Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 129 of 292
Found at i:38504084 original size:48 final size:48
Alignment explanation
Indices: 38504025--38504159 Score: 191
Period size: 48 Copynumber: 2.8 Consensus size: 48
38504015 CATTAGGGAA
* *
38504025 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTTAG-GTGCAAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCAC-TTAGAATGCAAGC
* *
38504073 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGAATGCGAGC
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTAGAATGCAAGC
* * *
38504121 TACATTGATTTGGCTTCAGGCCATGATATTGGCAATTAG
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTAG
38504160 GGTGTGAGAC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 3 0.04
48 75 0.96
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTAGAATGCAAGC
Found at i:38511498 original size:29 final size:29
Alignment explanation
Indices: 38511465--38511538 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38511455 CCTTCGAGCT
38511465 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38511494 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38511523 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38511539 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38511499 original size:58 final size:58
Alignment explanation
Indices: 38511406--38511538 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
38511396 ATACTCGATT
* * * * *
38511406 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
38511464 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
38511522 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
38511539 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:38519336 original size:29 final size:29
Alignment explanation
Indices: 38519303--38519376 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38519293 CCTTCGAGCT
38519303 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38519332 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38519361 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38519377 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38519337 original size:58 final size:58
Alignment explanation
Indices: 38519244--38519376 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
38519234 ATACTCGATT
* * * * *
38519244 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
38519302 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
38519360 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
38519377 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:38527214 original size:29 final size:29
Alignment explanation
Indices: 38527181--38527254 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38527171 CCTTCGAGCT
38527181 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38527210 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38527239 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38527255 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38527215 original size:58 final size:58
Alignment explanation
Indices: 38527122--38527254 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
38527112 ATACTCGATT
* * * * *
38527122 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
38527180 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
38527238 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
38527255 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:38529805 original size:24 final size:24
Alignment explanation
Indices: 38529778--38529865 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
38529768 GCTGCGTTTC
38529778 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCTATATAAT
* * *
38529802 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCTATATA-AT
* * * *
38529827 TTTGCACACATAGTG-TCGTATAAC
1 CTCGCACACATAGTGCT-ATATAAT
38529851 CTCGCACACATAGTG
1 CTCGCACACATAGTG
38529866 ATGAAATTTC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
24 33 0.66
25 17 0.34
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (24 bp):
CTCGCACACATAGTGCTATATAAT
Found at i:38532011 original size:29 final size:29
Alignment explanation
Indices: 38531976--38532219 Score: 250
Period size: 29 Copynumber: 8.5 Consensus size: 29
38531966 ATAGTGAATC
38531976 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
38532005 CGTACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
38532035 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
38532064 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
38532092 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
*
38532122 CGCACA---AGTGTTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
38532148 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
38532176 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
38532206 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38532220 CAATCTTGTC
Statistics
Matches: 180, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
26 13 0.07
27 11 0.06
28 40 0.22
29 60 0.33
30 54 0.30
31 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:38532071 original size:59 final size:59
Alignment explanation
Indices: 38531976--38532219 Score: 263
Period size: 59 Copynumber: 4.2 Consensus size: 59
38531966 ATAGTGAATC
* * *
38531976 CGCACACTTAGTGCTATATATTTTCAGCTCGTACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACTCGCACACTTAGTGCTATATAATTTTCAACT
*
38532035 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATATTTTCAACTCGCACACTTAGTGCTATATAATTTTC-AACT
* * * * * *
38532092 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACA---AGTGTTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATA-TATTTTCAACTCGCACACTTAGTGCTATATAATTTTCAACT
* * * * *
38532148 CGCACACTTAGTGCTATATA--ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATATTTTC-AACTCGCACACTTAGTGCTATATAATTTTCAACT
38532206 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38532220 CAATCTTGTC
Statistics
Matches: 155, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
53 1 0.01
54 10 0.06
55 10 0.06
56 22 0.14
57 29 0.19
58 34 0.22
59 49 0.32
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAACTCGCACACTTAGTGCTATATAATTTTCAACT
Found at i:38532156 original size:84 final size:85
Alignment explanation
Indices: 38531976--38532211 Score: 341
Period size: 84 Copynumber: 2.8 Consensus size: 85
38531966 ATAGTGAATC
* * * * * * * *
38531976 CGCACACTTAGTGCTATATATTTTC-AGCTCGTACACTTAGTGCTATATAATTTTCAGCTCGCAC
1 CGCACACTTAGTGCTATATA--ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCAC
38532040 ACTTAGTGCTATATATTTTCAGCT
64 A--TAGTGCTATATATTTTCAGCT
38532064 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA-
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACAT
*
38532128 AGTGTTATATATTTTCAGCT
66 AGTGCTATATATTTTCAGCT
38532148 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA
38532212 CTTAGTGCCA
Statistics
Matches: 138, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
84 83 0.60
86 2 0.01
87 33 0.24
88 20 0.14
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (85 bp):
CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACAT
AGTGCTATATATTTTCAGCT
Found at i:38532212 original size:30 final size:30
Alignment explanation
Indices: 38531976--38532219 Score: 256
Period size: 30 Copynumber: 8.5 Consensus size: 30
38531966 ATAGTGAATC
* *
38531976 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTAAACT
* * *
38532005 CGTACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTAAACT
* *
38532035 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTAAACT
*
38532064 CGCACACTTAGTGCTATATAA--TCAAACT
1 CGCACACTTAGTGCTATATAATTTTAAACT
* * *
38532092 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTAAACT
* * *
38532122 CGCACA---AGTGTTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTAAACT
*
38532148 CGCACACTTAGTGCTATATAA--TCAAACT
1 CGCACACTTAGTGCTATATAATTTTAAACT
* * *
38532176 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTAAACT
38532206 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38532220 CAATCTTGTC
Statistics
Matches: 182, Mismatches: 23, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
26 13 0.07
27 7 0.04
28 46 0.25
29 56 0.31
30 60 0.33
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTAAACT
Found at i:38533792 original size:37 final size:37
Alignment explanation
Indices: 38533742--38533819 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38533732 GTGGTCCCGA
* *
38533742 AACCACTTCCCGACTAGGGTCAATTTGGGGCTGTCAC
1 AACCACTTCCCGACTAGGGTCAAATTAGGGCTGTCAC
38533779 AACCACATT-CCGACTAGGGTCAAATTAGGGCTGTCAC
1 AACCAC-TTCCCGACTAGGGTCAAATTAGGGCTGTCAC
38533816 AACC
1 AACC
38533820 TTCCCCCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (37 bp):
AACCACTTCCCGACTAGGGTCAAATTAGGGCTGTCAC
Found at i:38540991 original size:46 final size:45
