Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 156 of 343
Found at i:51731072 original size:34 final size:34
Alignment explanation
Indices: 51730994--51731065 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
51730984 CGTTTCAGTA
*
51730994 ACAGT-TCAGTTTCAGTTAGGGCCTAAGCCCATT
1 ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
* *
51731027 ACAGTATCAGTATCAGTGTA-GGCCTTAGCCTATT
1 ACAGTATCAGTATCAGT-TAGGGCCTAAGCCCATT
*
51731061 TCAGT
1 ACAGT
51731066 GACAGTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.15
34 26 0.79
35 2 0.06
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
Found at i:51738867 original size:56 final size:56
Alignment explanation
Indices: 51738781--51738900 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
51738771 ACAAGGGATG
51738781 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
51738837 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
51738893 ATGGGCAA
1 ATGGGCAA
51738901 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:51740261 original size:40 final size:40
Alignment explanation
Indices: 51740030--51740254 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
51740020 TCGAATGATG
* * * *
51740030 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
51740070 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51740110 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51740149 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51740189 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51740230 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51740255 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51740276 original size:119 final size:119
Alignment explanation
Indices: 51740030--51740287 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
51740020 TCGAATGATG
* *
51740030 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
51740095 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
51740149 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
51740212 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
51740269 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
51740288 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:51745930 original size:13 final size:12
Alignment explanation
Indices: 51745895--51745937 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
51745885 CGTATACACA
51745895 ATTCATATAACT
1 ATTCATATAACT
51745907 ACTTCCATATAACT
1 A-TT-CATATAACT
*
51745921 GATTCATATAATT
1 -ATTCATATAACT
51745934 ATTC
1 ATTC
51745938 TGTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 11 0.41
15 1 0.04
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (12 bp):
ATTCATATAACT
Found at i:51746013 original size:42 final size:41
Alignment explanation
Indices: 51745909--51746037 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 41
51745899 ATATAACTAC
* * * *
51745909 TTCCATATAA-CTGATTCATATAATTATTCTGTATATT-TAT
1 TTCCATATAACCT-ATTCATATAATCATTTTATATATTCTTT
* * *
51745949 GTCCATATAACCGATTCTTATAATCATTTTATATATTCATTT
1 TTCCATATAACCTATTCATATAATCATTTTATATATTC-TTT
51745991 TTCCATATAACCTATTCATATAATCATTTTATATATTCGTTT
1 TTCCATATAACCTATTCATATAATCATTTTATATATTC-TTT
51746033 TTCCA
1 TTCCA
51746038 CCCAATGAAC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 29 0.39
41 1 0.01
42 45 0.60
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (41 bp):
TTCCATATAACCTATTCATATAATCATTTTATATATTCTTT
Found at i:51746027 original size:21 final size:21
Alignment explanation
Indices: 51745962--51746028 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
51745952 CATATAACCG
*
51745962 ATTCTTATAATCATTTTATAT
1 ATTCATATAATCATTTTATAT
** * * **
51745983 ATTCAT-TTTTCCATATAACCT
1 ATTCATATAAT-CATTTTATAT
51746004 ATTCATATAATCATTTTATAT
1 ATTCATATAATCATTTTATAT
51746025 ATTC
1 ATTC
51746029 GTTTTTCCAC
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTCATATAATCATTTTATAT
Found at i:51746111 original size:25 final size:25
Alignment explanation
Indices: 51746079--51746143 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
51746069 ACACAAGAAT
*
51746079 AATGCTCATACAAGCTATAACTGTA
1 AATGCTCACACAAGCTATAACTGTA
* * * *
51746104 ATTGCTCACCCGAGCTATAATTGTA
1 AATGCTCACACAAGCTATAACTGTA
51746129 AATGCTCACACAAGC
1 AATGCTCACACAAGC
51746144 AATGAAATGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (25 bp):
AATGCTCACACAAGCTATAACTGTA
Found at i:51754827 original size:14 final size:14
Alignment explanation
Indices: 51754808--51754834 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51754798 GAAAAATTAC
51754808 ACTTTTGCCCCTAA
1 ACTTTTGCCCCTAA
51754822 ACTTTTGCCCCTA
1 ACTTTTGCCCCTA
51754835 GGCTCGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.37, G:0.07, T:0.37
Consensus pattern (14 bp):
ACTTTTGCCCCTAA
Found at i:51759857 original size:27 final size:27
Alignment explanation
Indices: 51759817--51759992 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
51759807 AACACTCCAG
51759817 GAAAGGAATGCCTTTGTGGCAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
51759844 GAAAGGAATACCTTTGTGGCAATATCT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
51759871 -AAGAGAAATGCCTTTGTGGCAATTTAT
1 GAA-AGGAATGCCTTTGTGGCAATATAT
* * *
51759898 GAAATGAATGCCCTTGTGGAAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
** * *
51759925 GAAAAAAATGCCTTTGTGACAATATAC
1 GAAAGGAATGCCTTTGTGGCAATATAT
* * * *
51759952 GAAAAG-ATGTCTTTGTGGTAGA-ATTT
1 GAAAGGAATGCCTTTGTGGCA-ATATAT
*
51759978 GGAAGGAATGCCTTT
1 GAAAGGAATGCCTTT
51759993 ACGACATACT
Statistics
Matches: 119, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 19 0.16
27 98 0.82
28 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCAATATAT
Found at i:51767833 original size:45 final size:45
Alignment explanation
Indices: 51767783--51767870 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
51767773 CCAAAACATG
*
51767783 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAAA
*
51767828 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCA
51767871 GATCACATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAAA
Found at i:51776291 original size:61 final size:61
Alignment explanation
Indices: 51776219--51776444 Score: 258
Period size: 61 Copynumber: 3.7 Consensus size: 61
51776209 CTTAAAGGAT
* *
51776219 GCCTTTTTGGTGAGTATTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
1 GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
* * *
51776280 GCCTTTGTGGTGAGTACTGAATA-TAAAGGACAACCTTTATGGCAAAACATTGAACAAGAAA
1 GCCTTTGTGGTGAGTACTGAA-AGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
* * * * * * * *
51776341 GCCTTTATGGTGAGTATTGAATGTAAAAGATAGCCTTTATGGCAAAACTCTGGATAGGAAA
1 GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
* ** * *
51776402 GCCTTTGAGGCAAGTACTGAATGTAAAGGA-AAGCCTTTGTGGC
1 GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAA-CCTTTATGGC
51776445 GGCCTCTATT
Statistics
Matches: 138, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
60 1 0.01
61 136 0.99
62 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (61 bp):
GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
Found at i:51776439 original size:122 final size:122
Alignment explanation
Indices: 51776219--51776444 Score: 328
Period size: 122 Copynumber: 1.9 Consensus size: 122
51776209 CTTAAAGGAT
* * *
51776219 GCCTTTTTGGTGAGTATTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAAGCCT
1 GCCTTTATGGTGAGTATTGAAAGTAAAAGACAACCTTTATGGCAAAACTCTGGACAGGAAAGCCT
* **
51776284 TTGTGGTGAGTACTGAATATAAAGGACAACCTTTATGGCAAAACATTGAACAAGAAA
66 TTGAGGCAAGTACTGAATATAAAGGACAACCTTTATGGCAAAACATTGAACAAGAAA
* * * *
51776341 GCCTTTATGGTGAGTATTGAATGTAAAAGATAGCCTTTATGGCAAAACTCTGGATAGGAAAGCCT
1 GCCTTTATGGTGAGTATTGAAAGTAAAAGACAACCTTTATGGCAAAACTCTGGACAGGAAAGCCT
* *
51776406 TTGAGGCAAGTACTGAATGTAAAGGA-AAGCCTTTGTGGC
66 TTGAGGCAAGTACTGAATATAAAGGACAA-CCTTTATGGC
51776445 GGCCTCTATT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
121 2 0.02
122 89 0.98
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (122 bp):
GCCTTTATGGTGAGTATTGAAAGTAAAAGACAACCTTTATGGCAAAACTCTGGACAGGAAAGCCT
TTGAGGCAAGTACTGAATATAAAGGACAACCTTTATGGCAAAACATTGAACAAGAAA
Found at i:51776755 original size:25 final size:25
Alignment explanation
Indices: 51776727--51776776 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
51776717 ATGAACAATC
*
51776727 CTCTGAAGATAAAGTAAAG-GTAAGA
1 CTCTAAAGATAAAGT-AAGTGTAAGA
*
51776752 CTCTAAAGATAAGGTAAGTGTAAGA
1 CTCTAAAGATAAAGTAAGTGTAAGA
51776777 GATGATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (25 bp):
CTCTAAAGATAAAGTAAGTGTAAGA
Found at i:51781287 original size:45 final size:45
Alignment explanation
Indices: 51781185--51781276 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
51781175 TGCTTTTATC
* * * *
51781185 TTATACGCTTTAATACCTTTAGCAGAAACCACATGGCCTAAAAAC
1 TTATACACTTTAATACCTTCAGCAAAAACCACATGGCCTAAAAAA
51781230 TTATACACTTTAATACCTTCAGCAAAAACCACATGGCGC-AAAAAA
1 TTATACACTTTAATACCTTCAGCAAAAACCACATGGC-CTAAAAAA
51781275 TT
1 TT
51781277 TACTTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (45 bp):
TTATACACTTTAATACCTTCAGCAAAAACCACATGGCCTAAAAAA
Found at i:51783872 original size:27 final size:29
Alignment explanation
Indices: 51783842--51783899 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
51783832 TATAGCCATG
51783842 AAGG-CTTCCTGT-ACAGAGAATGCCACA
1 AAGGTCTTCCTGTGACAGAGAATGCCACA
* * *
51783869 AAGGTTTTCCTTTGACAGAGATTGCCACA
1 AAGGTCTTCCTGTGACAGAGAATGCCACA
51783898 AA
1 AA
51783900 TGCATTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 6 0.23
29 16 0.62
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (29 bp):
AAGGTCTTCCTGTGACAGAGAATGCCACA
Found at i:51788814 original size:18 final size:18
Alignment explanation
Indices: 51788791--51788826 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51788781 ACTTTCACAC
51788791 TTTAGGAGATTGAAACAA
1 TTTAGGAGATTGAAACAA
51788809 TTTAGGAGATTGAAACAA
1 TTTAGGAGATTGAAACAA
51788827 ACGTTATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (18 bp):
TTTAGGAGATTGAAACAA
Found at i:51789089 original size:21 final size:22
Alignment explanation
Indices: 51789063--51789103 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
51789053 TGCACCTCCT
* *
51789063 TTTTAATTTACAAA-TATCAAA
1 TTTTAAATTAAAAACTATCAAA
51789084 TTTTAAATTAAAAACTATCA
1 TTTTAAATTAAAAACTATCA
51789104 TGGTAGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAATTAAAAACTATCAAA
Found at i:51789491 original size:37 final size:37
Alignment explanation
