Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 618 of 770
Found at i:193554354 original size:40 final size:40
Alignment explanation
Indices: 193554288--193554438 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
193554278 AAATTGAATG
* * *
193554288 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
193554327 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
193554367 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
193554407 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
193554439 ACTGATTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:193562358 original size:40 final size:40
Alignment explanation
Indices: 193562292--193562458 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
193562282 AAATTGAATG
* * *
193562292 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
193562331 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
193562371 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
193562411 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
193562451 ATATCCGG
1 ATATCCGG
193562459 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:193572040 original size:92 final size:92
Alignment explanation
Indices: 193571883--193572053 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
193571873 CGCCCATAAG
* *
193571883 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
193571948 ACGAGTTCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
193571975 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
193572040 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
193572054 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Found at i:193572050 original size:46 final size:46
Alignment explanation
Indices: 193571876--193572050 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
193571866 TGTAACCCGC
* * *
193571876 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
193571922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
193571968 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
193572014 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
193572051 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 97 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:193572069 original size:46 final size:46
Alignment explanation
Indices: 193571884--193572069 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
193571874 GCCCATAAGC
* ** * *
193571884 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
193571930 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
193571976 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
193572022 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
193572068 GA
1 GA
193572070 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 92 0.81
47 1 0.01
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:193579413 original size:22 final size:24
Alignment explanation
Indices: 193579385--193579436 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
193579375 GCTCAACATG
193579385 CTCGGGC-CGC-TCCATAAGTGAA
1 CTCGGGCTCGCATCCATAAGTGAA
193579407 CTCGGGCGTTCGCATCCATAAGTGAA
1 CTCGGGC--TCGCATCCATAAGTGAA
193579433 CTCG
1 CTCG
193579437 ACTCAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.27
25 3 0.12
26 16 0.62
ACGTcount: A:0.21, C:0.31, G:0.27, T:0.21
Consensus pattern (24 bp):
CTCGGGCTCGCATCCATAAGTGAA
Found at i:193579479 original size:45 final size:46
Alignment explanation
Indices: 193579415--193579503 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
193579405 AACTCGGGCG
193579415 TTCGCATCCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGACA
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA
193579460 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
193579504 TGCTCAACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA
Found at i:193579522 original size:46 final size:44
Alignment explanation
Indices: 193579417--193579514 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 44
193579407 CTCGGGCGTT
* *
193579417 CGCATCCATAAGTGAACTCGACTCAACTCAACGAGTTCGGACATT
1 CGCAACCATAAGTGAACTCGACTCAACTCAACGAGTTCGGA-ATG
*
193579462 CGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATG
1 CGCAACCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGAATG
*
193579506 CTCAACCAT
1 CGCAACCAT
193579515 CCTAGTGACA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
44 9 0.18
45 19 0.39
46 21 0.43
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (44 bp):
CGCAACCATAAGTGAACTCGACTCAACTCAACGAGTTCGGAATG
Found at i:193586984 original size:93 final size:93
Alignment explanation
Indices: 193586872--193587043 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
193586862 CGCCCATAAG
* *
193586872 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
193586937 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
193586965 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
193587030 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
193587044 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:193587040 original size:46 final size:46
Alignment explanation
Indices: 193586865--193587040 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
193586855 TGTAACCCGC
* * *
193586865 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
193586911 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
193586961 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
193587004 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
193587041 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:193588740 original size:40 final size:39
Alignment explanation
Indices: 193588695--193588824 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
193588685 CGGAATATAA
193588695 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
193588735 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
193588775 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
193588815 CCGGATATAA
1 CCGGATATAA
193588825 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:193588839 original size:40 final size:40
Alignment explanation
Indices: 193588711--193588861 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
193588701 ATAACCATGT
* * *
193588711 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
193588751 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
193588791 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
193588831 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
193588862 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:193588845 original size:80 final size:79
Alignment explanation
Indices: 193588711--193588859 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
193588701 ATAACCATGT
*
193588711 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
193588776 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
193588791 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
193588854 CCGGAT
64 CCGGAT
193588860 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:193596716 original size:40 final size:39
Alignment explanation
Indices: 193596671--193596800 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
193596661 CGGAATATAA
193596671 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
193596711 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
193596751 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
193596791 CCGGATATAA
1 CCGGATATAA
193596801 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:193596815 original size:40 final size:40
Alignment explanation
Indices: 193596687--193596837 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
193596677 ATAACCATGT
* * *
193596687 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
193596727 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
193596767 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
193596807 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
193596838 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:193596821 original size:80 final size:79
Alignment explanation
Indices: 193596687--193596835 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
193596677 ATAACCATGT
* *
193596687 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
193596752 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
193596767 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
193596830 CCGGAT
64 CCGGAT
193596836 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:193601416 original size:39 final size:38
Alignment explanation
Indices: 193601324--193601502 Score: 150
Period size: 39 Copynumber: 4.6 Consensus size: 38
193601314 AAATTGAATG
* * *
193601324 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT--AGTCT
* *
193601362 -TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-CT
*
193601400 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCAT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC-T
* * * *
193601439 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTC-T
* * *
193601478 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
193601503 CTTGGTGCGG
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
36 2 0.02
37 11 0.09
38 21 0.18
39 61 0.52
40 22 0.19
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTCT
Found at i:193609530 original size:36 final size:36
Alignment explanation
Indices: 193609403--193609550 Score: 145
Period size: 39 Copynumber: 3.9 Consensus size: 36
193609393 AAATTGAATG
* * * * *
193609403 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAG-TA-T
*
193609442 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTA--T
193609482 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGT-T
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTAT
*
193609518 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
193609551 AATCGTGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
36 30 0.31
37 2 0.02
39 35 0.36
40 29 0.30
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (36 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTAT
Found at i:193609562 original size:76 final size:80
Alignment explanation
Indices: 193609401--193609581 Score: 201
Period size: 76 Copynumber: 2.3 Consensus size: 80
193609391 AGAAATTGAA
* * * *
193609401 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATTATATCCGGGTTAAGACCCGAAGGC
1 TGATATCCGGGCTAAGACCCGAAGGCAATTACGCTGAAATTATATCCGGGCTAAGACCCGAAGGC
* *
193609466 AATTGTGCTAGTAGC
66 AATTGTGCAAATAGC
* * *
193609481 T-ATATCCGGGCTAAGACCCGAAGGC-ATT-CG-TGCAGTTTTATCCGGGCTAAGACCCGAAGGC
1 TGATATCCGGGCTAAGACCCGAAGGCAATTACGCTGAAATTATATCCGGGCTAAGACCCGAAGGC
* *
193609542 ATTTGTGCAAATCG-
66 AATTGTGCAAATAGC
* * *
193609556 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
193609582 CTTGGTGCGG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
75 1 0.01
76 58 0.67
77 1 0.01
78 3 0.03
79 22 0.26
80 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TGATATCCGGGCTAAGACCCGAAGGCAATTACGCTGAAATTATATCCGGGCTAAGACCCGAAGGC
AATTGTGCAAATAGC
Found at i:193612373 original size:40 final size:40
Alignment explanation
Indices: 193612318--193612603 Score: 412
Period size: 40 Copynumber: 7.2 Consensus size: 40
193612308 GAGAATTGAG
193612318 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
193612358 AGTGATATATCCGGGCTAAGTCCCGAAGAACATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
193612398 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
193612438 AGTGATATATCCGGCCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
193612478 AGTGATATACCCGGGCTAAGTCTCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
193612518 AGAGTTATA-CCAGGGTTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** * * *
193612558 GGTGTTATATCTAGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
193612598 GGTGAT
1 AGTGAT
193612604 GTGTATTCGG
Statistics
Matches: 223, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 220 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:193616351 original size:48 final size:48
Alignment explanation
Indices: 193616230--193616517 Score: 483
Period size: 48 Copynumber: 6.0 Consensus size: 48
193616220 ATATATATAT
*
193616230 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
193616278 ATA--TATATGTGGTAAAGCCGTATGGCTAAG-GTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGAG
193616324 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
193616372 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
193616420 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
193616468 ATATGTATATTTGGTAAAGCTGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
193616516 AT
1 AT
193616518 GTGTGTATAT
Statistics
Matches: 228, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
46 41 0.18
47 4 0.02
48 183 0.80
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:193616708 original size:37 final size:37
Alignment explanation
Indices: 193616658--193616760 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
193616648 GGAAATATAT
193616658 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
193616695 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
193616732 TCCGGGTGAGACCCGCTAACTACGAGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
193616761 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:193618092 original size:40 final size:40
Alignment explanation
Indices: 193618037--193618319 Score: 392
Period size: 40 Copynumber: 7.1 Consensus size: 40
193618027 GAGAATTGAG
193618037 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
*
193618077 GTGATATATCCGGGCTAAGT-CCGAAGAACATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
193618116 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
*
193618156 GTGATATATCCGGCCTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
* * *
193618196 GTGATATACCCGGGCTAAGTCTC-AAAAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
* * * *
193618235 GAGTTATA-CCAGGGTTAAGTCCCGAAGAGCATTCGTGCTG
1 GTGATATATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCTA
* ** * * * *
193618275 GTGTTATATCTAGGCTAGGTCCCGAAGAGCAATCATGCTG
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
193618315 GTGAT
1 GTGAT
193618320 GTGTATTTGG
Statistics
Matches: 218, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 69 0.32
40 146 0.67
41 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
Found at i:193618168 original size:79 final size:80
Alignment explanation
Indices: 193618037--193618319 Score: 392
Period size: 79 Copynumber: 3.6 Consensus size: 80
193618027 GAGAATTGAG
193618037 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGT-CCGA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
193618101 AGAACATTCGTGCTA
66 AGAGCATTCGTGCTA
*
193618116 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGCCTAAGTCCCGA
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
193618181 AGAGCATTCGTGCTA
66 AGAGCATTCGTGCTA
* * * * * *
193618196 GTGATATACCCGGGCTAAGTCTC-AAAAGCATTCGTGCTAGAGTTATA-CCAGGGTTAAGTCCCG
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC-GGGCTAAGTCCCG
*
193618259 AAGAGCATTCGTGCTG
65 AAGAGCATTCGTGCTA
* ** * * * *
193618275 GTGTTATATCTAGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAT
1 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
193618320 GTGTATTTGG
Statistics
Matches: 179, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
78 2 0.01
79 123 0.69
80 54 0.30
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
AGAGCATTCGTGCTA
Found at i:193618254 original size:119 final size:118
Alignment explanation
Indices: 193618037--193618319 Score: 392
Period size: 119 Copynumber: 2.4 Consensus size: 118
193618027 GAGAATTGAG
*
193618037 GTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAA
1 GTGATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCGGGCTAAGTCCGAA
*
193618102 GAACATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
65 GAACATTCGTGCTAGAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
193618156 GTGATATATCCGGCCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCGGGCTAAGTCTC-A
1 GTGATATATCCGG-CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCGGGCTAAGTC-CGA
* * *
193618220 A-AAGCATTCGTGCTAGAGTTATA-CCAGGGTTAAGTCCCGAAGAGCATTCGTGCTG
64 AGAA-CATTCGTGCTAGAGATATATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCTA
* * * * * *
193618275 GTGTTATATCTAGGCTAGGTCCCGAAGAGCAATCATGCTGGTGAT
1 GTGATATATC-CGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
193618320 GTGTATTTGG
Statistics
Matches: 148, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
118 6 0.04
119 139 0.94
120 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (118 bp):
GTGATATATCCGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCGGGCTAAGTCCGAAG
AACATTCGTGCTAGAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
Found at i:193618531 original size:25 final size:25
Alignment explanation
Indices: 193618481--193618531 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
193618471 TGTGTAACAA
* *
193618481 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
193618506 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
193618531 C
1 C
193618532 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:193621670 original size:93 final size:93
Alignment explanation
Indices: 193621558--193621729 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
193621548 GCCCATAAGT
* *
193621558 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
193621623 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
193621651 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
193621716 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
193621730 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:193621725 original size:46 final size:46
Alignment explanation
Indices: 193621550--193621725 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
193621540 TGTAACCCGC
* * *
193621550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
193621596 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
193621646 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
193621689 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
193621726 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:193624153 original size:30 final size:30
Alignment explanation
Indices: 193624109--193624197 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
193624099 CAAAGATAAC
193624109 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
193624138 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
193624168 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
193624198 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:193624157 original size:15 final size:15
Alignment explanation
Indices: 193624109--193624188 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
193624099 CAAAGATAAC
*
193624109 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
193624123 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
193624138 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
193624153 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
193624168 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
193624183 AAGAAA
1 AAGAAA
193624189 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:193624197 original size:15 final size:15
Alignment explanation
Indices: 193624120--193624197 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
193624110 AGAAAACCGA