Alignment explanation
Indices: 38540939--38541113 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
38540929 TGGTTGAGCA
38540939 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
38540985 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
38541030 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * *
38541078 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
38541114 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:38541095 original size:93 final size:93
Alignment explanation
Indices: 38540936--38541106 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38540926 GGATGGTTGA
* ** *
38540936 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
38541001 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
38541029 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
38541094 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38541107 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38548525 original size:46 final size:46
Alignment explanation
Indices: 38548475--38548598 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 46
38548465 GTTGAGCATC
* *
38548475 CGAACTCGTTGACTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGACTTGAGTCCGAGTTCACTTACGGATGCGAACGCT
* * *
38548521 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCT
1 CGAACTCGTTGACTTGAGTCCGAGTTCACTTACGGATGCGAACGCT
* * * * *
38548567 CGAGCTCATTTATTTGAGTCTGAGTTCACTTA
1 CGAACTCGTTGACTTGAGTCCGAGTTCACTTA
38548599 GGGGCGGGTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (46 bp):
CGAACTCGTTGACTTGAGTCCGAGTTCACTTACGGATGCGAACGCT
Found at i:38555074 original size:22 final size:22
Alignment explanation
Indices: 38555049--38555093 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38555039 TGCTGAGATA
*
38555049 TCTACAGCATTGAGCTGTCCTG
1 TCTACAGCATTGAGCCGTCCTG
* *
38555071 TCTACGGCGTTGAGCCGTCCTG
1 TCTACAGCATTGAGCCGTCCTG
38555093 T
1 T
38555094 TGACTTAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.29, G:0.27, T:0.31
Consensus pattern (22 bp):
TCTACAGCATTGAGCCGTCCTG
Found at i:38558520 original size:22 final size:22
Alignment explanation
Indices: 38558493--38558537 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38558483 TGTTGCGATA
38558493 TCTACGGCATTGAGCTGTCCTG
1 TCTACGGCATTGAGCTGTCCTG
38558515 TCTACGGCATTGAGCTGTCCTG
1 TCTACGGCATTGAGCTGTCCTG
38558537 T
1 T
38558538 TGACTTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (22 bp):
TCTACGGCATTGAGCTGTCCTG
Found at i:38560167 original size:93 final size:93
Alignment explanation
Indices: 38560059--38560232 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
38560049 CCGCCCATAA
* *
38560059 ACGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTC
38560124 AACGAGCTCGGATGCCTAGTTACATCTC
66 AACGAGCTCGGATGCCTAGTTACATCTC
* *
38560152 ACGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTC
*
38560217 AACGAGTTCGGATGCC
66 AACGAGCTCGGATGCC
38560233 CAAATATCTT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
ACGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTC
AACGAGCTCGGATGCCTAGTTACATCTC
Found at i:38560228 original size:46 final size:46
Alignment explanation
Indices: 38560061--38560228 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
38560051 GCCCATAAAC
* *
38560061 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGT
* *
38560107 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACATCCATAAGT
* *
38560154 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGT
*
38560200 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
38560229 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGT
Found at i:38565913 original size:40 final size:40
Alignment explanation
Indices: 38565869--38566092 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
38565859 GCTACTCGTT
* * *
38565869 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* *
38565909 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCACA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
38565949 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
38565989 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
38566029 C-AATGCCTTCGGATCTTAGTCCGGATTTAGT-ACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
38566068 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
38566093 CATCATTCGA
Statistics
Matches: 169, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 54 0.32
40 111 0.66
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:38566045 original size:39 final size:40
Alignment explanation
Indices: 38565897--38566092 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
38565887 AGCCCGGTTA
*
38565897 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
*
38565937 TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
38565977 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
38566017 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
38566056 TAGT-ACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
38566093 CATCATTCGA
Statistics
Matches: 146, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
38 2 0.01
39 54 0.37
40 89 0.61
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:38574083 original size:40 final size:40
Alignment explanation
Indices: 38574039--38574261 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
38574029 GCTACTCGTT
* * *
38574039 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
38574079 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
38574119 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
38574159 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
38574199 C-AATGCCTTCGGATCTTAGTCC-GATTTAGT-ACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
38574237 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
38574262 CATCATTCGA
Statistics
Matches: 169, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
37 2 0.01
38 26 0.15
39 31 0.18
40 108 0.64
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:38574215 original size:39 final size:40
Alignment explanation
Indices: 38574067--38574261 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
38574057 AGCCCGGTTA
*
38574067 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
38574107 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
38574147 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
38574187 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCC-GATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
38574225 TAGT-ACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
38574262 CATCATTCGA
Statistics
Matches: 146, Mismatches: 3, Indels: 13
0.90 0.02 0.08
Matches are distributed among these distances:
37 2 0.01
38 26 0.18
39 31 0.21
40 86 0.59
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:38577796 original size:18 final size:18
Alignment explanation
Indices: 38577774--38577815 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
38577764 GTGAACCAGA
*
38577774 AAAAGAAATTGAA-AAAG
1 AAAAGAAACTGAAGAAAG
*
38577791 AGAAAGAGACTGAAGAAAG
1 A-AAAGAAACTGAAGAAAG
38577810 AAAAGA
1 AAAAGA
38577816 GAGTGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (18 bp):
AAAAGAAACTGAAGAAAG
Found at i:38577816 original size:18 final size:18
Alignment explanation
Indices: 38577783--38577817 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38577773 AAAAAGAAAT
38577783 TGAAAAAGAGAAAGAGAC
1 TGAAAAAGAGAAAGAGAC
38577801 TGAAGAAAGA-AAAGAGA
1 TGAA-AAAGAGAAAGAGA
38577818 GTGTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.63, C:0.03, G:0.29, T:0.06
Consensus pattern (18 bp):
TGAAAAAGAGAAAGAGAC
Found at i:38579554 original size:52 final size:51
Alignment explanation
Indices: 38579457--38579554 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 51
38579447 TTTAGTTACT
* * *
38579457 TTAGTTAAAGTTTGCATCATAAATTATGACATGCATTATGTAACTCCCATG
1 TTAGTTAAAGTTTGCATCATAAATTAAGACATGCAATAAGTAACTCCCATG
38579508 TTAGTTAAAGTTTGCATCATTAAATTAAGTA-ATGCAATAAGTAACTC
1 TTAGTTAAAGTTTGCATCA-TAAATTAAG-ACATGCAATAAGTAACTC
38579555 ATTTGTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 19 0.45
52 22 0.52
53 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (51 bp):
TTAGTTAAAGTTTGCATCATAAATTAAGACATGCAATAAGTAACTCCCATG
Found at i:38581685 original size:13 final size:15
Alignment explanation
Indices: 38581661--38581692 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
38581651 TATCTTATTT
38581661 TATTACTAATTAA-A
1 TATTACTAATTAACA
38581675 TATTA-TAATTAACA
1 TATTACTAATTAACA
38581689 TATT
1 TATT
38581693 TCCACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTACTAATTAACA
Found at i:38584680 original size:8 final size:8
Alignment explanation
Indices: 38584667--38584694 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
38584657 TACATTTCTA
38584667 TTTTTTAT
