Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 167 of 255
Found at i:54789798 original size:13 final size:13
Alignment explanation
Indices: 54789780--54789804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54789770 CTCAATGTGA
54789780 TCTGAATTTTGAT
1 TCTGAATTTTGAT
54789793 TCTGAATTTTGA
1 TCTGAATTTTGA
54789805 GTTAGTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TCTGAATTTTGAT
Found at i:54792428 original size:44 final size:43
Alignment explanation
Indices: 54792380--54792528 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
54792370 ATGTGTTTTT
* *
54792380 GTGTAAGACCACGTCTGGGACATTGGCATCGACATATGATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATC-ATATTTGATTTAC
*
54792424 GTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTT-T
1 GTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTTAC
* *
54792466 GTGTAAGACTCTA--TCTGGGATAGTGGCATCAATATTTGA-TTAC
1 GTGTAAGAC-C-ACGTCTGGGACATTGGCATC-ATATTTGATTTAC
* *
54792509 ATGTAAGACCACGTTTGGGA
1 GTGTAAGACCACGTCTGGGA
54792529 TGTTCACATT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.30
43 32 0.35
44 31 0.34
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTTAC
Found at i:54792515 original size:43 final size:42
Alignment explanation
Indices: 54792393--54792517 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 42
54792383 TAAGACCACG
* * * *
54792393 TCTGGGACATTGGCATCGACATATGATTTACGTGTAAGAC-C-A
1 TCTGGGACAGTGGCATC-ATATTTGA-TTACATGTAAGACTCTA
* ***
54792435 CGTCTGGGACATTGGCATCATATTTGATTTTGTGTAAGACTCTA
1 --TCTGGGACAGTGGCATCATATTTGATTACATGTAAGACTCTA
*
54792479 TCTGGGATAGTGGCATCAATATTTGATTACATGTAAGAC
1 TCTGGGACAGTGGCATC-ATATTTGATTACATGTAAGAC
54792518 CACGTTTGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.38
43 25 0.36
44 18 0.26
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TCTGGGACAGTGGCATCATATTTGATTACATGTAAGACTCTA
Found at i:54794573 original size:40 final size:40
Alignment explanation
Indices: 54794483--54794702 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
54794473 ACCCAAGCAT
* * ** * *
54794483 CTTCGGAATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
54794521 CTTCAGGTCTTAGCCCGGATATGGTCATTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
54794561 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
54794601 CTTCGGGTCTTAGCCCGGATATAGTAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACT-AGCACAAATGC
* * * *
54794641 CTTC-GGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
54794681 CTTTGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
54794703 CATTCGAATA
Statistics
Matches: 144, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
38 9 0.06
39 17 0.12
40 114 0.79
41 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:54801077 original size:93 final size:93
Alignment explanation
Indices: 54800964--54801136 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
54800954 TGCCCATAAG
* *
54800964 CGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAGATTCAACTC
1 CGAACTCGGACTCAACTCAATGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
54801028 AACGAGCTT-GGATGCCTAGTTACATCTCA
65 AACGAG-TTCGGATGCCTAGTTACATCTCA
* *
54801057 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
54801122 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
54801137 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54801112 original size:46 final size:46
Alignment explanation
Indices: 54800957--54801132 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 46
54800947 TGTAACCTGC
* * *
54800957 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * * *
54801003 CCATAAGTGAACTCAGATTCAACTCAACGAGCTT-GGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGA---C-A-TTCGCAT
* *
54801053 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
54801096 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54801133 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.56
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54805814 original size:46 final size:46
Alignment explanation
Indices: 54805651--54805826 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
54805641 TGTAACCCGC
* * *
54805651 CCATAAGCGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
54805697 CCATAAGTGAACT-GAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCG-GACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
54805747 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
54805790 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
54805827 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 60 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54805817 original size:93 final size:93
Alignment explanation
Indices: 54805658--54805830 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
54805648 CGCCCATAAG
* * *
54805658 CGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTGAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTGAGACTCAACTCA
54805723 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
54805751 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCG-GACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACT-GAGACTCAACTC
*
54805815 AACGAGTTCGGATGCC
65 AACGAGCTCGGATGCC
54805831 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTGAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:54808572 original size:9 final size:9
Alignment explanation
Indices: 54808556--54808589 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
54808546 GATCAAGTAA
54808556 AATTAAATT
1 AATTAAATT
*
54808565 AGTTAAATT
1 AATTAAATT
*
54808574 AATCAAATT
1 AATTAAATT
54808583 AATTAAA
1 AATTAAA
54808590 ATAAATATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (9 bp):
AATTAAATT
Found at i:54812408 original size:28 final size:28
Alignment explanation
Indices: 54812349--54812410 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 28
54812339 TTACCTAAAC
54812349 CCCCTATATATGGTAAATGACTATTTTT
1 CCCCTATATATGGTAAATGACTATTTTT
54812377 -CCCT-TATATGGTAAGATGACT-TTTTT
1 CCCCTATATATGGTAA-ATGACTATTTTT
54812403 GCCCCTAT
1 -CCCCTAT
54812411 GTGTGTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
26 15 0.50
27 10 0.33
28 4 0.13
29 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (28 bp):
CCCCTATATATGGTAAATGACTATTTTT
Found at i:54821643 original size:35 final size:35
Alignment explanation
Indices: 54821497--54821640 Score: 137
Period size: 35 Copynumber: 4.1 Consensus size: 35
54821487 AGGTATGTAC
* * *
54821497 ATATGTGATGATGTATTGAACTTTTATATTTGGCT
1 ATATGTGATGATATATTGAACTTGTATATTCGGCT
* * * * * *
54821532 ACATGTGATGTTATATTAAATTTGAATATTCGACT
1 ATATGTGATGATATATTGAACTTGTATATTCGGCT
* * * *
54821567 ACATGTGATGTTTTAATGAACTTGTATATTCGG-T
1 ATATGTGATGATATATTGAACTTGTATATTCGGCT
* *
54821601 CATATATGATGATATATTGTACTTGTATATTCGGCT
1 -ATATGTGATGATATATTGAACTTGTATATTCGGCT
54821637 ATAT
1 ATAT
54821641 ATGTGAGGAT
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
34 1 0.01
35 84 0.98
36 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.45
Consensus pattern (35 bp):
ATATGTGATGATATATTGAACTTGTATATTCGGCT
Found at i:54828872 original size:22 final size:22
Alignment explanation
Indices: 54828832--54828873 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
54828822 AGCATTCCAT
*
54828832 AACTCAAGATAATATAAAAAAA
1 AACTCAAGATAAAATAAAAAAA
*
54828854 AACTC-AGATAAAATCAAAAA
1 AACTCAAGATAAAATAAAAAA
54828874 TCATGCTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (22 bp):
AACTCAAGATAAAATAAAAAAA
Found at i:54828987 original size:30 final size:30
Alignment explanation
Indices: 54828953--54829014 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
54828943 TATGGAAAAG
54828953 ATTGAAACATACTTGGAAATTTAAAAATTT
1 ATTGAAACATACTTGGAAATTTAAAAATTT
54828983 ATTGAAACATACTTGGAAATTTAAAAATTT
1 ATTGAAACATACTTGGAAATTTAAAAATTT
54829013 AT
1 AT
54829015 GCAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTGAAACATACTTGGAAATTTAAAAATTT
Found at i:54839278 original size:21 final size:21
Alignment explanation
Indices: 54839244--54839283 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
54839234 TTCACAATCA
* *
54839244 AAAGTCATACATCATCATATC
1 AAAGTCAAACATCAACATATC
*
54839265 AAAGTCAAATATCAACATA
1 AAAGTCAAACATCAACATA
54839284 AGGTCCCTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAGTCAAACATCAACATATC
Found at i:54840821 original size:27 final size:27
Alignment explanation
Indices: 54840790--54841075 Score: 215
Period size: 27 Copynumber: 10.7 Consensus size: 27
54840780 TTAGAATACT
**
54840790 TTAGTTTACCAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* *
54840817 TTAGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
*
54840844 TTGGTTTATAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* *
54840871 CTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * **
54840898 CTAGTTTGTAAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * **
54840925 CT-GATTTGTAAAATTACTGAAATACTCC
1 TTAG-TTTATAAAATTACCAAAATAC-CC
* *
54840953 TGA-TTTACAAAATTACCAAAATACCTC
1 TTAGTTTATAAAATTACCAAAATACC-C
* * **
54840980 TGA-TTTGTAAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * *
54841006 TGA-TTTGTAAAATTACTAAAATA-CC
1 TTAGTTTATAAAATTACCAAAATACCC
* * * *
54841031 TTCGACTTATACAATTACCAAAGTACCC
1 TTAG-TTTATAAAATTACCAAAATACCC
* * *
54841059 -CAATTTACAAAATTACC
1 TTAGTTTATAAAATTACC
54841076 GTTTTACCCT
Statistics
Matches: 216, Mismatches: 36, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.01
26 36 0.17
27 173 0.80
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
TTAGTTTATAAAATTACCAAAATACCC
Found at i:54840865 original size:54 final size:53
Alignment explanation
Indices: 54840800--54841030 Score: 279
Period size: 54 Copynumber: 4.3 Consensus size: 53
54840790 TTAGTTTACC
* *
54840800 AAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC-TGATTTATA
* *
54840854 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATA-CCCTGA-TTTATA
** * *
54840908 AAATTACTGAAATACCCCT-GATTTGTAAAATTACTGAAATACTCCTGATTTACA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATAC-CCTGATTTATA
* * *
54840962 AAATTACCAAAATACCTCT-GATTTGTAAAATTACTGAAATACCCTGATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTGATTTATA
*
54841015 AAATTACTAAAATACC
1 AAATTACCAAAATACC
54841031 TTCGACTTAT
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
53 26 0.17
54 126 0.81
55 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTGATTTATA
Found at i:54840937 original size:81 final size:81
