Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 156 of 362
Found at i:51183369 original size:94 final size:92
Alignment explanation
Indices: 51183116--51183386 Score: 240
Period size: 94 Copynumber: 2.8 Consensus size: 92
51183106 TCCATCAAGT
* * * * **
51183116 CGATGCCATGTCCTAGACATGGTCTTACATTGACTATCGAAATCG-AGGCCGACGCGATGTCCCA
1 CGATGCCACGTCCCAGACATGGTCTTACACTGAC-A-C-ATATCGTA-GCCGATAC-ATGTCCCA
* * * **
51183180 AACATGGTCTTACATTAGCTCTCGCATATCCGTGC
61 GACAT-GTCTTACACTAGCTCT--CATTTCAATGC
** * * *
51183215 TAATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCTTAGCCGATACATGTCCCAGACAT
1 CGATGCCACGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCGATACATGTCCCAGACAT
*
51183280 GTCTTAGACTAGCTCTCATTTCAATGC
66 GTCTTACACTAGCTCTCATTTCAATGC
* * * *
51183307 CGATGCCACGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GTGGCTGATGCATGTCCCAGA
1 CGATGCCACGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCGTAGCCGATACATGTCCCAGA
51183371 CATGTCTTACACTAGC
63 CATGTCTTACACTAGC
51183387 ATACAAATAA
Statistics
Matches: 143, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
92 36 0.25
93 1 0.01
94 51 0.36
95 13 0.09
96 9 0.06
97 2 0.01
98 1 0.01
99 30 0.21
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCCACGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCGATACATGTCCCAGACAT
GTCTTACACTAGCTCTCATTTCAATGC
Found at i:51189816 original size:49 final size:49
Alignment explanation
Indices: 51189695--51190012 Score: 224
Period size: 49 Copynumber: 6.7 Consensus size: 49
51189685 GGGGTAGAAT
* * *
51189695 GTCGATGCCATGTCCCAGACATGGTCTTACCCTGGCTCATC--CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCGAAATCGAA
* *
51189742 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGAAATCGAA
* * * * *
51189791 GCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCGCATATTCG-T
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCG-A-AATCGAA
* *
51189841 GTCGATGCCATGTCCCAGACATGGTCTTACACT-G--A-C-ACATCTTGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGAAATC--GAA
* * ** *
51189887 GCCGAT-ACATGTCCCAGACAT-GTCTTACACT-GACT-TAC-ATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTAT-CGAAATCGAA
* * **
51189933 GTAGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCG-CTTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGAAATCGAA
51189978 -TACTGATGCCATGTCCCAAGACATGGTCTTACACT
1 GT-C-GATGCCATGTCCC-AGACATGGTCTTACACT
51190013 GGCTCACATA
Statistics
Matches: 220, Mismatches: 29, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 16 0.07
46 47 0.21
47 44 0.20
48 13 0.06
49 49 0.22
50 32 0.15
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGAAATCGAA
Found at i:51189892 original size:96 final size:96
Alignment explanation
Indices: 51189697--51190018 Score: 274
Period size: 96 Copynumber: 3.4 Consensus size: 96
51189687 GGTAGAATGT
* *
51189697 CGATGCCATGTCCCAGACATGGTCTTACCCTGGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
51189762 ATGGTCTTACACTAACTATCGAAATCGAGGC
66 ATGGTCTTACACTAACTATCGAAATCGAGGC
* **
51189793 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTC-TCGCATATTCGTGTCGATGCCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C--A-TCAAGTCGATGCCATGTCCC
* ** *
51189857 AGACATGGTCTTACACTGAC-A-C-ATCTTGTA-GC
62 AGACATGGTCTTACACTAACTATCGAAATCG-AGGC
* * *
51189889 CGAT-ACATGTCCCAGACAT-GTCTTACACT-GACTTACAT-C-TCGAGGTAGATG-CATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-C-T-CATCCATC-AAGTCGATGCCATGTCCC
* * ** * **
51189948 AGACAT-GTCTTACACTAGCTCTCG-CTTCAATAC
62 AGACATGGTCTTACACTAACTATCGAAATCGAGGC
* *
51189981 TGATGCCATGTCCCAAGACATGGTCTTACACTGGCTCA
1 CGATGCCATGTCCC-AGACATGGTCTTACACTAGCTCA
51190019 CATAATGTGG
Statistics
Matches: 184, Mismatches: 24, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
90 11 0.06
91 17 0.09
92 12 0.07
93 11 0.06
94 18 0.10
95 28 0.15
96 45 0.24
97 3 0.02
98 2 0.01
99 37 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTAACTATCGAAATCGAGGC
Found at i:51190035 original size:49 final size:47
Alignment explanation
Indices: 51189697--51190058 Score: 216
Period size: 46 Copynumber: 7.7 Consensus size: 47
51189687 GGTAGAATGT
*
51189697 CGATGCCATGTCCCAGACATGGTCTTACCCTGGCTCATCCATCAA-GT--
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA--CAT-AATGTGC
** *
51189744 CGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCGA-AATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-C-ATAAT-G-TGC
* * * * *
51189793 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCGCATATTCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACATAAT-GTGC
* **
51189843 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGT-GC
* * * * * *
51189889 CGAT-ACATGTCCCAGACAT-GTCTTACACTGACTTACAT-CTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-G-TGC
* * * * *
51189935 AGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGCTTCAA--TAC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACAT-AATGTGC
*
51189981 TGATGCCATGTCCCAAGACATGGTCTTACACTGGCTCACATAATGTGGC
1 CGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATAATGT-GC
* *
51190030 CGATG-CATTTCCTAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
51190059 AGCACACAAA
Statistics
Matches: 247, Mismatches: 42, Indels: 53
0.72 0.12 0.15
Matches are distributed among these distances:
44 12 0.05
45 18 0.07
46 63 0.26
47 52 0.21
48 18 0.07
49 45 0.18
50 32 0.13
51 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGC
Found at i:51190035 original size:95 final size:95
Alignment explanation
Indices: 51189697--51190061 Score: 290
Period size: 95 Copynumber: 3.9 Consensus size: 95
51189687 GGTAGAATGT
* * **
51189697 CGATGCCATGTCCCAGACATGGTCTTACCCTGGCT--CATCCATCAAGTCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-AATCGTGTCGATGCCATGTCCCAG
* * ** **
51189760 ACATGGTCTTACACTAACTATCGAAATCGAGGC
65 ACATGGTCTTACACTAGCTCTCG-CTTC-ATAC
* * * *
51189793 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCGCATATTCGTGTCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACATAATCGTGTCGATGCCATGTCCCA
* *
51189858 GACATGGTCTTACACT-GACACAT--CTT-GTAGC
64 GACATGGTCTTACACTAG-CTC-TCGCTTCATA-C
* * * * * *
51189889 CGAT-ACATGTCCCAGACAT-GTCTTACACTGACTTACAT-CTCGAGGTAGATG-CATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATCG-TGTCGATGCCATGTCCCAG
51189950 ACAT-GTCTTACACTAGCTCTCGCTTCAATAC
65 ACATGGTCTTACACTAGCTCTCGCTTC-ATAC
* * * *
51189981 TGATGCCATGTCCCAAGACATGGTCTTACACTGGCTCACATAAT-GTGGCCGATG-CATTTCCTA
1 CGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATAATCGT-GTCGATGCCATGTCCCA
51190044 GACAT-GTCTTACACTAGC
64 GACATGGTCTTACACTAGC
51190062 ACACAAATAA
Statistics
Matches: 216, Mismatches: 35, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
89 1 0.00
90 12 0.06
91 21 0.10
92 15 0.07
93 11 0.05
94 16 0.07
95 61 0.28
96 35 0.16
97 2 0.01
98 2 0.01
99 36 0.17
100 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATCGTGTCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCGCTTCATAC
Found at i:51192844 original size:9 final size:9
Alignment explanation
Indices: 51192820--51192886 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
51192810 CATGGGATTT
*
51192820 TGATATACA
1 TGATATGCA
51192829 TGATATGCA
1 TGATATGCA
51192838 TGATATGCACA
1 TGATATG--CA
* *
51192849 TGATCTGTA
1 TGATATGCA
51192858 TGATATGCACA
1 TGATATG--CA
*
51192869 TGATATGTA
1 TGATATGCA
51192878 TGATATGCA
1 TGATATGCA
51192887 CATGATGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 31 0.66
11 16 0.34
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (9 bp):
TGATATGCA
Found at i:51192851 original size:20 final size:20
Alignment explanation
Indices: 51192826--51192892 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
51192816 ATTTTGATAT
*
51192826 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
*
51192846 ACATGATCTGTATGATATGC
1 ACATGATATGTATGATATGC
51192866 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51192886 ACATGAT
1 ACATGAT
51192893 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51192906 original size:40 final size:39
Alignment explanation
Indices: 51192826--51192906 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
51192816 ATTTTGATAT
*
51192826 ACATGATATGCATGATATGCACATGATCTGTATGATATGC
1 ACATGATATGCATGATATGCACATGA-CTGTATCATATGC
*
51192866 ACATGATATGTATGATATGCACATGA-TGTATTCATAATGC
1 ACATGATATGCATGATATGCACATGACTGTA-TCAT-ATGC
51192906 A
1 A
51192907 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 30 0.81
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (39 bp):
ACATGATATGCATGATATGCACATGACTGTATCATATGC
Found at i:51192999 original size:25 final size:25
Alignment explanation
Indices: 51192938--51193047 Score: 127
Period size: 25 Copynumber: 4.4 Consensus size: 25
51192928 AGAGGAAGTG
*
51192938 CAAAAGGGCTTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTTGCCCCAGTTTAT
51192963 CAAAAAGGGCTTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTTGCCCCAGTTTAT
* *
51192989 CAAAAGAGCTTTT-CTTCCAGTTTAT
1 CAAAAGGGCTTTTGC-CCCAGTTTAT
*
51193014 CAAAAGGGC-TTTACCCCAG-TTAT
1 CAAAAGGGCTTTTGCCCCAGTTTAT
*
51193037 TAAAAGAGGCT
1 CAAAAG-GGCT
51193048 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.12
24 11 0.15
25 30 0.41
26 24 0.32
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
CAAAAGGGCTTTTGCCCCAGTTTAT
Found at i:51193000 original size:51 final size:48
Alignment explanation
Indices: 51192938--51193044 Score: 126
Period size: 51 Copynumber: 2.2 Consensus size: 48
51192928 AGAGGAAGTG
* *
51192938 CAAAAGGGCTTTTGC-CCCAGTTTACCAAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGAGCTTTT-CTCCCAGTTTACC-AAAAGGGC-TTTACCCCAG-TTAT
* *
51192989 CAAAAGAGCTTTTCTTCCAGTTTATCAAAAGGGCTTTACCCCAGTTAT
1 CAAAAGAGCTTTTCTCCCAGTTTACCAAAAGGGCTTTACCCCAGTTAT
*
51193037 TAAAAGAG
1 CAAAAGAG
51193045 GCTAGGCCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 11 0.22
49 9 0.18
50 9 0.18
51 21 0.42
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (48 bp):
CAAAAGAGCTTTTCTCCCAGTTTACCAAAAGGGCTTTACCCCAGTTAT
Found at i:51193057 original size:49 final size:51
Alignment explanation
Indices: 51192954--51193059 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 51
51192944 GGCTTTTGCC
* *** *
51192954 CCAGTTTACCAAAAAGGGCTTTTGCCCCAGTTTATCAAAAGAGCTTTTCTT
1 CCAGTTTACCAAAAAGGGCTTTTACCCCAGTTTATCAAAAGAGCTAGGCCT
* *
51193005 CCAGTTTATC-AAAAGGGC-TTTACCCCAG-TTATTAAAAGAGGCTAGGCCT
1 CCAGTTTACCAAAAAGGGCTTTTACCCCAGTTTATCAAAAGA-GCTAGGCCT
51193054 CCAGTT
1 CCAGTT
51193060 ATATGATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 10 0.21
49 20 0.43
50 8 0.17
51 9 0.19
