Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 74 of 186
Found at i:23808056 original size:40 final size:40
Alignment explanation
Indices: 23807995--23808345 Score: 659
Period size: 40 Copynumber: 8.8 Consensus size: 40
23807985 AGGTCTCGAC
23807995 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
23808034 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
23808074 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
23808114 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
23808154 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
23808194 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
23808234 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
23808274 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
23808314 GATGTATCCGGGCTAAGTTCCGAAGAGCATTC
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTC
23808346 NNNNNNNNNN
Statistics
Matches: 306, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 4 0.01
40 302 0.99
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:23817042 original size:48 final size:48
Alignment explanation
Indices: 23816871--23817158 Score: 317
Period size: 48 Copynumber: 6.0 Consensus size: 48
23816861 CAAAAGGGTA
* * * *
23816871 AGATGCTGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * *
23816919 ATCGGTGCCGATGCCATGTTCCAAACATGGTATTACACTAGC-CACATAT
1 A--GATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * * *
23816968 CGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * *
23817016 AAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * * ** **
23817064 CGAGGCTGATGCCATGTCCTAGTCATGGTCTTACACTAGCTCTTATAT
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* *
23817112 AAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
1 AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
23817159 ACCTTAGTAT
Statistics
Matches: 193, Mismatches: 44, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
47 33 0.17
48 121 0.63
49 6 0.03
50 33 0.17
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
AGATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
Found at i:23817095 original size:96 final size:96
Alignment explanation
Indices: 23816875--23817158 Score: 408
Period size: 96 Copynumber: 2.9 Consensus size: 96
23816865 AGGGTAAGAT
* * * **
23816875 GCTGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
*
23816940 CAAACATGGTATTACACTAG-CCACATATCGAG
64 CAAACATGGTCTTACACTAGCCCACATATCGAG
* * *
23816972 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
23817037 AACATGGTCTTACACTAGCCCACATATCGAG
66 AACATGGTCTTACACTAGCCCACATATCGAG
* * * *
23817068 GCTGATGCCATGTCCTAGTCATGGTCTTACACTAGCTCTTATATAAATGCCGATGCCATGTCCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* *
23817133 GACATGGTCTTACACTAGCTCACATA
66 AACATGGTCTTACACTAGCCCACATA
23817159 ACCTTAGTAT
Statistics
Matches: 168, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
95 34 0.20
96 94 0.56
97 40 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTAGCCCACATATCGAG
Found at i:23817148 original size:144 final size:145
Alignment explanation
Indices: 23816879--23817158 Score: 370
Period size: 144 Copynumber: 1.9 Consensus size: 145
23816869 TAAGATGCTG
* * *
23816879 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCGGTGCCGATGCCATGTTCCAAA
**
23816944 CATGGTATTACACTAGCCACATATCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
66 CATGGTATTACACTAGCCACATATAAAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
*
23817009 CTCATATAAATGCCA
131 CACATATAAATGCCA
* *
23817024 ATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATATCGAG-GCTGATGCCATG-TCCTA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCG-GTGCCGATGCCATGTTCC-A
** * ** * *
23817085 GTCATGGTCTTACACTAGCTCTTATATAAATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
64 AACATGGTATTACACTAGC-CACATATAAAGGCCGACGCCATGTCCCAGACATGGTCTTACACTA
23817150 GCTCACATA
128 GCTCACATA
23817159 ACCTTAGTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
142 3 0.03
143 36 0.31
144 49 0.42
145 29 0.25
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (145 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCGGTGCCGATGCCATGTTCCAAA
CATGGTATTACACTAGCCACATATAAAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
CACATATAAATGCCA
Found at i:23823952 original size:56 final size:56
Alignment explanation
Indices: 23823866--23824097 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
23823856 ACAAGGGATG
*
23823866 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
23823922 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
23823978 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
23824034 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
23824090 ATGGGCAA
1 ATGGGCAA
23824098 TAAACTAATA
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:23829281 original size:44 final size:43
Alignment explanation
Indices: 23829204--23829350 Score: 152
Period size: 44 Copynumber: 3.4 Consensus size: 43
23829194 TTGGCACGTA
**
23829204 AGTGCATCATCGGATAAACTGAAGAAAATATACTAGTGCACAC
1 AGTGCATCATCGGATAAACTGAAGAAAATATACTAGCACACAC
** * *
23829247 AGTGCATCATCGGATGAAACTGAAGCTACTATACTGGCACACAC
1 AGTGCATCATCGGAT-AAACTGAAGAAAATATACTAGCACACAC
* * * * * *
23829291 AGTGCATCATCAGATATACCT-AAAAGAAATATACTAACACATAT
1 AGTGCATCATCGGATA-AACTGAAGA-AAATATACTAGCACACAC
23829335 AGTGCATCATCGGATA
1 AGTGCATCATCGGATA
23829351 TACCAAAGTA
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
43 18 0.21
44 66 0.79
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (43 bp):
AGTGCATCATCGGATAAACTGAAGAAAATATACTAGCACACAC
Found at i:23832216 original size:185 final size:186
Alignment explanation
Indices: 23831892--23832264 Score: 534
Period size: 185 Copynumber: 2.0 Consensus size: 186
23831882 CCGTGTGGCT
* *
23831892 CACACGGCTGAGACACATGCCCATGTCTCAGGCTGTGTGGACATTCGAAGTATGGACACACGGCC
1 CACACGACTGAGACACATGCCCATGTCTCAGGCTGTGTGGACATTCGAAGTAGGGACACACGGCC
** * * *
23831957 ATGTCTGTACTTGTGTAACTCTTTGACTTGGGTCACACGGCCAAGCCACACACCCGTGAGCTAGG
66 ATGTCCATACTCGTGTAACTCTCTGACTTGGGTCACACGGCCAAGCCACACACCCGTGAGCCAGG
**
23832022 CTATGTGCTAGGCCATGTAACTG-CTGACTTGAATGCCTTAAAAACCTACAGGGGA
131 CTATGTGCTAGGCCATGTAACTGCCAAACTTGAATGCCTTAAAAACCTACAGGGGA
* ** * * *
23832077 CACACGACTGAGACGCATGCCTGTGTCAT-AGGTTGTGTGGACATTCGAAGTAGGGGCACACTGC
1 CACACGACTGAGACACATGCCCATGTC-TCAGGCTGTGTGGACATTCGAAGTAGGGACACACGGC
* * *
23832141 CATGTCCATGCTCGTGTAACTCTCTGACTTGGGTCACACGGCTAAGCCACACGCCCGTGAGCCAG
65 CATGTCCATACTCGTGTAACTCTCTGACTTGGGTCACACGGCCAAGCCACACACCCGTGAGCCAG
* * *
23832206 GCTGTGTGCTAGGCCATGTAACTGCCAAACTTGAATGCCTTTAAAACCTATAGGGGA
130 GCTATGTGCTAGGCCATGTAACTGCCAAACTTGAATGCCTTAAAAACCTACAGGGGA
23832263 CA
1 CA
23832265 TACAGTTGAG
Statistics
Matches: 165, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
185 134 0.81
186 31 0.19
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (186 bp):
CACACGACTGAGACACATGCCCATGTCTCAGGCTGTGTGGACATTCGAAGTAGGGACACACGGCC
ATGTCCATACTCGTGTAACTCTCTGACTTGGGTCACACGGCCAAGCCACACACCCGTGAGCCAGG
CTATGTGCTAGGCCATGTAACTGCCAAACTTGAATGCCTTAAAAACCTACAGGGGA
Found at i:23833034 original size:38 final size:38
Alignment explanation
Indices: 23832968--23833152 Score: 142
Period size: 38 Copynumber: 4.9 Consensus size: 38
23832958 ACCGGAATAG
* * * *
23832968 GCATAGAGCCTGAATAA-CACCGGTACAAAGCCTGCTAA
1 GCATAGAGCCCGAA-AATCATCGGCACAAAGCCTACTAA
* *
23833006 GCATAGAGCTCGAAAATCA-CTGGCACAAAGCCTACTAG
1 GCATAGAGCCCGAAAATCATC-GGCACAAAGCCTACTAA
* * *
23833044 GCATAGAGCCCGAATATCATCGGCACAAAGCTTGC-AA
1 GCATAGAGCCCGAAAATCATCGGCACAAAGCCTACTAA
* * ** * * * *
23833081 GGCACAGAGCCTGACTATCACCAGCACAAAGCCTATTAG
1 -GCATAGAGCCCGAAAATCATCGGCACAAAGCCTACTAA
* * *
23833120 GTATAGAGCCCGAATATCATCGGTACAAAGCCT
1 GCATAGAGCCCGAAAATCATCGGCACAAAGCCT
23833153 GCTAGGAACA
Statistics
Matches: 116, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.03
38 110 0.95
39 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (38 bp):
GCATAGAGCCCGAAAATCATCGGCACAAAGCCTACTAA
Found at i:23833101 original size:76 final size:76
Alignment explanation
Indices: 23832965--23833172 Score: 242
Period size: 76 Copynumber: 2.8 Consensus size: 76
23832955 TACACCGGAA
* * * * ** **
23832965 TAGGCATAGAGCCTGAATAACACCGGTACAAAGCCTGCTAA-GCATAGAG-CTCGAAAATCACTG
1 TAGGCATAGAGCCCGAATATCATCGGTACAAAGCCTGC-AAGGCACAGAGCCT-GACTATCACCA
23833028 GCACAAAGCCTAC
64 GCACAAAGCCTAC
* *
23833041 TAGGCATAGAGCCCGAATATCATCGGCACAAAGCTTGCAAGGCACAGAGCCTGACTATCACCAGC
1 TAGGCATAGAGCCCGAATATCATCGGTACAAAGCCTGCAAGGCACAGAGCCTGACTATCACCAGC
*
23833106 ACAAAGCCTAT
66 ACAAAGCCTAC
* * * *
23833117 TAGGTATAGAGCCCGAATATCATCGGTACAAAGCCTGCTAGGAACAAAGCCT-ACTA
1 TAGGCATAGAGCCCGAATATCATCGGTACAAAGCCTGCAAGGCACAGAGCCTGACTA
23833173 GGCATAAAGC
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
75 6 0.05
76 105 0.93
77 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (76 bp):
TAGGCATAGAGCCCGAATATCATCGGTACAAAGCCTGCAAGGCACAGAGCCTGACTATCACCAGC
ACAAAGCCTAC
Found at i:23833165 original size:16 final size:16
Alignment explanation
Indices: 23833144--23833185 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23833134 TATCATCGGT
23833144 ACAAAGCCTGCTAGGA
1 ACAAAGCCTGCTAGGA
* *
23833160 ACAAAGCCTACTAGGC
1 ACAAAGCCTGCTAGGA
*
23833176 ATAAAGCCTG
1 ACAAAGCCTG
23833186 AATAACATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.14
Consensus pattern (16 bp):
ACAAAGCCTGCTAGGA
Found at i:23835296 original size:16 final size:16
Alignment explanation
Indices: 23835272--23835304 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23835262 GTCGACAATG
*
23835272 ACCAGCTAACCCTAGA
1 ACCAACTAACCCTAGA
23835288 ACCAACTAACCCTAGA
1 ACCAACTAACCCTAGA
23835304 A
1 A
23835305 AACTTCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.36, G:0.09, T:0.12
Consensus pattern (16 bp):
ACCAACTAACCCTAGA
Found at i:23835658 original size:43 final size:43
Alignment explanation
Indices: 23835594--23835795 Score: 210
Period size: 43 Copynumber: 4.7 Consensus size: 43
23835584 TTTATTTGAA
* *
23835594 AAAAACACCAC-AAAAGATCATGACTTTTAGC-GACGTTTGTGGG
1 AAAAGCACCACTAAAAG-TCATGGCTTTTAGCAG-CGTTTGTGGG
* * ** *
23835637 AAAAACGCCGTTAAAAGTCATGGGTTTTAGCAGCGTTTGTGGG
1 AAAAGCACCACTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGG
* * * * *
23835680 AAAAGCGCCATTAAAAGTCATGGCCTTTAGCGGCGTTTGAGGG
1 AAAAGCACCACTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGG
* * * *
23835723 AAAGGCACCACTAAAAGTCATGGCCTTTAGCAGCTTTTGTGGT
1 AAAAGCACCACTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGG
* *
23835766 AAAAGCACCGCTAAAAGTCATGACTTTTAG
1 AAAAGCACCACTAAAAGTCATGGCTTTTAG
23835796 TGGCGCTTTT
Statistics
Matches: 135, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 129 0.96
44 6 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAAGCACCACTAAAAGTCATGGCTTTTAGCAGCGTTTGTGGG
Found at i:23835795 original size:86 final size:86
Alignment explanation
Indices: 23835594--23835800 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 86
23835584 TTTATTTGAA
* * * * **
23835594 AAAAACACCAC-AAAAGATCATGACTTTTAGCGACGTTTGTGGGAAAAACGCCGTTAAAAGTCAT
1 AAAAGCACCACTAAAAG-TCATGACTTTTAGCGGCGTTTGAGGGAAAAACACCACTAAAAGTCAT
**
23835658 GGGTTTTAGCAGCGTTTGTGGG
65 GGCCTTTAGCAGCGTTTGTGGG
* * * * **
23835680 AAAAGCGCCATTAAAAGTCATGGCCTTTAGCGGCGTTTGAGGGAAAGGCACCACTAAAAGTCATG
1 AAAAGCACCACTAAAAGTCATGACTTTTAGCGGCGTTTGAGGGAAAAACACCACTAAAAGTCATG
* *
23835745 GCCTTTAGCAGCTTTTGTGGT
66 GCCTTTAGCAGCGTTTGTGGG
* *
23835766 AAAAGCACCGCTAAAAGTCATGACTTTTAGTGGCG
1 AAAAGCACCACTAAAAGTCATGACTTTTAGCGGCG
23835801 CTTTTGTTAC
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
86 93 0.95
87 5 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (86 bp):
AAAAGCACCACTAAAAGTCATGACTTTTAGCGGCGTTTGAGGGAAAAACACCACTAAAAGTCATG
GCCTTTAGCAGCGTTTGTGGG
Found at i:23835907 original size:31 final size:31
Alignment explanation
Indices: 23835872--23835937 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
23835862 AACCCTTCCT
*
23835872 GCATTAAATCCAACCAAAAACAGTAAATATA
1 GCATTAAATCCAACCAAAAACAGCAAATATA
* * *
23835903 GCATTGAATCCAACCAAATACAGCAAATGTA
1 GCATTAAATCCAACCAAAAACAGCAAATATA
23835934 GCAT
1 GCAT
23835938 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.20
Consensus pattern (31 bp):
GCATTAAATCCAACCAAAAACAGCAAATATA
Found at i:23836217 original size:21 final size:21
Alignment explanation
Indices: 23836193--23836233 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23836183 GCTACCATTG
*
23836193 CTGCTGCCTCTGCCTCCCTCT
1 CTGCTGCCACTGCCTCCCTCT
23836214 CTGCTGCCACTGCCTCCCTC
1 CTGCTGCCACTGCCTCCCTC
23836234 ACTACTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.54, G:0.15, T:0.29
Consensus pattern (21 bp):
CTGCTGCCACTGCCTCCCTCT
Found at i:23836241 original size:21 final size:21
Alignment explanation
Indices: 23836196--23836241 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23836186 ACCATTGCTG
* * *
23836196 CTGCCTCTGCCTCCCTCTCTG
1 CTGCCACTGCCTCCCTCACTA
23836217 CTGCCACTGCCTCCCTCACTA
1 CTGCCACTGCCTCCCTCACTA
23836238 CTGC
1 CTGC
23836242 ATCCGCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.52, G:0.13, T:0.28
Consensus pattern (21 bp):
CTGCCACTGCCTCCCTCACTA
Found at i:23836680 original size:13 final size:14
Alignment explanation
Indices: 23836654--23836682 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23836644 ACTAACGACG
23836654 AATTAAACCATTAT
1 AATTAAACCATTAT
23836668 AATTAAA-CATTAT
1 AATTAAACCATTAT
23836681 AA
1 AA
23836683 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:23841473 original size:9 final size:9
Alignment explanation
Indices: 23841459--23841611 Score: 96
Period size: 9 Copynumber: 18.0 Consensus size: 9
23841449 TAAGTATAAT
23841459 TAAGTTATG
1 TAAGTTATG
23841468 TAAGTTATG
1 TAAGTTATG
* * *
23841477 ATATGATATA
1 -TAAGTTATG
*
23841487 T-ATTTATG
1 TAAGTTATG
23841495 T-A-TTATG
1 TAAGTTATG
23841502 TAAGTTATG
1 TAAGTTATG
*
23841511 TAAATTATG
1 TAAGTTATG
23841520 TAAGTTATCCG
1 TAAGTTAT--G
23841531 -AA-TTATG
1 TAAGTTATG
*
23841538 TAAATTATG
1 TAAGTTATG
*
23841547 TAAGATATG
1 TAAGTTATG
*
23841556 --A--TATA
1 TAAGTTATG
23841561 TAA-TTATG
1 TAAGTTATG
23841569 T-A-TTATG
1 TAAGTTATG
23841576 TAAGTTATG
1 TAAGTTATG
*
23841585 TAAATTATG
1 TAAGTTATG
*
23841594 TAAATTATG
1 TAAGTTATG
*
23841603 TAAGATATG
1 TAAGTTATG
23841612 ATATATATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 24
0.74 0.10 0.15
Matches are distributed among these distances:
5 3 0.03
7 16 0.14
8 13 0.11
9 75 0.65
10 8 0.07
11 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:23841519 original size:18 final size:18
Alignment explanation
Indices: 23841496--23841605 Score: 107
Period size: 18 Copynumber: 6.0 Consensus size: 18
23841486 ATATTTATGT
*
23841496 ATTATGTAAGTTATGTAA
1 ATTATGTAAATTATGTAA
* ***
23841514 ATTATGTAAGTTATCCGA
1 ATTATGTAAATTATGTAA
23841532 ATTATGTAAATTATGTAA
1 ATTATGTAAATTATGTAA
*
23841550 GATATGATATATAATTATGT--
1 -AT-T-ATGTA-AATTATGTAA
*
23841570 ATTATGTAAGTTATGTAA
1 ATTATGTAAATTATGTAA
23841588 ATTATGTAAATTATGTAA
1 ATTATGTAAATTATGTAA
23841606 GATATGATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
16 7 0.09
17 4 0.05
18 47 0.63
19 4 0.05
20 1 0.01
21 4 0.05
22 8 0.11
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (18 bp):
ATTATGTAAATTATGTAA
Found at i:23841582 original size:56 final size:56
Alignment explanation
Indices: 23841514--23841625 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
23841504 AGTTATGTAA
*
23841514 ATTATGTAAGTTATCCGAATTATGTAAATTATGTAAGATATGATATATAATTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAGATATGATATATAATTATGT
** *
23841570 ATTATGTAAGTTATGTAAATTATGTAAATTATGTAAGATATGATATATATTTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAGATATGATATATAATTATGT
23841626 TGATGGGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (56 bp):
ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAGATATGATATATAATTATGT
Found at i:23841997 original size:104 final size:104
Alignment explanation
Indices: 23841874--23842537 Score: 930
Period size: 104 Copynumber: 6.4 Consensus size: 104
23841864 AAATATTTAA
* *
23841874 AAATACAATTTAATTTAATTAGGTAATTTAAAAAATAAAATAAAAGTAG-ATAATATTTTTTGTG
1 AAATACAATTTAATTTAATTAGGTAATTT-AAAAATAAAATAAAAGTAGAAAAATATTTTTCGTG
23841938 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
65 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
23841978 AAATACAATTTACTATAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGA-AAAATATTTTTCGTG
*
23842043 ATTAAAATAAAATAAAATAAAATAAAATATTTAAAATAATA-TTT
65 ATT-AAAT----TAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
23842087 AAAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAG-ACAATATTTTTCAT
1 --AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTCGT
23842151 GATTAAA-T----TAAAATAAAATATTTAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
23842187 AAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAGGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGA-AAAATATTTTTCGTG
* * *
23842252 ATTAAATCAAAAT-AATTAAAATATTTAAAATAAAACTCT
65 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
23842291 AAATAAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGA-AAAATATTTTTCGTG
*
23842356 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTT
65 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
23842396 AAATACAATTTACTTTAATTAAGTAATTTAAAAATAAAATAAAAGT-GCACAAAATATTTTT--T
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAG-A-AAAATATTTTTCGT
* *
23842458 G--T-GATTAAAATAAAAGAAAATATTTAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
23842496 AAATACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
23842538 CTTTAGCGGC
Statistics
Matches: 509, Mismatches: 32, Indels: 44
0.87 0.05 0.08
Matches are distributed among these distances:
98 60 0.12
99 25 0.05
100 79 0.16
101 1 0.00
103 22 0.04
104 125 0.25
105 97 0.19
106 4 0.01
108 3 0.01
109 19 0.04
110 28 0.06
111 46 0.09
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (104 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTCGTGA
TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:23842055 original size:5 final size:5
Alignment explanation
Indices: 23842045--23842071 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23842035 TTTTCGTGAT
23842045 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
23842072 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:23842191 original size:111 final size:107
Alignment explanation
Indices: 23841865--23842170 Score: 460
Period size: 111 Copynumber: 2.9 Consensus size: 107
23841855 GTTTTTGAAA
*
23841865 AATATTTAAAAATACAATTTAATTTAATTAGGTAATTTAAAAAATAAAATAAAAGTAGATAATAT
1 AATATTTAAAAATACAATTTAATTTAATTAGGTAATTT-AAAAATAAAATAAAAGTAGACAATAT
*
23841930 TTTTTGTGATTAAATTAAAATAAAATAAAAT---ATTTAAAAT
65 TTTTCGTGATTAAATTAAAATAAAATAAAATAAAATTTAAAAT
* * *
23841970 AAAACTTT--AAATACAATTTACTATAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAT
1 AATA-TTTAAAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC--AAT
*
23842033 ATTTTTCGTGATTAAAATAAAATAAAATAAAATAAAATATTTAAAAT
63 ATTTTTCGTGATTAAATTAAAATAAAATAAAAT-AAA-ATTTAAAAT
23842080 AATATTTAAAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATT
1 AATATTTAAAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATT
*
23842145 TTTCATGATTAAATTAAAATAAAATA
66 TTTCGTGATTAAATTAAAATAAAATA
23842171 TTTAAAATAA
Statistics
Matches: 180, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
103 20 0.11
104 27 0.15
105 37 0.21
106 3 0.02
109 33 0.18
110 12 0.07
111 48 0.27
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (107 bp):
AATATTTAAAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATT
TTTCGTGATTAAATTAAAATAAAATAAAATAAAATTTAAAAT
Found at i:23842237 original size:209 final size:207
Alignment explanation
Indices: 23841874--23842537 Score: 925
Period size: 209 Copynumber: 3.2 Consensus size: 207
23841864 AAATATTTAA
* **
23841874 AAATACAATTTAATTTAATTAGGTAATTTAAAAAATAAAATAAAAGTAGATAATATTTTTTGTGA
1 AAATACAATTTAATTTAATTAGGTAATTT-AAAAATAAAATAAAAGTAGACAATATTTTTCATGA
*
23841939 TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTATAATTAGGTAA
65 TTAAA-T----TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAA
23842004 TTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAAA
125 TTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATT-AAATAAAATAAAATAAAATAAA
*
23842069 ATATTTAAAATAATA-TTT
189 ATATTTAAAATAAAACTTT