Alignment explanation
Indices: 54840794--54841030 Score: 327
Period size: 81 Copynumber: 2.9 Consensus size: 81
54840784 AATACTTTAG
* * * * * *
54840794 TTTACCAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
*
54840859 ACCAAAATACCCCT-A
66 ACTAAAATACCCCTGA
**
54840874 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
1 -TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
* *
54840939 TACTGAAATACTCCTGA
65 TACTAAAATACCCCTGA
*
54840956 TTTACAAAATTACCAAAATACCTCT-GATTTGTAAAATTACTGAAATA-CCCTGATTTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
54841019 TACTAAAATACC
65 TACTAAAATACC
54841031 TTCGACTTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 27 0.20
81 110 0.80
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
ACTAAAATACCCCTGA
Found at i:54841111 original size:27 final size:27
Alignment explanation
Indices: 54840800--54841112 Score: 203
Period size: 27 Copynumber: 11.7 Consensus size: 27
54840790 TTAGTTTACC
* * *
54840800 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
** * *
54840827 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* * *
54840854 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* * *
54840881 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* *
54840908 AAATTACTGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTATA
* *
54840935 AAATTACTGAAATACTCCT-GATTTACA
1 AAATTACCGAAATAC-CCTCGATTTATA
* *
54840962 AAATTACCAAAATA-CCTCTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTATA
* *
54840989 AAATTACTGAAATACCCT-GATTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
** * *
54841015 AAATTACTAAAATACCTTCGACTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* * *
54841042 CAATTACC-AAAGTACCC-CAATTTACA
1 AAATTACCGAAA-TACCCTCGATTTATA
*** *
54841068 AAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
*
54841095 AAATTACCGAAACACCCT
1 AAATTACCGAAATACCCT
54841113 TATAAGGTAG
Statistics
Matches: 235, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.01
26 45 0.19
27 181 0.77
28 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTATA
Found at i:54841126 original size:27 final size:27
Alignment explanation
Indices: 54841096--54841237 Score: 126
Period size: 27 Copynumber: 5.3 Consensus size: 27
54841086 CGATTTACAA
* *
54841096 AATTACCGAAACACCCTTATAAGG-TAG
1 AATTACCGAAATACCCTTGT-AGGATAG
*
54841123 AATTACTGAAATATCCC-TGTAGGATAG
1 AATTACCGAAATA-CCCTTGTAGGATAG
* *
54841150 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGATAG
* * * *
54841177 AAATACCAAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCTTGTAGGATAG
* * * * *
54841204 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGATAG
54841231 AATTACC
1 AATTACC
54841238 ATTTTGCCCT
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 6 0.06
27 84 0.90
28 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGATAG
Found at i:54841218 original size:54 final size:54
Alignment explanation
Indices: 54841096--54841238 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
54841086 CGATTTACAA
* * * * ** *
54841096 AATTACCGAAACACCCTTATAAGGTAGAATTACTGAAATATCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
* *
54841150 AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
* * *
54841204 AATTACCGAGATACCTTTGTGGGGTA-AAATTACCA
1 AATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
54841239 TTTTGCCCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
53 3 0.04
54 72 0.96
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
Found at i:54841961 original size:67 final size:67
Alignment explanation
Indices: 54841853--54842025 Score: 328
Period size: 67 Copynumber: 2.6 Consensus size: 67
54841843 GGAAGCGTTC
54841853 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
54841918 TT
66 TT
*
54841920 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
54841985 TT
66 TT
*
54841987 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATA
54842026 CATATATCTG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 104 1.00
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
TT
Found at i:54842245 original size:6 final size:6
Alignment explanation
Indices: 54842206--54842330 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
54842196 TTGCATTCAC
* * * * *
54842206 ATTCTA ATTCTA ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
54842256 ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG TTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
54842305 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
54842331 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 15, Indels: 22
0.72 0.12 0.17
Matches are distributed among these distances:
5 6 0.06
6 75 0.81
7 8 0.09
8 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:54842246 original size:25 final size:25
Alignment explanation
Indices: 54842212--54842270 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
54842202 TCACATTCTA
* * *
54842212 ATTCTAATTCTATTACCTGATACTG
1 ATTCTGATTCTATCACCTAATACTG
* *
54842237 ATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTATCACCTAATACTG
54842262 ATTCTGATT
1 ATTCTGATT
54842271 TTGATTCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTATCACCTAATACTG
Found at i:54842259 original size:19 final size:19
Alignment explanation
Indices: 54842234--54842304 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
54842224 TTACCTGATA
54842234 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
* *
54842253 CTAATTCTGATTCTG--ATT
1 CTGATTCTGATTCTGTCA-C
*
54842271 TTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
*
54842290 CTGTTTCTGATTCTG
1 CTGATTCTGATTCTG
54842305 ATTCTCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 27 0.64
20 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTCAC
Found at i:54842269 original size:37 final size:37
Alignment explanation
Indices: 54842215--54842321 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
54842205 CATTCTAATT
*
54842215 CTAATTCT-ATTACCTGATACTGATTCTGATTCTGTCAC
1 CTAATTCTGATT--CTGATTCTGATTCTGATTCTGTCAC
*
54842253 CTAATTCTGATTCTGATTTTGATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
** * *
54842290 CTGTTTCTGATTCTGATTCTCATTTTGATTCT
1 CTAATTCTGATTCTGATTCTGATTCTGATTCT
54842322 AGTTCTGATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
37 50 0.82
38 8 0.13
39 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.49
Consensus pattern (37 bp):
CTAATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
Found at i:54843873 original size:43 final size:43
Alignment explanation
Indices: 54843701--54843873 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
54843691 AGTTCGTACA
* * * *
54843701 ATGCCAACGTCCGAGACGTAGTCTTACATGTAATCAAATATCA
1 ATGCCAACGTCCCAGACGTAGTCTTACACGAAATCAAATATCG
*
54843744 ATGCC-ACTGTCCCAGACAG-AGTCTTACACGAAATCAAACAT-G
1 ATGCCAAC-GTCCCAGAC-GTAGTCTTACACGAAATCAAATATCG
* * * * * *
54843786 ATGTCGATGTACCAGACAT-GATCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTAG-TCTTACACG-AAATC-AAATATCG
* * *
54843830 ATGCCAACGTCCCAGACGTGGTCCTACATGAAATCAAATATCG
1 ATGCCAACGTCCCAGACGTAGTCTTACACGAAATCAAATATCG
54843873 A
1 A
54843874 AATCCTATGT
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 50 0.49
44 25 0.25
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTAGTCTTACACGAAATCAAATATCG
Found at i:54852458 original size:43 final size:43
Alignment explanation
Indices: 54852338--54852494 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
54852328 TGTGTTCTCG
* *
54852338 TGTAAGACCACGTTTGGGATGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGATTT-CA
* * * *
54852382 TGTAAGACCATGTCTGAGACGTTGGCAT-TATATTTGATTTCA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTCA
*
54852424 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTTCA
*
54852467 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
54852495 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 26 0.27
43 44 0.46
44 25 0.26
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTCA
Found at i:54852492 original size:85 final size:86
Alignment explanation
Indices: 54852338--54852495 Score: 225
Period size: 85 Copynumber: 1.8 Consensus size: 86
54852328 TGTGTTCTCG
* *
54852338 TGTAAGACCACGTTTGGGATGTTGGCATCGACTTATGATTTACATGTAAGACCATGTCTGAGACG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGATTTACATGTAAGACCACGTCTGAGACG
54852403 TTGGCATTATATTTGATTTCA
66 TTGGCATTATATTTGATTTCA
* *
54852424 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGA-TATTTGA-TTACATGTAAGACCACGTCTGGG
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGACT-TATGATTTACATGTAAGACCACGTCTGAG
54852485 ACGTTGGCATT
63 ACGTTGGCATT
54852496 GTACGAGCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 34 0.52
86 30 0.46
87 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (86 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGATTTACATGTAAGACCACGTCTGAGACG
TTGGCATTATATTTGATTTCA
Found at i:54855451 original size:48 final size:49
Alignment explanation
Indices: 54855376--54855688 Score: 354
Period size: 48 Copynumber: 6.5 Consensus size: 49
54855366 AAAGTACAAA
* * * * * *
54855376 GCCATGTCCCCGACATGGTCTTGCATGAATC-CACATACCATCACCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGCTGAT
* *
54855424 GCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGCTGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGCTGAT
*
54855472 GCCATGTCCCAGACATGGTCTTACACTG--GCACACATATCATCACTGAT
1 GCCATGTCCCAGACATGGTCTTACA-TGAAGCACACATATCATCGCTGAT
* * * *
54855520 GCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGCTGAT
* *
54855568 GCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCGCTGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGCTGAT
* * * * *
54855616 GCCATGTCCCAGACATGGTTTTACA-CAGGCACATATACCATCG-TCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGCT-GAT
* *
54855664 GTCATGTCCCAAACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
54855689 CAGGCACATT
Statistics
Matches: 241, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
47 2 0.01
48 237 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACATGAAGCACACATATCATCGCTGAT
Found at i:54855689 original size:48 final size:48
Alignment explanation
Indices: 54855421--54855697 Score: 396
Period size: 48 Copynumber: 5.8 Consensus size: 48
54855411 TACCATCACC
* * ** *
54855421 GATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGCT
1 GATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCT
* * *