1 TTTTTTAT
38584675 TTTTTTAT
1 TTTTTTAT
38584683 TTTTTTAT
1 TTTTTTAT
38584691 TTTT
1 TTTT
38584695 CTAGTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:38584702 original size:16 final size:15
Alignment explanation
Indices: 38584661--38584706 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
38584651 CTATTTTACA
38584661 TTTCTATTTTTTATT
1 TTTCTATTTTTTATT
*
38584676 TTTTTATTTTTTTATT
1 TTTCTA-TTTTTTATT
*
38584692 TTTCTAGTTTTTATT
1 TTTCTATTTTTTATT
38584707 GTACTTGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTCTATTTTTTATT
Found at i:38587042 original size:8 final size:8
Alignment explanation
Indices: 38587029--38587053 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38587019 AGGGTTCTTT
38587029 GTTTTCGG
1 GTTTTCGG
38587037 GTTTTCGG
1 GTTTTCGG
38587045 GTTTTCGG
1 GTTTTCGG
38587053 G
1 G
38587054 ATTTAGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.40, T:0.48
Consensus pattern (8 bp):
GTTTTCGG
Found at i:38587621 original size:21 final size:23
Alignment explanation
Indices: 38587583--38587625 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
38587573 ATACGTTAAA
*
38587583 TAAAAAATACTTTGATCATTTTT
1 TAAAAAATAATTTGATCATTTTT
38587606 TAAAAAA-AATTT-ATCATTTT
1 TAAAAAATAATTTGATCATTTT
38587626 ATACTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAAAATAATTTGATCATTTTT
Found at i:38591346 original size:16 final size:16
Alignment explanation
Indices: 38591322--38591373 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
38591312 TGATTCACTA
38591322 TAATAGAATAGAATTG
1 TAATAGAATAGAATTG
* *
38591338 TAATTGAATAGAACTG
1 TAATAGAATAGAATTG
* *
38591354 TAATAAAATAGAGTTG
1 TAATAGAATAGAATTG
38591370 TAAT
1 TAAT
38591374 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (16 bp):
TAATAGAATAGAATTG
Found at i:38591444 original size:44 final size:46
Alignment explanation
Indices: 38591359--38591449 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 46
38591349 AACTGTAATA
*
38591359 AAATAGAGTTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
1 AAATAGAGCTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
*** * *
38591405 AAATAGAGCTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGTATG
1 AAATAGAGCTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
38591449 A
1 A
38591450 TGTTGTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 22 0.56
45 3 0.08
46 14 0.36
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (46 bp):
AAATAGAGCTGTAATCAGTAATTCAACTGTTTAGTTGAATGGAATG
Found at i:38591613 original size:58 final size:56
Alignment explanation
Indices: 38591550--38591675 Score: 152
Period size: 58 Copynumber: 2.2 Consensus size: 56
38591540 TTTTAATAAG
*
38591550 ATTATTATTGAAA-ATAATTTAAT-AAAAATAATAAA-TAATTTAACCATATTTTAACATA
1 ATTATTATTGAAATATAATTTAATAAAAAAT-ATAAATTAA--TAA-CAT-TCTTAACATA
*
38591608 ATTATTATT-AAATATAATTTAATAAAAAATATAAATTAATAACATTCTTAATATA
1 ATTATTATTGAAATATAATTTAATAAAAAATATAAATTAATAACATTCTTAACATA
38591663 ATTATTATATGAA
1 ATTATTAT-TGAA
38591676 TTAAAAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
55 16 0.26
56 4 0.07
57 8 0.13
58 24 0.39
59 9 0.15
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (56 bp):
ATTATTATTGAAATATAATTTAATAAAAAATATAAATTAATAACATTCTTAACATA
Found at i:38591639 original size:17 final size:17
Alignment explanation
Indices: 38591617--38591649 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38591607 AATTATTATT
*
38591617 AAATATAATTTAATAAA
1 AAATATAAATTAATAAA
38591634 AAATATAAATTAATAA
1 AAATATAAATTAATAA
38591650 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATTAATAAA
Found at i:38596104 original size:20 final size:21
Alignment explanation
Indices: 38596079--38596122 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
38596069 TACTAATAAG
38596079 TTTAGTATGATGACATTAT-T
1 TTTAGTATGATGACATTATCT
38596099 TTTAGTATGATGACATTATCT
1 TTTAGTATGATGACATTATCT
38596120 TTT
1 TTT
38596123 TAAATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTAGTATGATGACATTATCT
Found at i:38598063 original size:47 final size:47
Alignment explanation
Indices: 38597993--38598120 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
38597983 GTGTTAATAA
* * **
38597993 TACCTTGATTTGGCTACGAGCCATGATATAGGTATT-TTGAGA-AGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAG-GATA-AGT
* *
38598040 TACCTTGATTTGACTATGGGCCATGGTATAGGTATTCCAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGATAAGT
38598087 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
38598121 CTTATCGATT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
47 69 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGATAAGT
Found at i:38610502 original size:28 final size:28
Alignment explanation
Indices: 38610462--38610524 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
38610452 GTCATTTTCA
38610462 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
38610490 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
38610518 ACCCCAT
1 ACCCCAT
38610525 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:38613260 original size:25 final size:25
Alignment explanation
Indices: 38613226--38613276 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
38613216 ATTACCAGTC
*
38613226 CAGGCTAAATCCCCTGCAATATAAA
1 CAGGCTAAATCCCCTGAAATATAAA
38613251 CAGGCTAAATCCCCTGAAATATAAA
1 CAGGCTAAATCCCCTGAAATATAAA
38613276 C
1 C
38613277 TCATATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (25 bp):
CAGGCTAAATCCCCTGAAATATAAA
Found at i:38619550 original size:40 final size:38
Alignment explanation
Indices: 38619506--38619603 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 38
38619496 GAAAAAGTGT
*
38619506 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 GAAATGTAGGTATGGTATT-TC-AA-CCATACCGAGTTGAA
*
38619546 GAAATGTAGGTATGGCATTTC--CCATACCGAGTTGAA
1 GAAATGTAGGTATGGTATTTCAACCATACCGAGTTGAA
38619582 -AAATGTAGGTATGGTATTTCAA
1 GAAATGTAGGTATGGTATTTCAA
38619604 TGAGGAAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
35 30 0.58
36 2 0.04
39 2 0.04
40 18 0.35
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (38 bp):
GAAATGTAGGTATGGTATTTCAACCATACCGAGTTGAA
Found at i:38621473 original size:28 final size:28
Alignment explanation
Indices: 38621433--38621495 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
38621423 GTCATTATCA
38621433 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
38621461 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
38621489 ACCCCAT
1 ACCCCAT
38621496 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:38625682 original size:18 final size:18
Alignment explanation
Indices: 38625656--38625690 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38625646 GTATTATTTT
* *
38625656 TAAATTTTATTATTAAAA
1 TAAAATTTAATATTAAAA
38625674 TAAAATTTAATATTAAA
1 TAAAATTTAATATTAAA
38625691 TAATTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:38625701 original size:30 final size:29
Alignment explanation
Indices: 38625665--38625729 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
38625655 TTAAATTTTA
* *
38625665 TTATTAAAATAA-AATTTAATATTAAATAAT
1 TTATTAAAATAATAAATT-ATATT-AACAAT
38625695 TTATTAAAATAATAAATTATATTAACAAT
1 TTATTAAAATAATAAATTATATTAACAAT
38625724 TTATTA
1 TTATTA
38625730 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 11 0.34
30 17 0.53
31 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TTATTAAAATAATAAATTATATTAACAAT
Found at i:38625778 original size:28 final size:27
Alignment explanation
Indices: 38625747--38625809 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
38625737 AAATATAAAT
*
38625747 AATTAAATATGTGTTTAATAATATTGAA
1 AATTAAATATGTG-ATAATAATATTGAA
* * *
38625775 AATTATAATATTTGATATTAATATTTAA
1 AATTA-AATATGTGATAATAATATTGAA
38625803 AATTAAA
1 AATTAAA
38625810 ATTAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 21 0.70
29 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (27 bp):
AATTAAATATGTGATAATAATATTGAA
Found at i:38625807 original size:13 final size:13
Alignment explanation
Indices: 38625765--38625820 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
38625755 ATGTGTTTAA
*
38625765 TAATATTGAAAATT
1 TAATATTTAAAA-T
* *
38625779 ATAATATTTGATAT
1 -TAATATTTAAAAT
38625793 TAATATTTAAAAT
1 TAATATTTAAAAT
*
38625806 TAA-AATTAAAAT
1 TAATATTTAAAAT
38625818 TAA
1 TAA
38625821 AAATTTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 11 0.31
13 14 0.40
14 1 0.03
15 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (13 bp):
TAATATTTAAAAT
Found at i:38626299 original size:31 final size:31
Alignment explanation
Indices: 38626213--38626290 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
38626203 ATGCGATTTA
* * * *
38626213 ATACATG-AACTTTAATT-TGGTGCAATTAT
1 ATACATGAAACTTTAATTGTAGTTCAAGTGT
* *
38626242 ATATATGAAACTTTGATTGTAGTTCAAGTGT
