Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 146 of 290
Found at i:49641144 original size:17 final size:16
Alignment explanation
Indices: 49641122--49641171 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 16
49641112 TCTCAGATTT
49641122 TGATACTCATATCTTTC
1 TGATAC-CATATCTTTC
49641139 TGATACCTATATCTTTC
1 TGATACC-ATATCTTTC
49641156 TGATACCCATATCTTT
1 TGATA-CCATATCTTT
49641172 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.03
17 28 0.90
18 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.46
Consensus pattern (16 bp):
TGATACCATATCTTTC
Found at i:49645774 original size:17 final size:17
Alignment explanation
Indices: 49645752--49645798 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
49645742 TCTCATATTT
49645752 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
49645769 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
*
49645786 TGATACTCATATC
1 TGATACCCATATC
49645799 ATTGACTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:49650882 original size:12 final size:12
Alignment explanation
Indices: 49650865--49650889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49650855 GAAAATTAAA
49650865 AGATATGTATAT
1 AGATATGTATAT
49650877 AGATATGTATAT
1 AGATATGTATAT
49650889 A
1 A
49650890 AATTACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AGATATGTATAT
Found at i:49650889 original size:86 final size:85
Alignment explanation
Indices: 49650793--49650976 Score: 212
Period size: 86 Copynumber: 2.1 Consensus size: 85
49650783 ATGTACACAT
* *
49650793 ATATATATATAAATTATAAGACATAATAAGAAATAT-TA-ATAAGCATGTATATATATATTTATG
1 ATATATATATAAATTA-AAGA-AT-ATAA-AAATATATATATAAACATGTATATACATATTTATG
*
49650856 AAAATT-AAAAGATATGTATATAG
62 AAAATTAAAAAAATATGTATATAG
* * * * *
49650879 ATATGTATATAAATTACATAATATAAAAATATAAGTATATAAATATGTATATACGTATTTATGAA
1 ATATATATATAAATTAAAGAATATAAAAATAT-A-TATATAAACATGTATATACATATTTATGAA
*
49650944 AATTAAAAAAATGTGTATATAG
64 AATTAAAAAAATATGTATATAG
49650966 ATATATATATA
1 ATATATATATA
49650977 TAACTACTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
82 6 0.07
83 4 0.05
84 2 0.02
85 4 0.05
86 42 0.51
87 25 0.30
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (85 bp):
ATATATATATAAATTAAAGAATATAAAAATATATATATAAACATGTATATACATATTTATGAAAA
TTAAAAAAATATGTATATAG
Found at i:49658692 original size:20 final size:20
Alignment explanation
Indices: 49658658--49658699 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49658648 AACTATTTAA
** *
49658658 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
49658678 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
49658698 AT
1 AT
49658700 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:49664257 original size:12 final size:12
Alignment explanation
Indices: 49664219--49664257 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
49664209 GGGGAAACGG
49664219 TCTCTCTTCTCC
1 TCTCTCTTCTCC
49664231 TC-CTCTTTCTCC
1 TCTCTC-TTCTCC
*
49664243 TCTCTCCTCTCC
1 TCTCTCTTCTCC
49664255 TCT
1 TCT
49664258 TGATGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (12 bp):
TCTCTCTTCTCC
Found at i:49665144 original size:15 final size:16
Alignment explanation
Indices: 49665124--49665157 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
49665114 ATTATATATA
49665124 TATTTTTTG-AATTTT
1 TATTTTTTGAAATTTT
49665139 TATTTTTTGAAATTTT
1 TATTTTTTGAAATTTT
49665155 TAT
1 TAT
49665158 AGTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TATTTTTTGAAATTTT
Found at i:49665220 original size:19 final size:19
Alignment explanation
Indices: 49665178--49665232 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
49665168 AAAATTTGAA
*
49665178 ATTTTTATAAATATTTTAG
1 ATTTTTAAAAATATTTTAG
49665197 A-TTTTAAAAATTATTTT-G
1 ATTTTTAAAAA-TATTTTAG
49665215 ATTTTTTAAAAA-ATTTTA
1 A-TTTTTAAAAATATTTTA
49665233 TTGAGAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 15 0.48
19 7 0.23
20 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTTTAAAAATATTTTAG
Found at i:49669554 original size:2 final size:2
Alignment explanation
Indices: 49669549--49669573 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49669539 AAAAAAAAAA
49669549 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
49669574 ATAAGCTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49670373 original size:22 final size:22
Alignment explanation
Indices: 49670332--49670380 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49670322 AGTTATCAAT
** *
49670332 ATTTATATTTTTTATTAATTTA
1 ATTTATATTTTTTAAAAATTAA
*
49670354 ATTTTTATTTTTTAAAAATTAA
1 ATTTATATTTTTTAAAAATTAA
49670376 ATTTA
1 ATTTA
49670381 ACTTTCATCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTATATTTTTTAAAAATTAA
Found at i:49670720 original size:11 final size:11
Alignment explanation
Indices: 49670704--49670737 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
49670694 AATATTAAAC
49670704 GTAAAATTATT
1 GTAAAATTATT
49670715 GTAAAATTATT
1 GTAAAATTATT
**
49670726 ACAAAATTATT
1 GTAAAATTATT
49670737 G
1 G
49670738 AAACAATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (11 bp):
GTAAAATTATT
Found at i:49672857 original size:20 final size:21
Alignment explanation
Indices: 49672819--49672857 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49672809 AAAACAGGTT
*
49672819 TTTAGCGGCGCTTTTTTAGGC
1 TTTAGCGGCGCTCTTTTAGGC
49672840 TTTAGCGGCGC-CTTTTAG
1 TTTAGCGGCGCTCTTTTAG
49672858 CGCCGCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.21, G:0.28, T:0.41
Consensus pattern (21 bp):
TTTAGCGGCGCTCTTTTAGGC
Found at i:49673054 original size:43 final size:43
Alignment explanation
Indices: 49672949--49673082 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 43
49672939 TTTCAAAAAT
* * * *
49672949 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGC-ATTCCTAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
49672991 AAACGCCACTAAAGATCATGACCTTTGGCGGCACTTTTCCCAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
49673034 AAACGCCTCTAAATACCATGACCTTTAGCGACGCTTCTACCAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
49673077 AAACGC
1 AAACGC
49673083 TATTATAGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 29 0.38
43 47 0.62
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:49677336 original size:107 final size:108
Alignment explanation
Indices: 49677219--49677435 Score: 330
Period size: 107 Copynumber: 2.0 Consensus size: 108
49677209 GTAAAAAATT
* *
49677219 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATTATAAAAA-TTATTTATTTT-GTTTTTTATA
1 TTTCATTTTGAACAAAATAACGCCGTTTTGCTATGATAAAAATTTATTTATTTTAGTTTTTTATA
*
49677282 AATTGATTTAAATTTTGCGGCGTTTTTATAAAAAAACGCCGCTA
66 AATTGATTTAAATTTTGCGGCATTTTTA-AAAAAAACGCCGCTA
* * * *
49677326 TTTCATTTTGAACAAAATAACGTCGTTTTGCTATGCTAAAAATTTTTTTATTTTATTTTTTTATA
1 TTTCATTTTGAACAAAATAACGCCGTTTTGCTATGATAAAAATTTATTTATTTTAGTTTTTTATA
**
49677391 AATTGATTTATTTTTTGCGGCATTTTTAAAAAAAACGCCGCTA
66 AATTGATTTAAATTTTGCGGCATTTTTAAAAAAAACGCCGCTA
49677434 TT
1 TT
49677436 GCTTACCTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 38 0.38
108 27 0.27
109 34 0.34
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (108 bp):
TTTCATTTTGAACAAAATAACGCCGTTTTGCTATGATAAAAATTTATTTATTTTAGTTTTTTATA
AATTGATTTAAATTTTGCGGCATTTTTAAAAAAAACGCCGCTA
Found at i:49677829 original size:105 final size:105
Alignment explanation
Indices: 49677718--49677915 Score: 324
Period size: 105 Copynumber: 1.9 Consensus size: 105
49677708 CCGCAAAAAA
* * *
49677718 ATTTCATTTTGAACAAAATAACGCTGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTATATA
1 ATTTCATTTTCAACAAAATAACGCCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTATATA
* *
49677783 TATTGATTTGTTTTTTGCGGCGTTTTTAAAAAACGTCACT
66 AATTGATTTATTTTTTGCGGCGTTTTTAAAAAACGTCACT
* * *
49677823 ATTTCATTTTCAGCAAAATGACGCCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTTTATA
1 ATTTCATTTTCAACAAAATAACGCCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTATATA
49677888 AATTGATTTATTTTTTGCGGCGTTTTTA
66 AATTGATTTATTTTTTGCGGCGTTTTTA
49677916 TGAGAAACGC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 85 1.00
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.51
Consensus pattern (105 bp):
ATTTCATTTTCAACAAAATAACGCCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTATATA
AATTGATTTATTTTTTGCGGCGTTTTTAAAAAACGTCACT
Found at i:49678582 original size:7 final size:7