54855469 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACT
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCT
*
54855517 GATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCT
*
54855565 GATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCT
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCT
* *
54855613 GATGCCATGTCCCAGACATGGTTTTACACAGGCACATATACCATCG-T
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCT
* *
54855660 CGATGTCATGTCCCAAACATGGTCTTACACAGGCACAT
1 -GATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
54855698 TTAGCACGGT
Statistics
Matches: 209, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 2 0.01
48 207 0.99
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCT
Found at i:54867690 original size:22 final size:22
Alignment explanation
Indices: 54867662--54867718 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
54867652 TACTAGGCTC
54867662 ACACGCCCGTGTGGTCCGAGGG
1 ACACGCCCGTGTGGTCCGAGGG
*
54867684 ACACGCCCGTGTGGTTCGAGGG
1 ACACGCCCGTGTGGTCCGAGGG
*
54867706 ACACACCCGTGTG
1 ACACGCCCGTGTG
54867719 ACCCTAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.32, G:0.37, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCGAGGG
Found at i:54870204 original size:94 final size:95
Alignment explanation
Indices: 54869911--54870233 Score: 272
Period size: 94 Copynumber: 3.4 Consensus size: 95
54869901 TGGGTAAAGT
* * * * *
54869911 GCCGATGCCATGTCTCAGACATGGTCTTACATTGGCTA-TCATCTTCGA-GGCTGATGCCATGTC
1 GCCGATG-CATGTCTCAGACAT-GTCTTACACTAGC-ACACATC-TC-ATAGCCGATGCCATGTC
* *
54869974 CTAAACATGGTCTTACACTAGCTCTCACATAATCAT-
61 CTAGACATGGTCTTACACTAGCTCT-ACATAAT-GTG
* * *
54870010 GTCGATGCCATGTCTCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATG-CATGTCCCA
1 GCCGATG-CATGTCTCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCCATGTCCTA
* * * *** *
54870072 G-CAT-GTCTTATACTGGCT-TACGTCCCGAG
64 GACATGGTCTTACACTAGCTCTACATAATGTG
* * * *
54870101 GCTGATGCATGTCTTAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGCCATGTCCTAG
1 GCCGATGCATGTCTCAGACATGTCTTACACTAGCACACATCTCATA-GCCGATGCCATGTCCTAG
54870165 ACATGGTCTTACACTAGCTCT-CATAATGTG
65 ACATGGTCTTACACTAGCTCTACATAATGTG
* *
54870195 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 GCCGATGCATGTCTCAGACATGTCTTACACTAGCACACA
54870234 CAAATGACCC
Statistics
Matches: 178, Mismatches: 36, Indels: 25
0.74 0.15 0.10
Matches are distributed among these distances:
89 10 0.06
90 15 0.08
91 22 0.12
92 10 0.06
93 15 0.08
94 52 0.29
95 9 0.05
96 9 0.05
97 4 0.02
98 1 0.01
99 31 0.17
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
GCCGATGCATGTCTCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCCATGTCCTAGA
CATGGTCTTACACTAGCTCTACATAATGTG
Found at i:54870210 original size:139 final size:141
Alignment explanation
Indices: 54869911--54870221 Score: 341
Period size: 139 Copynumber: 2.2 Consensus size: 141
54869901 TGGGTAAAGT
* * * * *
54869911 GCCGATGCCATGTCTCAGACATGGTCTTACATTGGC-TATCATCTTCGAGGCTGATGCCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTATACTGGCTTA-CGTC-CCGAGGCTGATGCCATGTCC
* *
54869975 TAAACATGGTCTTACACTAGCTCTCACATAATCATGTCGATGCCATGTCTCAGACATGGTCTTAC
62 TAAACATGGTCTTACACTAGCACTCACATAA-CATGCCGATGCCATGTCTCAGACATGGTCTTAC
*
54870040 ACTGACACATCTCGTA
126 ACTGACACATATCGTA
* *
54870056 GCCGATGCATGTCCCAG-CATGTCTTATACTGGCTTACGTCCCGAGGCTGATG-CATGTCTTAGA
1 GCCGATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCCCGAGGCTGATGCCATGTCCTAAA
* *
54870119 CAT-GTCTTACACTAGCACTCGTC-TCA-ATGCCGATGCCATGTC-CTAGACATGGTCTTACACT
66 CATGGTCTTACACTAGCACTC-ACATAACATGCCGATGCCATGTCTC-AGACATGGTCTTACACT
* * *
54870180 AGCTCTCATAAT-GTG
129 -G-ACACAT-ATCGTA
54870195 GCCGATGCATGTCCCAGACATGTCTTA
1 GCCGATGCATGTCCCAGACATGTCTTA
54870222 CACTAGCTCA
Statistics
Matches: 144, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
136 1 0.01
137 32 0.22
138 1 0.01
139 41 0.28
140 23 0.16
141 11 0.08
142 14 0.10
143 5 0.03
144 9 0.06
145 7 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (141 bp):
GCCGATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCCCGAGGCTGATGCCATGTCCTAAA
CATGGTCTTACACTAGCACTCACATAACATGCCGATGCCATGTCTCAGACATGGTCTTACACTGA
CACATATCGTA
Found at i:54870230 original size:46 final size:49
Alignment explanation
Indices: 54869911--54870230 Score: 213
Period size: 46 Copynumber: 6.8 Consensus size: 49
54869901 TGGGTAAAGT
* * * * ** *
54869911 GCCGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
* * * *
54869960 GCTGATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATAATCAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATAATCGTG
* * * * * *
54870010 GTCGATGCCATGTCTCAGACATGGTCTTACACT-G-ACACAT-CTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
* * * ** *
54870056 GCCGATG-CATGTCCCAG-CAT-GTCTTATACTGGCT-TACGT-CCCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAATCGTG
* ** * * * *
54870101 GCTGATG-CATGTCTTAGACAT-GTCTTACACTAGCACTCGT-CTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATC-GTG
*
54870147 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
54870195 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
54870231 ACACAAATGA
Statistics
Matches: 213, Mismatches: 45, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
43 9 0.04
44 4 0.02
45 31 0.15
46 49 0.23
47 28 0.13
48 25 0.12
49 34 0.16
50 28 0.13
51 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
Found at i:54873779 original size:31 final size:29
Alignment explanation
Indices: 54873739--54873844 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 29
54873729 GATATTAAAT
*
54873739 TTAATTTAATACTTATCTAAATAGTATTTTA
1 TTAATTTAATA-TTATCTAGATA-TATTTTA
* * **
54873770 TTAAATTAATATTA-ATATGATATATTAAA
1 TTAATTTAATATTATCTA-GATATATTTTA
54873799 TTTAATTTAATATTTATCTAGATAATATTTTA
1 -TTAATTTAATA-TTATCTAGAT-ATATTTTA
54873831 TTAATTTAATATTA
1 TTAATTTAATATTA
54873845 ATGTGATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
29 7 0.11
30 19 0.31
31 27 0.44
32 8 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (29 bp):
TTAATTTAATATTATCTAGATATATTTTA
Found at i:54873782 original size:61 final size:61
Alignment explanation
Indices: 54873717--54873846 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 61
54873707 ATTTATCTAG
*
54873717 ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAGTATTTTATTAAATTA
1 ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAATATTTTATTAAATTA
* * * *
54873778 ATATTAATATGATATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAATATTTTATTAAATTA
54873839 ATATTAAT
1 ATATTAAT
54873847 GTGATTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAATATTTTATTAAATTA
Found at i:54876644 original size:7 final size:7
Alignment explanation
Indices: 54876632--54876664 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
54876622 AAATATATTT
*
54876632 TTTATAG
1 TTTATAA
54876639 TTTATAA
1 TTTATAA
54876646 TTTATAA
1 TTTATAA
54876653 TTTATAA
1 TTTATAA
54876660 TTTAT
1 TTTAT
54876665 TAATGTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (7 bp):
TTTATAA
Found at i:54878742 original size:40 final size:40
Alignment explanation
Indices: 54878687--54878767 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
54878677 ATCACTTGAA
54878687 AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
1 AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
*
54878727 AATTAAAAAAATTATATAAATTTCTAAGTGATGATATAAT
1 AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
54878767 A
1 A
54878768 TAATATTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (40 bp):
AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
Found at i:54878765 original size:20 final size:20
Alignment explanation
Indices: 54878700--54878765 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
54878690 TAAAAAAATT
54878700 ATATAAATTTCTAAGTGATG
1 ATATAAATTTCTAAGTGATG
* * * *** *
54878720 ATACAATAATT-AAAAAAATT
1 ATATAA-ATTTCTAAGTGATG
54878740 ATATAAATTTCTAAGTGATG
1 ATATAAATTTCTAAGTGATG
54878760 ATATAA
1 ATATAA
54878766 TATAATATTA
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATAAATTTCTAAGTGATG
Found at i:54879116 original size:12 final size:12
Alignment explanation
Indices: 54879099--54879123 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54879089 ATACGTCTGG
54879099 TTGTCAAGTTCA
1 TTGTCAAGTTCA
54879111 TTGTCAAGTTCA
1 TTGTCAAGTTCA
54879123 T
1 T
54879124 GAAACAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TTGTCAAGTTCA
Found at i:54880129 original size:13 final size:14
Alignment explanation
Indices: 54880097--54880126 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54880087 TAAAGACTAA
*
54880097 TTTATTTTTATTTT
1 TTTAATTTTATTTT
54880111 TTTAATTTTATTTT
1 TTTAATTTTATTTT
54880125 TT
1 TT
54880127 AATAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTAATTTTATTTT
Found at i:54880743 original size:34 final size:34
Alignment explanation
Indices: 54880700--54880803 Score: 199
Period size: 34 Copynumber: 3.1 Consensus size: 34
54880690 CGAAACAAAG
*
54880700 AAAAAACATGTTGAGAGACAAGTAATTCTAATCT
1 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
54880734 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
1 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
54880768 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
1 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
54880802 AA
1 AA
54880804 GAGTCCCAAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.24
Consensus pattern (34 bp):
AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
Found at i:54888993 original size:43 final size:44
Alignment explanation
Indices: 54888945--54889034 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
54888935 AACTTTGTTT
* *
54888945 TTAGTTTACC-ACTTAAACTCTGATTAGTGCAGGTTATTTTAA-A
1 TTAGTTT-CCTACTTAAACTCTCATTAATGCAGGTTATTTTAATA
*
54888988 TTAGTTTCCTACTTAAACTCTCATTAATGTAGGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTCATTAATGCAGGTTATTTTAATA
54889032 TTA
1 TTA
54889035 TTTGGCCTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.05
43 36 0.86
44 4 0.10
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCTACTTAAACTCTCATTAATGCAGGTTATTTTAATA
Found at i:54891527 original size:51 final size:51
Alignment explanation
Indices: 54891467--54891568 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
54891457 GAACAATCGC
*
54891467 TCCCCTAATAGTAATCAGCAAAAAAGGAATTGTTAGATGAAAGATAATTAT
1 TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