1 ATACATGAAACTTTAATTGTAGTTCAAGTGT
38626273 ATACATGAAACTTTAATT
1 ATACATGAAACTTTAATT
38626291 TTCATTCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 6 0.15
30 9 0.23
31 24 0.62
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (31 bp):
ATACATGAAACTTTAATTGTAGTTCAAGTGT
Found at i:38628792 original size:30 final size:30
Alignment explanation
Indices: 38628756--38628815 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38628746 AATAACAGGA
*
38628756 GGGATCATCCTAAAATATTTGTTAATGTTG
1 GGGATCATCCTAAAACATTTGTTAATGTTG
* *
38628786 GGGATCATCGTGAAACATTTGTTAATGTTG
1 GGGATCATCCTAAAACATTTGTTAATGTTG
38628816 TTCCTGTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (30 bp):
GGGATCATCCTAAAACATTTGTTAATGTTG
Found at i:38634024 original size:41 final size:40
Alignment explanation
Indices: 38633956--38634082 Score: 148
Period size: 41 Copynumber: 3.1 Consensus size: 40
38633946 GCAAAAATTG
* *
38633956 TAAAACACAAAGCAATAGCGGC-ATTTTTGTCAAAACACCGC
1 TAAAA-ACAGAGCAATAGCGGCGATTTTTGT-AAAACGCCGC
* *
38633997 TAAAAACTGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGATTTTTG-TAAAACGCCGC
* * * *
38634038 TAAAAACAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGATTTTTGTAAAACGCCGC
38634078 TAAAA
1 TAAAA
38634083 GTCATGTAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.39
41 45 0.60
42 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGATTTTTGTAAAACGCCGC
Found at i:38634363 original size:14 final size:14
Alignment explanation
Indices: 38634310--38634363 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
38634300 TCAAATCATA
38634310 AACCCTTAAAACTCC
1 AACCCTTAAAAC-CC
* *
38634325 AACCCCTAAACCCC
1 AACCCTTAAAACCC
38634339 AACCCTT-AAACCC
1 AACCCTTAAAACCC
*
38634352 AAGCCTTAAAAC
1 AACCCTTAAAAC
38634364 TAGCCTCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 11 0.33
14 12 0.36
15 10 0.30
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.15
Consensus pattern (14 bp):
AACCCTTAAAACCC
Found at i:38634410 original size:14 final size:14
Alignment explanation
Indices: 38634371--38634453 Score: 69
Period size: 14 Copynumber: 5.8 Consensus size: 14
38634361 AACTAGCCTC
38634371 TAAACCCATAAACTA
1 TAAACCC-TAAACTA
* * * *
38634386 TAGATCGTAAATTA
1 TAAACCCTAAACTA
38634400 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
38634414 TAAAGCATAAA-TCA
1 TAAACCCTAAACT-A
*
38634428 TAAACTCTTAAACTA
1 TAAAC-CCTAAACTA
38634443 TAAACCCTAAA
1 TAAACCCTAAA
38634454 ATCTAAAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
13 1 0.02
14 35 0.67
15 15 0.29
16 1 0.02
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:38634413 original size:28 final size:28
Alignment explanation
Indices: 38634371--38634446 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
38634361 AACTAGCCTC
* * * *
38634371 TAAACCCATAAACTATAGATCGTAAATTA
1 TAAACCC-TAAACTATAAAGCATAAATCA
38634400 TAAACCCTAAACTATAAAGCATAAATCA
1 TAAACCCTAAACTATAAAGCATAAATCA
*
38634428 TAAACTCTTAAACTATAAA
1 TAAAC-CCTAAACTATAAA
38634447 CCCTAAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAACCCTAAACTATAAAGCATAAATCA
Found at i:38634532 original size:21 final size:21
Alignment explanation
Indices: 38634499--38634541 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38634489 ATATATATTC
* *
38634499 ATGGTCTAGGATTTAGGGTTT
1 ATGGTCTAAGATTTAAGGTTT
*
38634520 ATGGTTTAAGATTTAAGGTTT
1 ATGGTCTAAGATTTAAGGTTT
38634541 A
1 A
38634542 ATTTTTAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (21 bp):
ATGGTCTAAGATTTAAGGTTT
Found at i:38634971 original size:14 final size:14
Alignment explanation
Indices: 38634952--38635038 Score: 77
Period size: 15 Copynumber: 6.0 Consensus size: 14
38634942 AAAATATTCA
38634952 AAAAAATAAAAATT
1 AAAAAATAAAAATT
*
38634966 AAAAAATAAAAAATA
1 AAAAAAT-AAAAATT
38634981 AAAAAATAAAAATTT
1 AAAAAATAAAAA-TT
** *
38634996 AAAATTTAAAATTT
1 AAAAAATAAAAATT
**
38635010 AAAATTTAAAAA-T
1 AAAAAATAAAAATT
38635023 AAAAAACTTAAAAATT
1 AAAAAA--TAAAAATT
38635039 TAATATTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.08
14 25 0.42
15 29 0.48
16 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:38635021 original size:15 final size:15
Alignment explanation
Indices: 38634987--38635048 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 15
38634977 AATAAAAAAA
38634987 TAAAAATTTAAAATT
1 TAAAAATTTAAAATT
38635002 T-AAAATTTAAAATT
1 TAAAAATTTAAAATT
** *
38635016 TAAAAATAAAAAACT
1 TAAAAATTTAAAATT
*
38635031 TAAAAATTTAATATT
1 TAAAAATTTAAAATT
38635046 TAA
1 TAA
38635049 TATTTTAATC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 14 0.36
15 25 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAAATTTAAAATT
Found at i:38635041 original size:8 final size:8
Alignment explanation
Indices: 38634927--38635041 Score: 82
Period size: 7 Copynumber: 14.9 Consensus size: 8
38634917 TTTATATGTT
38634927 AATTTAAA
1 AATTTAAA
38634935 AATTATAAA
1 AATT-TAAA
38634944 AATATTCAAA
1 AAT-TT-AAA
**
38634954 AAAATAAA
1 AATTTAAA
38634962 AA-TTAAA
1 AATTTAAA
*
38634969 AA-ATAAA
1 AATTTAAA
*
38634976 AA-ATAAA
1 AATTTAAA
**
38634983 AAAATAAA
1 AATTTAAA
38634991 AATTT-AA
1 AATTTAAA
38634998 AATTT-AA
1 AATTTAAA
38635005 AATTT-AA
1 AATTTAAA
38635012 AATTTAAA
1 AATTTAAA
*
38635020 AA-TAAAA
1 AATTTAAA
*
38635027 AACTTAAA
1 AATTTAAA
38635035 AATTTAA
1 AATTTAA
38635042 TATTTAATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
7 46 0.50
8 31 0.34
9 9 0.10
10 6 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
AATTTAAA
Found at i:38635172 original size:16 final size:17
Alignment explanation
Indices: 38635134--38635171 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38635124 TTTGAAAGAA
**
38635134 AAAAATAAAAAAATGTT
1 AAAAATAAAAAAAAATT
38635151 AAAAATAAAAAAAAATT
1 AAAAATAAAAAAAAATT
38635168 AAAA
1 AAAA
38635172 TTGAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAAAAATT
Found at i:38635551 original size:8 final size:8
Alignment explanation
Indices: 38635540--38635573 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
38635530 CCCCCTTTTC
38635540 TTTTCTTT
1 TTTTCTTT
38635548 TTTTCTTT
1 TTTTCTTT
38635556 TTTTCTTT
1 TTTTCTTT
38635564 GTTTTCTTT
1 -TTTTCTTT
38635573 T
1 T
38635574 CAAACATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:38635561 original size:16 final size:17
Alignment explanation
Indices: 38635540--38635573 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38635530 CCCCCTTTTC
38635540 TTTTCTTT-TTTTCTTT
1 TTTTCTTTGTTTTCTTT
38635556 TTTTCTTTGTTTTCTTT
1 TTTTCTTTGTTTTCTTT
38635573 T
1 T
38635574 CAAACATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTCTTTGTTTTCTTT
Found at i:38639454 original size:19 final size:21
Alignment explanation
Indices: 38639426--38639473 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
38639416 TTATTATTTA
38639426 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
38639446 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
38639466 TTTTAGTT
1 TTTTAGTT
38639474 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:38639662 original size:43 final size:42
Alignment explanation
Indices: 38639598--38639699 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
38639588 AAATTTCATT
*
38639598 ACCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 ACCTTTAGC-GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
*
38639641 ACTTTTAGCGCCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 ACCTTTAGCG-CGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
38639684 ACCTTTAGCGGCGTTT
1 ACCTTTAGC-GCGTTT
38639700 TTTTAAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
42 1 0.02
43 52 0.96
44 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (42 bp):
ACCTTTAGCGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
Found at i:38640114 original size:51 final size:51
Alignment explanation
Indices: 38640007--38640130 Score: 171
Period size: 51 Copynumber: 2.4 Consensus size: 51
38639997 ACATAAATTT
*
38640007 TTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATCAAATGCATTAACAG
1 TTTTGTGATGAAATGTATATGCAAG-TTTCATTGCATCAAATGCATGAACAG
* **
38640059 TTTTGTGATGAAATGCATATGCCAA-TTTCATTGCATTGAATGCATGAACTA-
1 TTTTGTGATGAAATGTATATG-CAAGTTTCATTGCATCAAATGCATGAAC-AG
38640110 TTTTGTGATGAAATGTATATG
1 TTTTGTGATGAAATGTATATG
38640131 TGAGTTGTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
51 41 0.63
52 21 0.32
53 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (51 bp):
TTTTGTGATGAAATGTATATGCAAGTTTCATTGCATCAAATGCATGAACAG
Found at i:38640410 original size:28 final size:28
Alignment explanation
Indices: 38640368--38640429 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
38640358 TTAAGCATCC
* *
38640368 ATGTGCAAAATGACTTCGTAATCTACTT
1 ATGTGCAAAACGACTTCGTAATCTACAT
*
38640396 ATGTGCAAACCGACTTCGTAATCTACAT
1 ATGTGCAAAACGACTTCGTAATCTACAT
38640424 ATGTGC