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (51 bp):
CCAGTTTACCAAAAAGGGCTTTTACCCCAGTTTATCAAAAGAGCTAGGCCT
Found at i:51197157 original size:27 final size:26
Alignment explanation
Indices: 51197113--51197164 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51197103 CTCGTTGCAA
*
51197113 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
51197140 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
51197165 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:51201518 original size:40 final size:40
Alignment explanation
Indices: 51201473--51201624 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
51201463 ATAACCACAA
* * *
51201473 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
51201513 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
51201553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* **
51201593 GCATAAATGCCTTCGGAACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
51201625 CATTCAAATG
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 96 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:51201557 original size:80 final size:80
Alignment explanation
Indices: 51201444--51201624 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
51201434 ACCCAAGTTT
* * * ** * * *
51201444 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGAACTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAG
*
51201507 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
** * *
51201523 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
1 CTTCGGAACTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAG
*
51201588 CACTAGCATAAATGC
66 CACTAGCACAAATGC
51201603 CTTCGGAACTTAGCCCGGATAT
1 CTTCGGAACTTAGCCCGGATAT
51201625 CATTCAAATG
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
79 10 0.12
80 71 0.85
81 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGAACTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAG
CACTAGCACAAATGC
Found at i:51205993 original size:27 final size:27
Alignment explanation
Indices: 51205963--51206140 Score: 121
Period size: 27 Copynumber: 6.6 Consensus size: 27
51205953 ATATTGAGCC
* *
51205963 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAACT
*
51205990 CGCACACTTAGTG-T-CACGTAATCAAAT
1 CGCACACTTAGTGCTACAC--AATCAACT
* *
51206017 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACACAATCA-ACT
** *** *
51206045 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAACT
* * **
51206072 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAACT
* * *
51206099 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACACAATC-AACT
51206126 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51206141 GTACAATTTA
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 95 0.75
28 26 0.21
29 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAACT
Found at i:51206102 original size:82 final size:81
Alignment explanation
Indices: 51205984--51206139 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
51205974 TGCTATACAA
* * *
51205984 TCAACTCGCACACTTAGTGTCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGTCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
51206049 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
51206066 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGTCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
51206130 CACTTAGTGC
65 CACTTAGTGC
51206140 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGTCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:51206112 original size:54 final size:54
Alignment explanation
Indices: 51205963--51206140 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 54
51205953 ATATTGAGCC
* * * * * *
51205963 CGCACACTCAGTGCTATACAATCA-ACTCGCACACTTAGTGTC-ACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTG-CAACATAGTC-AAT
** *
51206017 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCAACATAGTCAA-T
* **
51206072 CGCACACTTAGTGC-ATCATATTCA-TTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATAGTCAGACTCGCACACTTAGTGCAACATAGTC-AAT
51206126 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51206141 GTACAATTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
54 60 0.58
55 44 0.42
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCAACATAGTCAAT
Found at i:51211745 original size:104 final size:104
Alignment explanation
Indices: 51211623--51211846 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
51211613 AATGGATATC
51211623 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
51211688 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
51211727 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
51211792 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
51211831 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
51211847 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:51212208 original size:29 final size:29
Alignment explanation
Indices: 51212175--51212238 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
51212165 TAATCCACCA
51212175 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
51212204 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
51212234 CCCAA
1 CCCAA
51212239 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:51212212 original size:30 final size:30
Alignment explanation
Indices: 51212182--51212238 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51212172 CCACCCAACT
51212182 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
51212211 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
51212239 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:51215715 original size:46 final size:46
Alignment explanation
Indices: 51215593--51215722 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 46
51215583 TGTAACCCGC
*
51215593 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATTCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCCTAG-T
* *** *
51215639 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC-A-T
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATTC-CTAGT
51215686 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51215723 TGCCCAAATA
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
46 32 0.46
47 31 0.45
49 5 0.07
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCCTAGT
Found at i:51225932 original size:13 final size:13
Alignment explanation
Indices: 51225914--51225941 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51225904 ACATATTATA
51225914 AATATTTTGTGTT
1 AATATTTTGTGTT
51225927 AATATTTTGTGTT
1 AATATTTTGTGTT
51225940 AA
1 AA
51225942 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:51227405 original size:40 final size:40
Alignment explanation
Indices: 51227361--51227802 Score: 735
Period size: 40 Copynumber: 11.1 Consensus size: 40
51227351 TAAGATCCGG
51227361 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
*
51227401 AGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
*
51227441 AGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
* *
51227481 AGGCATTTGTGCTAGTGGCTATATCCGGGCTAAGTCCCAA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
* *
51227521 ATGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
51227561 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
*
51227601 AGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
*
51227641 AGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
* *
51227681 AGGCATTTGTGCTAGTGAATATATCCGGTCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
*
51227721 AGGCATTTGTGCTAGTGAATATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
* * *
51227761 AGGCATTTGTACGAGTTG-CTATATCC-GGCTAAATCCCGA
1 AGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGA
51227800 AGG
1 AGG
51227803 TACTTGGGTT
Statistics
Matches: 381, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.04
40 364 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
Found at i:51233308 original size:13 final size:13
Alignment explanation
Indices: 51233290--51233317 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51233280 ACATATTATA
51233290 AATATTTTGTGTT
1 AATATTTTGTGTT
51233303 AATATTTTGTGTT
1 AATATTTTGTGTT
51233316 AA
1 AA
51233318 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:51234781 original size:40 final size:40
Alignment explanation
Indices: 51234733--51235098 Score: 583
Period size: 40 Copynumber: 9.2 Consensus size: 40
51234723 GGACTAAGAT
*
51234733 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
51234773 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
51234813 CCGAAGGCATTTGTGCTAATGGCTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
51234853 CCAAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
51234893 CTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
51234933 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
51234973 CCAAAGGTATTTGTGCTAGTGGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
51235013 CCGAAGGCATTTGTGCTAGTGAATATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
51235053 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
51235092 CCGAAGG
1 CCGAAGG
51235099 TACTTGGGTT
Statistics
Matches: 300, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 15 0.05
40 283 0.94
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:51243526 original size:26 final size:26
Alignment explanation
Indices: 51243497--51243604 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
51243487 TGATAAAAAT
*
51243497 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51243523 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51243549 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51243575 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51243601 TGAT
1 TGAT
51243605 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51245352 original size:21 final size:21
Alignment explanation
Indices: 51245326--51245373 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
51245316 ATTTCCCACA
51245326 TGGAGTGTAG-GGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
51245347 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
51245368 TTGAGT
1 TGGAGT
51245374 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.12, C:0.02, G:0.54, T:0.31
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:51249088 original size:12 final size:12
Alignment explanation
Indices: 51249071--51249105 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
51249061 ATGAATAAAG
*
51249071 AAGATAAATGGA
1 AAGATAAATGAA
51249083 AAGATAAATGAA
1 AAGATAAATGAA
51249095 AAGATAGAATG
1 AAGATA-AATG
51249106 TGGCGTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (12 bp):