23842087 AAAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATG
1 --AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATG
23842152 ATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
64 ATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
*
23842217 AAAATAAAATAAAGGTAGACAAAATATTTTTCGTGATTAAATCAAAAT--AAT----TAAAATAT
129 AAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAT-AAAATAAAATAAAATAAAATAT
*
23842276 TTAAAATAAAACTCT
193 TTAAAATAAAACTTT
*
23842291 AAATAAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC--AATATTTTTC---
* *
23842356 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTTTAATTAAGTA
61 A-T-GATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
* *
23842421 ATTTAAAAATAAAATAAAAGT-GCACAAAATATTTTT--TG--T-GAT----TAAAATAAAAGAA
124 ATTTAAAAATAAAATAAAAGTAG-ACAAAATATTTTTCGTGATTAAATAAAATAAAATAAAATAA
23842476 AATATTTAAAATAAAACTTT
188 AATATTTAAAATAAAACTTT
23842496 AAATACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
23842538 CTTTAGCGGC
Statistics
Matches: 418, Mismatches: 15, Indels: 44
0.88 0.03 0.09
Matches are distributed among these distances:
199 1 0.00
201 3 0.01
202 49 0.12
203 32 0.08
204 16 0.04
205 47 0.11
207 6 0.01
208 6 0.01
209 191 0.46
213 1 0.00
214 37 0.09
215 29 0.07
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (207 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATGAT
TAAATTAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAA
AATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAATAAAATAAAATAAAATAAAATATTTA
AAATAAAACTTT
Found at i:23843088 original size:16 final size:16
Alignment explanation
Indices: 23843051--23843091 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
23843041 ATTCAACAAT
*
23843051 ACTACAGCAA-TAAAA
1 ACTACAGCAAGAAAAA
23843066 A--ACAGCAAGAAAAA
1 ACTACAGCAAGAAAAA
23843080 ACTACAGCAAGA
1 ACTACAGCAAGA
23843092 GCTGTCTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 1 0.05
16 9 0.41
ACGTcount: A:0.61, C:0.20, G:0.12, T:0.07
Consensus pattern (16 bp):
ACTACAGCAAGAAAAA
Found at i:23850951 original size:27 final size:27
Alignment explanation
Indices: 23850931--23851470 Score: 583
Period size: 27 Copynumber: 20.2 Consensus size: 27
23850921 AAATTACTAT
23850931 AATACCCTCGATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
*
23850958 AATA-CCTCTGATTTGTAAAATTACTGA
1 AATACCCTC-GATTTGTAAAATTACCGA
* * * *
23850985 AATACCATTGA-TTGTGAAATTACTGA
1 AATACCCTCGATTTGTAAAATTACCGA
*
23851011 AATACCCTCGATTTGTAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
23851038 AATACCCTCGA-TTGTAAAATTATCAA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
23851064 AATACCATTGATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* * * *
23851091 AATACCCCCAATCTGTAAAATTACCTA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
23851118 AACACCCTCTATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
23851145 AATACCCTTGATTTGTAAAATAACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
23851172 AATACCCTC-ATTTGTGAAATTATCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* **
23851198 AATACCCTCAATTTGTAAAATTACTAA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
23851225 AATACCCTCGA-TTGTGAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCGA
* * *
23851251 AATGCCC-CTATTTGTGAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* * *
23851277 AACACCTTTGATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* * *
23851304 AACACCCTTGATTTTTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* **
23851331 AACACCCTTAATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
** * *
23851358 AATACCCTTAATTTATAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCGA
23851385 AATACCCTCGATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* * *
23851412 AACACCC-CAAATTTGTAAAATTATCGA
1 AATACCCTC-GATTTGTAAAATTACCGA
* *
23851439 AATACCCTTG-TAGTGTAAAATTACCGA
1 AATACCCTCGAT-TTGTAAAATTACCGA
23851466 AATAC
1 AATAC
23851471 TCTTGTAGTA
Statistics
Matches: 435, Mismatches: 68, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.00
26 112 0.26
27 319 0.73
28 2 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTACCGA
Found at i:23851514 original size:27 final size:27
Alignment explanation
Indices: 23851425--23851516 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
23851415 ACCCCAAATT
* *
23851425 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
23851452 TGTAAAATTACCGAAATACTCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
23851479 TATAAAATGACCGACATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
23851506 GGTAAAATGAC
1 TGTAAAATGAC
23851517 TGTTTTGCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:23851990 original size:11 final size:11
Alignment explanation
Indices: 23851974--23851999 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23851964 ATTGCATGTA
23851974 TGATATTATTG
1 TGATATTATTG
23851985 TGATATTATTG
1 TGATATTATTG
23851996 TGAT
1 TGAT
23852000 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:23865300 original size:50 final size:50
Alignment explanation
Indices: 23865225--23865343 Score: 202
Period size: 50 Copynumber: 2.4 Consensus size: 50
23865215 CCATGGTAAC
* * *
23865225 AAGTGATAAGTGATAGCTTGGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
23865275 AAGTGATAATTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
23865325 AAGTGATAAGTGATAGCTT
1 AAGTGATAAGTGATAGCTT
23865344 TGACTACCTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:23865361 original size:31 final size:31
Alignment explanation
Indices: 23865326--23865393 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
23865316 GACAAATGAA
* *
23865326 AGTGATAAGTGATAGCTTTGACTACCTGATC
1 AGTGAAAAGTGATAGCTTCGACTACCTGATC
* *
23865357 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGACTACCTGATC
23865388 AGTGAA
1 AGTGAA
23865394 NNNNNNNNNC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGATAGCTTCGACTACCTGATC
Found at i:23867934 original size:43 final size:43
Alignment explanation
Indices: 23867793--23867965 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
23867783 GACATAGGAT
* * *
23867793 TCGATATGTGTTTTCGTGTAAGACCATGTCTAGGATGTTGGCA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGGCA
* *
23867836 TCGACT-TATGATTTACGTGTAAGACCACATCTAGGACGTTGGCA
1 TCGA-TATGTGATTT-CGTGTAAGACCACGTCTAGGACGTTGGCA
* *
23867880 TC-ATATGTGATTTTGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGATTTCGTGTAAGACCAC-GTCTAGGAC-GTTGGCA
* * * * *
23867922 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTAGCA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGGCA
23867965 T
1 T
23867966 TGTACGAGAT
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.24
43 51 0.47
44 30 0.28
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGGCA
Found at i:23867980 original size:86 final size:87
Alignment explanation
Indices: 23867803--23867980 Score: 193
Period size: 86 Copynumber: 2.1 Consensus size: 87
23867793 TCGATATGTG
* * *
23867803 TTTTCGTGTAAGACCATGTCTAGGATGTTGGCATCGACTTATGATTTACGTGTAAGACCACATCT
1 TTTTTGTGTAAGACCATGTCTAGGAAGTTGGCATCGACTTATGATTTACATGTAAGACCACATCT
* * *
23867868 AGGACGTTGGCATCATATGTGA
66 AGGACGTTAGCATCATACGAGA
* * * *
23867890 -TTTTGTGTAAGACCCTGTCTGGGACAG-TGGCATCGA-TATTTGA-TTACATGTAAGACCACGT
1 TTTTTGTGTAAGACCATGTCTAGGA-AGTTGGCATCGACT-TATGATTTACATGTAAGACCACAT
* **
23867951 CTGGGACGTTAGCATTGTACGAGA
64 CTAGGACGTTAGCATCATACGAGA
23867975 TTTTTG
1 TTTTTG
23867981 AGCTATCTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
85 35 0.47
86 39 0.52
87 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (87 bp):
TTTTTGTGTAAGACCATGTCTAGGAAGTTGGCATCGACTTATGATTTACATGTAAGACCACATCT
AGGACGTTAGCATCATACGAGA
Found at i:23878944 original size:48 final size:48
Alignment explanation
Indices: 23878892--23878987 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
23878882 GAGAATAAGT
* *
23878892 ATGAAATTATTATGAGATGGTACAGGTATGTACATAAGTTTATGATTA
1 ATGAAATTATTACGAGATGGTACAGGTATGTACATAAGCTTATGATTA
23878940 ATGAAATTATTACGAGATGGTACAGGTATGTACATAAGCTTATGATTA
1 ATGAAATTATTACGAGATGGTACAGGTATGTACATAAGCTTATGATTA
23878988 TTAAATTTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (48 bp):
ATGAAATTATTACGAGATGGTACAGGTATGTACATAAGCTTATGATTA
Found at i:23887482 original size:25 final size:25
Alignment explanation
Indices: 23887454--23887502 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23887444 TCAACTTATC
*
23887454 GATTTATAGCTCGTGA-GAGCATACT
1 GATTCATAGCTCGT-ATGAGCATACT
23887479 GATTCATAGCTCGTATGAGCATAC
1 GATTCATAGCTCGTATGAGCATAC
23887503 ATGTACAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
GATTCATAGCTCGTATGAGCATACT
Found at i:23887690 original size:30 final size:30
Alignment explanation
Indices: 23887651--23887712 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
23887641 TACATGAAAT
23887651 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
23887682 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
23887711 AC
1 AC
23887713 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:23888106 original size:25 final size:25
Alignment explanation
Indices: 23888047--23888106 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
23888037 GCTGTTTGGC
* *
23888047 TAATCTTGGCCTATATGTTTTGTTG
1 TAATTTTGGCCTATATGTTTGGTTG
*
23888072 TAATTGTGGCC-ATATGATTTGGCTTG
1 TAATTTTGGCCTATATG-TTTGG-TTG
23888098 T-ATTTTGGC
1 TAATTTTGGC
23888107 ATGTTTTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.17, C:0.12, G:0.23, T:0.48
Consensus pattern (25 bp):
TAATTTTGGCCTATATGTTTGGTTG
Found at i:23890552 original size:30 final size:30
Alignment explanation
Indices: 23890518--23890581 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
23890508 GTCTTTCAGT
*
23890518 TTAACCAATGCTCTGACTACCTTTATGGAC
1 TTAACCAATGCTCTGACTACCTTCATGGAC
* *
23890548 TTAACCAATGCTCTGATTTCCTTCATGGAC
1 TTAACCAATGCTCTGACTACCTTCATGGAC
23890578 TTAA
1 TTAA
23890582 TGAACCGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (30 bp):
TTAACCAATGCTCTGACTACCTTCATGGAC
Found at i:23898298 original size:17 final size:17
Alignment explanation
Indices: 23898276--23898310 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23898266 TTTTGACTAT
*
23898276 ATCTCTATGTTAATTCA
1 ATCTCTATGTCAATTCA