54891518 TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
1 TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
54891569 AACAGAGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (51 bp):
TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
Found at i:54897779 original size:5 final size:5
Alignment explanation
Indices: 54897769--54897793 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54897759 TTTTTCTTGC
54897769 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
54897794 TTATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:54903325 original size:47 final size:47
Alignment explanation
Indices: 54903254--54903658 Score: 675
Period size: 47 Copynumber: 8.6 Consensus size: 47
54903244 CCCTTCGGGA
* * * * * *
54903254 CTTATCATATTTATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54903301 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54903348 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54903395 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54903442 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54903489 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54903536 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54903585 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54903632 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54903659 TATTCAAATA
Statistics
Matches: 342, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 297 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54903332 original size:25 final size:25
Alignment explanation
Indices: 54903304--54903382 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
54903294 ACTCGGCCCT
54903304 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
54903329 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
54903351 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
54903376 ATCACAT
1 ATCACAT
54903383 CGGCCATTCG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:54907501 original size:27 final size:26
Alignment explanation
Indices: 54907453--54907512 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
54907443 GCGAGGCTGC
*
54907453 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
54907480 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
54907506 CAGATAT
1 CAGATAT
54907513 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54911855 original size:27 final size:26
Alignment explanation
Indices: 54911807--54911866 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
54911797 GCGAGGCTGC
*
54911807 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
54911834 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
54911860 CAGATAT
1 CAGATAT
54911867 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54911879 original size:33 final size:32
Alignment explanation
Indices: 54911828--54911891 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
54911818 ACGAAGTCAC
* *
54911828 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
54911860 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
54911892 TTGTAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:54920076 original size:13 final size:13
Alignment explanation
Indices: 54920058--54920082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54920048 GTAAGTGATT
54920058 TTGATGATTTTTC
1 TTGATGATTTTTC
54920071 TTGATGATTTTT
1 TTGATGATTTTT
54920083 ATACTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:54920860 original size:48 final size:46
Alignment explanation
Indices: 54920805--54921172 Score: 247
Period size: 46 Copynumber: 7.8 Consensus size: 46
54920795 TATGAAAACC
*
54920805 AGTGTAAGACCATGTCTGGCACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-GAGAG-T
* * * *
54920853 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-G-AGAG-T
* *
54920899 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGAG-GTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAGAGAG-T
* *
54920943 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGTAT-AGAG-GTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGAGAGAGT
* * * * *
54920990 GAGTATAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GAGAGAG-T
* * * * ** *
54921041 AGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGATTTTGATAGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GAGAGAGT
*
54921089 CAGTGTAAGACCATGT-TCGGGACATGGCATCGAC-TTGATG-GATGAGT
1 -AGTGTAAGACCATGTCT-GGGACATGGCATCGGCATTGA-GAGA-GAGT
*
54921136 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCATT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
54921173 ATACCCTATG
Statistics
Matches: 264, Mismatches: 35, Indels: 42
0.77 0.10 0.12
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 62 0.23
47 48 0.18
48 56 0.21
49 39 0.15
50 32 0.12
51 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGAGAGT
Found at i:54920903 original size:46 final size:46
Alignment explanation
Indices: 54920759--54920973 Score: 206
Period size: 46 Copynumber: 4.6 Consensus size: 46
54920749 TTTGTGTGCT
* * * * *
54920759 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAAGCC
* * * * *
54920805 AGTGTAAGACCATGTCTGGCACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
*
54920853 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* **
54920899 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAGGT--GTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
54920943 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
54920974 ACACGTATAG
Statistics
Matches: 142, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 68 0.48
47 27 0.19
48 20 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:54922065 original size:5 final size:5
Alignment explanation
Indices: 54922055--54922089 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
54922045 ATGATTAAAG
54922055 TATAA TAT-A -ATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
54922090 AAGTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 24 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:54922133 original size:13 final size:14
Alignment explanation
Indices: 54922098--54922135 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
54922088 TAAAGTAATT
*
54922098 AAATAAAACAAATA
1 AAATAAAAGAAATA
*
54922112 AAATAAAAGAAA-G
1 AAATAAAAGAAATA
54922125 AAATAAAAGAA
1 AAATAAAAGAA
54922136 CAAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (14 bp):
AAATAAAAGAAATA
Found at i:54923995 original size:20 final size:20
Alignment explanation
Indices: 54923970--54924010 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
54923960 GCCCTATGGC
*
54923970 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCAACACGGG
*
54923990 CATGTCCCAGGCAACACGGG
1 CATGTCCCAAGCAACACGGG
54924010 C
1 C
54924011 GTGTGCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (20 bp):
CATGTCCCAAGCAACACGGG
Found at i:54930288 original size:27 final size:27
Alignment explanation
Indices: 54930264--54930607 Score: 310
Period size: 27 Copynumber: 12.7 Consensus size: 27
54930254 TTAGTTTACC
54930264 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
54930291 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54930318 AAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
*
54930345 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54930372 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
54930399 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
54930426 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
54930453 AAATTACCAAAATACCATTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
** * *** *
54930480 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*** * ** *
54930507 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
54930534 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * **** * * *
54930561 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
*
54930588 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
54930608 TAGGGTAGAA
Statistics
Matches: 263, Mismatches: 54, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 263 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:54930329 original size:54 final size:54
Alignment explanation
Indices: 54930264--54930497 Score: 342
Period size: 54 Copynumber: 4.3 Consensus size: 54
54930254 TTAGTTTACC
* * *
54930264 AAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
* * *
54930318 AAATTACCAAAATACCTTTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
*
54930372 AAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
* * * * *
54930426 AAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCATTGATTTGTG
1 AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
**
54930480 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
54930498 CGACCTGTAA
Statistics
Matches: 163, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 163 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
Found at i:54931116 original size:27 final size:27
Alignment explanation
Indices: 54930589--54931106 Score: 795
Period size: 27 Copynumber: 19.2 Consensus size: 27
54930579 CGATTTACAA
*
54930589 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930616 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930643 AATTATC-AAAGTACCCCTGTAGGGTAG
1 AATTACCGAAA-TACCCCTGTAGGGTAG
* *
54930670 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54930697 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
54930724 AATTATCGAAATATCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54930751 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930778 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930805 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930832 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
54930859 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54930886 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930913 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54930940 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54930967 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54930994 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
54931021 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54931048 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
54931075 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
54931102 AATTA
1 AATTA
54931107 TTGAGATACC
Statistics
Matches: 452, Mismatches: 37, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