AAGATAAATGAA
Found at i:51252728 original size:9 final size:8
Alignment explanation
Indices: 51252713--51252761 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
51252703 AACCCCGAGA
51252713 ATTTTTTT
1 ATTTTTTT
51252721 ATTTTTTT
1 ATTTTTTT
51252729 ATTTTTTT
1 ATTTTTTT
** *
51252737 CGTATTTT
1 ATTTTTTT
51252745 ATTTTTTGT
1 ATTTTTT-T
*
51252754 ACTTTTTT
1 ATTTTTTT
51252762 GATCACTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (8 bp):
ATTTTTTT
Found at i:51253178 original size:12 final size:12
Alignment explanation
Indices: 51253163--51253197 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
51253153 GTGAATAAAG
*
51253163 AAGATAAATGGA
1 AAGATAAATGAA
51253175 AAGATAAATGAA
1 AAGATAAATGAA
51253187 AAGATAGAATG
1 AAGATA-AATG
51253198 TGGCGTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (12 bp):
AAGATAAATGAA
Found at i:51254891 original size:25 final size:25
Alignment explanation
Indices: 51254863--51254911 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
51254853 TTTATTTCTC
*
51254863 ATTTTTATCTTTGTCTTTAATTTTA
1 ATTTTAATCTTTGTCTTTAATTTTA
*
51254888 ATTTTAATCTTTGTTTTTAATTTT
1 ATTTTAATCTTTGTCTTTAATTTT
51254912 CATGTGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (25 bp):
ATTTTAATCTTTGTCTTTAATTTTA
Found at i:51257812 original size:29 final size:28
Alignment explanation
Indices: 51257744--51257815 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
51257734 TAATAAGAGC
51257744 AAATAAAAGAG-TGCTCAAAGTCTAAAAA
1 AAATAAAA-AGTTGCTCAAAGTCTAAAAA
* * *
51257772 AAAAAAGCAAAGTTGCTCAAAGTTTGGAAAA
1 AAATAA--AAAGTTGCTCAAAGTCT-AAAAA
51257803 AAATAAAAAGTTG
1 AAATAAAAAGTTG
51257816 AGCATGAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 5 0.14
29 9 0.25
30 13 0.36
31 9 0.25
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (28 bp):
AAATAAAAAGTTGCTCAAAGTCTAAAAA
Found at i:51260167 original size:43 final size:42
Alignment explanation
Indices: 51260051--51260173 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
51260041 GACTTATGAT
* ** *
51260051 TTACATGTAAGACCATGTCTGGGACATCAGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGA
* * * *
51260093 TTTCGTGTAAGACCTTGTCTGGGATAG-TGGCATTGATATTTGA
1 TTACATGTAAGACCATGTCTGGGA-CGTTGGCATTG-TATTTGA
* *
51260136 TTACATGTAAGACCACGCCTGGGACGTTGGCATTGTAT
1 TTACATGTAAGACCATGTCTGGGACGTTGGCATTGTAT
51260174 GAGCTTTTCG
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACGTTGGCATTGTATTTGA
Found at i:51273334 original size:42 final size:44
Alignment explanation
Indices: 51273259--51273357 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 44
51273249 AACTTCTGTT
*
51273259 TTACATTTAAGA-CTATGTCTGGGACATCAGCATC-GTATTTGA
1 TTACATGTAAGACCTATGTCTGGGACATCAGCATCAGTATTTGA
* * *
51273301 GTT-CATGTAAGACCT-TGTCTGGGACAAT-GGCATCATTGTTTGA
1 -TTACATGTAAGACCTATGTCTGGGAC-ATCAGCATCAGTATTTGA
51273344 TTACATGTAAGACC
1 TTACATGTAAGACC
51273358 ACGTCTAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
42 25 0.52
43 23 0.48
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (44 bp):
TTACATGTAAGACCTATGTCTGGGACATCAGCATCAGTATTTGA
Found at i:51276044 original size:23 final size:23
Alignment explanation
Indices: 51276018--51276067 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
51276008 ACCCCATGCA
51276018 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
51276041 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
51276064 ATGC
1 ATGC
51276068 TCAAATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:51276203 original size:27 final size:27
Alignment explanation
Indices: 51276102--51276218 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
51276092 GAACAAATCT
** *
51276102 GTCATTTTACCTTACCAGGGTATTAT-A
1 GTCATTTTACCTTATGAGGGTATT-TCG
*
51276129 GTCATTTTACCATAT-AGGGGTATTTCG
1 GTCATTTTACCTTATGA-GGGTATTTCG
* * *
51276156 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATGAGGGTATTTCG
* *
51276183 GTCATTTTACCTTTTGAGGGTATTTTG
1 GTCATTTTACCTTATGAGGGTATTTCG
*
51276210 ATCATTTTA
1 GTCATTTTA
51276219 TCACATAAGG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.03
27 73 0.97
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCTTATGAGGGTATTTCG
Found at i:51284443 original size:56 final size:56
Alignment explanation
Indices: 51284357--51284486 Score: 251
Period size: 56 Copynumber: 2.3 Consensus size: 56
51284347 TCTTACATGT
51284357 AATCACATATCGATGCCACTATCCCAAATAGGGTCTTACTTGCACACAAATATTGG
1 AATCACATATCGATGCCACTATCCCAAATAGGGTCTTACTTGCACACAAATATTGG
*
51284413 AATCACATATCGATGCCACTGTCCCAAATAGGGTCTTACTTGCACACAAATATTGG
1 AATCACATATCGATGCCACTATCCCAAATAGGGTCTTACTTGCACACAAATATTGG
51284469 AATCACATATCGATGCCA
1 AATCACATATCGATGCCA
51284487 TGGTCTGTAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (56 bp):
AATCACATATCGATGCCACTATCCCAAATAGGGTCTTACTTGCACACAAATATTGG
Found at i:51285407 original size:27 final size:27
Alignment explanation
Indices: 51285377--51285680 Score: 394
Period size: 27 Copynumber: 11.3 Consensus size: 27
51285367 CCAAAGTACT
51285377 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
51285404 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
51285431 CTCGATTTTTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
51285458 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
51285485 CTCAATTTATAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
51285512 CTCGATTTATAAAATTACTGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
51285539 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * *
51285566 CTTGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * * *
51285593 CTTGATTTACAGAATTACTGGTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * * *
51285620 CTC-AGTTTACAAAATTATCATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
51285647 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
51285674 CTTGATT
1 CTCGATT
51285681 GTGAAATTAC
Statistics
Matches: 240, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 238 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCGTTTTACC
Found at i:51285722 original size:27 final size:27
Alignment explanation
Indices: 51285685--51285880 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
51285675 TTGATTGTGA
*
51285685 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
51285712 AATTTTCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
51285739 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
51285766 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
51285793 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
51285820 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
51285847 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
51285874 AATTACC
1 AATTACC
51285881 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:51285754 original size:54 final size:54
Alignment explanation
Indices: 51285685--51285880 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
51285675 TTGATTGTGA
**
51285685 AATTACTGAAATACCCTTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
51285739 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* *
51285793 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * *
51285847 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
51285881 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:51286125 original size:27 final size:26
Alignment explanation
Indices: 51286099--51286161 Score: 108
Period size: 27 Copynumber: 2.4 Consensus size: 26
51286089 TTATGCCACA
51286099 AATATCTGTTCTGGTGACTCTGTCAC
1 AATATCTGTTCTGGTGACTCTGTCAC
*
51286125 AATATCTGTATTTGGTGACTCTGTCAC
1 AATATCTGT-TCTGGTGACTCTGTCAC
51286152 AATATCTGTT
1 AATATCTGTT
51286162 GACCGATCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 10 0.29
27 25 0.71
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (26 bp):
AATATCTGTTCTGGTGACTCTGTCAC
Found at i:51286281 original size:22 final size:22
Alignment explanation
Indices: 51286249--51286307 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
51286239 CCCGTTATTA
*
51286249 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
51286271 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
51286293 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
51286308 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:51286494 original size:27 final size:27
Alignment explanation
Indices: 51286472--51286544 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
51286462 TAGGTGGGTT
*
51286472 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
51286499 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
51286526 TGTCACGA-ATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
51286545 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.12
26 6 0.15
27 29 0.71
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:51286671 original size:6 final size:6
Alignment explanation
Indices: 51286662--51286763 Score: 79
Period size: 6 Copynumber: 16.8 Consensus size: 6
51286652 TTGCATTCAC
* * *
51286662 ATTCTG ATTCTG ATTCTG --TCACG AAATTCTG ATTCTA ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG -A-TTCTG ATTCTG ATTCTG ATTCTG
*
51286711 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
51286759 ATTCT
1 ATTCT
51286764 CATTTTGGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
4 2 0.03
5 6 0.08
6 61 0.79
7 4 0.05
8 2 0.03
9 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:51286755 original size:30 final size:30
Alignment explanation
Indices: 51286662--51286763 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
51286652 TTGCATTCAC
*
51286662 ATTCTGATTCTGATTCTGTCAC-GAAATTCTG
1 ATTCTGATTCTGATTCTGTTACTG--ATTCTG
* * *
51286693 ATTCTAATTTTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTGAT-TCTG
51286723 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTGATTCTG
51286753 ATTCTGATTCT
1 ATTCTGATTCT
51286764 CATTTTGGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
29 1 0.02
30 40 0.66
31 20 0.33
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTGATTCTG
Found at i:51294633 original size:43 final size:43
Alignment explanation
Indices: 51294577--51295131 Score: 627
Period size: 43 Copynumber: 13.0 Consensus size: 43
51294567 ATATCGTACA
* * * *
51294577 ATGCCAATGTCCCAAATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * * * *
51294620 ATGCC-ACTATCCCAAATAG-GGTCTTAAAC-AAATCAAATA-CG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAATCACATATCG
** * * * *
51294661 ATATCAATGTCCCAGACATGGTCATACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
51294704 ATGCCAACATCTCAGACGTCGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* ** *
