indices: 14854--14908 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
14844 ATACTAAGCT
*
14854 AAAATGAGAAAATTCGTTTA
1 AAAATGAGAAAATTCATTTA
14874 AAAATGATG-AAATTCATTTA
1 AAAATGA-GAAAATTCATTTA
* *
14894 AAAGTGATAAAATTC
1 AAAATGAGAAAATTC
14909 CAAACAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (20 bp):
AAAATGAGAAAATTCATTTA
Found at i:17932 original size:41 final size:41
Alignment explanation
Indices: 17886--18104 Score: 262
Period size: 41 Copynumber: 5.3 Consensus size: 41
17876 AAATACAAAT
* * *
17886 GCCACTAAAGTACTAGTGTATAGCGACATTTGTATAAAAAC
1 GCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAAAAAC
*
17927 GCCACTAAAGTACAAGTGTATAGCGGCGTTTATATAAAAAC
1 GCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAAAAAC
* * * *
17968 GCCACTAAAGTACAAGTCTTTCA-CGGCGTTTATAAACAAAAAC
1 GCCACTAAAGTACAAGTGTAT-AGCGGCGTTTGT--ATAAAAAC
* * * * *
18011 TCCACTAAAGTATAATTGTATAG-GGTGTTTGTATAAAAAT
1 GCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAAAAAC
*
18051 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
1 GCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAAAAAC
*
18092 GCCATTAAAGTAC
1 GCCACTAAAGTAC
18105 TACTCTGTTG
Statistics
Matches: 150, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
40 25 0.17
41 93 0.62
42 9 0.06
43 23 0.15
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (41 bp):
GCCACTAAAGTACAAGTGTATAGCGGCGTTTGTATAAAAAC
Found at i:18078 original size:83 final size:82
Alignment explanation
Indices: 17882--18104 Score: 261
Period size: 83 Copynumber: 2.7 Consensus size: 82
17872 TTATAAATAC
* * * * * *
17882 AAATGCCACTAAAGTACTAGTGTATAGCGACATTTGTATAAAAACGCCACTAAAGTACAAGTGTA
1 AAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTATACAAAAACGCCACTAAAGTACAAGTGTA
17947 TAGCGGCGTTTATATAA
66 TAGCGGCGTTTATATAA
* * * * *
17964 AAACGCCACTAAAGTACAAGTCTTTCA-CGGCGTTTATAAACAAAAACTCCACTAAAGTATAATT
1 AAATGCCACTAAAGTACAAGTCTAT-AGCGGCGTTTAT--ACAAAAACGCCACTAAAGTACAAGT
* *
18028 GTATAG-GGTGTTTGTATAA
63 GTATAGCGGCGTTTATATAA
* * *
18047 AAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCATTAAAGTAC
1 AAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTATACAAAAACGCCACTAAAGTAC
18105 TACTCTGTTG
Statistics
Matches: 117, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
81 17 0.15
82 29 0.25
83 44 0.38
84 27 0.23
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (82 bp):
AAATGCCACTAAAGTACAAGTCTATAGCGGCGTTTATACAAAAACGCCACTAAAGTACAAGTGTA
TAGCGGCGTTTATATAA
Found at i:29038 original size:6 final size:6
Alignment explanation
Indices: 29027--29057 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
29017 GCAGTTGGTA
29027 TTTGGG TTTGGG -TTGGG TTTGGG TTTGGG TT
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TT
29058 GATTAGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
TTTGGG
Found at i:29044 original size:11 final size:12
Alignment explanation
Indices: 29027--29057 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
29017 GCAGTTGGTA
29027 TTTGGGTTTGGG
1 TTTGGGTTTGGG
29039 -TTGGGTTTGGG
1 TTTGGGTTTGGG
29050 TTTGGGTT
1 TTTGGGTT
29058 GATTAGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (12 bp):
TTTGGGTTTGGG
Found at i:37147 original size:63 final size:63
Alignment explanation
Indices: 37048--37173 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
37038 TTATTGTCAC
37048 TTGGTAGGCAACCTAGCTGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAA
1 TTGGTAGGCAACCTAGCTGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAA
37111 TTGGTAGGCAACCTAGCTGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAA
1 TTGGTAGGCAACCTAGCTGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAA
37174 AAGCTCGCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (63 bp):
TTGGTAGGCAACCTAGCTGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAA
Found at i:37203 original size:63 final size:61
Alignment explanation
Indices: 37065--37192 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 61
37055 GCAACCTAGC
** * * *
37065 TGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAATTGGTAGGCAACCTAGC
1 TGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAAAAGCTACGCAA-C-AGA
37128 TGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAAAAGCT-CGCAA-AGA
1 TGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAAAAGCTACGCAACAGA
37187 T-GCGTT
1 TGGCGTT
37193 GTGACTTTGT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
58 5 0.08
59 3 0.05
62 4 0.07
63 48 0.80
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (61 bp):
TGGCGTTCTTGTAAGGATACTGCAATTTGACCAACATGACCCTGAAAAGCTACGCAACAGA
Found at i:52463 original size:2 final size:2
Alignment explanation
Indices: 52456--52499 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
52446 CCATTGACAT
52456 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
52498 TA
1 TA
52500 GGGGTCCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55064 original size:13 final size:12
Alignment explanation
Indices: 55031--55068 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
55021 TTCCTTCATA
55031 TTCTCTCAATTT
1 TTCTCTCAATTT
55043 TTCTCTCAATTT
1 TTCTCTCAATTT
*
55055 TCTTTCTCAATTT
1 T-TCTCTCAATTT
55068 T
1 T
55069 GGTCACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (12 bp):
TTCTCTCAATTT
Found at i:55771 original size:59 final size:59
Alignment explanation
Indices: 55682--55804 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 59
55672 TTTGGGATTT
* ** * *
55682 CACTAAAGGATACCTAGTGCAAATGGTGGGCATGACATTATGTGTCATATTCGGGTTAA
1 CACTAAAGGATACCTAGTGCAAATGATGGGCACAACATTATATGTCATATTCAGGTTAA
* ** * * *
55741 CACTAAATGATACCTAGTGCTGATGATGGGCACAACCTTATATGTTATATTCAGGTTAG
1 CACTAAAGGATACCTAGTGCAAATGATGGGCACAACATTATATGTCATATTCAGGTTAA
55800 CACTA
1 CACTA
55805 TAGTGTATAC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (59 bp):
CACTAAAGGATACCTAGTGCAAATGATGGGCACAACATTATATGTCATATTCAGGTTAA
Found at i:61212 original size:60 final size:60
Alignment explanation
Indices: 61107--61714 Score: 905
Period size: 60 Copynumber: 10.2 Consensus size: 60
61097 AACTACTCTA
* * **
61107 AGAT-AAAACTTAAATGCCTAACGGTGCATTTTGGCAGAATTGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
*
61166 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGAAGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * *
61226 AGATGAAAAGTTAAAT-CTCTAACTATGCATTTTGGCAGAAAGGTGTCATTAATGCAAGTT
1 AGATGAAAAGTTAAATGC-CTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* *
61286 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGGAGAAAGGTTCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * *
61346 AGATGAAAAGATAAATGTCTAATTGTACATTTTGGCAGAAAGGTTCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
*
61406 AGATGAAAAGTTAAATGCCTAACTTTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* *
61466 AGATGAAAAGTTAAATGCCTAACTATGCATTTTGGCAGAAAGGTGCCACTTATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * *
61526 GGATGAAAAGTTAAATGCCTAACTGTGTATTTTGGAAAAAAGGTTCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * *
61586 AGATGAAAAGTTCAATGCCTAACGGTGTATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * * *
61646 AGATGAGAAGTTCAACGCCTAACGGTGTATTTTGGCAGAAAGGTGCCACTAATACAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
61706 AGATGAAAA
1 AGATGAAAA
61715 ATTAGAACAG
Statistics
Matches: 502, Mismatches: 44, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
59 5 0.01
60 496 0.99
61 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (60 bp):
AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
Found at i:67652 original size:60 final size:60
Alignment explanation
Indices: 67556--68163 Score: 833
Period size: 60 Copynumber: 10.1 Consensus size: 60
67546 GCTCTATGAT
* *
67556 AAAAGTTAAATGCCTAAATGTGCATTTTGGCTGAAAGGTGCCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * * *
67616 AAAAGTTAAATGCCTAACTGTGCATTTGGGCAGAAAGGTTCCACTAAGGCAGGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * *
67676 AAAAGTTAAATCCCTAACTGTGCATTTTAGCAGAAATGTGCCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * *
67736 AAAATTTAAATGCCTAACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * * *
67796 AAAAGTTAAATGCTTAATTATGCATTTTGGCATAAAGGTGTGCCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAA-G-GTGCCACTAATGCAAGTTAGATG
* * * * *
67858 AAAAGTTAAATGCCTAACTATGGATTTTGGCATAAATGTGCCATTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * * *
67918 AAAAGTTAAATGCCTAACTTTGCATTTTGGTAGAAATGTGTCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* *
67978 AAAAGTTAAATGCCTAATTGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * **
68038 -AAAGTTCAATGCCTAACGGTGCATTTTGATAGAAAGGTGCCACT-ATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
* * * * * * **
68096 AAAAGTTCAATGCCTAACGGTGTATTTTTGCATAATGGTGCCACTAATTAAAGTTAGATG
1 AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
68156 AAAAGTTA
1 AAAAGTTA
68164 GAGTAGTGTA
Statistics
Matches: 488, Mismatches: 56, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
58 14 0.03
59 76 0.16
60 342 0.70
61 1 0.00
62 55 0.11
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (60 bp):
AAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
Found at i:67979 original size:242 final size:240
Alignment explanation
Indices: 67556--68163 Score: 846
Period size: 242 Copynumber: 2.5 Consensus size: 240
67546 GCTCTATGAT
67556 AAAAGTTAAATGCCTAAATGTGCATTTTGGC-TGAAAGGTGCCACTAATGCAAGTTAGATGAAAA
1 AAAAGTTAAATGCCTAAATGTGCATTTTGGCAT-AAAGGTGCCACTAATGCAAGTTAGATGAAAA
* * * * * *
67620 GTTAAATGCCTAACTGTGCATTTGGGCAGAAAGGTTCCACTAAGGCAGGTTAGATGAAAAGTTAA
65 GTTAAATGCCTAACTGTGCATTTTGGCATAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTAA
*
67685 ATCCCTAACTGTGCATTTTAGCAGAAATGTGCCACTAATGCAAGTTAGATGAAAATTTAAATGCC
130 ATCCCTAACTGTGCATTTTAGCAGAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTAAATGCC
67750 TAACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTTAGATG
195 TAACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTTAGATG
* * *
67796 AAAAGTTAAATGCTTAATTATGCATTTTGGCATAAAGGTGTGCCACTAATGCAAGTTAGATGAAA
1 AAAAGTTAAATGCCTAAATGTGCATTTTGGCATAAA-G-GTGCCACTAATGCAAGTTAGATGAAA
* * *
67861 AGTTAAATGCCTAACTATGGATTTTGGCATAAATGTGCCATTAATGCAAGTTAGATGAAAAGTTA
64 AGTTAAATGCCTAACTGTGCATTTTGGCATAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTA
* * * * *
67926 AATGCCTAACTTTGCATTTTGGTAGAAATGTGTCACTAATGCAAGTTAGATGAAAAGTTAAATGC
129 AATCCCTAACTGTGCATTTTAGCAGAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTAAATGC
* * * *
67991 CTAATTGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
194 CTAACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTTAGATG
* ** ** *
68038 -AAAGTTCAATGCCTAACGGTGCATTTTGATAGAAAGGTGCCACT-ATGCAAGTTAGATGAAAAG
1 AAAAGTTAAATGCCTAAATGTGCATTTTGGCATAAAGGTGCCACTAATGCAAGTTAGATGAAAAG
* * * * **
68101 TTCAATGCCTAACGGTGTATTTTTGCAT-AATGGTGCCACTAATTAAAGTTAGATGAAAAGTTA
66 TTAAATGCCTAACTGTGCATTTTGGCATAAAT-GTGCCACTAATGCAAGTTAGATGAAAAGTTA
68164 GAGTAGTGTA
Statistics
Matches: 326, Mismatches: 38, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
237 3 0.01
238 70 0.21
239 8 0.02
240 32 0.10
241 29 0.09
242 184 0.56
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (240 bp):
AAAAGTTAAATGCCTAAATGTGCATTTTGGCATAAAGGTGCCACTAATGCAAGTTAGATGAAAAG
TTAAATGCCTAACTGTGCATTTTGGCATAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTAAA
TCCCTAACTGTGCATTTTAGCAGAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTAAATGCCT
AACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTTAGATG
Found at i:70028 original size:21 final size:22
Alignment explanation
Indices: 69982--70033 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
69972 GAGAAATTTG
*
69982 TGAAATTATGAGTATTCAATGT
1 TGAAATTATGAGTATTCAATGA
*
70004 TGAAATT-TGATTATT-AGATGA
1 TGAAATTATGAGTATTCA-ATGA
70025 TGAATATTA
1 TGAA-ATTA
70034 ATTTAGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (22 bp):
TGAAATTATGAGTATTCAATGA
Found at i:72039 original size:44 final size:44
Alignment explanation
Indices: 71987--72088 Score: 168
Period size: 44 Copynumber: 2.3 Consensus size: 44
71977 TGAAATCTAA
* * *
71987 GATAAGTATGAAAGAAAAGAATATGGAAATGCTATGAAAGTTAT
1 GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
72031 GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
1 GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
*
72075 GATAATTATGAAAG
1 GATAAGTATGAAAG
72089 TTATGAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.25
Consensus pattern (44 bp):
GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
Found at i:72083 original size:9 final size:9
Alignment explanation
Indices: 72063--72096 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
72053 ATGGAAATGA
72063 TATGAAAGT
1 TATGAAAGT
72072 TATGATAA-T
1 TATGA-AAGT
72081 TATGAAAGT
1 TATGAAAGT
72090 TATGAAA
1 TATGAAA
72097 TATGTACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (9 bp):
TATGAAAGT
Found at i:74705 original size:58 final size:59