23898293 ATCTCTATGTCAATTCA
1 ATCTCTATGTCAATTCA
23898310 A
1 A
23898311 CCAATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (17 bp):
ATCTCTATGTCAATTCA
Found at i:23901257 original size:60 final size:60
Alignment explanation
Indices: 23901180--23901329 Score: 255
Period size: 60 Copynumber: 2.5 Consensus size: 60
23901170 AACTGGACCT
* *
23901180 TAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATACTAGGCC
1 TAGCCCATACCAGTATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATACTAGGCC
*
23901240 TAGCCTATACCAGTATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATACTAGGCC
1 TAGCCCATACCAGTATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATACTAGGCC
* *
23901300 TAGCCCATATCAGTATCAATCTGGGCCATA
1 TAGCCCATACCAGTATTAATCTGGGCCATA
23901330 ACCCTATTAC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 84 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (60 bp):
TAGCCCATACCAGTATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATACTAGGCC
Found at i:23901415 original size:19 final size:20
Alignment explanation
Indices: 23901373--23901416 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
23901363 CCCAATTAAC
** *
23901373 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
23901393 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
23901412 ACAGT
1 ACAGT
23901417 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:23902678 original size:16 final size:17
Alignment explanation
Indices: 23902644--23902680 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23902634 TCAAGGAAGG
23902644 AAGAGATGAGAAAAAGA
1 AAGAGATGAGAAAAAGA
23902661 AAGAGA-GA-AAATAAGA
1 AAGAGATGAGAAA-AAGA
23902677 AAGA
1 AAGA
23902681 ATTCGGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 10 0.53
17 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (17 bp):
AAGAGATGAGAAAAAGA
Found at i:23921309 original size:31 final size:31
Alignment explanation
Indices: 23921273--23921363 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
23921263 ATAATTTAAT
23921273 TATCATAAATTCATATTATATAAATTATATA
1 TATCATAAATTCATATTATATAAATTATATA
*
23921304 TATCATTAATT-ATATT-TATAAATTATATTTA
1 TATCATAAATTCATATTATATAAATTATA--TA
* *
23921335 TAT-TTATATTCATATTATATAAATTATAT
1 TATCATAAATTCATATTATATAAATTATAT
23921364 TTATATATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
29 11 0.21
30 10 0.19
31 20 0.38
32 11 0.21
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (31 bp):
TATCATAAATTCATATTATATAAATTATATA
Found at i:23921335 original size:6 final size:6
Alignment explanation
Indices: 23921313--23921369 Score: 60
Period size: 6 Copynumber: 9.0 Consensus size: 6
23921303 ATATCATTAA
* * *
23921313 TTATAT TTATAAA TTATAT TTATAT TTATAT TCATAT TATATAAA TTATAT
1 TTATAT TTAT-AT TTATAT TTATAT TTATAT TTATAT T-TAT-AT TTATAT
23921364 TTATAT
1 TTATAT
23921370 ATCATTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 30 0.71
7 10 0.24
8 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (6 bp):
TTATAT
Found at i:23921368 original size:26 final size:29
Alignment explanation
Indices: 23921287--23921385 Score: 105
Period size: 29 Copynumber: 3.3 Consensus size: 29
23921277 ATAAATTCAT
* *
23921287 ATTATATAAATTATATATATCAT-TAATTA
1 ATTATATAAATTATATTTAT-ATATCATTA
23921316 TATT-TATAAATTATATTTATATTTAT-ATTCA
1 -ATTATATAAATTATATTTATA--TATCATT-A
23921347 TATTATATAAATTATATTTATATATCATTA
1 -ATTATATAAATTATATTTATATATCATTA
23921377 ATTATATAA
1 ATTATATAA
23921386 TTTAAAACAA
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
28 1 0.02
29 24 0.39
30 11 0.18
31 9 0.15
32 17 0.27
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTATATAAATTATATTTATATATCATTA
Found at i:23923680 original size:46 final size:46
Alignment explanation
Indices: 23923526--23923840 Score: 225
Period size: 46 Copynumber: 6.7 Consensus size: 46
23923516 ATTTGTTTGT
*
23923526 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGA
* * * * *
23923572 GAGCCAGTGCAAGACCATGTCTAGGACATTGCAT-TG--GCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCAGCCACATT---ACGA
*
23923620 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGA
* * * * *
23923666 GAGCCAGTGCAAGACCATGTCTAGGACATTGCAT-TG--GCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCAGCCACATT---ACGA
* * *
23923714 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTACG-A
* * * * * * *
23923761 -AGCCAGTGTAAGACATGTTTGGGACATGCGTCGGCTAC-TAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAT-TACGA
*
23923806 TAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
23923841 GGCACTTTAC
Statistics
Matches: 213, Mismatches: 33, Indels: 44
0.73 0.11 0.15
Matches are distributed among these distances:
45 9 0.04
46 88 0.41
47 66 0.31
48 44 0.21
49 5 0.02
50 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGA
Found at i:23923687 original size:94 final size:94
Alignment explanation
Indices: 23923526--23923840 Score: 442
Period size: 94 Copynumber: 3.4 Consensus size: 94
23923516 ATTTGTTTGT
23923526 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATG
23923591 TCTAGGACATTGCATTGGCATTGAGACGA
66 TCTAGGACATTGCATTGGCATTGAGACGA
23923620 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATG
23923685 TCTAGGACATTGCATTGGCATTGAGACGA
66 TCTAGGACATTGCATTGGCATTGAGACGA
* * * * *
23923714 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAGCCAGTGCAAGACCA
* * * * * *
23923776 TGTTTGGGACA-TGCGTCGGCTACT-AGATGA
64 TGTCTAGGACATTGCATTGGC-ATTGAGACGA
*
23923806 TAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
23923841 GGCACTTTAC
Statistics
Matches: 204, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
92 25 0.12
93 27 0.13
94 150 0.74
95 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATG
TCTAGGACATTGCATTGGCATTGAGACGA
Found at i:23923788 original size:140 final size:142
Alignment explanation
Indices: 23923570--23923844 Score: 342
Period size: 140 Copynumber: 2.0 Consensus size: 142
23923560 GCCACATTAT
* * *
23923570 GAGAGCCAGTGCAAGACCATGTCTAGGACATTGCATTGGCATTGAGACGAGAGCTAGTGTAAGAC
1 GAGAGCCAGTGCAAGACCATGTCTAGGACATTGCATCGGCATCGAGACGAGAGCCAGTGTAAGAC
* *
23923635 ATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCCAGTGCAAGACCATGTCTAGGACATTGCA
66 ATGTCTGGGACATGCATCAGCCACTA-GATGAGAGCCAGTGCAAGACCATGTCTAGGACATGGCA
*
23923699 TTGGCATTGAGAC
130 TCGGCATTGAGAC
* * * *
23923712 GAGAGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCGAGACGTA-AGCCAGTGTAAGA
1 GAGAGCCAGTGCAAGACCATGTCTAGGACATTGCATCGGCATCGAGACG-AGAGCCAGTGTAAGA
* * * * * * * *
23923774 CATGTTTGGGACATGCGTCGGCTACTAGATGATAGCTAGTGTAAGACCATGTCTGGGACATGGCA
65 CATGTCTGGGACATGCATCAGCCACTAGATGAGAGCCAGTGCAAGACCATGTCTAGGACATGGCA
23923839 TCGGCA
130 TCGGCA
23923845 CTTTACCCAT
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
140 85 0.75
141 14 0.12
142 14 0.12
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (142 bp):
GAGAGCCAGTGCAAGACCATGTCTAGGACATTGCATCGGCATCGAGACGAGAGCCAGTGTAAGAC
ATGTCTGGGACATGCATCAGCCACTAGATGAGAGCCAGTGCAAGACCATGTCTAGGACATGGCAT
CGGCATTGAGAC
Found at i:23924832 original size:28 final size:29
Alignment explanation
Indices: 23924792--23924847 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
23924782 ACACGGGCTA
* *
23924792 GGACACGGGCGTGT-CGTGGCCGTGTGAG
1 GGACACGGGCGTGTGCCTGGCCATGTGAG
23924820 GGACACGGGCGTGTGCCTGGCCATGTGA
1 GGACACGGGCGTGTGCCTGGCCATGTGA
23924848 AAACCCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.12, C:0.23, G:0.46, T:0.18
Consensus pattern (29 bp):
GGACACGGGCGTGTGCCTGGCCATGTGAG
Found at i:23925669 original size:50 final size:50
Alignment explanation
Indices: 23925611--23925712 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
23925601 TTTGATTTGG
*
23925611 ATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGCGTTATGACT
1 ATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGCGTTATGACT
*
23925661 ATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGTGTTATGACT
1 ATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGCGTTATGACT
23925711 AT
1 AT
23925713 AAATGTGATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (50 bp):
ATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGCGTTATGACT
Found at i:23925909 original size:40 final size:40
Alignment explanation
Indices: 23925851--23926505 Score: 1076
Period size: 40 Copynumber: 16.4 Consensus size: 40
23925841 TGAGAGTTAT
23925851 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
23925891 ATGTATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23925931 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
23925971 ATGTATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926011 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
23926051 ATGTATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926091 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
23926131 ATGTATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926171 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
23926211 ATGTATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926251 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926291 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
23926331 ATATATCTGGGCTAATTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926371 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926411 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
23926451 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
23926491 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
23926506 ACCTCGAAGG
Statistics
Matches: 566, Mismatches: 49, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 566 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:23926623 original size:57 final size:57
Alignment explanation
Indices: 23926533--23926689 Score: 206
Period size: 57 Copynumber: 2.8 Consensus size: 57
23926523 GCTGGAATTA
* * * * * *
23926533 TGAGGCACTGTGTGTACAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* **
23926590 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* **
23926647 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGTGCTATGTGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGT
23926690 ACGAAATCAG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 88 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