51294747 ATGCCAACATCCCAGACGTCATCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
51294790 ATGCCAATGTCCCAGACGTTGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
51294833 ACGCCAACGTCCTAGACGTTGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
51294876 ATGCCAATGTCCTAGACGTGGTCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
51294919 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACTTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
51294962 ATGCCAACATCCAAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
51295005 ATGCCAACGTCCCAGACGGGGTCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
51295048 ATGCC-ACTGTCCCAGACAG-GGTTTTACACGTAATCACATATAG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * *
51295091 ATGCCAACGTCCCAAACATGGTCTTACACATAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
51295132 TGAAATCACA
Statistics
Matches: 437, Mismatches: 65, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
41 19 0.04
42 20 0.05
43 394 0.90
44 4 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:51305066 original size:43 final size:43
Alignment explanation
Indices: 51304990--51305115 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
51304980 AAGTCTAAAC
* * **
51304990 TCAT-TCACCGGCATT-TCGCC-GCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
* * *
51305030 TCATTTCACCGACATTATAGCTTTCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
* * *
51305073 TTATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
51305116 ATATTATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 4 0.06
41 10 0.14
42 3 0.04
43 54 0.76
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (43 bp):
TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:51306975 original size:46 final size:46
Alignment explanation
Indices: 51306925--51307100 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51306915 TGGTTGAGCA
51306925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51306971 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
51307016 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
51307064 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51307101 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51307081 original size:93 final size:93
Alignment explanation
Indices: 51306922--51307092 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
51306912 GGATGGTTGA
* * *
51306922 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51306987 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51307015 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51307080 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51307093 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51309624 original size:14 final size:15
Alignment explanation
Indices: 51309595--51309624 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51309585 CAAAATTTAG
51309595 ACATGATACTTTCAC
1 ACATGATACTTTCAC
51309610 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
51309624 A
1 A
51309625 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:51314229 original size:47 final size:47
Alignment explanation
Indices: 51314172--51314318 Score: 204
Period size: 47 Copynumber: 3.1 Consensus size: 47
51314162 TTAGGATTTT
** *
51314172 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
51314219 ATTTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
51314266 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
51314313 ATGTGA
1 ATGTGA
51314319 AATATGTATG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 87 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:51314571 original size:36 final size:36
Alignment explanation
Indices: 51314524--51314631 Score: 189
Period size: 36 Copynumber: 3.0 Consensus size: 36
51314514 TGGAAATATA
51314524 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
51314560 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
* *
51314597 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
51314632 TGTCTGAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
36 35 0.51
37 34 0.49
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:51314606 original size:37 final size:37
Alignment explanation
Indices: 51314524--51314635 Score: 199
Period size: 37 Copynumber: 3.1 Consensus size: 37
51314514 TGGAAATATA
51314524 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
51314560 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
51314597 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
51314634 TC
1 TC
51314636 TGAGCTAAAG
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 32 0.44
37 41 0.56
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:51316896 original size:27 final size:27
Alignment explanation
Indices: 51316866--51317075 Score: 285
Period size: 27 Copynumber: 7.7 Consensus size: 27
51316856 TTAGTTTACC
*
51316866 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
51316893 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51316920 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
51316947 AAATTACTAAAATACCCTTTTGTTTATA
1 AAATTACCAAAATACCC-CTGGTTTGTA
*
51316975 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
51317002 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
51317029 AAATTATCAAAATACCCCCAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51317056 AAATTACCAAAATATCCCTG
1 AAATTACCAAAATACCCCTG
51317076 ATTCGTGAAA
Statistics
Matches: 160, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 137 0.86
28 23 0.14
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:51316988 original size:82 final size:82
Alignment explanation
Indices: 51316866--51317045 Score: 256
Period size: 82 Copynumber: 2.2 Consensus size: 82
51316856 TTAGTTTACC
* * * * * *
51316866 AAATTAACAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTATCAAAATACCCTTTTGTTTATAAAATCACCAAAATACCCCTGGTTTACAAAATTACCAA
*
51316930 AATACCCTTGGTTTGTA
66 AATACCCCTGGTTTGTA
**
51316947 AAATTA-CTAAAATACCCTTTTGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCA
1 AAATTATC-AAAATACCCTTTTGTTTATAAAATCACCAAAATACCCCTGGTTTACAAAATTACCA
51317011 AAATACCCCTGGTTTGTA
65 AAATACCCCTGGTTTGTA
51317029 AAATTATCAAAATACCC
1 AAATTATCAAAATACCC
51317046 CCAGTTTGTA
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 15 0.17
82 71 0.81
83 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (82 bp):
AAATTATCAAAATACCCTTTTGTTTATAAAATCACCAAAATACCCCTGGTTTACAAAATTACCAA
AATACCCCTGGTTTGTA
Found at i:51317053 original size:109 final size:110
Alignment explanation
Indices: 51316873--51317074 Score: 325
Period size: 109 Copynumber: 1.8 Consensus size: 110
51316863 ACCAAATTAA
* *
51316873 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCT
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCC
** *
51316938 TGGTTTGTAAAATTACTAAAATA-CCCTTTTGTTTATAAAATCAC
66 CAGTTTGTAAAATTACCAAAATATCCCTTTTGTTTATAAAATCAC
** *
51316982 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCC
1 CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCC
51317047 CAGTTTGTAAAATTACCAAAATATCCCT
66 CAGTTTGTAAAATTACCAAAATATCCCT
51317075 GATTCGTGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
109 80 0.95
110 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (110 bp):
CAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCC
CAGTTTGTAAAATTACCAAAATATCCCTTTTGTTTATAAAATCAC
Found at i:51317086 original size:27 final size:27
Alignment explanation
Indices: 51316866--51317171 Score: 242
Period size: 27 Copynumber: 11.3 Consensus size: 27
51316856 TTAGTTTACC
* *
51316866 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
51316893 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
51316920 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * *
51316947 AAATTACTAAAATACCCTTTTG-TTTATA
1 AAATTACCAAAATACCC--CTGATTTGTA
* *
51316975 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
51317002 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
51317029 AAATTATCAAAATACCCC-CAGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* * *
51317056 AAATTACCAAAATATCCCTGATTCGTG
1 AAATTACCAAAATACCCCTGATTTGTA
*** * **
51317083 AAATTATTGAAATA-CCTTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** *
51317110 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * *
51317137 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
51317164 GAATTACC
1 AAATTACC
51317172 GTTTTTCCCT
Statistics
Matches: 233, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.02
27 201 0.86
28 24 0.10
29 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:51317208 original size:27 final size:27
Alignment explanation
Indices: 51316866--51317208 Score: 230
Period size: 27 Copynumber: 12.7 Consensus size: 27
51316856 TTAGTTTACC
* *
51316866 AAATTAACAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
51316893 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
51316920 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
51316947 AAATTACTAAAATACCCTTTTG-TTTATA
1 AAATTACCAAAATACCC--TCGATTTGTA
* *
51316975 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
51317002 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
51317029 AAATTATCAAAATACCC-CCAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
51317056 AAATTACCAAAATATCCCT-GATTCGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
*** * **
51317083 AAATTATTGAAATACCTTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
51317110 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
51317137 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** * **
51317164 GAATTACCGTTTTTCCCTCGATTTAAA
1 AAATTACCAAAATACCCTCGATTTGTA
51317191 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
51317209 TGTAGGGTAG
Statistics
Matches: 256, Mismatches: 51, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
26 4 0.02
27 225 0.88
28 24 0.09
29 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:51317229 original size:27 final size:27
Alignment explanation
Indices: 51317192--51317493 Score: 360
Period size: 27 Copynumber: 11.2 Consensus size: 27
51317182 CGATTTAAAA
* *
51317192 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
51317219 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
51317246 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
51317273 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
***
51317300 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
**
51317327 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCCTGTAGGGTAG
** *
51317354 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