Alignment explanation
Indices: 74605--74727 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 59
74595 ATTCGGGATT
74605 GCACTAAAGGATACCTAGTGCAAATGGTGGGCATGACATTATGTGTCATATTCAGGTTA
1 GCACTAAAGGATACCTAGTGCAAATGGTGGGCATGACATTATGTGTCATATTCAGGTTA
* ** * * *
74664 GCACTAAATGATA-CTAGTGCTGATGGTGGGTA-GAACCTTATGTGTCATATTCTGGTTA
1 GCACTAAAGGATACCTAGTGCAAATGGTGGGCATG-ACATTATGTGTCATATTCAGGTTA
74722 GCACTA
1 GCACTA
74728 CGGTGCATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 1 0.02
58 44 0.77
59 12 0.21
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (59 bp):
GCACTAAAGGATACCTAGTGCAAATGGTGGGCATGACATTATGTGTCATATTCAGGTTA
Found at i:81612 original size:12 final size:11
Alignment explanation
Indices: 81596--81668 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
81586 ATATTCAAGA
81596 AAAAAGAAAAG
1 AAAAAGAAAAG
*
81607 AGAAAATATAGAA-
1 A-AAAAGA-A-AAG
81620 AAAAAG-AAAG
1 AAAAAGAAAAG
81630 AAAAAGAAAA-
1 AAAAAGAAAAG
*
81640 AGAAAAGAAGAG
1 A-AAAAGAAAAG
*
81652 AAAAAAGATAAG
1 -AAAAAGAAAAG
81664 AAAAA
1 AAAAA
81669 ATAGAAGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.04
10 8 0.16
11 17 0.35
12 17 0.35
13 3 0.06
14 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:81637 original size:34 final size:34
Alignment explanation
Indices: 81596--81668 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
81586 ATATTCAAGA
*
81596 AAAAAGAAAAGAGAAAATATAGA-AAAAAAGA-AAG
1 AAAAAGAAAA-AGAAAAGA-AGAGAAAAAAGATAAG
81630 AAAAAGAAAAAGAAAAGAAGAGAAAAAAGATAAG
1 AAAAAGAAAAAGAAAAGAAGAGAAAAAAGATAAG
81664 AAAAA
1 AAAAA
81669 ATAGAAGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
32 3 0.08
33 15 0.42
34 18 0.50
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (34 bp):
AAAAAGAAAAAGAAAAGAAGAGAAAAAAGATAAG
Found at i:81669 original size:12 final size:11
Alignment explanation
Indices: 81592--81683 Score: 71
Period size: 12 Copynumber: 8.0 Consensus size: 11
81582 ATTCATATTC
81592 AAGAAAAAAGAA
1 AAGAAAAAAG-A
* *
81604 AAGAGAAAATA
1 AAGAAAAAAGA
*
81615 TAGAAAAAAAGA
1 AAG-AAAAAAGA
81627 AAG-AAAAAGA
1 AAGAAAAAAGA
81637 AA-AAGAAAAGA
1 AAGAA-AAAAGA
81648 AGAGAAAAAAGA
1 A-AGAAAAAAGA
*
81660 TAAGAAAAAATA
1 -AAGAAAAAAGA
*
81672 GAAGAATAAAGA
1 -AAGAAAAAAGA
81684 GAATAGATCA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
10 10 0.16
11 10 0.16
12 41 0.64
13 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:82744 original size:44 final size:44
Alignment explanation
Indices: 82681--82807 Score: 166
Period size: 44 Copynumber: 2.9 Consensus size: 44
82671 GCAACAACTA
* * *
82681 ATAAATGTTGGGGCATTTTTTAAGGCCCATGTAATCCAAAAATG
1 ATAAATGTTGGGACATTTTTGAAGGCCCATATAATCCAAAAATG
* * *
82725 ATAAATGTTGGGACATTTTTGAAGGTCCATATCATCCAGAAATG
1 ATAAATGTTGGGACATTTTTGAAGGCCCATATAATCCAAAAATG
* *
82769 ATAAATGTTGGGGA-ACTTTTGAAGGCCCATATTATCCAA
1 ATAAATGTT-GGGACATTTTTGAAGGCCCATATAATCCAA
82808 GAAAATAAGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 68 0.94
45 4 0.06
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (44 bp):
ATAAATGTTGGGACATTTTTGAAGGCCCATATAATCCAAAAATG
Found at i:84242 original size:42 final size:43
Alignment explanation
Indices: 84194--84488 Score: 201
Period size: 45 Copynumber: 6.7 Consensus size: 43
84184 GAAACTTCAA
* * *
84194 CTTGACTCTCTTGTGAAGATG-AGTCACTCTTTCA-ATGTTATT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATCTTTCATATGTTATT
* * *
84236 ATTGACTTTCTCGTGAAGAGAAGTCAATCATTTAATATTGTCATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATC-TTTCATA-TGTTATT
*
84281 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTATTTTCATT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCA-TATGTT-ATT
* ** * *
84326 CTTGATTTTCTTATGAAGATG-AGTCAATATTTTAGTGATGTTATT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATCTTTCA-T-ATGTTATT
* * *
84371 CTTAACTTTCTCATGAAGAGGAGTCAATCTTT--TAGTGTTATCTTT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCATA-TGTTA---TT
* * * * *
84416 ATTGACTTTATCATGAAGATAAGTCAATCTTTTAGCAT-TGTCT-TC
1 CTTGACTTTCTCGTGAAGAGAAGTCAATC-TTT--CATATGT-TATT
84461 CTTGACTTTCTCGTGAAGATG-AGTCAAT
1 CTTGACTTTCTCGTGAAGA-GAAGTCAAT
84489 ATTTTAGTGT
Statistics
Matches: 203, Mismatches: 30, Indels: 37
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.01
42 29 0.14
43 4 0.02
44 8 0.04
45 147 0.72
46 8 0.04