193624120 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
193624135 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
193624149 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
193624164 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
193624180 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
193624195 ATA
1 ATA
193624198 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:193627222 original size:93 final size:93
Alignment explanation
Indices: 193627110--193627281 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
193627100 GCCCATAAGT
* *
193627110 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
193627175 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
193627203 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
193627268 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
193627282 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:193627277 original size:46 final size:46
Alignment explanation
Indices: 193627102--193627277 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
193627092 TGTAACCCGC
* * *
193627102 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
193627148 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
193627198 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
193627241 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
193627278 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:193630237 original size:2 final size:2
Alignment explanation
Indices: 193630230--193630274 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
193630220 TACACAAATT
193630230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
193630272 TA T
1 TA T
193630275 GTGGTAAAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:193630358 original size:48 final size:48
Alignment explanation
Indices: 193630265--193630552 Score: 474
Period size: 48 Copynumber: 6.0 Consensus size: 48
193630255 ATATATATAT
*
193630265 ATATATATATGTGGTAAAGCC-AATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
193630312 ATATATATATGTGGTAAAGCCGTATGGCTAAG-GTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGAG
193630360 ATATGTATATGTGGTAAAG-CGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
193630407 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
193630455 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
193630503 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
193630551 AT
1 AT
193630553 GTGTGTATAT
Statistics
Matches: 227, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
46 2 0.01
47 63 0.28
48 160 0.70
49 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:193630434 original size:95 final size:95
Alignment explanation
Indices: 193630255--193630552 Score: 465
Period size: 95 Copynumber: 3.1 Consensus size: 95
193630245 ATATATATAT
* * * *
193630255 ATATATAT-ATATATATATATGTGGTAAAGCCAATGGCTAGTGTGAAATATGTATGAGATATATA
1 ATATATATGAGATATGTATATGTGGTAAAGCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
193630319 TATGTGGTAAAGCCGTATGGCTAAGGTGAA
66 TATGTGGTAAAGCCGAATGGCTAAGGTGAA
193630349 ATATATATGAGATATGTATATGTGGTAAAGCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 ATATATATGAGATATGTATATGTGGTAAAGCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
193630414 TATGTGGTAAAGCTGAATGGCT-AGTGTGAA
66 TATGTGGTAAAGCCGAATGGCTAAG-GTGAA
*
193630444 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAG-CGAATGGCTAGTGTGAAATATGTATGAGATATGT
* *
193630509 ATATTTGGTAAAGCCGAATGGCTAATGTGAA
65 ATATGTGGTAAAGCCGAATGGCTAAGGTGAA
* *
193630540 ATATGTAGGAGAT
1 ATATATATGAGAT
193630553 GTGTGTATAT
Statistics
Matches: 189, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 10 0.05
95 106 0.56
96 72 0.38
97 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.33
Consensus pattern (95 bp):
ATATATATGAGATATGTATATGTGGTAAAGCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
TATGTGGTAAAGCCGAATGGCTAAGGTGAA
Found at i:193630443 original size:143 final size:143
Alignment explanation
Indices: 193630265--193630552 Score: 472
Period size: 143 Copynumber: 2.0 Consensus size: 143
193630255 ATATATATAT
193630265 ATATATATATGTGGTAAAGCCAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAA
1 ATATATATATGTGGTAAAGCCAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAA
* *
193630330 GCCGTATGGCTAAG-GTGAAATATATATGAGATATGTATATGTGGTAAAG-CGAATGGCTAGTGT
66 GCCGAATGGCT-AGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
*
193630393 GAAATATGTATGAG
130 GAAATATGTAGGAG
* * *
193630407 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGC-CAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAA
* *
193630472 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAAAGCCGAATGGCTAATGT
65 AGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
193630537 GAAATATGTAGGAG
130 GAAATATGTAGGAG
193630551 AT
1 AT
193630553 GTGTGTATAT
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
142 21 0.16
143 86 0.64
144 28 0.21
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (143 bp):
ATATATATATGTGGTAAAGCCAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAA
GCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
AAATATGTAGGAG
Found at i:193630585 original size:143 final size:142
Alignment explanation
Indices: 193630295--193630587 Score: 401
Period size: 143 Copynumber: 2.0 Consensus size: 142
193630285 CAATGGCTAG
*
193630295 TGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGTATGGCTAAGGTGAAATATATATGAG
1 TGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAGGTGAAATATATATGAG
* * *
193630360 ATATGTATATGTGGTAAAGCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAA
66 ATATGTATATGTGGTAAAGCGAATGGCTAATGTGAAATATGTAGGAGATATGTATATATGGT-AA
* * * *
193630425 GCTGAATGGCTAG
130 GCCGAATGCCAAA
* *
193630438 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGA
1 TGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAG-GTGAAATATATATGA
* * * *
193630502 GATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATGTGTGTATATTGT-
65 GATATGTATATGTGGTAAAG-CGAATGGCTAATGTGAAATATGTAGGAGATATGTATATATGGTA
*
193630566 GGCCGAATGACCAAA
129 AGCCGAATG-CCAAA
193630581 TGTGAAA
1 TGTGAAA
193630588 GGTGTGTATT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
142 9 0.07
143 86 0.65
144 37 0.28
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (142 bp):
TGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAGGTGAAATATATATGAG
ATATGTATATGTGGTAAAGCGAATGGCTAATGTGAAATATGTAGGAGATATGTATATATGGTAAG
CCGAATGCCAAA
Found at i:193630743 original size:37 final size:37
Alignment explanation
Indices: 193630693--193630780 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
193630683 GGAAATATAT
193630693 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
193630730 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
193630767 TTC-GGTGAGACCCG
1 TCCGGGTAAGACCCG
193630781 CTAAATACGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 10 0.21
37 38 0.79
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:193632124 original size:40 final size:40
Alignment explanation
Indices: 193632069--193632338 Score: 364
Period size: 40 Copynumber: 6.8 Consensus size: 40
193632059 GAGAATTGAG
* *
193632069 AGTGATATATCCGGGCTAAGTACCGAAGAGCATTCCTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
193632109 AGTGATATATCCGGGCTAAGTTCCGAAGAACATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
193632149 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
193632189 AGTGATATATCCGGCCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
193632229 AGTGATATACCCGAGCTAAGTCTCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
193632269 AGAGTTATA-CC-AGTTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** *
193632307 GGTGTTATATCTAGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
193632339 ATCAAGCTGG
Statistics
Matches: 206, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 31 0.15
39 3 0.01
40 172 0.83
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:193632564 original size:25 final size:25
Alignment explanation
Indices: 193632514--193632564 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
193632504 TGTGTAACAA
* *
193632514 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
193632539 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
193632564 C
1 C
193632565 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:193635335 original size:17 final size:19
Alignment explanation
Indices: 193635312--193635357 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
193635302 AAGAAGCATG
193635312 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
193635330 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
193635348 AATCATGCTC
1 AATCATGCTC
193635358 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:193642373 original size:40 final size:40
Alignment explanation
Indices: 193642328--193642494 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
193642318 CGGAATATAA
193642328 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
193642368 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
193642408 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
193642448 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
193642487 CCGGATAT
1 CCGGATAT
193642495 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:193642478 original size:80 final size:79
Alignment explanation
Indices: 193642328--193642494 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
193642318 CGGAATATAA
* *
193642328 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
193642393 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
193642408 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