26 3 0.01
27 446 0.99
28 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:54931616 original size:22 final size:22
Alignment explanation
Indices: 54931561--54931625 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54931551 TTAAAGCCTT
*
54931561 CTGATTATGGCTCTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
54931583 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* * *
54931605 CTGATTACGGCTGTGTACCAA
1 CTGATTATGGCTCTGTGCCAA
54931626 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:54931814 original size:27 final size:27
Alignment explanation
Indices: 54931784--54931885 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
54931774 ATTCTGTTAA
* *
54931784 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
54931811 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
54931838 GTGGCTCTGCCACAATATCTGTATT-TG
1 GTGGCTCTGCCACAATATCTGT-TTCTG
* *
54931865 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
54931886 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.12
27 50 0.75
28 9 0.13
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:54932060 original size:6 final size:6
Alignment explanation
Indices: 54932022--54932104 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
54932012 TTGCATTCAC
* *
54932022 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
54932072 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54932105 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
5 4 0.06
6 44 0.71
7 12 0.19
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:54932102 original size:31 final size:31
Alignment explanation
Indices: 54932022--54932095 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
54932012 TTGCATTCAC
* *
54932022 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTGATACTG
*
54932054 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
54932085 ATTCTGATTCT
1 ATTCTGATTCT
54932096 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:54934990 original size:56 final size:54
Alignment explanation
Indices: 54934899--54935004 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 54
54934889 GGGGTAAAGC
* **
54934899 AAAGGGAAAAAAATTTGGGGGTTTGGAGGAAGTAAAAGTTTTGGGAAAAAATTT
1 AAAGGAAAAAAAATTTGGGGCCTTGGAGGAAGTAAAAGTTTTGGGAAAAAATTT
* ** *
54934953 AAAGGAAAAAAAAGTTTTGGGGCCTTGGGGGAAGTAAATTTTTTGGGGAAAA
1 AAAGGAAAAAAAA--TTTGGGGCCTTGGAGGAAGTAAAAGTTTTGGGAAAAA
54935005 GTAAAAGGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 12 0.28
56 31 0.72
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (54 bp):
AAAGGAAAAAAAATTTGGGGCCTTGGAGGAAGTAAAAGTTTTGGGAAAAAATTT
Found at i:54936902 original size:16 final size:17
Alignment explanation
Indices: 54936881--54936916 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
54936871 CATTTGGAGG
54936881 CTTTCTTCTT-CTTTTT
1 CTTTCTTCTTGCTTTTT
54936897 CTTTCTTCTTGCTTTTT
1 CTTTCTTCTTGCTTTTT
54936914 CTT
1 CTT
54936917 GAAATCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (17 bp):
CTTTCTTCTTGCTTTTT
Found at i:54938493 original size:18 final size:19
Alignment explanation
Indices: 54938452--54938496 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
54938442 GTTAAAAAGG
54938452 TTATTTTT-ATTTTGATTC
1 TTATTTTTCATTTTGATTC
* *
54938470 TCATTTTTCATTTTTATT-
1 TTATTTTTCATTTTGATTC
54938488 TTATTTTTC
1 TTATTTTTC
54938497 TTTAACTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTTTCATTTTGATTC
Found at i:54938985 original size:21 final size:21
Alignment explanation
Indices: 54938959--54939000 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54938949 CCATATGGCT
54938959 GTGTCCCTTGGGCACACGGGC
1 GTGTCCCTTGGGCACACGGGC
54938980 GTGTCCCTTGGGCACACGGGC
1 GTGTCCCTTGGGCACACGGGC
54939001 ACGTGAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.38, T:0.19
Consensus pattern (21 bp):
GTGTCCCTTGGGCACACGGGC
Found at i:54942302 original size:50 final size:50
Alignment explanation
Indices: 54942074--54942365 Score: 239
Period size: 50 Copynumber: 5.8 Consensus size: 50
54942064 GTAACCAAAG
* *
54942074 CTATCTGGTACGCATAGTAGCCTGA-ACTTAGTACTACACATGTGACC-AA
1 CTATCTGGTACACATAGTAGCCT-ACACTTAGTACTACACACGTGACCTAA
* * * * * *
54942123 CAATCTGGTACACGTAGTAGCTTGCACTTGGTACTACACACATGACCTAA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAA
* * * ** * *
54942173 CCATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACATGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCT-AA
* * * * * * * * *
54942223 GTTGTCGGGTACGCATAATAGCCTGCACTTAGTACTGCACATGCGACCTAA
1 -CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAA
*
54942274 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACAGACGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCT--AA
* *** * *
54942326 CCATCTTAAATACATAGTAGCCTACACATAGTACTACACA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACA
54942366 TGTGTTCTCA
Statistics
Matches: 191, Mismatches: 45, Indels: 11
0.77 0.18 0.04
Matches are distributed among these distances:
49 39 0.20
50 82 0.43
51 34 0.18
52 36 0.19
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAA
Found at i:54942365 original size:151 final size:149
Alignment explanation
Indices: 54942080--54942367 Score: 371
Period size: 151 Copynumber: 1.9 Consensus size: 149
54942070 AAAGCTATCT
* * * *
54942080 GGTACGCATAGTAGCCTGAACTTAGTACTACACATGTGACCAACAATCTGGTACACGTAGTAGCT
1 GGTACGCATAATAGCCTGAACTTAGTACTACACATGCGACCAACAATCTGGTACACATAGTAGCC
* * * * ** *
54942145 TGCACTTGGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGTACTTAGTACTAC
66 TACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTA-
54942210 ACACATGATTGAAGTTGTCG
130 ACACATGATTGAAGTTGTCG
* * *
54942230 GGTACGCATAATAGCCTGCACTTAGTACTGCACATGCGACCTAACTATCTGGTACACATAGTAGC
1 GGTACGCATAATAGCCTGAACTTAGTACTACACATGCGACC-AACAATCTGGTACACATAGTAGC
* * * *
54942295 CTACACTTAGTACTACAGACGTGACCTAAAACCATCTTAAATACATAGTAGCCTACACATAGTAC
65 CTACACTTAGTACTACACACATGACCT--AACCATCTGAAACACATAGTAGCCTACACATAGTAC
54942360 T-ACACATG
128 TAACACATG
54942368 TGTTCTCACA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
150 37 0.32
151 50 0.43
153 30 0.26
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (149 bp):
GGTACGCATAATAGCCTGAACTTAGTACTACACATGCGACCAACAATCTGGTACACATAGTAGCC
TACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTAA
CACATGATTGAAGTTGTCG
Found at i:54948744 original size:20 final size:20
Alignment explanation
Indices: 54948716--54948759 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
54948706 ACCAAATTTG
*
54948716 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
54948736 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
54948756 CAAC
1 CAAC
54948760 TTAAACCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:54948932 original size:41 final size:43
Alignment explanation
Indices: 54948824--54948940 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 43
54948814 ATACCAATGA
* ** *
54948824 CATATCCCAAATATGGTCTTACATGGGATCTCATGTCAATGGC
1 CATATCCCAAATATGGTCTTACACGAAATCTCATATCAATGGC
* * **
54948867 AATAGCCCAGCTATGGTCTTACACGAAATCTCATATC-AT-GC
1 CATATCCCAAATATGGTCTTACACGAAATCTCATATCAATGGC
*
54948908 CATATCCCAAATATGGTCTTACACGTAATCTCA
1 CATATCCCAAATATGGTCTTACACGAAATCTCA
54948941 ACTAACCCTA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 30 0.49
42 2 0.03
43 29 0.48
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
CATATCCCAAATATGGTCTTACACGAAATCTCATATCAATGGC
Found at i:54952426 original size:40 final size:40
Alignment explanation
Indices: 54952344--54952640 Score: 413
Period size: 40 Copynumber: 7.5 Consensus size: 40
54952334 AAGCCAAGTA
* * * *
54952344 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
54952382 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54952422 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54952462 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54952502 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54952542 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
54952582 CCTTCGGGACTTAGCCCGGA-ACCAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
54952622 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54952641 TTATCATCCG
Statistics
Matches: 238, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
38 12 0.05
39 17 0.07
40 209 0.88
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54960593 original size:40 final size:39
Alignment explanation
Indices: 54960472--54960686 Score: 294
Period size: 39 Copynumber: 5.5 Consensus size: 39
54960462 AAGCCAAGTA
* * * *
54960472 CCTTCGGGATTTA-ACCGGATATAGCTACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* * *
54960510 CCTTCGGGACATAGCCCGGATATAGTAATCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
54960549 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
*
54960589 CCTTC-GGACTTAGCCCGGATGTA-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
54960627 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
54960667 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
54960687 ATTATCATCC
Statistics
Matches: 160, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
38 35 0.22
39 75 0.47
40 50 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:54982508 original size:37 final size:38
Alignment explanation
Indices: 54982373--54982569 Score: 224
Period size: 37 Copynumber: 5.2 Consensus size: 38
54982363 GCTCCTCGTT
* *
54982373 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTC-GG-CCTAGCCCGGAAT-TAGT-ATCTCGCA
* * * * *
54982413 CAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTC-GGCCTAGCCCGGAATTAGTATCTCGCA
*
54982452 CAAATGCCTTCGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGCCTAGCCCGGAATTAGTATCTCGCA
54982490 C-AATGCCTTCGGCCTAGCCCGG-ATTAGTATCTCGCA
1 CAAATGCCTTCGGCCTAGCCCGGAATTAGTATCTCGCA
* *
54982526 CAAATGCCTTCGGCTTAG-CCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGCCTAGCCCGGAATTAGTATCTCGCA
54982563 CAAATGC
1 CAAATGC
54982570 TGTAACACCC
Statistics
Matches: 139, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
36 18 0.13
37 56 0.40
38 23 0.17
39 26 0.19
40 16 0.12
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGCCTAGCCCGGAATTAGTATCTCGCA
Found at i:54982569 original size:74 final size:77
Alignment explanation
Indices: 54982408--54982569 Score: 251
Period size: 74 Copynumber: 2.2 Consensus size: 77
54982398 TTATAGTAAT
54982408 TCGCACAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCACACAAATGCCTTCGGCTTAGCCC