48 3 0.01
49 1 0.00
50 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (43 bp):
CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCATATGTTATT
Found at i:84293 original size:45 final size:45
Alignment explanation
Indices: 84237--84519 Score: 258
Period size: 45 Copynumber: 6.3 Consensus size: 45
84227 AATGTTATTA
*
84237 TTGACTTTCTCGTGAAGAGAAGTCAATCATTTAATATTGTCATTC
1 TTGACTTTCTCGTGAAGAGAAGTCAATCATTTAGTATTGTCATTC
*
84282 TTGACTTTCTCGTGAAGAGAAGTCAATC-TTTCAGTATTTTCATTC
1 TTGACTTTCTCGTGAAGAGAAGTCAATCATTT-AGTATTGTCATTC
* ** *
84327 TTGATTTTCTTATGAAGATG-AGTCAAT-ATTTTAGTGA-TGTTATTC
1 TTGACTTTCTCGTGAAGA-GAAGTCAATCA-TTTAGT-ATTGTCATTC
* * * * * * * *
84372 TTAACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTATCTTTA
1 TTGACTTTCTCGTGAAGAGAAGTCAATCATTTAGTATTGTCATTC
* * * * *
84417 TTGACTTTATCATGAAGATAAGTCAATCTTTTAGCATTGTC-TTCC
1 TTGACTTTCTCGTGAAGAGAAGTCAATCATTTAGTATTGTCATT-C
*
84462 TTGACTTTCTCGTGAAGATG-AGTCAAT-ATTTTAGTGTTGTC-TTCC
1 TTGACTTTCTCGTGAAGA-GAAGTCAATCA-TTTAGTATTGTCATT-C
84507 TTGACTTTCTCGT
1 TTGACTTTCTCGT
84520 TGTCTTCCTT
Statistics
Matches: 197, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
44 6 0.03
45 186 0.94
46 5 0.03
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (45 bp):
TTGACTTTCTCGTGAAGAGAAGTCAATCATTTAGTATTGTCATTC
Found at i:84433 original size:135 final size:135
Alignment explanation
Indices: 84228--84497 Score: 353
Period size: 135 Copynumber: 2.0 Consensus size: 135
84218 CACTCTTTCA
* * * * *
84228 ATGTTATTATTGACTTTCTCGTGAAGAGAAGTCAATCATTTAATATTGTCATTCTTGACTTTCTC
1 ATGTTATTATTAACTTTCTCATGAAGAGAAGTCAATCATTTAATATTATCATTATTGACTTTATC
* * * * *
84293 GTGAAGAGAAGTCAATCTTTCAGTATTTTCATT-CTTGATTTTCTTATGAAGATGAGTCAATATT
66 ATGAAGAGAAGTCAATCTTTCAGCATTGTC-TTCCTTGACTTTCTCATGAAGATGAGTCAATATT
84357 TTAGTG
130 TTAGTG
* * * * * *
84363 ATGTTATTCTTAACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTATCTTTATTGACTTTATC
1 ATGTTATTATTAACTTTCTCATGAAGAGAAGTCAATCATTTAATATTATCATTATTGACTTTATC
* * *
84428 ATGAAGATAAGTCAATCTTTTAGCATTGTCTTCCTTGACTTTCTCGTGAAGATGAGTCAATATTT
66 ATGAAGAGAAGTCAATCTTTCAGCATTGTCTTCCTTGACTTTCTCATGAAGATGAGTCAATATTT
84493 TAGTG
131 TAGTG
84498 TTGTCTTCCT
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
134 2 0.02
135 113 0.98
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (135 bp):
ATGTTATTATTAACTTTCTCATGAAGAGAAGTCAATCATTTAATATTATCATTATTGACTTTATC
ATGAAGAGAAGTCAATCTTTCAGCATTGTCTTCCTTGACTTTCTCATGAAGATGAGTCAATATTT
TAGTG
Found at i:84494 original size:90 final size:89
Alignment explanation
Indices: 84194--84517 Score: 307
Period size: 90 Copynumber: 3.6 Consensus size: 89
84184 GAAACTTCAA
* * * * * *
84194 CTTGACTCTCTTGTGAAGATGAGTCACTCTTTCAATGTTA---TTATTGACTTTCTCGTGAAGAG
1 CTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTGTTATCTTTATTGACTTTCTCATGAAGAT
* **
84256 AAGTCAATCATTTAATATTGTCATT
66 AAGTCAATCTTTTAGCATTGTC-TT
* * * * * *
84281 CTTGACTTTCTCGTGAAGA-GAAGTCAATCTTTCAGTATTTTCATTCTTGATTTTCTTATGAAGA
1 CTTGACTTTCTCGTGAAGATG-AGTCAATCTTTCAGTGTTATCTTTATTGACTTTCTCATGAAGA
* * * *
84345 TGAGTCAATATTTTAGTGA-TGTTATT
65 TAAGTCAATCTTTTAG-CATTG-TCTT
* * * * *
84371 CTTAACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTATCTTTATTGACTTTATCATGAAGAT
1 CTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTGTTATCTTTATTGACTTTCTCATGAAGAT
84436 AAGTCAATCTTTTAGCATTGTCTT
66 AAGTCAATCTTTTAGCATTGTCTT
* * * **
84460 CCTTGACTTTCTCGTGAAGATGAGTCAATATTTTAGTGTTGTCTTCCTTGACTTTCTC
1 -CTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTGTTATCTTTATTGACTTTCTC
84518 GTTGTCTTCC
Statistics
Matches: 189, Mismatches: 39, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
86 1 0.01
87 32 0.17
89 4 0.02
90 149 0.79
91 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (89 bp):
CTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTGTTATCTTTATTGACTTTCTCATGAAGAT
AAGTCAATCTTTTAGCATTGTCTT
Found at i:84523 original size:21 final size:21
Alignment explanation
Indices: 84497--84538 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
84487 ATATTTTAGT
84497 GTTGTCTTCCTTGACTTTCTC
1 GTTGTCTTCCTTGACTTTCTC
84518 GTTGTCTTCCTTGACTTTCTC
1 GTTGTCTTCCTTGACTTTCTC
84539 TTGAAGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.29, G:0.14, T:0.52
Consensus pattern (21 bp):
GTTGTCTTCCTTGACTTTCTC
