Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 177 of 333
Found at i:58094959 original size:27 final size:27
Alignment explanation
Indices: 58094900--58095078 Score: 241
Period size: 27 Copynumber: 6.6 Consensus size: 27
58094890 TAAATTGTAC
*
58094900 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
58094928 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
58094955 TGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
58094982 TGCACTAAGTGCGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
58095009 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
58095037 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
58095064 AGCACTGAGCGTGCG
1 AGCACTAAGTGTGCG
58095079 GACTTAATAT
Statistics
Matches: 136, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
27 93 0.68
28 43 0.32
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:58095067 original size:55 final size:55
Alignment explanation
Indices: 58094900--58095078 Score: 252
Period size: 55 Copynumber: 3.3 Consensus size: 55
58094890 TAAATTGTAC
* *
58094900 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGT
* * * *
58094955 TGCACTAAGTGTGCGA-ATTGAATATGTTGCACTAAGTGCGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGT
* * *
58095009 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGT
* *
58095064 AGCACTGAGCGTGCG
1 AGCACTAAGTGTGCG
58095079 GACTTAATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 48 0.44
55 60 0.56
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGT
Found at i:58103033 original size:27 final size:27
Alignment explanation
Indices: 58102972--58103150 Score: 241
Period size: 27 Copynumber: 6.6 Consensus size: 27
58102962 TAAATTGTAC
*
58102972 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
58103000 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58103027 TGTACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58103054 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
58103081 AGCACTAAGTGTGCGAGTTTAATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
58103109 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
58103136 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58103151 GACTTAATAT
Statistics
Matches: 135, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
27 93 0.69
28 42 0.31
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:58103139 original size:55 final size:54
Alignment explanation
Indices: 58102972--58103150 Score: 259
Period size: 55 Copynumber: 3.3 Consensus size: 54
58102962 TAAATTGTAC
*
58102972 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GAATATGTAGCACTAAGTGTGCGAATTGACTATGT
* * * *
58103027 TGTACTAAGTGTGCGAATTGAATATGTTGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGT
* * *
58103081 AGCACTAAGTGTGCGAGTTTAATTATGTAGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAGTTGAA-TATGTAGCACTAAGTGTGCGAATTGACTATGT
*
58103136 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58103151 GACTTAATAT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 51 0.46
55 59 0.54
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGT
Found at i:58105061 original size:27 final size:27
Alignment explanation
Indices: 58105023--58105076 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
58105013 TAAAATCAAG
58105023 ATAGACATAGCCCATACTTAACATAAC
1 ATAGACATAGCCCATACTTAACATAAC
58105050 ATAGACATAGCCCATACTTAACATAAC
1 ATAGACATAGCCCATACTTAACATAAC
58105077 CCAATTCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (27 bp):
ATAGACATAGCCCATACTTAACATAAC
Found at i:58111245 original size:28 final size:28
Alignment explanation
Indices: 58111182--58111335 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
58111172 ATATTAAGTC
*
58111182 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
58111209 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
58111237 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
58111265 TGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58111293 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58111322 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58111336 CAATCTCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 22 0.19
28 73 0.64
29 19 0.17
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58111799 original size:12 final size:12
Alignment explanation
Indices: 58111782--58111807 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58111772 TGGGCATACT
58111782 TATGTATATATA
1 TATGTATATATA
58111794 TATGTATATATA
1 TATGTATATATA
58111806 TA
1 TA
58111808 CTTTGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:58116356 original size:29 final size:28
Alignment explanation
Indices: 58116320--58116397 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
58116310 TCATGAGATT
58116320 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
58116350 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
58116377 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
58116398 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:58116759 original size:174 final size:174
Alignment explanation
Indices: 58116350--58116850 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
58116340 AAATTGTACA
*
58116350 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
58116415 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
58116480 TTTTGGACAGCGG-AAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
58116523 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
58116588 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
58116653 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
58116697 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
58116762 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
58116827 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
58116851 ACCTTGAGTT
Statistics
Matches: 319, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
173 140 0.44
174 179 0.56
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:58124702 original size:29 final size:30
Alignment explanation
Indices: 58124631--58124703 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 30
58124621 GTCATGAGAT
*
58124631 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
58124662 ---CACTAAGTGTGCGAGTTTAAA-GTACA
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA
58124688 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58124704 CGGTTGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
26 5 0.13
28 20 0.53
29 13 0.34
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:58125092 original size:171 final size:173
Alignment explanation
Indices: 58124662--58125154 Score: 881
Period size: 170 Copynumber: 2.9 Consensus size: 173
58124652 AAATTGTACA
*
58124662 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
58124727 GTGCGAACCCAATATATATTTTCTAT-AATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
58124791 TTGGACAGCGG-AAAGG-AAGTGTGCGAACTTGAAATGCATGG
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
* *
58124832 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGT
1 CACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
58124897 GTGCGAACCCAATATATA-TTTCTATAAATTATTTACATTAAGGGTGCGAC-TTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
58124960 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
58125003 CACTAAGTGTGTGAGTTT-AAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* * *
58125067 GTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA-
58125132 TTTGGACAGCGGAAAAGGTAAGT
130 TTTGGACAGCGGAAAAGGTAAGT
58125155 ACCTTGAGTT
Statistics
Matches: 309, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
169 31 0.10
170 170 0.55
171 74 0.24
172 11 0.04
173 23 0.07
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (173 bp):
CACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGG
Found at i:58138744 original size:40 final size:40
Alignment explanation
Indices: 58138684--58138901 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
58138674 TATTCGAATG
* * *
58138684 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
58138724 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGT---T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
58138761 GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
58138802 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * **
58138842 ATATCCGGGCTAAGACCCAAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
58138881 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
58138902 ATACTTGGGT
Statistics
Matches: 149, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
37 2 0.01
38 43 0.29
39 16 0.11
40 87 0.58
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:58138815 original size:78 final size:76
Alignment explanation
Indices: 58138682--58138901 Score: 257
Period size: 78 Copynumber: 2.8 Consensus size: 76
58138672 GTTATTCGAA
* * * *
58138682 TGATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCAGACTAAGAT-CCGAAG
1 TGATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAGATCCCGAAG
58138746 GCATTTGTGCGAG
64 GCATTTGTGCGAG
*
58138759 TTGATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAA
1 -TGATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAGATCCCGAA
*
58138823 GGCATTTGTGCTAG
63 GGCATTTGTGCGAG
* * * *
58138837 TGACCATATCCGGGCTAAGACCCAAAGGCCTTGTGCGAGTGGTTATATCCGGCTAA-ATCCCGAA
1 TG---ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGATCCCGAA
58138901 G
63 G
58138902 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.02
78 81 0.65
79 17 0.14
80 23 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (76 bp):
TGATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGATCCCGAAGGC
ATTTGTGCGAG
Found at i:58138892 original size:118 final size:118
Alignment explanation
Indices: 58138684--58138901 Score: 307
Period size: 118 Copynumber: 1.8 Consensus size: 118
58138674 TATTCGAATG
* * * *
58138684 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCAGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCAGACTAAGACCCAAAGGCA
*
58138749 TTTGTGCGAGTTGATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGATT
66 CTTGTGCGAGTTGATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCTAGCGATT
* * *
58138802 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGGGCTAAGACCCAAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCAGACTAAGACCCAAAGGCA
*
58138866 CTTGTGCGAGTGGTTATATCC-GGCTAAATCCCGAAG
66 CTTGTGCGAGT--TGATATCCGGGCTAAATCCCGAAG
58138902 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
117 11 0.12
118 70 0.80
119 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (118 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCAGACTAAGACCCAAAGGCA
CTTGTGCGAGTTGATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGCGATT
Found at i:58140640 original size:27 final size:27
Alignment explanation
Indices: 58140577--58140914 Score: 349
Period size: 27 Copynumber: 12.6 Consensus size: 27
58140567 TAATAAAGAG
** *
58140577 AAATTACTAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
58140603 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
58140630 AAATTACCGAAATACCTTTGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
58140657 AAATTACTGAAACACCCTCAATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58140684 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * * *
58140711 AATTTACCAAAATACCCTTGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
58140737 AAATTACTAAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
58140764 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
58140791 AAATTACTGAAACACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
58140818 AAATTACCAAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58140845 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
58140872 AAATTATCAAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
58140899 AAATTATCGAAATACC
1 AAATTACCGAAATACC
58140915 TTTGTAGTGT
Statistics
Matches: 262, Mismatches: 46, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
26 41 0.16
27 221 0.84
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:58140840 original size:134 final size:134
Alignment explanation
Indices: 58140577--58140904 Score: 451
Period size: 134 Copynumber: 2.4 Consensus size: 134
58140567 TAATAAAGAG
* * *
58140577 AAATTACTAAAATACCCTCGATTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAA
1 AAATTACCAAAATACCCTCGATTGTGAAATTATCAAAATACCCTCGATTTGTAAAATTACCAAAA
* * * * * * *
58140642 TACCTTTGATTTTTAAAATTACTGAAACACCCTCAATTTATAAAATTATCGAAATACCCCTGATT
66 CACCCTCGATTTGTAAAATTACTGAAACACCCTCAATTTATAAAATTACCAAAACACCCCTGATT
58140707 TGTA
131 TGTA
* * *
58140711 AATTTACCAAAATACCCTTGATTGTGAAATTA-CTAAAATACCCTCGATTTGTGAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTGTGAAATTATC-AAAATACCCTCGATTTGTAAAATTACCAAA
* *
58140775 ACACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTATAAAATTACCAAAACACCCTTGAT
65 ACACCCTCGATTTGTAAAATTACTGAAACACCCTCAATTTATAAAATTACCAAAACACCCCTGAT
58140840 TTGTA
130 TTGTA
* * * * *
58140845 AAATTATCGAAATACCCTCGATTTGTAAAATTATCAAAACACCCCCGATTTGTAAAATTA
1 AAATTACCAAAATACCCTCGA-TTGTGAAATTATCAAAATACCCTCGATTTGTAAAATTA
58140905 TCGAAATACC
Statistics
Matches: 168, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
133 1 0.01
134 134 0.80
135 32 0.19
136 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (134 bp):
AAATTACCAAAATACCCTCGATTGTGAAATTATCAAAATACCCTCGATTTGTAAAATTACCAAAA
CACCCTCGATTTGTAAAATTACTGAAACACCCTCAATTTATAAAATTACCAAAACACCCCTGATT
TGTA
Found at i:58140885 original size:81 final size:81
Alignment explanation
Indices: 58140577--58140904 Score: 392
Period size: 81 Copynumber: 4.1 Consensus size: 81
58140567 TAATAAAGAG
* *
58140577 AAATTACTAAAATACCCTCGA-TTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAA
* * * *
58140641 ATACCTTTGATTTTTA
66 ACACCCTCGATTTGTA
* * * * *
58140657 AAATTACTGAAACACCCTCAATTTATAAAATTATCGAAATACCC-CTGATTTGTAAATTTACCAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTC-GATTTGTAAAATTACCAA
* * *
58140721 AATACCCTTGA-TTGTG
65 AACACCCTCGATTTGTA
* * * * **
58140737 AAATTACTAAAATACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAA
*
58140802 ACACCCTCGATTTATA
66 ACACCCTCGATTTGTA
* * * *
58140818 AAATTACCAAAACACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAA
*
58140883 ACACCCCCGATTTGTA
66 ACACCCTCGATTTGTA
58140899 AAATTA
1 AAATTA
58140905 TCGAAATACC
Statistics
Matches: 207, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
80 82 0.40
81 125 0.60
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAA
ACACCCTCGATTTGTA
Found at i:58140933 original size:54 final size:54
Alignment explanation
Indices: 58140586--58140914 Score: 389
Period size: 54 Copynumber: 6.1 Consensus size: 54
58140576 GAAATTACTA
* * * * *
58140586 AAATACCCTCGA-TTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* * * ** * *
58140639 AAATACCTTTGATTTTTAAAATTACTGAAACACCCTCAATTTATAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* * * * *
58140693 AAATACCC-CTGATTTGTAAATTTACCAAAATACCCTTGA-TTGTGAAATTA-CTA
1 AAATACCCTC-GATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATC-G
*
58140746 AAATACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTA-CTG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATC-G
* * *
58140800 AAACACCCTCGATTTATAAAATTACCAAAACACCCTTGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* *
58140854 AAATACCCTCGATTTGTAAAATTATCAAAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
58140908 AAATACC
1 AAATACC
58140915 TTTGTAGTGT
Statistics
Matches: 233, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.00
53 52 0.22
54 179 0.77
55 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
Found at i:58140953 original size:27 final size:27
Alignment explanation
Indices: 58140842--58140956 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 27
58140832 CCCTTGATTT
* **
58140842 GTAAAATTATCGAAATACCCTCGAT-TT
1 GTAAAATTATCGAAATACCC-CTATAGG
* * * **
58140869 GTAAAATTATCAAAACACCCCCGAT-TT
1 GTAAAATTATCGAAATA-CCCCTATAGG
** * *
58140896 GTAAAATTATCGAAATACCTTTGTAGT
1 GTAAAATTATCGAAATACCCCTATAGG
*
58140923 GTAAAATTATCGAATTACCCCTATAGG
1 GTAAAATTATCGAAATACCCCTATAGG
58140950 GTAAAAT
1 GTAAAAT
58140957 GAGTATTTTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 66 0.92
28 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCCTATAGG
Found at i:58140954 original size:81 final size:81
Alignment explanation
Indices: 58140577--58140956 Score: 232
Period size: 81 Copynumber: 4.7 Consensus size: 81
58140567 TAATAAAGAG
* * * * ** * *
58140577 AAATTACTAAAATACCCTCGAT-TGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTACCAAAACACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAA
* *** *
58140641 ATACCTTTGATTTTTA
66 ACACCCCCGATTTATA
** ** * * ** * *
58140657 AAATTACTGAAACACCCTCAATTTATAAAATTATCGAAATACCC-CTGATTTGTAAATTTACCAA
1 AAATTACCAAAACACCCTTGATGTGTAAAATTATCGAAATACCCTC-GATGGGTAAAATTATCAA
* ** * *
58140721 AATACCCTTGA-TTGTG
65 AACACCCCCGATTTATA
* * * * * * * * ** *
58140737 AAATTACTAAAATACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTA-CTGA
1 AAATTACCAAAACACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATC-AA
*
58140801 AACACCCTCGATTTATA
65 AACACCCCCGATTTATA
* **
58140818 AAATTACCAAAACACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
1 AAATTACCAAAACACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAA
*
58140883 ACACCCCCGATTTGTA
66 ACACCCCCGATTTATA
* * * * * *
58140899 AAATTATCGAAATACCTTTG-TAGTGTAAAATTATCGAATTACCC-CTATAGGGTAAAAT
1 AAATTACCAAAACACCCTTGAT-GTGTAAAATTATCGAAATACCCTCGAT-GGGTAAAAT
58140957 GAGTATTTTG
Statistics
Matches: 249, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.00
80 86 0.35
81 161 0.65
82 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAACACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAA
ACACCCCCGATTTATA
Found at i:58155143 original size:46 final size:46
Alignment explanation
Indices: 58155030--58155198 Score: 134
Period size: 46 Copynumber: 3.6 Consensus size: 46
58155020 GGTCAGACAT
* *
58155030 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATC-TCGT--A-GC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCAC-TCGTC-TCAAGGC
*** * * *
58155076 CGATGCATGTCCTGGATATGTCTTACATTAGCTTA-T-GTCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGC--ACTCGTCTCAAGGC
* *
58155122 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGT
1 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAGGC
58155168 CGATGCCATGTCCCAAACATGGTCTTACACT
1 CGATG-CATGTCCCAAACAT-GTCTTACACT
58155199 TGTAACACCC
Statistics
Matches: 100, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 15 0.15
45 13 0.13
46 47 0.47
47 14 0.14
48 10 0.10
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAGGC
Found at i:58157884 original size:26 final size:26
Alignment explanation
Indices: 58157850--58157957 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
58157840 TGAAATGCCC
*
58157850 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58157876 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
58157902 ATCATGGAATATTTACCTAATCCACT
1 ATCATGGAACATTTACCTAACCCATT
58157928 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58157954 ATCA
1 ATCA
58157958 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58162544 original size:45 final size:45
Alignment explanation
Indices: 58162460--58162689 Score: 306
Period size: 45 Copynumber: 5.2 Consensus size: 45
58162450 TAGGATTTCG
* *
58162460 ATATGTGTTTTTATGTAAGA-CACGTCT-GGCATGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGG-ACGTTGGCATCGAT
*
58162504 ATATGTGTTTTTGTGTAAGATCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* * * **
58162549 ACATGTGTTTTTGTGTAAAACCACGTCTGGGACGTT-GCATTAAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
*
58162593 ATATGTGTTTTTGTGTAAGACCAC-ACTTAGGACGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTC-TAGGACGTTGGCATCGAT
* * *
58162638 ATATATGTTTTCGTGTAAGACCACGTCTAGGACATTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
58162683 ATATGTG
1 ATATGTG
58162690 GTTACGTGTA
Statistics
Matches: 162, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.01
44 55 0.34
45 103 0.64
46 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (45 bp):
ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
Found at i:58162595 original size:89 final size:90
Alignment explanation
Indices: 58162462--58162715 Score: 316
Period size: 89 Copynumber: 2.8 Consensus size: 90
58162452 GGATTTCGAT
* * *
58162462 ATGTGTTTTTATGTAAGA-CACGTCTGGCATGTTGGCATCGATATATGTGTTTTTGTGTAAGATC
1 ATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTTGTGTAAGATC
58162526 ACGTCTAGGACGTTGGCATCGATAC
66 ACGTCTAGGACGTTGGCATCGATAC
* ** *
58162551 ATGTGTTTTTGTGTAAAACCACGTCTGGGACGTT-GCATTAATATATGTGTTTTTGTGTAAGACC
1 ATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTTGTGTAAGATC
* *
58162615 AC-ACTTAGGACGTTGGCATCGATAT
66 ACGTC-TAGGACGTTGGCATCGATAC
* * * * * **
58162640 ATATGTTTTCGTGTAAGACCACGTCTAGGACATTGGCATCGATATATGTGGTTACGTGTAAGATC
1 ATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTTGTGTAAGATC
* *
58162705 ATGTCTGGGAC
66 ACGTCTAGGAC
58162716 ATCGGTATCA
Statistics
Matches: 138, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
88 1 0.01
89 93 0.67
90 43 0.31
91 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (90 bp):
ATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTTGTGTAAGATC
ACGTCTAGGACGTTGGCATCGATAC
Found at i:58162698 original size:45 final size:45
Alignment explanation
Indices: 58162460--58162745 Score: 284
Period size: 45 Copynumber: 6.5 Consensus size: 45
58162450 TAGGATTTCG
*
58162460 ATATGTGTTTTTATGTAAGA-CACGTCT-GG-CATGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACA--TTGGCATCGAT
* *
58162504 ATATGTGTTTTTGTGTAAGATCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACATTGGCATCGAT
* * * * **
58162549 ACATGTGTTTTTGTGTAAAACCACGTCTGGGACGTT-GCATTAAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACATTGGCATCGAT
* *
58162593 ATATGTGTTTTTGTGTAAGACCAC-ACTTAGGACGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTC-TAGGACATTGGCATCGAT
* *
58162638 ATATATGTTTTCGTGTAAGACCACGTCTAGGACATTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACATTGGCATCGAT
* ** * * * * *
58162683 ATATGTGGTTACGTGTAAGATCATGTCTGGGACATCGGTATC-AT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACATTGGCATCGAT
*
58162727 AT-T-TG-ATTTGTGTAAGACC
1 ATATGTGTTTTTGTGTAAGACC
58162746 TTATCTGGGA
Statistics
Matches: 206, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
41 10 0.05
42 2 0.01
43 2 0.01
44 59 0.29
45 129 0.63
46 3 0.01
47 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (45 bp):
ATATGTGTTTTTGTGTAAGACCACGTCTAGGACATTGGCATCGAT
Found at i:58167827 original size:39 final size:40
Alignment explanation
Indices: 58167623--58167845 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
58167613 TTGAATGCTG
* * * * * *
58167623 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
58167663 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
58167703 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
58167743 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
58167783 TCCGGGTTAAGTCCCGAAGGCGTT-GTGTGAGTTGCTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
58167822 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58167846 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 33 0.21
40 117 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:58167866 original size:79 final size:80
Alignment explanation
Indices: 58167697--58167880 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 80
58167687 TGTGCGAGAT
* * *
58167697 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCAGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCAGGCTAAGTCCCGAAG
** *
58167762 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * * * *
58167777 ATTAAATCCGGGTTAAGTCCCGAAGGCGTT-GTGTGAGTTGCTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCAGGCTAAGTCCCGAAG
*
58167841 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
58167855 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
58167881 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.18
79 43 0.49
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCAGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:58175770 original size:39 final size:40
Alignment explanation
Indices: 58175566--58175788 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
58175556 TTGAATGCTG
* * * * * *
58175566 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
58175606 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
58175646 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
58175686 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
58175726 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
58175765 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58175789 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:58175808 original size:79 final size:80
Alignment explanation
Indices: 58175641--58175823 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
58175631 GTGCGAGATA
* * *
58175641 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
58175706 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
58175721 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
58175785 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
58175800 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
58175824 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:58178327 original size:66 final size:66
Alignment explanation
Indices: 58178221--58178347 Score: 211
Period size: 66 Copynumber: 1.9 Consensus size: 66
58178211 CAATTTAGCA
*
58178221 GATCCCTAGCAGTTAAATTAGAGTCAGCCCTGTATGCATAATACACCAGACCTGGCTTAGTCAGT
1 GATCCCTAGCAGTTAAATTAGAGTCAGCCCTGTATGCATAATACACCAGACCTAGCTTAGTCAGT
58178286 C
66 C
* *
58178287 GATCCCT-GACAGTTAAATTAGAGTTAGCCCTGTATGCATAATACACTAGACCTAGCTTAGT
1 GATCCCTAG-CAGTTAAATTAGAGTCAGCCCTGTATGCATAATACACCAGACCTAGCTTAGT
58178348 ATCTTAGGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (66 bp):
GATCCCTAGCAGTTAAATTAGAGTCAGCCCTGTATGCATAATACACCAGACCTAGCTTAGTCAGT
C
Found at i:58182298 original size:37 final size:37
Alignment explanation
Indices: 58182257--58182372 Score: 98
Period size: 37 Copynumber: 3.1 Consensus size: 37
58182247 GACACCAATG
58182257 CCTCATCAGAACATCTGAAGTATAAT-TGTGCTTCACA
1 CCTCATCAGAACATCTGAAGT-TAATATGTGCTTCACA
* * *
58182294 CCTCATCGGTATAAATC-GAAG-TAATATGTG-TTACGCA
1 CCTCATCAG-A-ACATCTGAAGTTAATATGTGCTT-CACA
* * *
58182331 CCTCAT-TGAACATCTGAAGTGTAATATGTGCTCCACG
1 CCTCATCAGAACATCTGAAGT-TAATATGTGCTTCACA
58182368 CCTCA
1 CCTCA
58182373 ACGGCATAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
34 4 0.06
35 5 0.08
36 7 0.11
37 37 0.59
38 6 0.10
39 4 0.06
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (37 bp):
CCTCATCAGAACATCTGAAGTTAATATGTGCTTCACA
Found at i:58206983 original size:27 final size:27
Alignment explanation
Indices: 58206947--58207022 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
58206937 AGTACTGTAT
* * *
58206947 TGGTGACTATGTCACAGTCACTGATAC
1 TGGTGGCTATGCCACAATCACTGATAC
* *
58206974 TGGTTGCTATGCCACAATTACTGATAC
1 TGGTGGCTATGCCACAATCACTGATAC
* *
58207001 TGGTGGCTTTGCCACATTCACT
1 TGGTGGCTATGCCACAATCACT
58207023 ATTTCTGGCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATCACTGATAC
Found at i:58211231 original size:27 final size:27
Alignment explanation
Indices: 58211196--58211331 Score: 141
Period size: 27 Copynumber: 5.0 Consensus size: 27
58211186 GACCATAACA
*
58211196 CCCCTGTAGGGTAAAATGACGGTAATG
1 CCCCTGTAGGGTAAAATGACTGTAATG
* * * *
58211223 TCGCC-GTAGAGTAAAATTACCGTAATG
1 -CCCCTGTAGGGTAAAATGACTGTAATG
**
58211250 CCCCCATAGGGTAAAATGA-TCGTAATG
1 CCCCTGTAGGGTAAAATGACT-GTAATG
* * *
58211277 CCCCTGTACGGTAAAATGATTTTAATG
1 CCCCTGTAGGGTAAAATGACTGTAATG
*
58211304 CCCTTGTAGGGTAAAATGACTGTAATG
1 CCCCTGTAGGGTAAAATGACTGTAATG
58211331 C
1 C
58211332 GTTTATGTGC
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 81 0.92
28 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (27 bp):
CCCCTGTAGGGTAAAATGACTGTAATG
Found at i:58211510 original size:27 final size:27
Alignment explanation
Indices: 58211480--58211540 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
58211470 GTGACTATGT
58211480 CACATTCACTGATACTGGTGGCGATGC
1 CACATTCACTGATACTGGTGGCGATGC
* **
58211507 CACAATT-ATTGATACTGGTGGCTTTGC
1 CAC-ATTCACTGATACTGGTGGCGATGC
58211534 CACATTC
1 CACATTC
58211541 GCTGTTTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
CACATTCACTGATACTGGTGGCGATGC
Found at i:58211732 original size:28 final size:27
Alignment explanation
Indices: 58211701--58211766 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
58211691 CATTACACTG
* * *
58211701 TACTGATACTGTATTGGGCTTACGCCCA
1 TACTG-TACTGTATAGGGCTAAAGCCCA
*
58211729 TACTGTTTCTGTATAGGGCTAAAGCCCA
1 TACTG-TACTGTATAGGGCTAAAGCCCA
*
58211757 GACTGTACTG
1 TACTGTACTG
58211767 GTACTGAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTACTGTATAGGGCTAAAGCCCA
Found at i:58213790 original size:26 final size:25
Alignment explanation
Indices: 58213725--58213808 Score: 118
Period size: 24 Copynumber: 3.4 Consensus size: 25
58213715 TATATGTCAA
*
58213725 CTCATAAGAGCTTACTGTTC-TCAG
1 CTCAAAAGAGCTTACTGTTCATCAG
* *
58213749 CTCAATAGAGCTTACTGTCCATCAG
1 CTCAAAAGAGCTTACTGTTCATCAG
58213774 CTCAAGAAGAGCTTACTGTTCAT-AG
1 CTCAA-AAGAGCTTACTGTTCATCAG
58213799 CTCAAAAGAG
1 CTCAAAAGAG
58213809 AGGAAAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
24 22 0.42
25 16 0.30
26 15 0.28
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
CTCAAAAGAGCTTACTGTTCATCAG
Found at i:58213810 original size:26 final size:26
Alignment explanation
Indices: 58213730--58213810 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
58213720 GTCAACTCAT
58213730 AAGAGCTTACTGTTC-TCAGCTC-AA
1 AAGAGCTTACTGTTCATCAGCTCAAA
* * *
58213754 TAGAGCTTACTGTCCATCAGCTCAAG
1 AAGAGCTTACTGTTCATCAGCTCAAA
58213780 AAGAGCTTACTGTTCAT-AGCTCAAA
1 AAGAGCTTACTGTTCATCAGCTCAAA
58213805 AGAGAG
1 A-AGAG
58213811 GAAAATGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.27
25 15 0.31
26 20 0.42
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
AAGAGCTTACTGTTCATCAGCTCAAA
Found at i:58221844 original size:44 final size:44
Alignment explanation
Indices: 58221793--58221951 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
58221783 TATGTATTAT
58221793 CGTGTAAGACCATGTCTGGGACGTTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGATTTA
* * * *
58221837 TGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGCTTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTA
* * *
58221879 CGTGTAAGTCCCTGTCTGGGATAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTTA
* **
58221922 CATGTAAGACCGCGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
58221952 TGTACTAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.30
43 35 0.37
44 31 0.33
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:58224243 original size:24 final size:26
Alignment explanation
Indices: 58224211--58224259 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
58224201 TAGAACATCG
58224211 TGTTCC-TTTCAA-TAAAAATTTATT
1 TGTTCCTTTTCAATTAAAAATTTATT
*
58224235 TGTTCCTTTTTAATTAAAAATTTAT
1 TGTTCCTTTTCAATTAAAAATTTAT
58224260 AGTGCCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 5 0.23
26 11 0.50
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (26 bp):
TGTTCCTTTTCAATTAAAAATTTATT
Found at i:58225844 original size:18 final size:18
Alignment explanation
Indices: 58225821--58225860 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58225811 TTTAATGGTC
58225821 GTGGAAGGCTCGATTGTG
1 GTGGAAGGCTCGATTGTG
* *
58225839 GTGGAATGCTCGGTTGTG
1 GTGGAAGGCTCGATTGTG
58225857 GTGG
1 GTGG
58225861 TTAGAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.47, T:0.30
Consensus pattern (18 bp):
GTGGAAGGCTCGATTGTG
Found at i:58227583 original size:29 final size:27
Alignment explanation
Indices: 58227536--58227647 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 27
58227526 TGAGTATAAT
* *
58227536 ATGATTTGGGTCTAATGGGCCATATGA