1 ATGTGC
38640430 GATTCGAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (28 bp):
ATGTGCAAAACGACTTCGTAATCTACAT
Found at i:38643037 original size:23 final size:23
Alignment explanation
Indices: 38642989--38643152 Score: 224
Period size: 23 Copynumber: 7.1 Consensus size: 23
38642979 CATTGTAATA
* **
38642989 TAGCCGAAGCTATCACTAG-AACG
1 TAGCCGAAGCTACCACT-GTATTG
38643012 TAGCCGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
*
38643035 TAGCTGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
38643058 TAGCCGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
*
38643081 TAGCCCAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
38643104 TAGCTGAAGCTACCACTG-AGATG
1 TAGCCGAAGCTACCACTGTA-TTG
*
38643127 TAGCCAAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
38643150 TAG
1 TAG
38643153 TCTATAGATT
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
22 2 0.02
23 123 0.98
24 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGTATTG
Found at i:38647725 original size:50 final size:49
Alignment explanation
Indices: 38647477--38647745 Score: 255
Period size: 46 Copynumber: 5.7 Consensus size: 49
38647467 GGTTATTTGT
* * *
38647477 GAGCTAGTGTAAGA-CATGTCTGGAACAT-GCATCAGCCAC--ATTATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACTGA-GATGTA
* * * *
38647523 GAGCTAGTGTAAGACTATGTCTGGGACATGGTATCGGCATTGAGACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGTA
* *
38647571 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-CTCATGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGA-GATGTA
*
38647618 -AGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTAC-GAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTGAGATGTA
* * *
38647663 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGAGATGTAA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGT-A
*
38647711 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
38647746 AACTTGATGG
Statistics
Matches: 188, Mismatches: 19, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 78 0.41
47 29 0.15
48 23 0.12
49 2 0.01
50 29 0.15
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGTA
Found at i:38647783 original size:38 final size:38
Alignment explanation
Indices: 38647732--38647807 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
38647722 AGACCATGTC
*
38647732 TGGGACATGGCATCAACTTGATGGATGAGCGAGTGTAA
1 TGGGACATGGCATCAACTTGATGGATGAGCCAGTGTAA
*
38647770 TGGGACATGGCATCGACTTGATGGATGAGCCAGTGTAA
1 TGGGACATGGCATCAACTTGATGGATGAGCCAGTGTAA
38647808 GACCATGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (38 bp):
TGGGACATGGCATCAACTTGATGGATGAGCCAGTGTAA
Found at i:38652636 original size:25 final size:25
Alignment explanation
Indices: 38652607--38652654 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38652597 TTATAACATG
* * *
38652607 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38652632 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38652655 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38652757 original size:20 final size:20
Alignment explanation
Indices: 38652691--38652757 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
38652681 ATTTTGATAA
*
38652691 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
38652711 ACATGAAATGTATGAAATGC
1 ACATGATATGTATGATATGC
38652731 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38652751 ACATGAT
1 ACATGAT
38652758 GTCTTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38652835 original size:25 final size:24
Alignment explanation
Indices: 38652807--38652913 Score: 169
Period size: 24 Copynumber: 4.4 Consensus size: 24
38652797 GAGGAAGTGC
38652807 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38652831 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
38652856 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
38652880 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38652904 AAAAGAGGCT
1 AAAAG-GGCT
38652914 AGGCCTCCAA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
24 51 0.65
25 28 0.35
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38660742 original size:25 final size:25
Alignment explanation
Indices: 38660713--38660760 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38660703 TTATAACATG
* * *
38660713 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38660738 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38660761 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38660863 original size:20 final size:20
Alignment explanation
Indices: 38660797--38660863 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
38660787 ATTTTGATAA
*
38660797 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
38660817 ACATGACATGTATGATATAC
1 ACATGATATGTATGATATGC
38660837 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38660857 ACATGAT
1 ACATGAT
38660864 GTCTTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38661082 original size:25 final size:24
Alignment explanation
Indices: 38660913--38661068 Score: 249
Period size: 24 Copynumber: 6.4 Consensus size: 24
38660903 GAGGAAATGC
38660913 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38660937 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
38660962 AAAAAGGGCTTATGCCCTAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
38660987 AAAAGGGCTGATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38661011 AAAAGGGATTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38661035 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38661059 AAAAGAGGCT
1 AAAAG-GGCT
38661069 AGGCCTCTAG
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 71 0.58
25 52 0.42
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38666620 original size:22 final size:23
Alignment explanation
Indices: 38666585--38666627 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
38666575 ATATGATATA
*
38666585 TAATCTTAGAAGATATGATTTTG
1 TAATATTAGAAGATATGATTTTG
*
38666608 TAATATTAG-AGATTTGATTT
1 TAATATTAGAAGATATGATTT
38666628 GTAGATGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TAATATTAGAAGATATGATTTTG
Found at i:38674773 original size:13 final size:13
Alignment explanation
Indices: 38674749--38674781 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
38674739 GCTTGAACTT
38674749 CATATA-TCAATA
1 CATATACTCAATA
38674761 CATATACTCAATA
1 CATATACTCAATA
38674774 CATATACT
1 CATATACT
38674782 TTTAGCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (13 bp):
CATATACTCAATA
Found at i:38681108 original size:40 final size:39
Alignment explanation
Indices: 38681064--38681189 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
38681054 GGGACTCAAC
*
38681064 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
38681104 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
38681144 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
38681184 CCGGAT
1 CCGGAT
38681190 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:38681148 original size:80 final size:80
Alignment explanation
Indices: 38681003--38681189 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
38680993 GCTACACATT
* * *
38681003 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
38681067 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
38681083 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
38681146 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
38681164 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
38681190 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:38689169 original size:40 final size:39
Alignment explanation
Indices: 38689125--38689250 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
38689115 GGGACTCAAC
*
38689125 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
38689165 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
38689205 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
38689245 CCGGAT
1 CCGGAT
38689251 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:38693563 original size:40 final size:39
Alignment explanation
Indices: 38693519--38693644 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
38693509 GGGACTCAAC
*
38693519 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
38693559 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
38693599 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
38693639 CCGGAT
1 CCGGAT
38693645 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:38693603 original size:80 final size:80
Alignment explanation
Indices: 38693458--38693644 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
38693448 GCTACACATT
* * *
38693458 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
38693522 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
38693538 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
38693601 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