Alignment explanation
Indices: 49678571--49678611 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
49678561 AACCTTAAAT
49678571 CCCTAAC
1 CCCTAAC
*
49678578 TCCTAAC
1 CCCTAAC
49678585 CCCTAAC
1 CCCTAAC
**
49678592 ATCTAAC
1 CCCTAAC
49678599 CCCTAAC
1 CCCTAAC
49678606 CCCTAA
1 CCCTAA
49678612 ACCTTAAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:49678652 original size:14 final size:14
Alignment explanation
Indices: 49678634--49678675 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
49678624 AACCCTTAAA
49678634 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
49678648 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
49678663 CCATACTCCCTAA
1 CCATAATCCCTAA
49678676 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:49678672 original size:15 final size:15
Alignment explanation
Indices: 49678630--49678676 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
49678620 TCTCAACCCT
49678630 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
49678644 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
49678658 TAAATCCATACTCCC
1 TAAATCCATAATCCC
49678673 TAAA
1 TAAA
49678677 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:49678880 original size:15 final size:15
Alignment explanation
Indices: 49678862--49678912 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
49678852 CCTAGCATGT
49678862 CTAACCCTTAAATCC
1 CTAACCCTTAAATCC
* *
49678877 CTAACCCTTTAACCC
1 CTAACCCTTAAATCC
*
49678892 CTAAACCTTAAATCC
1 CTAACCCTTAAATCC
49678907 C-AACCC
1 CTAACCC
49678913 CTAATCCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (15 bp):
CTAACCCTTAAATCC
Found at i:49679468 original size:114 final size:113
Alignment explanation
Indices: 49679242--49679777 Score: 752
Period size: 114 Copynumber: 4.7 Consensus size: 113
49679232 AGCATTTTTG
** * *
49679242 GCCGCTAAATCCCTAAAAGCTTAGAAAACGGCGTCGTTGGGCTTAGAATTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG-GTTTTTTGCGGCGCTTTC
* *
49679307 TCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCTCTTTCTTAAAAAC
65 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* *
49679356 GCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTCAGGTTTTTTGCGGCGCTTTCT
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
49679421 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAAC
66 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT-AAAAAC
* * * * *
49679470 GCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGTTTAGGATTTATTGCGGCG-TTTT
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTC
* * * *
49679534 TGAGGAAGCGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTAC-TAAAAAC
65 TCA-AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT-CTTAAAAAC
* * * * *
49679584 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAAGTTTTTCTGGGGCGCTTTA
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT-TGCGGCGCTTTC
*
49679649 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTTCTTAAAAAC
65 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* ** * *
49679698 GCCGCTAAACCCCCGAAAGCTTGGGAAACGGTGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
49679763 CAAAAACGCCGCTAA
66 CAAAAACGCCGCTAA
49679778 TGCTTATTTT
Statistics
Matches: 376, Mismatches: 39, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
113 89 0.24
114 235 0.62
115 51 0.14
116 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (113 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
Found at i:49682095 original size:21 final size:21
Alignment explanation
Indices: 49682071--49682159 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
49682061 TGTTAACTTA
** *
49682071 TATGAGTTTCTGTTTAACCCT
1 TATGAGTTTCCATTCAACCCT
* *
49682092 TATGGGTTTCCATTCAGCTCC-
1 TATGAGTTTCCATTCAAC-CCT
* *
49682113 TATGAGCTTCCGTTCAACCCTT
1 TATGAGTTTCCATTCAACCC-T
* * * *
49682135 TATGAATTTCTATTTAACACT
1 TATGAGTTTCCATTCAACCCT
49682156 TATG
1 TATG
49682160 TGACTCTGTG
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
20 2 0.04
21 32 0.64
22 16 0.32
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCCATTCAACCCT
Found at i:49683955 original size:16 final size:16
Alignment explanation
Indices: 49683934--49683972 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
49683924 GCTACGAAAA
49683934 TAATAATAATTTACAC
1 TAATAATAATTTACAC
49683950 TAATAATAATTTACAC
1 TAATAATAATTTACAC
*
49683966 TATTAAT
1 TAATAAT
49683973 TACAACATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTACAC
Found at i:49685646 original size:22 final size:21
Alignment explanation
Indices: 49685615--49685664 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
49685605 TATGTCGTGA
*
49685615 AATATCTATTATCTGTTCTGT
1 AATATCTATTATCTATTCTGT
*
49685636 AATCATCTATTATCTATTTTGT
1 AAT-ATCTATTATCTATTCTGT
49685658 AATATCT
1 AATATCT
49685665 TGTAATGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.52
Consensus pattern (21 bp):
AATATCTATTATCTATTCTGT
Found at i:49687316 original size:72 final size:73
Alignment explanation
Indices: 49687187--49687375 Score: 222
Period size: 72 Copynumber: 2.6 Consensus size: 73
49687177 AATATGAGAA
* * * * * *
49687187 ATTCCCTGCAGAGCAAAGACAGAAATGAACAAG-AGTGATTCCCTGCCTAAAGCAACCAAGAGTG
1 ATTCCCTACAAAGCAAAGACAGAAATGAA-AAGTAATGATTCCCTACCAAAAGAAACCAAGAGTG
*
49687251 AACAGTGAG
65 AACAATGAG
*
49687260 ATT-CCTACAAAGCAAAGACAGAAATGAATAGTAATGATTCCCTACCAAAAGAAACCAAGAGTGA
1 ATTCCCTACAAAGCAAAGACAGAAATGAAAAGTAATGATTCCCTACCAAAAGAAACCAAGAGTGA
49687324 ACAATGAG
66 ACAATGAG
* * * * * *
49687332 ATTCCCTGCAGAGCACAGACAAAAATGAACAGTGA-GATTCCCTA
1 ATTCCCTACAAAGCAAAGACAGAAATGAAAAGTAATGATTCCCTA
49687376 TAAAAATGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 2 0.02
72 70 0.70
73 28 0.28
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (73 bp):
ATTCCCTACAAAGCAAAGACAGAAATGAAAAGTAATGATTCCCTACCAAAAGAAACCAAGAGTGA
ACAATGAG
Found at i:49704999 original size:26 final size:27
Alignment explanation
Indices: 49704970--49705024 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
49704960 CTTTAACATG
*
49704970 ATTTTTGGT-TGTTTA-ATTAAAGGTTA
1 ATTTTTGGTAT-TTTATAATAAAGGTTA
49704996 A-TTTTGGTATTTTATAATAAAGGTTA
1 ATTTTTGGTATTTTATAATAAAGGTTA
49705022 ATT
1 ATT
49705025 AATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 11 0.44
26 13 0.52
27 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTTTTGGTATTTTATAATAAAGGTTA
Found at i:49705872 original size:1 final size:1
Alignment explanation
Indices: 49705862--49705999 Score: 78
Period size: 1 Copynumber: 138.0 Consensus size: 1
49705852 TAAATATATA
* * * * * * * * * *
49705862 TTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * *
49705927 ATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
49705992 TATTTTTT
1 TTTTTTTT
49706000 AATTTTAAAA
Statistics
Matches: 93, Mismatches: 44, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 93 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:49706007 original size:6 final size:6
Alignment explanation
Indices: 49705860--49705998 Score: 278
Period size: 6 Copynumber: 23.2 Consensus size: 6
49705850 AATAAATATA
49705860 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
49705908 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
49705956 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
49705999 TAATTTTAAA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 133 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:49706066 original size:26 final size:29
Alignment explanation
Indices: 49706013--49706076 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
49706003 TTTAAAATAC
* *
49706013 TTTTAAAATAATTTTTTTTATTTTTTTAT
1 TTTTAAAATAATTTTTTTTATATGTTTAT
49706042 TTTTAAAAT-A-TTTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTTTATATGTTTAT
*
49706068 TTTAAAAAT
1 TTTTAAAAT
49706077 GGGTCGGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.44
27 8 0.25
28 1 0.03
29 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (29 bp):
TTTTAAAATAATTTTTTTTATATGTTTAT
Found at i:49706548 original size:23 final size:24
Alignment explanation
Indices: 49706486--49706578 Score: 109
Period size: 26 Copynumber: 3.8 Consensus size: 24
49706476 GAACTCGCCA
49706486 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-TAT
*
49706512 CAGCTCTTATGAGCTTACCGTT-T
1 CAGCTCGTATGAGCTTACCGTTAT
49706535 CAGCTCG-ATAGAGCTTACCGTTCAT
1 CAGCTCGTAT-GAGCTTACCGTT-AT