Indices: 51789441--51789516 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
51789431 CCTTGTATTA
51789441 ATTTACTAATTTTAAACTAACTTATAAAACAAATCAT
1 ATTTACTAATTTTAAACTAACTTATAAAACAAATCAT
51789478 ATTTACTAATTTTAAACTAACTTATAAAACAAATCAT
1 ATTTACTAATTTTAAACTAACTTATAAAACAAATCAT
51789515 AT
1 AT
51789517 ATCTAATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (37 bp):
ATTTACTAATTTTAAACTAACTTATAAAACAAATCAT
Found at i:51795629 original size:48 final size:48
Alignment explanation
Indices: 51795560--51795655 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
51795550 TTCCTTGAAT
51795560 AAACAAAAGTGGTTTAACCCACTTAAACTGCTGAATAAGATTGATCAC
1 AAACAAAAGTGGTTTAACCCACTTAAACTGCTGAATAAGATTGATCAC
51795608 AAACAAAAGTGGTTTAACCCACTTAAACTGCTGAATAAGATTGATCAC
1 AAACAAAAGTGGTTTAACCCACTTAAACTGCTGAATAAGATTGATCAC
51795656 CTAACACTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (48 bp):
AAACAAAAGTGGTTTAACCCACTTAAACTGCTGAATAAGATTGATCAC
Found at i:51796531 original size:125 final size:125
Alignment explanation
Indices: 51796309--51796536 Score: 384
Period size: 125 Copynumber: 1.8 Consensus size: 125
51796299 AACTCACCTA
* * *
51796309 AAGTCCAAATTCGGTACTCCACTATCTCTCACCTCAACTCCCCCTAATCCTCTCCTCTAATCTCT
1 AAGTCCAAATTCAGTACTCCACTATCTCCCACCTCAACTCCCCCTAATCCTCTCCTCAAATCTCT
* * * *
51796374 CTATAATATTCTCTTAGAATTCGGCTACACACTCCCCAAACTGACTTCCTTGAGTGCCTG
66 CTACAATATCCTCCTAGAATTCGACTACACACTCCCCAAACTGACTTCCTTGAGTGCCTG
*
51796434 AAGTCCAAATTCAGTATTCCACTATCTCCCACCTCAACTCCCCCTAATCCTCTCCTCAAATCTCT
1 AAGTCCAAATTCAGTACTCCACTATCTCCCACCTCAACTCCCCCTAATCCTCTCCTCAAATCTCT
51796499 CTACAATATCCTCCTAGAATTCGACTACACACTCCCCA
66 CTACAATATCCTCCTAGAATTCGACTACACACTCCCCA
51796537 CTCCCCTCAA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 95 1.00
ACGTcount: A:0.26, C:0.38, G:0.07, T:0.29
Consensus pattern (125 bp):
AAGTCCAAATTCAGTACTCCACTATCTCCCACCTCAACTCCCCCTAATCCTCTCCTCAAATCTCT
CTACAATATCCTCCTAGAATTCGACTACACACTCCCCAAACTGACTTCCTTGAGTGCCTG
Found at i:51802374 original size:27 final size:26
Alignment explanation
Indices: 51802342--51802415 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
51802332 CTAATCTATA
*
51802342 AAATGACTGTTTTGCCCTTGTATGGT
1 AAATGACTGTTTTACCCTTGTATGGT
* * *
51802368 ATAATGACTATTTTCCCCTTATATGGT
1 A-AATGACTGTTTTACCCTTGTATGGT
51802395 AAGATGACTGTTTTACCCTTG
1 AA-ATGACTGTTTTACCCTTG
51802416 CGTGATGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (26 bp):
AAATGACTGTTTTACCCTTGTATGGT
Found at i:51813375 original size:37 final size:37
Alignment explanation
Indices: 51813312--51813420 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
51813302 AGCTCAGACG
* * *
51813312 AAATCTCCACATGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
51813349 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
* *
51813386 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
51813421 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
Found at i:51813691 original size:47 final size:47
Alignment explanation
Indices: 51813629--51814017 Score: 544
Period size: 47 Copynumber: 8.1 Consensus size: 47
51813619 ACACGTTTCG
* * * **
51813629 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
51813676 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
51813723 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
51813770 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
51813817 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
51813870 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
51813917 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
51813968 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
51814015 CAT
1 CAT
51814018 AAAATCCTAA
Statistics
Matches: 310, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
47 222 0.72
49 1 0.00
51 45 0.15
53 42 0.14
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:51813896 original size:100 final size:98
Alignment explanation
Indices: 51813629--51814017 Score: 605
Period size: 94 Copynumber: 4.0 Consensus size: 98
51813619 ACACGTTTCG
* *
51813629 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
51813690 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
** *
51813723 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
51813784 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
51813817 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCACATTGGCCATTC
51813882 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
*
51813917 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
51813982 CCTTATCACACATACGCATGTTCACATCCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
51814015 CAT
1 CAT
51814018 AAAATCCTAA
Statistics
Matches: 273, Mismatches: 12, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
92 2 0.01
94 101 0.37
95 1 0.00
96 5 0.02
98 76 0.28
100 88 0.32
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:51818798 original size:43 final size:42
Alignment explanation
Indices: 51818719--51818832 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
51818709 GTTGAAATTA
*
51818719 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTT
1 CGTGAAAGACCATATCTGGGATATGGCATCGATATGAGACTT
* * *
51818761 CGTGAAAGACCATAGT-TGGGCTATTGGCATCGGTATGAGA-TCC
1 CGTGAAAGACCATA-TCTGGGATA-TGGCATCGATATGAGACT-T
* * *
51818804 CATGTAAGACCATATCTGAGATATGGCAT
1 CGTGAAAGACCATATCTGGGATATGGCAT
51818833 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (42 bp):
CGTGAAAGACCATATCTGGGATATGGCATCGATATGAGACTT
Found at i:51818951 original size:20 final size:20
Alignment explanation
Indices: 51818915--51818957 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
51818905 CAACAATGTT
*
51818915 TTGTGAAAGAGTATGGTATG
1 TTGTGAAAGAGTATGGTAAG
* *
51818935 TTGTGAAAGATTTTGGTAAG
1 TTGTGAAAGAGTATGGTAAG
51818955 TTG
1 TTG
51818958 AAAGTTGGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.40
Consensus pattern (20 bp):
TTGTGAAAGAGTATGGTAAG
Found at i:51819971 original size:21 final size:21
Alignment explanation
Indices: 51819947--51819999 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
51819937 CGGCCTGCCA
*
51819947 ATACGGGCGTGTCCTAAAGCC
1 ATACGGGCGTGTCCCAAAGCC
51819968 ATACGGGCGTGTCCCAAAGCC
1 ATACGGGCGTGTCCCAAAGCC
51819989 ATACGGGCGTG
1 ATACGGGCGTG
51820000 GGACCCCTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (21 bp):
ATACGGGCGTGTCCCAAAGCC
Found at i:51821961 original size:48 final size:47
Alignment explanation
Indices: 51821905--51822034 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 47
51821895 TGCGAATGAG
* * * *
51821905 ACCTTGATTTGGCCACGGGCCATGGTATAGGTATTTCAGAGAGGAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAG-GAGAAGTT
* *
51821953 ACCTTGATTTGGCTACGGGTCATGGTATAGGTACTCCAGGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGTT
** * *
51822000 ATTTTGTTTTGGCTACGGGCGATGGTATAGGTACT
1 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
51822035 TATCAATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 36 0.51
48 35 0.49
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (47 bp):
ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGAGAAGTT
Found at i:51822276 original size:27 final size:21
Alignment explanation
Indices: 51822216--51822270 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
51822206 ATGTGAAAGG
51822216 TTTGTGGTTAATGTGATTTTGA
1 TTTG-GGTTAATGTGATTTTGA
51822238 TTTGGGTTAATGTGATTTTGA
1 TTTGGGTTAATGTGATTTTGA
51822259 TTT-GG-TAATGTG
1 TTTGGGTTAATGTG
51822271 TAAATGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.21
20 2 0.06
21 20 0.61
22 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (21 bp):
TTTGGGTTAATGTGATTTTGA
Found at i:51823724 original size:26 final size:24
Alignment explanation
Indices: 51823694--51823750 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
51823684 GACTTACCAT
* *
51823694 AGCTCGTATGAGCATACTGATATATC
1 AGCTCATAAGAGCATACTG-T-TATC
*
51823720 AGCTCATAAGAGCTTACTGTTATC
1 AGCTCATAAGAGCATACTGTTATC
51823744 AGCTCAT
1 AGCTCAT
51823751 TGAAGCTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.39
25 1 0.04
26 16 0.57
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (24 bp):
AGCTCATAAGAGCATACTGTTATC
Found at i:51823780 original size:23 final size:23
Alignment explanation
Indices: 51823718--51823828 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 23
51823708 TACTGATATA
* **
51823718 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCATATGAGCTTACCATT
51823741 ATCAGCTCAT-TGAAGCTTACCATT
1 -TCAGCTCATATG-AGCTTACCATT
* *
51823765 TCAGCTCGTATGAGCTTACTA-T
1 TCAGCTCATATGAGCTTACCATT
**
51823787 TCAGCTCA-ATAGAGCTTACCGGT
1 TCAGCTCATAT-GAGCTTACCATT
*
51823810 TCAGCTTA-ATAGAGCTTAC
1 TCAGCTCATAT-GAGCTTAC
51823829 TGTTTATTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.03
22 16 0.22
23 36 0.49
24 20 0.27
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (23 bp):
TCAGCTCATATGAGCTTACCATT
Found at i:51823806 original size:45 final size:47
Alignment explanation
Indices: 51823718--51823830 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 47
51823708 TACTGATATA
* * *
51823718 TCAGCTCATAAGAGCTTACTGTTATCAGCTCATTGAAGCTTACCATT
1 TCAGCTCATAAGAGCTTACTGATATCAGCTCATAGAAGCTTACCAGT
* * *
51823765 TCAGCTCGTATGAGCTTACT-AT-TCAGCTCAATAG-AGCTTACCGGT
1 TCAGCTCATAAGAGCTTACTGATATCAGCTC-ATAGAAGCTTACCAGT
*
51823810 TCAGCTTA-ATAGAGCTTACTG
1 TCAGCTCATA-AGAGCTTACTG
51823831 TTTATTAGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.02
45 31 0.57
46 4 0.07
47 18 0.33
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (47 bp):
TCAGCTCATAAGAGCTTACTGATATCAGCTCATAGAAGCTTACCAGT
Found at i:51828478 original size:41 final size:41
Alignment explanation
Indices: 51828416--51828573 Score: 201
Period size: 41 Copynumber: 3.9 Consensus size: 41
51828406 TCGGGGTTTC
*
51828416 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
51828457 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
51828498 AA-CCGAACCTAGTTTCAAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
51828538 AATTCGAGCTTGGTCTCGAAGGGCTTTTTGAGCCAG
1 AATCCGAGCTTGGTCTCGAAGGGC-TTTTGAGCCAG
51828574 CGCTAAGAAT
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
40 31 0.33
41 57 0.60
42 7 0.07
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:51832299 original size:27 final size:27
Alignment explanation
Indices: 51832269--51832407 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
51832259 TACTGAAATG
* * *
51832269 CCCTCAATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
51832296 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