38693619 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
38693645 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:38701626 original size:40 final size:40
Alignment explanation
Indices: 38701582--38701672 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
38701572 GGGACTCAAC
* * * *
38701582 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGT
* *
38701622 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGT
38701662 CCGGATTTAGT
1 CCGGATTTAGT
38701673 CACTTAGCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGT
Found at i:38713942 original size:86 final size:85
Alignment explanation
Indices: 38713789--38713946 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
38713779 AGCTTGTACA
* * * * *
38713789 ATGCCATATCCTAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCTCAGAGAGGGTC
1 ATGCCATATCCTAGACATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAGGGTC
38713854 TTACATGAAATTGATTAATG
66 TTACATGAAATTGATTAATG
* *
38713874 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA-ATAC-AGTGCCAATGTCCCAGACATG
1 ATGCC-ATATCCTAGACATGGTCTTACATGTAATCACATAT-CGA-TGCCAATGTCCCAGACAGG
38713937 GTCTTACATG
63 GTCTTACATG
38713947 TAATCACATC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 8 0.13
86 55 0.87
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (85 bp):
ATGCCATATCCTAGACATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAGGGTC
TTACATGAAATTGATTAATG
Found at i:38719105 original size:29 final size:28
Alignment explanation
Indices: 38719073--38719175 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
38719063 GGGACGAGAT
* *
38719073 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
38719102 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
38719131 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
38719160 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38719176 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:38727091 original size:29 final size:28
Alignment explanation
Indices: 38727059--38727161 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
38727049 GGGACGAGAT
* *
38727059 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
38727088 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
38727117 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
38727146 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38727162 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:38736496 original size:29 final size:28
Alignment explanation
Indices: 38736464--38736566 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
38736454 GGGACGAGAT
* *
38736464 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
38736493 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
38736522 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
38736551 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38736567 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:38744467 original size:29 final size:28
Alignment explanation
Indices: 38744435--38744537 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
38744425 GGGACGAGAT
* *
38744435 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
38744464 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
38744493 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
38744522 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38744538 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:38747130 original size:20 final size:20
Alignment explanation
Indices: 38747093--38747130 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38747083 TGATGGGGAG
*
38747093 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
38747113 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
38747131 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:38749046 original size:46 final size:46
Alignment explanation
Indices: 38748994--38749225 Score: 315
Period size: 46 Copynumber: 5.0 Consensus size: 46
38748984 GTGTGCTCTC
* * *
38748994 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAGCT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
38749040 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
38749086 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-A
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
38749131 GTGATATGAAATGAACAAGACCATGGATGAAAGATACCATGGCAACA
1 -TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
38749178 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
38749224 TG
1 TG
38749226 TCAAAGATAA
Statistics
Matches: 168, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 165 0.98
47 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:38751782 original size:40 final size:39
Alignment explanation
Indices: 38751737--38751944 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
38751727 CGGAATACAA
*
38751737 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
38751777 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
38751817 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
38751857 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
38751897 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
38751937 CCGGATAT
1 CCGGATAT
38751945 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:38751877 original size:80 final size:80
Alignment explanation
Indices: 38751737--38751943 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
38751727 CGGAATACAA
* * *
38751737 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
38751801 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
38751817 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
38751881 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
38751897 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
38751944 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:38759672 original size:39 final size:41
Alignment explanation
Indices: 38759572--38759754 Score: 164
Period size: 40 Copynumber: 4.6 Consensus size: 41
38759562 TCGAATGATG
* * * * *
38759572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTTAATAAA
* *
38759612 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAA-TTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAAGTTAATAAA
* *
38759652 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTTAATAAA
* * * *
38759691 CCCGGGTTAAGTCCCGAAGGCATTCGTGCG-AGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTTAATA-AA
**
38759732 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38759755 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 73 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTTAATAAA
Found at i:38759712 original size:79 final size:82
Alignment explanation
Indices: 38759572--38759756 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
38759562 TCGAATGATG
* * *
38759572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
38759636 CGTGCGAATTAATA-AA
66 CGTGCGAATCAATATAA
* * **
38759652 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTATTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
* *
38759714 TCGTGCGAGTCACTATAA
65 TCGTGCGAATCAATATAA
**
38759732 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38759757 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 54 0.61
80 34 0.38
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAATCAATATAA
Found at i:38759778 original size:79 final size:79
Alignment explanation
Indices: 38759625--38759789 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 79
38759615 GGACTAGGAT
* * *
38759625 CCGAAGGCATTCGTGCGAATTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTATTAA
1 CCGAAGGCATTCGTGCGAATCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCATTAA
38759690 ACCCGGGTTAAGTC
66 ACCCGGGTTAAGTC
* * ** * *
38759704 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTT
1 CCGAAGGCATTCGTGCGAATCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCATT
* * *
38759768 ATATCC-GGTTAAGTT
64 AAACCCGGGTTAAGTC
38759783 CCGAAGG
1 CCGAAGG
38759790 TACGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
79 45 0.62
80 27 0.38
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAATCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCATTAA
ACCCGGGTTAAGTC
Found at i:38770570 original size:28 final size:28
Alignment explanation
Indices: 38770501--38770601 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38770491 GACAAGATTG
* * * *
38770501 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
38770531 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38770559 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
38770588 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38770602 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38778525 original size:28 final size:28
Alignment explanation
