Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 153 of 438
Found at i:46357491 original size:29 final size:27
Alignment explanation
Indices: 46357457--46357559 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
46357447 TACTCAATCA
*
46357457 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
46357486 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
46357515 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
46357544 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
46357560 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:46361965 original size:40 final size:40
Alignment explanation
Indices: 46361920--46362049 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
46361910 CGGAATACAA
46361920 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TCGCACGAATGCCTTCGGGTCTTAGC
* **
46361960 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
46362000 CCGGATGTAGCCACTGGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTCGCACGAA-TGCCTTCGGGTCTTAGC
46362040 CCGGATATAA
1 CCGGATATAA
46362050 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46368542 original size:29 final size:27
Alignment explanation
Indices: 46368508--46368610 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
46368498 TACTCAATCA
*
46368508 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
46368537 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
46368566 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
46368595 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
46368611 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:46370050 original size:27 final size:26
Alignment explanation
Indices: 46370018--46370085 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
46370008 GGGATGTCAC
****
46370018 AATACCCCTGTAGGATAGAATTGTCGA
1 AATACCCCTGTAGG-TAGAAACACCGA
*
46370045 AATACCCTTGTAGTGTAGAAACACCGA
1 AATACCCCTGTAG-GTAGAAACACCGA
46370072 AATACCCCTGTAGG
1 AATACCCCTGTAGG
46370086 GTAAAATTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (26 bp):
AATACCCCTGTAGGTAGAAACACCGA
Found at i:46377478 original size:27 final size:27
Alignment explanation
Indices: 46377444--46377617 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
46377434 TGGATAAGTT
*
46377444 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAAG
*
46377471 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAAG
*
46377498 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCAAAATACCCCTGTAAG
* *
46377524 GATAGAATTACCAAAATACCCTTGTAGG
1 G-TAGAATTACCAAAATACCCCTGTAAG
* *
46377552 GTAGAAATACCGAAATACCCCTGT-AG
1 GTAGAATTACCAAAATACCCCTGTAAG
* * * * *
46377578 GATAAAATTACCGAGATACCCTTGTAGG
1 G-TAGAATTACCAAAATACCCCTGTAAG
*
46377606 GTAAAATTACCA
1 GTAGAATTACCA
46377618 TTTTGCCCCT
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
26 4 0.03
27 118 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAAG
Found at i:46377520 original size:54 final size:54
Alignment explanation
Indices: 46377444--46377616 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
46377434 TGGATAAGTT
** *
46377444 GTAGAATTACTAAAATACCCCTGTAAGG-TAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGT-AGGATAGAATTACCAAAATACCCTTGTAGG
46377498 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
* * * *
46377552 GTAGAAATACCGAAATACCCCTGTAGGATAAAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
*
46377606 GTAAAATTACC
1 GTAGAATTACC
46377617 ATTTTGCCCC
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
53 3 0.03
54 106 0.97
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
Found at i:46377587 original size:81 final size:81
Alignment explanation
Indices: 46377445--46377617 Score: 247
Period size: 81 Copynumber: 2.1 Consensus size: 81
46377435 GGATAAGTTG
* * * *
46377445 TAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGATAAAATTACCG
46377510 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
* * *
46377526 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAAAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGATAAAATTACCG
* * *
46377591 AGATACCCTTGTAGGG
66 AAATACCCCTGTAGGA
*
46377607 TAAAATTACCA
1 TAGAATTACCA
46377618 TTTTGCCCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGATAAAATTACCG
AAATACCCCTGTAGGA
Found at i:46385047 original size:43 final size:44
Alignment explanation
Indices: 46384970--46385058 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
46384960 TGTAATGAGT
46384970 AAGATGTTAAACATGAAAAAAGATGATAACTTGTTTGATAAATG
1 AAGATGTTAAACATGAAAAAAGATGATAACTTGTTTGATAAATG
46385014 AAGATGTTAAACATG-AAAAAGATGATAACTTGTTTGATAAATG
1 AAGATGTTAAACATGAAAAAAGATGATAACTTGTTTGATAAATG
46385057 AA
1 AA
46385059 ATTTATGTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 30 0.67
44 15 0.33
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.29
Consensus pattern (44 bp):
AAGATGTTAAACATGAAAAAAGATGATAACTTGTTTGATAAATG
Found at i:46399098 original size:40 final size:40
Alignment explanation
Indices: 46399038--46399211 Score: 213
Period size: 40 Copynumber: 4.1 Consensus size: 40
46399028 CAATTGAGGA
*
46399038 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
46399078 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
46399118 TTATTTCCTTGTTATTTCTGGGTTAAGTCCCGAAGGTATTCGTGCTGGTTG
1 TTATTT-C---------C-GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
46399169 TTATTTCCGGGTTAAGTCTCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
46399209 TTA
1 TTA
46399212 CATCCGGGCT
Statistics
Matches: 118, Mismatches: 5, Indels: 22
0.81 0.03 0.15
Matches are distributed among these distances:
40 77 0.65
41 2 0.02
50 2 0.02
51 37 0.31
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:46399151 original size:51 final size:51
Alignment explanation
Indices: 46399075--46399176 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
46399065 TTCGTGCTGG
46399075 TTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
1 TTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
* *
46399126 TTGTTATTTCTGGGTTAAGTCCCGAAGGTATTCGTGCTGGTTGTTATTTCC
1 TTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
46399177 GGGTTAAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.43
Consensus pattern (51 bp):
TTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
Found at i:46399203 original size:91 final size:91
Alignment explanation
Indices: 46399046--46399211 Score: 305
Period size: 91 Copynumber: 1.8 Consensus size: 91
46399036 GATTATATCC
46399046 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTG
46399111 CTGGTTGTTATTTCCTTGTTATTTCT
66 CTGGTTGTTATTTCCTTGTTATTTCT
* * *
46399137 GGGTTAAGTCCCGAAGGTATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCTCGAAGGCATTTGTG
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTG
46399202 CTGGTTGTTA
66 CTGGTTGTTA
46399212 CATCCGGGCT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.39
Consensus pattern (91 bp):
GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCGTG
CTGGTTGTTATTTCCTTGTTATTTCT
Found at i:46399218 original size:40 final size:40
Alignment explanation
Indices: 46399137--46399224 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
46399127 TGTTATTTCT
* **
46399137 GGGTTAAGTCCCGAAGGTATTCGTGCTGGTTGTTATTTCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCC
* *
46399177 GGGTTAAGTCTCGAAGGCATTTGTGCTGGTTGTTACATCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCC
46399217 GGGCTTAA
1 GGG-TTAA
46399225 AGACTCGCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (40 bp):
GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCC
Found at i:46399353 original size:43 final size:42
Alignment explanation
Indices: 46399297--46399380 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
46399287 TTATATTCAG
* * * *
46399297 GCCTTTGTTCCTAGTAGGCTTCGTGCCGGTGATGTGTATTCGA
1 GCCTTCGTGCCTAGCAGGCTTCGTGCCGGT-ATATGTATTCGA
*
46399340 GCCTTCGTGCCTAGCAGGCTTCGTGCTGGTATATGTATTCG
1 GCCTTCGTGCCTAGCAGGCTTCGTGCCGGTATATGTATTCG
46399381 GGCTTTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 10 0.28
43 26 0.72
ACGTcount: A:0.12, C:0.23, G:0.30, T:0.36
Consensus pattern (42 bp):
GCCTTCGTGCCTAGCAGGCTTCGTGCCGGTATATGTATTCGA
Found at i:46402270 original size:46 final size:46
Alignment explanation
Indices: 46402220--46402393 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
46402210 GCTGAGCATT
46402220 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * *
46402266 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * *
46402313 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
46402359 CGAGCTCGTTGACTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46402394 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:46402383 original size:93 final size:93
Alignment explanation
Indices: 46402215--46402386 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46402205 GGATGGCTGA
* * * *
46402215 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGACT
46402280 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
46402308 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGACT
46402373 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46402387 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGACT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46404326 original size:40 final size:40
Alignment explanation
Indices: 46404281--46404410 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 40
46404271 CGGAATATAA
46404281 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * * *
46404321 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTCAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
46404361 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
46404401 CCGGATATAA
1 CCGGATATAA
46404411 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 67 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46404425 original size:40 final size:40
Alignment explanation
Indices: 46404297--46404447 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
46404287 ATAAGCATGT
* * *
46404297 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** * *
46404337 GCACGAA-TGCCTTCGGGTCTCAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
46404377 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* *
46404417 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
46404448 TATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:46412408 original size:40 final size:39
Alignment explanation
Indices: 46412297--46412447 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
46412287 GGATATAAGT
* ** *
46412297 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
46412337 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
46412377 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
46412417 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
46412448 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:46412431 original size:80 final size:79
Alignment explanation
Indices: 46412297--46412447 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
46412287 GGATATAAGT
*
46412297 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
46412362 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
46412377 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
46412440 CCGGATAT
64 CCGGATAT
46412448 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:46415395 original size:39 final size:40
Alignment explanation
Indices: 46415352--46415480 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 40
46415342 TCGAATATAA
46415352 CCGGATATAAGCATGTGCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
46415391 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
46415431 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
46415471 CCGGATATAA
1 CCGGATATAA
46415481 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
38 1 0.01
39 24 0.33
40 47 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46415495 original size:40 final size:40
Alignment explanation
Indices: 46415368--46415516 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
46415358 ATAAGCATGT
* * *
46415368 GCACAAATGCCTTC-GGTCTTAGCCCGGATAGAA-TGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCG-C-CA
* *
46415407 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* ***
46415447 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* *
46415487 GCATAATTGTCTT-GGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
46415517 CATTCAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
38 13 0.14
39 16 0.17
40 62 0.67
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
Found at i:46424147 original size:46 final size:46
Alignment explanation
Indices: 46424097--46424268 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
46424087 TGAGCATCCA
46424097 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
46424143 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * *
46424190 AGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
46424236 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46424269 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:46424249 original size:93 final size:93
Alignment explanation
Indices: 46424090--46424261 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46424080 GGATGATTGA
* * *
46424090 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46424155 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
46424183 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46424248 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46424262 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46426701 original size:54 final size:54
Alignment explanation
Indices: 46426638--46426746 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
46426628 CTTTTAGATC
*
46426638 CAAAAAGCAAGAAGGAATAGAATGAGGGAGATAGGAGAAGCATTCAACTCAATG
1 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
46426692 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
1 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
46426746 C
1 C
46426747 CAAGGTAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.49, C:0.12, G:0.27, T:0.13
Consensus pattern (54 bp):
CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
Found at i:46434289 original size:46 final size:46
Alignment explanation
Indices: 46434239--46434411 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
46434229 TTGAGCATCC
* *
46434239 GAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* * * * *
46434285 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCT
* * * *
46434332 GAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
*
46434378 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46434412 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:46434392 original size:93 final size:93
Alignment explanation
Indices: 46434233--46434403 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
46434223 GGATGGTTGA
* * *
46434233 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACGCCTGAACTCGTTGAGT
46434298 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
46434326 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACGCCTGAACTCGTTGAGT
46434391 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46434404 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46443926 original size:50 final size:48
Alignment explanation
Indices: 46443809--46443942 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
46443799 CACATAATAA
* * * *
46443809 GATGCCAACGCCATATCCCAGATATGGTCTTACATCGGATCACCACAC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACCACAC
* * **
46443857 GAAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTTA-TATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC--ACCA-CAC
*
46443907 GATGCCAATGCCATGTCCCAGACATGGACTTACATG
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATG
46443943 ATAACACATA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 36 0.49
49 1 0.01
50 36 0.49
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACCACAC
Found at i:46449044 original size:40 final size:40
Alignment explanation
Indices: 46448917--46449046 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
46448907 ATGCTGGAAA
* * *
46448917 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * * **
46448957 CTACATCCGGGCTAAGACCCGAAGGCATTCGCGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
46448997 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
46449037 TTATATCCGG
1 TTATATCCGG
46449047 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:46455681 original size:46 final size:46
Alignment explanation
Indices: 46455411--46455670 Score: 414
Period size: 46 Copynumber: 5.7 Consensus size: 46
46455401 TTATCCTTGA
* * * *
46455411 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
46455457 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
46455503 CATGTTTCCATGGTATATTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
46455549 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
46455595 CACGTTGCCATGGTATCTTTCAA-CATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
46455640 CATGTTGCCATGGTATCTTTCAACCATGGTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTC
46455671 CTACACATTT
Statistics
Matches: 195, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 42 0.22
46 153 0.78
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:46457809 original size:8 final size:8
Alignment explanation
Indices: 46457796--46457820 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46457786 AATAAATAAC
46457796 AATAAAAT
1 AATAAAAT
46457804 AATAAAAT
1 AATAAAAT
46457812 AATAAAAT
1 AATAAAAT
46457820 A
1 A
46457821 TCTCATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:46457853 original size:19 final size:20
Alignment explanation
Indices: 46457819--46457856 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
46457809 AATAATAAAA
*
46457819 TATCTCATTAAAATAATATT
1 TATCTAATTAAAATAATATT
46457839 TATCTAATT-AAATAATAT
1 TATCTAATTAAAATAATAT
46457857 AAAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TATCTAATTAAAATAATATT
Found at i:46459752 original size:49 final size:49
Alignment explanation
Indices: 46459673--46459853 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 49
46459663 AAGCTATCTA
* * *
46459673 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* * * * * * *