*
49706560 CAGCTCGGAATGAGCTTAC
1 CAGCTC-GTATGAGCTTAC
49706579 TGATCATGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 2 0.03
23 19 0.32
24 1 0.02
25 8 0.13
26 28 0.47
27 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGTTAT
Found at i:49709316 original size:32 final size:32
Alignment explanation
Indices: 49709279--49709355 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
49709269 ATGCATGTGT
* * **
49709279 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
49709311 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
49709343 GTAACTTTTCATA
1 GTAACTTTTCATA
49709356 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:49711133 original size:3 final size:3
Alignment explanation
Indices: 49711125--49711150 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49711115 AATTACTGCC
49711125 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
49711151 AAGTTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:49713838 original size:32 final size:32
Alignment explanation
Indices: 49713801--49713877 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
49713791 ATGCATGTGT
* * **
49713801 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
49713833 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
49713865 GTAACTTTTCATA
1 GTAACTTTTCATA
49713878 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:49714352 original size:34 final size:34
Alignment explanation
Indices: 49714314--49714462 Score: 280
Period size: 34 Copynumber: 4.4 Consensus size: 34
49714304 CAATGACAAT
* *
49714314 ACCACGTGCATCAGTCTCCACACAGAATGAATTA
1 ACCACATGCACCAGTCTCCACACAGAATGAATTA
49714348 ACCACATGCACCAGTCTCCACACAGAATGAATTA
1 ACCACATGCACCAGTCTCCACACAGAATGAATTA
49714382 ACCACATGCACCAGTCTCCACACAGAATGAATTA
1 ACCACATGCACCAGTCTCCACACAGAATGAATTA
49714416 ACCACATGCACCAGTCTCCACACAGAATGAATTA
1 ACCACATGCACCAGTCTCCACACAGAATGAATTA
49714450 ACCACATGCACCA
1 ACCACATGCACCA
49714463 ACCAACATTT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 113 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (34 bp):
ACCACATGCACCAGTCTCCACACAGAATGAATTA
Found at i:49715965 original size:25 final size:25
Alignment explanation
Indices: 49715936--49715983 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49715926 AAAAAATTAA
* *
49715936 ATTAAATTTTTATT-ATCTTAAAAAG
1 ATTAAACTGTTATTAAT-TTAAAAAG
49715961 ATTAAACTGTTATTAATTTAAAA
1 ATTAAACTGTTATTAATTTAAAA
49715984 TCTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTAAACTGTTATTAATTTAAAAAG
Found at i:49718346 original size:2 final size:2
Alignment explanation
Indices: 49718339--49718364 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49718329 GGCTAGCCAC
49718339 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
49718365 ACTAGTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:49725108 original size:91 final size:90
Alignment explanation
Indices: 49724985--49725225 Score: 236
Period size: 91 Copynumber: 2.7 Consensus size: 90
49724975 AGTACGCTGT
* * * *
49724985 CAATAGTTGTGAATACAAC-AC-AGGTTTGTAGATAAAAGGTGCTAGTAGATTTATGGG-TAAAT
1 CAATAGTTGTGAATAC-ACGACGAGG-TTATAGATAAAAGCTGCTAGTAGATTT-GGGGATAAAC
49725047 CACCAGTGTTTGCAGGTTAATATGATAC
63 CACCAGTGTTTGCAGGTTAATATGATAC
* * * ** *
49725075 CAGTAAGTTGTGAATACACGACGTGGTTATAGATAAAAGTTGGAAGTATATTTGGGGATAAACCA
1 CAAT-AGTTGTGAATACACGACGAGGTTATAGATAAAAGCTGCTAGTAGATTTGGGGATAAACCA
* * * **
49725140 CTAGTGTTTGGAGGTTAATATGCTGT
65 CCAGTGTTTGCAGGTTAATATGATAC
* * * * * *
49725166 CAATAGTTGTGAATACACGACGAGTTTGTAGGTAAAAGCTGCTAGCATATTTGTGGATAA
1 CAATAGTTGTGAATACACGACGAGGTTATAGATAAAAGCTGCTAGTAGATTTGGGGATAA
49725226 GCCATTAATG
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
90 55 0.45
91 66 0.54
92 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (90 bp):
CAATAGTTGTGAATACACGACGAGGTTATAGATAAAAGCTGCTAGTAGATTTGGGGATAAACCAC
CAGTGTTTGCAGGTTAATATGATAC
Found at i:49725216 original size:90 final size:90
Alignment explanation
Indices: 49724980--49725242 Score: 271
Period size: 90 Copynumber: 2.9 Consensus size: 90
49724970 AAGTTAGTAC
* * *
49724980 GCTGTCAATAGTTGTGAATACAAC-AC-AGGTTTGTAGATAAAAGGTGCTAGTAGATTTATGGG-
1 GCTGTCAATAGTTGTGAATAC-ACGACGA-GTTTGTAGATAAAAGCTGCTAGTATATTT-GGGGA
* *
49725042 TAAATCACCAGTGTTTGCAGGTTAATAT
63 TAAACCACTAGTGTTTGCAGGTTAATAT
* ** * * * * * **
49725070 GATACCAGTAAGTTGTGAATACACGACGTGGTTATAGATAAAAGTTGGAAGTATATTTGGGGATA
1 GCTGTCAAT-AGTTGTGAATACACGACGAGTTTGTAGATAAAAGCTGCTAGTATATTTGGGGATA
*
49725135 AACCACTAGTGTTTGGAGGTTAATAT
65 AACCACTAGTGTTTGCAGGTTAATAT
* * *
49725161 GCTGTCAATAGTTGTGAATACACGACGAGTTTGTAGGTAAAAGCTGCTAGCATATTTGTGGATAA
1 GCTGTCAATAGTTGTGAATACACGACGAGTTTGTAGATAAAAGCTGCTAGTATATTTGGGGATAA
* * *
49725226 GCCATTAATGTTTGCAG
66 ACCACTAGTGTTTGCAG
49725243 ATAAATTTTT
Statistics
Matches: 137, Mismatches: 32, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
90 70 0.51
91 67 0.49
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (90 bp):
GCTGTCAATAGTTGTGAATACACGACGAGTTTGTAGATAAAAGCTGCTAGTATATTTGGGGATAA
ACCACTAGTGTTTGCAGGTTAATAT
Found at i:49725336 original size:73 final size:73
Alignment explanation
Indices: 49725217--49725363 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
49725207 CTAGCATATT
49725217 TGTGGATAAGCCATTAATGTTTGCAGATAAATTTTTGGTACTTCCTCATTTCAAAGCGTCCCATC
1 TGTGGATAAGCCATTAATGTTTGCAGATAAATTTTTGGTACTTCCTCATTTCAAAGCGTCCCATC
49725282 TCATGCAA
66 TCATGCAA
* *
49725290 TGTGGATAAGCCATTAATGTTTGCAGATAAATTTTTGGTACTTCCTCATTTCCAAGCTTCCCATC
1 TGTGGATAAGCCATTAATGTTTGCAGATAAATTTTTGGTACTTCCTCATTTCAAAGCGTCCCATC
49725355 TCATGCAA
66 TCATGCAA
49725363 T
1 T
49725364 ACAATATGGC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (73 bp):
TGTGGATAAGCCATTAATGTTTGCAGATAAATTTTTGGTACTTCCTCATTTCAAAGCGTCCCATC
TCATGCAA
Found at i:49730535 original size:13 final size:13
Alignment explanation
Indices: 49730517--49730541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49730507 CTAAATCATA
49730517 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
49730530 ATTTTAGTAAAA
1 ATTTTAGTAAAA
49730542 CCTTTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:49735097 original size:22 final size:22
Alignment explanation
Indices: 49735072--49735141 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
49735062 TAAGCTCCTC
49735072 CTAAGCTGATGAATAGTAAGCT
1 CTAAGCTGATGAATAGTAAGCT
49735094 CTAATAAGCTGA--AATAGTAAGCT
1 C---TAAGCTGATGAATAGTAAGCT
*
49735117 CT-ATC-GAGCTGAATAGTAAGCT
1 CTAAGCTGA--TGAATAGTAAGCT
49735139 CTA
1 CTA
49735142 TTGAGTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 1 0.03
22 14 0.36
23 12 0.31
25 8 0.21
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (22 bp):
CTAAGCTGATGAATAGTAAGCT
Found at i:49735113 original size:23 final size:23
Alignment explanation
Indices: 49735073--49735141 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
49735063 AAGCTCCTCC
49735073 TAAGCTGATGAATAGTAAGCTCTAA
1 TAAGCTGA--AATAGTAAGCTCTAA
49735098 TAAGCTGAAATAGTAAGCTCT-A
1 TAAGCTGAAATAGTAAGCTCTAA
*
49735120 TCGAGCTG-AATAGTAAGCTCTA
1 T-AAGCTGAAATAGTAAGCTCTA
49735142 TTGAGTTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
22 15 0.37
23 18 0.44
25 8 0.20
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (23 bp):
TAAGCTGAAATAGTAAGCTCTAA
Found at i:49735142 original size:22 final size:21
Alignment explanation
Indices: 49735081--49735151 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
49735071 CCTAAGCTGA
*
49735081 TGAATAGTAAGCTCTAATAAGC
1 TGAATAGTAAGCTCT-ATGAGC
49735103 TGAAATAGTAAGCTCTATCGAGC
1 TG-AATAGTAAGCTCTAT-GAGC
*
49735126 TGAATAGTAAGCTCTATTGAGT
1 TGAATAGTAAGCTCTA-TGAGC
49735148 TGAA
1 TGAA
49735152 ACGGTAAGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
22 25 0.57
23 19 0.43
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (21 bp):
TGAATAGTAAGCTCTATGAGC
Found at i:49735162 original size:23 final size:21
Alignment explanation
Indices: 49735081--49735162 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 21
49735071 CCTAAGCTGA
* *
49735081 TGAATAGTAAGCTCTAATAAGC
1 TGAA-AGTAAGCTCTATTGAGC
*
49735103 TGAAATAGTAAGCTCTATCGAGC
1 TG-AA-AGTAAGCTCTATTGAGC
*
49735126 TGAATAGTAAGCTCTATTGAGT
1 TGAA-AGTAAGCTCTATTGAGC
49735148 TGAAACGGTAAGCTC
1 TGAAA--GTAAGCTC
49735163 CAGTAAGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.02
22 24 0.46
23 27 0.52
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (21 bp):