** *
51317381 AATTA-TCGCAATACCCCTGAAGGGTAG
1 AATTACT-AAAATACCCCTGTAGGGTAG
**
51317408 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
51317435 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
51317462 AATTAC-AAAGATA-CCTTGTAGGGTAA
1 AATTACTAAA-ATACCCCTGTAGGGTAG
51317488 AATTAC
1 AATTAC
51317494 CATTTTTCCC
Statistics
Matches: 246, Mismatches: 24, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
26 19 0.08
27 227 0.92
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:51317964 original size:22 final size:21
Alignment explanation
Indices: 51317921--51317985 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
51317911 TTAAAGCCTT
* *
51317921 CTGATTATGGCTTCGTGTCAAC
1 CTGAATATGGCTT-GTGCCAAC
51317943 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCT-TGTGCCAAC
*
51317965 CTGATTATGGCTGTGTGCCAA
1 CTGAATATGGCT-TGTGCCAA
51317986 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 33 0.92
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (21 bp):
CTGAATATGGCTTGTGCCAAC
Found at i:51318174 original size:27 final size:27
Alignment explanation
Indices: 51318159--51318227 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
51318149 TTTGCTATAT
51318159 TATCTGTTTCTGGTGGCTATGCCACAAA
1 TATCTG-TTCTGGTGGCTATGCCACAAA
*
51318187 TATCTGTTCTGGTGGCTCTGCCAC-AA
1 TATCTGTTCTGGTGGCTATGCCACAAA
*
51318213 TATCTATATCTGGTG
1 TATCTGT-TCTGGTG
51318228 ACTCTATCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 8 0.21
27 24 0.63
28 6 0.16
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
TATCTGTTCTGGTGGCTATGCCACAAA
Found at i:51318232 original size:27 final size:26
Alignment explanation
Indices: 51318166--51318244 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
51318156 TATTATCTGT
* *
51318166 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTA
51318193 TTCTGGTGGCTCTGCCACAATATCTA
1 TTCTGGTGGCTCTGCCACAATATCTA
* **
51318219 TATCTGGTGACTCTATCACAATATCT
1 T-TCTGGTGGCTCTGCCACAATATCT
51318245 GATAACTGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTA
Found at i:51318420 original size:6 final size:6
Alignment explanation
Indices: 51318406--51318491 Score: 95
Period size: 6 Copynumber: 14.2 Consensus size: 6
51318396 TTCTGTTACT
* * * *
51318406 TGATAC TGATTC TGATTT TGATTC TG-TTACC TAATAC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
51318455 TGATTC TGATTC TG-TTAC TGATTC TGATTC TGATTC T
1 TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC T
51318492 CATTTTGGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.06
6 59 0.87
7 4 0.06
8 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:51318431 original size:31 final size:30
Alignment explanation
Indices: 51318394--51318491 Score: 135
Period size: 31 Copynumber: 3.2 Consensus size: 30
51318384 TTTGATTTTA
*
51318394 GATTCTGTTACTTGATACTGATTCTGATTTT
1 GATTCTGTTAC-TGATACTGATTCTGATTCT
*
51318425 GATTCTGTTACCTAATACTGATTCTGATTCT
1 GATTCTGTTA-CTGATACTGATTCTGATTCT
*
51318456 GATTCTGATT-CTGTTACTGATTCTGATTCT
1 GATTCTG-TTACTGATACTGATTCTGATTCT
51318486 GATTCT
1 GATTCT
51318492 CATTTTGGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
30 24 0.39
31 34 0.56
32 3 0.05
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (30 bp):
GATTCTGTTACTGATACTGATTCTGATTCT
Found at i:51320762 original size:44 final size:44
Alignment explanation
Indices: 51320712--51320870 Score: 168
Period size: 43 Copynumber: 3.7 Consensus size: 44
51320702 TATGTGTCTT
*
51320712 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATTTA
* * *
51320756 CGTGTAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
* *
51320798 TGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTTA
* * *
51320841 CATGGAAGACCACGTCTGGAACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
51320871 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 28 0.30
43 37 0.39
44 29 0.31
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:51320850 original size:43 final size:43
Alignment explanation
Indices: 51320712--51320852 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 43
51320702 TATGTGTCTT
** *
51320712 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCATATCTGGGACAG-TGGCATCGA-TATTTGA-TTA
* *
51320756 CGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGATTT
1 CGTGTAAGACCATATCTGGGACAGT-GGCATCGATATTTGATTA
* *
51320798 TGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTA
* *
51320841 CATGGAAGACCA
1 CGTGTAAGACCA
51320853 CGTCTGGAAC
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
42 29 0.36
43 25 0.31
44 27 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTA
Found at i:51323646 original size:27 final size:27
Alignment explanation
Indices: 51323616--51323716 Score: 166
Period size: 27 Copynumber: 3.7 Consensus size: 27
51323606 CGTACCTAAA
*
51323616 CCCTCATGTGATAAGATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTT
51323643 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTT
* *
51323670 CCCTCAGGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTT
*
51323697 CCCTTATGTGATAAAATGAC
1 CCCTCATGTGATAAAATGAC
51323717 TGAAATACCC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTT
Found at i:51323743 original size:54 final size:54
Alignment explanation
Indices: 51323616--51323728 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
51323606 CGTACCTAAA
* * * ** **
51323616 CCCTCATGTGATAAGATGACGATTTTTCCCTCATGTGATAAAATGACGATTTTT
1 CCCTCAGGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGAAATAC
*
51323670 CCCTCAGGTGATAAAATGACGATTTTGCCCTTATGTGATAAAATGACTGAAATAC
1 CCCTCAGGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGAC-GAAATAC
51323725 CCCT
1 CCCT
51323729 ATAGGGTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
54 43 0.86
55 7 0.14
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (54 bp):
CCCTCAGGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGAAATAC
Found at i:51323848 original size:23 final size:23
Alignment explanation
Indices: 51323805--51323852 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
51323795 CTGTATTTGA
51323805 GCATACCATGTTATATGTATGTT
1 GCATACCATGTTATATGTATGTT
51323828 GCAT-CCATGTATAATAT-TATGTT
1 GCATACCATGT-T-ATATGTATGTT
51323851 GC
1 GC
51323853 GCTGCATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 13 0.57
24 4 0.17
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
GCATACCATGTTATATGTATGTT
Found at i:51324742 original size:39 final size:39
Alignment explanation
Indices: 51324656--51324834 Score: 150
Period size: 39 Copynumber: 4.6 Consensus size: 39
51324646 ACTTGAAACC
* * * *
51324656 AATTACCAGCAC-AAGCCTGTGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACGAAGCCTG-CGGAACTTAAGCCCGGACAT
* * *
51324695 AATACCAGCTCGAAGCCTGCGGAACTTTAGCCCGGACAT
1 AATTCCAGCACGAAGCCTGCGGAACTTAAGCCCGGACAT
* * * * *
51324734 ATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATAT
1 AATTCCAGCACGAAGCCTGCGGAACTTAAGCCCGGACAT
* * * *
51324773 AATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCGGATAT
1 AATTCCAGCACGA-AGCCTGCGGAACTTAAGCCCGGACAT
51324812 AATTCCAGCAC-ATAGCCTGCGGA
1 AATTCCAGCACGA-AGCCTGCGGA
51324835 CCCTAAGTCC
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 18 0.15
39 101 0.85
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
AATTCCAGCACGAAGCCTGCGGAACTTAAGCCCGGACAT
Found at i:51324781 original size:78 final size:78
Alignment explanation
Indices: 51324688--51324851 Score: 215
Period size: 78 Copynumber: 2.1 Consensus size: 78
51324678 GAATTTAAAC
* * * * *
51324688 CCGG-TATAATACCAGCTCGA-AGCCTGCGGAACTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 CCGGATATAATACCAGCAC-ATAGCCTGCGGAACCTAAGCCCGGACATAATTCCAGCACATAGCC
*
51324751 TGCGGACCTTAAGT
65 TGCGGACCCTAAGT
* * * *
51324765 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGAACCTAAGCCCGGACATAATTCCAGCACATAGCCT
51324830 GCGGACCCTAAGT
66 GCGGACCCTAAGT
51324843 CCGGATATA
1 CCGGATATA
51324852 CATCACTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
77 5 0.07
78 70 0.93
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGAACCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:51324835 original size:39 final size:39
Alignment explanation
Indices: 51324708--51324851 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
51324698 ACCAGCTCGA
* * * * * * *
51324708 AGCCTGCGGAACTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
*
51324747 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
51324786 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
51324825 AGCCTGCGGACCCTAAGTCCGGATATA
1 AGCCTGCGGACCCTAAGTCCGGATATA
51324852 CATCACTGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 98 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
Found at i:51331404 original size:39 final size:39
Alignment explanation
Indices: 51331361--51331476 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
51331351 CTGGACATAT
* * *
51331361 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATAA
51331400 TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATAA
51331439 TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATA
51331477 CATCGCTGAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATAA
Found at i:51332615 original size:34 final size:33
Alignment explanation
Indices: 51332577--51332684 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 33
51332567 TGATTCTGTA
*
51332577 ATGGGCTAATGCCCAGATTGCCACTGTTACTGAT
1 ATGGGCTAA-GCCCAGATTGCTACTGTTACTGAT
* * * * *
51332611 ATGGGCTTAGGCCC-CACTGCTACTATTACTGAA
1 ATGGGC-TAAGCCCAGATTGCTACTGTTACTGAT
* *
51332644 ATGGGCTAAGCTCCAGTTTGCTACTGTTACTAAT
1 ATGGGCTAAGC-CCAGATTGCTACTGTTACTGAT
51332678 ATGGGCT
1 ATGGGCT
51332685 TAGGCACAGA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
32 4 0.07
33 22 0.38
34 30 0.52
35 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (33 bp):
ATGGGCTAAGCCCAGATTGCTACTGTTACTGAT
Found at i:51332684 original size:67 final size:66
Alignment explanation
Indices: 51332560--51332689 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 66
51332550 CTGTTTGCAT
* *
51332560 ACTGCACTGATTCTGTAATGGGCTAATGCCCAGATTGCCACTGTTACTGATATGGGCTTAGGCCC
1 ACTGCACTGATTCTGAAATGGGCTAATGCCCAGATTGCCACTGTTACTAATATGGGCTTAGGCCC
51332625 C
66 C
* *
51332626 ACTGCTACT-ATTACTGAAATGGGCTAA-GCTCCAGTTTGCTACTGTTACTAATATGGGCTTAGG
1 ACTGC-ACTGATT-CTGAAATGGGCTAATGC-CCAGATTGCCACTGTTACTAATATGGGCTTAGG
51332689 C
63 C
51332690 ACAGAATGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
66 10 0.18
67 47 0.82
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (66 bp):
ACTGCACTGATTCTGAAATGGGCTAATGCCCAGATTGCCACTGTTACTAATATGGGCTTAGGCCC
C