Indices: 38778456--38778556 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38778446 GACAAGATTG
* * * *
38778456 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
38778486 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38778514 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
38778543 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38778557 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38780883 original size:43 final size:41
Alignment explanation
Indices: 38780771--38780886 Score: 103
Period size: 41 Copynumber: 2.8 Consensus size: 41
38780761 ATATCGATAA
38780771 ATCGATGCCACTGTCCCAGACAG-GGTCTTACACGAATCAAAT
1 ATCGATGCCAC-GTCCCAGA-AGTGGTCTTACACGAATCAAAT
* * * * *
38780813 A-CGATGCCGATGTCCTA-AACATAGTCTTACACGTAATCACAT
1 ATCGATGCC-ACGTCCCAGAA-GTGGTCTTACACG-AATCAAAT
*
38780855 ATCGATGCCAACGTCCCAGATGTGGTCTTACA
1 ATCGATGCC-ACGTCCCAGAAGTGGTCTTACA
38780887 TGAGAACACA
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 22 0.39
42 10 0.18
43 22 0.39
44 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
ATCGATGCCACGTCCCAGAAGTGGTCTTACACGAATCAAAT
Found at i:38790140 original size:29 final size:29
Alignment explanation
Indices: 38790106--38790163 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
38790096 TGTTCATATG
38790106 AACTTAGTGAGTTCCAAAGAGATATTATA
1 AACTTAGTGAGTTCCAAAGAGATATTATA
38790135 AACTTAGTGAGTTCCAAAGAGATATTATA
1 AACTTAGTGAGTTCCAAAGAGATATTATA
38790164 CATATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (29 bp):
AACTTAGTGAGTTCCAAAGAGATATTATA
Found at i:38791029 original size:28 final size:29
Alignment explanation
Indices: 38790976--38791030 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
38790966 ATGATTCCAT
*
38790976 TGATGAATCTTGTGATTTTAGATGTTAAA
1 TGATGAATCTTGTGATATTAGATGTTAAA
*
38791005 TGATGAAT-TTGAT-ATATTAGTTGTTA
1 TGATGAATCTTG-TGATATTAGATGTTA
38791031 TTTAAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (29 bp):
TGATGAATCTTGTGATATTAGATGTTAAA
Found at i:38791681 original size:87 final size:86
Alignment explanation
Indices: 38791555--38791790 Score: 258
Period size: 87 Copynumber: 2.7 Consensus size: 86
38791545 AGCTTCAGCT
* * *
38791555 ATCGGATATGAAAAGGGATAGCTTCGACTATTGATTATGAAAAGGGATGGTGACGACCATCAACT
1 ATCGAATATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGT-ACGACCATCAA-T
*
38791620 ATG-AAAAGGGATGGTGACAACC
64 AAGTAAAAGGGATGGTGACAACC
* * * * * * * *
38791642 ATTGAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAACGGGATAGATTCAACTATCGATA
1 ATCGAATATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGAT-GGTACGACCATCAATA
*
38791707 AGTAAAAGGGATGGTGACAACT
65 AGTAAAAGGGATGGTGACAACC
* * * * *
38791729 ATCGATTAATGAAAAGGGATGGTTTCGACCACCGAATATGAAAAGGGATGGTTACGACCATC
1 ATCGAAT-ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGG-TACGACCATC
38791791 GTTTAGCACA
Statistics
Matches: 120, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
86 3 0.03
87 73 0.61
88 44 0.37
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (86 bp):
ATCGAATATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGTACGACCATCAATAA
GTAAAAGGGATGGTGACAACC
Found at i:38791778 original size:29 final size:29
Alignment explanation
Indices: 38791555--38791791 Score: 178
Period size: 29 Copynumber: 8.1 Consensus size: 29
38791545 AGCTTCAGCT
* * *
38791555 ATCGGATATGAAAAGGGATAGCTT-CGACT
1 ATCGAATATGAAAAGGGAT-GGTTACGACC
* * *
38791584 ATTGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
* *
38791613 ATC-AACTATGAAAAGGGATGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTTACGACC
* * * *
38791642 ATTGAATATGAAAAGGGATAGCTT-CGGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGACC
* * * *
38791671 ATCGAATATGAAACGGGATAGATT-CAACT
1 ATCGAATATGAAAAGGGAT-GGTTACGACC
* * * *
38791700 ATCG-ATAAGTAAAAGGGATGGTGACAACT
1 ATCGAATATG-AAAAGGGATGGTTACGACC
* *
38791729 ATCGATTAATGAAAAGGGATGGTTTCGACC
1 ATCGAAT-ATGAAAAGGGATGGTTACGACC
*
38791759 ACCGAATATGAAAAGGGATGGTTACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
38791788 ATCG
1 ATCG
38791792 TTTAGCACAT
Statistics
Matches: 166, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
28 9 0.05
29 130 0.78
30 25 0.15
31 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTACGACC
Found at i:38793121 original size:26 final size:26
Alignment explanation
Indices: 38793083--38793144 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
38793073 CATGTATAGG
* *
38793083 TGTTTCGGTTGATGTTATAGCCATTA
1 TGTTTTGGCTGATGTTATAGCCATTA
38793109 TGTTTTGGCTGATGTTATAGCCATTA
1 TGTTTTGGCTGATGTTATAGCCATTA
38793135 TGTTTTGGCT
1 TGTTTTGGCT
38793145 TGTAATTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.48
Consensus pattern (26 bp):
TGTTTTGGCTGATGTTATAGCCATTA
Found at i:38797550 original size:15 final size:13
Alignment explanation
Indices: 38797510--38797552 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
38797500 AGTTCGTACC
38797510 TTTAAA-TATCAT
1 TTTAAATTATCAT
38797522 TTTAAATTAT-AT
1 TTTAAATTATCAT
38797534 TTTAAATTCTATCAT
1 TTTAAA-T-TATCAT
38797549 TTTA
1 TTTA
38797553 TAATATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 14 0.52
13 4 0.15
14 3 0.11
15 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAATTATCAT
Found at i:38797656 original size:29 final size:29
Alignment explanation
Indices: 38797611--38797680 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
38797601 TCATTGACCA
* *
38797611 ATGAAAAAGGATGGCTTCGGCTCTCAAAT
1 ATGAAAAAGGATAGCTTCGGCTATCAAAT
* *
38797640 ATTAAAAAGGATAGCTTCGGCTATCAATT
1 ATGAAAAAGGATAGCTTCGGCTATCAAAT
*
38797669 ATGAAAAGGGAT
1 ATGAAAAAGGAT
38797681 GGTGACAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (29 bp):
ATGAAAAAGGATAGCTTCGGCTATCAAAT
Found at i:38797762 original size:58 final size:58
Alignment explanation
Indices: 38797637--38797767 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
38797627 TCGGCTCTCA
* * * * *
38797637 AATATTAAAAAGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACAACCATTG
1 AATATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAAGGATGGTGACAACCATTC
* * * **
38797695 GATAAGAAAAGGGATAGCTTTGGCTATCAATAATGAAAAAGGATGGTGATGACCA-TC
1 AATATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAAGGATGGTGACAACCATTC
38797752 AACTATGAAAAGGGAT
1 AA-TATGAAAAGGGAT
38797768 GGTGATGATC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 2 0.03
58 58 0.97
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (58 bp):
AATATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAAGGATGGTGACAACCATTC
Found at i:38797829 original size:29 final size:29
Alignment explanation
Indices: 38797668--38797867 Score: 147
Period size: 29 Copynumber: 6.9 Consensus size: 29
38797658 GGCTATCAAT
* * *
38797668 TATGAAAAGGGATGGTGACAACCATTGGA
1 TATGAAAAGGGATGGTTACGACCATTGAA
* * * * * *
38797697 TAAGAAAAGGGATAGCTT-TGGCTA-TCAA
1 TATGAAAAGGGAT-GGTTACGACCATTGAA
* * * *
38797725 TAATGAAAAAGGATGGTGATGACCA-TCAA
1 T-ATGAAAAGGGATGGTTACGACCATTGAA
* * * *
38797754 CTATGAAAAGGGATGGTGATGATCA-TCAA
1 -TATGAAAAGGGATGGTTACGACCATTGAA
*
38797783 TTACTGAAAAGGGATGGTTCCGACCATTGAA
1 -TA-TGAAAAGGGATGGTTACGACCATTGAA
*
38797814 TATGAAAAGGGATGGTTTCGACCATTGAA
1 TATGAAAAGGGATGGTTACGACCATTGAA
*
38797843 TATGAAAAGGGAAGGTTACGACCAT
1 TATGAAAAGGGATGGTTACGACCAT
38797868 CGTTTAGCAC
Statistics
Matches: 139, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
28 5 0.04
29 108 0.78
30 23 0.17
31 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTACGACCATTGAA
Found at i:38801624 original size:40 final size:40
Alignment explanation
Indices: 38801550--38801731 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
38801540 AACCCAAGTA
* *
38801550 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
38801589 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
38801629 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
38801669 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
38801709 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
38801732 CATTCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 115 0.88
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:38810056 original size:40 final size:40
Alignment explanation
Indices: 38809982--38810163 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
38809972 AACCCAAGTA
* * *
38809982 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
38810021 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
38810061 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
38810101 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
38810141 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
38810164 CATTCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 114 0.88
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:38815016 original size:49 final size:49
Alignment explanation