Found at i:23926634 original size:28 final size:27
Alignment explanation
Indices: 23926562--23926689 Score: 112
Period size: 29 Copynumber: 4.5 Consensus size: 27
23926552 GTTCTCCAAC
* * * *
23926562 CGAGCACTATGTGTGCCAGATCAGTAGT
1 CGAGCACTATGTGTGCGAGTTC-TTAAT
*
23926590 TGAGGCACTATGTGTGCGAGTTCTTCAAT
1 CGA-GCACTATGTGTGCGAGTTCTT-AAT
**
23926619 CGAGCACTATGTGTGCGAGATTGGTAAT
1 CGAGCACTATGTGTGCGAG-TTCTTAAT
*
23926647 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 CGA-GCACTATGTGTGCGAGTTC-TTAAT
**
23926676 CGAGTGCTATGTGT
1 CGAGCACTATGTGT
23926690 ACGAAATCAG
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
28 35 0.43
29 46 0.57
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (27 bp):
CGAGCACTATGTGTGCGAGTTCTTAAT
Found at i:23926675 original size:29 final size:29
Alignment explanation
Indices: 23926565--23926675 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
23926555 CTCCAACCGA
* * * *
23926565 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGTTCTGTAATTGAG
*
23926594 GCACTATGTGTGCGAGTTCT-TCAATCGA-
1 GCACTATGTGTGCGAGTTCTGT-AATTGAG
*
23926622 GCACTATGTGTGCGAGATT-GGTAATTGAG
1 GCACTATGTGTGCGAG-TTCTGTAATTGAG
*
23926651 GCACTATGTGTGCGAGTTCTTTAAT
1 GCACTATGTGTGCGAGTTCTGTAAT
23926676 CGAGTGCTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
28 24 0.35
29 44 0.65
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (29 bp):
GCACTATGTGTGCGAGTTCTGTAATTGAG
Found at i:23930557 original size:47 final size:47
Alignment explanation
Indices: 23930503--23930881 Score: 508
Period size: 47 Copynumber: 8.1 Consensus size: 47
23930493 TTAGGATTTT
** * * **
23930503 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
23930550 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
23930597 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
23930644 ATGTGATGAATGTGAATATTCGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
23930691 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
23930738 ATGTGATGAATGTGAATATTCGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
23930785 ATGTGATGAATGTGAACACGCATATATGTGATAAGACAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
23930832 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
23930879 ATG
1 ATG
23930882 CGAAATGTGT
Statistics
Matches: 293, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 290 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:23930911 original size:46 final size:46
Alignment explanation
Indices: 23930855--23931037 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
23930845 GGAAGTGTAT
* * *
23930855 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
23930901 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* *
23930947 ATATGAGGTAAAGCCGAATGGCTAATACGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* * * **
23930993 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATG
23931038 TGTATATATA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:23938412 original size:40 final size:40
Alignment explanation
Indices: 23938359--23938499 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
23938349 CGGATGTAAC
23938359 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
23938399 AACCCGCATGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * ** * *
23938439 AACTAGCAC-AATTGCCTT-TGGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
23938479 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
23938500 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
39 5 0.06
40 77 0.91
41 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:23938502 original size:40 final size:40
Alignment explanation
Indices: 23938349--23938515 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
23938339 GAATTTGGCT
* * * * **
23938349 CGGATGTAACAACCAGCACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* ** ** * **
23938389 CGGTTATAATAACCCGCATGAATGCCTTTGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCC-TTCGGATCTTAGTC
* * *
23938429 CGGTTATAATAACTAGCACAATTGCCTTTGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
*
23938469 CGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
23938509 CGGATAT
1 CGGATAT
23938516 CATCCGAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 5 0.05
40 100 0.93
41 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
Found at i:23943783 original size:65 final size:65
Alignment explanation
Indices: 23943679--23943810 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
23943669 AAAGTTGGAA
23943679 CAGGGGATTCAGAAACTGCTATGACTCTGTTTCACTAAAATTCAAATATATTCTAACATGTAATT
1 CAGGGGATTCAGAAACTGCTATGACTCTGTTTCACTAAAATTCAAATATATTCTAACATGTAATT
*
23943744 CAGGGGATTCAGAAACTGCTATGACTCTGTTTCACTAAAATTCAAATATCTTCTAACATGTAATT
1 CAGGGGATTCAGAAACTGCTATGACTCTGTTTCACTAAAATTCAAATATATTCTAACATGTAATT
23943809 CA
1 CA
23943811 TTTACTTGTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (65 bp):
CAGGGGATTCAGAAACTGCTATGACTCTGTTTCACTAAAATTCAAATATATTCTAACATGTAATT
Found at i:23944105 original size:63 final size:63
Alignment explanation
Indices: 23944032--23944162 Score: 246
Period size: 63 Copynumber: 2.1 Consensus size: 63
23944022 CTAAACTAAC
*
23944032 CATTT-TCATAATTTATCATTATCAAGCATTTCCTCAACCATTCCATCACCATGCCATAAGAT
1 CATTTCTCATAATTTATCATTATCAAGCATTTCCTCAACCATTCCATCACCATACCATAAGAT
23944094 CATTTCTCATAATTTATCATTATCAAGCATTTCCTCAACCATTCCATCACCATACCATAAGAT
1 CATTTCTCATAATTTATCATTATCAAGCATTTCCTCAACCATTCCATCACCATACCATAAGAT
23944157 CATTTC
1 CATTTC
23944163 CACAAAAAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 5 0.07
63 62 0.93
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (63 bp):
CATTTCTCATAATTTATCATTATCAAGCATTTCCTCAACCATTCCATCACCATACCATAAGAT
Found at i:23951114 original size:40 final size:40
Alignment explanation
Indices: 23951084--23952053 Score: 1816
Period size: 40 Copynumber: 24.3 Consensus size: 40
23951074 GGACTAAGAT
* * * *
23951084 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951124 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951164 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951204 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951244 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951284 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951324 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951364 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951404 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951444 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951484 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951524 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951564 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951604 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951644 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951684 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951724 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951764 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951804 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951844 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23951884 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
23951924 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
23951964 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * * *
23952004 CCAAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23952043 CCGAAGGCATT
1 CCGAAGGCATT
23952054 TGAACGAGGA
Statistics
Matches: 914, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 32 0.04
40 882 0.96
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:23955612 original size:46 final size:46
Alignment explanation
Indices: 23955542--23955830 Score: 422
Period size: 46 Copynumber: 6.3 Consensus size: 46
23955532 TGTAACCCGC
* * * * *
23955542 CCATAAGCGAACTCGGACTAAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
23955588 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-T
** *
23955633 CACATTTGACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23955681 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23955727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23955773 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23955819 CCATAAGTGAAC
1 CCATAAGTGAAC
23955831 GATACCGATA
Statistics
Matches: 222, Mismatches: 14, Indels: 14
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
45 2 0.01
46 178 0.80
47 31 0.14
48 2 0.01
49 4 0.02
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23955859 original size:138 final size:137
Alignment explanation
Indices: 23955542--23955830 Score: 379
Period size: 139 Copynumber: 2.1 Consensus size: 137
23955532 TGTAACCCGC
* * * * *
23955542 CCATAAGCGAACTCGGACTAAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACT
1 CCATAAGTGAACTCCGACT-AACTCAACGAGTTC-GACATTCGCATCCATAAATGAACTCGGACT
**
23955607 CAACTCAACGAGCTCGGATGCCTAGTCACATTTGACGAACTCGGACTCAACTCAACGAGTTCGGA
64 CAACTCAACGAGCTCGGATGCCTAGTCACATAAGACGAACTCGGACTCAACTCAACGAGTTCGGA
23955672 CATTCGCAT
129 CATTCGCAT
* *
23955681 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCCGACT-AACTCAACGAGTTC-GACATTCGCATCCATAAATGAACTCGGACT
* * *
23955746 CAACTCAACGAGTTCGGACATTCGC-A-TC-CATAAG-TGAACTCGGACTCAACTCAACGAGTTC
64 CAACTCAACGAGCTCGG--ATGC-CTAGTCACATAAGACGAACTCGGACTCAACTCAACGAGTTC
23955807 GGACATTCGCAT
126 GGACATTCGCAT
23955819 CCATAAGTGAAC
1 CCATAAGTGAAC
23955831 GATACCGATA
Statistics
Matches: 136, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
138 50 0.37
139 79 0.58
140 2 0.01
141 4 0.03
142 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (137 bp):
CCATAAGTGAACTCCGACTAACTCAACGAGTTCGACATTCGCATCCATAAATGAACTCGGACTCA
ACTCAACGAGCTCGGATGCCTAGTCACATAAGACGAACTCGGACTCAACTCAACGAGTTCGGACA
TTCGCAT
Found at i:23956197 original size:75 final size:75
Alignment explanation
Indices: 23956074--23956223 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
23956064 CCCGAATTTC
*
23956074 AGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTAAGACTCACATTATTCAAATTTACCCA
1 AGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTAAGACTCACATTATTCAAATTGACCCA
23956139 AAATCATATT
66 AAATCATATT
*
23956149 AGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTAGGACTCACATTATTCAAATTGACCCA