TGAAAGTAAGCTCTATTGAGC
Found at i:49760346 original size:37 final size:38
Alignment explanation
Indices: 49760273--49760348 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
49760263 GCTTCAGGCA
* * *
49760273 GTTAAGATTCCATTGTGGAAGTGGGAAAGAGTAACTAT
1 GTTAAGATTCCACTATGGAACTGGGAAAGAGTAACTAT
*
49760311 GTTAAGATTCCGCTATGGAACT-GGAAAGAGTAACTAT
1 GTTAAGATTCCACTATGGAACTGGGAAAGAGTAACTAT
49760348 G
1 G
49760349 GACTTTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 16 0.47
38 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (38 bp):
GTTAAGATTCCACTATGGAACTGGGAAAGAGTAACTAT
Found at i:49761066 original size:29 final size:29
Alignment explanation
Indices: 49761024--49761082 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
49761014 ATATTTGAGC
*
49761024 GTAAGGCAAGTTAAGCCCAAGGTTTATTG
1 GTAAGGCAAGTTAAGCCAAAGGTTTATTG
49761053 GTAAGGCAAGTTAAGCCAAAGGTTTATTG
1 GTAAGGCAAGTTAAGCCAAAGGTTTATTG
49761082 G
1 G
49761083 GCTTTACTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (29 bp):
GTAAGGCAAGTTAAGCCAAAGGTTTATTG
Found at i:49766284 original size:44 final size:43
Alignment explanation
Indices: 49766144--49766302 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 43
49766134 AGCTCGTACA
* * * *
49766144 ATGCCAACGTCCCAAACGTGGCCTTACAAG-TAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAAATAT-G
* **
49766187 ATGTC-AC-TGCTTAGACAG-GGTCTTACAC-AAAATCAAATATG
1 ATGCCAACGT-CCCAGAC-GTGGTCTTACACGAAAATCAAATATG
* *
49766228 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCA-AA-TATG
*
49766272 ATGCCAACGTCCCAGACGTAGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
49766303 TAACATATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 7 0.08
42 40 0.43
43 12 0.13
44 32 0.35
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAAATATG
Found at i:49769047 original size:46 final size:46
Alignment explanation
Indices: 49768994--49769122 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
49768984 TATTTGGGCA
* * *
49768994 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
49769040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
49769086 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49769123 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:49772094 original size:15 final size:15
Alignment explanation
Indices: 49772074--49772142 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
49772064 ATATCTTGGG
49772074 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
49772089 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
49772104 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
49772119 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
49772134 TTTCTTTAT
1 TTTCTTTAT
49772143 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:49772143 original size:30 final size:30
Alignment explanation
Indices: 49772065--49772152 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
49772055 CATAATATCA
* * * *
49772065 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
49772095 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
49772125 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
49772153 TATTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:49776672 original size:35 final size:35
Alignment explanation
Indices: 49776633--49776703 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
49776623 ATCCGCTAGG
* *
49776633 ATTGACCATCCGTTTGTGGGTGAAAAGCAGTACTA
1 ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
49776668 ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
1 ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
49776703 A
1 A
49776704 AGTGCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (35 bp):
ATTGACCATCCGTTTGCGGGTAAAAAGCAGTACTA
Found at i:49784245 original size:42 final size:42
Alignment explanation
Indices: 49784179--49784292 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
49784169 AGTACTATAC
* **
49784179 CAATGCCATATCCAAGATATGGTCTTACATGAA-TCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATAT
* * *
49784220 CAATGCCAATAGCCCAGCTATGGTCTTATACAAAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACAAAGTCTCATAT
*
49784263 CGATGCCATATCCCAGATATGGTCTTACAC
1 CAATGCCATATCCCAGATATGGTCTTACAC
49784293 GTAGTCTTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 7 0.11
42 40 0.66
43 14 0.23
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATAT
Found at i:49793792 original size:31 final size:32
Alignment explanation
Indices: 49793735--49793796 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
49793725 ACGAAGTCAC
* *
49793735 CAAATATAGATATTGTGGCTAGGCCACCAGAA
1 CAAATATAGATATTGTGGCGAAGCCACCAGAA
*
49793767 CAAATATATATA-TGTGGCGAAGCCACCAGA
1 CAAATATAGATATTGTGGCGAAGCCACCAGA
49793797 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (32 bp):
CAAATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:49793860 original size:27 final size:26
Alignment explanation
Indices: 49793812--49793864 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
49793802 GCGAGGCTGC
* *
49793812 CAGATATTGTGACGATGTCACCAGAT
1 CAGATATTGTGACGAGGCCACCAGAT
*
49793838 CAGATATATGTGGCGAGGCCACCAGAT
1 CAGATAT-TGTGACGAGGCCACCAGAT
49793865 TGCAGGGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAGGCCACCAGAT
Found at i:49800576 original size:42 final size:42
Alignment explanation
Indices: 49800468--49800629 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
49800458 AGCTCTTACA
* *** *
49800468 ATGCCAACGTCCCAGACGTGGTCTTATATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
* * *
49800511 ATGCC-ACTATCCTAGACGGGGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACAAAATCAAATACG
*
49800553 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACA-AAATCA-AA-TACG
* * * *
49800597 ATACCAATGTCTCAGACGTGGTCTTACATAAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAA
49800630 ACACATATTG
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.27
43 41 0.42
44 29 0.30
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:49811499 original size:12 final size:13
Alignment explanation
Indices: 49811482--49811513 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
49811472 CTACATGATG
49811482 TTTCTTTCTCCT-
1 TTTCTTTCTCCTC
49811494 TTTC-TTCTCCTC
1 TTTCTTTCTCCTC
49811506 TTTCTTTC
1 TTTCTTTC
49811514 ATTTTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 8 0.44
13 3 0.17
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTCTTTCTCCTC
Found at i:49812641 original size:16 final size:17
Alignment explanation
Indices: 49812610--49812648 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
49812600 ATAAAGAAAG
49812610 TTTGGGATTCTGAGATT
1 TTTGGGATTCTGAGATT
*
49812627 TTTGGG-TTTTGAGATT
1 TTTGGGATTCTGAGATT
49812643 TTTGGG
1 TTTGGG
49812649 GCGTTACAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (17 bp):
TTTGGGATTCTGAGATT
Found at i:49814686 original size:6 final size:6
Alignment explanation
Indices: 49814668--49814755 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
49814658 AAGAAATATT
*
49814668 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGA GA-CAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-GA -ATCAGA ATCAGA
* *
49814717 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
49814756 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 54 0.79
7 8 0.12
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:49814718 original size:31 final size:31
Alignment explanation
Indices: 49814677--49814755 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
49814667 TATCAGAACT
49814677 AGAATCAGAATCAGAATCAGAATCAGG-AGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTA-AC
* *
49814708 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
49814739 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
49814756 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:49815023 original size:27 final size:26
Alignment explanation
Indices: 49814976--49815026 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
49814966 CGTGGCTGCT
*
49814976 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
49815002 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
49815027 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:49815311 original size:17 final size:17
Alignment explanation
Indices: 49815289--49815321 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49815279 TACCCCACAA