46459722 GTACACTTAGTAGCCTGCACTTAATACTACACACGTGATCACAGTTTTCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCG
* *
46459773 GTACGCATAGTAGCCTGCACTTGGTACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
*
46459822 GTACACGT-GTAGCCTGCACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
46459854 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
48 23 0.21
49 46 0.42
50 2 0.02
51 38 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
Found at i:46459786 original size:100 final size:99
Alignment explanation
Indices: 46459673--46459858 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 99
46459663 AAGCTATCTA
* *
46459673 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACTTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGT-GTAGCCT
46459738 GCACTTAATACTACACACGTGATCACAGTTTTCGG
65 GCACTTAATACTACACACGTGATCACAGTTTTCGG
* *
46459773 GTACGCATAGTAGCCTGCACTTGGTACTACACATGCGACCAATTATCCGGTACACGTGTAGCCTG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTGTAGCCTG
*
46459838 CACTTAGTACTACACACGTGA
66 CACTTAATACTACACACGTGA
46459859 CCTCACAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 28 0.35
100 53 0.65
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTGTAGCCTG
CACTTAATACTACACACGTGATCACAGTTTTCGG
Found at i:46462795 original size:40 final size:41
Alignment explanation
Indices: 46462746--46462910 Score: 219
Period size: 41 Copynumber: 4.0 Consensus size: 41
46462736 AAAGTACACC
* * *
46462746 CAGGGGTACCGAAGTACAAAC-AGGGCACGTTTTTGCAATAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAAT-T
* *
46462787 -AGAGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
*
46462827 CAGGGGTACCAAAGTACAAAC-AGGAGCACATATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAAGG-GCACGTATGTGCAATT
* *
46462868 CAGGGGTACCAAAGTACAAACAAGGGCACGCATGTGTAATT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
46462909 CA
1 CA
46462911 TCATTATTCT
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
40 23 0.21
41 85 0.77
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (41 bp):
CAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
Found at i:46462850 original size:20 final size:20
Alignment explanation
Indices: 46462827--46462889 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
46462817 ATGTGCAATT
46462827 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * * * *
46462847 CAGGAGCA-CATATGTGCAATT
1 CAGGGGTACCA-AAGTACAA-A
46462868 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
46462888 CA
1 CA
46462890 AGGGCACGCA
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 12 0.40
22 2 0.07
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:46465456 original size:10 final size:10
Alignment explanation
Indices: 46465441--46465469 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46465431 CTAAGCTTTA
46465441 TTTGATATAT
1 TTTGATATAT
46465451 TTTGATATAT
1 TTTGATATAT
46465461 TTTGATATA
1 TTTGATATA
46465470 ACAGATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (10 bp):
TTTGATATAT
Found at i:46466013 original size:25 final size:22
Alignment explanation
Indices: 46465968--46466012 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
46465958 TCCAAAGGTC
46465968 CTACAACAAGGACAGAGATCAT
1 CTACAACAAGGACAGAGATCAT
*
46465990 CTACAACAAGGAGAGAGATCAT
1 CTACAACAAGGACAGAGATCAT
46466012 C
1 C
46466013 AAGCTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (22 bp):
CTACAACAAGGACAGAGATCAT
Found at i:46467394 original size:21 final size:21
Alignment explanation
Indices: 46467365--46467405 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46467355 TATAGGCAAC
**
46467365 CAAAACATGTTATTTAAAATA
1 CAAAACATGCCATTTAAAATA
*
46467386 CAAATCATGCCATTTAAAAT
1 CAAAACATGCCATTTAAAAT
46467406 CTATCCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
CAAAACATGCCATTTAAAATA
Found at i:46468296 original size:43 final size:43
Alignment explanation
Indices: 46468216--46468323 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
46468206 TAGCCCAACT
* *
46468216 ATGGTCTTACACAAAATCA-ATAATGATGCCAACGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
* *
46468258 ATGGTCCTACACATAATCACATAATGATACCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
46468301 ATGGTCTTACACATAATCACATA
1 ATGGTCTTACACATAATCACATA
46468324 TCGTTAATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 17 0.28
43 43 0.72
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
Found at i:46476150 original size:18 final size:18
Alignment explanation
Indices: 46476127--46476161 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46476117 AGGACCCTAT
46476127 ACTGTCTATCGAGTTTAA
1 ACTGTCTATCGAGTTTAA
46476145 ACTGTCTATCGAGTTTA
1 ACTGTCTATCGAGTTTA
46476162 TCCTTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (18 bp):
ACTGTCTATCGAGTTTAA
Found at i:46480582 original size:17 final size:18
Alignment explanation
Indices: 46480560--46480593 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
46480550 CTTCATTACC
46480560 TCATTCATCA-TCTCTCA
1 TCATTCATCATTCTCTCA
46480577 TCATTCATCATTCTCTC
1 TCATTCATCATTCTCTC
46480594 TTCTCTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (18 bp):
TCATTCATCATTCTCTCA
Found at i:46483965 original size:22 final size:19
Alignment explanation
Indices: 46483940--46483992 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
46483930 TTCGTATAAC
46483940 TAAATTGTATATGTTATATG
1 TAAATTGTATATG-TATATG
* *
46483960 CTTAAATTGAATGATGTGTATG
1 --TAAATTGTAT-ATGTATATG
46483982 TAAATTGTATA
1 TAAATTGTATA
46483993 AATGCCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
22 14 0.52
23 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (19 bp):
TAAATTGTATATGTATATG
Found at i:46484192 original size:60 final size:60
Alignment explanation
Indices: 46484120--46484242 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
46484110 TTGAGTTGAA
46484120 TGTGAACATTTGAATTGCATAAATTTATAAGTATATGAGATTGGTCACATACCCAAAAAT
1 TGTGAACATTTGAATTGCATAAATTTATAAGTATATGAGATTGGTCACATACCCAAAAAT
46484180 TGTGAACATTTGAATTGCATAAATTTATAAGTATATGAGATTGGTCACATACCCAAAAAT
1 TGTGAACATTTGAATTGCATAAATTTATAAGTATATGAGATTGGTCACATACCCAAAAAT
46484240 TGT
1 TGT
46484243 CTAATAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (60 bp):
TGTGAACATTTGAATTGCATAAATTTATAAGTATATGAGATTGGTCACATACCCAAAAAT
Found at i:46484271 original size:22 final size:22
Alignment explanation
Indices: 46484245--46484296 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
46484235 AAAATTGTCT
46484245 AATAAATGTCAAATTTCATTTG
1 AATAAATGTCAAATTTCATTTG
46484267 AATAAATGTCAAATTTCATTTG
1 AATAAATGTCAAATTTCATTTG
46484289 AATAAATG
1 AATAAATG
46484297 AAAAACCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (22 bp):
AATAAATGTCAAATTTCATTTG
Found at i:46484525 original size:57 final size:57
Alignment explanation
Indices: 46484457--46484597 Score: 239
Period size: 57 Copynumber: 2.5 Consensus size: 57
46484447 TGTTACAATT
*
46484457 AGGATTTAGCCTAGATTGGTAATCCTAATTAAGCTCTTGTGAGCATATGT-TGGAGAC
1 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATAT-TCTGGAGAC
**
46484514 AGGATTTAGCCTAGACCAGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
1 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
46484571 AGGATTTAGCCTAGACTGGTAATCCTA
1 AGGATTTAGCCTAGACTGGTAATCCTA
46484598 TTATACGATA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 1 0.01
57 77 0.99
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (57 bp):
AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
Found at i:46494013 original size:20 final size:21
Alignment explanation
Indices: 46493988--46494026 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46493978 TGGGCCCGTA
*
46493988 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
46494008 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
46494027 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:46505785 original size:55 final size:56
Alignment explanation
Indices: 46505720--46505834 Score: 132
Period size: 55 Copynumber: 2.1 Consensus size: 56
46505710 AGCATGGCTG
* *
46505720 CCAGATACAGA-AAATGT-G-ACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGGTA-AG-GCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
*
46505776 CCAGA-ACAGATATATGTGGTAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGGTAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
46505831 CCAG
1 CCAG
46505835 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 18 0.35
57 3 0.06
58 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGGTAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:46505830 original size:28 final size:28
Alignment explanation
Indices: 46505745--46505834 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 28
46505735 GTGACAGAGT
*
46505745 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
* *
46505774 CACCAGAACAGAT-ATATGTGGTA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
46505801 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
46505829 CACCAG
1 CACCAG
46505835 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 22 0.42
28 22 0.42
29 8 0.15
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:46505987 original size:28 final size:28