1 TCGCACAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCACACAAATGCCTTCGGCTTAGCCC
*
54982473 GGAATTAGTATC
66 AGAATTAGTATC
* * * *
54982485 TCGCAC-AATGCCTTC-GGCCTAGCCCGGA-TTAGTATCTCGCACAAATGCCTTCGGCTTAG-CC
1 TCGCACAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCACACAAATGCCTTCGGCTTAGCCC
54982546 AGAATTAGTATC
66 AGAATTAGTATC
54982558 TCGCACAAATGC
1 TCGCACAAATGC
54982570 TGTAACACCC
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
73 19 0.24
74 34 0.43
75 11 0.14
76 9 0.11
77 6 0.08
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (77 bp):
TCGCACAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCACACAAATGCCTTCGGCTTAGCCC
AGAATTAGTATC
Found at i:54983948 original size:27 final size:27
Alignment explanation
Indices: 54983918--54984095 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54983908 ATATTGAGTC
* * * *
54983918 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54983945 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54983972 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54984000 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54984027 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54984054 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54984081 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54984096 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54984057 original size:82 final size:81
Alignment explanation
Indices: 54983939--54984094 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54983929 TGCTATATAA
* *
54983939 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54984004 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54984021 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54984085 CACTTAGTGC
65 CACTTAGTGC
54984095 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54992092 original size:27 final size:27
Alignment explanation
Indices: 54992062--54992239 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54992052 ATATTGAGTC
* * * *
54992062 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54992089 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54992116 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54992144 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54992171 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54992198 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54992225 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54992240 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54992201 original size:82 final size:81
Alignment explanation
Indices: 54992083--54992238 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54992073 TGCTATATAA
* *
54992083 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54992148 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54992165 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54992229 CACTTAGTGC
65 CACTTAGTGC
54992239 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54997108 original size:40 final size:40
Alignment explanation
Indices: 54997026--54997322 Score: 395
Period size: 40 Copynumber: 7.5 Consensus size: 40
54997016 AAGCCAAGTA
* * * *
54997026 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
54997064 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54997104 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54997144 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54997184 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54997224 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
54997264 CCTTCGGGACTTAGCCCGGA-ACCAATCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
54997304 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54997323 TTATCATCCG
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
38 12 0.05
39 17 0.07
40 206 0.88
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55007115 original size:43 final size:41
Alignment explanation
Indices: 55007054--55007155 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
55007044 CCCAGGTATA
** **
55007054 GTCTTACATGGGATCTCATATCGATGCCAATAGCCCATCTATG
1 GTCTTACATGAAATCTCATATC-ATGCC-ATAGCCCAAATATG
*
55007097 GTCTTACATGAAATCTCATATCATGCCATATCCCAAATATG
1 GTCTTACATGAAATCTCATATCATGCCATAGCCCAAATATG
* *
55007138 GTCTTACACGTAATCTCA
1 GTCTTACATGAAATCTCA
55007156 ACTAACCTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 27 0.52
42 5 0.10
43 20 0.38
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (41 bp):
GTCTTACATGAAATCTCATATCATGCCATAGCCCAAATATG
Found at i:55007153 original size:41 final size:42
Alignment explanation
Indices: 55007039--55007155 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
55007029 ATACCAATGG
** * **
55007039 CATATCCCAGGTATAGTCTTACATGGGATCTCATATCGATGC
1 CATATCCCAAATATGGTCTTACATGAAATCTCATATCGATGC
* **
55007081 CAATAGCCCATCTATGGTCTTACATGAAATCTCATATC-ATGC
1 C-ATATCCCAAATATGGTCTTACATGAAATCTCATATCGATGC
* *
55007123 CATATCCCAAATATGGTCTTACACGTAATCTCA
1 CATATCCCAAATATGGTCTTACATGAAATCTCA
55007156 ACTAACCTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 27 0.43
42 6 0.10
43 30 0.48
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTACATGAAATCTCATATCGATGC
Found at i:55010443 original size:39 final size:40
Alignment explanation
Indices: 55010400--55010567 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
55010390 CTCGTTCAAG
* * * *
55010400 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
55010439 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
55010479 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
55010519 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
55010559 TGCCTTCGG
1 TGCCTTCGG
55010568 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:55010551 original size:80 final size:80
Alignment explanation
Indices: 55010435--55010620 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
55010425 AGTAACTCAT
* * *
55010435 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
55010499 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
55010514 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
55010578 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
55010595 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
55010621 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:55010580 original size:40 final size:40
Alignment explanation
Indices: 55010437--55010620 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
55010427 TAACTCATAC
* *
55010437 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
55010477 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
55010517 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
55010557 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
55010598 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55010621 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:55014615 original size:17 final size:17
Alignment explanation
Indices: 55014589--55014628 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
55014579 AAACATATCC
55014589 GATAAAACCCAATAAAT
1 GATAAAACCCAATAAAT
*
55014606 GATAATACCCAATAAAT
1 GATAAAACCCAATAAAT
55014623 GATAAA
1 GATAAA
55014629 TGATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (17 bp):
GATAAAACCCAATAAAT
Found at i:55022217 original size:54 final size:53
Alignment explanation
Indices: 55022146--55022289 Score: 130
Period size: 53 Copynumber: 2.7 Consensus size: 53
55022136 TAAGTTTTAC
* *
55022146 AAGGCAAGGAA-ATCATGTAAGACCATGTCAAGACATGACATTCATAAACTACGAT
1 AAGGCAA-GAATACCATGTAAGACCATGTCAAGACATGACAATCAT-AACTAC-AT
* * * * * ** * * *
55022201 AAGGCAA-AATCCCATGTAAGATCATGCCAAGGCATGGCAATGGTGAGTTCAT
1 AAGGCAAGAATACCATGTAAGACCATGTCAAGACATGACAATCATAACTACAT
*
55022253 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATG
1 AAGGCAAGAATACCATGTAAGACCATGTCAAGACATG
55022290 GAAATGGTAA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
52 9 0.13
53 29 0.41
54 25 0.36
55 7 0.10
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (53 bp):
AAGGCAAGAATACCATGTAAGACCATGTCAAGACATGACAATCATAACTACAT
Found at i:55033883 original size:148 final size:148
Alignment explanation
Indices: 55033610--55033899 Score: 526
Period size: 148 Copynumber: 2.0 Consensus size: 148
55033600 GGTCTCATGT
*
55033610 GCATCAGTGCCCGAAAAGGTTATGATTATTATGTGACTTTCATCAATGACTATTCTCGATATGGA
1 GCATCAGTGCCCGAAAAGGTTATGATTATTATGTGACTTTCATCAAGGACTATTCTCGATATGGA
*
55033675 TATGTTTATCTAATGCACCACAAAAACAAACCTTTGATAAATTTTGAGAGTTTCGTGCTGAAGTA
66 TATGTTCATCTAATGCACCACAAAAACAAACCTTTGATAAATTTTGAGAGTTTCGTGCTGAAGTA
55033740 GAAAAGCAATTATTATGA
131 GAAAAGCAATTATTATGA
* * *
55033758 GCATTAGTGCCCGAAGAGGTTATGATTATTATGTGACTTTCATCGAGGACTATTCTCGATATGGA
1 GCATCAGTGCCCGAAAAGGTTATGATTATTATGTGACTTTCATCAAGGACTATTCTCGATATGGA
*
55033823 TATGTTCATCTAATGCACCGCAAAAACAAACCTTTGATAAATTTTGAGAGTTTCGTGCTGAAGTA
66 TATGTTCATCTAATGCACCACAAAAACAAACCTTTGATAAATTTTGAGAGTTTCGTGCTGAAGTA
55033888 GAAAAGCAATTA
131 GAAAAGCAATTA
55033900 GGTTTATCTA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
148 136 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (148 bp):
GCATCAGTGCCCGAAAAGGTTATGATTATTATGTGACTTTCATCAAGGACTATTCTCGATATGGA
TATGTTCATCTAATGCACCACAAAAACAAACCTTTGATAAATTTTGAGAGTTTCGTGCTGAAGTA
GAAAAGCAATTATTATGA
Found at i:55039263 original size:45 final size:45
Alignment explanation
Indices: 55039165--55039292 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
55039155 TTTTCTCAAA
* * * *
55039165 TCACCGGCAAT-TCGCCTGCTAGGCTCG-AGGCCCCAATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCATC
55039208 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCATC
* ** * *
55039253 TCACTGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
55039293 ATCAAATCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 10 0.14
44 15 0.21
45 47 0.64
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCATC
Found at i:55039882 original size:43 final size:43
Alignment explanation
Indices: 55039622--55039922 Score: 270
Period size: 43 Copynumber: 7.2 Consensus size: 43
55039612 CTGGCATTAC
* * **
55039622 GCCTGCTAGACACGAAGGCCCGAATACA-AGTCACCGGCATAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACA-TCACCAGCACGAA
* *
55039665 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* *
55039708 GCCTACTAGGCACGAAGGCCCGAATACACATCACCTGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
** * * * *
55039751 GCCTGCTAGG-ATTTAA--CCCTG-AT--ATATTACTAGTACGAA