Found at i:51335144 original size:26 final size:26
Alignment explanation
Indices: 51335115--51335167 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
51335105 TTTACAGTTT
51335115 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
51335141 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
51335167 T
1 T
51335168 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:51335563 original size:32 final size:30
Alignment explanation
Indices: 51335478--51335571 Score: 71
Period size: 32 Copynumber: 2.9 Consensus size: 30
51335468 TACGGGCCAT
* *
51335478 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCT-TGGCCCAGTTC
* * *
51335512 AATGTAATCTGAACAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAA-TGGGCT-TGGCCCAGT-TC
51335545 ACTGTTATCTGAATGGGCTTAGGCCCA
1 ACTGTTATCTGAATGGGCTT-GGCCCA
51335572 ATGGGCTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.02
32 24 0.50
33 12 0.25
34 11 0.23
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (30 bp):
ACTGTTATCTGAATGGGCTTGGCCCAGTTC
Found at i:51337979 original size:39 final size:40
Alignment explanation
Indices: 51337869--51338015 Score: 161
Period size: 41 Copynumber: 3.6 Consensus size: 40
51337859 TGATATCTAG
* * * * * *
51337869 CACACAAAGTGCCATATATAGCGGAAGCTATCTCGATCTCA
1 CACACTAAGTGCTATATATAGCCGAAGCTATATTGA-ATCA
*
51337910 CACACTAAGTGCTATATATAGCCGAAGCTATGTTGAATCA
1 CACACTAAGTGCTATATATAGCCGAAGCTATATTGAATCA
* * *
51337950 CACATTTAGTGCTAT-TATAGCCGAAGCTATATTGAATCG
1 CACACTAAGTGCTATATATAGCCGAAGCTATATTGAATCA
*
51337989 CACACTAAGTGTCATATATATACCCGA
1 CACACTAAGTG-C-TATATATAGCCGA
51338016 TTTGTTGTCG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.34
40 17 0.19
41 34 0.38
42 8 0.09
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (40 bp):
CACACTAAGTGCTATATATAGCCGAAGCTATATTGAATCA
Found at i:51339402 original size:13 final size:13
Alignment explanation
Indices: 51339386--51339410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51339376 TTAAATCAGT
51339386 TAATTAGTTTAAA
1 TAATTAGTTTAAA
51339399 TAATTAGTTTAA
1 TAATTAGTTTAA
51339411 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:51341841 original size:79 final size:81
Alignment explanation
Indices: 51341699--51341881 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
51341689 TACTCGTTCA
* * * *
51341699 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCAGAACTTAACCCGGA
* *
51341763 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
51341779 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACACGCACAAATGCCTTC-GAATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCAGAA-CTTAACCCGG
* *
51341841 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
51341858 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
51341882 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCAGAACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:51341881 original size:40 final size:40
Alignment explanation
Indices: 51341697--51341881 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
51341687 GCTACTCGTT
* * *
51341697 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
51341737 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
51341777 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAAC-ACGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTA-GCA
* * * *
51341816 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
51341857 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51341882 CATCATTCGA
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 30 0.25
40 78 0.65
41 10 0.08
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:51344064 original size:80 final size:79
Alignment explanation
Indices: 51343925--51344090 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
51343915 GGACTAAGAT
* **
51343925 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
51343989 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
51344005 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
51344069 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
51344084 CCGAAGG
1 CCGAAGG
51344091 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:51344071 original size:40 final size:40
Alignment explanation
Indices: 51343889--51344057 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
51343879 GGACTAAGAT
* **
51343889 CCGAAGGC--TTGTGCGAGATAC--AATCCGGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TC
51343925 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
51343965 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
51344005 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
51344045 CCGAAGGCATTTG
1 CCGAAGGCATTTG
51344058 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
36 8 0.07
38 12 0.10
39 1 0.01
40 99 0.81
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:51351913 original size:35 final size:36
Alignment explanation
Indices: 51351847--51351934 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 36
51351837 TCCGAAGGCA
51351847 GAGTACTAATCCGGGCTAAGCCCGAAGGCATTTGTGC
1 GAGTACTAATCC-GGCTAAGCCCGAAGGCATTTGTGC
*
51351884 GA-TACTAATCCGGCTTAA-TCCGAAGGCATTTGTGC
1 GAGTACTAATCCGGC-TAAGCCCGAAGGCATTTGTGC
51351919 GAGTTACTAAATCCGG
1 GAG-TACT-AATCCGG
51351935 AAGTCGCGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.46
36 12 0.26
37 6 0.13
38 7 0.15
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (36 bp):
GAGTACTAATCCGGCTAAGCCCGAAGGCATTTGTGC
Found at i:51356863 original size:22 final size:21
Alignment explanation
Indices: 51356821--51356863 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
51356811 ATGCGTATTG
* *
51356821 AGTTATAATATGTAATGCATT
1 AGTTATAAAATGTAATCCATT
*
51356842 AGTTAGTAAAATGTATTCCATT
1 AGTTA-TAAAATGTAATCCATT
51356864 GTGTGTGGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
AGTTATAAAATGTAATCCATT
Found at i:51357270 original size:963 final size:965
Alignment explanation
Indices: 51355971--51357898 Score: 3593
Period size: 963 Copynumber: 2.0 Consensus size: 965
51355961 NNNNNNNNNN
51355971 CCTTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAATTTACCCAAATTAGCTTAGCGG
1 CCTTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAATTTACCCAAATTAGCTTAGCGG
51356036 CCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGTGATGTATGTTAGGAAAAT
66 CCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGTGATGTATGTTAGGAAAAT
*
51356101 AAAATAAGGAGTATGGGTAATAAAGAAATGGAAAAAAAAAAAAAAGAATGTGTGTGATTGTCTCC
131 AAAATAAGGAGCATGGGTAATAAAGAAATGGAAAAAAAAAAAAAAGAATGTGTGTGATTGTCTCC
51356166 CCCCCATTGCCGTGAGTGAAGAAAAGAAACAAAAAAAAAGTGTTTCATCCTTTGTTCATCCTTGG
196 CCCCCATTGCCGTGAGTGAAGAAAAGAAACAAAAAAAAAGTGTTTCATCCTTTGTTCATCCTTGG
51356231 CCGAAAATTCAAGGAAGAGGAAGGAGTTCTTGCTTCATGTTTGTTTGGAAGAGGATTAGGAGGAG
261 CCGAAAATTCAAGGAAGAGGAAGGAGTTCTTGCTTCATGTTTGTTTGGAAGAGGATTAGGAGGAG
51356296 GTTTGGCCATACTTGTATCTAGA-TAAGGTATGTTTGAGTTGTGCCATGAGATTCA-TGCATGTT
326 GTTTGGCCATACTTGTATCTAGATTAAGGTATGTTTGAGTTGTGCCATGAGATTCAGTG-ATGTT
51356359 TTTAGTTGCTAGCTTGAGTTCTAATTAG-CCATGGTTCAAATCTTTGCTATGTCAT-GGGATGAT
390 TTTAGTTGCTAGCTTGAGTTCTAATTAGCCCATGGTTCAAATCTTTGCTATGTCATGGGGATGAT
51356422 ATTCGGCCAAGGTGGATTTTGTGTTAAT-CATTGCATGCTAAATTGAAGCTTGTTAATGATCATG
455 ATTCGGCC-AGGTGGATTTTGTGTTAATGCATTGCATGCTAAATTGAAGCTTGTTAATGATCATG
51356486 TGATGGTGGATTGATTACTCTG-GAT-TTCTTTTTAGCATTTTTG-AGTGAGACATTAAGTTCTT
519 TGATGGTGGATTGATTA-TCTGAGATCTTCTTTTTAGCATTTTTGAAGTGAGACATTAAGTTCTT
51356548 GTTTAACCATGATAAAAATTGAAATGGTAAGGTGTTGTTGATGTATTCGGCCATGGTATATTCCA
583 GTTTAACCATGATAAAAATTGAAATGGTAAGGTGTTG-TGATGTATTCGGCCAT-GTATATT-CA
51356613 TAAGTATGATTTATGCTTATTGCATGTAGGTAAGATTTGTGTTTTGGATTTATGTTTATGTTTGG
645 TAAGTATGATTTATGCTTATTGCATGTA-GTAAGATTTGTGTTTTGGATTTATGTTTATGTTTGG
51356678 TTATAATCAACCTTGTGATTCGGCTCTTACACACATATATATATGTTTGCACATGATGTATT-GG
709 TTATAAT-AACCTTGTGATTCGGCTCTTACACACATATATATATGTTTGCACATGATGTATTGGG
51356742 CATGACATATATAATATCTCAAGGTATATATTTTCATATGATGGTGTTTCGGTTATGGAGTAAAT
773 CAT-ACATATATAATATCTCAAGGTATATATTTTCATATGATGGTGTTTCGG-TATGGAGTAAAT
51356807 GATGATGCGTATTGAGTTATAATATGTAATGCATTAGTTAGTAAAATGTATTCCATTGTGTGTGG
836 GATGATGCGTATTGAGTTATAATATGTAATGCATTAGTTAGTAAAATGTATTCCATTGTGTGTGG
51356872 TATTAAGTACATAATTGGCCTCAACATAAACATGCATATTCGGCCACATGAATGAGTACATTAGG
901 TATTAAGTACATAATTGGCCTCAACATAAA-ATGCATATTCGGCCACATGAATGAGTACATTAGG
51356937 T
965 T
51356938 CCTTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAATTT-CCC-AATTAGCTTAGCGG
1 CCTTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAATTTACCCAAATTAGCTTAGCGG
51357001 CCGGCCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGTG-TGTATGTTAGGAAAA
66 CCGG-CCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGTGATGTATGTTAGGAAAA
51357065 TAAAATAAGGAGCATGGGTAATAAAGAAATGGAAAAAAAAAAAAAAGAATGTGTGTG-TTGTCTC
130 TAAAATAAGGAGCATGGGTAATAAAGAAATGGAAAAAAAAAAAAAAGAATGTGTGTGATTGTCTC
51357129 CCCCCCATTGCCGTGAGT-AAGAAAAGAAA-AAAAAAAAA-TGTTTCATCCTTT-TTCATCCTCT
195 CCCCCCATTGCCGTGAGTGAAGAAAAGAAACAAAAAAAAAGTGTTTCATCCTTTGTTCAT-C-CT
51357190 TGGCCGAAAATTCTAAGGAAGAGGAAGGAGTTCTTGCTTCATGTTTGTTTGGAAGAGGATTAGGA
258 TGGCCGAAAATTC-AAGGAAGAGGAAGGAGTTCTTGCTTCATGTTTGTTTGGAAGAGGATTAGGA
51357255 GGAGGTTTGGCCATACTTGTATCTAGATTAAGGTATGTTTGAGTTGTGCCATGAGATTCAGTGAT
322 GGAGGTTTGGCCATACTTGTATCTAGATTAAGGTATGTTTGAGTTGTGCCATGAGATTCAGTGAT
51357320 GTTTTTAGTTGCTAGCTTGAGTTCTAATTAGCCCATGGTTCAAATCTTTGCTATGTCATGGGGAT
387 GTTTTTAGTTGCTAGCTTGAGTTCTAATTAGCCCATGGTTCAAATCTTTGCTATGTCATGGGGAT
51357385 GATATTCGGCCAGGTGGATTTTGTGTTAATGCATTGCATGCTAAATTGAAGCTTGTTAATGATCA
452 GATATTCGGCCAGGTGGATTTTGTGTTAATGCATTGCATGCTAAATTGAAGCTTGTTAATGATCA
51357450 TGTGATGGTGGATTGATTATCTGAGATCTTCTTTTTAGCATTTTTGAAGTGAGACATTAAGTTCT
517 TGTGATGGTGGATTGATTATCTGAGATCTTCTTTTTAGCATTTTTGAAGTGAGACATTAAGTTCT
51357515 TGTTTAACCATGATAAAAATTGAAATGGTAAGGTGTTGTGATGTATTCGGCCATGTATATTCATA
582 TGTTTAACCATGATAAAAATTGAAATGGTAAGGTGTTGTGATGTATTCGGCCATGTATATTCATA
51357580 AGTATGATTTATGCTTATTGCATGTAGTAAGATTTGTGTTTTGGATTTATGTTTATGTTTGGTTA
647 AGTATGATTTATGCTTATTGCATGTAGTAAGATTTGTGTTTTGGATTTATGTTTATGTTTGGTTA
51357645 TAATAACCTTGTGATTCGGCTCTTACACACATATATATATGTTTGCACATGATGTATTGGGCATA
712 TAATAACCTTGTGATTCGGCTCTTACACACATATATATATGTTTGCACATGATGTATTGGGCATA
51357710 CATATATAATATCTCAAGGTATATATTTTCATATGATGGTGTTTCGGTATGGAGTAAATGATGAT
777 CATATATAATATCTCAAGGTATATATTTTCATATGATGGTGTTTCGGTATGGAGTAAATGATGAT
51357775 GCGTATTGAGTTATAATATGTAATGCATTAGTTAGTAAAATGTATTCCATTGTGTGTGGTATTAA
842 GCGTATTGAGTTATAATATGTAATGCATTAGTTAGTAAAATGTATTCCATTGTGTGTGGTATTAA
51357840 GTACATAATTGGCCTCAACATAAAATGCATATTCGGCCACATGAATGAGTACATTAGGT
907 GTACATAATTGGCCTCAACATAAAATGCATATTCGGCCACATGAATGAGTACATTAGGT