Alignment explanation
Indices: 46505940--46506028 Score: 142
Period size: 28 Copynumber: 3.2 Consensus size: 28
46505930 AAATTAACCC
* * *
46505940 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
46505968 TAGGAGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46505996 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46506024 TAGGG
1 TAGGG
46506029 TATTCTAGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:46512161 original size:39 final size:39
Alignment explanation
Indices: 46512077--46512229 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
46512067 TATGGTAACC
** * *
46512077 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
46512117 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
46512156 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
46512195 TGCACAATTGCCTTCGGGCTTAGCCCAGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
46512230 TCGAACATTC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.85
40 15 0.15
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:46512200 original size:78 final size:79
Alignment explanation
Indices: 46512046--46512228 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
46512036 TCGTTAAAAC
* * **
46512046 GCCTTCGGGACATAGCCCAGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCAGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
46512111 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* * ** *
46512126 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCAGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
46512190 CAATTTGCACAATT
66 CAATTTGCACAATT
46512204 GCCTTCGGGCTTAGCCCAGATATCA
1 GCCTTCGGGCTTAGCCCAGATATCA
46512229 CTCGAACATT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 53 0.57
79 31 0.33
80 9 0.10
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCAGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:46519776 original size:39 final size:39
Alignment explanation
Indices: 46519692--46519844 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
46519682 TATGGTAACC
** * *
46519692 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
46519732 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
46519771 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
46519810 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
46519845 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:46519817 original size:78 final size:79
Alignment explanation
Indices: 46519661--46519843 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
46519651 TCGTTCAAAC
* * **
46519661 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
46519726 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
46519741 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
46519805 CAATTTGCACAATT
66 CAATTTGCACAATT
46519819 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
46519844 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:46524556 original size:55 final size:56
Alignment explanation
Indices: 46524491--46524605 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
46524481 AGCATGGCTG
* *
46524491 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
46524547 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
46524602 CCAG
1 CCAG
46524606 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:46524568 original size:27 final size:27
Alignment explanation
Indices: 46524516--46524605 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
46524506 GTGACAGAGT
46524516 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
46524545 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
46524572 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
46524600 CACCAG
1 CACCAG
46524606 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:46524757 original size:27 final size:27
Alignment explanation
Indices: 46524714--46524798 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
46524704 TTAACCCTAG
* *
46524714 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAATGGTAATTTTGCATACATA
46524741 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAATGGTAATTTTGCATACATA
46524768 GGGGTATAATGGTAATTTTGCATACATA
1 -GGGTATAATGGTAATTTTGCATACATA
46524796 GGG
1 GGG
46524799 GTATTCTAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 28 0.51
28 27 0.49
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (27 bp):
GGGTATAATGGTAATTTTGCATACATA
Found at i:46524781 original size:28 final size:28
Alignment explanation
Indices: 46524711--46524802 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
46524701 AAATTAACCC
* *
46524711 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46524739 TA-GGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46524766 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46524794 TAGGGGTAT
1 TAGGGGTAT
46524803 TCTAGTACAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 25 0.41
28 36 0.59
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:46525065 original size:8 final size:8
Alignment explanation
Indices: 46525049--46525080 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
46525039 CCCAAAATAC
46525049 CGGCTTTT
1 CGGCTTTT
*
46525057 CGGCATTT
1 CGGCTTTT
46525065 CGGCTTTT
1 CGGCTTTT
46525073 CGGCTTTT
1 CGGCTTTT
46525081 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:46532435 original size:55 final size:56
Alignment explanation
Indices: 46532370--46532484 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
46532360 AGCATGGCTG
* *
46532370 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
46532426 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
46532481 CCAG
1 CCAG
46532485 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:46532447 original size:27 final size:27
Alignment explanation
Indices: 46532395--46532484 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
46532385 GTGACAGAGT
46532395 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
46532424 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
46532451 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
46532479 CACCAG
1 CACCAG
46532485 GATGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:46532659 original size:28 final size:28
Alignment explanation
Indices: 46532589--46532680 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
46532579 AAATTAACCC
* * * *
46532589 TAGGGGTATAAAGGTCATTTTGCACATA
1 TAGGGGTATAATGGTAATTTTGCATACA
46532617 TA-GGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46532644 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
46532672 TAGGGGTAT
1 TAGGGGTAT
46532681 TCTAGTACAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.39
28 36 0.61
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:46535004 original size:46 final size:46
Alignment explanation
Indices: 46534946--46535073 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 46
46534936 ATTTGGGCAT
* * * *
46534946 CCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGACGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGC
* *
46534992 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGC
* *
46535038 CCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46535074 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGC
Found at i:46540007 original size:40 final size:40
Alignment explanation
Indices: 46539952--46540136 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
46539942 CGGATGATAA
* * *
46539952 CCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
46539992 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
46540032 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46540072 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
46540112 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46540137 AGCAAGTAGT
Statistics
Matches: 137, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 136 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46540151 original size:80 final size:78
Alignment explanation
Indices: 46539948--46540167 Score: 289
Period size: 80 Copynumber: 2.8 Consensus size: 78
46539938 TATTCGGATG
* * *
46539948 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCC-GGCTAAGTCCCGAAGGC
46540012 ATTTGTGCAAGTTACT
63 ATTTGTGCAAGTTACT
* * *
46540028 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCG-GCTAAGTCCCGAAGGCA
*
46540093 TTTGTGCGAGTTACT
64 TTTGTGCAAGTTACT
* * *
46540108 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTCGGCTAAATCCCGAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGCTAAGTCCCGAA
46540168 AATGCTTGGG
Statistics
Matches: 126, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 15 0.12
80 109 0.87
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGCTAAGTCCCGAAGGCATT
TGTGCAAGTTACT
Found at i:46540437 original size:22 final size:21
Alignment explanation
Indices: 46540396--46540440 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
46540386 GAATGTGCAT
46540396 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
46540418 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
46540440 A
1 A
46540441 AACTAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 14 0.67
23 5 0.24
24 2 0.10