51832323 TCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
51832350 CCCTTGATTTATAGAATTACCACTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* **
51832377 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
51832404 CCCT
1 CCCT
51832408 TGATCAGTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:51832422 original size:54 final size:54
Alignment explanation
Indices: 51832283--51832425 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
51832273 CAATTTGTAA
* ** * * ** * *
51832283 AATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTATCCTCGATTTATAG
1 AATTACCGTTTTACCCTTGATTCATAAAATTACCACTTTACCCTCGATTTACAG
* *
51832337 AATTACCGTTTTACCCTTGATTTATAGAATTACCACTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTTGATTCATAAAATTACCACTTTACCCTCGATTTACAG
*
51832391 AATTACTGTTTTACCCTTGA-TCAGTAAAATTACCA
1 AATTACCGTTTTACCCTTGATTCA-TAAAATTACCA
51832426 AAATACCCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.03
54 76 0.97
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
AATTACCGTTTTACCCTTGATTCATAAAATTACCACTTTACCCTCGATTTACAG
Found at i:51832432 original size:27 final size:27
Alignment explanation
Indices: 51832414--51832645 Score: 278
Period size: 27 Copynumber: 8.7 Consensus size: 27
51832404 CCCTTGATCA
*
51832414 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCTTGGTTT
* *
51832441 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCTTGGTTT
51832468 GTAAAATTACCAAAATACCCTTGGTTT
1 GTAAAATTACCAAAATACCCTTGGTTT
51832495 GTAAAATTACCAAAATACCC-TGGTTT
1 GTAAAATTACCAAAATACCCTTGGTTT
51832521 GTAAAATTACCAAAATACCCTTGGTTT
1 GTAAAATTACCAAAATACCCTTGGTTT
* *
51832548 GTAAAATTACTAAAATACACC-TGATTT
1 GTAAAATTACCAAAATAC-CCTTGGTTT
* * *
51832575 GTGAAATTACC--GATACCCTTTGATTT
1 GTAAAATTACCAAAATACCC-TTGGTTT
* ** *
51832601 GCAAAATTACTGAAATAACCC--GATTT
1 GTAAAATTACCAAAAT-ACCCTTGGTTT
*
51832627 GTAAAATTACTAAAATACC
1 GTAAAATTACCAAAATACC
51832646 TCTGTAGGGT
Statistics
Matches: 184, Mismatches: 14, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.01
25 7 0.04
26 59 0.32
27 108 0.59
28 4 0.02
29 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCTTGGTTT
Found at i:51832433 original size:81 final size:81
Alignment explanation
Indices: 51832275--51832452 Score: 187
Period size: 81 Copynumber: 2.2 Consensus size: 81
51832265 AATGCCCTCA
* * * * * *
51832275 ATTTGTAAAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTATCCTCGATTTATAGAAT
1 ATTTATAAAATTACCACTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTCATAAAAT
**** *
51832340 TACCGTTTTACCCTTG
66 TACCAAAATACCCCTG
* * * *
51832356 ATTTATAGAATTACCACTTTACCCTCGATTTACAGAATTACTGTTTTACCCTTGA-TCAGTAAAA
1 ATTTATAAAATTACCACTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTCA-TAAAA
51832420 TTACCAAAATACCCCTG
65 TTACCAAAATACCCCTG
* *
51832437 GTTTGTAAAATTACCA
1 ATTTATAAAATTACCA
51832453 AAATACCCCT
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 2 0.03
81 76 0.97
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (81 bp):
ATTTATAAAATTACCACTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTCATAAAAT
TACCAAAATACCCCTG
Found at i:51832542 original size:53 final size:53
Alignment explanation
Indices: 51832414--51832645 Score: 301
Period size: 53 Copynumber: 4.4 Consensus size: 53
51832404 CCCTTGATCA
*
51832414 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AGTTT
1 GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTGA-TTT
*
51832468 GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGGTTT
1 GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGATTT
*
51832521 GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACACCTGATTT
1 GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATAC-CCTGATTT
* * * * **
51832575 GTGAAATTACC--GATACCCTTTGATTTGCAAAATTACTGAAATAACCC-GATTT
1 GTAAAATTACCAAAATACCC-TTGGTTTGTAAAATTACCAAAAT-ACCCTGATTT
*
51832627 GTAAAATTACTAAAATACC
1 GTAAAATTACCAAAATACC
51832646 TCTGTAGGGT
Statistics
Matches: 160, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
52 20 0.12
53 73 0.46
54 67 0.42
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGATTT
Found at i:51832548 original size:80 final size:78
Alignment explanation
Indices: 51832414--51832645 Score: 281
Period size: 80 Copynumber: 2.9 Consensus size: 78
51832404 CCCTTGATCA
* *
51832414 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
1 GTAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACT
*
51832479 AAAATACCCTTGGTTT
64 AAAATACCC-TGATTT
51832495 GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTA
1 GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCC-TGGTTTGTAAAATTACTA
51832560 AAATACACCTGATTT
65 AAATAC-CCTGATTT
* * * * ** *
51832575 GTGAAATTACC--GATACCCTTTGATTTGCAAAATTACTGAAATAACCC-GATTTGTAAAATTAC
1 GTAAAATTACCAAAATACCC--TGGTTTGTAAAATTACCAAAAT-ACCCTGGTTTGTAAAATTAC
51832637 TAAAATACC
63 TAAAATACC
51832646 TCTGTAGGGT
Statistics
Matches: 136, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
78 7 0.05
79 25 0.18
80 81 0.60
81 23 0.17
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (78 bp):
GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAA
AATACCCTGATTT
Found at i:51832669 original size:27 final size:27
Alignment explanation
Indices: 51832639--51832808 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
51832629 AAAATTACTA
* *
51832639 AAATACCTCTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAAATACCG
** * *
51832666 AAATACCCCTGTAATGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
51832693 AAATACCCCTATAAGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
51832720 AAATACCCCTGTAGGGTAGAATTACCT
1 AAATACCCCTGTAGGGTAGAAATACCG
* *
51832747 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAAATACCG
* * *
51832774 AAATACCCTTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
*
51832801 AGATACCC
1 AAATACCC
51832809 TTGGGTAAAA
Statistics
Matches: 121, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCG
Found at i:51832732 original size:81 final size:81
Alignment explanation
Indices: 51832639--51832808 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
51832629 AAAATTACTA
* * * *
51832639 AAATACCTCTGTAGGGTAGAAATATCGAAATACCCCTGTAATGTAGAATTA-CTGAAATACCCCT
1 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAAATATC-GAAATACCCCT
51832703 ATAAGGTAGAAATACCG
65 ATAAGGTAGAAATACCG
* * * * *
51832720 AAATACCCCTGTAGGGTAGAATTACCTAAATACCCTTGTAGGGTAGAAATATCGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAAATATCGAAATACCCCTA
* *
51832785 TAGGGTAGAATTACCG
66 TAAGGTAGAAATACCG
*
51832801 AGATACCC
1 AAATACCC
51832809 TTGGGTAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
81 75 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAAATATCGAAATACCCCTA
TAAGGTAGAAATACCG
Found at i:51832807 original size:54 final size:54
Alignment explanation
Indices: 51832639--51832811 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 54
51832629 AAAATTACTA
** *
51832639 AAATA-CCTCTGTAGGGTAGAAATATCGAAATACCCCTGTAATGTAGAATTACTG
1 AAATACCCT-TGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCG
* * * * *
51832693 AAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCT
1 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCG
* *
51832747 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCTTATAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCG
*
51832801 AGATACCCTTG
1 AAATACCCTTG
51832812 GGTAAAATTA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 100 0.98
55 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCG
Found at i:51833098 original size:24 final size:25
Alignment explanation
Indices: 51833022--51833091 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
51833012 AGGAAGTGTT
* * *
51833022 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
51833047 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
51833072 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
51833092 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:51833104 original size:24 final size:24
Alignment explanation
Indices: 51833020--51833104 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
51833010 GGAGGAAGTG
*
51833020 TTAAAAGGGCTTTGCCCTAGTTTA
1 TTAAAAGGGCTTTGCCCCAGTTTA
** *
51833044 CCGAAAAGGGTTTTGCCCCAGTTTA
1 -TTAAAAGGGCTTTGCCCCAGTTTA
*
51833069 TCAAAAAGGGCTTTGCCCCAG-TTA
1 T-TAAAAGGGCTTTGCCCCAGTTTA
51833093 TTAAAAGAGGCT
1 TTAAAAG-GGCT
51833105 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 37 0.74
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
TTAAAAGGGCTTTGCCCCAGTTTA
Found at i:51834267 original size:41 final size:41
Alignment explanation
Indices: 51834197--51834336 Score: 149
Period size: 41 Copynumber: 3.4 Consensus size: 41
51834187 TCGAATTCTC
* *
51834197 GCACACTAAGTGCCCAAACATAGCCGAAGCTATTTTAATCTT
1 GCACACTAAGTG-CCATACATAGCTGAAGCTATTTTAATCTT
* * * ***
51834239 GCATACTAAGTGCCTTACATAGCTGAAGCTATCTCGGTCTT
1 GCACACTAAGTGCCATACATAGCTGAAGCTATTTTAATCTT
* *
51834280 GCACACTAAGTGCCATATATAGCTAAAGCTATTTTGAATC--
1 GCACACTAAGTGCCATACATAGCTGAAGCTATTTT-AATCTT
*
51834320 ACACACTAAGTGCCATA
1 GCACACTAAGTGCCATA
51834337 TATATATATT
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 16 0.20
41 51 0.64
42 13 0.16
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (41 bp):
GCACACTAAGTGCCATACATAGCTGAAGCTATTTTAATCTT
Found at i:51838816 original size:40 final size:40
Alignment explanation
Indices: 51838578--51838802 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
51838568 TCGAATGATG
* * * *
51838578 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
51838618 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51838658 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51838697 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51838737 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51838778 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51838803 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51838824 original size:119 final size:119
Alignment explanation
Indices: 51838578--51838835 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
51838568 TCGAATGATG
* *
51838578 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
51838643 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * **
51838697 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
51838760 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
51838817 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
51838836 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:51845739 original size:27 final size:27