193642470 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
193642487 CCGGATAT
1 CCGGATAT
193642495 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:193643340 original size:17 final size:19
Alignment explanation
Indices: 193643317--193643362 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
193643307 AAGAAGCATG
193643317 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
193643335 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
193643353 AATCATGCTC
1 AATCATGCTC
193643363 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:193654223 original size:23 final size:23
Alignment explanation
Indices: 193654197--193654241 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
193654187 TGGGTATGTG
*
193654197 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
193654220 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
193654242 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:193655047 original size:15 final size:15
Alignment explanation
Indices: 193655027--193655123 Score: 141
Period size: 15 Copynumber: 6.8 Consensus size: 15
193655017 AACAATGTAA
193655027 AACTGTGTATTCTAC
1 AACTGTGTATTCTAC
193655042 AACTGTGTATTCTAC
1 AACTGTGTATTCTAC
193655057 AACTGTGTATTCTAC
1 AACTGTGTATTCTAC
**
193655072 AACAATGTA----A-
1 AACTGTGTATTCTAC
193655082 AACTGTGTATTCTAC
1 AACTGTGTATTCTAC
193655097 AACTGTGTATTCTAC
1 AACTGTGTATTCTAC
193655112 AACTGTGTATTC
1 AACTGTGTATTC
193655124 CAAATAGGCA
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
10 7 0.10
11 1 0.01
14 1 0.01
15 64 0.88
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (15 bp):
AACTGTGTATTCTAC
Found at i:193655099 original size:55 final size:55
Alignment explanation
Indices: 193655015--193655123 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
193655005 CCTTTCAATA
193655015 ACAACAATGTAAAACTGTGTATTCTACAACTGTGTATTCTACAACTGTGTATTCT
1 ACAACAATGTAAAACTGTGTATTCTACAACTGTGTATTCTACAACTGTGTATTCT
193655070 ACAACAATGTAAAACTGTGTATTCTACAACTGTGTATTCTACAACTGTGTATTC
1 ACAACAATGTAAAACTGTGTATTCTACAACTGTGTATTCTACAACTGTGTATTC
193655124 CAAATAGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (55 bp):
ACAACAATGTAAAACTGTGTATTCTACAACTGTGTATTCTACAACTGTGTATTCT
Found at i:193658304 original size:23 final size:22
Alignment explanation
Indices: 193658253--193658304 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
193658243 ACAAGGTCAA
* *
193658253 AATT-AAATTGTAATTTTTACG
1 AATTAAAAATGTAATTTTTAAG
*
193658274 ATAATAAAAATGTAATTTTTAAAG
1 A-ATTAAAAATGTAATTTTT-AAG
193658298 AATTAAA
1 AATTAAA
193658305 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 18 0.75
24 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (22 bp):
AATTAAAAATGTAATTTTTAAG
Found at i:193660159 original size:27 final size:28
Alignment explanation
Indices: 193660102--193660171 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
193660092 AAATTTGTAC
**
193660102 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
193660130 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
193660157 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
193660172 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:193660180 original size:27 final size:27
Alignment explanation
Indices: 193660102--193660183 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
193660092 AAATTTGTAC
* *
193660102 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
193660130 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
193660157 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
193660184 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:193669768 original size:22 final size:22
Alignment explanation
Indices: 193669743--193669784 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
193669733 TTTATTCTAA
*
193669743 TCTTAATCTTATTTCTTTTTGC
1 TCTTAATCTTATTTATTTTTGC
* *
193669765 TCTTATTCTTTTTTATTTTT
1 TCTTAATCTTATTTATTTTT
193669785 CCCAAAAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (22 bp):
TCTTAATCTTATTTATTTTTGC
Found at i:193671016 original size:28 final size:28
Alignment explanation
Indices: 193670983--193671038 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
193670973 TAGATCACAG
193670983 AATTACCCCTAAAGAGCAAAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
*
193671011 AATTACCCCTAAAGAGCATAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
193671039 TATACCCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.25, G:0.11, T:0.20
Consensus pattern (28 bp):
AATTACCCCTAAAGAGCAAAATTACCGA
Found at i:193674018 original size:46 final size:46
Alignment explanation
Indices: 193673951--193674126 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
193673941 TGTAACTCGC
* * *
193673951 CCATAAGTGAACTCGGACTCAACTGAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGCAT
* *
193673997 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTAGCAT
* *** * * * *
193674043 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTAGCAT
*
193674090 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
193674127 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGCAT
Found at i:193674586 original size:30 final size:30
Alignment explanation
Indices: 193674552--193674611 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
193674542 ATTTAATATG
193674552 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
193674582 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
193674612 GGCTCGGGAA
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:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:193678451 original size:9 final size:9
Alignment explanation
Indices: 193678439--193678495 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
193678429 TTTGATAAAC
193678439 ATGATATGT
1 ATGATATGT
*
193678448 ATGATATGCAC
1 ATGATATG--T
*
193678459 ATGACATGT
1 ATGATATGT
*
193678468 ATGATATGCAC
1 ATGATATG--T
193678479 ATGATATGT
1 ATGATATGT
193678488 ATGATATG
1 ATGATATG
193678496 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:193678462 original size:20 final size:20
Alignment explanation
Indices: 193678437--193678507 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
193678427 ATTTTGATAA
193678437 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
193678457 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
193678477 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
193678497 ACATGAGATGT
1 ACATGATATGT
193678508 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:193678484 original size:11 final size:11
Alignment explanation
Indices: 193678448--193678502 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
193678438 CATGATATGT
193678448 ATGATATGCAC
1 ATGATATGCAC
* *
193678459 ATGACATG--T
1 ATGATATGCAC
193678468 ATGATATGCAC
1 ATGATATGCAC
*
193678479 ATGATATG--T
1 ATGATATGCAC
193678488 ATGATATGCAC
1 ATGATATGCAC
193678499 ATGA
1 ATGA
193678503 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:193678584 original size:23 final size:23
Alignment explanation
Indices: 193678554--193678696 Score: 225
Period size: 23 Copynumber: 6.1 Consensus size: 23
193678544 AAGAAGTGCA
193678554 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
193678577 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
193678601 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
193678624 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
193678648 AAAGGG-TTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
193678670 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
193678694 AAA
1 AAA
193678697 AGAGGCTAGG
Statistics
Matches: 111, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
23 68 0.61
24 43 0.39
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:193678621 original size:47 final size:47
Alignment explanation
Indices: 193678552--193678717 Score: 264
Period size: 47 Copynumber: 3.5 Consensus size: 47
193678542 GGAAGAAGTG
193678552 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
193678599 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
193678646 CAAAAGGG-TTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
* *
193678693 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
193678718 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
46 16 0.14
47 81 0.72
48 7 0.06
49 8 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:193678667 original size:70 final size:70
Alignment explanation
Indices: 193678554--193678718 Score: 244
Period size: 70 Copynumber: 2.3 Consensus size: 70
193678544 AAGAAGTGCA
*
193678554 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
193678619 TTATT
66 TTATT
* *
193678624 AAAGGGCTTATGCCCCAGTTATCAAAAGGG-TTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
193678688 GTTATT
65 GTTATT
*
193678694 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
193678719 TGATAAAGCA
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
70 60 0.69
71 16 0.18
72 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATT
Found at i:193680185 original size:24 final size:24
Alignment explanation
Indices: 193680158--193680212 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
193680148 AAACTTATCA
**
193680158 ACTCACATTGCTTTACTAGTCAAT
1 ACTCACATTAATTTACTAGTCAAT
*
193680182 ACTCACTTTAATTTACTAGTCAAT
1 ACTCACATTAATTTACTAGTCAAT
193680206 ACTCACA
1 ACTCACA
193680213 ATATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.36
Consensus pattern (24 bp):
ACTCACATTAATTTACTAGTCAAT
Found at i:193686222 original size:40 final size:40
Alignment explanation
Indices: 193686161--193686304 Score: 162
Period size: 42 Copynumber: 3.5 Consensus size: 40
193686151 CGATATCTCA
* * *
193686161 CACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