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:46547029 original size:40 final size:40
Alignment explanation
Indices: 46546973--46547157 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
46546963 CGGATGATAA
* *
46546973 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
46547013 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46547053 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46547093 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
46547133 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46547158 AGCAAGTAGT
Statistics
Matches: 137, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 136 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46547172 original size:80 final size:79
Alignment explanation
Indices: 46546969--46547189 Score: 320
Period size: 80 Copynumber: 2.8 Consensus size: 79
46546959 TATTCGGATG
*
46546969 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTA-ATTTCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-TTCGGGCTAAGTCCCGAAGGC
46547033 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
46547049 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATTCGGGCTAAGTCCCGAAGGCA
46547114 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * *
46547129 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATATTCGGGCTAAGTCCCGAAG
46547190 ATGCTTGGGT
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
79 16 0.13
80 109 0.86
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATTCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:46547457 original size:22 final size:21
Alignment explanation
Indices: 46547416--46547459 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
46547406 TAATGTGCAT
46547416 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
46547438 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
46547460 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:46557975 original size:40 final size:39
Alignment explanation
Indices: 46557873--46557984 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 39
46557863 GTTATAATAG
*
46557873 CTCGCACAAATGCCTT-GGGACTTAACCCGGATTTGGTAA
1 CTCG-ACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
*
46557912 CTC-ACAATTGCCTTCGGGAATTAACCCGGATTTGGTAA
1 CTCGACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
46557950 CTCGTACAAATGCCTTCGGGAATTAACCCGGATTT
1 CTCG-ACAAATGCCTTCGGGAATTAACCCGGATTT
46557985 AGTCACTTAG
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
37 10 0.15
38 25 0.37
39 3 0.04
40 29 0.43
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
CTCGACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
Found at i:46565943 original size:40 final size:40
Alignment explanation
Indices: 46565887--46566068 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
46565877 GGATATGGCG
* * * **
46565887 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TGGTA
* *
46565927 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTGGTA
*
46565967 ACTCGCACAATTGCCTTCGGGA-ATTAACCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACA-TAACCCGGATTTGGTA
* *
46566007 ACTCGCACAAATGCCTTCGGGA-ATTAACCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACA-TAACCCGGATTTGGTA
* *
46566047 ACTTAGCACAAAAGCCTTCGGG
1 AC-TCGCACAAATGCCTTCGGG
46566069 GCTTAGCCCG
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
40 105 0.85
41 19 0.15
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTGGTA
Found at i:46566079 original size:41 final size:40
Alignment explanation
Indices: 46565928--46566068 Score: 219
Period size: 40 Copynumber: 3.5 Consensus size: 40
46565918 GTTATAATAG
*
46565928 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGTAA
1 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
*
46565968 CTCGCACAATTGCCTTCGGGAATTAACCCGGATTTGGTAA
1 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
* *
46566008 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTCA
1 CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
* *
46566048 CTTAGCACAAAAGCCTTCGGG
1 C-TCGCACAAATGCCTTCGGG
46566069 GCTTAGCCCG
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 76 0.82
41 17 0.18
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGAATTAACCCGGATTTGGTAA
Found at i:46572548 original size:7 final size:7
Alignment explanation
Indices: 46572536--46572561 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46572526 ATAATTATAT
46572536 TAAAATA
1 TAAAATA
46572543 TAAAATA
1 TAAAATA
46572550 TAAAATA
1 TAAAATA
46572557 TAAAA
1 TAAAA
46572562 ATATCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:46576978 original size:33 final size:33
Alignment explanation
Indices: 46576936--46577002 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
46576926 TTTTTTCTTA
46576936 CCAAGCATGCTAATGGAAATATATATATGTTCT
1 CCAAGCATGCTAATGGAAATATATATATGTTCT
46576969 CCAAGCATGCTAATGGAAATATATATATGTTCT
1 CCAAGCATGCTAATGGAAATATATATATGTTCT
46577002 C
1 C
46577003 TATCCTCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (33 bp):
CCAAGCATGCTAATGGAAATATATATATGTTCT
Found at i:46581539 original size:15 final size:15
Alignment explanation
Indices: 46581499--46581541 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
46581489 TGATTCACTG
*
46581499 TAATAGAATAAAGCTA
1 TAAT-GAATAGAGCTA
*
46581515 TAATTGAATAGAGCTC
1 TAA-TGAATAGAGCTA
46581531 TAATGAATAGA
1 TAATGAATAGA
46581542 TTTGTAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (15 bp):
TAATGAATAGAGCTA
Found at i:46584721 original size:23 final size:23
Alignment explanation
Indices: 46584686--46584741 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
46584676 ACATCCATTA
46584686 AAAATCTAAACTCA-TAAAATTT
1 AAAATCTAAACTCATTAAAATTT
*
46584708 AAAATCTAACACTCATTAATATTT
1 AAAATCTAA-ACTCATTAAAATTT
*
46584732 AAAATTTAAA
1 AAAATCTAAA
46584742 TTGATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 6 0.20
24 15 0.50
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATCTAAACTCATTAAAATTT
Found at i:46586607 original size:14 final size:14
Alignment explanation
Indices: 46586588--46586633 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
46586578 TTTTTTATTT
46586588 TAATTATTATCATA
1 TAATTATTATCATA
*
46586602 TAATTATT-TTA-A
1 TAATTATTATCATA
* *
46586614 TTATTAATATCATA
1 TAATTATTATCATA
46586628 TAATTA
1 TAATTA
46586634 CAATTATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 7 0.28
13 4 0.16
14 14 0.56
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATTATCATA
Found at i:46586611 original size:23 final size:25
Alignment explanation
Indices: 46586582--46586633 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
46586572 ATATTATTTT
46586582 TTATTTTAATTA-T-TATCATATAA
1 TTATTTTAATTATTATATCATATAA
46586605 TTATTTTAATTATTAATATCATATAA
1 TTATTTTAATTATT-ATATCATATAA
46586631 TTA
1 TTA
46586634 CAATTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 12 0.46
24 1 0.04
26 13 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTTTAATTATTATATCATATAA
Found at i:46589174 original size:24 final size:25
Alignment explanation
Indices: 46589096--46589174 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
46589086 TTAGCTCTTT
* * *
46589096 TGAGCTTACCGATACTCAGCTCGTA
1 TGAGCTTAGCGTTATTCAGCTCGTA
* *
46589121 TGAGCTTAGCGTTATTCATCTCGGA
1 TGAGCTTAGCGTTATTCAGCTCGTA
* *
46589146 GGAGCTTATCGTT-TAT-AGCTCGTA
1 TGAGCTTAGCGTTAT-TCAGCTCGTA
46589170 TGAGC
1 TGAGC
46589175 ATACATGTAC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
24 11 0.26
25 32 0.74
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (25 bp):
TGAGCTTAGCGTTATTCAGCTCGTA
Found at i:46591835 original size:30 final size:29
Alignment explanation
Indices: 46591741--46591842 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
46591731 TATAGTGAAT
* * *
46591741 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
46591770 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
46591798 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
46591828 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
46591843 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:46599685 original size:30 final size:29
Alignment explanation
Indices: 46599591--46599692 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
46599581 TATAGTGAAT
* * *
46599591 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
46599620 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
46599648 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
46599678 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
46599693 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:46620472 original size:25 final size:25
Alignment explanation
Indices: 46620398--46620475 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
46620388 CTCGGCCCTG
46620398 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
46620423 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
46620445 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
46620470 TCACAT
1 TCACAT
46620476 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:46620521 original size:49 final size:47
Alignment explanation
Indices: 46620347--46620663 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