49815289 GGGTATCTCAGTAATTG
1 GGGTATCTCAGTAATTG
*
49815306 GGGTATCTCGGTAATT
1 GGGTATCTCAGTAATT
49815322 TTACCCTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (17 bp):
GGGTATCTCAGTAATTG
Found at i:49815335 original size:27 final size:27
Alignment explanation
Indices: 49815305--49815431 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
49815295 CTCAGTAATT
*
49815305 GGGGTATCTCGGTAATTTTACCCTACA
1 GGGGTATTTCGGTAATTTTACCCTACA
* * *
49815332 GGGGTATTTCAGTAATTCTACCCTATA
1 GGGGTATTTCGGTAATTTTACCCTACA
*
49815359 GGGGTATTTTGGT-ATTTCTACCCTACA
1 GGGGTATTTCGGTAATTT-TACCCTACA
* * *
49815386 AGGGTATTTCAG-CATTTCTACCCTACA
1 GGGGTATTTCGGTAATTT-TACCCTACA
*
49815413 AGGGTATTTCGGTAATTTT
1 GGGGTATTTCGGTAATTTT
49815432 GTAAATCGAG
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 77 0.92
28 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCGGTAATTTTACCCTACA
Found at i:49815391 original size:54 final size:53
Alignment explanation
Indices: 49815305--49815431 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 53
49815295 CTCAGTAATT
* * * *
49815305 GGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCAGTAATTCTACCCTATA
1 GGGGTATTTCGGT-ATTTTACCCTACAAGGGTATTTCAGCAATTCTACCCTACA
* *
49815359 GGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCAGCATTTCTACCCTACA
1 GGGGTATTTCGGTATTT-TACCCTACAAGGGTATTTCAGCAATTCTACCCTACA
*
49815413 AGGGTATTTCGGTAATTTT
1 GGGGTATTTCGGT-ATTTT
49815432 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.06
54 55 0.87
55 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (53 bp):
GGGGTATTTCGGTATTTTACCCTACAAGGGTATTTCAGCAATTCTACCCTACA
Found at i:49815443 original size:27 final size:27
Alignment explanation
Indices: 49815413--49815502 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
49815403 CTACCCTACA
49815413 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
***
49815440 AGGGTAAAACGGTAATTTTGTAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* * *
49815466 AGGGGTACTTT-GGTAATTTTATAAGTTG
1 A-GGGTA-TTTCGGTAATTTTGTAAATCG
49815494 AGGGTATTT
1 AGGGTATTT
49815503 TAATAATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
26 4 0.08
27 46 0.90
28 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:49815653 original size:27 final size:27
Alignment explanation
Indices: 49815522--49815697 Score: 235
Period size: 27 Copynumber: 6.5 Consensus size: 27
49815512 TACAGGTCAA
** * *
49815522 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
49815549 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
49815576 GAGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
49815603 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
49815630 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
49815657 AGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
49815684 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
49815698 CTTGGTAAAC
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:49815692 original size:81 final size:80
Alignment explanation
Indices: 49815466--49815697 Score: 275
Period size: 81 Copynumber: 2.9 Consensus size: 80
49815456 TTTGTAAATC
* *** * *** * *
49815466 AGGGGTACTTTGGTAATTTTATAAGTTGAGGGTATTTTAATAATTTTACAGGTCAAGGGTATTTC
1 AGGGGTATTTTGGTAATTTTATAA-ACAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
* *
49815531 AGTAATTTCACAAATT
65 GGTAATTTCACAAACT
* * * *
49815547 AGGGGTATTTTGATAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTATAAACAAGG-GTATTTTAGTAATTTTACAAACCAGGGGTATTTT
*
49815612 GGTAATTTTACAAACT
65 GGTAATTTCACAAACT
*
49815628 AGGGGTATTTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTATAAAC-AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
49815693 GGTAA
65 GGTAA
49815698 CTTGGTAAAC
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 123 0.96
82 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTATAAACAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
GTAATTTCACAAACT
Found at i:49815707 original size:27 final size:27
Alignment explanation
Indices: 49815450--49815697 Score: 228
Period size: 27 Copynumber: 9.2 Consensus size: 27
49815440 AGGGTAAAAC
** * *
49815450 GGTAATTTTGTAAATCAGGGGTACTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* ***
49815477 GGTAATTTTA-TAAGTTGAGGGTATTTT
1 GGTAATTTTACAAACCAG-GGGTATTTT
** *** * *
49815504 AATAATTTTACAGGTCAAGGGTATTTC
1 GGTAATTTTACAAACCAGGGGTATTTT
* * **
49815531 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* * *
49815558 GATAATTTTACAAACTAGGAGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
49815585 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
49815612 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* * **
49815639 GGTAATTTTATAAACAAAAGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
49815666 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
49815693 GGTAA
1 GGTAA
49815698 CTTGGTAAAC
Statistics
Matches: 177, Mismatches: 42, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
26 3 0.02
27 174 0.98
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAACCAGGGGTATTTT
Found at i:49818626 original size:30 final size:30
Alignment explanation
Indices: 49818592--49818650 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
49818582 AAACTTGTCA
* *
49818592 AAAGCGAAGACTACAACAAACAATTCTTTT
1 AAAGCAAACACTACAACAAACAATTCTTTT
*
49818622 AAAGCAAACACTACATCAAACAATTCTTT
1 AAAGCAAACACTACAACAAACAATTCTTT
49818651 CTCTGTAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (30 bp):
AAAGCAAACACTACAACAAACAATTCTTTT
Found at i:49819687 original size:15 final size:15
Alignment explanation
Indices: 49819667--49819697 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49819657 AATTATGAAA
49819667 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
49819682 GATATGTTTTGTATT
1 GATATGTTTTGGATT
49819697 G
1 G
49819698 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:49821632 original size:27 final size:27
Alignment explanation
Indices: 49821594--49821658 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
49821584 GCAGGCTAGT
49821594 ATTACT-AGAATGCCCCTATAGGG-TAGA
1 ATTACTGA-AATGCCCCTAT-GGGATAGA
* *
49821621 ATTACTGAAATGCCCTTGTGGGATAGA
1 ATTACTGAAATGCCCCTATGGGATAGA
*
49821648 ATTATTGAAAT
1 ATTACTGAAAT
49821659 AACCTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 29 0.88
28 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (27 bp):
ATTACTGAAATGCCCCTATGGGATAGA
Found at i:49821729 original size:27 final size:28
Alignment explanation
Indices: 49821672--49822012 Score: 221
Period size: 27 Copynumber: 12.6 Consensus size: 28
49821662 CTTGGTTTAC
* * ** *
49821672 AAAATGACCAAAATA-CCCTCGATGAGA
1 AAAATTACCAAAATACCCCTTGATTTGT
*
49821699 AAAATTACCAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
*
49821726 AAAATTACCAAAATACCCC-TGACTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * *
49821753 GAAATTACCAAAATA-CCTTTGACTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * *
49821780 AAAATTACCGAAATA--TCTTGACTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * *
49821806 AAAATTACCGAAATA-CACTTGATTTAT
1 AAAATTACCAAAATACCCCTTGATTTGT
49821833 AAAATTACCAAAATACCCC-TGATTTAG-
1 AAAATTACCAAAATACCCCTTGATTT-GT
* * *
49821860 AAAATTATCGAAATA-CCCTTGATTTGG
1 AAAATTACCAAAATACCCCTTGATTTGT
**
49821887 AAAATTA-CAGAAATA-CCC-T-ACTTTAC
1 AAAATTACCA-AAATACCCCTTGA-TTTGT
* **
49821913 AAAATTACAAAAATA-CCCTTGACTTTCA
1 AAAATTACCAAAATACCCCTTGA-TTTGT
* * * *
49821941 AAAATTACAAAAATA-CCATTGGTTTGC
1 AAAATTACCAAAATACCCCTTGATTTGT
** *
49821968 AAAATTACTGAAATA-CCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTTGATTTGT
* * *
49821995 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
49822013 TTGTAGGGTG
Statistics
Matches: 260, Mismatches: 40, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.00
26 51 0.20
27 174 0.67
28 34 0.13
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCTTGATTTGT
Found at i:49821837 original size:107 final size:107
Alignment explanation
Indices: 49821698--49821988 Score: 290
Period size: 107 Copynumber: 2.7 Consensus size: 107
49821688 CCTCGATGAG
* * *
49821698 AAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGACTTGT-G-AAATTA
1 AAAAATTACCAAAATACCCTTGACTTTATAAAATTACCAAAATACCCCTGA-TT-TAGAAAATTA
* * * * *
49821760 CCAAAATACCTTTGACTTGTAAAATTACCGAAATATCTTGACTTGT
64 CCAAAATACCCTTGACTTGGAAAATTACAGAAATACCCT-ACTT-T