* * *
193686201 CACACTAAGTGCCATATATAGCCGAAGCTATGTGAAATCTCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA--TCG
* **
193686243 CACACTAAGGGCCATATATAGCCGAAGCTATCTCGATCTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTC-AAATCG
* *
193686284 CACACTAAGTGCTACATATAG
1 CACACTAAGTGCCATATATAG
193686305 TTGATTCACC
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
40 32 0.37
41 20 0.23
42 33 0.38
43 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCG
Found at i:193686260 original size:42 final size:42
Alignment explanation
Indices: 193686155--193686304 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 42
193686145 CATAATCGAT
* * *
193686155 ATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCAA
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
* * *
193686197 A--TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTGAA
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
* *
193686237 ATCTCACACACTAAGGGCCATATATAGCCGAAGCTATCTC-G
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
* * *
193686278 ATCTCGCACACTAAGTGCTACATATAG
1 ATCTCACACACTAAGTGCCATATATAG
193686305 TTGATTCACC
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
40 34 0.37
41 23 0.25
42 34 0.37
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
Found at i:193690844 original size:40 final size:39
Alignment explanation
Indices: 193690679--193690862 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
193690669 AAATTGAATG
* * *
193690679 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
193690719 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
193690759 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
193690799 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
193690838 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
193690863 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:193690887 original size:80 final size:81
Alignment explanation
Indices: 193690719--193690907 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
193690709 GCTGGAAATT
* * * *
193690719 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
193690784 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
193690800 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
193690863 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
193690879 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
193690908 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:193698960 original size:40 final size:39
Alignment explanation
Indices: 193698795--193698978 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
193698785 AAATTGAATG
* * *
193698795 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
193698835 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
193698875 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
193698915 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
193698954 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
193698979 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:193699003 original size:80 final size:81
Alignment explanation
Indices: 193698835--193699023 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
193698825 GCTGGAAATT
* * * *
193698835 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
193698900 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
193698916 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
193698979 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
193698995 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
193699024 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:193708349 original size:78 final size:78
Alignment explanation
Indices: 193708241--193708536 Score: 452
Period size: 78 Copynumber: 3.8 Consensus size: 78
193708231 CGAAGAAACA
* *
193708241 GATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
193708306 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
193708319 GATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
193708384 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
193708397 GATTTGGCATCTCTATATTAGACTGG-GAGTAGATAGAAGACATAACAGAT-TGGACCTTCATTG
1 GATTTGGCATCTCTATATTAGAC-GGAGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTG
193708460 AAGCAGATCCAAGAT
64 AAGCAGATCCAAGAT
* * *
193708475 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATT
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATT
193708537 TGTTTACATC
Statistics
Matches: 196, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 3 0.02
78 190 0.97
79 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:193708697 original size:89 final size:89
Alignment explanation
Indices: 193708568--193708734 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
193708558 AAGATGACAT
* *
193708568 ATTTGGCATCTCTGTATTAGACGAGGAGCAAATTGGAGATAACAGATTTGGCATCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
193708633 ACGGGGAGCAGATTGAAAAAGCAG
66 ACGGGGAGCAGATTGAAAAAGCAG
* * * * **
193708657 ATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCGAAGATAACAGATTTGGTGTCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
193708722 ACGGGGAGCAGAT
66 ACGGGGAGCAGAT
193708735 CAAAGATAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
ACGGGGAGCAGATTGAAAAAGCAG
Found at i:193708735 original size:45 final size:45
Alignment explanation
Indices: 193708475--193708748 Score: 252
Period size: 45 Copynumber: 6.1 Consensus size: 45
193708465 GATCCAAGAT
* * *
193708475 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
193708522 GATCTGACCTTCATTTGT-TTACATC--GAAGCAGATCCAAGATGACA
1 GATTTG-GCATC-TCTGTATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * * *
193708567 TATTTGGCATCTCTGTATTAGACGAGGAGCAAATTGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
193708612 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAA-A-AAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAA-CA
* *
193708656 GATTTGGCGTCTCTGTATTAGACGGGGAGTAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** * *
193708701 GATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
193708746 GAT
1 GAT
193708749 ATCGCCTTCC
Statistics
Matches: 185, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
43 7 0.04
44 45 0.24
45 103 0.56
46 2 0.01
47 16 0.09
48 7 0.04
49 5 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:193709118 original size:14 final size:15
Alignment explanation
Indices: 193709099--193709154 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
193709089 AATCTTCAAT
193709099 GATATG-CAATCTTA
1 GATATGACAATCTTA
193709113 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
193709130 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
193709148 GATATGA
1 GATATGA
193709155 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:193709143 original size:35 final size:37
Alignment explanation
Indices: 193709097--193709175 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
193709087 ATAATCTTCA
193709097 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
193709133 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
193709169 A-GATATG
1 ATGATATG
193709176 ATTTTATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:193709175 original size:17 final size:19
Alignment explanation
Indices: 193709097--193709168 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
193709087 ATAATCTTCA
193709097 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
193709116 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
193709133 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
193709151 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
193709169 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:193709479 original size:16 final size:17
Alignment explanation
Indices: 193709458--193709490 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
193709448 TGTTTCCCTG
*
193709458 ATTTTTTTAT-ATTTTA
1 ATTTTTTAATAATTTTA
193709474 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
193709491 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:193720782 original size:24 final size:24
Alignment explanation
Indices: 193720755--193720873 Score: 202
Period size: 24 Copynumber: 4.8 Consensus size: 24
193720745 GCTGGAAATA
193720755 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193720779 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193720803 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193720827 TATGGCACTATGTGTGCGATTCTATGC
1 TATGGCACTATGTGTGCGATT-TA--C
193720854 TATGGCGACTATGTGTGCGA
1 TATGGC-ACTATGTGTGCGA
193720874 ACATAATAAG
Statistics
Matches: 91, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
24 69 0.76
25 2 0.02
27 7 0.08
28 13 0.14
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:193720887 original size:52 final size:48
Alignment explanation
Indices: 193720755--193720895 Score: 158
Period size: 48 Copynumber: 2.9 Consensus size: 48
193720745 GCTGGAAATA
** * *
193720755 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTAC
** * *
193720803 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCTATGC
1 TATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT-TA--C
193720854 TATGGCGACTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 TATGGC-ACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
193720896 CACATTCGGT
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
48 45 0.54
49 2 0.02
51 7 0.08
52 25 0.30
53 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATTTAC
Found at i:193728735 original size:22 final size:24
Alignment explanation
Indices: 193728639--193728751 Score: 212
Period size: 24 Copynumber: 4.8 Consensus size: 24
193728629 GCTGGAAATA
