Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 104 of 292
Found at i:31769774 original size:20 final size:21
Alignment explanation
Indices: 31769726--31769783 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
31769716 CCAACAAAAA
31769726 TTATAAAAAAATT-AAAATAAT
1 TTAT-AAAAAATTCAAAATAAT
*
31769747 TT-TCAAAAATTCAAAAT-AT
1 TTATAAAAAATTCAAAATAAT
*
31769766 TTATAAAAATTTCAAAAT
1 TTATAAAAAATTCAAAAT
31769784 TTATATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.34
20 19 0.59
21 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TTATAAAAAATTCAAAATAAT
Found at i:31769788 original size:18 final size:19
Alignment explanation
Indices: 31769732--31769783 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
31769722 AAAATTATAA
31769732 AAAAATT-AAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
31769750 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
31769770 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
31769784 TTATATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:31769808 original size:26 final size:27
Alignment explanation
Indices: 31769763--31769814 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
31769753 AAATTCAAAA
*
31769763 TATTTATAAAAATTTCAAAATTTATAT
1 TATTTATAAAAATTTCAAAATATATAT
* *
31769790 TATTTA-ATAAATTTTAAAATATATA
1 TATTTATAAAAATTTCAAAATATATA
31769815 AAGAAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTATAAAAATTTCAAAATATATAT
Found at i:31770049 original size:24 final size:24
Alignment explanation
Indices: 31770016--31770073 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
31770006 TATTTAATTT
* * *
31770016 TTTAATTTAATTTAAACAATTTAA
1 TTTAAATTAATTAAAAAAATTTAA
*
31770040 TTTAACTTAATTAAAAAAATTTAA
1 TTTAAATTAATTAAAAAAATTTAA
*
31770064 ATTAAATTAA
1 TTTAAATTAA
31770074 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAATTAATTAAAAAAATTTAA
Found at i:31770060 original size:19 final size:20
Alignment explanation
Indices: 31770038--31770079 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
31770028 TAAACAATTT
*
31770038 AATTTAACTT-AATTAAAAA
1 AATTTAAATTAAATTAAAAA
31770057 AATTTAAATTAAATTAAAAA
1 AATTTAAATTAAATTAAAAA
31770077 AAT
1 AAT
31770080 AAAATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTAAATTAAATTAAAAA
Found at i:31770084 original size:19 final size:20
Alignment explanation
Indices: 31770048--31770090 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31770038 AATTTAACTT
*
31770048 AATTAAAAAAATTTAAATTA
1 AATTAAAAAAATTAAAATTA
*
31770068 AATTAAAAAAA-TAAAATTC
1 AATTAAAAAAATTAAAATTA
31770087 AATT
1 AATT
31770091 CATTAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTAAAAAAATTAAAATTA
Found at i:31772711 original size:3 final size:3
Alignment explanation
Indices: 31772703--31772729 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31772693 CTTCGCTCTC
31772703 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
31772730 GATACACCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31775371 original size:55 final size:54
Alignment explanation
Indices: 31775265--31775444 Score: 199
Period size: 56 Copynumber: 3.3 Consensus size: 54
31775255 AGTTTACAAG
* *
31775265 TTTACTTT-CCTCTCAAAAATTTTATTTCCCTCAAACTGC-CAAAACTATTTTTCCT
1 TTTACTTTCCCCCT-AAAATTTTTATTTCCCTCAAACT-CTCAAAACT-TTTTTCCT
* *
31775320 TTTACTTTCCCCCTTAAAATTTTTATTTTCCCCCAAACTCTCAAAACTTTTTTTCT
1 TTTACTTTCCCCC-TAAAATTTTTA-TTTCCCTCAAACTCTCAAAACTTTTTTCCT
** *
31775376 TTTACTTTCCCCC-AAAATCTTTTATTTCTTTCAAAC-CTCAAAACTTTTTTCAT
1 TTTACTTTCCCCCTAAAAT-TTTTATTTCCCTCAAACTCTCAAAACTTTTTTCCT
*
31775429 TTTGCTTT-CCCCTAAA
1 TTTACTTTCCCCCTAAA
31775445 CCCCTCAAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
52 4 0.04
53 25 0.23
54 14 0.13
55 13 0.12
56 33 0.30
57 20 0.18
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (54 bp):
TTTACTTTCCCCCTAAAATTTTTATTTCCCTCAAACTCTCAAAACTTTTTTCCT
Found at i:31779091 original size:35 final size:35
Alignment explanation
Indices: 31779050--31779181 Score: 138
Period size: 35 Copynumber: 3.6 Consensus size: 35
31779040 ACACAATCGC
* *
31779050 CGGTTTATCCGACTAGCGCTGGGTGCAAACACCGT
1 CGGTTTATCCAACTAGAGCTGGGTGCAAACACCGT
* * * *
31779085 TGGTTTATCCAACTAGAGCTGGGCTTACATTTAATATCGT
1 CGGTTTATCCAACTAGAGCTGGG--TGCA---AACACCGT
* * *
31779125 CAGTTTATCCAACTAGCGCTGGGCGCAAACACCGT
1 CGGTTTATCCAACTAGAGCTGGGTGCAAACACCGT
31779160 CGGTTTATCCAACTAGAGCTGG
1 CGGTTTATCCAACTAGAGCTGG
31779182 ACTCACATTT
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
35 46 0.60
37 3 0.04
38 2 0.03
40 26 0.34
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (35 bp):
CGGTTTATCCAACTAGAGCTGGGTGCAAACACCGT
Found at i:31779146 original size:40 final size:39
Alignment explanation
Indices: 31779086--31779223 Score: 131
Period size: 40 Copynumber: 3.6 Consensus size: 39
31779076 AAACACCGTT
31779086 GGTTTATCCAACTAGAGCTGGGCTTACATTTAATATCGTC
1 GGTTTATCCAACTAGAGCTGGGC-TACATTTAATATCGTC
* * * * *
31779126 AGTTTATCCAACTAGCGCTGGGC-GCA---AACACCGTC
1 GGTTTATCCAACTAGAGCTGGGCTACATTTAATATCGTC
* *
31779161 GGTTTATCCAACTAGAGCTGGACTCACATTTAATATCGCC
1 GGTTTATCCAACTAGAGCTGGGCT-ACATTTAATATCGTC
* ** *
31779201 GGTATATCTGACTAGCGCTGGGC
1 GGTTTATCCAACTAGAGCTGGGC
31779224 GCAAACTCCC
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
35 27 0.36
37 2 0.03
38 2 0.03
40 45 0.59
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (39 bp):
GGTTTATCCAACTAGAGCTGGGCTACATTTAATATCGTC
Found at i:31779175 original size:75 final size:75
Alignment explanation
Indices: 31779045--31779229 Score: 280
Period size: 75 Copynumber: 2.5 Consensus size: 75
31779035 TAGGCACACA
* * * *
31779045 ATCGCCGGTTTATCCGACTAGCGCTGGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTGGGCT
1 ATCGCCAGTTTATCCGACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
*
31779110 TACATTTAAT
66 CACATTTAAT
* *
31779120 ATCGTCAGTTTATCCAACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
1 ATCGCCAGTTTATCCGACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
31779185 CACATTTAAT
66 CACATTTAAT
* * *
31779195 ATCGCCGGTATATCTGACTAGCGCTGGGCGCAAAC
1 ATCGCCAGTTTATCCGACTAGCGCTGGGCGCAAAC
31779230 TCCCCTGTGG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 98 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (75 bp):
ATCGCCAGTTTATCCGACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
CACATTTAAT
Found at i:31788505 original size:13 final size:13
Alignment explanation
Indices: 31788487--31788514 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31788477 TAAATGTGAA
31788487 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31788500 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31788513 GC
1 GC
31788515 ATGTAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (13 bp):
GCTTGTTGATGAT
Found at i:31789543 original size:39 final size:39
Alignment explanation
Indices: 31789489--31789641 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
31789479 GAATGTTCGA
*
31789489 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31789528 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31789567 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
31789606 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31789642 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:31794438 original size:39 final size:39
Alignment explanation
Indices: 31794384--31794536 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
31794374 GAATGTTCGA
*
31794384 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31794423 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31794462 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
31794501 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31794537 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:31794552 original size:78 final size:78
Alignment explanation
Indices: 31794387--31794565 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 78
31794377 TGTTCGAGTG
*
31794387 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATACGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
**
31794452 TGTGCGAGCTATG
66 TGTGCGAGCTACC
* * * *
31794465 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCAT
1 ATATACGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAA
* *
31794530 TTGTGCGGGTTACC
65 TTGTGCGAGCTACC
*
31794544 ATA-ACGGGCTATGTCCCGAAGG
1 ATATACGGGCTAAG-CCCGAAGG
31794566 TGTTTTGAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
78 59 0.66
79 31 0.34
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
ATATACGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
TGTGCGAGCTACC
Found at i:31798300 original size:13 final size:13
Alignment explanation
Indices: 31798282--31798309 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31798272 TAAATGTGAA
31798282 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31798295 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31798308 GC