* * *
49821806 -AAAATTACCGAAATACACTTGA-TTTATAAAATTACCAAAATACCCCTGATTTAGAAAATTATC
1 AAAAATTACCAAAATACCCTTGACTTTATAAAATTACCAAAATACCCCTGATTTAGAAAATTACC
* *
49821869 GAAATACCCTTGATTTGGAAAATTACAGAAATACCCTACTTT
66 AAAATACCCTTGACTTGGAAAATTACAGAAATACCCTACTTT
* * ** *
49821911 ACAAAATTACAAAAATACCCTTGACTTTCA-AAAATTACAAAAATACCATTGGTTT-GCAAAATT
1 A-AAAATTACCAAAATACCCTTGACTTT-ATAAAATTACCAAAATACCCCTGATTTAG-AAAATT
**
49821974 ACTGAAATACCCTTG
63 ACCAAAATACCCTTG
49821989 GTTTGTAGAT
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
105 2 0.01
106 7 0.05
107 100 0.65
108 44 0.29
109 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (107 bp):
AAAAATTACCAAAATACCCTTGACTTTATAAAATTACCAAAATACCCCTGATTTAGAAAATTACC
AAAATACCCTTGACTTGGAAAATTACAGAAATACCCTACTTT
Found at i:49821839 original size:80 final size:80
Alignment explanation
Indices: 49821667--49822015 Score: 269
Period size: 81 Copynumber: 4.3 Consensus size: 80
49821657 ATAACCTTGG
* * * * * * *
49821667 TTTACAAAATGACCAAAATACCCTCGA-TGAGAAAAATTACCAAAATACCCCT-AGTTTGTAAAA
1 TTTATAAAATTACCAAAATACCCTTGACTTAG-AAAATTACCGAAATACCCTTGA-CTTGTAAAA
*
49821730 TTACCAAAATACCCCTGA
64 TTACCGAAATA-CCCTGA
* * * * *
49821748 CTTGTGAAATTACCAAAATACCTTTGACTT-GTAAAATTACCGAAATA-TCTTGACTTGTAAAAT
1 TTTATAAAATTACCAAAATACCCTTGACTTAG-AAAATTACCGAAATACCCTTGACTTGTAAAAT
*
49821811 TACCGAAATACACTTGA
65 TACCGAAATAC-CCTGA
* * * * *
49821828 TTTATAAAATTACCAAAATACCCCTGATTTAGAAAATTATCGAAATACCCTTGATTTGGAAAATT
1 TTTATAAAATTACCAAAATACCCTTGACTTAGAAAATTACCGAAATACCCTTGACTTGTAAAATT
*
49821893 ACAGAAATACCCT-A
66 ACCGAAATACCCTGA
* * ** * ** *
49821907 CTTTACAAAATTACAAAAATACCCTTGACTTTCA-AAAATTACAAAAATACCATTGGTTTGCAAA
1 -TTTATAAAATTACCAAAATACCCTTGAC-TT-AGAAAATTACCGAAATACCCTTGACTTGTAAA
* *
49821971 ATTACTGAAATACCCTTGG
63 ATTACCGAAATACCC-TGA
* * * *
49821990 TTTGTAGATTTACCAAAACACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
49822016 TAGGGTGAAA
Statistics
Matches: 213, Mismatches: 45, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 88 0.41
81 100 0.47
82 23 0.11
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
TTTATAAAATTACCAAAATACCCTTGACTTAGAAAATTACCGAAATACCCTTGACTTGTAAAATT
ACCGAAATACCCTGA
Found at i:49822291 original size:41 final size:41
Alignment explanation
Indices: 49822234--49822352 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
49822224 GAGGAAGAAG
*
49822234 TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGA
1 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
49822275 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
1 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
* * * *
49822316 TTAAGGATCGCAAGGTTGCTTGACAACTGTGGATCCA
1 TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
49822353 TCGGTGGCTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (41 bp):
TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGA
Found at i:49822781 original size:22 final size:22
Alignment explanation
Indices: 49822756--49822803 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
49822746 TTGGCAGTAT
*
49822756 TGCTGTGATGTTTACGGCTATG
1 TGCTGTCATGTTTACGGCTATG
*
49822778 TGCTGTCTTGTTTACGGCTATG
1 TGCTGTCATGTTTACGGCTATG
49822800 TGCT
1 TGCT
49822804 ATCCTGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.17, G:0.29, T:0.44
Consensus pattern (22 bp):
TGCTGTCATGTTTACGGCTATG
Found at i:49844734 original size:27 final size:27
Alignment explanation
Indices: 49844703--49844880 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49844693 TAAATTGTAC
49844703 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49844730 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49844756 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49844784 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49844812 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49844839 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49844866 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49844881 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49844817 original size:82 final size:81
Alignment explanation
Indices: 49844704--49844859 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49844694 AAATTGTACA
* *
49844704 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49844768 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49844785 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49844850 TGCGAGTTGA
65 TGCGAATTGA
49844860 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49844871 original size:82 final size:81
Alignment explanation
Indices: 49844700--49844880 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49844690 GATTAAATTG
* *
49844700 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49844765 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49844781 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49844845 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49844863 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49844881 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49868093 original size:49 final size:49
Alignment explanation
Indices: 49868016--49868260 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
49868006 TAGCCAAAGC
* * * *
49868016 TATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
49868065 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
49868115 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * * *
49868166 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
49868215 AATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
49868261 TCACAATTGA
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 79 0.48
50 47 0.29
51 37 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:49868252 original size:100 final size:99
Alignment explanation
Indices: 49868017--49868260 Score: 319
Period size: 100 Copynumber: 2.5 Consensus size: 99
49868007 AGCCAAAGCT
* * * * **
49868017 ATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACATGTGACCAATTATCCGGTACATGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGT
* *
49868082 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
49868116 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATA
* * *
49868181 GTAGCTTGCACTTAGTACTACACATGCGACC-AATA
64 GTAGCCTGCACTTAGTACTACACACGCGACCTAACA
*
49868216 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
49868261 TCACAATTGA
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 39 0.31
100 46 0.37
101 40 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:49871596 original size:47 final size:46
Alignment explanation
Indices: 49871484--49871704 Score: 141
Period size: 46 Copynumber: 4.7 Consensus size: 46
49871474 TTATGTGAGC
* * *
49871484 CAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGACATATGATGAAAGA
* *
49871530 CAGTGTAAGACCATATCTGGGACATGGCATC-GACAT-TGA-GACGAGTGA
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACATATGATGA--A-AGA
* * *
49871578 CAGTGTAAGACATGTCTGGGACATGCATCAG-CCTCGA-GATGTAAG-
1 CAGTGTAAGACATGTCTGGGACATGCATCGGACAT--ATGATGAAAGA
* * * * *
49871623 CTAGTGTCAGACATGTCTGGGACCTGCATCGGCACGGATGTG-TGAGAGC
1 C-AGTGTAAGACATGTCTGGGACATGCATCGG-AC--ATATGATGAAAGA
* *
49871672 CAGTGTAAGACCATATCTGGGATATGGCATCGG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
49871705 CATCGATATG
Statistics
Matches: 136, Mismatches: 20, Indels: 34
0.72 0.11 0.18
Matches are distributed among these distances:
45 3 0.02
46 47 0.35
47 33 0.24
48 31 0.23
49 14 0.10
50 8 0.06
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGACATATGATGAAAGA
Found at i:49871676 original size:94 final size:94
Alignment explanation
Indices: 49871480--49871702 Score: 220
Period size: 94 Copynumber: 2.4 Consensus size: 94
49871470 GTTGTTATGT
* *
49871480 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAAGCCAGTGTAAGACCATA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATGATGAAAGCCAGTGTAAGACCATA
**
49871545 TCTGGGACATGGCATCGACATTGAGACGA
66 TCTGGGACATGGCATCGACACGGAGACGA
* * * * *
49871574 GTGACAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGA-GATGTAAGCTAGTGTCAGA-CA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATGATGAAAGCCAGTGTAAGACCA
* * * **
49871636 TGTCTGGGACCT-GCATCGGCACGGATGTGTGA
64 TATCTGGGACATGGCATCGACACGGA-G-ACGA
* *
49871668 GAGCCAGTGTAAGACCATATCTGGGATATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