Alignment explanation
Indices: 51845708--51845819 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 27
51845698 TGATTCAAAA
*
51845708 ATATATATCAAGTCCGCACACTCAGTGCT
1 ATATA-ATCAA-TCCGCACACTTAGTGCT
51845737 ATATAATCAA-CTCGCACACTTAGTGCT
1 ATATAATCAATC-CGCACACTTAGTGCT
*
51845764 ATATAATCAAACTCGCACACTTAGTGCT
1 ATATAATCAATC-CGCACACTTAGTGCT
* * * *
51845792 GTACAATTTAAACCCGCACACTTAGTGC
1 ATATAA--TCAATCCGCACACTTAGTGC
51845820 CAATCTCATG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.01
27 24 0.32
28 26 0.35
29 19 0.26
30 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (27 bp):
ATATAATCAATCCGCACACTTAGTGCT
Found at i:51845785 original size:28 final size:28
Alignment explanation
Indices: 51845722--51845819 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51845712 ATATCAAGTC
*
51845722 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51845749 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51845777 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51845806 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51845820 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51849135 original size:40 final size:40
Alignment explanation
Indices: 51848904--51849128 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
51848894 TCGAATGATG
* * * *
51848904 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
51848944 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51848984 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
51849023 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51849063 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51849104 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51849129 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51853277 original size:68 final size:64
Alignment explanation
Indices: 51853167--51853383 Score: 170
Period size: 68 Copynumber: 3.3 Consensus size: 64
51853157 ATACAAATAG
* * * * * *
51853167 TATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTGCAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGATGATACTAGGTGCACACCATGTAG-ACAAGAGAGCTAC--GACA
51853231 TTA
63 -TA
* * * *
51853234 TTATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 -TATGTAGCTAGGTCACATGGATGATACTAGGTGCACACCATGTAGACAAGAGAGCTACGACATA
* * * * * *
51853299 TATGTAGCTAGGTCGCATGCG-TGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAG
1 TATGTAGCTAGGTCACATG-GATGATACTAGGT---GCACACCATGTAGACAAGAGAGCTACGAC
51853363 ATA
62 ATA
* *
51853366 AAT-TGGCTAGGTCACATG
1 TATGTAGCTAGGTCACATG
51853384 AGTGGTACTA
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
64 25 0.20
65 3 0.02
66 16 0.13
67 33 0.26
68 47 0.38
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTAGGTGCACACCATGTAGACAAGAGAGCTACGACATA
Found at i:51864041 original size:18 final size:19
Alignment explanation
Indices: 51864008--51864043 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51863998 TTAAATTTAG
*
51864008 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
51864027 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
51864044 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:51867464 original size:19 final size:20
Alignment explanation
Indices: 51867442--51867485 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51867432 CTGTTTTGTT
51867442 ATGGG-CCAACTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
51867461 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
51867481 ATGGG
1 ATGGG
51867486 TTAAGGCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:51868481 original size:41 final size:41
Alignment explanation
Indices: 51868409--51868543 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
51868399 TCGAATTCTT
** *
51868409 GCACACTAAGTGCCAAAACATAGCCGAAGCTATTTTAATCTC
1 GCACACTAAGTGCC-TTACATAGCCGAAGCTATTTCAATCTC
* * **
51868451 GCACACTAAGTGCCTTACATAGCCAAAGCTATCTCGGTCTC
1 GCACACTAAGTGCCTTACATAGCCGAAGCTATTTCAATCTC
* *
51868492 GTACACTAAGTG-CTATATATAGCCGAAGCTATTTCGAA--TC
1 GCACACTAAGTGCCT-TACATAGCCGAAGCTATTTC-AATCTC
51868532 GCACACTAAGTG
1 GCACACTAAGTG
51868544 TCATATATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
40 15 0.19
41 48 0.62
42 14 0.18
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
GCACACTAAGTGCCTTACATAGCCGAAGCTATTTCAATCTC
Found at i:51871521 original size:54 final size:54
Alignment explanation
Indices: 51871436--51871562 Score: 193
Period size: 54 Copynumber: 2.4 Consensus size: 54
51871426 TAAGATAAAC
* * * *
51871436 ATTTATTCCAACAA-TTAATTAACTAAAATGAAATTAATTAATTAAGATGAGTA
1 ATTTATTCCAGCAACTTAATAAACTAAAATGAAATCAATTAACTAAGATGAGTA
* *
51871489 ATTTATTCCAGCAACTTAATAAACTAAGATGAACTCAATTAACTAAGATGAGTA
1 ATTTATTCCAGCAACTTAATAAACTAAAATGAAATCAATTAACTAAGATGAGTA
51871543 ATTTATTCCAGCAACTTAAT
1 ATTTATTCCAGCAACTTAAT
51871563 TAATTAAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 13 0.19
54 54 0.81
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (54 bp):
ATTTATTCCAGCAACTTAATAAACTAAAATGAAATCAATTAACTAAGATGAGTA
Found at i:51875556 original size:50 final size:50
Alignment explanation
Indices: 51875486--51875585 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
51875476 CAACCTTTGT
*
51875486 ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAATAGCC
1 ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
* * *
51875536 ATGTAACCAATTCCATCTTGAATAGTTGCATTAATCACTTTGTAACAGCC
1 ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
51875586 TTTGTACATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (50 bp):
ATGTAACCAATCCCAACTTGAATAGCTGCATTAATCACTTTGTAACAGCC
Found at i:51875847 original size:54 final size:54
Alignment explanation
Indices: 51875769--51875895 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 54
51875759 TAAGATAAAC
* * *
51875769 ATTTATTCCAACAA-TTAATTAACTAAAATGAACTTAATTAACTAAGATGGGTA
1 ATTTATTCCAACAACTTAATAAACTAAAATGAACTCAATTAACTAAGATGAGTA
* *
51875822 ATTTATTCCAGCAACTTAATAAACTAAGATGAACTCAATTAACTAAGATGAGTA
1 ATTTATTCCAACAACTTAATAAACTAAAATGAACTCAATTAACTAAGATGAGTA
51875876 ATTTATTCCAACAACTTAAT
1 ATTTATTCCAACAACTTAAT
51875896 TAATTAAACT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 13 0.19
54 54 0.81
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (54 bp):
ATTTATTCCAACAACTTAATAAACTAAAATGAACTCAATTAACTAAGATGAGTA
Found at i:51887818 original size:46 final size:46
Alignment explanation
Indices: 51887765--51887890 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
51887755 TTGGGCATCT
* *
51887765 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
*
51887811 GAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* *
51887857 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51887891 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:51890550 original size:27 final size:27
Alignment explanation
Indices: 51890520--51890833 Score: 421
Period size: 27 Copynumber: 11.6 Consensus size: 27
51890510 TTAGCTTACC
*
51890520 AAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51890547 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51890574 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
51890601 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51890628 AAATTACCAAAATACCCCTGTTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
51890655 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51890682 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51890709 AAATTACCAAAATACCCGTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
51890736 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
51890763 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51890790 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
51890817 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
51890834 TCGACCTGTA
Statistics
Matches: 247, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 247 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:51890844 original size:81 final size:81
Alignment explanation
Indices: 51890520--51890894 Score: 414
Period size: 81 Copynumber: 4.6 Consensus size: 81
51890510 TTAGCTTACC
* * * * * *
51890520 AAATTACCAAAATATCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
51890585 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* * ** * * *
51890601 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGTTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
** * *
51890666 ATACCTTTTGTTTATA
66 ATACCCCTGGTTTGTA
* *
51890682 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCGTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
51890747 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* * **
51890763 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCC-TGATTTGTGAAATTACTGA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTTGATTTGTAAAATTACCAA
***
51890827 AATA-CCCTCGACCTGTA
65 AATACCCCT-GGTTTGTA
*** * * *
51890844 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTTGATTT
51890895 ACAGAATTAC
Statistics
Matches: 252, Mismatches: 38, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
80 12 0.05
81 237 0.94
82 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:51890886 original size:27 final size:27
Alignment explanation
Indices: 51890520--51890888 Score: 349
Period size: 27 Copynumber: 13.7 Consensus size: 27
51890510 TTAGCTTACC
51890520 AAATTACCAAAATATCCCT-GGTTTGTA
1 AAATTACCAAAATA-CCCTCGGTTTGTA
* * *
51890547 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
51890574 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
51890601 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
51890628 AAATTACCAAAATACCC-CTGTTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * ** *
51890655 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
51890682 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
51890709 AAATTACCAAAATACCCGT-GGTTTGTA
1 AAATTACCAAAATACCC-TCGGTTTGTA
51890736 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
51890763 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
51890790 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGGTTTGTA
** ***
51890817 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** **
51890844 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
51890871 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
51890889 TGATTTACAG
Statistics
Matches: 286, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.03
27 275 0.96
28 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:51891020 original size:27 final size:27
Alignment explanation
Indices: 51890990--51891959 Score: 1195