1 GC
31798310 ATGTAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (13 bp):
GCTTGTTGATGAT
Found at i:31802955 original size:39 final size:39
Alignment explanation
Indices: 31802901--31803053 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
31802891 GAATGTTCGA
*
31802901 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31802940 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31802979 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
31803018 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31803054 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:31803069 original size:40 final size:39
Alignment explanation
Indices: 31802902--31803083 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
31802892 AATGTTCGAG
* *
31802902 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
31802941 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
31802980 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
31803019 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
31803059 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
31803084 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:31806823 original size:13 final size:13
Alignment explanation
Indices: 31806805--31806832 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31806795 TAAATGTGAA
31806805 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31806818 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31806831 GC
1 GC
31806833 ATGTAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (13 bp):
GCTTGTTGATGAT
Found at i:31807862 original size:39 final size:39
Alignment explanation
Indices: 31807808--31807960 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
31807798 GAATGTTCGA
*
31807808 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31807847 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31807886 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
31807925 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31807961 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:31811730 original size:13 final size:13
Alignment explanation
Indices: 31811712--31811739 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31811702 TAAATGTGAA
31811712 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31811725 GCTTGTTGATGAT
1 GCTTGTTGATGAT
31811738 GC
1 GC
31811740 ATGTAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (13 bp):
GCTTGTTGATGAT
Found at i:31812769 original size:39 final size:39
Alignment explanation
Indices: 31812715--31812867 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
31812705 GAATGTTCGA
*
31812715 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31812754 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31812793 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
31812832 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31812868 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:31812883 original size:78 final size:78
Alignment explanation
Indices: 31812718--31812896 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 78
31812708 TGTTCGAGTG
*
31812718 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATACGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
**
31812783 TGTGCGAGCTATG
66 TGTGCGAGCTACC
* * * *
31812796 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCAT
1 ATATACGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAA
* *
31812861 TTGTGCGGGTTACC
65 TTGTGCGAGCTACC
*
31812875 ATA-ACGGGCTATGTCCCGAAGG
1 ATATACGGGCTAAG-CCCGAAGG
31812897 TGTTTTGAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
78 59 0.66
79 31 0.34
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
ATATACGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
TGTGCGAGCTACC
Found at i:31823857 original size:27 final size:27
Alignment explanation
Indices: 31823825--31823876 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
31823815 TCGAACCTCC
31823825 ATTTTAATACGTGGTCCACATTCCAAA
1 ATTTTAATACGTGGTCCACATTCCAAA
**
31823852 ATTTTAATACGTGGTCTGCATTCCA
1 ATTTTAATACGTGGTCCACATTCCA
31823877 TCTCTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (27 bp):
ATTTTAATACGTGGTCCACATTCCAAA
Found at i:31826581 original size:24 final size:24
Alignment explanation
Indices: 31826540--31826587 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
31826530 GAAAGTTATT
**
31826540 AATTATTTTTTATTTACT-TGAAA
1 AATTATTTTTTAAATACTATGAAA
31826563 AATTATTTTTTAAAATACTATGAAA
1 AATTATTTTTT-AAATACTATGAAA
31826588 CGCATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 5 0.24
25 5 0.24
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
AATTATTTTTTAAATACTATGAAA
Found at i:31826999 original size:16 final size:16
Alignment explanation
Indices: 31826978--31827025 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
31826968 TATTCAAAAG
31826978 TTTCTCCTTCTTTTCC
1 TTTCTCCTTCTTTTCC
31826994 TTTCTCC-T-TTTTCAC
1 TTTCTCCTTCTTTTC-C
31827009 TTTC-CCTTCTCTTTCC
1 TTTCTCCTTCT-TTTCC
31827025 T
1 T
31827026 ACCTACTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.25
15 7 0.25
16 10 0.36
17 4 0.14
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTCTCCTTCTTTTCC
Found at i:31829579 original size:21 final size:21
Alignment explanation
Indices: 31829530--31829579 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
31829520 ACAAATACGG
* * *
31829530 ATCATACTTATCATATTACAG
1 ATCATATTTATCATATCACAA
* *
31829551 ATCTTATTTATCTTATCACAA
1 ATCATATTTATCATATCACAA
31829572 ATCATATT
1 ATCATATT
31829580 GAGCATATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (21 bp):
ATCATATTTATCATATCACAA
Found at i:31846453 original size:36 final size:36
Alignment explanation
Indices: 31846406--31846477 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
31846396 CCTAGTACTC
*
31846406 ATACTAGTCCACGCATTTCATTTATTTCACATTTTA
1 ATACTAGTCCACACATTTCATTTATTTCACATTTTA
31846442 ATACTAGTCCACACATTTCATTTATTTCACATTTTA
1 ATACTAGTCCACACATTTCATTTATTTCACATTTTA
31846478 GTCCCTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (36 bp):
ATACTAGTCCACACATTTCATTTATTTCACATTTTA
Found at i:31848656 original size:22 final size:22
Alignment explanation
Indices: 31848628--31848671 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31848618 ATCGAGAAGA
31848628 ATGAAAAATTACCAAAATGCCC
1 ATGAAAAATTACCAAAATGCCC
31848650 ATGAAAAATTACCAAAATGCCC
1 ATGAAAAATTACCAAAATGCCC
31848672 TTGTACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.09, T:0.18
Consensus pattern (22 bp):
ATGAAAAATTACCAAAATGCCC
Found at i:31849081 original size:39 final size:40
Alignment explanation
Indices: 31849027--31849121 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
31849017 AGCTTCTATT
*
31849027 CAGCTCTTATGAGCTTCTG-TTGGCATGTTTCGGGTGGAC
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGGTGGAC
* * *
31849066 CAGCTCTTTTGAGCTTCTGTTTGGCATATTTCGGTTGGAT
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGGTGGAC
*
31849106 CAACTCTTATGAGCTT
1 CAGCTCTTATGAGCTT
31849122 TTGTCTAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 18 0.37
40 31 0.63
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (40 bp):
CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGGTGGAC
Found at i:31852488 original size:29 final size:30
Alignment explanation
Indices: 31852446--31852504 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
31852436 AATTAACAAG
31852446 CAAATACCTCTAAAATAATAAT-AAATTAA
1 CAAATACCTCTAAAATAATAATAAAATTAA
* *
31852475 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAATAAAATTAA
31852505 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAATAAAATTAA
Found at i:31852507 original size:12 final size:12
Alignment explanation
Indices: 31852485--31852513 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31852475 CAAATGCCTT
31852485 TAAAA-TAATAA
1 TAAAATTAATAA
31852496 TAAAATTAATAA
1 TAAAATTAATAA
31852508 TAAAAT
1 TAAAAT
31852514 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:31854381 original size:19 final size:20
Alignment explanation
Indices: 31854357--31854399 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
31854347 TAGATTTATT
31854357 CTTAATTAAT-TTAAATTAA
1 CTTAATTAATCTTAAATTAA
*
31854376 CTTAATTAATCTTTAATTAA
1 CTTAATTAATCTTAAATTAA
31854396 -TTAA
1 CTTAA
31854400 ACTATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
CTTAATTAATCTTAAATTAA
Found at i:31854394 original size:30 final size:31
Alignment explanation
Indices: 31854336--31854397 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
31854326 ATAACAGCAC
* *
31854336 TTAAATTATCTTAGATTTATTCTTAATTAAT
1 TTAAATTAACTTAGATTAATTCTTAATTAAT
31854367 TTAAATTAACTTA-ATTAA-TCTTTAATTAAT
1 TTAAATTAACTTAGATTAATTC-TTAATTAAT
31854397 T
1 T
31854398 AAACTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 14 0.50