193728639 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193728663 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193728687 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193728711 TATGGCACTATGTGTGCGA-TT-C
1 TATGGCACTATGTGTGCGATTTAC
193728733 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
193728752 ACATAATAAG
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
22 20 0.22
23 2 0.02
24 67 0.75
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:193736546 original size:24 final size:24
Alignment explanation
Indices: 193736519--193736609 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
193736509 GCTGGAAATA
193736519 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
193736543 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
193736567 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
193736591 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
193736610 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:193736623 original size:48 final size:48
Alignment explanation
Indices: 193736518--193736631 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
193736508 TGCTGGAAAT
* * **
193736518 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
193736566 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
193736615 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
193736632 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:193739424 original size:40 final size:40
Alignment explanation
Indices: 193739358--193739524 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
193739348 AAATTGAATG
* * *
193739358 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
193739397 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
193739437 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
193739477 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
193739517 ATATCCGG
1 ATATCCGG
193739525 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:193747429 original size:40 final size:40
Alignment explanation
Indices: 193747363--193747529 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
193747353 AAATTGAATG
* * *
193747363 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
193747402 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
193747442 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
193747482 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
193747522 ATATCCGG
1 ATATCCGG
193747530 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:193756467 original size:46 final size:46
Alignment explanation
Indices: 193756415--193756542 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
193756405 GGTTGAGCAT
* * *
193756415 CCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
193756461 CTGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
193756507 CCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
193756543 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:193762523 original size:40 final size:39
Alignment explanation
Indices: 193762429--193762536 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
193762419 ATAATCAAGT
* *
193762429 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
* *
193762469 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAG-AACAACTA
*
193762509 GCACAATTGTCTTCGGG-CTTAGCCCGGA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGA
193762537 CATCATTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 14 0.23
40 46 0.77
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
Found at i:193763384 original size:17 final size:19
Alignment explanation
Indices: 193763361--193763406 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
193763351 AAGAAGCATG
193763361 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
193763379 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
193763397 AATCATGCTC
1 AATCATGCTC
193763407 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:193770417 original size:40 final size:40
Alignment explanation
Indices: 193770372--193770498 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
193770362 CGGAATATAA
193770372 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
193770412 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
193770452 CCGGATGTAGCCACTAGCACAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
193770491 CCGGATAT
1 CCGGATAT
193770499 CATTCAATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 14 0.19
40 59 0.81
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:193771343 original size:17 final size:19
Alignment explanation
Indices: 193771320--193771365 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
193771310 AAGAAGCATG
193771320 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
193771338 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
193771356 AATCATGCTC
1 AATCATGCTC
193771366 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:193781194 original size:21 final size:22
Alignment explanation
Indices: 193781154--193781199 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
193781144 TACACAGCCG
193781154 TGTGCCTCCTCTCACATGGGCA
1 TGTGCCTCCTCTCACATGGGCA
*
193781176 TGTGCCTCCT-TCACTTGGGCA
1 TGTGCCTCCTCTCACATGGGCA
193781197 TGT
1 TGT
193781200 TTCGGAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.11, C:0.33, G:0.24, T:0.33
Consensus pattern (22 bp):
TGTGCCTCCTCTCACATGGGCA
Found at i:193782613 original size:10 final size:10
Alignment explanation
Indices: 193782598--193782626 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
193782588 AAATCTAGAG
193782598 TTTTCTTCAA
1 TTTTCTTCAA
193782608 TTTTCTTCAA
1 TTTTCTTCAA
193782618 TTTTCTTCA
1 TTTTCTTCA
193782627 TCTTCTCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTCTTCAA
Found at i:193783512 original size:52 final size:52
Alignment explanation
Indices: 193783434--193783633 Score: 182
Period size: 52 Copynumber: 3.9 Consensus size: 52
193783424 GACGGAAAAG
* * * *
193783434 ATGTGATATATGATTCGGTATAAGACCATAGCCGGGCTATGGCATCGGTACA
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
* * ***
193783486 ATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTAGGTTATGGCATCGGTGTG
1 ATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
*
193783538 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT---
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
* * * * *
193783588 A--TGATATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGT
193783634 GTGTGATGTG
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
46 29 0.23
47 6 0.05
48 4 0.03
50 1 0.01
51 3 0.02
52 46 0.37
53 34 0.27
54 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
Found at i:193783580 original size:53 final size:52
Alignment explanation
Indices: 193783433--193783592 Score: 189
Period size: 52 Copynumber: 3.1 Consensus size: 52
193783423 TGACGGAAAA
* * * * *
193783433 GATGTGATATATGATTCGGTATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
* * * *
193783485 AATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTAGGTTATGGCATCGGTGT
1 GATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
*
193783537 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
193783590 GAT
1 GAT
193783593 ATGTGATCCG
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
51 3 0.03
52 46 0.51
53 38 0.42
54 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
Found at i:193789978 original size:10 final size:10
Alignment explanation
Indices: 193789963--193789991 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
193789953 AAATCTAGAG
193789963 TTTTCTTCAA
1 TTTTCTTCAA
193789973 TTTTCTTCAA
1 TTTTCTTCAA
193789983 TTTTCTTCA
1 TTTTCTTCA
193789992 TCTTCTCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTCTTCAA
Found at i:193790909 original size:52 final size:52
Alignment explanation
Indices: 193790801--193790953 Score: 157
Period size: 52 Copynumber: 2.9 Consensus size: 52
193790791 GACGAAAAAG
* * ** * *
193790801 ATGTGATATATGATTCGGTATAAGACCATAGCCAGGCTATGGCATCGGTACA
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGCACA
* ***
193790853 ATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTGGGTTATGGCATCGGCGTG
1 ATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGATATGGCATCGGCACA
* *
193790905 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGG
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGG
193790954 TATGTGATCC
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
51 3 0.04
52 45 0.54
53 33 0.39
54 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGCACA
Found at i:193791771 original size:20 final size:20
Alignment explanation
Indices: 193791746--193791798 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
193791736 TGCACATGGG
193791746 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
* *
193791766 CAGGCCACACGGACGTGTTC
1 CAGGCCACACGGGCATGTTC
193791786 CAGGCCACACGGG
1 CAGGCCACACGGG
193791799 TGTAATATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.36, G:0.32, T:0.11
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:193792768 original size:46 final size:46
Alignment explanation
Indices: 193792622--193792791 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
193792612 GGTTGAGCAT
* *
193792622 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * * *
193792667 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAACGC
193792711 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
193792759 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
193792792 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 2 0.02
45 29 0.28
46 68 0.65
47 2 0.02
48 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:193792786 original size:92 final size:91
Alignment explanation