Found at i:84562 original size:66 final size:66
Alignment explanation
Indices: 84453--84585 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 66
84443 TCTTTTAGCA
* * *
84453 TTGTCTTCCTTGACTTTCTCGTGAAGATGAGTCAATATTTTAGTGTTGTC-TTCCTTGACTTTCT
1 TTGTCTTCCTTGACTTTCTCGTGAAGAGGAGTCAATATCTTAGTATTGTCATT-CTTGACTTTCT
84517 CG
65 CG
* *
84519 TTGTCTTCCTTGACTTTCTCTTGAAGAGGAGTCAATCTCTTAGTATTGTCATTCTTGACTTTCTC
1 TTGTCTTCCTTGACTTTCTCGTGAAGAGGAGTCAATATCTTAGTATTGTCATTCTTGACTTTCTC
84584 G
66 G
84585 T
1 T
84586 GAAGAGAAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 59 0.97
67 2 0.03
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (66 bp):
TTGTCTTCCTTGACTTTCTCGTGAAGAGGAGTCAATATCTTAGTATTGTCATTCTTGACTTTCTC
G
Found at i:84583 original size:45 final size:44
Alignment explanation
Indices: 84519--84628 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 44
84509 GACTTTCTCG
* *
84519 TTGTCTTCCTTGACTTTCTCTTGAAGAGGAGTCAATCTCTTAGTA
1 TTGTCTT-CTTGACTTTCTCGTGAAGAGAAGTCAATCTCTTAGTA
** * * *
84564 TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTTTATCTTTTATTG
1 TTGTC-TTCTTGACTTTCTCGTGAAGAGAAGTCAATCTCTTAGTA
84609 TTGTCCTTCTTGACTTTCTC
1 TTGT-CTTCTTGACTTTCTC
84629 ACGAAGAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 53 0.95
46 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.47
Consensus pattern (44 bp):
TTGTCTTCTTGACTTTCTCGTGAAGAGAAGTCAATCTCTTAGTA
Found at i:84611 original size:111 final size:111
Alignment explanation
Indices: 84417--84628 Score: 286
Period size: 111 Copynumber: 1.9 Consensus size: 111
84407 GTTATCTTTA
* *
84417 TTGACTTTATCATGAAGATAAGTCAATCTTTTAGCATTGTCTTCCTTGACTTTCTCGTGAAGATG
1 TTGACTTTATCATGAAGAGAAGTCAATCTCTTAGCATTGTCTTCCTTGACTTTCTCGTGAAGATG
84482 AGTCAATATTTTAGTGTTGT-CTTCCTTGACTTTCTCGTTGTCTTCC
66 AGTCAATATTTTAGTGTTGTCCTT-CTTGACTTTCTCGTTGTCTTCC
* * * *
84528 TTGACTTTCTCTTGAAGAGGAGTCAATCTCTTAGTATTGTCATT-CTTGACTTTCTCGTGAAGA-
1 TTGACTTTATCATGAAGAGAAGTCAATCTCTTAGCATTGTC-TTCCTTGACTTTCTCGTGAAGAT
** * *
84591 GAAGTTTATCTTTTATTGTTGTCCTTCTTGACTTTCTC
65 G-AGTCAATATTTTAGTGTTGTCCTTCTTGACTTTCTC
84629 ACGAAGAATA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
110 1 0.01
111 82 0.93
112 5 0.06
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (111 bp):
TTGACTTTATCATGAAGAGAAGTCAATCTCTTAGCATTGTCTTCCTTGACTTTCTCGTGAAGATG
AGTCAATATTTTAGTGTTGTCCTTCTTGACTTTCTCGTTGTCTTCC
Found at i:84649 original size:45 final size:45
Alignment explanation
Indices: 84518--84672 Score: 125
Period size: 45 Copynumber: 3.4 Consensus size: 45
84508 TGACTTTCTC
** * * * * *
84518 GTTGTC-TTCCTTGACTTTCTCTTGAAGAGGAGTCAATCTCTTAGT
1 GTTGTCATT-CTTGACTTTCTCACGAAGAGAAGTTAACCTTTTATT
* ** * *
84563 ATTGTCATTCTTGACTTTCTCGTGAAGAGAAGTTTATCTTTTATT
1 GTTGTCATTCTTGACTTTCTCACGAAGAGAAGTTAACCTTTTATT
* *
84608 GTTGTCCTTCTTGACTTTCTCACGAAGA-ATAGTTAACCTTTTAGT
1 GTTGTCATTCTTGACTTTCTCACGAAGAGA-AGTTAACCTTTTATT
* * *
84653 GGTGTTATTCTTGTCTTTCT
1 GTTGTCATTCTTGACTTTCT
84673 TGTAGAAAGG
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 87 0.97
46 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (45 bp):
GTTGTCATTCTTGACTTTCTCACGAAGAGAAGTTAACCTTTTATT
Found at i:84672 original size:156 final size:156
Alignment explanation
Indices: 84375--84657 Score: 354
Period size: 156 Copynumber: 1.8 Consensus size: 156
84365 GTTATTCTTA
* * * *
84375 ACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTATCTTTATTGACTTTATCATGAAGATAAGT
1 ACTTTCTCATGAAGAGGAGTCAATCTCTTAGTATTATCATTATTGACTTTATCATGAAGAGAAGT
** * *
84440 CAATCTTTTAGCATTGTCTTCCTTGACTTTCTCGTGAAGATGAGTCAATATTTTAGTGTTGTCTT
66 CAATCTTTTAGCATTGTCTTCCTTGACTTTCTCACGAAGATGAGTCAACATTTTAGTGGTGTCTT
84505 CCTTGACTTTCTCGTTGTCTTCCTTG
131 CCTTGACTTTCTCGTTGTCTTCCTTG
* * * * *
84531 ACTTTCTCTTGAAGAGGAGTCAATCTCTTAGTATTGTCATTCTTGACTTTCTCGTGAAGAGAAGT
1 ACTTTCTCATGAAGAGGAGTCAATCTCTTAGTATTATCATTATTGACTTTATCATGAAGAGAAGT
** *** * *
84596 TTATCTTTTATTGTTGTCCTT-CTTGACTTTCTCACGAAGAAT-AGTTAACCTTTTAGTGGTGT
66 CAATCTTTTAGCATTGT-CTTCCTTGACTTTCTCACGAAG-ATGAGTCAACATTTTAGTGGTGT
84658 TATTCTTGTC
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
156 100 0.95
157 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (156 bp):
ACTTTCTCATGAAGAGGAGTCAATCTCTTAGTATTATCATTATTGACTTTATCATGAAGAGAAGT
CAATCTTTTAGCATTGTCTTCCTTGACTTTCTCACGAAGATGAGTCAACATTTTAGTGGTGTCTT