1 GCCTGCTAGGCA-CGAAGGCCC-GAATACACATCACCAGCACGAA
* * ** * * * *
55039790 GCCTAC--GGGATTTAA--CCCGGAT--ATATTACCTGCACGAA
1 GCCTGCTAGGCA-CGAAGGCCCGAATACACATCACCAGCACGAA
55039828 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
55039871 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGC-CGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
55039913 GCCTGCTAGG
1 GCCTGCTAGG
55039923 ATTTAACCCG
Statistics
Matches: 222, Mismatches: 25, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
37 3 0.01
38 29 0.13
39 18 0.08
40 3 0.01
41 11 0.05
42 16 0.07
43 141 0.64
44 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:55039989 original size:162 final size:163
Alignment explanation
Indices: 55039663--55039995 Score: 578
Period size: 162 Copynumber: 2.0 Consensus size: 163
55039653 CACCGGCATA
*
55039663 AAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCACGAAGGCC
1 AAGCCTACTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTACTAGGCACGAAGGCC
* * *
55039728 CGAATACACATCACCTGCACGAAGCCTGCTAGGATTTAACCCTGATATATTACTAGTACGAAGCC
66 CGAATACACATCACCAGCACGAAGCCTGCTAGGATTTAACCCGGATATATTACCAGTACGAAGCC
*
55039793 TACGGGATTTAACCCGGATATATTACCTGCACG
131 TACGGGATTTAACCCGGATATATTACCAGCACG
* *
55039826 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCC
1 AAGCCTACTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTACTAGGCACGAAGGCC
55039891 CGAATACACATCACCAGC-CGAAGCCTGCTAGGATTTAACCCGGATATATTACCAGTACGAAGCC
66 CGAATACACATCACCAGCACGAAGCCTGCTAGGATTTAACCCGGATATATTACCAGTACGAAGCC
* *
55039955 TGCGGGATTTAATCCGGATATATTACCAGCACG
131 TACGGGATTTAACCCGGATATATTACCAGCACG
55039988 AAGCCTAC
1 AAGCCTAC
55039996 GGGATTTAAC
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
162 81 0.51
163 79 0.49
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.17
Consensus pattern (163 bp):
AAGCCTACTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTACTAGGCACGAAGGCC
CGAATACACATCACCAGCACGAAGCCTGCTAGGATTTAACCCGGATATATTACCAGTACGAAGCC
TACGGGATTTAACCCGGATATATTACCAGCACG
Found at i:55040022 original size:38 final size:38
Alignment explanation
Indices: 55039744--55040052 Score: 178
Period size: 38 Copynumber: 7.8 Consensus size: 38
55039734 CACATCACCT
* * * *
55039744 GCACGAAGCCTGCTAGGATTTAACCCTGATATATTACTA
1 GCACGAAGCCTAC-GGGATTTAACCCGGATATATTACCA
* *
55039783 GTACGAAGCCTACGGGATTTAACCCGGATATATTACCT
1 GCACGAAGCCTACGGGATTTAACCCGGATATATTACCA
* * ** * * *
55039821 GCACGAAGCCTGCTAGGCA-CGAAGGCCCGAATACACATCACCA
1 GCACGAAGCCTAC--GGGATTTAA--CCCGGAT--ATATTACCA
* * ** * * *
55039864 GCACGAAGCCTGCTAGGCA-CGAAGGCCCGAATACACATCACCA
1 GCACGAAGCCTAC--GGGATTTAA--CCCGGAT--ATATTACCA
* *
55039907 GC-CGAAGCCTGCTAGGATTTAACCCGGATATATTACCA
1 GCACGAAGCCTAC-GGGATTTAACCCGGATATATTACCA
* * *
55039945 GTACGAAGCCTGCGGGATTTAATCCGGATATATTACCA
1 GCACGAAGCCTACGGGATTTAACCCGGATATATTACCA
55039983 GCACGAAGCCTACGGGATTTAACCCGGATATAATT-CCA
1 GCACGAAGCCTACGGGATTTAACCCGGATAT-ATTACCA
* *
55040021 GCA-TATAGCCTACGGGTCTTTAAGCCCGGATA
1 GCACGA-AGCCTACGGG-ATTTAA-CCCGGATA
55040053 CATATCAAAT
Statistics
Matches: 227, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.00
38 107 0.47
39 31 0.14
40 17 0.07
41 8 0.04
42 12 0.05
43 51 0.22
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (38 bp):
GCACGAAGCCTACGGGATTTAACCCGGATATATTACCA
Found at i:55045110 original size:43 final size:45
Alignment explanation
Indices: 55045054--55045167 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 45
55045044 CTGGCATTTC
* *
55045054 GCCTGCTAGGCTCG-AGGCCCG-ATA-TCATTTCACCAGCATTATA
1 GCCTGCTAAGCTCGAAGGCCCGAATAGT-ATCTCACCAGCATTATA
**
55045097 GCCTGCTAAGCTCGAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAAGCTCGAAGGCCCGAATAGTATCTCACCAGCATTATA
** * *
55045142 GTTTGCTAAGCTCAAAGGCTCGAATA
1 GCCTGCTAAGCTCGAAGGCCCGAATA
55045168 ATCAAATCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 13 0.22
44 7 0.12
45 39 0.65
46 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
GCCTGCTAAGCTCGAAGGCCCGAATAGTATCTCACCAGCATTATA
Found at i:55045561 original size:43 final size:43
Alignment explanation
Indices: 55045497--55045677 Score: 276
Period size: 43 Copynumber: 4.2 Consensus size: 43
55045487 CTGGCATTAC
* * * *
55045497 GCCTGCTAGGCACGAAGGCCCGAATACACGTCACCGGCACAAA
1 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCAGCACGAA
* *
55045540 GCCTGCTAGGCACGAAAGCCCGAATACACTTCACCGGCACGAA
1 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCAGCACGAA
55045583 GCCTGCTAGGCAC-AAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAA-GCCCGAATACACATCACCAGCACGAA
*
55045626 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGC-CGAA
1 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCAGCACGAA
55045668 GCCTGCTAGG
1 GCCTGCTAGG
55045678 ATTTAATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
42 17 0.13
43 111 0.85
44 2 0.02
ACGTcount: A:0.30, C:0.35, G:0.24, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAAGCCCGAATACACATCACCAGCACGAA
Found at i:55045718 original size:38 final size:38
Alignment explanation
Indices: 55045658--55045778 Score: 183
Period size: 38 Copynumber: 3.2 Consensus size: 38
55045648 AATACACATC
*
55045658 ACCAGC-CGAAGCCTGCTAGGATTTAATCCGGATATATT
1 ACCAGCACGAAGCCTGC-GGGATTTAATCCGGATATATT
55045696 ACCAGCACGAAGCCTGCGGGATTTAATCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAATCCGGATATATT
* *
55045734 ACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATT
1 ACCAGCACGAAGCCTGCGGGATTTAATCCGGATAT-ATT
55045773 -CCAGCA
1 ACCAGCA
55045779 TATAGCCTAC
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
38 65 0.83
39 13 0.17
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAATCCGGATATATT
Found at i:55045786 original size:38 final size:38
Alignment explanation
Indices: 55045658--55045807 Score: 171
Period size: 38 Copynumber: 3.9 Consensus size: 38
55045648 AATACACATC
* * *
55045658 ACCAGC-CGAAGCCTGCTAGGATTTAATCCGGATATATT
1 ACCAGCACGAAGCCTAC-GGGATTTAACCCGGATATATT
* *
55045696 ACCAGCACGAAGCCTGCGGGATTTAATCCGGATATATT
1 ACCAGCACGAAGCCTACGGGATTTAACCCGGATATATT
55045734 ACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATT
1 ACCAGCACGAAGCCTACGGGATTTAACCCGGATAT-ATT
* *
55045773 -CCAGCA-TATAGCCTACGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTACGGG-ATTTAA-CCCGGATA
55045808 CATATCAAAT
Statistics
Matches: 102, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
37 1 0.01
38 75 0.74
39 18 0.18
40 8 0.08
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
ACCAGCACGAAGCCTACGGGATTTAACCCGGATATATT
Found at i:55054667 original size:40 final size:40
Alignment explanation
Indices: 55054552--55054719 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
55054542 TCTTATACTC
* *
55054552 TCTGTCTAGCGTGTTTCTG-TTGGATTAGCTCTTATGAGCT
1 TCTGTCTGGCATGTTTC-GATTGGATTAGCTCTTATGAGCT
* * ** * *
55054592 TCTCTCTGGAAAT-TTT-GGCTGTATTAGCTCTTATGAGGT
1 TCTGTCTGG-CATGTTTCGATTGGATTAGCTCTTATGAGCT
55054631 TCTGTCTGGCATGTTTCGATTGGATTAGCTCTTATGAGCT
1 TCTGTCTGGCATGTTTCGATTGGATTAGCTCTTATGAGCT
* * *
55054671 TCTATCTGGCATGTTTCAATTGGATTAGCTCTTATGAACT
1 TCTGTCTGGCATGTTTCGATTGGATTAGCTCTTATGAGCT
*
55054711 TCTATCTGG
1 TCTGTCTGG
55054720 TGTGTTCGGT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.03
39 29 0.27
40 75 0.69
41 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (40 bp):
TCTGTCTGGCATGTTTCGATTGGATTAGCTCTTATGAGCT
Found at i:55057682 original size:40 final size:40
Alignment explanation
Indices: 55057627--55057749 Score: 176
Period size: 40 Copynumber: 3.1 Consensus size: 40
55057617 TATTATACTC
55057627 TCTGTCT-GACGTGTTTCAATTGGATTAGCTCTTATGAGCT
1 TCTGTCTAG-CGTGTTTCAATTGGATTAGCTCTTATGAGCT
* * * * *
55057667 TCTGTTTAGCGTGTTTCGATTTGATTAGCTCTTATGACCA
1 TCTGTCTAGCGTGTTTCAATTGGATTAGCTCTTATGAGCT
*
55057707 TCTGTCTAGCGTGTTTCAGTTGGATTAGCTCTTATGAGCT
1 TCTGTCTAGCGTGTTTCAATTGGATTAGCTCTTATGAGCT
55057747 TCT
1 TCT
55057750 ATCTGGTATG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (40 bp):
TCTGTCTAGCGTGTTTCAATTGGATTAGCTCTTATGAGCT
Found at i:55061934 original size:12 final size:12
Alignment explanation
Indices: 55061917--55061943 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55061907 GTACTTTGTG
55061917 TACCGCCACTGT
1 TACCGCCACTGT
55061929 TACCGCCACTGT
1 TACCGCCACTGT
55061941 TAC
1 TAC
55061944 TGTTACTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.41, G:0.15, T:0.26
Consensus pattern (12 bp):
TACCGCCACTGT
Found at i:55061947 original size:6 final size:6
Alignment explanation
Indices: 55061936--55061973 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
55061926 TGTTACCGCC
55061936 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
55061974 CCTTACGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:55061947 original size:18 final size:18
Alignment explanation
Indices: 55061924--55061967 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
55061914 GTGTACCGCC
55061924 ACTGTTACCGCCACTGTT
1 ACTGTTACCGCCACTGTT
* **
55061942 ACTGTTACTGTTACTGTT
1 ACTGTTACCGCCACTGTT
55061960 ACTGTTAC
1 ACTGTTAC
55061968 TGTTACCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGTTACCGCCACTGTT
Found at i:55061979 original size:18 final size:18
Alignment explanation
Indices: 55061940--55061979 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55061930 ACCGCCACTG
**
55061940 TTACTGTTACTGTTACTG
1 TTACTGTTACTGTTACCC
55061958 TTACTGTTACTGTTACCC
1 TTACTGTTACTGTTACCC
55061976 TTAC
1 TTAC
55061980 GGTGTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.47
Consensus pattern (18 bp):
TTACTGTTACTGTTACCC
Found at i:55062161 original size:18 final size:18
Alignment explanation
Indices: 55062104--55062163 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
55062094 GACTATCTGC
* *
55062104 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
* *
55062122 TACAGAATAAACGACTGA-
1 TACTGAATAAATGACT-AT
*
55062140 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
55062158 TACTGA
1 TACTGA
55062164 TTAACCGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:55071707 original size:35 final size:35
Alignment explanation
Indices: 55071668--55071738 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
55071658 AATATCCACT
55071668 CCACTTCATGCCAAAATTTCAAAGAAATAAAAAAA
1 CCACTTCATGCCAAAATTTCAAAGAAATAAAAAAA
55071703 CCACTTCATGCCAAAATTTCAAAGAAATAAAAAAA
1 CCACTTCATGCCAAAATTTCAAAGAAATAAAAAAA
55071738 C
1 C
55071739 TTCTAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.54, C:0.21, G:0.06, T:0.20
Consensus pattern (35 bp):