1 ATGAATTGGGCCTAATGGGCCATATGA
* *
58227563 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAATGGGCCATATG-A
* * * *
58227593 TATGAACTGGGCCAAACGGGCCATTTGA
1 -ATGAATTGGGCCTAATGGGCCATATGA
* * *
58227621 ATAAGATTGGGCCTAGTAGGCCATATG
1 ATGA-ATTGGGCCTAATGGGCCATATG
58227648 CATGTATGTA
Statistics
Matches: 63, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
27 4 0.06
28 17 0.27
29 40 0.63
30 1 0.02
31 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (27 bp):
ATGAATTGGGCCTAATGGGCCATATGA
Found at i:58231979 original size:13 final size:12
Alignment explanation
Indices: 58231956--58231990 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
58231946 TTTCATCTAT
58231956 CATTCCCTTTTC
1 CATTCCCTTTTC
58231968 CATTCTCCTTTTC
1 CATTC-CCTTTTC
*
58231981 CTTTCCCTTT
1 CATTCCCTTT
58231991 GCGTAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.06, C:0.40, G:0.00, T:0.54
Consensus pattern (12 bp):
CATTCCCTTTTC
Found at i:58235184 original size:24 final size:24
Alignment explanation
Indices: 58235151--58235208 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
58235141 CTGGAGGCCT
*
58235151 AGCCTCTTTTGAT-AATTGGGGCAA
1 AGCCT-TTTTGATAAACTGGGGCAA
* *
58235175 AGCCCTTTTTGGTAAACTGGGGTAA
1 AG-CCTTTTTGATAAACTGGGGCAA
58235200 AGCCTTTTT
1 AGCCTTTTT
58235209 CGCACTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (24 bp):
AGCCTTTTTGATAAACTGGGGCAA
Found at i:58235283 original size:21 final size:21
Alignment explanation
Indices: 58235256--58235313 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
58235246 TATAATGAGT
58235256 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
58235277 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
58235298 ATATCAT-GTCATATCA
1 ATATCATAG-CATATCA
58235314 CGTATAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:58238508 original size:49 final size:50
Alignment explanation
Indices: 58238442--58238671 Score: 275
Period size: 49 Copynumber: 4.6 Consensus size: 50
58238432 TATTGTGAGG
* * * *
58238442 TCACTTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATTATT-GA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
* ** * * *
58238491 TCGCATGTGTAGTACTAAGTGCAGGCTACTGTGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGA
* * * ** *
58238542 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
*
58238592 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
*
58238641 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
58238672 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 68 0.44
50 47 0.31
51 38 0.25
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
Found at i:58238630 original size:101 final size:98
Alignment explanation
Indices: 58238442--58238671 Score: 291
Period size: 100 Copynumber: 2.3 Consensus size: 98
58238432 TATTGTGAGG
* * * * *
58238442 TCACTTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATTATTGATCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGATTGATCACATGTGTAGTACT
**
58238507 AAGTGCAGGCTACTGTGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * *
58238542 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGATT-GATCACATGTGTAGTA
* * *
58238606 CTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACGCGTACCCGATAATTGA
*
58238641 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
58238672 TGCGTACCAG
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
99 31 0.27
100 42 0.37
101 41 0.36
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGATTGATCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:58241118 original size:14 final size:14
Alignment explanation
Indices: 58241099--58241128 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58241089 GCTAAAACGA
58241099 TCAGGAACTCTGCC
1 TCAGGAACTCTGCC
58241113 TCAGGAACTCTGCC
1 TCAGGAACTCTGCC
58241127 TC
1 TC
58241129 GTAATCAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (14 bp):
TCAGGAACTCTGCC
Found at i:58249860 original size:19 final size:20
Alignment explanation
Indices: 58249836--58249873 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58249826 GGTACCACCA
58249836 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58249855 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58249874 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58250213 original size:93 final size:93
Alignment explanation
Indices: 58250103--58250273 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
58250093 GCCCCTAAGT
*
58250103 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
58250168 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
58250196 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
58250261 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58250274 TCAACCATCC
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:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58250270 original size:46 final size:46
Alignment explanation
Indices: 58250098--58250270 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
58250088 AACCCGCCCC
* * *
58250098 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
58250144 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
58250192 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
58250237 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58250271 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:58255266 original size:31 final size:31
Alignment explanation
Indices: 58255219--58255364 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
58255209 TTTGTCTTGA
*
58255219 CATAT-ACTGGGCCGAAGCCTTTTCTTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
58255249 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
58255280 CATATCGCTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
58255311 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
58255342 CATATCACTGGGCTGAAGACTTT
1 CATATCACTGGGCCGAAGCCTTT
58255365 ACTGTATACG
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.05
31 103 0.95
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:58255447 original size:42 final size:42
Alignment explanation
Indices: 58255388--58255479 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
58255378 TGGCCCATAG
* ** *
58255388 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
58255430 GCCCATTTCAATATCACATGAAATACCAATGAATGTATTCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
58255472 GCCCATTT
1 GCCCATTT
58255480 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:58255644 original size:25 final size:26
Alignment explanation
Indices: 58255616--58255696 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 26
58255606 GTAGGCCTAG
* *
58255616 CCTTTTTTAAT-AACTGGGGCAAAGT
1 CCTTTTCTAATAAACTGGGGCAAAGC
*
58255641 CC-TTTCTGATAAACTGGGGCAAAGC
1 CCTTTTCTAATAAACTGGGGCAAAGC
** *
58255666 CCTTTTC-CGTAAACTGGGGCAGAGC
1 CCTTTTCTAATAAACTGGGGCAAAGC
58255691 CCTTTT
1 CCTTTT
58255697 TGCATTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.12
25 38 0.79
26 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (26 bp):
CCTTTTCTAATAAACTGGGGCAAAGC
Found at i:58256537 original size:27 final size:26
Alignment explanation
Indices: 58256507--58256584 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
58256497 GGGCATCTTC
58256507 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
58256534 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACC-TACAGGGG-TATTACG
* *
58256561 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-CAGGGGTATT
58256585 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:58256673 original size:27 final size:26
Alignment explanation
Indices: 58256625--58256680 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
58256615 GTAAATCTAC
*
58256625 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTCCAGTAATTTT-T
*
58256652 AAACCAATGGTATTCCTA-TAATTTTT
1 AAACCAAGGGTATTCC-AGTAATTTTT
58256678 AAA
1 AAA
58256681 AAAGTGAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
AAACCAAGGGTATTCCAGTAATTTTT
Found at i:58256730 original size:27 final size:25
Alignment explanation
Indices: 58256700--58256785 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 25
58256690 GGTATTTCTA
*
58256700 TAATTTTGTAAATCAGGGATATTTTGG
1 TAATTTT-CAAATCAGGG-TATTTTGG
* *
58256727 TAATTTTACAAATTAAGGGTATTTCGG
1 TAATTTT-CAAA-TCAGGGTATTTTGG
*
58256754 TAATTTCTCAAACCAGTGGTATTTTGG
1 TAATTT-TCAAATCAG-GGTATTTTGG
58256781 TAATT
1 TAATT
58256786 CTATCCTACA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.04
27 41 0.84
28 6 0.12
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (25 bp):
TAATTTTCAAATCAGGGTATTTTGG
Found at i:58256883 original size:27 final size:26
Alignment explanation
Indices: 58256817--58256905 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
58256807 GTAATTTCAC
*
58256817 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGA-GGTAAAACAGTAATTTTGTA
* *
58256844 AA-CTAAGGATAAAATAGTAATTTTGTA
1 AATC-GAGG-TAAAACAGTAATTTTGTA
* *
58256871 AATCGAGTGTAAAAC-GATAATTCTATA
1 AATCGAG-GTAAAACAG-TAATTTTGTA
58256898 AATCGAGG
1 AATCGAGG
58256906 GTACTTTGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 5 0.10
27 43 0.86
28 2 0.04
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (26 bp):
AATCGAGGTAAAACAGTAATTTTGTA
Found at i:58262649 original size:21 final size:21
Alignment explanation
Indices: 58262623--58262671 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
58262613 AAAATAGGGC
*
58262623 ACACGCCCATGTGGCAGGGTA
1 ACACGCCCATGTGGCAAGGTA
* * *
58262644 ATACGCCCGTGTGGGAAGGTA
1 ACACGCCCATGTGGCAAGGTA
58262665 ACACGCC
1 ACACGCC
58262672 TGTGCCCCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (21 bp):
ACACGCCCATGTGGCAAGGTA
Found at i:58263120 original size:13 final size:13
Alignment explanation
Indices: 58263102--58263127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58263092 ATATTATAAT
58263102 TATTTTATGTTAA
1 TATTTTATGTTAA
58263115 TATTTTATGTTAA
1 TATTTTATGTTAA
58263128 AATAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:58264549 original size:40 final size:40
Alignment explanation
Indices: 58264501--58264706 Score: 310
Period size: 40 Copynumber: 5.2 Consensus size: 40
58264491 GGACTAAGAT
* *
58264501 CCGAAGGCATTTTTGCTAGTGACTACATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
58264541 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
58264581 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
58264621 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
* *
58264661 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
58264700 CCGAAGG
1 CCGAAGG
58264707 TACTTAGGTT
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 15 0.09
40 142 0.89
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:58267451 original size:50 final size:50