1 AGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTAAGACTCACATTATTCAAATTGACCCA
23956214 AAATCATATT
66 AAATCATATT
23956224 TTGGAAAAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (75 bp):
AGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTAAGACTCACATTATTCAAATTGACCCA
AAATCATATT
Found at i:23956688 original size:96 final size:96
Alignment explanation
Indices: 23956565--23956756 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
23956555 TAGCATAAGT
* *
23956565 TAAATCAAGCTACTGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTAA
1 TAAATCAAGCTACCGGGAATCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTAA
23956630 AATCAAGCTTGGAAGCTTGAAAAACCCTAGC
66 AATCAAGCTTGGAAGCTTGAAAAACCCTAGC
*
23956661 TAAATCAAGCTACCGGGAATCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTAC
1 TAAATCAAGCTACCGGGAATCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTAA
23956726 AATCAAGCTTGGAAGCTTGAAAAACCCTAGC
66 AATCAAGCTTGGAAGCTTGAAAAACCCTAGC
23956757 CATGGTTTCT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (96 bp):
TAAATCAAGCTACCGGGAATCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTAA
AATCAAGCTTGGAAGCTTGAAAAACCCTAGC
Found at i:23958011 original size:50 final size:53
Alignment explanation
Indices: 23957943--23958041 Score: 159
Period size: 50 Copynumber: 1.9 Consensus size: 53
23957933 AGAACACACT
*
23957943 TGGGCACTGAGTGCCAAGCCCGAAGGCTA-ACATCC-CT-CCAGAAACATGTC
1 TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACATGTC
*
23957993 TGGGCACTAAGTGTCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACA
1 TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACA
23958042 CGCCTGAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 27 0.61
51 6 0.14
52 2 0.05
53 9 0.20
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.16
Consensus pattern (53 bp):
TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACATGTC
Found at i:23960630 original size:14 final size:14
Alignment explanation
Indices: 23960611--23960637 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23960601 ACTTCTGTGA
23960611 AAATAAAATAAAAT
1 AAATAAAATAAAAT
23960625 AAATAAAATAAAA
1 AAATAAAATAAAA
23960638 AACACACAAT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:23960758 original size:28 final size:28
Alignment explanation
Indices: 23960714--23960767 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
23960704 TGTCAAATTC
*
23960714 GAATAATTAGAAGAGGAATAGACTATGA
1 GAATAATTAGAAAAGGAATAGACTATGA
*
23960742 GAATAATTATAAAAGGAATAGACTAT
1 GAATAATTAGAAAAGGAATAGACTAT
23960768 ATCTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (28 bp):
GAATAATTAGAAAAGGAATAGACTATGA
Found at i:23963385 original size:14 final size:15
Alignment explanation
Indices: 23963366--23963394 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23963356 TTCCCGTCTG
23963366 TTTTTCAAT-CTTAA
1 TTTTTCAATACTTAA
23963380 TTTTTCAATACTTAA
1 TTTTTCAATACTTAA
23963395 ATACGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTCAATACTTAA
Found at i:23965086 original size:4 final size:5
Alignment explanation
Indices: 23965061--23965104 Score: 72
Period size: 5 Copynumber: 8.8 Consensus size: 5
23965051 CCAATTTGTG
23965061 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAA
23965105 ACATACAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 29 0.78
6 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:23966436 original size:16 final size:16
Alignment explanation
Indices: 23966402--23966441 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23966392 AATGGATAAA
* *
23966402 TTATCTAATTAATTTT
1 TTATCTAATTAAATAT
*
23966418 TTATTTAATTAAATAT
1 TTATCTAATTAAATAT
23966434 TTATCTAA
1 TTATCTAA
23966442 ATACAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCTAATTAAATAT
Found at i:23968410 original size:24 final size:25
Alignment explanation
Indices: 23968366--23968415 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
23968356 CTTGAGACCA
23968366 TAATTATAAGGAAAAACTAAGGGGC
1 TAATTATAAGGAAAAACTAAGGGGC
23968391 TAATTATAAGG-AAAACTAAGGGGC
1 TAATTATAAGGAAAAACTAAGGGGC
23968415 T
1 T
23968416 TTTAAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (25 bp):
TAATTATAAGGAAAAACTAAGGGGC
Found at i:23970469 original size:18 final size:19
Alignment explanation
Indices: 23970440--23970478 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
23970430 ATTAATATAT
23970440 TATAATTTTAAAAT-TTAAA
1 TATAATTTT-AAATGTTAAA
23970459 TATAA-TTTAAATGTTAAA
1 TATAATTTTAAATGTTAAA
23970477 TA
1 TA
23970479 CTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TATAATTTTAAATGTTAAA
Found at i:23974832 original size:15 final size:15
Alignment explanation
Indices: 23974812--23974863 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
23974802 ACTACAAAAC
23974812 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
23974827 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
23974846 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
23974861 ATT
1 ATT
23974864 CAATATGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:23974849 original size:19 final size:19
Alignment explanation
Indices: 23974825--23974861 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23974815 TATTATTAAT
*
23974825 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
23974844 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
23974862 TTCAATATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:23974898 original size:13 final size:14
Alignment explanation
Indices: 23974878--23974918 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23974868 ATGTGAAGAA
23974878 TATTATTTAAAATT
1 TATTATTTAAAATT
23974892 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
23974907 TATTA-TTAAAAT
1 TATTATTTAAAAT
23974919 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:23974903 original size:15 final size:17
Alignment explanation
Indices: 23974878--23974914 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
23974868 ATGTGAAGAA
23974878 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
23974894 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
23974910 TATTA
1 TATTA
23974915 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:23974938 original size:18 final size:18
Alignment explanation
Indices: 23974900--23974935 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23974890 TTTTTATTTT
*
23974900 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
23974918 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
23974936 TAATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:23974965 original size:16 final size:16
Alignment explanation
Indices: 23974946--23974976 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23974936 TAATTATTAA
23974946 AATAATTAATTATATT
1 AATAATTAATTATATT
*
23974962 AATAATTTATTATAT
1 AATAATTAATTATAT
23974977 GACTAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATTAATTATATT
Found at i:23975558 original size:13 final size:13
Alignment explanation
Indices: 23975528--23975614 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 13
23975518 GTTATCATTA
*
23975528 AATTTTAATAGGAT
1 AATTTTAATA-AAT
23975542 AATTATTAA-AAAT
1 AATT-TTAATAAAT
23975555 AA-TTTAATAAAT
1 AATTTTAATAAAT
*
23975567 AA-TTTAAT-CAT
1 AATTTTAATAAAT
23975578 AA-TTTAAT--AT
1 AATTTTAATAAAT
*
23975588 AATTATTATTAAAT
1 AATT-TTAATAAAT
*
23975602 ATAATTTAATAAA
1 A-ATTTTAATAAA
23975615 AATAAAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
10 4 0.07
11 15 0.25
12 17 0.28
13 4 0.07
14 15 0.25
15 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (13 bp):
AATTTTAATAAAT
Found at i:23975561 original size:26 final size:25
Alignment explanation
Indices: 23975531--23975614 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
23975521 ATCATTAAAT
*
23975531 TTTAATAGGATAATTATTAAAAATAA
1 TTTAATA-AATAATTATTAAAAATAA
**
23975557 TTTAATAAATAA-T-TTAATCATAA
1 TTTAATAAATAATTATTAAAAATAA
* *
23975580 TTTAATATAATTATTATTAAATATAA
1 TTTAATA-AATAATTATTAAAAATAA
23975606 TTTAATAAA
1 TTTAATAAA
23975615 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 15 0.31
24 5 0.10
25 7 0.14
26 22 0.45
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATAAATAATTATTAAAAATAA
Found at i:23975619 original size:63 final size:63
Alignment explanation
Indices: 23975540--23975682 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 63
23975530 TTTTAATAGG
* ** * *
23975540 ATAATTATTAAAAATAATTTAATAAATAATTTAATCATAAT-TTAATATAATTATTATTAAA-T
1 ATAATTAATAAAAATAA-AAAATAAATAATTTAATAACAATCTTAATATAATTATTATTAAAGT
* * *
23975602 ATAATTTAATAAAAATAAAAAATATATAATTTAATAACATTCTTAATATATTTATTATTAAAGT
1 ATAA-TTAATAAAAATAAAAAATAAATAATTTAATAACAATCTTAATATAATTATTATTAAAGT
23975666 ATGAATTAATAAAAATA
1 AT-AATTAATAAAAATA
23975683 TAATATTAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
62 21 0.30
63 31 0.45
64 15 0.22
65 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (63 bp):
ATAATTAATAAAAATAAAAAATAAATAATTTAATAACAATCTTAATATAATTATTATTAAAGT
Found at i:23979241 original size:19 final size:19
Alignment explanation
Indices: 23979217--23979255 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23979207 GAAGAGGGAG
23979217 GAAAGAAGTTTGAATTTTT
1 GAAAGAAGTTTGAATTTTT
23979236 GAAAGAAGTTTGAATTTTT
1 GAAAGAAGTTTGAATTTTT
23979255 G
1 G
23979256 TGAATACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (19 bp):
GAAAGAAGTTTGAATTTTT
Found at i:23982524 original size:24 final size:24
Alignment explanation
Indices: 23982496--23982552 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
23982486 AGGACCTAAT
23982496 AGTGCATGTAATCAAAAGGGAGGA
1 AGTGCATGTAATCAAAAGGGAGGA
23982520 AGTGCATGTAATCAAAAGGGAGGA
1 AGTGCATGTAATCAAAAGGGAGGA
**
23982544 TTTGCATGT
1 AGTGCATGT
23982553 CAATTTTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.37, C:0.09, G:0.32, T:0.23
Consensus pattern (24 bp):
AGTGCATGTAATCAAAAGGGAGGA
Found at i:23985004 original size:47 final size:47
Alignment explanation
Indices: 23984953--23985194 Score: 322
Period size: 47 Copynumber: 5.1 Consensus size: 47
23984943 TTAGGATTTT
* * *
23984953 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGCCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