46620337 CCCTTCGGGA
* * * * * *
46620347 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
46620394 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
46620441 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
46620488 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
46620537 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
46620586 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
46620633 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46620664 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:46620544 original size:96 final size:94
Alignment explanation
Indices: 46620347--46620663 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
46620337 CCCTTCGGGA
* * * * * * * *
46620347 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
46620412 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
46620441 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
46620505 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
46620537 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
46620601 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
46620633 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46620664 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:46624460 original size:43 final size:43
Alignment explanation
Indices: 46624399--46624619 Score: 388
Period size: 43 Copynumber: 5.1 Consensus size: 43
46624389 CCTTGCTCGA
** * * *
46624399 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
46624442 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
46624485 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
*
46624528 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
46624571 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
46624614 ATCACC
1 ATCACC
46624620 AGCATGACTG
Statistics
Matches: 171, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.32, C:0.33, G:0.22, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
Found at i:46624793 original size:42 final size:42
Alignment explanation
Indices: 46624602--46624813 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
46624592 AGGCTCGAAG
* * * * * * *
46624602 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
46624644 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
46624684 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
46624724 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
46624764 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
46624806 GCCCGGAT
1 GCCCGGAT
46624814 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:46626910 original size:49 final size:47
Alignment explanation
Indices: 46626737--46627047 Score: 393
Period size: 47 Copynumber: 6.7 Consensus size: 47
46626727 CCCTTCGGGA
* * * * * *
46626737 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * * *
46626784 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATT-CGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
46626830 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
46626877 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
46626926 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATT----
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
* *
46626971 C-GATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
46627017 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46627048 GCGTAAAATC
Statistics
Matches: 231, Mismatches: 21, Indels: 24
0.84 0.08 0.09
Matches are distributed among these distances:
42 23 0.10
43 1 0.00
44 15 0.06
45 1 0.00
46 41 0.18
47 83 0.36
49 67 0.29
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:46626995 original size:42 final size:44
Alignment explanation
Indices: 46626788--46627047 Score: 281
Period size: 49 Copynumber: 5.6 Consensus size: 44
46626778 CTCGGCCCTG
* * *
46626788 TCACATATATACACCTTCACATTCATCACATTGGCTATTCGCCTTA
1 TCACATATATACACCTTCACATTCATCACATCGGCCATT-G-CTGA
* *
46626834 TCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTA
1 TCACATATATACACCTTCACATTCATCACATCGGCCATT--G-CTGA
* *
46626881 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACCTTCACATTCATCACATCGGCCATT--G-CTGA
*
46626930 TCACATATATACACACTTTCACATTCATCACATTGGCCATT-C-GA
1 TCACATATATACAC-C-TTCACATTCATCACATCGGCCATTGCTGA
*
46626974 TCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACCTTCACATTCATCACATCGGCCATT--G-CTGA
*
46627021 TCACATATATACACATTCACATTCATC
1 TCACATATATACACCTTCACATTCATC
46627048 GCGTAAAATC
Statistics
Matches: 192, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
42 23 0.12
43 1 0.01
44 15 0.08
45 1 0.01
46 37 0.19
47 47 0.24
49 68 0.35
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (44 bp):
TCACATATATACACCTTCACATTCATCACATCGGCCATTGCTGA
Found at i:46626999 original size:91 final size:92
Alignment explanation
Indices: 46626788--46627047 Score: 370
Period size: 91 Copynumber: 2.8 Consensus size: 92
46626778 CTCGGCCCTG
* * *
46626788 TCACATATATACACCTTCACATTCATCACATTGGCTATT-CGCCTTATCACATATATACAC-CTT
1 TCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTT
*
46626851 CACATTCATCACATCTGCCATTAGGCCTTA
66 CACATTCATCACATCTGCCATT--G-CTGA
*
46626881 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACAC
1 TCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACAC
46626946 TTTCACATTCATCACAT-TGGCCATT-C-GA
64 -TTCACATTCATCACATCT-GCCATTGCTGA
46626974 TCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACA-TT
1 TCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTT
46627038 CACATTCATC
66 CACATTCATC
46627048 GCGTAAAATC
Statistics
Matches: 155, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
89 12 0.08
91 57 0.37
93 9 0.06
94 1 0.01
95 32 0.21
96 20 0.13
97 2 0.01
98 22 0.14
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (92 bp):
TCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTT
CACATTCATCACATCTGCCATTGCTGA
Found at i:46627002 original size:140 final size:139
Alignment explanation
Indices: 46626737--46627047 Score: 452
Period size: 140 Copynumber: 2.2 Consensus size: 139
46626727 CCCTTCGGGA
* * * * *
46626737 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
46626800 ACCTTCACATTCATCACATTGGCTATTCGCCTTATCACATATATACACCTTCACATTCATCACAT
66 ACCTTCACATTCATCACATTGGCCATTCG-C--ATCACATATATACACCTTCACATTCATCACAT
*
46626865 CTGCCATTAGGC
128 CGGCCATTAGGC
* *
46626877 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
46626942 ACACTTTCACATTCATCACATTGGCCATTCG-ATCACATATATACACCTTCACATTCATCACATC
66 AC-C-TTCACATTCATCACATTGGCCATTCGCATCACATATATACACCTTCACATTCATCACATC
46627006 GGCCATTAGGC
129 GGCCATTAGGC
*
46627017 CTTATCAC--ATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
46627048 GCGTAAAATC
Statistics
Matches: 157, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
138 22 0.14
140 61 0.39
141 1 0.01
142 47 0.30
143 1 0.01
144 25 0.16
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (139 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACCTTCACATTCATCACATTGGCCATTCGCATCACATATATACACCTTCACATTCATCACATCGG
CCATTAGGC
Found at i:46635495 original size:40 final size:39
Alignment explanation
Indices: 46635330--46635513 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
46635320 AAATTGAATG
* * *
46635330 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
46635370 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
46635410 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
46635450 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
46635489 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46635514 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:46635538 original size:80 final size:81
Alignment explanation
Indices: 46635370--46635558 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
46635360 GCTGGAAATT
* * * *
46635370 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
46635435 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
46635451 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
46635514 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
46635530 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
46635559 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:46639030 original size:53 final size:54
Alignment explanation
Indices: 46638960--46639114 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 54
46638950 TAATTGACTG
* * *
46638960 TTACTGAATAA-TAGATTGTTACTGAATAACTGAATATTACTGATAA-ATGATCA
1 TTACTGAATAACT-GATTGTTACTGAATAAATGACTATTACTGATAACATAATCA
* * *
46639013 TTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTAATTA
1 TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACTG-ATAACATAATCA
* * * *
46639068 CTACTGAATATCTGATT-TTACTAAATAATTGACTATTACTAGATAAC
1 TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACT-GATAAC
46639115 CGATCAATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
53 37 0.43
54 30 0.34
55 20 0.23
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (54 bp):
TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACTGATAACATAATCA
Found at i:46639089 original size:89 final size:89
Alignment explanation
Indices: 46638913--46639082 Score: 207
Period size: 89 Copynumber: 1.9 Consensus size: 89