Alignment explanation
Indices: 58267380--58267522 Score: 216
Period size: 50 Copynumber: 2.9 Consensus size: 50
58267370 ACTCATTTGG
* * *
58267380 CCAAATATGCAA-GATCAAATATATCATCACATAAATACTTACCCATATGT
1 CCAAATATACAAGGTTC-AATATATCATCACATAAATACTTACCCATATGA
*
58267430 CCAAATATACAAGGTTCAATATATCATCACATAAATACTTACCTATATGA
1 CCAAATATACAAGGTTCAATATATCATCACATAAATACTTACCCATATGA
* *
58267480 CCGAATATACAAGGTTCAATATATCATCACATAGATACTTACC
1 CCAAATATACAAGGTTCAATATATCATCACATAAATACTTACC
58267523 TACATGGCCG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
50 83 0.97
51 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.29
Consensus pattern (50 bp):
CCAAATATACAAGGTTCAATATATCATCACATAAATACTTACCCATATGA
Found at i:58267523 original size:50 final size:50
Alignment explanation
Indices: 58267397--58267643 Score: 241
Period size: 50 Copynumber: 5.0 Consensus size: 50
58267387 TGCAAGATCA
* * * *
58267397 AATATATCATCACATAAATACTTACCCATATGTCCAAATATACAAGGTTC
1 AATATATCATCACATAGATACTTACCTATATGGCCGAATATACAAGGTTC
* *
58267447 AATATATCATCACATAAATACTTACCTATATGACCGAATATACAAGGTTC
1 AATATATCATCACATAGATACTTACCTATATGGCCGAATATACAAGGTTC
* * ** *
58267497 AATATATCATCACATAGATACTTACCTACATGGCCGAAAATACAATATCC
1 AATATATCATCACATAGATACTTACCTATATGGCCGAATATACAAGGTTC
* * * * * * *
58267547 ATTA-ATACATCATATATG-TACGTACCTATGTGGCCAAACATTCAA-GTTC
1 AATATAT-CATCACATA-GATACTTACCTATATGGCCGAATATACAAGGTTC
* * * *
58267596 AATATAACATCACATTTG-TACATACCTATATGGCCGATTATACAAGGT
1 AATATATCATCACA-TAGATACTTACCTATATGGCCGAATATACAAGGT
58267644 CATTTAGCTC
Statistics
Matches: 162, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 35 0.22
50 126 0.78
51 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (50 bp):
AATATATCATCACATAGATACTTACCTATATGGCCGAATATACAAGGTTC
Found at i:58270576 original size:39 final size:40
Alignment explanation
Indices: 58270372--58270594 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
58270362 TTGAATGCTG
* * * * * *
58270372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
58270412 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
58270452 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
58270492 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
58270532 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
58270571 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58270595 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:58278408 original size:39 final size:40
Alignment explanation
Indices: 58278312--58278534 Score: 231
Period size: 39 Copynumber: 5.7 Consensus size: 40
58278302 TTGAATGCTG
* * * *
58278312 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
58278352 TCCGGACTAAGAT-CCGAAGGC-TTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
58278391 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
58278431 TCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
58278470 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58278509 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58278535 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 94 0.59
40 63 0.40
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58278459 original size:79 final size:78
Alignment explanation
Indices: 58278312--58278532 Score: 239
Period size: 79 Copynumber: 2.8 Consensus size: 78
58278302 TTGAATGCTG
* * * * *
58278312 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGC-TT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGG-CTAAG-TCCCGAAGGCATT
*
58278375 TGTGCGAGATACTAAA
63 CGTGCGAGATACTAAA
* *
58278391 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGCTAAGTCCCGAAGGCATTCG
* **
58278456 TGCGAGTTGTTAAA
65 TGCGAGATACTAAA
* * * * *
58278470 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCC-GGCTAAGTCCCGAAGGCATT
58278533 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
78 27 0.22
79 89 0.74
80 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGCTAAGTCCCGAAGGCATTCGT
GCGAGATACTAAA
Found at i:58278552 original size:79 final size:79
Alignment explanation
Indices: 58278386--58278567 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
58278376 GTGCGAGATA
* * *
58278386 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGTTAAGTCCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGCTAAGTCCCGAAGGC
** **
58278451 ATTCGTGCGAGTTG
66 ATTCGAACGAGGAG
* * * *
58278465 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACC-GGCTAAGTCCCGAAGG
*
58278529 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
* *
58278544 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
58278568 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
78 29 0.34
79 57 0.66
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:58286455 original size:39 final size:40
Alignment explanation
Indices: 58286242--58286464 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
58286232 TTGAATGCTG
* * * * * *
58286242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
58286282 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
58286322 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
58286362 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
58286402 TCCGGGTTAAGTCCCGAAGGCGTT-GTGTGAGTTACTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAA
* *
58286442 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58286465 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
39 29 0.18
40 124 0.77
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:58291497 original size:16 final size:16
Alignment explanation
Indices: 58291455--58291497 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
58291445 ATGTATCGGC
58291455 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* * *
58291471 AAAAACTGAAATGCTG
1 AAAAGCCGAAATGCCG
*
58291487 AAATGCCGAAA
1 AAAAGCCGAAA
58291498 AGTTGAAAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:58291765 original size:29 final size:29
Alignment explanation
Indices: 58291732--58291831 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
58291722 AATGTGACTA
*
58291732 GGCCTAACGGGCCATATAAATATGATTTG
1 GGCCTAATGGGCCATATAAATATGATTTG
* ** *
58291761 GGCCTAATGGGCCATATACAGGTAATTTG
1 GGCCTAATGGGCCATATAAATATGATTTG
*
58291790 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATATGATTTG
* *
58291818 GGCTTAGTGGGCCA
1 GGCCTAATGGGCCA
58291832 GATACAGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 15 0.25
29 44 0.75
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATATGATTTG
Found at i:58294442 original size:27 final size:27
Alignment explanation
Indices: 58294412--58294472 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
58294402 TAAAATAGAT
58294412 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
58294439 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
58294466 AAATTAC
1 AAATTAC
58294473 CAAAGTACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:58294680 original size:27 final size:27
Alignment explanation
Indices: 58294485--58294679 Score: 318
Period size: 27 Copynumber: 7.2 Consensus size: 27
58294475 AAGTACCTTT
58294485 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
58294512 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
* *
58294539 GATTTATAGAATTACCGTCTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
*
58294566 GATTTGTAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
58294593 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
* * * *
58294620 GATTTGTAGAATTACCATCTTACCGTT
1 GATTTATAGAATTACCATTTTACCCTC
*
58294647 GATTTACAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
58294674 GATTTA
1 GATTTA
58294680 CGAAATTACT
Statistics
Matches: 153, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
GATTTATAGAATTACCATTTTACCCTC
Found at i:58294688 original size:81 final size:81
Alignment explanation
Indices: 58294451--58294679 Score: 350
Period size: 81 Copynumber: 2.8 Consensus size: 81
58294441 ATTATTGAAA
* * *** *
58294451 TACCCTCGACTTGTAAAATTACCAAAGTACCTTTGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
58294516 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * * *
58294532 TACCCTCGATTTATAGAATTACCGTCTTACCCTCGATTTGTAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
58294597 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* *
58294613 TACCCTCGATTTGTAGAATTACCATCTTACCGTTGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
58294678 TA
66 TA
58294680 CGAAATTACT
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 132 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:58294697 original size:27 final size:27
Alignment explanation
Indices: 58294448--58294779 Score: 144
Period size: 27 Copynumber: 12.3 Consensus size: 27
58294438 AAAATTATTG
* **
58294448 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* * * * *
58294475 AAGTACCTTTGATTTATAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** * *
58294502 TTTTACCCTCGATTTATAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** * * *
58294529 TTTTACCCTCGATTTATAGAATTACCG
1 AAATACCCTCGATTTACAAAATTACCA
*** ** *
58294556 TCTTACCCTCGATTTGTAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** * *
58294583 TTTTACCCTCGATTTATAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** ** *
58294610 TTTTACCCTCGATTTGTAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** * * *
58294637 TCTTACCGTTGATTTACAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** * **
58294664 TTTTACCCTCGATTTACGAAATTACTG
1 AAATACCCTCGATTTACAAAATTACCA
* *
58294691 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
** *
58294718 AAATACCCTCGATCAATAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* **
58294745 AAATACCC-CTGGTTTGTAAAATTACCA
1 AAATACCCTC-GATTTACAAAATTACCA
58294772 AAATACCC
1 AAATACCC
58294780 CTAATTTGTG
Statistics
Matches: 257, Mismatches: 47, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 256 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTACCA
Found at i:58294708 original size:54 final size:54
Alignment explanation
Indices: 58294451--58294678 Score: 330
Period size: 54 Copynumber: 4.2 Consensus size: 54
58294441 ATTATTGAAA
* * *** *
58294451 TACCCTCGACTTGTAAAATTACCAAAGTACCTTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTT
* * * *
58294505 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTCT
1 TACCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTT
*
58294559 TACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTT
* * *
58294613 TACCCTCGATTTGTAGAATTACCATCTTACCGTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTT
58294667 TACCCTCGATTT
1 TACCCTCGATTT
58294679 ACGAAATTAC
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 157 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTT
Found at i:58294780 original size:27 final size:27
Alignment explanation
Indices: 58294682--58294836 Score: 116
Period size: 27 Copynumber: 5.7 Consensus size: 27
58294672 TCGATTTACG
** * **
58294682 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
58294709 AAATTACCAAAATA-CCCTCGATCAATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
58294736 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
58294763 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * **
58294790 AAATTATCGAAATA-CCCTTGTAGGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
*
58294817 AAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
58294837 TAGGGTGGAA
Statistics
Matches: 99, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
26 8 0.08
27 83 0.84
28 8 0.08
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:58294794 original size:54 final size:55
Alignment explanation
Indices: 58294681--58294835 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 55
58294671 CTCGATTTAC
* * ** *
58294681 GAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAAT
1 GAAATTACCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCAATCAAT
* * ***
58294735 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AATTTGT
1 GAAATTACCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCAATCAAT
* * ** *
58294789 GAAATTATCGAAATA-CCCTTGTAGGGTAAAATTACTAAAATACCCCT
1 GAAATTACCGAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCT
58294836 GTAGGGTGGA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
53 6 0.07
54 72 0.88
55 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (55 bp):
GAAATTACCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCAATCAAT
Found at i:58294838 original size:27 final size:27
Alignment explanation
Indices: 58294734--58294878 Score: 107
Period size: 27 Copynumber: 5.4 Consensus size: 27
58294724 CCTCGATCAA
**
58294734 TAAAATTACCAAAATACCCCTGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* **
58294761 TAAAATTACCAAAATACCCCT-AATTTG
1 TAAAATTACCAAAATACCCCTGTA-GGG
* * * *
58294788 TGAAATTATCGAAATACCCTTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
58294815 TAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
** * * * *
58294842 TGGAATTACCGAGATA-CCTTGTGGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
58294868 TAAAATTACCA
1 TAAAATTACCA
58294879 TTTTGCCCCT
Statistics
Matches: 92, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
26 16 0.17
27 75 0.82
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGTAGGG
Found at i:58294849 original size:54 final size:53
Alignment explanation
Indices: 58294760--58294878 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 53
58294750 CCCCTGGTTT
** *
58294760 GTAAAATTACCAAAATACCCCTAATTTGTGAAATTATCGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCCTAATGGGTGAAATTACCGAAATA-CCTTGTAGG
* * * * *
58294814 GTAAAATTACTAAAATACCCCT-GTAGGGTGGAATTACCGAGATACCTTGTGGG
1 GTAAAATTACCAAAATACCCCTAAT-GGGTGAAATTACCGAAATACCTTGTAGG
58294867 GTAAAATTACCA
1 GTAAAATTACCA
58294879 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
53 20 0.36
54 35 0.64
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCCTAATGGGTGAAATTACCGAAATACCTTGTAGG
Found at i:58295245 original size:27 final size:26
Alignment explanation
Indices: 58295200--58295250 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
58295190 ACCGATCAAT
58295200 GGCTGAGTGCCGATCATATTTACCGGA
1 GGCTGAGTGCCGATCATA-TTACCGGA
*
58295227 GGCTGTGTGCCGA-CTATATTACCG
1 GGCTGAGTGCCGATC-ATATTACCG
58295251 TTGCTGATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (26 bp):
GGCTGAGTGCCGATCATATTACCGGA
Found at i:58295356 original size:22 final size:22
Alignment explanation
Indices: 58295304--58295368 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
58295294 TTAAAGCGTT
* *
58295304 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
58295326 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
58295348 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
58295369 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:58295615 original size:27 final size:26
Alignment explanation
Indices: 58295536--58295627 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 26
58295526 AGTGGATTTA
* *
58295536 CCACATTATCTGTTTCTGGTGGCTATG
1 CCACAATATCTG-TTCTGGTGGCTCTG
58295563 CCACAAATATCTGTTCTGGTGGCTCTG
1 CCAC-AATATCTGTTCTGGTGGCTCTG
* * *
58295590 CCACAATACCTGTATCTGGTGACTCTA
1 CCACAATATCTGT-TCTGGTGGCTCTG
*
58295617 TCACAATATCT
1 CCACAATATCT
58295628 AATAACTGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 8 0.14
27 41 0.73
28 7 0.12
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGGCTCTG
Found at i:58295803 original size:6 final size:6
Alignment explanation
Indices: 58295765--58295859 Score: 72
Period size: 6 Copynumber: 15.3 Consensus size: 6
58295755 TTGCATTCAC
* * *
58295765 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
58295815 -TTACCTG ATAT-TG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
58295860 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
5 6 0.08
6 51 0.71
7 12 0.17
8 2 0.03
9 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:58295811 original size:31 final size:31
Alignment explanation
Indices: 58295765--58295845 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
58295755 TTGCATTCAC
58295765 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
58295797 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
58295828 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
58295846 ATTCTAGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 40 0.85
32 7 0.15
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:58295828 original size:19 final size:19
Alignment explanation
Indices: 58295775--58295833 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
58295765 ATTCTGATTT
58295775 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
*
58295794 CTGATTCTG--A--T--T-
1 TTGATTCTGTTACCTGATA
58295806 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
58295825 TTGATTCTG
1 TTGATTCTG
58295834 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
12 8 0.26
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 17 0.55
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (19 bp):
TTGATTCTGTTACCTGATA
Found at i:58299349 original size:40 final size:40
Alignment explanation
Indices: 58299294--58299511 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
58299284 TGGATGCTAA
* * *
58299294 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
58299334 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58299374 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58299414 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
58299454 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
58299494 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58299512 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58320072 original size:17 final size:17
Alignment explanation
Indices: 58320025--58320078 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
58320015 TTTTTAAATT
58320025 ATTAAAATTTAAAATTAA
1 ATTAAAA-TTAAAATTAA
* * * *
58320043 TTTCATATT-AAATAAA
1 ATTAAAATTAAAATTAA
58320059 ATTAAAATTAAAATTAA
1 ATTAAAATTAAAATTAA
58320076 ATT
1 ATT
58320079 GGATTCAATT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
16 12 0.44
17 11 0.41
18 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAATTAAAATTAA
Found at i:58326312 original size:46 final size:46
Alignment explanation
Indices: 58326236--58326541 Score: 265
Period size: 46 Copynumber: 6.7 Consensus size: 46
58326226 TACCTATTTG
* * * * *
58326236 GGTTAAACCTACATGAATCAGATAACAATGCTTGGTCACCCATTAA
1 GGTTGAACCTACACGAATCAGATAATAGTGCCTGGTCACCCATTAA
* * * * *
58326282 GGTTGAACCTACACGAATCAAATATTAATG-CAGGATCACCTATTAA
1 GGTTGAACCTACACGAATCAGATAATAGTGCCTGG-TCACCCATTAA
* * ** ** *
58326328 GGTTAAACCTACACGAATCAGATAATAGTGCCCGACCACCTGTTAG
1 GGTTGAACCTACACGAATCAGATAATAGTGCCTGGTCACCCATTAA
* * * * *
58326374 GGTTGAACCTACACAAATCGGATAATAGTGCCTGGCCACTCGTTAA
1 GGTTGAACCTACACGAATCAGATAATAGTGCCTGGTCACCCATTAA
* * * ** * *
58326420 GGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAG
1 GGTTGAACCTACACGAATCAGATAATAGTGCCTGGTCACCCATTAA
* * *
58326466 GGTTGAACGTACATGAATC-GAACAATAGTGCCTGGTCACCCATTAA
1 GGTTGAACCTACACGAATCAG-ATAATAGTGCCTGGTCACCCATTAA
* * *
58326512 GGTTGAACCTATACAAATCGGATAATAGTG
1 GGTTGAACCTACACGAATCAGATAATAGTG
58326542 TCTAGTCATT
Statistics
Matches: 210, Mismatches: 46, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
45 3 0.01
46 204 0.97
47 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (46 bp):
GGTTGAACCTACACGAATCAGATAATAGTGCCTGGTCACCCATTAA
Found at i:58326465 original size:92 final size:92
Alignment explanation
Indices: 58326324--58326616 Score: 356
Period size: 92 Copynumber: 3.2 Consensus size: 92
58326314 GGATCACCTA
* * ** * * *
58326324 TTAAGGTTAAACCTACACGAATCAGATAATAGTG-CCCGACCA-CCTGTTAGGGTTGAACCTACA
1 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAG-TCATTC-GTTAGGGTTGAACATACA
* * * *
58326387 CAAATCGGATAATAGTGCCTGGCCACTCG
64 TAAATCGAACAATAGTGCCTGGTCACTCG
* *
58326416 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACGTACATG
1 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACATACATA
* *
58326481 AATCGAACAATAGTGCCTGGTCACCCA
66 AATCGAACAATAGTGCCTGGTCACTCG
* * *
58326508 TTAAGGTTGAACCTATACAAATCGGATAATAGTGTCTAGTCATTCGTTAGTGTTGAACATACATA
1 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACATACATA
*
58326573 AATCGAACAATAGTGCCTGGTCACTTG
66 AATCGAACAATAGTGCCTGGTCACTCG
** *
58326600 TTCGGGCTGAACCTACA
1 TTAAGGTTGAACCTACA
58326617 TAACAAATAG
Statistics
Matches: 173, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
92 170 0.98
93 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (92 bp):
TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACATACATA
AATCGAACAATAGTGCCTGGTCACTCG
Found at i:58326484 original size:138 final size:138
Alignment explanation
Indices: 58326328--58326576 Score: 313
Period size: 138 Copynumber: 1.8 Consensus size: 138
58326318 CACCTATTAA
* ** *
58326328 GGTTAAACCTACACGAATC-AGATAATAGTGCCCGACCACCTGTTAGGGTTGAACCTACACAAAT
1 GGTTAAACCTACACGAATCGA-ACAATAGTGCCCGACCACCCATTAAGGTTGAACCTACACAAAT
* *
58326392 CGGATAATAGTGCCTGGCCACTCGTTAAG-GTTGAACCTACACAAATCAGATAATAGTGTCTAGT
65 CGGATAATAGTGCCTAGCCACTCGTT-AGTGTTGAACATACACAAATCAGATAATAGTGTCTAGT
58326456 CATTCGTTAG
129 CATTCGTTAG
* * * * ** *
58326466 GGTTGAACGTACATGAATCGAACAATAGTGCCTGGTCACCCATTAAGGTTGAACCTATACAAATC
1 GGTTAAACCTACACGAATCGAACAATAGTGCCCGACCACCCATTAAGGTTGAACCTACACAAATC
* * * *
58326531 GGATAATAGTGTCTAGTCATTCGTTAGTGTTGAACATACATAAATC
66 GGATAATAGTGCCTAGCCACTCGTTAGTGTTGAACATACACAAATC