Period size: 27 Copynumber: 35.6 Consensus size: 27
51890980 CGATTTACAA
* * *
51890990 AATTACCGAAATACTCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891017 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891044 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
51891071 AATTACCGGAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
51891098 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
51891125 AATTATCGCAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891152 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51891179 AAATACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
51891206 AATTATCGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
** * ** *
51891233 AATTGTCGGAATACCCCTGTACTGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891260 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891287 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51891314 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891341 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51891368 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891395 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891422 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891449 AATTACCGAAATACCCTTGT-GAGGTAG
1 AATTACCGAAATACCCCTGTAG-GGTAG
* * *
51891476 AATTACTGAAATACCCTTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
51891503 AAATACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891530 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
51891557 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891584 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
51891611 AACAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
1 -A-A---T----TACCG-AAATACCCCTGTAGGGTAG
51891648 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
51891675 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891702 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51891729 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ***
51891756 AATTACTGAAATACCCCTGTAAAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891783 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51891810 AATTACCGAAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51891837 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
51891864 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
51891891 AATTATCTATATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
51891918 AATTACCAAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
**
51891945 AATTATTGAAATACC
1 AATTACCGAAATACC
51891960 ATTTTGCCCC
Statistics
Matches: 816, Mismatches: 115, Indels: 24
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.00
27 786 0.96
28 4 0.00
29 1 0.00
32 2 0.00
35 1 0.00
36 3 0.00
37 18 0.02
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:51891627 original size:37 final size:37
Alignment explanation
Indices: 51891577--51891649 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
51891567 ATACCCCTGT
* *
51891577 AGGGTAGAATTACCGAAATACCCATGTAGGGTAGAAC
1 AGGGTAAAATTACCAAAATACCCATGTAGGGTAGAAC
*
51891614 AGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAA
1 AGGGTAAAATTACCAAAATACCCATGTAGGGTAGAA
51891650 TTACCGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (37 bp):
AGGGTAAAATTACCAAAATACCCATGTAGGGTAGAAC
Found at i:51891627 original size:64 final size:64
Alignment explanation
Indices: 51891550--51891676 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
51891540 ATACCCCTGT
* *
51891550 AGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAAC
1 AGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAAC
*
51891614 AGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
1 AGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAA
51891677 TTACTGAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (64 bp):
AGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCATGTAGGGTAGAAC
Found at i:51892340 original size:22 final size:22
Alignment explanation
Indices: 51892328--51892387 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
51892318 CCAACCTAAA
*
51892328 TATGGCTTCATGCCATCTTGAC
1 TATGGCTTCATGCCAACTTGAC
*
51892350 TATGGCTTCATGCCATCTTGAC
1 TATGGCTTCATGCCAACTTGAC
*
51892372 TATGGCTTCGTGCCAA
1 TATGGCTTCATGCCAA
51892388 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (22 bp):
TATGGCTTCATGCCAACTTGAC
Found at i:51892576 original size:27 final size:27
Alignment explanation
Indices: 51892546--51892610 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
51892536 ATTCTGTTAA
*
51892546 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCTG-TTCTG
* *
51892573 GTGGCTATGCTACAAATATCTGTTCTG
1 GTGGCTTTGCCACAAATATCTGTTCTG
*
51892600 GAGGCTTTGCC
1 GTGGCTTTGCC
51892611 TCAACTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTGTTCTG
Found at i:51892772 original size:6 final size:6
Alignment explanation
Indices: 51892753--51892818 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
51892743 TTGTATTCAC
* * * *
51892753 ATTCTG CTTTTG ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
51892802 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
51892819 AGTTCTGGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
5 1 0.02
6 44 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:51907552 original size:40 final size:40
Alignment explanation
Indices: 51907473--51907649 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
51907463 CGGATGATAA
* * * * *
51907473 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
51907513 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
51907553 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
51907593 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
51907633 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
51907650 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:51915457 original size:40 final size:39
Alignment explanation
Indices: 51915391--51915514 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 39
51915381 TGGACATATG
** * *
51915391 CGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCC
1 CGAAGGCATTTATGCGAGTTGTTATATCC-GGCTAAGTCC
* * *
51915431 CGAAGGCATTTATGCTAG-TGATTATATCCAAGCTAAGACC
1 CGAAGGCATTTATGCGAGTTG-TTATATCC-GGCTAAGTCC
* *
51915471 CGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAATCC
1 CGAAGGCATTTATGCGAGTTGTTATATCCGGCTAAGTCC
51915510 CGAAG
1 CGAAG
51915515 ATACTTGGGT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
39 14 0.20
40 53 0.77
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
CGAAGGCATTTATGCGAGTTGTTATATCCGGCTAAGTCC
Found at i:51932056 original size:43 final size:44
Alignment explanation
Indices: 51931909--51932066 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 44
51931899 TATGTGTTAT
* * * * *
51931909 CGTGTAAGACTACGTCTGGGACATTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGA-TATTTGACTTA
* * *
51931953 CGTGTAAGACCA-TTCTGGGACGTTGGAATCG-TATTTGACTT-
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGACTTA
51931994 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGACTTA
* *
51932037 CATGTAAGACCACGACTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
51932067 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 12 0.13
42 23 0.24
43 48 0.51
44 12 0.13
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGACTTA
Found at i:51932059 original size:85 final size:85
Alignment explanation
Indices: 51931908--51932063 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 85
51931898 ATATGTGTTA
* * * ** *
51931908 TCGTGTAAGACTACGTCTGGGACATTGGCATCGACTTATGATTTACGTGTAAGACCATTCTGGGA
1 TCGTGTAAGACTACGTCTAGGACAGTGGCATCGACTTATGATTTACATGTAAGACCAGACTAGGA
51931973 CGTTGGAATCGTATTTGACT
66 CGTTGGAATCGTATTTGACT
* *
51931993 TCGTGTAAGAC-CCTGTCTAGGACAGTGGCATCGA-TATTTGA-TTACATGTAAGACCACGACTA
1 TCGTGTAAGACTAC-GTCTAGGACAGTGGCATCGACT-TATGATTTACATGTAAGACCA-GACTA
51932055 GGACGTTGG
63 GGACGTTGG
51932064 CATTGTACGA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 16 0.27
85 44 0.73
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACTACGTCTAGGACAGTGGCATCGACTTATGATTTACATGTAAGACCAGACTAGGA
CGTTGGAATCGTATTTGACT
Found at i:51935159 original size:40 final size:42
Alignment explanation
Indices: 51935111--51935226 Score: 164
Period size: 40 Copynumber: 2.8 Consensus size: 42
51935101 GTTCTCGATA
* *
51935111 TAATATATATATCCAGGTTAAATCCCACAGGCTTCGTGCTAG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAG
* * *
51935153 T-A-ATATATATCCGGGTTAAATACCGCAAGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAG
*
51935193 TAATATATATATCCGGGTTAAGTCCCGCAGGCTT
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTT
51935227 AGTGTTGGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 34 0.53
41 2 0.03
42 28 0.44
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAG
Found at i:51935236 original size:42 final size:42
Alignment explanation
Indices: 51935111--51935242 Score: 169
Period size: 42 Copynumber: 3.2 Consensus size: 42
51935101 GTTCTCGATA
* * *
51935111 TAATATATATATCCAGGTTAAATCCCACAGGCTTCGTGCTAG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
51935153 T-A-ATATATATCCGGGTTAAATACCGCAAGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* * *
51935193 TAATATATATATCCGGGTTAAGTCCCGCAGGCTTAGTGTTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
51935235 TACTATAT
1 TAATATAT
51935243 CCGGACTTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 34 0.44
41 2 0.03
42 41 0.53
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (42 bp):
TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:51944566 original size:32 final size:32
Alignment explanation
Indices: 51944525--51944590 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
51944515 CGGGTCTCTA
*
51944525 TCCGAAACAATAGATATAGGTACACCATGTAG
1 TCCGAAACAATAGATATAGGCACACCATGTAG
51944557 TCCGAAACAATAGATATAGGCACACCATGTAG
1 TCCGAAACAATAGATATAGGCACACCATGTAG
51944589 TC
1 TC
51944591 TCACAATCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (32 bp):
TCCGAAACAATAGATATAGGCACACCATGTAG
Found at i:51944667 original size:32 final size:32
Alignment explanation
Indices: 51944622--51944682 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
51944612 ATTCAGTTAG
*
51944622 CTTACCAAGTGAATAGTCTGAACATATCGAAA
1 CTTACCAAATGAATAGTCTGAACATATCGAAA
51944654 CTTACCAAATGAATAGTCTGAACATATCG
1 CTTACCAAATGAATAGTCTGAACATATCG
51944683 GAACAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (32 bp):
CTTACCAAATGAATAGTCTGAACATATCGAAA