31 12 0.43
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (31 bp):
TTAAATTAACTTAGATTAATTCTTAATTAAT
Found at i:31854407 original size:15 final size:14
Alignment explanation
Indices: 31854357--31854407 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
31854347 TAGATTTATT
31854357 CTTAATTAATTTAAA
1 CTTAATTAA-TTAAA
*
31854372 -TTAACTTAATTAAT
1 CTTAA-TTAATTAAA
31854386 CTTTAATTAATTAAA
1 C-TTAATTAATTAAA
31854401 CTATAAT
1 CT-TAAT
31854408 CACAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 9 0.30
15 17 0.57
16 4 0.13
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
CTTAATTAATTAAA
Found at i:31860882 original size:21 final size:19
Alignment explanation
Indices: 31860852--31860900 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
31860842 TTCCAAAAAG
*
31860852 TATCGGTACCCATATGATTTT
1 TATCGATACCCATAT--TTTT
31860873 TATCGATA-CCATATTTTT
1 TATCGATACCCATATTTTT
*
31860891 TATTGATACC
1 TATCGATACC
31860901 AAAATTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 6 0.24
21 7 0.28
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (19 bp):
TATCGATACCCATATTTTT
Found at i:31878197 original size:28 final size:28
Alignment explanation
Indices: 31878161--31878221 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
31878151 CACGGGCAGG
*
31878161 GACACGGGCGTGTGTCTCAGTCGTGTGC
1 GACATGGGCGTGTGTCTCAGTCGTGTGC
31878189 GACATGGGCGTGTGTCTCAGTCGTGTGC
1 GACATGGGCGTGTGTCTCAGTCGTGTGC
31878217 GACAT
1 GACAT
31878222 ACGACTATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.13, C:0.23, G:0.38, T:0.26
Consensus pattern (28 bp):
GACATGGGCGTGTGTCTCAGTCGTGTGC
Found at i:31881327 original size:93 final size:93
Alignment explanation
Indices: 31881215--31881386 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31881205 GCCCATAAGT
* *
31881215 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31881280 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
31881308 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31881373 CGAGTTTGGATGCC
66 CGAGCTCGGATGCC
31881387 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:31881378 original size:46 final size:45
Alignment explanation
Indices: 31881207--31881376 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 45
31881197 TGTAACCCGC
*
31881207 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
31881253 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
31881299 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
31881346 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
31881377 TTTGGATGCC
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 62 0.59
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:31881401 original size:46 final size:46
Alignment explanation
Indices: 31881212--31881401 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
31881202 CCCGCCCATA
* ** *
31881212 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAT-ACATCC-T
* *
31881257 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
31881307 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
31881351 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
31881397 AGTGA
1 AGTGA
31881402 CATGTCACTT
Statistics
Matches: 115, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
44 8 0.07
46 63 0.55
47 31 0.27
48 1 0.01
49 5 0.04
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:31891062 original size:49 final size:51
Alignment explanation
Indices: 31891009--31891142 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 51
31890999 GTAGTGGCAA
*
31891009 TATATCTGCAGATCAGTGGTGGCTTGTCCACAAAA-T-TTATCAATGATAG
1 TATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGATAG
* * * * *
31891058 TATATCTGCATACCAGTGGTGGCTTGTCCACAAAAGTGTTATTAGTGGTAG
1 TATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGATAG
* *
31891109 TTTATCTTCAAATCAGTGGTGGCTTGTCCACAAA
1 TATATCTGCAAATCAGTGGTGGCTTGTCCACAAA
31891143 TGATGTTTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 33 0.45
50 1 0.01
51 40 0.54
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (51 bp):
TATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGATAG
Found at i:31895670 original size:31 final size:32
Alignment explanation
Indices: 31895628--31895688 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
31895618 GTGTTCGTAT
*
31895628 AGGGGTTCGCACACCTATGGTTCACACAAAAA
1 AGGGGTTCGCACACCTAGGGTTCACACAAAAA
*
31895660 AGGGG-TCGCACACCTAGGGTTCGCACAAA
1 AGGGGTTCGCACACCTAGGGTTCACACAAA
31895689 TATTGAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.16
Consensus pattern (32 bp):
AGGGGTTCGCACACCTAGGGTTCACACAAAAA
Found at i:31895683 original size:15 final size:15
Alignment explanation
Indices: 31895630--31895686 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
31895620 GTTCGTATAG
31895630 GGGTTCGCACACCTA
1 GGGTTCGCACACCTA
* * ***
31895645 TGGTTCACACAAAAAA
1 GGGTTCGCAC-ACCTA
*
31895661 GGGGTCGCACACCTA
1 GGGTTCGCACACCTA
31895676 GGGTTCGCACA
1 GGGTTCGCACA
31895687 AATATTGAGC
Statistics
Matches: 29, Mismatches: 12, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (15 bp):
GGGTTCGCACACCTA
Found at i:31897133 original size:40 final size:40
Alignment explanation
Indices: 31897088--31897254 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31897078 CGGAATATAA
31897088 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
31897128 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
31897168 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTT-GAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAG-C
** * * * *
31897208 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
31897247 CCGGATAT
1 CCGGATAT
31897255 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31897706 original size:56 final size:54
Alignment explanation
Indices: 31897633--31897745 Score: 131
Period size: 56 Copynumber: 2.1 Consensus size: 54
31897623 TCCTCCCCCT
31897633 TTTCCCTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTC
1 TTTCCCTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTCTTTTC
* *** *
31897689 TTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTC
1 TTTCCCTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTC
31897743 TTT
1 TTT
31897746 TTTTTTTTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 14 0.28
56 32 0.64
57 4 0.08
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTCCCTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTC
Found at i:31904340 original size:40 final size:40
Alignment explanation
Indices: 31904295--31904461 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31904285 CGGAATATAA
31904295 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
31904335 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
31904375 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTT-GAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAG-C
** * * * *
31904415 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
31904454 CCGGATAT
1 CCGGATAT
31904462 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31904905 original size:56 final size:54
Alignment explanation
Indices: 31904839--31904951 Score: 122
Period size: 56 Copynumber: 2.1 Consensus size: 54
31904829 ATCCTCCCCT
*
31904839 TTTCCCTAGTA-ATTTTGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTC
1 TTTCCCTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTCTTTTC
* *** *
31904895 TTTCCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTC
1 TTTCCCTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTC
31904949 TTT
1 TTT
31904952 TTTTTTTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
54 14 0.29
56 31 0.63
57 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (54 bp):
TTTCCCTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTC
Found at i:31905405 original size:18 final size:18
Alignment explanation
Indices: 31905378--31905448 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
31905368 GCGGGTTTCG
*
31905378 CATACCATAGGGGGTTCA
1 CATACAATAGGGGGTTCA
* ** *
31905396 CATACTATAGGATGTTTA
1 CATACAATAGGGGGTTCA
* *
31905414 CATGCAATAGAGGGTTCA
1 CATACAATAGGGGGTTCA
** *
31905432 CATGTAATAGGAGGTTC
1 CATACAATAGGGGGTTC
31905449 GCATGTTATA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (18 bp):
CATACAATAGGGGGTTCA
Found at i:31906092 original size:37 final size:37
Alignment explanation
Indices: 31906051--31906124 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
31906041 GTAAAAATGA
31906051 GAAAATGAAATATTTTAGCTAAATGCATACAAGGGAT
1 GAAAATGAAATATTTTAGCTAAATGCATACAAGGGAT
31906088 GAAAATGAAATATTTTAGCTAAATGCATACAAGGGAT
1 GAAAATGAAATATTTTAGCTAAATGCATACAAGGGAT
31906125 TTTAATCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (37 bp):
GAAAATGAAATATTTTAGCTAAATGCATACAAGGGAT
Found at i:31908668 original size:21 final size:21
Alignment explanation