58326577 GAACAATAGT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
137 2 0.02
138 89 0.97
139 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (138 bp):
GGTTAAACCTACACGAATCGAACAATAGTGCCCGACCACCCATTAAGGTTGAACCTACACAAATC
GGATAATAGTGCCTAGCCACTCGTTAGTGTTGAACATACACAAATCAGATAATAGTGTCTAGTCA
TTCGTTAG
Found at i:58326619 original size:46 final size:46
Alignment explanation
Indices: 58326282--58326616 Score: 248
Period size: 46 Copynumber: 7.3 Consensus size: 46
58326272 CACCCATTAA
* * * * * * * *
58326282 GGTTGAACCTACACGAATCAAATATTAATG-CAGGATCACCTATTAA
1 GGTTGAACCTACACAAATCGAATAATAGTGCCTGG-TCACTTGTTAG
* * * ** *
58326328 GGTTAAACCTACACGAATC-AGATAATAGTGCCCGACCACCTGTTAG
1 GGTTGAACCTACACAAATCGA-ATAATAGTGCCTGGTCACTTGTTAG
* * * *
58326374 GGTTGAACCTACACAAATCGGATAATAGTGCCTGGCCACTCGTTAA
1 GGTTGAACCTACACAAATCGAATAATAGTGCCTGGTCACTTGTTAG
* *
58326420 GGTTGAACCTACACAAATC-AGATAATAGTGTCTAGTCA-TTCGTTAG
1 GGTTGAACCTACACAAATCGA-ATAATAGTGCCTGGTCACTT-GTTAG
* ** * *** *
58326466 GGTTGAACGTACATGAATCGAACAATAGTGCCTGGTCACCCATTAA
1 GGTTGAACCTACACAAATCGAATAATAGTGCCTGGTCACTTGTTAG
* * * *
58326512 GGTTGAACCTATACAAATCGGATAATAGTGTCTAGTCA-TTCGTTAG
1 GGTTGAACCTACACAAATCGAATAATAGTGCCTGGTCACTT-GTTAG
* * * * *
58326558 TGTTGAACATACATAAATCGAACAATAGTGCCTGGTCACTTGTTCG
1 GGTTGAACCTACACAAATCGAATAATAGTGCCTGGTCACTTGTTAG
*
58326604 GGCTGAACCTACA
1 GGTTGAACCTACA
58326617 TAACAAATAG
Statistics
Matches: 224, Mismatches: 56, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
45 2 0.01
46 217 0.97
47 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (46 bp):
GGTTGAACCTACACAAATCGAATAATAGTGCCTGGTCACTTGTTAG
Found at i:58335462 original size:47 final size:47
Alignment explanation
Indices: 58335391--58335523 Score: 196
Period size: 49 Copynumber: 2.8 Consensus size: 47
58335381 CTCAATTGAT
*
58335391 AAGTACCTATACCATGGTCCGTAGCCAAATCAAGGTAACT-TATCCCA
1 AAGTACCTATACCATGG-CCGTAGCCAAATCAAGGTAACTCTATCCAA
*
58335438 GAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTATCCAA
1 AAGTACCTATACCATGGCC-GTAGCCAAATCAAGGTAACT-CTATCCAA
*
58335487 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGG-CCGTAGCCAAATCAAGGTA
58335524 TAATTAGCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
46 2 0.03
47 36 0.46
49 38 0.49
50 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCGTAGCCAAATCAAGGTAACTCTATCCAA
Found at i:58336192 original size:18 final size:17
Alignment explanation
Indices: 58336169--58336211 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
58336159 ATTGATAACA
*
58336169 TATAAAAGTTTTAGAACT
1 TATAAAAGTTTT-CAACT
*
58336187 TATAAAAATTTTCAACT
1 TATAAAAGTTTTCAACT
*
58336204 TTTAAAAG
1 TATAAAAG
58336212 GTCACACACC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (17 bp):
TATAAAAGTTTTCAACT
Found at i:58346039 original size:29 final size:27
Alignment explanation
Indices: 58346021--58346090 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
58346011 ATATTAAGTC
58346021 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
58346048 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
58346076 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
58346091 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:58346084 original size:28 final size:28
Alignment explanation
Indices: 58346021--58346118 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
58346011 ATATTAAGTC
*
58346021 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
58346048 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58346076 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58346105 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58346119 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58351108 original size:27 final size:28
Alignment explanation
Indices: 58351024--58351121 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
58351014 CATGAGATTG
* * * * *
58351024 GCACTAAGTGCGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
58351053 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58351081 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58351108 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58351122 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.35
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58351135 original size:29 final size:27
Alignment explanation
Indices: 58351052--58351135 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
58351042 TAAATTGTAC
* *
58351052 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
58351080 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
58351107 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
58351136 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:58370934 original size:1 final size:1
Alignment explanation
Indices: 58370930--58370957 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
58370920 ACTCACGTTG
58370930 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
58370958 GCACACCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:58372963 original size:31 final size:29
Alignment explanation
Indices: 58372927--58372996 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
58372917 TTCAAAATTT
58372927 TATACTTTTAAAGTTTTTAAAATATTTTAAA
1 TATACTTTTAAA-TTTTTAAAA-ATTTTAAA
* *
58372958 TATACTCTTTTAAATTTTTGAAAATTTTAAT
1 TATA--CTTTTAAATTTTTAAAAATTTTAAA
*
58372989 TAAACTTT
1 TATACTTT
58372997 CTTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 4 0.12
31 14 0.41
32 8 0.24
33 8 0.24
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (29 bp):
TATACTTTTAAATTTTTAAAAATTTTAAA
Found at i:58374735 original size:30 final size:30
Alignment explanation
Indices: 58374701--58374757 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
58374691 TGTATAAAAT
*
58374701 ATTTTTTTATTATTTTAAAGACATTTGTTA
1 ATTTTGTTATTATTTTAAAGACATTTGTTA
*
58374731 ATTTTGTTATTATTTTAGAGACATTTG
1 ATTTTGTTATTATTTTAAAGACATTTG
58374758 CTTGTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.58
Consensus pattern (30 bp):
ATTTTGTTATTATTTTAAAGACATTTGTTA
Found at i:58374861 original size:18 final size:20
Alignment explanation
Indices: 58374840--58374880 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
58374830 GAAATATTTA
*
58374840 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
58374858 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
58374878 TTT
1 TTT
58374881 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:58375748 original size:129 final size:130
Alignment explanation
Indices: 58375590--58375837 Score: 330
Period size: 133 Copynumber: 1.9 Consensus size: 130
58375580 TTAGTTCAAT
* * *
58375590 ACCAGATTTGCCTTTATTGCCAGTGAAGC-AG-AG-A-A-ATATATAGAATACATA-TAGATATT
1 ACCAGATTTGCCTTTACTGCCAGTGAAGCAAGTAGTACACATA-ATA-AATACACATTAGATA-C
58375649 ATATATAAAAACTAATGGAACATTCATCAATATCCATGCTCACTAGTCATCATAATTGACTTAGT
63 ATATATAAAAACTAATGGAACATTCATC-A-ATCCATGCTCACTAGTCATCATAATTGACTTAGT
58375714 TTCAC
126 TTCAC
*
58375719 ACCAGATTTGCCTTTACT-CCTAGTGAAGCATAGTAGTACACATAATACATACACATTAGATACA
1 ACCAGATTTGCCTTTACTGCC-AGTGAAGCA-AGTAGTACACATAATAAATACACATTAGATACA
* *
58375783 TATATAAAACCTAATGGAACATTCATCAATCCATGCTCACTAGTTATCATAATTG
64 TATATAAAAACTAATGGAACATTCATCAATCCATGCTCACTAGTCATCATAATTG
58375838 GCTGATTAAT
Statistics
Matches: 105, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
128 2 0.02
129 25 0.24
131 28 0.27
132 3 0.03
133 34 0.32
134 10 0.10
135 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (130 bp):
ACCAGATTTGCCTTTACTGCCAGTGAAGCAAGTAGTACACATAATAAATACACATTAGATACATA
TATAAAAACTAATGGAACATTCATCAATCCATGCTCACTAGTCATCATAATTGACTTAGTTTCAC
Found at i:58378572 original size:19 final size:19
Alignment explanation
Indices: 58378548--58378585 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58378538 AGTTAATAAC
*
58378548 AAATTTAATTATGGTGGGT
1 AAATTTAATTATGCTGGGT
*
58378567 AAATTTGATTATGCTGGGT
1 AAATTTAATTATGCTGGGT
58378586 GGCAGTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (19 bp):
AAATTTAATTATGCTGGGT
Found at i:58384994 original size:48 final size:48
Alignment explanation
Indices: 58384939--58385071 Score: 178
Period size: 48 Copynumber: 2.8 Consensus size: 48
58384929 CTCAATCGAT
*
58384939 AAGTACCTATACCAT-GCTCCGAAGCCAAATCAAGGTAACTTATCCCCG
1 AAGTACCTATACCATAGC-CCGAAGCCAAATCAAGGTAACTCATCCCCG
* * *
58384987 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
1 AAGTACCTATACCATAGCCCGAAGCCAAATCAAGGTAACTCATCCCCG
* ** *
58385035 AAATACCTATACCATAGCCTAAAGCAAAATCAAGGTA
1 AAGTACCTATACCATAGCCCGAAGCCAAATCAAGGTA
58385072 TAATTCGCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
48 73 0.97
49 2 0.03
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (48 bp):
AAGTACCTATACCATAGCCCGAAGCCAAATCAAGGTAACTCATCCCCG
Found at i:58390423 original size:48 final size:49
Alignment explanation
Indices: 58390294--58390515 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 49
58390284 ACATCAAAGT
* *
58390294 CGATGTCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGC
* * * *
58390343 CGATGCCGTGTCCCAGACAGGTCGTACACTAGCTTGT-ATATCTTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTT-TCATATATCGAGGC
* * * * * * * * **
58390392 TGATG-CATGTCCTAGACATGTCTTACGCTAGCTCTC--GTCTCAATAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGC
* * *
58390438 CGATG-CATGTCCCAGACATGTCTTACACTGGCTTTCATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGC
*
58390484 C-AGTG-CATGTCCCAGACATGTCTTACACTAGC
1 CGA-TGCCATGTCCCAGACAGGTCTTACACTAGC
58390516 ACACATATCA
Statistics
Matches: 138, Mismatches: 30, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.48
47 2 0.01
48 23 0.17
49 45 0.33
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGC
Found at i:58399501 original size:30 final size:30
Alignment explanation
Indices: 58399467--58399527 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
58399457 TCCTTAACTC
58399467 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
58399497 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
58399527 A
1 A
58399528 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:58403264 original size:49 final size:49
Alignment explanation
Indices: 58403169--58403388 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 49
58403159 ACATCAAAGT
*
58403169 CGATGCCATGTCCCATACAAGTCTTACACTAACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTAACTTTCATATATCGAGGC
* * ** * *
58403218 CGATGCCGTGTCCCAGACAGGTCTTACACTCGCTTGT-ATATCTCGAGGT
1 CGATGCCATGTCCCAGACAAGTCTTACACTAACTT-TCATATATCGAGGC
** * * * * * * *
58403267 CG-TTACATGTCCCAGACATGTCTTACACTAGCTCTCGTCTAT--ATGA
1 CGATGCCATGTCCCAGACAAGTCTTACACTAACTTTCATATATCGAGGC
* * ** * *
58403313 CAATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTAACTTTCATATATCGAGGC
*
58403359 CGATG-CATGTCCCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACAAGTCTTACACTA
58403389 GCACACATAT
Statistics
Matches: 139, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
45 2 0.01
46 63 0.45
47 2 0.01
48 29 0.21
49 42 0.30
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTAACTTTCATATATCGAGGC
Found at i:58410065 original size:37 final size:37
Alignment explanation
Indices: 58410015--58410093 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58410005 TTATTACGAA
* * *
58410015 GTCTTACCAGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
* *
58410052 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
58410089 GTCTT
1 GTCTT
58410094 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCAGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58410358 original size:47 final size:47
Alignment explanation
Indices: 58410211--58410667 Score: 790
Period size: 47 Copynumber: 9.7 Consensus size: 47
58410201 GCCCTTCGGG
* *
58410211 ACTTATCACATTCATCACATTGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58410261 ACTTTCACATTCATCACATCGGCCATTA-GCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58410307 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
58410354 ACTTTCACATTCATCACATCGACCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58410401 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58410448 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58410495 ACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58410542 ACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
** *
58410589 ACTTTCACATTCATCACATCGGCCATTAGGAATTATCATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58410636 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
58410668 ATACTATCAT
Statistics
Matches: 390, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
46 36 0.09
47 318 0.82
48 9 0.02
49 23 0.06
50 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:58414125 original size:40 final size:40
Alignment explanation
Indices: 58414074--58414391 Score: 397
Period size: 40 Copynumber: 8.0 Consensus size: 40
58414064 TGAATACACG
* * *** *
58414074 TCACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
*
58414114 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCAGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
58414154 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-A
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
58414193 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
58414233 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
58414273 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * *
58414313 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * * * *
58414353 GTAACTCGCACCAATGC-CTTCGGATCTTAGTCTGGATAT
1 -TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
58414392 GGTCACTTAG
Statistics
Matches: 248, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 37 0.15
40 200 0.81
41 11 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:58414237 original size:119 final size:120
Alignment explanation
Indices: 58414074--58414382 Score: 433
Period size: 119 Copynumber: 2.6 Consensus size: 120
58414064 TGAATACACG
* * ** *
58414074 TCACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
*
58414139 CTTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-A
66 CTTAGCCCAGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
58414193 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
* * *
58414258 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCCCAGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * * * *
58414313 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGA
*
58414377 TCTTAG
65 ACTTAG
58414383 TCTGGATATG
Statistics
Matches: 168, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
119 107 0.64
120 49 0.29
121 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCCAGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:58414418 original size:120 final size:119
Alignment explanation
Indices: 58414074--58414424 Score: 377
Period size: 119 Copynumber: 2.9 Consensus size: 119
58414064 TGAATACACG
* * * ** * * *
58414074 TCACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATAACTAGCACCAATGCTCTTCGGAA
* * * *
58414139 CTTAGCCCAGATATATCACTAGCA-CGAATGCTCTTCGGAACTTAGCCCGGATAA
66 CTTAGCCCGGATACATCACTAGCATC-AAAGCTCTTCGGGACTTAGCCCGGATAA
* **
58414193 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAA
1 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATAACTAGCACCAATGCTCTTCGGAA
* *
58414258 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATA-A
* * * * *
58414313 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGA
1 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA-TAACTAGCACCAATGCTCTTCGGA
* * * ** *
58414377 TCTTAGTCTGGATATGGTCACTTAGCA-CAAAGC-CTTTGGGACTTAGCC
65 ACTTAGCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCC
58414425 TAGACATCAT
Statistics
Matches: 200, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
119 106 0.53
120 69 0.34
121 20 0.10
122 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATAACTAGCACCAATGCTCTTCGGAA
CTTAGCCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATAA
Found at i:58414775 original size:29 final size:29
Alignment explanation
Indices: 58414736--58414814 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
58414726 CTTAATAATC
*
58414736 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
58414766 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
58414795 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
58414815 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:58416770 original size:37 final size:37
Alignment explanation
Indices: 58416720--58416798 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58416710 TTATTACGAA
* * *
58416720 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58416757 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58416794 GTCTT
1 GTCTT
58416799 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58417027 original size:47 final size:47
Alignment explanation
Indices: 58416916--58417420 Score: 938
Period size: 47 Copynumber: 10.7 Consensus size: 47
58416906 GCCCTTCGGG
* *
58416916 ACTTATCACATTCATCACATTGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58416966 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58417013 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58417060 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58417107 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58417154 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58417201 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58417248 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58417295 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58417342 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58417389 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
58417421 ATACTATCAT
Statistics
Matches: 447, Mismatches: 8, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
47 410 0.92
49 33 0.07
50 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:58417264 original size:25 final size:25
Alignment explanation
Indices: 58417188--58417266 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
58417178 ATTAGGCCTT
58417188 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
58417213 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
58417235 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
58417260 ATCACAT
1 ATCACAT
58417267 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:58417405 original size:25 final size:25
Alignment explanation
Indices: 58417329--58417407 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
58417319 ATTAGGCCTT
58417329 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
58417354 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
58417376 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
58417401 ATCACAT
1 ATCACAT
58417408 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:58428409 original size:26 final size:26
Alignment explanation
Indices: 58428378--58428490 Score: 75
Period size: 27 Copynumber: 4.2 Consensus size: 26
58428368 GAGATTTCAA
*
58428378 TCATTTACCACATAAGTACAAAATAG
1 TCATTTACCACATAAGGACAAAATAG
* * *
58428404 TCATTTTACCTCATGAGGGCAAAATAG
1 TCA-TTTACCACATAAGGACAAAATAG
* * * * *
58428431 TCATTTTACCTCATGAGGGCAAAAAAA
1 TCA-TTTACCACATAAGGACAAAATAG
* * *
58428458 TCAATTTACCTCATGAGGGA-AAAATAA
1 TC-ATTTACCACAT-AAGGACAAAATAG
58428485 TCATTT
1 TCATTT
58428491 TATCGATTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.09
27 64 0.86
28 3 0.04
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (26 bp):
TCATTTACCACATAAGGACAAAATAG
Found at i:58428426 original size:27 final size:27
Alignment explanation
Indices: 58428396--58428492 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
58428386 CACATAAGTA
*
58428396 CAAAATAGTCATTTTACCTCATGAGGG
1 CAAAATAATCATTTTACCTCATGAGGG
*
58428423 CAAAATAGTCATTTTACCTCATGAGGG
1 CAAAATAATCATTTTACCTCATGAGGG
* *
58428450 CAAAAAAATCAATTTACCTCATGAGGG
1 CAAAATAATCATTTTACCTCATGAGGG
*
58428477 AAAAATAATCATTTTA
1 CAAAATAATCATTTTA
58428493 TCGATTAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (27 bp):
CAAAATAATCATTTTACCTCATGAGGG
Found at i:58430628 original size:48 final size:48
Alignment explanation
Indices: 58430571--58430698 Score: 170
Period size: 46 Copynumber: 2.7 Consensus size: 48
58430561 AATAAATAAG
* * * *
58430571 TACCTATACCATGGCCTAAAGCCAAATCAAGGTAACTTATCCCCGGAG
1 TACCTATACCATGGCCTAAAGCCAAATCAAGGTAACTCATACCCGAAA
* * *
58430619 TGCCTATACCATGGCCT--GGCCAAATCAAGGTAACTCATATCCGAAA
1 TACCTATACCATGGCCTAAAGCCAAATCAAGGTAACTCATACCCGAAA
*
58430665 TACCTATACCATGGCCCAAAGCCAAATCAAGGTA
1 TACCTATACCATGGCCTAAAGCCAAATCAAGGTA
58430699 TAATTTGCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 38 0.56
48 30 0.44
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.20
Consensus pattern (48 bp):
TACCTATACCATGGCCTAAAGCCAAATCAAGGTAACTCATACCCGAAA
Found at i:58433322 original size:23 final size:23
Alignment explanation
Indices: 58433292--58433383 Score: 98
Period size: 23 Copynumber: 4.0 Consensus size: 23
58433282 GAGCTGATGG
58433292 ACGGTAAGCTCTATTGAGCTGAA
1 ACGGTAAGCTCTATTGAGCTGAA
* *
58433315 ACGGTAAGCTCTATCGAGTTG-A
1 ACGGTAAGCTCTATTGAGCTGAA
** *
58433337 ACAATAAGCTCGTA-TGAGCTAAA
1 ACGGTAAGCTC-TATTGAGCTGAA
* *
58433360 ACGGTAGGCTCTAATGAGCTGAA
1 ACGGTAAGCTCTATTGAGCTGAA
58433383 A
1 A
58433384 ATAATAAGCT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
22 16 0.29
23 39 0.71
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
ACGGTAAGCTCTATTGAGCTGAA
Done.