46638903 AAGGTATAAA
* * * * * * * *
46638913 ATAATTGATTATTTCTGAATAATTGACTGTTACCGAATAATTGACTGTTACTGAATAATAGATTG
1 ATAAATGATCATTACTGAATAACTGACTGTCACCGAATAAATGACTATTACTGAATAATAGATTA
*
46638978 TTACTGAATAACTGAATATTACTG
66 CTACTGAATAACTGAATATTACTG
* *
46639002 ATAAATGATCATTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTA-AT
1 ATAAATGATCATTACTGAATAACTGACTGTCACCGAATAAATGACTATTACTGAATAA--TAGAT
*
46639066 TACTACTGAATATCTGA
64 TACTACTGAATAACTGA
46639083 TTTTACTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
89 49 0.73
90 16 0.24
91 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (89 bp):
ATAAATGATCATTACTGAATAACTGACTGTCACCGAATAAATGACTATTACTGAATAATAGATTA
CTACTGAATAACTGAATATTACTG
Found at i:46639202 original size:18 final size:18
Alignment explanation
Indices: 46638912--46639206 Score: 168
Period size: 18 Copynumber: 16.1 Consensus size: 18
46638902 AAAGGTATAA
* * *
46638912 AATAATTGATTATTTCTG
1 AATAACTGATTGTTACTG
* * *
46638930 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* *
46638948 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
46638966 AATAA-TAGATTGTTACTG
1 AATAACT-GATTGTTACTG
* *
46638984 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
46639002 -ATAAATGATCATTACTG
1 AATAACTGATTGTTACTG
*
46639019 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* * *
46639037 AATAAATGACTATTACTG
1 AATAACTGATTGTTACTG
* **
46639055 AATAACTTAATTACTACTG
1 AATAAC-TGATTGTTACTG
* *
46639074 AATATCTGATT-TTACTA
1 AATAACTGATTGTTACTG
* * *
46639091 AATAATTGACTATTACT-
1 AATAACTGATTGTTACTG
*
46639108 AGATAACCGATCAATTGATCGATACTG
1 A-ATAA-C--T-GATTG-T---TACTG
* * *
46639135 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
46639153 AATAACTGATTGTTACTG
1 AATAACTGATTGTTACTG
*
46639171 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
46639189 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
46639206 A
1 A
46639207 TTGTTAATGA
Statistics
Matches: 217, Mismatches: 45, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
17 32 0.15
18 152 0.70
19 15 0.07
21 2 0.01
22 4 0.02
23 2 0.01
25 1 0.00
26 8 0.04
27 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:46642357 original size:2 final size:2
Alignment explanation
Indices: 46642350--46642374 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46642340 TCGATCGGAG
46642350 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
46642375 GTACGCACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46642497 original size:29 final size:29
Alignment explanation
Indices: 46642473--46642595 Score: 228
Period size: 29 Copynumber: 4.2 Consensus size: 29
46642463 TCGCACACCC
*
46642473 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
46642502 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
46642531 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
46642560 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
46642589 AGTGCCA
1 AGTGCCA
46642596 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:46642498 original size:58 final size:58
Alignment explanation
Indices: 46642436--46642595 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
46642426 ATTTAAGCCC
* * * * *
46642436 GCACACATAGTGTCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
46642494 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
* * * **
46642552 GCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCA
46642596 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 90 0.99
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:46642527 original size:87 final size:87
Alignment explanation
Indices: 46642436--46642595 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
46642426 ATTTAAGCCC
* * * * *
46642436 GCACACATAGTGTCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCATGCACAC
1 GCACACATAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCACGCACAC
46642500 TTAGTGCCATATATTTCCAGCAT
65 TTAGTGCCATATATTTCCAGCAT
* * * **
46642523 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCACGCACACT
1 GCACACATAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCACGCACACT
46642588 TAGTGCCA
66 TAGTGCCA
46642596 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
87 61 0.98
88 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (87 bp):
GCACACATAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCACGCACACT
TAGTGCCATATATTTCCAGCAT
Found at i:46650419 original size:55 final size:53
Alignment explanation
Indices: 46650264--46650464 Score: 168
Period size: 53 Copynumber: 3.7 Consensus size: 53
46650254 TTCCTTTTTA
* * *
46650264 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
* * * * *
46650317 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATC
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
* *** * * * * *
46650370 ATATTTTGTCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-C
* * ** * *
46650426 AAGTTACCAATGCCATACCTTGGCATGGTCTTACTTGGT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGT
46650465 GTCCTTAAAC
Statistics
Matches: 117, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 48 0.41
54 30 0.26
55 38 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
Found at i:46652689 original size:96 final size:96
Alignment explanation
Indices: 46652525--46652705 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
46652515 TGGTCACACA
* * *
46652525 CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAACCTGTGTAGCTCTTTGTTTATGATGTCATC
1 CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAACCCGTGTAGCTCTCTGATTATGATGTCATC
46652590 AACACAACTAAGGTCACACGGCCAAGTCACT
66 AACACAACTAAGGTCACACGGCCAAGTCACT
* *
46652621 CGCTCGTGTGGCTTGGGACACGC-CCGTGTCCTCAGCCCGTGTATCTCTCTGATTATGATGTCAT
1 CGCTCGTGTGGCTTGGGACAC-CTCCGTGTCCTCAACCCGTGTAGCTCTCTGATTATGATGTCAT
* *
46652685 CAACACAATTAGGGTCACACG
65 CAACACAACTAAGGTCACACG
46652706 CCCGTGTGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 76 0.99
97 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (96 bp):
CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAACCCGTGTAGCTCTCTGATTATGATGTCATC
AACACAACTAAGGTCACACGGCCAAGTCACT
Found at i:46654077 original size:48 final size:48
Alignment explanation
Indices: 46653933--46654166 Score: 248
Period size: 48 Copynumber: 5.0 Consensus size: 48
46653923 CACATAGTAA
*
46653933 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
* * * *** * *
46653981 GAAGCC-A----ATAGCCCAGCTATGGTCTTACACCATG-TCTCATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACA-TGGGATCACATATT
* * *
46654024 AATGCCAATGCCACATCCCAGATATGGTCTTACATGGGATCAAATATT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
* *
46654072 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT-TT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
* * *
46654119 CGGTGCCAATGCCATGTCCCAGATATGGTCTTATATGGGATCACATAT
1 -GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATAT
46654167 AACCCTAATG
Statistics
Matches: 149, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
43 30 0.20
44 2 0.01
47 4 0.03
48 112 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATT
Found at i:46658385 original size:28 final size:28
Alignment explanation
Indices: 46658353--46658410 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
46658343 AGGACTCATG
46658353 TTAGAAATTTGACCCATGCATCAGATGA
1 TTAGAAATTTGACCCATGCATCAGATGA
*
46658381 TTAGAAATTTGACCCATTCATCAGATGA
1 TTAGAAATTTGACCCATGCATCAGATGA
46658409 TT
1 TT
46658411 GTTCTTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (28 bp):
TTAGAAATTTGACCCATGCATCAGATGA
Found at i:46661709 original size:40 final size:40
Alignment explanation
Indices: 46661653--46661910 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
46661643 CGGATGATAA
* * *
46661653 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
46661693 TCGGGCTAAGTCCCGAAGCCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46661733 CCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46661773 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46661813 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
46661853 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46661893 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46661911 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.92
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46662070 original size:76 final size:76
Alignment explanation
Indices: 46661944--46662095 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
46661934 CTTGCTGTAA
46661944 TAGTTTCAATTAATATGCTCGTAAAATCCCAGCAATGAGGTATGTCTCGTATATGCATTGATTTA
1 TAGTTTCAATTAATATGCTCGTAAAATCCCAGCAATGAGGTATGTCTCGTATATGCATTGATTTA
46662009 GTTGATCCCTT
66 GTTGATCCCTT
46662020 TAGTTTCAATTAATATGCTCGTAAAATCCCAGCAATGAGGTATGTCTCGTATATGCATTGATTTA
1 TAGTTTCAATTAATATGCTCGTAAAATCCCAGCAATGAGGTATGTCTCGTATATGCATTGATTTA
46662085 GTTGATCCCTT
66 GTTGATCCCTT
46662096 ACAATTAGTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (76 bp):
TAGTTTCAATTAATATGCTCGTAAAATCCCAGCAATGAGGTATGTCTCGTATATGCATTGATTTA
GTTGATCCCTT
Found at i:46666124 original size:28 final size:28
Alignment explanation
Indices: 46666055--46666155 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46666045 GACAAGATTG