Indices: 193792618--193792786 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 91
193792608 GGATGGTTGA
* *
193792618 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
193792683 GAGTCCGAGTTCGTGAATGTAACTAG
66 GAGTCCGAGTTCGTGAATGTAACTAG
*
193792709 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
193792774 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
193792787 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 34 0.46
92 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAATGTAACTAG
Found at i:193800632 original size:37 final size:37
Alignment explanation
Indices: 193800573--193800681 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
193800563 AGCTCAGATG
* *
193800573 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
193800610 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
193800647 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
193800682 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:193800886 original size:48 final size:48
Alignment explanation
Indices: 193800822--193801649 Score: 1390
Period size: 48 Copynumber: 17.0 Consensus size: 48
193800812 ATATACACAC
* *
193800822 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
193800870 ATCTCATGCATGTTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
193800918 ATCTCATATATATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193800968 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
193801016 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801064 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801114 ATCTCAT--ATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
193801160 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801208 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801258 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801306 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
193801356 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801404 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801454 ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
193801502 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
193801550 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
193801600 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
193801648 AT
1 AT
193801650 ATTTATCTTG
Statistics
Matches: 739, Mismatches: 27, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
46 45 0.06
48 417 0.56
50 277 0.37
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:193800983 original size:146 final size:146
Alignment explanation
Indices: 193800822--193801649 Score: 1425
Period size: 146 Copynumber: 5.7 Consensus size: 146
193800812 ATATACACAC
* * * *
193800822 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATGCATGTTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
193800887 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
193800952 TTTACCACATATACAT
131 TTTACCACATATACAT
*
193800968 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
193801033 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
193801098 TTTACCACATATACAT
131 TTTACCACATATACAT
*
193801114 ATCTCAT--ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
193801177 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
193801242 TTTACCACATATACAT
131 TTTACCACATATACAT
* *
193801258 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
*
193801323 CACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCG
64 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCG
193801386 GCTTTACCACATATACAT
129 GCTTTACCACATATACAT
*
193801404 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
* *
193801469 CACATTAACCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCG
64 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCG
193801532 GCTTTACCACATATACAT
129 GCTTTACCACATATACAT
*
193801550 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
193801615 CACATTAGCCATTCGGCTTTACCACATATACATAT
64 CACATTAGCCATTCGGCTTTACCACATATACATAT
193801650 ATTTATCTTG
Statistics
Matches: 658, Mismatches: 18, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
144 142 0.22
146 423 0.64
148 93 0.14
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (146 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
TTTACCACATATACAT
Found at i:193800984 original size:98 final size:96
Alignment explanation
Indices: 193800822--193801649 Score: 1390
Period size: 98 Copynumber: 8.5 Consensus size: 96
193800812 ATATACACAC
* * * * *
193800822 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATGCATGTTTCA
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
193800887 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
193800918 ATCTCATATATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
193800983 CACATTAGCCATTCGGCTTTACCATATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
193801016 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
193801081 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
*
193801114 ATCTC--ATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
193801177 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
193801208 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
193801273 CACATTAGCCATTCAGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
193801306 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
193801371 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
193801404 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
193801469 CACATTAACCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
193801502 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
193801567 CACATTAGCCATTCGGCTTTACCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
*
193801600 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
193801650 ATTTATCTTG
Statistics
Matches: 700, Mismatches: 22, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
94 47 0.07
96 142 0.20
98 511 0.73
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (96 bp):
ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:193834529 original size:93 final size:93
Alignment explanation
Indices: 193834370--193834541 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
193834360 CGCCCATAAG
* * * * * *
193834370 CGAACTCAGACTCAACTCAAGGAGCTCGGGCGTTTGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
193834435 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
193834463 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
193834528 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
193834542 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:193834531 original size:46 final size:45
Alignment explanation
Indices: 193834363--193834535 Score: 145
Period size: 46 Copynumber: 3.8 Consensus size: 45
193834353 TGTAACCCGC
* * * * * *
193834363 CCATAAGCGAACTCAGACTCAACTCAAGGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGAC-ATTGCAT
* * * *
193834409 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTGCAT
* *
193834459 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATT-GCAT
*
193834502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
193834536 GGATGCTCAA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 55 0.55
47 26 0.26
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTGCAT
Found at i:193834557 original size:46 final size:44
Alignment explanation
Indices: 193834415--193834557 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 44
193834405 GCATCCATAG
*
193834415 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-A
* * * * *
193834463 -CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTC-G-GATGC-CAACCATCTA
193834508 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTA
193834554 GTGA
1 GTGA
193834558 CATGTCACTT
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.40
47 29 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTA
Found at i:193836979 original size:15 final size:15
Alignment explanation
Indices: 193836924--193837001 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
193836914 CAAAGATAAC
*
193836924 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
193836938 AAGAAATCCA-AGAT-
1 AAGAAATCCAGA-ATA
* *
193836952 -AGAAAACCCGAATA
1 AAGAAATCCAGAATA
193836966 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
193836981 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
193836996 AAGAAA
1 AAGAAA
193837002 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 9 0.18
14 10 0.20
15 32 0.63
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:193837010 original size:15 final size:15
Alignment explanation
Indices: 193836935--193837010 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
193836925 AGAAAACCGA
193836935 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
193836950 ATAGA-AAACCCGA-
1 ATAAAGAAATCCAAG
193836963 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
193836977 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
193836993 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
193837008 ATA
1 ATA
193837011 CGATACTATG
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
13 5 0.11
14 11 0.23
15 30 0.64
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:193839972 original size:44 final size:46
Alignment explanation
Indices: 193839908--193840034 Score: 213
Period size: 44 Copynumber: 2.8 Consensus size: 46
193839898 TGTAACCCGC
* * *
193839908 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
193839953 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
193839998 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
193840035 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