49871703 GGCATCGATA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
92 10 0.10
93 14 0.13
94 63 0.60
95 13 0.12
96 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATGATGAAAGCCAGTGTAAGACCATA
TCTGGGACATGGCATCGACACGGAGACGA
Found at i:49875450 original size:15 final size:15
Alignment explanation
Indices: 49875431--49875471 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
49875421 ATTTTCTTGT
49875431 TTTGGATTTCTT-TA
1 TTTGGATTTCTTATA
49875445 TGTTGGATTT-TTATA
1 T-TTGGATTTCTTATA
49875460 TTCTGGATTTCT
1 TT-TGGATTTCT
49875472 CCGTTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.17
15 18 0.78
16 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (15 bp):
TTTGGATTTCTTATA
Found at i:49878093 original size:46 final size:47
Alignment explanation
Indices: 49878026--49878208 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 47
49878016 GAGACACTAC
** * *
49878026 TATTATGTGAGCCAGTGTAAGACAGGTTTGGGACAT-GCATCAGCCT
1 TATTATGAAAGCCAGTGTAAGACATGTCTGGGACATAGCATCAGCCT
* * * *
49878072 TATTATGAAAGCCAGTGTAAGACTATGTCAGGGACATGGCAT-TGACAT
1 TATTATGAAAGCCAGTGTAAGAC-ATGTCTGGGACATAGCATCAG-CCT
* ** ** *
49878120 TGA-GATGAGTGCCAGTGTAAGACATGTCTGGGACAT-GCATCAATCA
1 T-ATTATGAAAGCCAGTGTAAGACATGTCTGGGACATAGCATCAGCCT
* *
49878166 TATTATGAAAGCAAGTGTAACACCATGTCTGGGACATAGCATC
1 TATTATGAAAGCCAGTGTAAGA-CATGTCTGGGACATAGCATC
49878209 GAAATTGAGA
Statistics
Matches: 108, Mismatches: 21, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
45 1 0.01
46 40 0.37
47 37 0.34
48 29 0.27
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (47 bp):
TATTATGAAAGCCAGTGTAAGACATGTCTGGGACATAGCATCAGCCT
Found at i:49878147 original size:47 final size:47
Alignment explanation
Indices: 49878082--49878305 Score: 186
Period size: 48 Copynumber: 4.7 Consensus size: 47
49878072 TATTATGAAA
* *
49878082 GCCAGTGTAAGACTATGTCAGGGACATGGCATTGACATTGAGATGAGT
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGACATTGAGATGAGT
* * **
49878130 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAATCA-T-ATTATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGA-CATTGA-GATGAGT
* * * * *
49878176 GCAAGTGTAACACCATGTCTGGGACATAGCATCGAAATTGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACATTGAGATGAGT
* * ** * *
49878224 GCCAGTGTAAGACATGTCTGGGACAT-GCAACGGCACGGATGTGTGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACATTGA-G-ATGAGT
* *
49878272 GCCAGTGTAAGACCATATCTGGGATATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
49878306 GCATCGATAT
Statistics
Matches: 139, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
45 1 0.01
46 28 0.20
47 44 0.32
48 48 0.35
49 13 0.09
50 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGATGAGT
Found at i:49878200 original size:94 final size:94
Alignment explanation
Indices: 49878036--49878252 Score: 317
Period size: 94 Copynumber: 2.3 Consensus size: 94
49878026 TATTATGTGA
* * * * * * *
49878036 GCCAGTGTAAGACAGGTTTGGGACATGCATCAGCCTTATTATGAAAGCCAGTGTAAGACTATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAAAGCAAGTGTAACACCATGTC
* * * *
49878101 AGGGACATGGCATTGACATTGAGATGAGT
66 AGGGACATAGCATCGAAATTGAGACGAGT
*
49878130 GCCAGTGTAAGACATGTCTGGGACATGCATCAATCATATTATGAAAGCAAGTGTAACACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAAAGCAAGTGTAACACCATGTC
*
49878195 TGGGACATAGCATCGAAATTGAGACGAGT
66 AGGGACATAGCATCGAAATTGAGACGAGT
49878224 GCCAGTGTAAGACATGTCTGGGACATGCA
1 GCCAGTGTAAGACATGTCTGGGACATGCA
49878253 ACGGCACGGA
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 110 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAAAGCAAGTGTAACACCATGTC
AGGGACATAGCATCGAAATTGAGACGAGT
Found at i:49884670 original size:21 final size:21
Alignment explanation
Indices: 49884646--49884689 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49884636 GAATCTTTAG
*
49884646 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
49884667 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
49884688 TA
1 TA
49884690 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:49897143 original size:40 final size:40
Alignment explanation
Indices: 49896905--49897129 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
49896895 TTGAATGATG
* * * *
49896905 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49896945 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
49896985 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49897024 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49897064 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49897105 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49897130 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49905196 original size:40 final size:40
Alignment explanation
Indices: 49904918--49905182 Score: 338
Period size: 40 Copynumber: 6.7 Consensus size: 40
49904908 TTGAATGATG
* * * * * *
49904918 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGC-GAGTTACTAAA
** ** * *
49904958 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49904998 TCCGGGCTAA-GCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
49905037 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
49905077 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49905117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
49905158 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGGCCCGAAGGCATTTG
49905183 AACGAGTAGC
Statistics
Matches: 204, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.17
40 161 0.79
41 9 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49908971 original size:46 final size:45
Alignment explanation
Indices: 49908921--49909096 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
49908911 TGTTTGGGCA
49908921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
49908967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
49909014 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
49909060 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49909097 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:49909076 original size:93 final size:93
Alignment explanation
Indices: 49908917--49909088 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
49908907 AGGATGTTTG
* *
49908917 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49908982 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
49909010 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49909075 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49909089 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:49911544 original size:12 final size:13
Alignment explanation
Indices: 49911529--49911566 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
49911519 CCTTGATCCA
49911529 CTCCTC-AAATCT
1 CTCCTCTAAATCT
49911541 CTCC-CTAAATCT
1 CTCCTCTAAATCT
49911553 CTCCTCTAAA-CT
1 CTCCTCTAAATCT
49911565 CT
1 CT
49911567 ACATCAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 18 0.75
13 5 0.21
ACGTcount: A:0.24, C:0.42, G:0.00, T:0.34
Consensus pattern (13 bp):
CTCCTCTAAATCT
Found at i:49912381 original size:41 final size:45
Alignment explanation
Indices: 49912275--49912450 Score: 150
Period size: 41 Copynumber: 4.0 Consensus size: 45
49912265 TGTGTTCTCG
** * * *
49912275 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCTTGTCTGGGACATTGGCATCGATATATGTGATTACA
49912320 TGTAAGACCTTGTCTGGGACATTGGCATCG-TAT-T-TGATT-CA
1 TGTAAGACCTTGTCTGGGACATTGGCATCGATATATGTGATTACA
* * *
49912361 TGTAAGACCTTGTCTAGGACAGTGGCATC-A-ATATGAGA-TAGCA
1 TGTAAGACCTTGTCTGGGACATTGGCATCGATATATGTGATTA-CA
* * * *
49912404 TGTATGACCATGTTTGGGACGTTGGCATTGTACGATATATGTGATTA
1 TGTAAGACCTTGTCTGGGACATTGGCA---T-CGATATATGTGATTA
49912451 TTCGAGTATC
Statistics
Matches: 104, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 30 0.29
42 6 0.06
43 24 0.23
44 3 0.03
45 27 0.26
46 1 0.01
47 1 0.01
48 1 0.01
49 7 0.07
50 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (45 bp):
TGTAAGACCTTGTCTGGGACATTGGCATCGATATATGTGATTACA
Found at i:49919632 original size:23 final size:24
Alignment explanation
Indices: 49919572--49919639 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
49919562 TACCAATATA
*
49919572 TCAGCTCATAAGAGCTTACTATTT
1 TCAGCTCATAAGAGCTTACTAGTT
* * *
49919596 TTAGCTCGTCAGAGCTTACT-GTT
1 TCAGCTCATAAGAGCTTACTAGTT
49919619 TCAGCTCA-ATAGAGCTTACTA
1 TCAGCTCATA-AGAGCTTACTA