CCTTGACTTTCTCGTTGTCTTCCTTG
Found at i:85883 original size:131 final size:131
Alignment explanation
Indices: 85427--86892 Score: 1364
Period size: 131 Copynumber: 11.1 Consensus size: 131
85417 ATTTGGTCTT
* * * * *
85427 CCCTAAAGAATAGTGGAGTAGATTCTTCTTCTTTCAGATTTGGACTTCTTGAAGAGTAGTGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
** * *
85492 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAATGAAGTGGATCAAATTTTTTTCGAGTCTGA
66 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAA--ATTAT-GAGTCTGA
85557 TCTC
128 TCTC
* * * * * * * *
85561 CCTTAAAGAGTAGTGAAGAAGATTATTCTTCTTTCA-ATTTGGTCATCCTAAAGAGTAGCGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * * * *
85625 AAATCAAATTCGATTCAATCTTCCCAGAATAGTAGTGAAGTGGATCAAAAAAATTTTGAGACTGA
66 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATC---AAAATTATGAGTCTGA
85690 TCTC
128 TCTC
* * * * * * * * * *
85694 CCATAAATAGTAGTGTATCATATTCTTCTTCTTTTAGATTTGGTCATCCTGAATAGCAGCGAAAC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * ** * ** *
85759 AAATTAAATTTGATTCAATATTCCCCAAAGAGCAGCGAACTATATCAAAATTATGCGTCTGATCT
66 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTATGAGTCTGATCT
85824 C
131 C
* * * * * *
85825 CCCCAAATAGTAATGGAGTAGATTCTTATTCTTTCAGATTTGGTCTTCCTAAAGAGCAGTGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * *
85890 AAATC-GACTCTGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTA-CATGTCTAAT
66 AAATCAAATTC-GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTATGA-GTCTGAT
*
85953 CTT
129 CTC
* * * * * * * *
85956 CCGTAAAGAGGAGTGGAACAGATTCGTCTTCTTTCAAATTTAGTCTTCTTGAAGAGCAATGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * * *
86021 AAATC-TATTCTGATTCAATCTTCCCTGAAGAGCTGCAAAATGGATCAAAATTTTCTCGAGTCTG
66 AAATCAAATTC-GATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAA--TTAT-GAGTCTG
86085 ATCTC
127 ATCTC
* * * * *
86090 CTCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGTTCTTCTTGAAGAGCA-CGAACC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
** ** ** * * * *
86154 AAATCACGTTCGATTCAATCTTCCCT-AA-AAAAATGAGGTAGATCAAAATTTACATGTACTATG
66 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAA-TT--ATG-AGTCTG
86217 ATCTC
127 ATCTC
* * * * * * *
86222 CCCTAAATAATAATGGACCAGATTCTTCTTCTTTCAGATTTGGTATTCCTGAAGAGCAGCGAAAC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * * *
86287 AAATCAAATTCGATTCAATCTTTCCTGAAGAGTAGCGAACTGGA-CCAAATTA-CATGTCTGATC
66 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTATGA-GTCTGATC
86350 TC
130 TC
* * * * * *
86352 CCCTAAAGAGTAGTGGAGTAAATTCTTCTTCTTTCAGATTTGCTTTTCCTGAATAGCAGTGAAAC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* *
86417 AAATC-AATTCCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGCATCAAAATTAT--GTCTGATC
66 AAATCAAATT-CGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTATGAGTCTGATC
*
86479 TT
130 TC
* *
86481 CCCTAAAGAGTAATGGAGCAGA---TTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * ** *
86543 AAATC-GATTCCGATTCAATCTTCCCTAAAGAGCATTGAAGTGGATCAAAATTTTCTCGAGTCTG
66 AAATCAAATT-CGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAA--TTAT-GAGTCTG
86607 ATCTC
127 ATCTC
* * * * * * * * *
86612 CCTTAAAGAGTACTAGACCAGATTCTTCTTCTTTCAAATTTGATATTCCTAAATAGCAGTGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * * * *
86677 AAATCAATTTTGATTTAATCTTCCATGAAGAGCAGCGAAGTGGATCAAAATTACGTGTCTGATCT
66 AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTATGAGTCTGATCT
*
86742 T
131 C
* *
86743 CCCTAAAGAGTAGTGGAGCAGATTCGTCCTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
1 CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
* * * * * * *
86808 AAATC-GATTCCGATTCAAACTTCCTTGAAGAGCAACGAAGTGGATCAAAATTTACGATTTTGAT
66 AAATCAAATT-CGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAA-TTATGAGTCTGAT
*
86872 CTT
129 CTC
* *
86875 CCATCAAGAGTAGTGGAG
1 CCCTAAAGAGTAGTGGAG
86893 AAAACCTGCC
Statistics
Matches: 1088, Mismatches: 212, Indels: 66
0.80 0.16 0.05
Matches are distributed among these distances:
126 83 0.08
128 3 0.00
129 33 0.03
130 104 0.10
131 363 0.33
132 93 0.09
133 160 0.15
134 236 0.22
135 10 0.01
136 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (131 bp):
CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC
AAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTATGAGTCTGATCT
C
Found at i:87079 original size:380 final size:383
Alignment explanation
Indices: 85844--87107 Score: 1080
Period size: 391 Copynumber: 3.3 Consensus size: 383
85834 GTAATGGAGT
* * * * * * * *
85844 AGATTCTTATTCTTTCAGATTTGGTCTTCCT-AAAGAGCAGTGAAGCAAATCGACTCTGATTCAA
1 AGATTCTTCTTCTTTCAAATTTGATATTCCTGAAA-AGCAGCGAAGCAAATCAAATTTGATTCAA
* * * * *
85908 TCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACATGTCTAATCTTCCGTAAAGAGGAGTGGA
65 TCTT-CCTGAAGAGTAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGA
* * * * * * * * *
85973 ACAGATTCGTCTTCTTTCAAATTTAG-TCTTCTTGAAGAGCAATGAAGCAAATCTATTCTGATTC
129 GCAAATTCGTCCTCTTTCAGATTT-GCTCTTCCTGAAGAGCAGTGAAACAAATCAATTCCGATTC
* ** * * * * *
86037 AATCTTCCCTGAAGAGCTGCAAAATGGATCAAAATTTTCTCGAGTCTGATC-TCCTCTAAAGAGT
193 AAACTTCCCTGAAGAGCAACGAAGTGCATCAAAA--TT-AC--GTCTGATCTTCC-ATAAAGAGT
* * * * * *
86101 AGTGGAGCAGATTCTTCTTCTTTCAGATTTGTTCTTCTTGAAGAGCACGAACCAAATC-ACGTT-
252 AATGGAG-AAAATC--CTTCTTTCAGATTTG---GTC-TGAATAGCA-GAAGCAAA-CGA--TTC
** * * * * * * *
86164 CGATTCAATCTTCCCTAAA-AAAAT-GAGGTAGATCAAAATTTACAT-GTACTATGATCTCCCCT
306 CGATTCAATCTTCCCTAAAGAGCATCAAAGTGGATCAAAATTTTC-TCG-AGTCTGATCTCCCTT
* * * *
86226 AAATAATAATGGACC
369 AAAGAGTACTAGACC
* * * * *
86241 AGATTCTTCTTCTTTCAGATTTGGTATTCCTGAAGAGCAGCGAAACAAATCAAATTCGATTCAAT
1 AGATTCTTCTTCTTTCAAATTTGATATTCCTGAAAAGCAGCGAAGCAAATCAAATTTGATTCAAT
* *
86306 CTTTCCTGAAGAGTAGCGAACTGGA-CCAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGAG
66 C-TTCCTGAAGAGTAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGAG
* * * * *
86370 TAAATTCTTCTTCTTTCAGATTTGCTTTTCCTGAATAGCAGTGAAACAAATCAATTCCGATTCAA
130 CAAATTCGTCCTCTTTCAGATTTGCTCTTCCTGAAGAGCAGTGAAACAAATCAATTCCGATTCAA
* ** * * *
86435 TCTTCCCTGAAGAGCAGTGAAGTGCATCAAAATTATGTCTGATCTTCCCTAAAGAGTAATGGAGC
195 ACTTCCCTGAAGAGCAACGAAGTGCATCAAAATTACGTCTGATCTTCCATAAAGAGTAATGGAGA
* *
86500 AGATTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTGAAGCAAATCGATTCCGATTCAATCTT
260 AAATCCTTCTTTCAGATTTGG---T-CTGAATAGCA--GAAGCAAA-CGATTCCGATTCAATCTT
**
86565 CCCTAAAGAGCATTGAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTTAAAGAGTACTAGAC
318 CCCTAAAGAGCATCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTTAAAGAGTACTAGAC
86630 C
383 C
* * *
86631 AGATTCTTCTTCTTTCAAATTTGATATTCCT-AAATAGCAGTGAAGCAAATCAATTTTGATTTAA
1 AGATTCTTCTTCTTTCAAATTTGATATTCCTGAAA-AGCAGCGAAGCAAATCAAATTTGATTCAA
* * *
86695 TCTTCCATGAAGAGCAGCGAAGTGGATCAAAATTACGTGTCTGATCTTCCCTAAAGAGTAGTGGA
65 TCTTCC-TGAAGAGTAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGA
* * * *
86760 GCAGATTCGTCCTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCCGATTCA
129 GCAAATTCGTCCTCTTTCAGATTTGCTCTTCCTGAAGAGCAGTGAAACAAATCAATTCCGATTCA
* * * * *
86825 AACTTCCTTGAAGAGCAACGAAGTGGATCAAAATTTACGATTTTGATCTTCCATCAAGAGTAGTG
194 AACTTCCCTGAAGAGCAACGAAGTGCATCAAAA-TTACG--TCTGATCTTCCATAAAGAGTAATG
* * *
86890 GAGAAAACCTGCCTTCTTTTAGATTT-G-C-G-A-AGCA-AATC-AA-G-TT-TGATTCAATCTT
256 GAGAAAA--T-CCTTCTTTCAGATTTGGTCTGAATAGCAGAAGCAAACGATTCCGATTCAATCTT
* * *
86945 CCCTGAAGAGCGA-CAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCACC-TAAAGAGTAGTGG
318 CCCTAAAGAGC-ATCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTC-CCTTAAAGAGTACTAG
*
87008 ATC
381 ACC
* * * * * *
87011 ATATT-TCTCTTCATTCAAATTTGTTCTTCCTGAAAAGCAACGAAGCAAATCAAATTTAATTCAA
1 AGATTCT-TCTTCTTTCAAATTTGATATTCCTGAAAAGCAGCGAAGCAAATCAAATTTGATTCAA
* *
87075 TCTTCCCTGAAGAGTAGTGAAGTGAATCAAAAT
65 TCTT-CCTGAAGAGTAGCGAAGTGGATCAAAAT
87108 ATTTTGAGAT
Statistics
Matches: 726, Mismatches: 113, Indels: 73
0.80 0.12 0.08
Matches are distributed among these distances:
379 1 0.00
380 142 0.20
381 10 0.01
382 1 0.00
384 2 0.00
385 3 0.00
388 30 0.04
389 36 0.05
390 102 0.14
391 160 0.22
392 7 0.01
394 27 0.04
395 1 0.00
396 114 0.16
397 86 0.12
398 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (383 bp):
AGATTCTTCTTCTTTCAAATTTGATATTCCTGAAAAGCAGCGAAGCAAATCAAATTTGATTCAAT
CTTCCTGAAGAGTAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGAGC
AAATTCGTCCTCTTTCAGATTTGCTCTTCCTGAAGAGCAGTGAAACAAATCAATTCCGATTCAAA
CTTCCCTGAAGAGCAACGAAGTGCATCAAAATTACGTCTGATCTTCCATAAAGAGTAATGGAGAA
AATCCTTCTTTCAGATTTGGTCTGAATAGCAGAAGCAAACGATTCCGATTCAATCTTCCCTAAAG
AGCATCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTTAAAGAGTACTAGACC
Done.