Found at i:51947467 original size:24 final size:24
Alignment explanation
Indices: 51947435--51947505 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
51947425 CTGTCAAGAG
51947435 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
51947459 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* **
51947483 AGGATTTAAGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
51947506 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:51948962 original size:27 final size:26
Alignment explanation
Indices: 51948922--51949005 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
51948912 AGGAACCTTC
*
51948922 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
51948949 CTGGTGGCTCTGCCACGATTATCTGTAA
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
51948977 CTGGT-GATCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
51949002 CTGG
1 CTGG
51949006 CATCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 4 0.08
26 8 0.16
27 31 0.63
28 6 0.12
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:51955352 original size:24 final size:24
Alignment explanation
Indices: 51955283--51955341 Score: 111
Period size: 23 Copynumber: 2.5 Consensus size: 24
51955273 CTGTCAGGAG
51955283 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
51955307 A-GATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
51955330 AGGATTTAGGAG
1 AGGATTTAGGAG
51955342 CAAATAAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.68
24 11 0.32
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:51956803 original size:27 final size:27
Alignment explanation
Indices: 51956761--51956871 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
51956751 AGGAAGCGTC
*
51956761 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
51956788 CTGGTGGCTCTACCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
51956815 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
51956843 CTGGT-GATCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
51956868 CTGG
1 CTGG
51956872 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
25 5 0.07
26 11 0.15
27 47 0.65
28 9 0.12
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:51956859 original size:54 final size:53
Alignment explanation
Indices: 51956761--51956871 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
51956751 AGGAAGCGTC
* *
51956761 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACAT-TATCTGTT
* * **
51956815 CTGGTGGCTCTGCCACGATTATCTGTATCTGGT-GATCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGATCTACCACATTATCTGTT
51956868 CTGG
1 CTGG
51956872 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 11 0.22
54 32 0.64
55 7 0.14
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACATTATCTGTT
Found at i:51965452 original size:66 final size:66
Alignment explanation
Indices: 51965322--51965466 Score: 174
Period size: 66 Copynumber: 2.2 Consensus size: 66
51965312 TAGTACCACT
* * * * *
51965322 CATGTGACCTAGC--CATTTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACA
1 CATGTGACCTAGCTACATTTTATCCCATAGCTCTCTTGTCTACATGGTATACATCACCTGG-ACA
51965385 CA
65 CA
* *
51965387 CATGCGACCTAGCTACA-TTTATCCCATAGCTCTCTTGTCTACATGGTATACATC-CC-GTATCA
1 CATGTGACCTAGCTACATTTTATCCCATAGCTCTCTTGTCTACATGGTATACATCACCTGGA-CA
51965449 CA
65 CA
51965451 CATGTGACCTAGCTAC
1 CATGTGACCTAGCTAC
51965467 CACATAGTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 20 0.29
65 14 0.20
66 32 0.46
67 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (66 bp):
CATGTGACCTAGCTACATTTTATCCCATAGCTCTCTTGTCTACATGGTATACATCACCTGGACAC
A
Found at i:51967890 original size:40 final size:40
Alignment explanation
Indices: 51967835--51968058 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
51967825 TATTCGGATG
51967835 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** *
51967875 ATATCCGGGCTAAGTCTTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
51967918 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
51967958 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
51967998 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
51968038 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
51968059 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 14 0.09
40 110 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:51967980 original size:83 final size:80
Alignment explanation
Indices: 51967839--51968058 Score: 275
Period size: 83 Copynumber: 2.7 Consensus size: 80
51967829 CGGATGATAT
* ** **
51967839 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCTTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
51967904 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
51967922 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
51967987 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
51968002 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT-CTGGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
51968059 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 17 0.14
80 43 0.35
81 2 0.02
83 62 0.50
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:51970720 original size:16 final size:16
Alignment explanation
Indices: 51970699--51970730 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51970689 GGATACTCAC
51970699 ATACAACAGGTACTGA
1 ATACAACAGGTACTGA
51970715 ATACAACAGGTACTGA
1 ATACAACAGGTACTGA
51970731 TTCAATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
ATACAACAGGTACTGA
Found at i:51977620 original size:43 final size:43
Alignment explanation
Indices: 51977536--51977620 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
51977526 AAATCTTATA
* * **
51977536 ATGCCAATGTCCCAGACGTGGTCTTCCATGTAACCGTATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
* *
51977579 ATGCCACTGTCCCAGACAG-GGTCTTACTTGTAAACACATATC
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAAACACATATC
51977621 AAAATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:51987831 original size:25 final size:25
Alignment explanation
Indices: 51987778--51987869 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 25
51987768 TCATTAGGGA
* ** *
51987778 TTACCGATTCTCAGTTCGTGAGAGC
1 TTACCAATTCTCAACTCATGAGAGC
*
51987803 TTACCAATTCTCAACTCAT-ATGAGT
1 TTACCAATTCTCAACTCATGA-GAGC
*
51987828 TTACCGATT-TACAACTCATGAGAGC
1 TTACCAATTCT-CAACTCATGAGAGC
* *
51987853 ATACCAATTCACAACTC
1 TTACCAATTCTCAACTC
51987870 GTGTAAGCAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
24 2 0.04
25 50 0.94
26 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (25 bp):
TTACCAATTCTCAACTCATGAGAGC
Found at i:51990677 original size:24 final size:25
Alignment explanation
Indices: 51990641--51990690 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
51990631 AATTCAAGTG
51990641 TGTGAAAAATAATGACCCAATGCTC
1 TGTGAAAAATAATGACCCAATGCTC
51990666 TGTG-AAAATAATGACCCAATGCTC
1 TGTGAAAAATAATGACCCAATGCTC
51990690 T
1 T
51990691 CTTTATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (25 bp):
TGTGAAAAATAATGACCCAATGCTC
Found at i:51992845 original size:40 final size:40
Alignment explanation
Indices: 51992790--51992892 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
51992780 GATTCGGATA
51992790 TATATATGGCACTTAGTGTGCGATTC-GAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGGA-ATAGCTTCGGC
* * * *
51992830 TATATGTGGCCCTTAGTGTGCAATTCGGAATAGCTTGGGC
1 TATATATGGCACTTAGTGTGCGATTCGGAATAGCTTCGGC
51992870 TATATATGGCACTTAGTGTGCGA
1 TATATATGGCACTTAGTGTGCGA
51992893 GGCCATGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGGAATAGCTTCGGC
Found at i:51992955 original size:41 final size:41
Alignment explanation
Indices: 51992858--51992957 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 41
51992848 TGCAATTCGG
* * * * *
51992858 AATAGCTTGGGCTATATATGGCACTTAGTGTGCGAGGCCAT
1 AATAGCTTAGGCTATGTAAGGCACTTAGTGTGCAAGACCAT
* * * * **
51992899 GATAACTTCGACTATGTAAGGCACTTAGTGTGCAAGATTAT
1 AATAGCTTAGGCTATGTAAGGCACTTAGTGTGCAAGACCAT
51992940 AATAGCTTAGGCTATGTA
1 AATAGCTTAGGCTATGTA
51992958 TTAGCACTTA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (41 bp):
AATAGCTTAGGCTATGTAAGGCACTTAGTGTGCAAGACCAT
Found at i:51997605 original size:6 final size:6
Alignment explanation
Indices: 51997587--51997668 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
51997577 AAGAAACATT
*
51997587 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
51997636 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
51997669 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:51997608 original size:18 final size:18
Alignment explanation
Indices: 51997587--51997668 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
51997577 AAGAAACATT
51997587 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
51997605 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
51997622 GTGACAGAATCAGAATCAGT
1 AT--CAGAATCAGAATCAGA
*
51997642 ATCAGGTAA-CAGAATCAAA
1 ATCA-G-AATCAGAATCAGA
51997661 ATCAGAAT
1 ATCAGAAT
51997669 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 3 0.06
18 18 0.34
19 29 0.55
20 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:51997632 original size:25 final size:25
Alignment explanation
Indices: 51997601--51997668 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
51997591 GAACTAGAAT
*
51997601 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
51997626 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
51997651 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
51997669 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:52000425 original size:47 final size:47
Alignment explanation
Indices: 52000368--52000671 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
52000358 ATTGATGTAC
* * *
52000368 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
52000415 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
52000464 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
52000511 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
52000558 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
52000605 AAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
52000652 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
52000672 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 191 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:52003010 original size:27 final size:27
Alignment explanation
Indices: 52002980--52003364 Score: 475
Period size: 27 Copynumber: 14.3 Consensus size: 27
52002970 TGGGAAAAAT
* * * *