* * * *
46666055 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46666085 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46666113 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46666142 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46666156 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46666149 original size:29 final size:28
Alignment explanation
Indices: 46666084--46666155 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
46666074 AAAATTGTAC
*
46666084 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
46666112 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
46666141 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46666156 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:46672933 original size:40 final size:40
Alignment explanation
Indices: 46672878--46673135 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
46672868 CGGATGATAA
* * *
46672878 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
46672918 CCGGGCTAAGTCCCGAAGCCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46672958 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
46672998 CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46673038 CCGGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
46673078 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46673118 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46673136 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.08
40 180 0.92
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46694440 original size:30 final size:30
Alignment explanation
Indices: 46694404--46694478 Score: 78
Period size: 38 Copynumber: 2.2 Consensus size: 30
46694394 CAATTGTGCG
46694404 AATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGATATCCGGGCTAAGCCCGAAGGC
46694434 AATTGTGCAGCTATGATATCCGGGCTAAGCCCGAAGGC
1 AA-T-T---G---TGATATCCGGGCTAAGCCCGAAGGC
46694472 AATTGTG
1 AATTGTG
46694479 CGAGTTGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
30 4 0.11
31 1 0.03
32 1 0.03
33 1 0.03
35 1 0.03
36 1 0.03
37 1 0.03
38 27 0.73
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (30 bp):
AATTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:46694465 original size:77 final size:78
Alignment explanation
Indices: 46694370--46694519 Score: 266
Period size: 77 Copynumber: 1.9 Consensus size: 78
46694360 AATGTTCGAG
46694370 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
46694434 AATTGTGCAGCTA
66 AATTGTGCAGCTA
* *
46694447 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
46694512 ATTTGTGC
66 AATTGTGC
46694520 GGGTTACCAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 53 0.77
78 16 0.23
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCAGCTA
Found at i:46694518 original size:40 final size:39
Alignment explanation
Indices: 46694369--46694520 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
46694359 GAATGTTCGA
*
46694369 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46694408 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46694446 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
46694485 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
46694521 GGTTACCATA
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 35 0.34
39 52 0.50
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:46694536 original size:40 final size:40
Alignment explanation
Indices: 46694376--46694556 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
46694366 CGAGTGATAT
* * *** *
46694376 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * ** *
46694415 CCGGGCTAAG-CCCGAAGGCAATTGTGC-AGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
46694453 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
46694492 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
46694532 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46694557 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
38 35 0.28
39 45 0.36
40 45 0.36
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:46694572 original size:80 final size:77
Alignment explanation
Indices: 46694376--46694589 Score: 207
Period size: 77 Copynumber: 2.7 Consensus size: 77
46694366 CGAGTGATAT
** * * *
46694376 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
46694441 CAGCTATGATAT
66 CAGCTACCATAA
** * *
46694453 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
46694518 GCGGGTTACCATAA
65 GC-AGCTACCATAA
* ** *
46694532 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
46694590 TATGTGATTC
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
77 47 0.40
78 17 0.15
79 28 0.24
80 24 0.21
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CAGCTACCATAA
Found at i:46702004 original size:40 final size:39
Alignment explanation
Indices: 46701854--46702006 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
46701844 GAATGTTCGA
*
46701854 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46701893 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46701932 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
46701971 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
46702007 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:46702022 original size:40 final size:39
Alignment explanation
Indices: 46701855--46702037 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
46701845 AATGTTCGAG
* *
46701855 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46701894 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46701933 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46701972 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46702012 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46702038 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46705049 original size:39 final size:39
Alignment explanation
Indices: 46704995--46705147 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
46704985 GAATGTTCGA
*
46704995 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46705034 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46705073 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
46705112 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
46705148 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:46705163 original size:40 final size:39
Alignment explanation
Indices: 46704996--46705177 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
46704986 AATGTTCGAG
* *
46704996 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46705035 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46705074 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46705113 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46705153 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
46705178 TGTTTGAACG
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46712620 original size:40 final size:39
Alignment explanation
Indices: 46712470--46712622 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
46712460 GAATGTTCGA
* *
46712470 GTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46712509 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
46712548 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
46712587 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
46712623 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:46712638 original size:40 final size:39
Alignment explanation
Indices: 46712471--46712653 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
46712461 AATGTTCGAG
* * *
46712471 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46712510 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46712549 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46712588 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46712628 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46712654 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46712680 original size:79 final size:78
Alignment explanation
Indices: 46712480--46712691 Score: 212
Period size: 78 Copynumber: 2.7 Consensus size: 78
46712470 GTGATATCCA
** * * *
46712480 GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA
1 GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGA
** *
46712545 GCTATGATATCCG
66 GCTACCATAACCG
** * *
46712558 GGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCG
* *
46712623 GGTTACCATAACCG
65 AGCTACCATAACCG
* ** *
46712637 GGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 GGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
46712692 TATGTGATTC
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 45 0.39
79 45 0.39
80 24 0.21
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGA
GCTACCATAACCG
Found at i:46729374 original size:30 final size:30
Alignment explanation
Indices: 46729340--46729437 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
46729330 AGCTCACTTC
46729340 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
46729370 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
46729400 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
46729430 TAGCTCAT
1 TAGCTCAT
46729438 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Done.