51357899 TCTGTGTTCT
Statistics
Matches: 947, Mismatches: 1, Indels: 32
0.97 0.00 0.03
Matches are distributed among these distances:
960 5 0.01
961 49 0.05
962 131 0.14
963 191 0.20
964 138 0.15
965 171 0.18
966 126 0.13
967 80 0.08
968 56 0.06
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.36
Consensus pattern (965 bp):
CCTTATTAATGCATGTTGTGAAAATGATGGGTTTGCATGTCAATTTACCCAAATTAGCTTAGCGG
CCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGTGATGTATGTTAGGAAAAT
AAAATAAGGAGCATGGGTAATAAAGAAATGGAAAAAAAAAAAAAAGAATGTGTGTGATTGTCTCC
CCCCCATTGCCGTGAGTGAAGAAAAGAAACAAAAAAAAAGTGTTTCATCCTTTGTTCATCCTTGG
CCGAAAATTCAAGGAAGAGGAAGGAGTTCTTGCTTCATGTTTGTTTGGAAGAGGATTAGGAGGAG
GTTTGGCCATACTTGTATCTAGATTAAGGTATGTTTGAGTTGTGCCATGAGATTCAGTGATGTTT
TTAGTTGCTAGCTTGAGTTCTAATTAGCCCATGGTTCAAATCTTTGCTATGTCATGGGGATGATA
TTCGGCCAGGTGGATTTTGTGTTAATGCATTGCATGCTAAATTGAAGCTTGTTAATGATCATGTG
ATGGTGGATTGATTATCTGAGATCTTCTTTTTAGCATTTTTGAAGTGAGACATTAAGTTCTTGTT
TAACCATGATAAAAATTGAAATGGTAAGGTGTTGTGATGTATTCGGCCATGTATATTCATAAGTA
TGATTTATGCTTATTGCATGTAGTAAGATTTGTGTTTTGGATTTATGTTTATGTTTGGTTATAAT
AACCTTGTGATTCGGCTCTTACACACATATATATATGTTTGCACATGATGTATTGGGCATACATA
TATAATATCTCAAGGTATATATTTTCATATGATGGTGTTTCGGTATGGAGTAAATGATGATGCGT
ATTGAGTTATAATATGTAATGCATTAGTTAGTAAAATGTATTCCATTGTGTGTGGTATTAAGTAC
ATAATTGGCCTCAACATAAAATGCATATTCGGCCACATGAATGAGTACATTAGGT
Found at i:51357825 original size:22 final size:21
Alignment explanation
Indices: 51357783--51357825 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
51357773 ATGCGTATTG
* *
51357783 AGTTATAATATGTAATGCATT
1 AGTTATAAAATGTAATCCATT
*
51357804 AGTTAGTAAAATGTATTCCATT
1 AGTTA-TAAAATGTAATCCATT
51357826 GTGTGTGGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
AGTTATAAAATGTAATCCATT
Found at i:51359573 original size:25 final size:26
Alignment explanation
Indices: 51359519--51359580 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
51359509 ATTTACTAGA
*
51359519 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTAT--AAAATGACCATT
*
51359547 ATACCCCTATGTAT-AAATGACCTTT
1 ATACCCCTATGTATAAAATGACCATT
51359572 ATACCCCTA
1 ATACCCCTA
51359581 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 18 0.56
28 14 0.44
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.32
Consensus pattern (26 bp):
ATACCCCTATGTATAAAATGACCATT
Found at i:51359727 original size:28 final size:28
Alignment explanation
Indices: 51359686--51359774 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 28
51359676 AGGAAGCGTC
51359686 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
51359714 CTGGTGGCCCTGCCAC--ATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
51359740 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
51359769 CTGGTG
1 CTGGTG
51359775 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 25 0.46
28 22 0.41
29 7 0.13
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:51359740 original size:26 final size:28
Alignment explanation
Indices: 51359686--51359799 Score: 119
Period size: 26 Copynumber: 4.1 Consensus size: 28
51359676 AGGAAGCGTC
*
51359686 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTCTGCCAC-AATTATCTGTAT
*
51359714 CTGGTGGCCCTGCCAC-ATTATCTGT-T
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
51359740 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCTCTGCCAC-AATTATCTGTAT
* * *
51359769 CTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
51359796 CTGG
1 CTGG
51359800 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 25 0.34
27 13 0.18
28 22 0.30
29 14 0.19
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:51360878 original size:11 final size:10
Alignment explanation
Indices: 51360850--51360883 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
51360840 AGCCTGTAAG
51360850 TATTCTGAAT
1 TATTCTGAAT
*
51360860 TTTTCTGAAT
1 TATTCTGAAT
51360870 ATATTCTGAAT
1 -TATTCTGAAT
51360881 TAT
1 TAT
51360884 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:51367390 original size:28 final size:28
Alignment explanation
Indices: 51367358--51367422 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
51367348 ATTTACTAGA
*
51367358 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
51367386 ATACCCCTATGTATTCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
51367414 ATACCCCTA
1 ATACCCCTA
51367423 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:51367569 original size:28 final size:28
Alignment explanation
Indices: 51367528--51367646 Score: 184
Period size: 28 Copynumber: 4.2 Consensus size: 28
51367518 AGGAAGCGTC
**
51367528 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
51367556 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
51367584 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
** *
51367612 CTGGTGGTACTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCACAAATTATCTGT-T
51367641 CTGGTG
1 CTGGTG
51367647 ACTCTGTCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
28 78 0.92
29 7 0.08
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAAATTATCTGTT
Found at i:51367671 original size:56 final size:55
Alignment explanation
Indices: 51367538--51367671 Score: 162
Period size: 56 Copynumber: 2.4 Consensus size: 55
51367528 CTGGTGGCTA
* * *
51367538 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCAC-AATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGTTCTGGTGACCC
* *
51367594 TGCCACAAATTATCTGTTCTGGTGGTACTGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCAC-AATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGT-TCTGGTGACCC
* *
51367651 TGTCAC-ATTTTCTGTATCTGG
1 TGCCACAATTATCTGT-TCTGG
51367672 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
55 8 0.12
56 47 0.68
57 14 0.20
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (55 bp):
TGCCACAATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGTTCTGGTGACCC
Found at i:51368133 original size:19 final size:19
Alignment explanation
Indices: 51368109--51368147 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
51368099 GTTTAACTAT
* *
51368109 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
51368128 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
51368147 T
1 T
51368148 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:51378641 original size:49 final size:47
Alignment explanation
Indices: 51378564--51378698 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 47
51378554 AGAAATTTCA
* * * *
51378564 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAA-AAACTACATG
1 GCACTATGTGTGCAAGATTATACAGCACTATGTGTGCAAGAAAC-AC--G
* *
51378613 GCACTATGTGTGCAAGATTATATAGCACTATGTGTGCAATGAAACGCG
1 GCACTATGTGTGCAAGATTATACAGCACTATGTGTGCAA-GAAACACG
* *
51378661 GCACTATGTGTGCGAATGAGTA-AGAGCACTATGTGTGC
1 GCACTATGTGTGC-AA-GATTATACAGCACTATGTGTGC
51378699 GGACCTTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 14 0.19
49 51 0.69
50 5 0.07
51 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (47 bp):
GCACTATGTGTGCAAGATTATACAGCACTATGTGTGCAAGAAACACG
Found at i:51378645 original size:24 final size:24
Alignment explanation
Indices: 51378563--51378651 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
51378553 AAGAAATTTC
* * **
51378563 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCAAGATTATAT
* * * *
51378587 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-AAGATTATAT
*
51378612 GGCACTATGTGTGCAAGATTATAT
1 AGCACTATGTGTGCAAGATTATAT
51378636 AGCACTATGTGTGCAA
1 AGCACTATGTGTGCAA
51378652 TGAAACGCGG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 35 0.67
25 17 0.33
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (24 bp):
AGCACTATGTGTGCAAGATTATAT
Found at i:51378699 original size:25 final size:23
Alignment explanation
Indices: 51378613--51378698 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 23
51378603 AAACTACATG
*
51378613 GCACTATGTGTGCAA-GATTATATA
1 GCACTATGTGTGCAATGA-TA-AGA
*
51378637 GCACTATGTGTGCAATGA-AACGCG
1 GCACTATGTGTGCAATGATAA-G-A
51378661 GCACTATGTGTGCGAATGAGTAAGA
1 GCACTATGTGTGC-AATGA-TAAGA
51378686 GCACTATGTGTGC
1 GCACTATGTGTGC
51378699 GGACCTTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 28 0.53
25 20 0.38
26 1 0.02
27 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (23 bp):
GCACTATGTGTGCAATGATAAGA
Found at i:51391789 original size:20 final size:20
Alignment explanation
Indices: 51391764--51391804 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
51391754 TATATCTATT
51391764 GATTCGGATAAAGATCCGAG
1 GATTCGGATAAAGATCCGAG
* *
51391784 GATTCGGATAGAGATCTGAG
1 GATTCGGATAAAGATCCGAG
51391804 G
1 G
51391805 TTTACATAGC
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:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (20 bp):
GATTCGGATAAAGATCCGAG
Found at i:51396477 original size:46 final size:45
Alignment explanation
Indices: 51396410--51396584 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
51396400 TGTAACCCGC
*
51396410 CCATAAGCGAACTCGGACTCAACTAAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-ACAT
*
51396456 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTACAT
* ** * *
51396506 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTACAT
* *
51396549 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
51396585 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 61 0.56
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTACAT
Found at i:51396576 original size:93 final size:93
Alignment explanation
Indices: 51396417--51396589 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
51396407 CGCCCATAAG
** *
51396417 CGAACTCGGACTCAACTAAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTAAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCA
51396482 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * **
51396510 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTAAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
51396575 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
51396590 CAAATATCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTAAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:51403223 original size:104 final size:105
Alignment explanation
Indices: 51403043--51403298 Score: 428
Period size: 104 Copynumber: 2.4 Consensus size: 105
51403033 TAACCGTTAT
* **
51403043 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
51403108 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
51403147 TGGTGGATATCGCACTTAACACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGG
51403211 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
51403252 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