Indices: 31908642--31908682 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31908632 AAATTACTAT
31908642 AAAAATTACATAT-TTAAAATA
1 AAAAATT-CATATATTAAAATA
*
31908663 AAAAATTTATATATTAAAAT
1 AAAAATTCATATATTAAAAT
31908683 TGAAATCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTCATATATTAAAATA
Found at i:31909391 original size:3 final size:3
Alignment explanation
Indices: 31909378--31909451 Score: 139
Period size: 3 Copynumber: 24.3 Consensus size: 3
31909368 AAGATTTAAA
31909378 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31909424 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
31909452 TCTAAATATC
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31910260 original size:2 final size:2
Alignment explanation
Indices: 31910253--31910313 Score: 79
Period size: 2 Copynumber: 30.5 Consensus size: 2
31910243 TAGTTACTAA
* * *
31910253 AT AT AT AT AT GT -T ACT AA AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
31910295 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
31910314 ACTATACTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
1 1 0.02
2 49 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:31910268 original size:18 final size:18
Alignment explanation
Indices: 31910241--31910300 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
31910231 TCAGTTTAAG
31910241 TATA-GTTACTAAATATA
1 TATATGTTACTAAATATA
31910258 TATATGTTACTAAATATA
1 TATATGTTACTAAATATA
* *
31910276 TATATATATACATATATATA
1 TATATGT-TAC-TAAATATA
31910296 TATAT
1 TATAT
31910301 ATATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 4 0.11
18 19 0.50
19 3 0.08
20 12 0.32
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
TATATGTTACTAAATATA
Found at i:31910319 original size:18 final size:17
Alignment explanation
Indices: 31910247--31910317 Score: 85
Period size: 16 Copynumber: 4.3 Consensus size: 17
31910237 TAAGTATAGT
*
31910247 TACTAAATATATATATGT
1 TACTAAATATATATAT-A
31910265 TACTAAATATATATATA
1 TACTAAATATATATATA
*
31910282 TA-TACATATATATATA
1 TACTAAATATATATATA
*
31910298 TA-TATATATATATATA
1 TACTAAATATATATATA
31910314 -ACTA
1 TACTA
31910318 TACTCAAGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
15 1 0.02
16 30 0.61
17 2 0.04
18 16 0.33
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (17 bp):
TACTAAATATATATATA
Found at i:31910355 original size:22 final size:22
Alignment explanation
Indices: 31910326--31910375 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
31910316 TATACTCAAG
31910326 TAAAAAAAAGTG-TTTTTTTAT
1 TAAAAAAAAGTGTTTTTTTTAT
31910347 TAAAAAAAAGTGTTTTTTTTAT
1 TAAAAAAAAGTGTTTTTTTTAT
31910369 TAAAAAA
1 TAAAAAA
31910376 TTTATAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (22 bp):
TAAAAAAAAGTGTTTTTTTTAT
Found at i:31910805 original size:17 final size:18
Alignment explanation
Indices: 31910783--31910817 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31910773 AAATTATTTT
31910783 AAATAATT-AAATTTAAA
1 AAATAATTAAAATTTAAA
31910800 AAATAATTAAAATTTAAA
1 AAATAATTAAAATTTAAA
31910818 TTTAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAATTTAAA
Found at i:31915118 original size:21 final size:21
Alignment explanation
Indices: 31915092--31915136 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
31915082 CGTGTGTACG
31915092 GTGACGAGATCGGCACTAAGT
1 GTGACGAGATCGGCACTAAGT
31915113 GTGACGAGATCGGCACTAAGT
1 GTGACGAGATCGGCACTAAGT
31915134 GTG
1 GTG
31915137 CGTGCTGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.20
Consensus pattern (21 bp):
GTGACGAGATCGGCACTAAGT
Found at i:31915185 original size:28 final size:29
Alignment explanation
Indices: 31915123--31915186 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
31915113 GTGACGAGAT
** *
31915123 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
31915152 TGGCACTAAGTGTGCAAGCT-GAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
31915180 CGGCACT
1 CGGCACT
31915187 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:31923024 original size:28 final size:29
Alignment explanation
Indices: 31922958--31923029 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
31922948 GTGACGAGAT
*
31922958 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
31922987 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
31923015 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
31923030 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:31925770 original size:29 final size:29
Alignment explanation
Indices: 31925671--31925762 Score: 152
Period size: 28 Copynumber: 3.2 Consensus size: 29
31925661 GTGACGAGAT
31925671 TGGCACTAAGTGTGC-TGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
31925699 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31925727 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31925756 CGGCACT
1 TGGCACT
31925763 GGGTGTGCGA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 43 0.72
29 17 0.28
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:31932403 original size:29 final size:30
Alignment explanation
Indices: 31932358--31932420 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
31932348 GATTATGTAG
31932358 AAAGAATAAAGAAATGAA-AAAAAAAAAGA
1 AAAGAATAAAGAAATGAAGAAAAAAAAAGA
* *
31932387 AAAGAA-AGAGAATATGAAGAAAAACAAAGA
1 AAAGAATAAAGAA-ATGAAGAAAAAAAAAGA
31932417 AAAG
1 AAAG
31932421 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 11 0.37
30 14 0.47
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (30 bp):
AAAGAATAAAGAAATGAAGAAAAAAAAAGA
Found at i:31933691 original size:29 final size:29
Alignment explanation
Indices: 31933590--31933683 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
31933580 GTGACGAGAT
31933590 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
31933619 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31933648 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31933677 CGGCACT
1 TGGCACT
31933684 GGGTGTGCGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:31933708 original size:58 final size:58
Alignment explanation
Indices: 31933586--31933720 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 58
31933576 TACGGTGACG
* * *
31933586 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
31933643 ATATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
31933701 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
31933721 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
57 3 0.05
58 62 0.94
59 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:31935541 original size:27 final size:27
Alignment explanation
Indices: 31935488--31935568 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
31935478 ATTCTATTAA
* *
31935488 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTGATTCTG
*
31935515 GTGGCTCTGCCACAATATTTG-TATCTG
1 GTGGCTCTGCCACAATATCTGAT-TCTG
** *
31935542 GTGATTCTGTCACAATATCT-ATTCTG
1 GTGGCTCTGCCACAATATCTGATTCTG
31935568 G
1 G
31935569 AAGCCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.13
27 39 0.87
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGATTCTG
Found at i:31935694 original size:6 final size:6
Alignment explanation
Indices: 31935685--31935840 Score: 106
Period size: 6 Copynumber: 25.3 Consensus size: 6
31935675 TTGCATTCAC
* * *
31935685 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
31935735 ATACTG ATTCTG ATTCTG ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
31935784 ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA ATTCTC ATTTTG ATTCT-
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
31935832 AGTTCTG AT
1 A-TTCTG AT
31935841 AATGTTTCTT
Statistics
Matches: 118, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
5 7 0.06
6 95 0.81
7 12 0.10
8 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:31935716 original size:25 final size:25
Alignment explanation
Indices: 31935688--31935819 Score: 161
Period size: 25 Copynumber: 5.6 Consensus size: 25
31935678 CATTCACATT
*
31935688 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
31935713 CTGATTCTGATTCTGTCACCTAATA
1 CTGATTCTGATTCTGTCACCTGATA
31935738 CTGATTCTGATTCTG--A--T--T-
1 CTGATTCTGATTCTGTCACCTGATA
* *
31935756 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
31935781 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
31935806 CTGATTCTAATTCT
1 CTGATTCTGATTCT
31935820 CATTTTGATT
Statistics
Matches: 93, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
18 14 0.15
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 1 0.01
24 1 0.01
25 73 0.78
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:31935794 original size:68 final size:68
Alignment explanation
Indices: 31935679--31935838 Score: 248
Period size: 68 Copynumber: 2.4 Consensus size: 68
31935669 TTGGGATTGC
* *
31935679 ATTCACATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATACTGATT
1 ATTCTCATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATACTGATT
*
31935744 CTG
66 CTA
* * *
31935747 ATTCTGATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTGATTCTGATT
1 ATTCTCATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATACTGATT
31935812 CTA
66 CTA
* *
31935815 ATTCTCATTTTGATTCTAGTTCTG
1 ATTCTCATTCTGATTCTAATTCTG
31935839 ATAATGTTTC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (68 bp):
ATTCTCATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATACTGATT
CTA
Found at i:31948696 original size:50 final size:49
Alignment explanation
Indices: 31948633--31948815 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 49
31948623 AACAATCCGG
* *
31948633 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATTTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACATTTGA
* ** *
31948683 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTAATTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACATTTGA
* * * * * * * *
31948733 GTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACTTAACAGTATGG
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACA-TTTGA
31948784 TACACGTAGTAGCCTGCACTTAGTAC-ACACAC
1 TACACGTAGTAGCCTGCACTTAGTACTACACAC
31948816 ATGTATTCAC
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 4 0.04
50 71 0.65
51 34 0.31
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACATTTGA
Found at i:31955073 original size:40 final size:40
Alignment explanation
Indices: 31955029--31955133 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
31955019 CGACAACAAA
* * * *
31955029 TCGGCTATTTGTGGCACCTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAATTCGACATAGCT
* * *
31955069 TCGGCTATATATGGCAATTAGTGTGCAATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAATTCGACATAGCT
* *
31955109 TCGACTATGTATGGCACTTAGTGTG
1 TCGGCTATATATGGCACTTAGTGTG
31955134 TGAGATATCG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCAATTCGACATAGCT
Found at i:31955160 original size:28 final size:28
Alignment explanation
Indices: 31955117--31955204 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
31955107 CTTCGACTAT
*
31955117 GTATGGCACTTAGTGTGTGAGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
*
31955145 GTGTGGCACTTAGTGTGCGAGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
* *
31955173 GTATGGCACTTAGTGTGCAAGATATTGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
31955201 GTAT
1 GTAT
31955205 TCAATGGTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGCGAGATATCGA
Found at i:31964350 original size:44 final size:44
Alignment explanation
Indices: 31964300--31964388 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
31964290 CACAATGCGC
31964300 TTTACTAAACTTAGAATCCTTATGTGTAAGTAGTTTTTTTTTCT
1 TTTACTAAACTTAGAATCCTTATGTGTAAGTAGTTTTTTTTTCT
31964344 TTTACTAAACTTAGAATCCTTATGTGTAAGTAGTTTTTTTTTCT
1 TTTACTAAACTTAGAATCCTTATGTGTAAGTAGTTTTTTTTTCT
31964388 T
1 T
31964389 CTTTTTTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.53
Consensus pattern (44 bp):
TTTACTAAACTTAGAATCCTTATGTGTAAGTAGTTTTTTTTTCT
Found at i:31972156 original size:49 final size:49
Alignment explanation
Indices: 31972043--31972325 Score: 363
Period size: 49 Copynumber: 6.0 Consensus size: 49
31972033 TCACATTTAT
* * * * *
31972043 ACACTTTCACATCCATCACGTTGGCCACTCGGCC-CTATCACATATAT--
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTC-ATCACATATATAC
* *
31972090 ACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
*
31972139 ACACTTTCACATTCATCACATCGGCCATTAGG-C-C-T----TAT-CAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
*
31972180 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
* *
31972229 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
* *
31972278 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATCTATA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATA
31972326 TATCTCATAC
Statistics
Matches: 215, Mismatches: 10, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
41 34 0.16
42 4 0.02
44 1 0.00
46 1 0.00
47 43 0.20
48 5 0.02
49 127 0.59
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (49 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
Found at i:31972214 original size:90 final size:91
Alignment explanation
Indices: 31972029--31972325 Score: 366
Period size: 90 Copynumber: 3.2 Consensus size: 91
31972019 CCCTTCGGGA
* * * * * * *
31972029 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----A-AC
* *
31972092 ACTTTCACATTCATCACATTGGCCATTCGGC
61 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31972123 CTCATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ACACTTT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAACACTTT
31972187 CACATTCATCACATCGGCCATTAGGC
66 CACATTCATCACATCGGCCATTAGGC
31972213 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC------A-
31972278 ACACTTTCACATTCATCACATCGGCCATTAGGC
59 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
31972311 CTTATCACATCTATA
1 CTTATCACATATATA
31972326 TATCTCATAC
Statistics
Matches: 181, Mismatches: 12, Indels: 16
0.87 0.06 0.08
Matches are distributed among these distances:
90 87 0.48
94 9 0.05
95 1 0.01
96 37 0.20
98 47 0.26
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (91 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAACACTTT
CACATTCATCACATCGGCCATTAGGC
Found at i:31972222 original size:22 final size:22
Alignment explanation
Indices: 31972153--31972222 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
31972143 TTTCACATTC
31972153 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* * *
31972175 ATCACA-C--ACTTTCA--CATT
1 ATCACATCGGCCATT-AGGCCTT
31972193 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
31972216 ATCACAT
1 ATCACAT
31972223 ATATACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 2 0.06
21 2 0.06
22 16 0.46
23 3 0.09
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:31972291 original size:139 final size:137
Alignment explanation
Indices: 31972043--31972319 Score: 446
Period size: 139 Copynumber: 2.0 Consensus size: 137
31972033 TCACATTTAT
* * *
31972043 ACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
* *
31972108 CATTGGCCATTCGGCCTCATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
66 CATCGGCCATTAGGCCTCATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
31972173 TTATCAC
131 TTATCAC
* * *
31972180 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
1 ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATAT--ACACTTTCACATTCAT
* *
31972245 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
64 CACATCGGCCATTAGGCCTCATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGG
31972310 CCTTATCAC
129 CCTTATCAC
31972319 A
1 A
31972320 TCTATATATC
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
137 41 0.32
139 87 0.68
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (137 bp):
ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTCATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATCAC
Found at i:31975230 original size:23 final size:23
Alignment explanation
Indices: 31975200--31975245 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
31975190 TATCTTTAGT
*
31975200 ATTTACAATAATTACCCTGATAA
1 ATTTACAATAATTACCATGATAA
31975223 ATTTACAATAATTACCATGATAA
1 ATTTACAATAATTACCATGATAA
31975246 CTCTAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (23 bp):
ATTTACAATAATTACCATGATAA
Found at i:31978369 original size:45 final size:45
Alignment explanation
Indices: 31978320--31978430 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
31978310 TGCCATAATG
*
31978320 TCTTTGAGCTATGGTCTTACTCAATTTTATCCTGA-TGCCATAGCA
1 TCTTTGAGCTATGGTCTTACTCAATTTTATCCTAATTG-CATAGCA
* ** * **
31978365 TCTTTCAATTATGGTATTACTCTTTTTTATCCTAATTGCATAGCA
1 TCTTTGAGCTATGGTCTTACTCAATTTTATCCTAATTGCATAGCA
*
31978410 TCTTTCG-GCTATTGTCTTACT
1 TCTTT-GAGCTATGGTCTTACT
31978431 TTTTTTTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (45 bp):
TCTTTGAGCTATGGTCTTACTCAATTTTATCCTAATTGCATAGCA
Found at i:31978437 original size:45 final size:45
Alignment explanation
Indices: 31978269--31978415 Score: 118
Period size: 45 Copynumber: 3.3 Consensus size: 45
31978259 CAAGATTTCA
* * *** *
31978269 ATAGCATCTTTCAACCATGGTATTAATCCCATTTA-CCATGATGCC
1 ATAGCATCTTTCAACTATGGTATTACTCTTTTTTATCC-TAATGCC
*** * * * ** *
31978314 ATAATGTCTTTGAGCTATGGTCTTACTCAATTTTATCCTGATGCC
1 ATAGCATCTTTCAACTATGGTATTACTCTTTTTTATCCTAATGCC
*
31978359 ATAGCATCTTTCAATTATGGTATTACTCTTTTTTATCCTAATTG-C
1 ATAGCATCTTTCAACTATGGTATTACTCTTTTTTATCCTAA-TGCC
31978404 ATAGCATCTTTC
1 ATAGCATCTTTC
31978416 GGCTATTGTC
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
45 75 0.95
46 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (45 bp):
ATAGCATCTTTCAACTATGGTATTACTCTTTTTTATCCTAATGCC
Found at i:31979751 original size:25 final size:24
Alignment explanation
Indices: 31979700--31979752 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