52002980 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52003007 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52003034 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52003061 AGTAATTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52003087 TAGTAATTCTACCCTACAGGGGTATTTT
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
52003115 AGTATTTCTACCCTACAAGGGTATATA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52003142 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
52003169 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
52003196 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
52003223 GGTAATTCTATTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52003250 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52003277 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52003304 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
52003331 AATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52003358 GGTAATT
1 GGTAATT
52003365 TTATCCTGTT
Statistics
Matches: 314, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.01
27 309 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52003040 original size:54 final size:54
Alignment explanation
Indices: 52002980--52003617 Score: 810
Period size: 54 Copynumber: 11.6 Consensus size: 54
52002970 TGGGAAAAAT
* * * *
52002980 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
52003034 AGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** * * * *
52003087 TAGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATATA
1 -GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** *
52003142 GATAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * **
52003196 AATAATTCTACCCTATAGGGGTATTTCGGTAATTCTATTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
52003250 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** *
52003304 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
52003358 GGTAATTTTATCCTGTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTC
1 GGT-A----A-----TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
52003422 GGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
52003476 GGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
52003530 GATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
52003584 GGTAATTCTACCCTACAGGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATT
52003618 TTGTAAAGCG
Statistics
Matches: 519, Mismatches: 53, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.01
54 463 0.89
55 2 0.00
59 2 0.00
63 1 0.00
64 48 0.09
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:52003124 original size:81 final size:81
Alignment explanation
Indices: 52002981--52003609 Score: 712
Period size: 81 Copynumber: 7.6 Consensus size: 81
52002971 GGGAAAAATG
* * * *
52002981 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACC
*
52003046 CTACAAGGGTATTTCA
66 CTACAGGGGTATTTCA
* *
52003062 GTAATTCTACCCTACAAGGGTA-TTCTAGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
1 GTAATTCTACCCTACAAGGGTATTTC-GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
* *
52003126 CCTACAAGGGTATAT-A
65 CCTACAGGGGTATTTCA
* * ** * * *
52003142 GATAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
* *
52003207 CCTATAGGGGTATTTCG
65 CCTACAGGGGTATTTCA
** * *
52003224 GTAATTCTATTCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTTCGATAATTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TAATTCTAC
* *
52003288 CCTATAGGGGTATTTCG
65 CCTACAGGGGTATTTCA
** * *
52003305 GTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGATATTTCGGTAATTTTATC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT---T-A--GTA--
*
52003370 CTGTTCTACCCTACAGGGGTATTTCA
58 --ATTCTACCCTACAGGGGTATTTCA
* ** *
52003396 GTAATTCTACCCTAC-AGAGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTAC
1 GTAATTCTACCCTACAAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
* *
52003460 CCTACAAGGGTATTTCG
65 CCTACAGGGGTATTTCA
* * *
52003477 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTTCGATAATTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TAATTCTAC
52003541 CCTACAGGGGTATTTC-
65 CCTACAGGGGTATTTCA
* *
52003557 GATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTT
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
52003610 CGGTAATTTT
Statistics
Matches: 470, Mismatches: 57, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
80 10 0.02
81 378 0.80
82 9 0.02
85 3 0.01
87 2 0.00
90 2 0.00
91 66 0.14
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACC
CTACAGGGGTATTTCA
Found at i:52003403 original size:27 final size:27
Alignment explanation
Indices: 52003373--52003617 Score: 409
Period size: 27 Copynumber: 9.1 Consensus size: 27
52003363 TTTTATCCTG
*
52003373 TTCTACCCTACAGGGGTATTTCAGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
52003400 TTCTACCCTACAGAGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
* *
52003427 TTCTACCCTATAGGGGTATTTCGGTAT
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
52003454 TTCTACCCTACAAGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
52003481 TTCTACCCTATAGGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
52003508 TTCTACCCTACAGGGGTATTTCGATAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
52003535 TTCTACCCTACAGGGGTATTTCGATAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
52003562 TTCTACCCTACAGGGGTATTCCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
52003589 TTCTACCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
52003616 TT
1 TT
52003618 TTGTAAAGCG
Statistics
Matches: 203, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 203 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
TTCTACCCTACAGGGGTATTTCGGTAA
Found at i:52003632 original size:27 final size:27
Alignment explanation
Indices: 52003602--52003758 Score: 92
Period size: 27 Copynumber: 5.8 Consensus size: 27
52003592 TACCCTACAG
52003602 GGGTATTTCGGTAATTTTGTA-AAG-CGA
1 GGGTATTTCGGTAA-TTT-TACAAGTCGA
*** *
52003629 GGGTAAAACGGTAATTCTGTA-AA-TCAA
1 GGGTATTTCGGTAATT-T-TACAAGTCGA
*
52003656 GGGTACGTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGGTAATTTTACAAGTCGA
**
52003683 GGGTATTTCAATAATTTTACAAGTCGA
1 GGGTATTTCGGTAATTTTACAAGTCGA
*** * *
52003710 GGGTATTTTAATAATTTCACAAATC-A
1 GGGTATTTCGGTAATTTTACAAGTCGA
* *
52003736 GGAATATTTTGGTAATTTTACAA
1 GG-GTATTTCGGTAATTTTACAA
52003759 ACTAGGGGTT
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.02
26 10 0.10
27 93 0.89
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAGTCGA
Found at i:52003759 original size:27 final size:27
Alignment explanation
Indices: 52003649--52003786 Score: 118
Period size: 27 Copynumber: 5.1 Consensus size: 27
52003639 GTAATTCTGT
* ** *
52003649 AAATCAAGGGTACGTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGATAATTTTAC
* **
52003676 AAGTCGAGGGTATTTCAATAATTTTAC
1 AAATCGAGGGTATTTTGATAATTTTAC
* * *
52003703 AAGTCGAGGGTATTTTAATAATTTCAC
1 AAATCGAGGGTATTTTGATAATTTTAC
* *
52003730 AAATC-AGGAATATTTTGGTAATTTTAC
1 AAATCGAGG-GTATTTTGATAATTTTAC
* *
52003757 AAA-CTAGGGGTTTTTTGATAATTTTAC
1 AAATCGA-GGGTATTTTGATAATTTTAC
52003784 AAA
1 AAA
52003787 CCAGGGGTGT
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.04
27 85 0.93
28 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGATAATTTTAC
Found at i:52006185 original size:47 final size:47
Alignment explanation
Indices: 52006114--52006661 Score: 916
Period size: 47 Copynumber: 11.6 Consensus size: 47
52006104 CCCTTCGGGA
* * * * * *
52006114 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52006161 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52006208 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52006255 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52006302 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52006349 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52006396 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52006445 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52006492 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52006539 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52006588 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52006635 CTTATCACATATATACAATTTCACATT
1 CTTATCACATATATACACTTTCACATT
52006662 TATTCAAATA
Statistics
Matches: 476, Mismatches: 21, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 386 0.81
49 90 0.19
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52006192 original size:25 final size:25
Alignment explanation
Indices: 52006164--52006242 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
52006154 ACTCGGCCCT
52006164 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
52006189 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
52006211 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
52006236 ATCACAT
1 ATCACAT
52006243 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:52006457 original size:143 final size:143
Alignment explanation
Indices: 52006114--52006661 Score: 969
Period size: 143 Copynumber: 3.9 Consensus size: 143
52006104 CCCTTCGGGA
* * * *
52006114 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
52006177 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
52006242 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
52006255 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
52006318 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
52006383 TCGGCCATTAGGC
131 TCGGCCATTAGGC
52006396 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
52006461 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
52006526 TCGGCCATTAGGC
131 TCGGCCATTAGGC
52006539 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
52006604 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAATTTCACATT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
52006662 TATTCAAATA
Statistics
Matches: 388, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
140 1 0.00
141 137 0.35
143 250 0.64
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:52010426 original size:27 final size:27
Alignment explanation
Indices: 52010395--52010602 Score: 290
Period size: 27 Copynumber: 7.7 Consensus size: 27
52010385 GGATATTACA
*
52010395 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
52010422 AGGGGTATTTTTGTAATTTTATAAACA
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
52010449 AAGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
52010476 AGGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
52010503 AAGGGTATTTTGGTAATTTTACGAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