CCACTTCATGCCAAAATTTCAAAGAAATAAAAAAA
Found at i:55074149 original size:24 final size:28
Alignment explanation
Indices: 55074080--55074178 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 28
55074070 AAATAGAGTG
* *
55074080 TATAATATAATTTACA-AATAAAAT-ATA
1 TATAATATAATATATATAATAAAATCA-A
*
55074107 TAATAATATAA-ATCCTATAAT-AAAT-AA
1 T-ATAATATAATAT-ATATAATAAAATCAA
*
55074134 TATAA-A-AATATATATAATAAAATCTA
1 TATAATATAATATATATAATAAAATCAA
55074160 TATAATATAATATATATAA
1 TATAATATAATATATATAA
55074179 GAAAGATAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
24 8 0.14
25 7 0.12
26 10 0.17
27 5 0.08
28 26 0.44
29 3 0.05
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
TATAATATAATATATATAATAAAATCAA
Found at i:55074150 original size:21 final size:22
Alignment explanation
Indices: 55074095--55074178 Score: 66
Period size: 21 Copynumber: 3.9 Consensus size: 22
55074085 TATAATTTAC
*
55074095 AAATAAAATATAT-AATAATAT
1 AAATAATATATATAAATAATAT
**
55074116 AAATCCTATA-ATAAATAATAT
1 AAATAATATATATAAATAATAT
* *
55074137 AAA-AATATATATAATAAAATCT
1 AAATAATATATATAA-ATAATAT
* *
55074159 ATATAATATAATATATATAA
1 AAATAATAT-ATATAAATAA
55074179 GAAAGATAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
20 6 0.12
21 22 0.46
22 7 0.15
23 8 0.17
24 5 0.10
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAATATATATAAATAATAT
Found at i:55074161 original size:14 final size:14
Alignment explanation
Indices: 55074096--55074347 Score: 122
Period size: 14 Copynumber: 18.1 Consensus size: 14
55074086 ATAATTTACA
55074096 AATAAAATATATAAT
1 AATAAAATATAT-AT
**
55074111 AATATAAAT-CCTAT
1 AATA-AAATATATAT
55074125 AAT-AAATA-ATAT
1 AATAAAATATATAT
55074137 -A-AAAATATATAT
1 AATAAAATATATAT
*
55074149 AATAAAATCTATAT
1 AATAAAATATATAT
*
55074163 AATATAATATATAT
1 AATAAAATATATAT
* *
55074177 AAGAAAGATAGATAT
1 AATAAA-ATATATAT
*
55074192 TATAAGGAATAATATAT
1 AATAA--AAT-ATATAT
55074209 AATAAAATATAGTATGT
1 AATAAAATATA-TA--T
* *
55074226 AGTAAAA-ATACAT
1 AATAAAATATATAT
*
55074239 AA-ATAA-A-ATAT
1 AATAAAATATATAT
*
55074250 AATGAAATATGATAT
1 AATAAAATAT-ATAT
* *
55074265 GAT-AAAGA-ATAT
1 AATAAAATATATAT
55074277 AATAATAATA-ATAT
1 AATAA-AATATATAT
* *
55074291 AAT-AAGTAT-TTT
1 AATAAAATATATAT
*
55074303 TATAAAA-ATATAGT
1 AATAAAATATATA-T
55074317 AATATAAATAATATAT
1 AATA-AAAT-ATATAT
55074333 AATAAAA-ATATAT
1 AATAAAATATATAT
55074346 AA
1 AA
55074348 CATATAGTAA
Statistics
Matches: 181, Mismatches: 30, Indels: 54
0.68 0.11 0.20
Matches are distributed among these distances:
11 11 0.06
12 32 0.18
13 17 0.09
14 52 0.29
15 33 0.18
16 14 0.08
17 22 0.12
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:55074232 original size:77 final size:71
Alignment explanation
Indices: 55074129--55074291 Score: 163
Period size: 73 Copynumber: 2.2 Consensus size: 71
55074119 TCCTATAATA
* *
55074129 AATAAT-ATAAAA-ATATATATAATAAAATCTATATAATATAATATATATAA-GAAAGATAGATA
1 AATAATAATAAAATATATATATAATAAAA-ATACATAA-ATAA-A-ATATAATGAAAGAT-GATA
* *
55074191 TTATAAGGAAT
61 TGATAAAGAAT
* * *
55074202 AATATATAATAAAATATAGTATGTAGTAAAAATACATAAATAAAATATAATGAAATATGATATGA
1 AATA-ATAATAAAATATA-TATATAATAAAAATACATAAATAAAATATAATGAAAGATGATATGA
55074267 TAAAGAAT
64 TAAAGAAT
55074275 -ATAATAATAATAATATA
1 AATAATAATAA-AATATA
55074292 ATAAGTATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
71 7 0.09
72 9 0.12
73 23 0.30
74 9 0.12
75 10 0.13
76 9 0.12
77 10 0.13
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (71 bp):
AATAATAATAAAATATATATATAATAAAAATACATAAATAAAATATAATGAAAGATGATATGATA
AAGAAT
Found at i:55074290 original size:41 final size:42
Alignment explanation
Indices: 55074199--55074295 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 42
55074189 TATTATAAGG
*
55074199 AATAAT-ATATAATAAAATATAGTATGTAGTAAAAATACATA
1 AATAATAATATAATAAAATATAGTATGTAGTAAAAATAAATA
*
55074240 AATAA-AATATAATGAAATAT-GATATG-A-TAAAGAATATAAT-
1 AATAATAATATAATAAAATATAG-TATGTAGTAAA-AATA-AATA
55074280 AATAATAATATAATAA
1 AATAATAATATAATAA
55074296 GTATTTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 4 0.08
40 11 0.23
41 33 0.69
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (42 bp):
AATAATAATATAATAAAATATAGTATGTAGTAAAAATAAATA
Found at i:55074324 original size:16 final size:15
Alignment explanation
Indices: 55074272--55074408 Score: 70
Period size: 16 Copynumber: 8.9 Consensus size: 15
55074262 TATGATAAAG
*
55074272 AATATAATAATA-AT
1 AATATAAAAATATAT
*
55074286 AATATAATAAGTAT-T
1 AATATAA-AAATATAT
**
55074301 TTTATAAAAATATAGT
1 AATATAAAAATATA-T
55074317 AATATAAATAATATAT
1 AATATAAA-AATATAT
55074333 -A-ATAAAAATATAT
1 AATATAAAAATATAT
55074346 AACATATAGTAAAATATA-
1 -A-ATATA--AAAATATAT
*
55074364 AATATAACAGAATAGAT
1 AATATAA-A-AATATAT
* * *
55074381 -ATAAAAAAATAAAA
1 AATATAAAAATATAT
*
55074395 AATATAATAATATA
1 AATATAAAAATATA
55074409 ATGGATGATA
Statistics
Matches: 94, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
13 7 0.07
14 23 0.24
15 22 0.23
16 24 0.26
17 10 0.11
19 8 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
AATATAAAAATATAT
Found at i:55074352 original size:20 final size:19
Alignment explanation
Indices: 55074310--55074363 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 19
55074300 TTTTATAAAA
* * * *
55074310 ATATAGTAATATAAATAAT
1 ATATAATAAAATATATAAC
55074329 ATATAATAAAAATATATAAC
1 ATATAAT-AAAATATATAAC
*
55074349 ATATAGTAAAATATA
1 ATATAATAAAATATA
55074364 AATATAACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:55074363 original size:30 final size:30
Alignment explanation
Indices: 55074304--55074364 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
55074294 AAGTATTTTT
* *
55074304 ATAAAAATATAGTAATATAAATAATATATA
1 ATAAAAATATAGTAACATAAATAAAATATA
*
55074334 ATAAAAATATA-TAACATATAGTAAAATATA
1 ATAAAAATATAGTAACATA-AATAAAATATA
55074364 A
1 A
55074365 ATATAACAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (30 bp):
ATAAAAATATAGTAACATAAATAAAATATA
Found at i:55074400 original size:47 final size:48
Alignment explanation
Indices: 55074307--55074400 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 48
55074297 TATTTTTATA
* * * * *
55074307 AAAATATAGTAATATAAATAATATATAATAAAAATATATAACATATAGT
1 AAAATATAG-AATATAAAGAATAGATAATAAAAAAATAAAAAATATAGT
55074356 AAAATATA-AATATAACAGAATAGAT-ATAAAAAAATAAAAAATATA
1 AAAATATAGAATATAA-AGAATAGATAATAAAAAAATAAAAAATATA
55074401 ATAATATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 24 0.62
48 7 0.18
49 8 0.21
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (48 bp):
AAAATATAGAATATAAAGAATAGATAATAAAAAAATAAAAAATATAGT
Found at i:55076953 original size:79 final size:81
Alignment explanation
Indices: 55076844--55077026 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
55076834 TACTCGTTCA
* *
55076844 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
55076907 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
55076924 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
55076987 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
55077003 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55077027 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:55077026 original size:40 final size:40
Alignment explanation
Indices: 55076823--55077026 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55076813 CGGAATTTAA
** *
55076823 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55076863 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55076903 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55076942 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55076982 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55077022 CCGGA
1 CCGGA
55077027 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55079292 original size:43 final size:43
Alignment explanation
Indices: 55079177--55079309 Score: 162
Period size: 43 Copynumber: 3.1 Consensus size: 43
55079167 AGAATCACTG
* * *
55079177 TAAAATATCATGTTCTTTAGCAGCGTCTGT-AGTAAAAGCGCTGC
1 TAAAA-ATCATGTTCTTTAGCAGCGTTTGTGA-TAAAAGTGCCGC
* *
55079221 TAAAAATCATGTTCTTTAGCGGCGTTTGTGATAAAAGTGCCAC
1 TAAAAATCATGTTCTTTAGCAGCGTTTGTGATAAAAGTGCCGC
* *
55079264 TAAAGATCATGTTCTTTAGCAGCATTTGTGGA-AAAAGTGCCGC
1 TAAAAATCATGTTCTTTAGCAGCGTTTGT-GATAAAAGTGCCGC
55079307 TAA
1 TAA
55079310 CATTAACAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
43 70 0.90
44 8 0.10
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
TAAAAATCATGTTCTTTAGCAGCGTTTGTGATAAAAGTGCCGC
Found at i:55079898 original size:21 final size:21
Alignment explanation
Indices: 55079872--55079913 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
55079862 TAACAAAAGA
*
55079872 TCCTTGAAATTGAACCCGACC
1 TCCTTGAAATCGAACCCGACC
*
55079893 TCCTTGAAATCGAACCTGACC
1 TCCTTGAAATCGAACCCGACC
55079914 ATACCTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (21 bp):
TCCTTGAAATCGAACCCGACC
Found at i:55083539 original size:26 final size:25
Alignment explanation
Indices: 55083503--55083607 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 25
55083493 TACAAATTGG
55083503 TAATGGGTTAGGTAAATGTTCCATGA
1 TAAT-GGTTAGGTAAATGTTCCATGA
*
55083529 TAATGGATTAGGTAAATATTCCATGA
1 TAATGG-TTAGGTAAATGTTCCATGA
55083555 TAATAGGTTAGGTAAATGTTCCATGA
1 TAAT-GGTTAGGTAAATGTTCCATGA
55083581 TAATGGTTTAGGTAAATGTTCCATGA
1 TAATGG-TTAGGTAAATGTTCCATGA
55083607 T
1 T
55083608 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
25 4 0.05
26 68 0.92
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (25 bp):
TAATGGTTAGGTAAATGTTCCATGA
Found at i:55083565 original size:52 final size:52
Alignment explanation
Indices: 55083503--55083607 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
55083493 TACAAATTGG
*
55083503 TAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGA
1 TAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGA
* *
55083555 TAATAGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGA
1 TAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGA
55083607 T
1 T
55083608 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (52 bp):
TAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGA
Found at i:55087630 original size:9 final size:9
Alignment explanation
Indices: 55087616--55087641 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55087606 GCAGAAGGAC
55087616 AATTTTGAA
1 AATTTTGAA
55087625 AATTTTGAA
1 AATTTTGAA
55087634 AATTTTGA
1 AATTTTGA
55087642 TCTCTCATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (9 bp):
AATTTTGAA
Done.