31979690 GCCATTAGGG
* * * *
31979700 TTACCGATTCCAGCTCTTATTAGC
1 TTACCGATACCAGCTCGTATGAAC
31979724 TTACCGATACTCAGCTCGTATGAAC
1 TTACCGATAC-CAGCTCGTATGAAC
31979749 TTAC
1 TTAC
31979753 TGTTTTTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (24 bp):
TTACCGATACCAGCTCGTATGAAC
Found at i:31984866 original size:22 final size:22
Alignment explanation
Indices: 31984841--31984883 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31984831 ATTTTTCTGA
*
31984841 TTCTTTTATTTT-TTATCTTTTT
1 TTCTTCTATTTTATTAT-TTTTT
31984863 TTCTTCTATTTTATTATTTTT
1 TTCTTCTATTTTATTATTTTT
31984884 AGTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (22 bp):
TTCTTCTATTTTATTATTTTTT
Found at i:31986373 original size:18 final size:19
Alignment explanation
Indices: 31986351--31986396 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
31986341 TATTTTTATT
*
31986351 TTTTTATTTTTTTCTTTTC
1 TTTTTATTTTTCTCTTTTC
*
31986370 -TTTTA-TCTTCTCTTTTC
1 TTTTTATTTTTCTCTTTTC
31986387 TTTTTATTTT
1 TTTTTATTTT
31986397 ATGTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.45
18 10 0.45
19 2 0.09
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTTCTCTTTTC
Found at i:31993128 original size:2 final size:2
Alignment explanation
Indices: 31993078--31993117 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
31993068 TGGTAAAATG
31993078 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31993118 AGGTGTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31995774 original size:40 final size:41
Alignment explanation
Indices: 31995618--31995821 Score: 192
Period size: 39 Copynumber: 5.1 Consensus size: 41
31995608 CGAAATTTAA
* * *
31995618 CCGG-ATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGAATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31995658 CCGG-TTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
31995697 CC-GAATTTAGTGACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31995736 CCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
31995776 CCGG-ATATAGTCACTTAGCATAAAAGCCTTCGGGACTTAGC
1 CCGGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31995817 CCGGA
1 CCGGA
31995822 TATCATTCGA
Statistics
Matches: 137, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 63 0.46
40 46 0.34
41 22 0.16
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31997864 original size:24 final size:22
Alignment explanation
Indices: 31997837--31997890 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
31997827 AGAGGTGTTA
31997837 CATCCATGATCTTTCCTATCCACT
1 CATCCAT-ATCTTT-CTATCCACT
* *
31997861 CATCCCATTTCTTTCTATCCATT
1 CAT-CCATATCTTTCTATCCACT
*
31997884 CCTCCAT
1 CATCCAT
31997891 TTCACCATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 10 0.38
24 8 0.31
25 4 0.15
ACGTcount: A:0.19, C:0.39, G:0.02, T:0.41
Consensus pattern (22 bp):
CATCCATATCTTTCTATCCACT
Found at i:32008557 original size:3 final size:3
Alignment explanation
Indices: 32008549--32008595 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
32008539 AGTTCATGTG
32008549 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
32008596 GCAATGTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:32009141 original size:48 final size:48
Alignment explanation
Indices: 32009028--32009165 Score: 195
Period size: 48 Copynumber: 2.9 Consensus size: 48
32009018 AGATCCCGTC
* *
32009028 TAAGACCATGTATGAGACATGGCATCGGCATTCGAGATGAGAGCCAGTG
1 TAAGACCATGTATGGGACATGGCATCGGCATT-GATATGAGAGCCAGTG
* * *
32009077 TAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCCAGTG
1 TAAGACCATGTATGGGACATGGCATCGGCATTGATATGAGAGCCAGTG
* * *
32009125 TAAGACCATGTCTGGGACATGGCATCGGTACTGATATGAGA
1 TAAGACCATGTATGGGACATGGCATCGGCATTGATATGAGA
32009166 CTTCGTATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 49 0.62
49 30 0.38
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTATGGGACATGGCATCGGCATTGATATGAGAGCCAGTG
Found at i:32009177 original size:48 final size:48
Alignment explanation
Indices: 32009028--32009195 Score: 171
Period size: 48 Copynumber: 3.5 Consensus size: 48
32009018 AGATCCCGTC
* * *
32009028 TAAGACCATGTATGAGACATGGCATCGGCATTCGAGATGAGAGC-CAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATT-GATATGAGA-CTCAGTG
* *
32009077 TAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGC-CAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAG-ACTCAGTG
* * * *
32009125 TAAGACCATGTCTGGGACATGGCATCGGTACTGATATGAGACTTC-GTA
1 TAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAC-TCAGTG
* * *
32009173 TAAGATCATATTTGGGATATGGC
1 TAAGACCATGTTTGGGACATGGC
32009196 GTCGACATGT
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
47 1 0.01
48 69 0.68
49 31 0.31
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGACTCAGTG
Found at i:32014551 original size:235 final size:235
Alignment explanation
Indices: 32014028--32014718 Score: 1154
Period size: 235 Copynumber: 2.9 Consensus size: 235
32014018 AAATCATTTG
* *
32014028 ATAAAATGTTTCCAAGCTTTGCAAGAAATCCTAAGAATGTGAGGCTTGGGCTTGCATCTGATGGC
1 ATAAAA-GTTTCTAAGTTTTGCAAGAAATCCTAAGAATGTGAGGCTTGGGCTTGCATCTGATGGC
*
32014093 CTTAATCCTTTTAAAATCATAAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTTCCTTACAA
65 CTTAATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTTCCTTACAA
* *
32014158 TTTGCCTCCATGGATTT-CATGAAACAAAT-TTCTTTTATCTTATCTATGATAATCATTGGGGTG
130 TTTGCCTCCATGGATTTGCATGAAAC-AATCTTCTTTTATCTTATCTATGATAATCCTTGGGGAG
32014221 AAAGGTCTAAAGAACGATATTGGCATTTATATGCAGTCACTT
194 AAAGGTCTAAAGAACGATATTGGCATTTATATGCAGTCACTT
* *
32014263 ATAAAAGTTTCTAAGTTTTGCAAGAAATCCTAAGAATGTGAGGCTTAGGCTTGCATCTGATAGCC
1 ATAAAAGTTTCTAAGTTTTGCAAGAAATCCTAAGAATGTGAGGCTTGGGCTTGCATCTGATGGCC
32014328 TTAATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTTCCTTACAAT
66 TTAATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTTCCTTACAAT
* *
32014393 TTGCCTCTATGGATTTGCATGAAACAATCTTATTTTATCTTATCTATGATAATCCTTGGGGAGAA
131 TTGCCTCCATGGATTTGCATGAAACAATCTTCTTTTATCTTATCTATGATAATCCTTGGGGAGAA
* *
32014458 AGGTCTAAAGAATGATATTGGCATTTATATGCAGTCGCTT
196 AGGTCTAAAGAACGATATTGGCATTTATATGCAGTCACTT
* *
32014498 ATAAAAGTTTCTAAGTTTTGCAA-ACAATCTTAAGAATGTGAGACTTGGGCTTGCATCTGATGGC
1 ATAAAAGTTTCTAAGTTTTGCAAGA-AATCCTAAGAATGTGAGGCTTGGGCTTGCATCTGATGGC
* * * *
32014562 CTTAATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTCGCCTGTTATGCTTGATCCTTACAA
65 CTTAATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTTCCTTACAA
* * *
32014627 TATGCCTCCATAGATTTGCATGAAACAATCTTCTTTTATTTTATCTATGATAATCCTTGGGGAGA
130 TTTGCCTCCATGGATTTGCATGAAACAATCTTCTTTTATCTTATCTATGATAATCCTTGGGGAGA
32014692 AAGGTCTAAAGAACGATATTGGCATTT
195 AAGGTCTAAAGAACGATATTGGCATTT
32014719 CTATACATAT
Statistics
Matches: 428, Mismatches: 25, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
234 138 0.32
235 290 0.68
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (235 bp):
ATAAAAGTTTCTAAGTTTTGCAAGAAATCCTAAGAATGTGAGGCTTGGGCTTGCATCTGATGGCC
TTAATCCTTTTAAAATCATGAGTCCTTCATATAGTACTTGGCTTGTTGTGCTTGTTCCTTACAAT
TTGCCTCCATGGATTTGCATGAAACAATCTTCTTTTATCTTATCTATGATAATCCTTGGGGAGAA
AGGTCTAAAGAACGATATTGGCATTTATATGCAGTCACTT
Found at i:32015397 original size:201 final size:201
Alignment explanation
Indices: 32015005--32015403 Score: 640
Period size: 201 Copynumber: 2.0 Consensus size: 201
32014995 GAATGCGAGG
32015005 CTTGGGCGTGCATCTGATGGCCTTAATCCTTTTAAAATCACGAGTCCTTCATATAGTACTTGGCC
1 CTTGGGCGTGCATCTGATGGCCTTAATCCTTTTAAAATCACGAGTCCTTCATATAGTACTTGGCC
* * * *
32015070 TGTTGTGCTTGTTCTTTATAATTTTCCTCCATGGATTTGCATGAAACAATCTTTTTTTATCTTAT
66 TGTTGTGCTTGTTCCTTACAATTTGCCTCCATGGATTTGCATGAAACAATCTTCTTTTATCTTAT
*
32015135 CTATGATAATCCTTAGGGAGAAAGGTATAAAGAACGATATTGGTATTTTATGCAATCGCTTATAA
131 CTATGATAATCCTTAGGGAGAAAGGTATAAAGAACGATATTGGCATTTTATGCAATCGCTTATAA
32015200 AAGTTT
196 AAGTTT
* * *
32015206 CTTGGGCTTGCATCTGATGGCCTTAATCCTTTTAAAATCATGAGTCCTTCATATAGTGCTTGGCC
1 CTTGGGCGTGCATCTGATGGCCTTAATCCTTTTAAAATCACGAGTCCTTCATATAGTACTTGGCC
* *
32015271 TGTTGTGCTTTTTCCTTACAATTTGCCTCCATTGATTTGCATGAAACAAT-TTCTTTTATCTTAT
66 TGTTGTGCTTGTTCCTTACAATTTGCCTCCATGGATTTGCATGAAACAATCTTCTTTTATCTTAT
* * * *
32015335 CTATGATAATCCTT-GAGGAGAAAGGTCTACAGAATGATATTGGCATTTATATGCAGTCGCTTAT
131 CTATGATAATCCTTAG-GGAGAAAGGTATAAAGAACGATATTGGCATTT-TATGCAATCGCTTAT
32015399 AAAAG
194 AAAAG
32015404 AGTTGAAGCA
Statistics
Matches: 182, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
199 1 0.01
200 55 0.30
201 126 0.69
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (201 bp):
CTTGGGCGTGCATCTGATGGCCTTAATCCTTTTAAAATCACGAGTCCTTCATATAGTACTTGGCC
TGTTGTGCTTGTTCCTTACAATTTGCCTCCATGGATTTGCATGAAACAATCTTCTTTTATCTTAT
CTATGATAATCCTTAGGGAGAAAGGTATAAAGAACGATATTGGCATTTTATGCAATCGCTTATAA
AAGTTT
Found at i:32017498 original size:40 final size:40
Alignment explanation
Indices: 32017438--32017600 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
32017428 TGAATGATAC
* * * *