44 33 0.43
45 12 0.16
46 32 0.42
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:193840053 original size:46 final size:46
Alignment explanation
Indices: 193839913--193840053 Score: 150
Period size: 44 Copynumber: 3.1 Consensus size: 46
193839903 CCCGCCCATA
* *
193839913 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT--TGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCATCCATCC-T
* * *
193839957 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCATCCATCCT
*
193840003 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCCATCCT
193840049 AGTGA
1 AGTGA
193840054 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
44 39 0.49
46 36 0.45
48 1 0.01
49 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCCATCCT
Found at i:193845830 original size:49 final size:49
Alignment explanation
Indices: 193845770--193846119 Score: 527
Period size: 49 Copynumber: 7.3 Consensus size: 49
193845760 GTATGAGATA
193845770 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
193845819 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
193845866 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
193845915 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
193845964 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
193846013 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
193846060 --TATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
193846105 TATAAATGTGATAAG
1 TATATATGTGATAAG
193846120 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
45 39 0.14
47 59 0.21
49 182 0.65
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:193845874 original size:96 final size:96
Alignment explanation
Indices: 193845768--193846119 Score: 532
Period size: 96 Copynumber: 3.7 Consensus size: 96
193845758 ATGTATGAGA
193845768 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
193845833 GGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAG
193845864 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
193845929 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAA--G
* * * *
193845962 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTGTATATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
*
193846027 GGCCTAATGGCCAATGTGATGAATGTGAAAG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * * *
193846058 --TGTATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTGTATAAATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
193846119 G
66 G
193846120 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 17, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
92 16 0.07
94 34 0.14
96 96 0.41
98 91 0.38
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:193846016 original size:145 final size:144
Alignment explanation
Indices: 193845770--193846119 Score: 530
Period size: 145 Copynumber: 2.4 Consensus size: 144
193845760 GTATGAGATA
193845770 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* *
193845835 CCTAATGGCCGATGTGATGAATGTGAAAGT-ATATATATGTGATAAGGCCTAATGGCCGATGTGA
66 CCTAATGGCCGATGTGATGAATGAGAAAGTAATATATATGTGATAAGGCCTAATGGCCAATGTGA
193845899 TGAATGTGAAAGTGTG
131 TGAATGTGAAA--GTG
193845915 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* *
193845980 CCTAATGGCCGATGTGATGAATGAGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
66 CCTAATGGCCGATGTGATGAATGAGAAAGT-AATATATATGTGATAAGGCCTAATGGCCAATGTG
193846045 ATGAATGTGAAAGTG
130 ATGAATGTGAAAGTG
* * * * * * * *
193846060 --TATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAG
193846120 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
141 17 0.09
143 35 0.18
145 96 0.50
147 44 0.23
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (144 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGAGAAAGTAATATATATGTGATAAGGCCTAATGGCCAATGTGA
TGAATGTGAAAGTG
Found at i:193854857 original size:40 final size:40
Alignment explanation
Indices: 193854767--193854985 Score: 227
Period size: 40 Copynumber: 5.5 Consensus size: 40
193854757 CTCAAGTAAT
* * * *
193854767 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
193854805 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
193854845 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
193854885 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
193854925 CTTC--GATCTTAG-TCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
193854964 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
193854986 CATTCGAATA
Statistics
Matches: 148, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
38 21 0.14
39 36 0.24
40 83 0.56
41 8 0.05
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:193854977 original size:119 final size:118
Alignment explanation
Indices: 193854767--193854985 Score: 291
Period size: 119 Copynumber: 1.8 Consensus size: 118
193854757 CTCAAGTAAT
* * * *
193854767 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
* *
193854832 CTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
193854885 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTC-GATCTTAG-TCGGTTATAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAG
193854947 TCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
63 TCA-CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
193854986 CATTCGAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
117 1 0.01
118 21 0.24
119 57 0.66
120 8 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:193854980 original size:79 final size:79
Alignment explanation
Indices: 193854803--193854985 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 79
193854793 CTTGCACAAG
*
193854803 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGATGCCTTC-GGACTTAGCCCGGATATA
* *
193854868 GTCGCTAGCACAAAT
65 GTCCCTAGCACAAAA
* * *
193854883 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCAC-GAATGCCTTC-GATCTTAG-TCGGTTA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAG-ATGCCTTCGGA-CTTAGCCCGGATA
193854944 TAGTCACCTAGCACAAAA
63 TAGTC-CCTAGCACAAAA
*
193854962 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
193854986 CATTCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
78 12 0.13
79 40 0.43
80 40 0.43
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGATGCCTTCGGACTTAGCCCGGATATAG
TCCCTAGCACAAAA
Found at i:193855704 original size:2 final size:2
Alignment explanation
Indices: 193855697--193855722 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
193855687 ATGTGCAAAC
193855697 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
193855723 GTGCAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:193858430 original size:29 final size:29
Alignment explanation
Indices: 193858396--193858498 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
193858386 TAATCAGCCG
** *
193858396 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
193858425 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
193858454 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
193858483 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
193858499 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:193865239 original size:79 final size:82
Alignment explanation
Indices: 193865099--193865283 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
193865089 TCGAATGATG
* * *
193865099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
193865163 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
193865179 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
193865241 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
193865259 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
193865284 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:193865291 original size:40 final size:40
Alignment explanation
Indices: 193865100--193865291 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
193865090 CGAATGATGT
* * * * *
193865100 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
193865140 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
193865180 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
193865219 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
193865259 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
193865292 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:193865314 original size:79 final size:79
Alignment explanation
Indices: 193865099--193865316 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
193865089 TCGAATGATG
* * * * ** *
193865099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
193865162 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
193865179 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
193865244 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
193865259 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
193865317 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:193875155 original size:29 final size:29
Alignment explanation
Indices: 193875123--193875200 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
193875113 ATACCCTTCG
* * *
193875123 AGCACGCACACCCAGTGCCGTATTTTTCC
1 AGCATGCACACCCAGTGCCATATATTTCC
**
193875152 AGCATGCACACTTAGTGCCATATATTTCC
1 AGCATGCACACCCAGTGCCATATATTTCC
**
193875181 AGCATGCACACTTAGTGCCA
1 AGCATGCACACCCAGTGCCA
193875201 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
AGCATGCACACCCAGTGCCATATATTTCC
Found at i:193876413 original size:24 final size:24
Alignment explanation
Indices: 193876372--193876427 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
193876362 TTTTTTTCCT
193876372 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
193876397 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
193876420 TATTCTTT
1 T-TTCTTT
193876428 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Done.