Indices: 38814935--38815078 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
38814925 TCTATTGTGA
* *
38814935 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
38814984 GGTCACGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
1 GGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
38815033 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
38815079 GCTTTGGCTA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:38819434 original size:20 final size:20
Alignment explanation
Indices: 38819397--38819434 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38819387 TGATGGGGAG
*
38819397 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
38819417 CAAGAAATAT-AAGCTGGA
1 CAAG-AATATCAAGCTGGA
38819435 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:38821386 original size:46 final size:46
Alignment explanation
Indices: 38821336--38821647 Score: 439
Period size: 46 Copynumber: 6.8 Consensus size: 46
38821326 CTCTGATAAA
38821336 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
38821382 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
38821428 AAACGTGTAAGACCTTGGTTGAAAGATACCAT-GCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
38821473 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* ***
38821519 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATG
** * * *
38821566 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * * *
38821611 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
38821648 TCATGTCGAA
Statistics
Matches: 243, Mismatches: 20, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
45 44 0.18
46 160 0.66
47 39 0.16
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:38821493 original size:91 final size:92
Alignment explanation
Indices: 38821340--38821647 Score: 431
Period size: 91 Copynumber: 3.3 Consensus size: 92
38821330 GATAAAAAAT
38821340 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
*
38821405 AGATACCATGGCAACCTGATATGAAAC
66 AGATACCATGGCAACCTGACATGAAAC
*
38821432 GTGTAAGACCTTGGTTGAAAGATACCAT-GCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
* *
38821496 AGATACCATGGCAACGTGACATGAAAT
66 AGATACCATGGCAACCTGACATGAAAC
* *** **
38821523 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATAAGACCATGGTTGA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAATGTGTAAGACCATGGTTGA
* * *
38821588 ATGATACCATGGCAACATGACA-GAAAAT
65 AAGATACCATGGCAACCTGACATG-AAAC
* * * *
38821616 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
38821648 TCATGTCGAA
Statistics
Matches: 196, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
91 87 0.44
92 36 0.18
93 73 0.37
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (92 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
AGATACCATGGCAACCTGACATGAAAC
Found at i:38825199 original size:46 final size:46
Alignment explanation
Indices: 38825149--38825321 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
38825139 TGGTTGAGCA
*
38825149 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
38825195 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
38825242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
38825288 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38825322 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38825305 original size:93 final size:93
Alignment explanation
Indices: 38825146--38825316 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
38825136 GGATGGTTGA
* *
38825146 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
38825211 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
38825239 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
38825304 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
38825317 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38831243 original size:15 final size:16
Alignment explanation
Indices: 38831210--38831250 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
38831200 CTAAGAAATA
38831210 AAAGTGTTGCACTTGTG
1 AAAGTGTTGCAC-TGTG
38831227 AAAGTGTTGCA-TGTG
1 AAAGTGTTGCACTGTG
38831242 AAAGTGTTG
1 AAAGTGTTG
38831251 TGGCAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 13 0.54
17 11 0.46
ACGTcount: A:0.27, C:0.07, G:0.32, T:0.34
Consensus pattern (16 bp):
AAAGTGTTGCACTGTG
Found at i:38832700 original size:46 final size:45
Alignment explanation
Indices: 38832650--38832820 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
38832640 TGGTTGAGCA
38832650 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
38832696 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
38832742 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
38832788 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38832821 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 34 0.31
46 64 0.59
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38842159 original size:40 final size:40
Alignment explanation
Indices: 38841969--38842152 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
38841959 TCGAATGATG
*
38841969 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38842007 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38842047 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38842087 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38842128 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38842153 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 20 0.15
39 13 0.10
40 97 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38842159 original size:80 final size:78
Alignment explanation
Indices: 38841969--38842185 Score: 237
Period size: 80 Copynumber: 2.7 Consensus size: 78
38841959 TCGAATGATG
* **
38841969 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTACT-AATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
38842032 GTGCGAGTTACTAAA
64 GTGCGAGTTACTAAA
* *
38842047 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGT-CCGAAGGCATT
38842111 TGTGCGAGTTACTATAA
63 TGTGCGAGTTACTA-AA
* ** * *
38842128 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTT-AAGTCCGAAGG
38842186 TACGTGATTC
Statistics
Matches: 118, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
78 20 0.17
79 26 0.22
80 70 0.59
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:38850007 original size:40 final size:40
Alignment explanation
Indices: 38849919--38850100 Score: 218
Period size: 39 Copynumber: 4.7 Consensus size: 40
38849909 TCGAATGATG
*
38849919 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38849957 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38849997 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38850036 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTAC-ATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38850076 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38850101 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
38 21 0.16
39 71 0.55
40 38 0.29
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38850107 original size:79 final size:76
Alignment explanation
Indices: 38849919--38850133 Score: 206
Period size: 78 Copynumber: 2.7 Consensus size: 76
38849909 TCGAATGATG
* * **
38849919 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTACT-AATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATT-TGC-GAGTACTAAATCCGGGTTAAG-TCCGAAGGCATTTG
*
38849983 TGCGAGTTACTAAA
63 TGCGAGCTACTAAA
*
38849997 TCCGGACTAAGAT-CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAG-TCCCGAAGGCATT-TGCGAG-TACTAAATCCGGGTTAAGT-CCGAAGGCATTT
38850061 GTGCGAGCTAC-ATAA
62 GTGCGAGCTACTA-AA
* * *
38850076 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTG--CGAGTA-CTAAATCCGGGTT-AAGTCCGAAGG
38850134 TACGTGATTC
Statistics
Matches: 117, Mismatches: 10, Indels: 20
0.80 0.07 0.14
Matches are distributed among these distances:
77 5 0.04
78 62 0.53
79 50 0.43
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (76 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGAGTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGC
GAGCTACTAAA
Found at i:38852116 original size:25 final size:25
Alignment explanation
Indices: 38852088--38852135 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38852078 CTATAATGTG
*
38852088 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATGCCCCTAGGTA
*
38852113 AAAATGGCCATTATGCCCCTAGG
1 AAAATGACCATTATGCCCCTAGG
38852136 GATATGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATGCCCCTAGGTA
Found at i:38852189 original size:10 final size:10
Alignment explanation
Indices: 38852174--38852212 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
38852164 ACATTTTATA
38852174 CATGATATGC
1 CATGATATGC
38852184 CATGATATGC
1 CATGATATGC
*
38852194 ACATGATATGT
1 -CATGATATGC
38852205 CATGATAT
1 CATGATAT
38852213 ATTCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Done.