32017438 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
32017477 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
32017517 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
32017557 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
32017597 CCGG
1 CCGG
32017601 TTAAATCCCG
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 13 0.13
40 83 0.82
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:32025610 original size:40 final size:40
Alignment explanation
Indices: 32025550--32025712 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
32025540 TGAATGATAC
* * * *
32025550 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
32025589 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
32025629 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
32025669 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
32025709 CCGG
1 CCGG
32025713 TTAAATCCCG
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 13 0.13
40 83 0.82
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:32035963 original size:40 final size:40
Alignment explanation
Indices: 32035908--32036037 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
32035898 AACATTGGAA
32035908 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
32035948 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
32035987 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
32036028 CTATATCCGG
1 ATATATCCGG
32036038 TTAAATCCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:32044018 original size:40 final size:40
Alignment explanation
Indices: 32043963--32044172 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
32043953 AACATTGGAA
32043963 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
32044003 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
32044043 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
32044083 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
32044122 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
32044163 CTATATCCGG
1 ATATATCCGG
32044173 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:32046287 original size:31 final size:31
Alignment explanation
Indices: 32046252--32046311 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
32046242 ACAACACAGT
*
32046252 AACTTACATAAAAACTTTTCAATAATTCAGC
1 AACTTAAATAAAAACTTTTCAATAATTCAGC
* *
32046283 AACTTAAATAAAAATTTTTGAATAATTCA
1 AACTTAAATAAAAACTTTTCAATAATTCA
32046312 ACGACTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (31 bp):
AACTTAAATAAAAACTTTTCAATAATTCAGC
Found at i:32046398 original size:26 final size:26
Alignment explanation
Indices: 32046367--32046416 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
32046357 TTACTTATAA
32046367 TTTAATGACTAATGATATAGTTTATG
1 TTTAATGACTAATGATATAGTTTATG
32046393 TTTAATGACTAATGATATAGTTTA
1 TTTAATGACTAATGATATAGTTTA
32046417 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (26 bp):
TTTAATGACTAATGATATAGTTTATG
Found at i:32048473 original size:35 final size:35
Alignment explanation
Indices: 32048434--32048503 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
32048424 AATTTGACTA
32048434 GTTTTTGAGTAGAGAGAGCAAAATGCAATCTGAGT
1 GTTTTTGAGTAGAGAGAGCAAAATGCAATCTGAGT
*
32048469 GTTTTTGAGTAGAGTGAGCAAAATGCAATCTGAGT
1 GTTTTTGAGTAGAGAGAGCAAAATGCAATCTGAGT
32048504 CCTAGTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (35 bp):
GTTTTTGAGTAGAGAGAGCAAAATGCAATCTGAGT
Found at i:32051395 original size:3 final size:3
Alignment explanation
Indices: 32051387--32051415 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32051377 AAAAGTGGAT
32051387 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32051416 TGATTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32055012 original size:9 final size:9
Alignment explanation
Indices: 32054998--32055023 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
32054988 TTCATATCAC
32054998 TGTGAATTT
1 TGTGAATTT
32055007 TGTGAATTT
1 TGTGAATTT
32055016 TGTGAATT
1 TGTGAATT
32055024 AGCAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
TGTGAATTT
Found at i:32057850 original size:19 final size:19
Alignment explanation
Indices: 32057826--32057869 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
32057816 ATATTTTAAA
32057826 TTTATTTAGGTAGACAAAT
1 TTTATTTAGGTAGACAAAT
* *
32057845 TTTATTTAGGTAGATAAGT
1 TTTATTTAGGTAGACAAAT
32057864 TTTATT
1 TTTATT
32057870 CTTATTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (19 bp):
TTTATTTAGGTAGACAAAT
Found at i:32059285 original size:13 final size:13
Alignment explanation
Indices: 32059269--32059298 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32059259 AGACTGAAAA
*
32059269 GCAAAACTGCAAT
1 GCAAAACCGCAAT
32059282 GCAAAACCGCAAT
1 GCAAAACCGCAAT
32059295 GCAA
1 GCAA
32059299 TTTTCATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (13 bp):
GCAAAACCGCAAT
Found at i:32067624 original size:24 final size:24
Alignment explanation
Indices: 32067597--32067646 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
32067587 GTTATTGCAC
32067597 ATACATACTCATTAAATTGAACTA
1 ATACATACTCATTAAATTGAACTA
32067621 ATACATACTCATTAAATTGAACTA
1 ATACATACTCATTAAATTGAACTA
32067645 AT
1 AT
32067647 CTATTGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (24 bp):
ATACATACTCATTAAATTGAACTA
Found at i:32091230 original size:24 final size:24
Alignment explanation
Indices: 32091203--32091254 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
32091193 CTATCCGGAG
* *
32091203 CTTCCTGATATGGTTTTTTGTGAA
1 CTTCCTGATAAGGTTCTTTGTGAA
32091227 CTTCCTGATAAGGTTCTTTGTGAA
1 CTTCCTGATAAGGTTCTTTGTGAA
32091251 CTTC
1 CTTC
32091255 TCTATTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.46
Consensus pattern (24 bp):
CTTCCTGATAAGGTTCTTTGTGAA
Found at i:32097402 original size:22 final size:22
Alignment explanation
Indices: 32097374--32097440 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
32097364 ATTAGGAATT
32097374 GGTTTTGGAATCATTTCTACAA
1 GGTTTTGGAATCATTTCTACAA
*
32097396 GGTTTT-GTAT-ATTGT-T----
1 GGTTTTGGAATCATT-TCTACAA
*
32097412 GGTTTTGGAACCATTTCTACAA
1 GGTTTTGGAATCATTTCTACAA
32097434 GGTTTTG
1 GGTTTTG
32097441 TATATTCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 16
0.64 0.06 0.30
Matches are distributed among these distances:
16 6 0.18
17 3 0.09
18 4 0.12
20 4 0.12
21 4 0.12
22 13 0.38
ACGTcount: A:0.21, C:0.10, G:0.22, T:0.46
Consensus pattern (22 bp):
GGTTTTGGAATCATTTCTACAA
Found at i:32097427 original size:38 final size:38
Alignment explanation
Indices: 32097372--32097446 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
32097362 CTATTAGGAA
*
32097372 TTGGTTTTGGAATCATTTCTACAAGGTTTTGTATATTG
1 TTGGTTTTGGAACCATTTCTACAAGGTTTTGTATATTG
32097410 TTGGTTTTGGAACCATTTCTACAAGGTTTTGTATATT
1 TTGGTTTTGGAACCATTTCTACAAGGTTTTGTATATT
32097447 CTCAAAAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.09, G:0.20, T:0.49
Consensus pattern (38 bp):
TTGGTTTTGGAACCATTTCTACAAGGTTTTGTATATTG
Found at i:32104652 original size:40 final size:40
Alignment explanation
Indices: 32104411--32104645 Score: 373
Period size: 40 Copynumber: 5.9 Consensus size: 40
32104401 ATTCGGATTG
32104411 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
32104450 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
32104490 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
32104530 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
32104570 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
32104610 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
32104646 AGCTATATCC
Statistics
Matches: 180, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.07
40 167 0.93
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:32107418 original size:27 final size:28
Alignment explanation
Indices: 32107388--32107457 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
32107378 ATAGTGAATC
*
32107388 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
32107415 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
32107443 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32107458 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:32107529 original size:42 final size:42
Alignment explanation
Indices: 32107465--32107571 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
32107455 GCTGTACAAT
* *
32107465 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
32107507 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
32107549 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
32107572 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:32115547 original size:40 final size:40
Alignment explanation
Indices: 32115480--32115589 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
32115470 ATTCGGATTG
*
32115480 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
32115519 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