51403299 ACAGCAAGCC
Statistics
Matches: 142, Mismatches: 6, Indels: 7
0.92 0.04 0.05
Matches are distributed among these distances:
103 1 0.01
104 80 0.56
105 59 0.42
106 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:51405459 original size:50 final size:52
Alignment explanation
Indices: 51405352--51405471 Score: 154
Period size: 50 Copynumber: 2.3 Consensus size: 52
51405342 ATGAATAAAT
* * *
51405352 GAGTTACTTAATGCATGGCTTAATTTAATGATACAAACTTTTAACTAACATGG
1 GAGTTACATAATGCATGGCATAATTTAATGATACAAAC-TTTAACTAACATGA
* * * *
51405405 GAGTTACATAATACATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGGCATAATTTAATGATACAAACTTTAACTAACATGA
51405455 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
51405472 ACTTTATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
50 27 0.46
52 10 0.17
53 22 0.37
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATGGCATAATTTAATGATACAAACTTTAACTAACATGA
Found at i:51405551 original size:39 final size:39
Alignment explanation
Indices: 51405497--51405577 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
51405487 GAACATATAT
* * *
51405497 TAATGATGTTCAAACTATGACATAATTAAAGACTCATAC
1 TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
51405536 TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
1 TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
51405575 TAA
1 TAA
51405578 AATAACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (39 bp):
TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
Found at i:51407335 original size:18 final size:17
Alignment explanation
Indices: 51407312--51407354 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
51407302 CTCTTTTCCT
51407312 TTTTTC-TTTCTTTTATTC
1 TTTTTCATTTC-TTT-TTC
51407330 TTTTTCGATTTCTTTTTC
1 TTTTTC-ATTTCTTTTTC
51407348 TTTTTCA
1 TTTTTCA
51407355 CAGCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 15 0.65
19 3 0.13
20 4 0.17
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTCATTTCTTTTTC
Found at i:51412629 original size:5 final size:5
Alignment explanation
Indices: 51412619--51412671 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
51412609 ATATACAATA
* *
51412619 ATGAT ATGAT ATGCAC ATGAT ATG-T ATGAT ATGCAC ATGAT ATG-T ATGAT
1 ATGAT ATGAT ATG-AT ATGAT ATGAT ATGAT ATG-AT ATGAT ATGAT ATGAT
51412669 ATG
1 ATG
51412672 CACATGATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 8 0.20
5 24 0.60
6 8 0.20
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (5 bp):
ATGAT
Found at i:51412640 original size:11 final size:11
Alignment explanation
Indices: 51412624--51412679 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
51412614 CAATAATGAT
51412624 ATGATATGCAC
1 ATGATATGCAC
*
51412635 ATGATATG--T
1 ATGATATGCAC
51412644 ATGATATGCAC
1 ATGATATGCAC
*
51412655 ATGATATG--T
1 ATGATATGCAC
51412664 ATGATATGCAC
1 ATGATATGCAC
51412675 ATGAT
1 ATGAT
51412680 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:51412648 original size:20 final size:20
Alignment explanation
Indices: 51412623--51412679 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
51412613 ACAATAATGA
51412623 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
51412643 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
51412663 TATGATATGCACATGAT
1 TATGATATGCACATGAT
51412680 GTATTCATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:51416006 original size:30 final size:30
Alignment explanation
Indices: 51415971--51416027 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
51415961 GAAAACCGAG
*
51415971 TAAAGAAATCCA-AGATAGAGAAACCCAGAA
1 TAAAGAAATCCAGA-ATAAAGAAACCCAGAA
51416001 TAAAGAAATCCAGAATAAAGAAACCCA
1 TAAAGAAATCCAGAATAAAGAAACCCA
51416028 AGATACGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.11
Consensus pattern (30 bp):
TAAAGAAATCCAGAATAAAGAAACCCAGAA
Found at i:51416007 original size:15 final size:15
Alignment explanation
Indices: 51415971--51416027 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
51415961 GAAAACCGAG
*
51415971 TAAAGAAATCCA-AGA
1 TAAAGAAACCCAGA-A
*
51415986 TAGAGAAACCCAGAA
1 TAAAGAAACCCAGAA
*
51416001 TAAAGAAATCCAGAA
1 TAAAGAAACCCAGAA
51416016 TAAAGAAACCCA
1 TAAAGAAACCCA
51416028 AGATACGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
15 35 0.97
16 1 0.03
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.11
Consensus pattern (15 bp):
TAAAGAAACCCAGAA
Found at i:51419509 original size:31 final size:31
Alignment explanation
Indices: 51419426--51419510 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
51419416 TCAATCTCAG
*
51419426 CATAT-ACTGGGCCGAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
51419456 TATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
51419487 CATATCACTGGGCCGAAGCCTTTA
1 CATATCACTGGGCCGAAGCCTTTA
51419511 TTATAACGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:51419744 original size:25 final size:25
Alignment explanation
Indices: 51419716--51419800 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
51419706 CTGGAGGCCT
51419716 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
51419741 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
* * *
51419767 AGCCCTTTTCAGTAAACTAGGGC-AT
1 AGCCCTTTT-AATAAACTGGGGCAAA
51419792 AGCCCTTTT
1 AGCCCTTTT
51419801 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 24 0.46
26 27 0.52
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:51419765 original size:26 final size:27
Alignment explanation
Indices: 51419729--51419800 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
51419719 CTCTTTTAAT
*
51419729 AACTGGGGCAAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAAGCCCTTTTTCAGTA
51419755 AACTGGGGCAAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAAGCCCTTTTTCAGTA
* *
51419781 AACTAGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
51419801 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (27 bp):
AACTGGGGCAAAAGCCCTTTTTCAGTA
Found at i:51419878 original size:11 final size:11
Alignment explanation
Indices: 51419847--51419894 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
51419837 AAATGAATAC
51419847 ATCATGTGCAT
1 ATCATGTGCAT
*
51419858 ATCA--TACAT
1 ATCATGTGCAT
51419867 ATCATGTGCAT
1 ATCATGTGCAT
*
51419878 ATCATGT-CAA
1 ATCATGTGCAT
51419888 ATCATGT
1 ATCATGT
51419895 ATATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:51419959 original size:25 final size:25
Alignment explanation
Indices: 51419931--51419978 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
51419921 ATAATTAAAC
* *
51419931 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
51419956 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
51419979 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:51426055 original size:79 final size:76
Alignment explanation
Indices: 51425944--51426096 Score: 211
Period size: 79 Copynumber: 2.0 Consensus size: 76
51425934 GCTCCTCGTT
*
51425944 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GG-CTT-ACCCGG
*
51426009 ATTTAGTAACTCGCA
63 AATTAGT-ACTCGCA
* *
51426024 CAAATGCCTTCGGGACTTA-CCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGCTTACCCGGAA
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGCTTACCCGGAA
51426087 TTAGTACTCG
65 TTAGTACTCG
51426097 ATCTTAGTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
75 5 0.07
76 12 0.18
77 3 0.04
78 3 0.04
79 27 0.40
80 18 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGCTTACCCGGAAT
TAGTACTCGCA
Found at i:51426061 original size:39 final size:39
Alignment explanation
Indices: 51425944--51426096 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 39
51425934 GCTCCTCGTT
* *
51425944 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGAAT-TAGTAACTCGCA
*
51425984 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGGAATTAGTAACTCGCA
*
51426024 CAAATGCCTTCGGGACTTACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTACCCGGAATTAGTAACTCGCA
51426063 CAAATGCCTTC-GG-CTTACCCGGAATTAGT-ACTCG
1 CAAATGCCTTCGGGACTTACCCGGAATTAGTAACTCG
51426097 ATCTTAGTCC
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
36 4 0.04
37 16 0.15
38 2 0.02
39 30 0.28
40 52 0.49
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGAATTAGTAACTCGCA
Found at i:51433814 original size:40 final size:40
Alignment explanation
Indices: 51433770--51433991 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
51433760 GCTCCTCGTT
* * *
51433770 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
*
51433810 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
*
51433850 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
*
51433889 C-AATGCCTTCGGG-CTTAACCCGGA-ATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
** * * *
51433926 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCA
*
51433967 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
51433992 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
37 26 0.16
38 21 0.13
39 21 0.13
40 84 0.52
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
Found at i:51433951 original size:76 final size:80
Alignment explanation
Indices: 51433770--51433991 Score: 285
Period size: 76 Copynumber: 2.8 Consensus size: 80
51433760 GCTCCTCGTT
* *
51433770 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
51433835 ATTTAGTAACTCGCA
66 ATATAGTAACTCGCA
* *
51433850 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTATCTCGCAC-AATGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
51433912 A-ATAGTATCTCGCA
66 ATATAGTAACTCGCA
* * * * *
51433926 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
51433989 GGA
64 GGA
51433992 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
75 3 0.02
76 32 0.26
77 15 0.12
78 26 0.21
79 24 0.19
80 24 0.19
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCGCA
Found at i:51433951 original size:116 final size:118
Alignment explanation
Indices: 51433772--51433991 Score: 295
Period size: 116 Copynumber: 1.9 Consensus size: 118
51433762 TCCTCGTTCA
* *
51433772 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
51433837 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
* * **
51433890 AATGCCTTCGGG-CTTAACCCGG-AATAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGTAATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
51433952 TATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
51433992 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
115 3 0.03
116 58 0.65
117 16 0.18
118 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (118 bp):
AATGCCTTCGGGACATAACCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTAGTATCTCGCAC
Done.