23985000 ATGTGATGAATGTGAACCCGCATATATATGTGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA----CATGCATATGTGTGATAAGGCCGAATGGCCA
* *
23985051 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGGCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
23985098 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
23985145 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
23985192 ATG
1 ATG
23985195 CGAAACGTGT
Statistics
Matches: 172, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
47 130 0.76
51 42 0.24
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:23985183 original size:94 final size:96
Alignment explanation
Indices: 23984953--23985194 Score: 362
Period size: 94 Copynumber: 2.5 Consensus size: 96
23984943 TTAGGATTTT
* * *
23984953 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
23985018 CGCATATATATGTGAGATAAGGCCGAATGGCCA
66 CGCA-ATATA-GTGAGATAAGGCCGAATGGCCA
*
23985051 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGGCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
23985116 TGC-ATATA-TGAGATAAGGCCGAATGGCCA
66 CGCAATATAGTGAGATAAGGCCGAATGGCCA
** * * *
23985145 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
23985195 CGAAACGTGT
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
94 65 0.49
96 5 0.04
98 63 0.47
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.25
Consensus pattern (96 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
CGCAATATAGTGAGATAAGGCCGAATGGCCA
Found at i:23985257 original size:46 final size:46
Alignment explanation
Indices: 23985168--23985258 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
23985158 GAACATGAAT
* * * *
23985168 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
23985214 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
23985259 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:23985513 original size:37 final size:37
Alignment explanation
Indices: 23985405--23985513 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
23985395 GGAAATATAT
*
23985405 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23985442 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
23985479 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
23985514 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:23994619 original size:34 final size:36
Alignment explanation
Indices: 23994576--23994658 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 36
23994566 GTATCGAATT
*
23994576 CAAAAATAGT-A-AGCATCAAGAGGCGTTACAAACA
1 CAAAAATAGTAACAGCATCAAGAGGCATTACAAACA
23994610 CAAAAATAGTTAACACAGCATCAAGAGGCATTACAAACA
1 CAAAAATAG-T-A-ACAGCATCAAGAGGCATTACAAACA
23994649 CAAAAATAGT
1 CAAAAATAGT
23994659 TTAACACATC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
34 9 0.21
35 1 0.02
38 2 0.05
39 31 0.72
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (36 bp):
CAAAAATAGTAACAGCATCAAGAGGCATTACAAACA
Found at i:23994644 original size:39 final size:40
Alignment explanation
Indices: 23994587--23994666 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
23994577 AAAAATAGTA
*
23994587 AGCATCAAGAGGCGTTACAAACACAAAAATAG-TTAACAC
1 AGCATCAAGAGGCATTACAAACACAAAAATAGTTTAACAC
23994626 AGCATCAAGAGGCATTACAAACACAAAAATAGTTTAACAC
1 AGCATCAAGAGGCATTACAAACACAAAAATAGTTTAACAC
23994666 A
1 A
23994667 TCGTACCGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (40 bp):
AGCATCAAGAGGCATTACAAACACAAAAATAGTTTAACAC
Found at i:24008784 original size:28 final size:28
Alignment explanation
Indices: 24008746--24008852 Score: 169
Period size: 28 Copynumber: 3.8 Consensus size: 28
24008736 GAATCATTCG
* *
24008746 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
24008774 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
24008802 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
24008830 ATATTTCGTACACTAAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
24008853 ATTTGATTGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:24015115 original size:16 final size:16
Alignment explanation
Indices: 24015094--24015126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24015084 TTTTCACCTA
24015094 TTAGTTAT-AAGTTCAT
1 TTAGTTATGAAG-TCAT
24015110 TTAGTTATGAAGTCAT
1 TTAGTTATGAAGTCAT
24015126 T
1 T
24015127 CCACTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (16 bp):
TTAGTTATGAAGTCAT
Found at i:24020084 original size:24 final size:24
Alignment explanation
Indices: 24020057--24020105 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24020047 TGCAAAGTAG
24020057 TTACTTTTTGAAGTGGAAAGACTT
1 TTACTTTTTGAAGTGGAAAGACTT
24020081 TTACTTTTTGAAGTGGAAAGACTT
1 TTACTTTTTGAAGTGGAAAGACTT
24020105 T
1 T
24020106 GGAACCCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
TTACTTTTTGAAGTGGAAAGACTT
Found at i:24027384 original size:21 final size:22
Alignment explanation
Indices: 24027353--24027393 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24027343 TTTAAGTAAA
*
24027353 GTTTGTAATTTTATATAATTAG
1 GTTTGTAATTTTACATAATTAG
24027375 GTTT-TAATTTTACATAATT
1 GTTTGTAATTTTACATAATT
24027394 TCATTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (22 bp):
GTTTGTAATTTTACATAATTAG
Found at i:24032781 original size:13 final size:13
Alignment explanation
Indices: 24032763--24032789 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24032753 CTCTTTCGAA
24032763 CTCTGTTTAAACT
1 CTCTGTTTAAACT
24032776 CTCTGTTTAAACT
1 CTCTGTTTAAACT
24032789 C
1 C
24032790 CTTAAAGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (13 bp):
CTCTGTTTAAACT
Found at i:24034673 original size:30 final size:30
Alignment explanation
Indices: 24034637--24034694 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
24034627 TTAAAATTGG
* *
24034637 GCAAAATGACCATTTTGCCCCTAGACTCTT
1 GCAAAATAACCATTTTACCCCTAGACTCTT
24034667 GCAAAATAACCATTTTACCCCTAGACTC
1 GCAAAATAACCATTTTACCCCTAGACTC
24034695 GAAAATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (30 bp):
GCAAAATAACCATTTTACCCCTAGACTCTT
Found at i:24038164 original size:74 final size:74
Alignment explanation
Indices: 24038041--24038180 Score: 253
Period size: 74 Copynumber: 1.9 Consensus size: 74
24038031 GATCCTTAGA
*
24038041 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATTCATAACCTCATCGA
1 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATACATAACCTCATCGA
24038106 CCCATTGGC
66 CCCATTGGC
* *
24038115 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGTTGCCTGTAGTCTATACATAACCTCATCGA
1 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATACATAACCTCATCGA
24038180 C
66 C
24038181 TTGTCTTTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (74 bp):
AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATACATAACCTCATCGA
CCCATTGGC
Found at i:24040757 original size:15 final size:14
Alignment explanation
Indices: 24040671--24040761 Score: 50
Period size: 14 Copynumber: 6.6 Consensus size: 14
24040661 TTAATTTAGT
*
24040671 AAATGAAAGAAATA-
1 AAATGAAATAAA-AG
24040685 AAATGAAAT-AAAG
1 AAATGAAATAAAAG
24040698 -AAT-AAATAAAAG
1 AAATGAAATAAAAG
*
24040710 AAA-GAAATATAAG
1 AAATGAAATAAAAG
* * *
24040723 AAAAAGAAACAGGTAAG
1 -AAATGAAATA--AAAG
24040740 AAATGAAATAGAAAG
1 AAATGAAATA-AAAG
24040755 AAA-GAAA
1 AAATGAAA
24040762 GAAGAAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
11 4 0.06
12 8 0.13
13 12 0.19
14 15 0.24
15 12 0.19
16 8 0.13
17 4 0.06
ACGTcount: A:0.70, C:0.01, G:0.16, T:0.12
Consensus pattern (14 bp):
AAATGAAATAAAAG
Found at i:24041814 original size:40 final size:37
Alignment explanation
Indices: 24041724--24041822 Score: 94
Period size: 40 Copynumber: 2.6 Consensus size: 37
24041714 CGGATAGATT
24041724 CGATGAGGCGTTGGTCGCCACTTTGCTTTGGCTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTGCTTTGGCTTAGC
** * *
24041761 CGATGAGATGTTGGTCGTCACTTATTTGC-TTGGAAC-TATC
1 CGATGAGGCGTTGGTCGCCAC---TTTGCTTTGG--CTTAGC
*
24041801 CGATGAGGCGTTGGCCGCCACT
1 CGATGAGGCGTTGGTCGCCACT
24041823 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
37 19 0.39
39 4 0.08
40 25 0.51
41 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.31
Consensus pattern (37 bp):
CGATGAGGCGTTGGTCGCCACTTTGCTTTGGCTTAGC
Found at i:24047613 original size:8 final size:8
Alignment explanation
Indices: 24047600--24047642 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
24047590 GTAAAAGCTA
24047600 AAATGCTG
1 AAATGCTG
24047608 AAATGCTG
1 AAATGCTG
24047616 AAATGCTG
1 AAATGCTG
* *
24047624 AATTGCCG
1 AAATGCTG
*
24047632 AAATGCCG
1 AAATGCTG
24047640 AAA
1 AAA
24047643 GTTTTGCTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (8 bp):
AAATGCTG
Found at i:24047895 original size:29 final size:28
Alignment explanation
Indices: 24047854--24047912 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
24047844 GTGAGCATGA
24047854 ATATAATGTGATTTGGGCCTAAAGGGCC
1 ATATAATGTGATTTGGGCCTAAAGGGCC
*
24047882 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATAT-AATGTGATTTGGGCCTAAAGGGCC
24047911 AT
1 AT
24047913 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAAAGGGCC
Found at i:24052074 original size:16 final size:16
Alignment explanation
Indices: 24052055--24052085 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24052045 CTTCTTCACT
24052055 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24052071 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24052086 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24052091 original size:20 final size:20
Alignment explanation
Indices: 24052052--24052091 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24052042 AAACTTCTTC
* *
24052052 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24052072 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24052092 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24052205 original size:23 final size:24
Alignment explanation
Indices: 24052164--24052208 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
24052154 TTTGCTCTTC
* *
24052164 TAGCATGAACTTGTTTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
24052188 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
24052209 ACCTTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:24052431 original size:55 final size:53
Alignment explanation
Indices: 24052274--24052460 Score: 166