52010530 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
** *
52010557 AACGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
52010584 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
52010603 GGTAAACTAA
Statistics
Matches: 156, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:52010609 original size:54 final size:54
Alignment explanation
Indices: 52010397--52010602 Score: 340
Period size: 54 Copynumber: 3.8 Consensus size: 54
52010387 ATATTACAAG
* * * *
52010397 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTTGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
52010451 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
52010505 GGGTATTTTGGTAATTTTACGAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
*
52010559 CGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
52010603 GGTAAACTAA
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 141 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:52026875 original size:40 final size:40
Alignment explanation
Indices: 52026838--52027062 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
52026828 GCTACTCGTT
* *
52026838 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
52026878 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
52026918 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
52026958 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
52026997 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
52027038 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52027063 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52027022 original size:119 final size:120
Alignment explanation
Indices: 52026840--52027062 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
52026830 TACTCGTTCA
*
52026840 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
52026905 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
52026960 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
52027022 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
52027063 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:52028257 original size:56 final size:56
Alignment explanation
Indices: 52028190--52028309 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52028180 TATTAGTTTA
52028190 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
52028246 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
52028302 TTGCCCAT
1 TTGCCCAT
52028310 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:52037912 original size:1 final size:1
Alignment explanation
Indices: 52037906--52037934 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
52037896 TTTAGATAAT
52037906 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
52037935 TATAATAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:52045082 original size:38 final size:37
Alignment explanation
Indices: 52045033--52045124 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 37
52045023 TAACCCGCAA
* *
52045033 CAAATTGCCTTCGGGACTTAACCCAGATTTAGTAACTG
1 CAAAATGCCTTCGGGACTTAACCCAGA-TTAGTAACTC
*
52045071 CAAAATGCCTTCGGGACTTAACCCGGATTAGTAACTC
1 CAAAATGCCTTCGGGACTTAACCCAGATTAGTAACTC
*
52045108 CACCAATGCCTTTCGGG
1 CA-AAATGCC-TTCGGG
52045125 CTGGTAACGG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
37 11 0.23
38 31 0.65
39 6 0.12
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (37 bp):
CAAAATGCCTTCGGGACTTAACCCAGATTAGTAACTC
Found at i:52046385 original size:55 final size:56
Alignment explanation
Indices: 52046315--52046430 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 56
52046305 CAATCTTATT
*
52046315 ATGTTATTGCCATGCTTCTTATTTTATTCTTCCATAACACCAAA-ATGTTTCATGAC
1 ATGTTATTGCCATGCTTC-TATTTTATTCTTCCATAACACAAAACATGTTTCATGAC
* ** *
52046371 -TGTT-TTGCCCATGCTTCTATTTTATTTTTCTGTTACACAAAACATGTTTCATGAC
1 ATGTTATTG-CCATGCTTCTATTTTATTCTTCCATAACACAAAACATGTTTCATGAC
52046426 ATGTT
1 ATGTT
52046431 GCCCCATCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
54 23 0.44
55 25 0.48
56 4 0.08
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (56 bp):
ATGTTATTGCCATGCTTCTATTTTATTCTTCCATAACACAAAACATGTTTCATGAC
Found at i:52046437 original size:55 final size:54
Alignment explanation
Indices: 52046324--52046434 Score: 136
Period size: 54 Copynumber: 2.0 Consensus size: 54
52046314 TATGTTATTG
*
52046324 CCATGCTTCTTATTTTATTCTTCCATAACACCAAAATGTTTCATGACTGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATAACACAAAAATGTTTCATGACTG-TTTGC
* ** *
52046379 CCATGCTTC-TATTTTATTTTTCTGTTACACAAAACATGTTTCATGACATG-TTGC
1 CCATGCTTCTTATTTTATTCTTCCATAACACAAAA-ATGTTTCATGAC-TGTTTGC
52046433 CC
1 CC
52046435 CATCATCCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
54 26 0.53
55 21 0.43
56 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (54 bp):
CCATGCTTCTTATTTTATTCTTCCATAACACAAAAATGTTTCATGACTGTTTGC
Found at i:52053274 original size:56 final size:57
Alignment explanation
Indices: 52053161--52053281 Score: 210
Period size: 56 Copynumber: 2.1 Consensus size: 57
52053151 TATTAGTTTA
52053161 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTTCATGACATGTT
*
52053218 TTGCCCATGCTTCTTATTTTATT-TTTCATTAACACAAACATG-TTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACAC-AACATGTTTTCATGACATGTT
52053274 TTGCCCAT
1 TTGCCCAT
52053282 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
56 33 0.53
57 29 0.47
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (57 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTTCATGACATGTT
Found at i:52058763 original size:47 final size:47
Alignment explanation
Indices: 52058691--52058941 Score: 390
Period size: 47 Copynumber: 5.5 Consensus size: 47
52058681 TGATGTGATA
52058691 TGATAA-GCCGAAT-GCCAA--TG-TGAATGTGAACATGTGTATGTG
1 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
52058733 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
1 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
52058780 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
1 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
** *
52058827 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATG
1 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
* * *
52058874 AGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATG
1 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTG
52058921 TGATAAGGCCGAATGG-CAATG
1 TGATAAGGCCGAATGGCCAATG
52058942 CAATGTGATG
Statistics
Matches: 197, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
42 6 0.03
43 7 0.04
44 5 0.03
46 8 0.04
47 171 0.87
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTG
Found at i:52061468 original size:38 final size:38
Alignment explanation
Indices: 52061404--52061478 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
52061394 AATCCGAGTT
*
52061404 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
52061442 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
52061479 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:52061850 original size:40 final size:40
Alignment explanation
Indices: 52061532--52061838 Score: 492
Period size: 40 Copynumber: 7.7 Consensus size: 40
52061522 AGGTCTCGAC
52061532 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
52061571 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
52061611 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
52061650 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
52061690 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
52061730 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
52061770 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
52061810 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
52061839 ATCATGCTGG
Statistics
Matches: 250, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 43 0.17
40 207 0.83
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:52065234 original size:47 final size:47
Alignment explanation
Indices: 52065182--52065479 Score: 404
Period size: 47 Copynumber: 6.3 Consensus size: 47
52065172 TGTACAAGTA
* * *
52065182 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-AGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
52065229 TATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
52065278 TGTATGTGTGATAAGG-CGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
52065324 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
52065371 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * * * *
52065418 CATATATGAGATAAGGCCGAATGGCCAATGTGACGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
52065465 TATAAATGTGATAAG
1 TATATATGTGATAAG
52065480 TCCTGAAGGG
Statistics
Matches: 231, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 46 0.20
47 141 0.61
48 3 0.01
49 40 0.17
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:52065352 original size:93 final size:94
Alignment explanation
Indices: 52065188--52065450 Score: 420
Period size: 93 Copynumber: 2.8 Consensus size: 94
52065178 AGTATATATA
* * * * *
52065188 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAAT
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AA-CATGTATATGTGTGATAAGGCCGAAT
52065253 GGCCAATGTGATGAATGTGAACATGTGTATG
64 GGCCAATGTGATGAATGTGAACATGTGTATG
*
52065284 TGTGATAAGG-CGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGG
52065348 CCAATGTGATGAATGTGAACATGTGTATG
66 CCAATGTGATGAATGTGAACATGTGTATG
* * *
52065377 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGG
52065442 CCAATGTGA
66 CCAATGTGA
52065451 CGGATGTGGA
Statistics
Matches: 156, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
93 63 0.40
94 61 0.39
95 23 0.15
96 9 0.06
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (94 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAACATGTGTATG
Found at i:52068566 original size:22 final size:22
Alignment explanation
Indices: 52068526--52068567 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52068516 TGGTACTCTG
*
52068526 TTAGCCTTTGTGCTGTATTCTA
1 TTAGCCTTTGTGCTATATTCTA
52068548 TTAGCCTTTGTGGC-ATATTC
1 TTAGCCTTTGT-GCTATATTC
52068568 AATATGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (22 bp):
TTAGCCTTTGTGCTATATTCTA
Found at i:52070159 original size:21 final size:21
Alignment explanation
Indices: 52070135--52070175 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52070125 AAAAATTTCC
*
52070135 CTTGACATAGGGGCACACGCT
1 CTTGACAAAGGGGCACACGCT
**
52070156 CTTGTGAAAGGGGCACACGC
1 CTTGACAAAGGGGCACACGC
52070176 CCGTGTGCTA
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:0.24, C:0.27, G:0.32, T:0.17
Consensus pattern (21 bp):
CTTGACAAAGGGGCACACGCT
Done.