32115559 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG
32115590 TGACAGCCCA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.20
40 52 0.80
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:32117389 original size:40 final size:40
Alignment explanation
Indices: 32117333--32117579 Score: 313
Period size: 40 Copynumber: 6.2 Consensus size: 40
32117323 GAATGATACA
** *
32117333 CGGGCTAAG-CCTCGAAGGCATTTATGCTAG-TGATTATATC
1 CGGGCTAAGACC-CGAAGGCATTCGTGCGAGTTG-TTATATC
*
32117373 TGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
32117413 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
32117453 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* * *** *
32117493 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
* ** *
32117533 CGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATC
32117573 C-GGCTAA
1 CGGGCTAA
32117580 ATTCCGAAGA
Statistics
Matches: 184, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
39 5 0.03
40 172 0.93
41 7 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATC
Found at i:32118094 original size:15 final size:16
Alignment explanation
Indices: 32118074--32118106 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32118064 ATATATTTTT
32118074 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
32118089 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
32118106 T
1 T
32118107 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:32118179 original size:21 final size:22
Alignment explanation
Indices: 32118153--32118203 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
32118143 GTTTTAAGAA
*
32118153 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
32118174 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
32118196 GT-TTTTAA
1 TTGTTTTAA
32118204 ATATATGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:32118206 original size:22 final size:21
Alignment explanation
Indices: 32118164--32118242 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
32118154 TGTTTTAGTA
*
32118164 TTATTTTTATTTGTTTTAATAT
1 TTATTTTTATTT-TTTAAATAT
32118186 TTATTTTTATGTTTTTAAATAT
1 TTATTTTTAT-TTTTTAAATAT
32118208 ATGTGATTTATTATATTTTTAAA-A-
1 -T-T-ATTT-TTAT-TTTTTAAATAT
32118232 TT-TTTTTATTT
1 TTATTTTTATTT
32118243 AATGAAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 2 0.04
19 4 0.08
20 3 0.06
22 19 0.38
23 4 0.08
24 1 0.02
25 5 0.10
26 12 0.24
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTTTTATTTTTTAAATAT
Found at i:32125458 original size:40 final size:40
Alignment explanation
Indices: 32125300--32125483 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 40
32125290 TGATACACGG
* * * *
32125300 GCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGA
1 GCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGA
* * * *
32125340 GCTAAGACCCGAAGGCATTCGTACGAGTTGTTATATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGA
* ** * *
32125380 GCTAAGACTCGAAGGCATTCATACGAGTTGTTATATCCGA
1 GCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGA
* ** * *
32125420 GCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGA
* * *
32125460 GTTAAGACTCGAAGGCAATTGTGC
1 GCTAAGACCCGAAGGCATTTGTGC
32125484 TTGTGGTTAT
Statistics
Matches: 120, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
GCTAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCGA
Found at i:32125493 original size:80 final size:80
Alignment explanation
Indices: 32125297--32125503 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
32125287 GAATGATACA
* * * *
32125297 CGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGAGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACTCGAAGGCAATTATGCTAGTGGTTATATCCGAGCTAAGACCCGAAGGCATTCGT
* *** *
32125362 ACGAGTTGTTATATC
66 ACAAGTTACCAAATC
* * * *
32125377 CGGGCTAAGACTCGAAGGC-ATTCATACGAGTTGTTATATCCGAGCTAAGACCCGAAGGCATTTG
1 CGGGCTAAGACTCGAAGGCAATT-ATGCTAGTGGTTATATCCGAGCTAAGACCCGAAGGCATTCG
*
32125441 TGCAAGTTACCAAATC
65 TACAAGTTACCAAATC
* * *
32125457 CGGGTTAAGACTCGAAGGCAATTGTGCTTGTGGTTATATCCG-GCTAA
1 CGGGCTAAGACTCGAAGGCAATTATGCTAGTGGTTATATCCGAGCTAA
32125504 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 7 0.07
80 95 0.90
81 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGACTCGAAGGCAATTATGCTAGTGGTTATATCCGAGCTAAGACCCGAAGGCATTCGT
ACAAGTTACCAAATC
Found at i:32125498 original size:40 final size:40
Alignment explanation
Indices: 32125297--32125503 Score: 170
Period size: 40 Copynumber: 5.2 Consensus size: 40
32125287 GAATGATACA
* * * *
32125297 CGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG-TTATATC
* *
32125337 CGAGCTAAGACCCGAAGGC-ATTCGTACGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATATC
* * *
32125377 CGGGCTAAGACTCGAAGGC-ATTCATACGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATATC
* * * *** *
32125417 CGAGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATATC
* * ** *
32125457 CGGGTTAAGACTCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATATC
32125497 C-GGCTAA
1 CGGGCTAA
32125504 ATTCCGAAGA
Statistics
Matches: 133, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
39 7 0.05
40 122 0.92
41 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATATC
Found at i:32126179 original size:40 final size:40
Alignment explanation
Indices: 32126124--32126242 Score: 211
Period size: 40 Copynumber: 3.0 Consensus size: 40
32126114 GGTGTTACAT
*
32126124 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
1 TTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
32126164 TTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
1 TTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
* *
32126204 TTATGTGAGTTACTATAACCGGGATAAGTCCCGAAGGCA
1 TTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
32126243 TTTGAGCGAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
TTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
Found at i:32126260 original size:40 final size:40
Alignment explanation
Indices: 32126128--32126278 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 40
32126118 TTACATTTGT
*
32126128 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGT
1 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGA
*
32126168 GTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATT-A
1 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGA
* * *
32126207 TGTGAGTTACTATAACCGGGATAAGTCCCGAAGGCATTTGA
1 -GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGA
* *
32126248 GCGAG-TAGCTATATCC-GGCTAA-ACCCGAAGG
1 GCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGG
32126279 TACTTGGTTT
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
38 8 0.08
39 7 0.07
40 84 0.84
41 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (40 bp):
GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGA
Found at i:32134234 original size:6 final size:6
Alignment explanation
Indices: 32134204--32134352 Score: 144
Period size: 6 Copynumber: 24.3 Consensus size: 6
32134194 AAGAAACATT
* * *
32134204 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
32134253 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
32134300 GTGACAGA ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
32134351 AT
1 AT
32134353 GTGAATGCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
5 6 0.05
6 99 0.84
7 9 0.08
8 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:32134262 original size:31 final size:31
Alignment explanation
Indices: 32134225--32134352 Score: 153
Period size: 31 Copynumber: 4.4 Consensus size: 31
32134215 AATCAAAATG
32134225 AGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
32134256 AGAATCAGAATCAG----AA-T--CAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
* *
32134280 AGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
* * *
32134311 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
*
32134342 AAAATCAGAAT
1 AGAATCAGAAT
32134353 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
24 21 0.25
26 1 0.01
27 2 0.02
28 1 0.01
29 1 0.01
31 58 0.69
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:32134288 original size:55 final size:55
Alignment explanation
Indices: 32134204--32134352 Score: 203
Period size: 55 Copynumber: 2.7 Consensus size: 55
32134194 AAGAAACATT
* *
32134204 ATCAGAA-CTAGAATCAAAATGAGAATCAGAATCAGAATCAAGTGACAGAATCAGA
1 ATCAGAATC-AGAATCAGAATCAGAATCAGAATCAGAATCAAGTGACAGAATCAGA
* *
32134259 ATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATTAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTGACAGAATCAGA
* *
32134314 ATCAGAATCAGTATCAGGTAA-CAGAATCAAAATCAGAAT
1 ATCAGAATCAGAATCA-G-AATCAGAATCAGAATCAGAAT
32134353 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
55 64 0.75
56 19 0.22
57 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (55 bp):
ATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTGACAGAATCAGA
Done.