Period size: 55 Copynumber: 3.5 Consensus size: 53
24052264 GATACACGGG
* * *
24052274 TGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGTCATGCCT
1 TGACATGGTCTTACATGATATCCTTGCCTTA-GAAACTTACCAATGCCATGCCT
* * * * **
24052327 TGGCATGGTCTTACAT-AGGA-CCTTTGCCTT-GTAATAACTTATCAATGCCACGTTT
1 TGACATGGTCTTACATGA-TATCC-TTGCCTTAG--A-AACTTACCAATGCCATGCCT
*
24052382 TGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCT
1 TGACATGGTCTTACATGATATCCTTGCCTTAGAAA-CTTACCAA-TGCCATGCCT
* *
24052437 TGGCATGGTCTTACATGGTATCCT
1 TGACATGGTCTTACATGATATCCT
24052461 GAAACCCTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
51 1 0.01
52 2 0.02
53 25 0.24
54 8 0.08
55 64 0.62
56 4 0.04
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGACATGGTCTTACATGATATCCTTGCCTTAGAAACTTACCAATGCCATGCCT
Found at i:24054927 original size:29 final size:28
Alignment explanation
Indices: 24054886--24054944 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
24054876 GTGAGAATGA
24054886 ATATAATGTGATTTGGGCCTAAAGGGCC
1 ATATAATGTGATTTGGGCCTAAAGGGCC
* *
24054914 ATATAAATGTGATTTGGGTCTAATGGGCC
1 ATAT-AATGTGATTTGGGCCTAAAGGGCC
24054943 AT
1 AT
24054945 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAAAGGGCC
Found at i:24057898 original size:14 final size:14
Alignment explanation
Indices: 24057847--24057907 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
24057837 AATGAATAAT
24057847 AAATA-AAAGAAAG
1 AAATAGAAAGAAAG
* * *
24057860 AAAAACAAGAAAAAG
1 AAATAGAA-AGAAAG
24057875 AAATAGAGAAGAAACG
1 AAATAGA-AAGAAA-G
24057891 AAATAGAAAGAAAG
1 AAATAGAAAGAAAG
24057905 AAA
1 AAA
24057908 GAAGAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 4 0.10
14 6 0.15
15 20 0.51
16 9 0.23
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (14 bp):
AAATAGAAAGAAAG
Found at i:24057913 original size:15 final size:14
Alignment explanation
Indices: 24057852--24057926 Score: 55
Period size: 15 Copynumber: 5.2 Consensus size: 14
24057842 ATAATAAATA
*
24057852 AAAGAAAGAAAAAC
1 AAAGAAAGAAAAAG
* *
24057866 AAGAAAAAGAAATAG
1 AA-AGAAAGAAAAAG
*
24057881 AGAAGAAACGAAATAG
1 A-AAGAAA-GAAAAAG
24057897 AAAGAAAGAAAGAAG
1 AAAGAAAGAAA-AAG
*
24057912 AAA-AAA-AATAAG
1 AAAGAAAGAAAAAG
24057924 AAA
1 AAA
24057927 AAGGAGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
12 6 0.12
13 2 0.04
14 9 0.18
15 25 0.49
16 9 0.18
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.04
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:24059098 original size:26 final size:26
Alignment explanation
Indices: 24059050--24059099 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24059040 AGAAAAATCA
* *
24059050 AATGAAATTGATAAATTGAATTATTG
1 AATGAAATTGAGAAAGTGAATTATTG
24059076 AATGAAA-TGAGAAAGTGATATTAT
1 AATGAAATTGAGAAAGTGA-ATTAT
24059100 AAGATGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (26 bp):
AATGAAATTGAGAAAGTGAATTATTG
Found at i:24061634 original size:49 final size:49
Alignment explanation
Indices: 24061534--24061705 Score: 138
Period size: 49 Copynumber: 3.5 Consensus size: 49
24061524 AGATGCCGAC
* *
24061534 GCCATGTCCCAGACATGGTCTTACACTGGATTTCATATAGCGAGGCTGAT
1 GCCATGTCCCAGACA-GGTCTTACACCGGATCTCATATAGCGAGGCTGAT
* * *
24061584 GCCATGTCCCAGACAGGTCTTACACCGGCTCTCATTTATCG-GTG-TCGAT
1 GCCATGTCCCAGACAGGTCTTACACCGGATCTCATATAGCGAG-GCT-GAT
* * * * ** * *
24061633 GCCATGTCTCATACAGGCCTTACACTAGCTTGTC-TACT-GCGAGGCTAAT
1 GCCATGTCCCAGACAGGTCTTACAC-CGGATCTCATA-TAGCGAGGCTGAT
*
24061682 G-CATGTCCCAGACATGTCTTACAC
1 GCCATGTCCCAGACAGGTCTTACAC
24061706 TAGCTCTTGT
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
48 21 0.22
49 54 0.56
50 22 0.23
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACCGGATCTCATATAGCGAGGCTGAT
Found at i:24061703 original size:48 final size:46
Alignment explanation
Indices: 24061651--24061848 Score: 172
Period size: 48 Copynumber: 4.2 Consensus size: 46
24061641 TCATACAGGC
24061651 CTTACACTAGCTTGTCTACTGCGAGGCTAATGCATGTCCCAGACATGT
1 CTTACACTAGCTT-TCTACT-CGAGGCTAATGCATGTCCCAGACATGT
* * * * *
24061699 CTTACACTAGCTCTTGT-CTCAATGCCAATGCATGTCCTAGACATGT
1 CTTACACTAGCT-TTCTACTCGAGGCTAATGCATGTCCCAGACATGT
* ** *
24061745 CTTACACTGGCTTAAATATCTCGAGGCCT-ATGCATTTCCCAGACATGT
1 CTTACACTAGCTT-TCTA-CTCGAGG-CTAATGCATGTCCCAGACATGT
* * *
24061793 CTTACACTAGCTCTCATGCT-GTGGC-AGAT-CATGTCCCAGACATGT
1 CTTACACTAGCTTTC-TACTCGAGGCTA-ATGCATGTCCCAGACATGT
*
24061838 CTTACAGTAGC
1 CTTACACTAGC
24061849 ACACATATCA
Statistics
Matches: 121, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
45 27 0.22
46 40 0.33
47 4 0.03
48 48 0.40
49 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
CTTACACTAGCTTTCTACTCGAGGCTAATGCATGTCCCAGACATGT
Found at i:24069134 original size:28 final size:28
Alignment explanation
Indices: 24069098--24069154 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24069088 TCATGGTGGT
24069098 TCGAAGAGTTTATACTCCTCATTCCTGC
1 TCGAAGAGTTTATACTCCTCATTCCTGC
*
24069126 TCGAGGAGTTTATACTCCTCATTCCTGC
1 TCGAAGAGTTTATACTCCTCATTCCTGC
24069154 T
1 T
24069155 ATCATTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (28 bp):
TCGAAGAGTTTATACTCCTCATTCCTGC
Found at i:24076734 original size:13 final size:13
Alignment explanation
Indices: 24076716--24076740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24076706 GTAAATTGAT
24076716 AATTAAACAAAAA
1 AATTAAACAAAAA
24076729 AATTAAACAAAA
1 AATTAAACAAAA
24076741 CAAAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AATTAAACAAAAA
Found at i:24077575 original size:45 final size:43
Alignment explanation
Indices: 24077511--24077635 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 43
24077501 TTGAGGAATA
* *
24077511 AGAAAGACCATGGTTGAAAGATATCATGGCATTATACCCAAAAT
1 AGAAAGACCATAGTTGAAAGATATCATGGCATTA-AACCAAAAT
* *
24077555 GAGAAAGACTATAGTTGAAAGATA-CTATGGCATTAAACCAGAAT
1 -AGAAAGACCATAGTTGAAAGATATC-ATGGCATTAAACCAAAAT
* * * *
24077599 AGGTAAGACCCTAGTTCAAAGATATTATGGCATTAAA
1 A-GAAAGACCATAGTTGAAAGATATCATGGCATTAAA
24077636 TTTGAATGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 37 0.54
45 30 0.44
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (43 bp):
AGAAAGACCATAGTTGAAAGATATCATGGCATTAAACCAAAAT
Found at i:24085934 original size:16 final size:17
Alignment explanation
Indices: 24085902--24085934 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24085892 TGAATTCTAG
*
24085902 TAGCTATAAGGATTCAA
1 TAGCTATAAGAATTCAA
24085919 TAGCTAT-AGAATTCAA
1 TAGCTATAAGAATTCAA
24085935 GCCTAGAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAAGAATTCAA
Found at i:24089055 original size:24 final size:23
Alignment explanation
Indices: 24089010--24089061 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
24089000 TAAGTTGAAG
24089010 AAAATTAAAAAAAACAACTAAAA
1 AAAATTAAAAAAAACAACTAAAA
24089033 CAAAATTAAAAAAGAA-AGA-TAAAA
1 -AAAATTAAAAAA-AACA-ACTAAAA
24089057 AAAAT
1 AAAAT
24089062 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.19
24 18 0.69
25 3 0.12
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (23 bp):
AAAATTAAAAAAAACAACTAAAA
Found at i:24089149 original size:21 final size:21
Alignment explanation
Indices: 24089111--24089176 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
24089101 AATTGTAATG
* * *
24089111 AAAATAGTAAAAAAAACATGAA
1 AAAATAATAAAAATAACA-AAA
*
24089133 AAAA-AATAGAAATAACAAAA
1 AAAATAATAAAAATAACAAAA
*
24089153 AAAATAATAAAAATATATAAAA
1 AAAATAATAAAAATA-ACAAAA
24089175 AA
1 AA
24089177 CTTGAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 6 0.17
21 19 0.53
22 11 0.31
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATAATAAAAATAACAAAA
Found at i:24089203 original size:17 final size:16
Alignment explanation
Indices: 24089152--24089205 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
24089142 AAATAACAAA
*
24089152 AAAAATAATAAAAATAT
1 AAAAA-AATTAAAATAT
*
24089169 ATAAAAAACTTGAAATAT
1 A-AAAAAA-TTAAAATAT
24089187 AAAAAAATTAAAGATAT
1 AAAAAAATTAAA-ATAT
24089204 AA
1 AA
24089206 GTATAAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.13
17 15 0.48
18 12 0.39
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
AAAAAAATTAAAATAT
Found at i:24089625 original size:30 final size:30
Alignment explanation
Indices: 24089589--24089646 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24089579 ATGTGAGATC
* *
24089589 CCACACACCCGTATGTCCAGGCCGTGTGCT
1 CCACACACCCGTATGTCCAAGCCATGTGCT
*
24089619 CCACACACCCGTGTGTCCAAGCCATGTG
1 CCACACACCCGTATGTCCAAGCCATGTG
24089647 GGTAAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.22, T:0.19
Consensus pattern (30 bp):
CCACACACCCGTATGTCCAAGCCATGTGCT
Found at i:24095696 original size:162 final size:162
Alignment explanation
Indices: 24095429--24095749 Score: 597
Period size: 162 Copynumber: 2.0 Consensus size: 162
24095419 TAAACCCCTC
*
24095429 GGTAAGGTTGTGATTGAGTAAGTTTGACTATGAGATTTATCATGACATTTATGTTAATTTACTTC
1 GGTAAGGTTGTGATTAAGTAAGTTTGACTATGAGATTTATCATGACATTTATGTTAATTTACTTC
*
24095494 ATGTTAATTGTATGTTAAATGTAAGTTTATAATTCTTATTATTTGCATGGGAACTTGCTAAGCTA
66 ATGTTAATTGTATGTTAAATGTAAGTTTATAATTCTTATTATTTGCATGGGAACTTACTAAGCTA
24095559 TATAGTTTACTCCCATTTCTTTTCCCTTTCTT
131 TATAGTTTACTCCCATTTCTTTTCCCTTTCTT
24095591 GGTAAGGTTGTGATTAAGTAAGTTTGACTATGAGATTTATCATGACATTTATGTTAATTTACTTC
1 GGTAAGGTTGTGATTAAGTAAGTTTGACTATGAGATTTATCATGACATTTATGTTAATTTACTTC
* *
24095656 ATGTTAATTGTATGTTAAATGTGAGTTTATAATTCTTATTATTTGTATGGGAACTTACTAAGCTA
66 ATGTTAATTGTATGTTAAATGTAAGTTTATAATTCTTATTATTTGCATGGGAACTTACTAAGCTA
*
24095721 TATAGTTTACTCCCCTTTCTTTTCCCTTT
131 TATAGTTTACTCCCATTTCTTTTCCCTTT
24095750 TCTTATAGTG
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 154 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (162 bp):
GGTAAGGTTGTGATTAAGTAAGTTTGACTATGAGATTTATCATGACATTTATGTTAATTTACTTC
ATGTTAATTGTATGTTAAATGTAAGTTTATAATTCTTATTATTTGCATGGGAACTTACTAAGCTA
TATAGTTTACTCCCATTTCTTTTCCCTTTCTT
Found at i:24101195 original size:18 final size:17
Alignment explanation
Indices: 24101162--24101206 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
24101152 TCTAATCATC
*
24101162 TTTTATAATGTTTATAT
1 TTTTATAATGTTTATAA
*
24101179 TTTTATATTGTTTTATAA
1 TTTTATAATG-TTTATAA
*
24101197 TTTTAAAATG
1 TTTTATAATG
24101207 AATGTAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTTATAATGTTTATAA
Done.