49919640 TCCATCAGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (24 bp):
TCAGCTCATAAGAGCTTACTAGTT
Found at i:49921258 original size:18 final size:18
Alignment explanation
Indices: 49921234--49921299 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
49921224 CTTGGCCCAT
*
49921234 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAATCAG
* * *
49921252 AGCAGTAACATTAATCCG
1 TGCAGTAACAGTAATCAG
* *
49921270 TGCGGTAATAGTAATCAG
1 TGCAGTAACAGTAATCAG
49921288 TGCAGTAACAGT
1 TGCAGTAACAGT
49921300 TTAAACAGTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (18 bp):
TGCAGTAACAGTAATCAG
Found at i:49921680 original size:27 final size:27
Alignment explanation
Indices: 49921648--49921749 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
49921638 AATACCTCAC
*
49921648 ATAGGGGCAAAATAGTCAATTTACCAT
1 ATAGGGGCAAAATAGTCATTTTACCAT
* **
49921675 GTAGGGGC-ATTTCAGTCATTTTACCAT
1 ATAGGGGCAAAAT-AGTCATTTTACCAT
*
49921702 ATAAGGGCAAAATAGTCATTTTACC-T
1 ATAGGGGCAAAATAGTCATTTTACCAT
* * *
49921728 CATAAGCGCAACATAGTCATTT
1 -ATAGGGGCAAAATAGTCATTT
49921750 CATCAAATTG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.05
27 57 0.92
28 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (27 bp):
ATAGGGGCAAAATAGTCATTTTACCAT
Found at i:49924583 original size:43 final size:43
Alignment explanation
Indices: 49924535--49924692 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
49924525 AGCTCGTACA
* * *
49924535 ATGCCAACGTCCCAGACGTGGTCTTATATTTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACTAAATCAAATATCG
* * * * *
49924578 ATGCC-ACTATCCCTGACAG-AGTCTTACACAAAATCAAATA-CC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACTAAATCAAATATCG
* *
49924620 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-TAAATCA-AATATCG
*
49924664 ATGCCGACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
49924693 GAGAACACAT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 24 0.26
43 36 0.40
44 31 0.34
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACTAAATCAAATATCG
Found at i:49927017 original size:56 final size:56
Alignment explanation
Indices: 49926943--49927252 Score: 433
Period size: 56 Copynumber: 5.5 Consensus size: 56
49926933 TACATGTAAT
* * * *
49926943 CACATATATCGGAATCACATACCGATGCCAATGTATTAAACGT-AATCTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGA-CTTACTCGCA
* * ** *
49926999 CTCATATATCAGAGTCACATATCGATGCCAACGTACGAAATGTGGACTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* *
49927055 CACATATATCAGAATCACATATCGGTGCCAACGTGTTAAACGTGGACTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* * * *
49927111 CACATATATCATAGTCACATATCGATGCCAACATATGAAACGTGGACTTACTCGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* *
49927167 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTTGCA
1 CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
* *
49927223 CAAATATATCGGAATCACATATCGATGCCA
1 CACATATATCAGAATCACATATCGATGCCA
49927253 CATATACTTC
Statistics
Matches: 224, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
56 223 1.00
57 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (56 bp):
CACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
Found at i:49940679 original size:75 final size:75
Alignment explanation
Indices: 49940556--49940707 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 75
49940546 ACAAATAACT
*
49940556 AGAAAGGTGGTTAAACTAGTTAATTTATTTTGATTAAGCTCAAGAACTTAAAGGAGGGGAATCAA
1 AGAAAGGTGGTTAAACTAGCTAATTTATTTTGATTAAGCTCAAGAACTTAAAGGAGGGGAATCAA
49940621 GCAAGGGCAA
66 GCAAGGGCAA
49940631 AGAAAGGTGGTTAAACTAGCTAATTTATTTTGATTAAGCTCAAGAACTTAAAGGAGGGGAATCAA
1 AGAAAGGTGGTTAAACTAGCTAATTTATTTTGATTAAGCTCAAGAACTTAAAGGAGGGGAATCAA
49940696 GCAAGGGCAA
66 GCAAGGGCAA
49940706 AG
1 AG
49940708 CGAAGAACAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (75 bp):
AGAAAGGTGGTTAAACTAGCTAATTTATTTTGATTAAGCTCAAGAACTTAAAGGAGGGGAATCAA
GCAAGGGCAA
Found at i:49940953 original size:24 final size:24
Alignment explanation
Indices: 49940938--49941049 Score: 188
Period size: 24 Copynumber: 4.7 Consensus size: 24
49940928 CGGATTTGAG
49940938 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
49940962 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
49940986 TGGCACTATGTGTGCGTATATGTA
1 TGGCACTATGTGTGCGTATTTGTA
* * *
49941010 TGGCACTATGTGTGCGTAATTATT
1 TGGCACTATGTGTGCGTATTTGTA
49941034 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
49941050 GAGTTGAATC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.39
Consensus pattern (24 bp):
TGGCACTATGTGTGCGTATTTGTA
Found at i:49950359 original size:71 final size:71
Alignment explanation
Indices: 49950236--49950381 Score: 274
Period size: 71 Copynumber: 2.1 Consensus size: 71
49950226 GTGTTATTTT
* *
49950236 TCTATGCTTTATAGTAAATCAAGCTAGCTCGGATCCGGGAGTTGTTGGGAACATCATCGCACTAT
1 TCTATGCTTTATAGTAAATCAAGCTAGCTCGGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
49950301 CAAACA
66 CAAACA
49950307 TCTATGCTTTATAGTAAATCAAGCTAGCTCGGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
1 TCTATGCTTTATAGTAAATCAAGCTAGCTCGGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
49950372 CAAACA
66 CAAACA
49950378 TCTA
1 TCTA
49950382 GGTTGGTACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (71 bp):
TCTATGCTTTATAGTAAATCAAGCTAGCTCGGATCCGGGAGTTGTCGAGAACATCATCGCACTAT
CAAACA
Found at i:49954607 original size:75 final size:74
Alignment explanation
Indices: 49954514--49954804 Score: 379
Period size: 75 Copynumber: 3.9 Consensus size: 74
49954504 GGCCTAAAGA
* *
49954514 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATA
1 CCCGCAGGCT-TCGTGCTGGAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATA
49954578 TCCGGTTAAAT
64 TCCGGTTAAAT
*
49954589 CCTGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTTCGTGCTGGAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
*
49954654 CTGGGTTAAAT
65 C-CGGTTAAAT
** *
49954665 CCCGCAGGCTTCGTGCTGGTAATATATTTGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATAAAT
1 CCCGCAGGCTTCGTGCTGG-AATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
49954729 CCAGGTTAAAT
65 CC-GGTTAAAT
* * * * * * *
49954740 CCCACGGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCT-GGAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
49954805 TTGGGCCTTC
Statistics
Matches: 191, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
74 1 0.01
75 123 0.64
76 65 0.34
77 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (74 bp):
CCCGCAGGCTTCGTGCTGGAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATC
CGGTTAAAT
Found at i:49954736 original size:113 final size:114
Alignment explanation
Indices: 49954514--49954809 Score: 402
Period size: 113 Copynumber: 2.6 Consensus size: 114
49954504 GGCCTAAAGA
* *
49954514 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATAT
** * * *
49954577 A-TCCGGTTAAATCCTGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
64 ATTTGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTAAATCCAGGTTAAAT
* *
49954627 CCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
*
49954692 TTGGGTTAAATCCCGCAGGCTTCGTGCTGTAA-TAAATCCAGGTTAAAT
66 TTGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTAAATCCAGGTTAAAT
* * * * * *
49954740 CCCACGGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
49954805 TTGGG
66 TTGGG
49954810 CCTTCGTGCC
Statistics
Matches: 163, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
112 1 0.01
113 132 0.81
114 30 0.18
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (114 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATAT
TTGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTAAATCCAGGTTAAAT
Found at i:49954804 original size:38 final size:38
Alignment explanation
Indices: 49954514--49954804 Score: 385
Period size: 38 Copynumber: 7.7 Consensus size: 38
49954504 GGCCTAAAGA
*
49954514 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
*
49954552 CCCGCAGGCTTTGTGCTGGTAATATATCC-GGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
49954589 CCTGCAGGCTTCGTGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAAT
*
49954627 CCCGCAGGCTTCGTGCTGGTAATATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
**
49954665 CCCGCAGGCTTCGTGCTGGTAATATATTTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
49954703 CCCGCAGGCTTCGTGCT-GTAATAAATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * *
49954740 CCCACGGGCTTCGTGCTAGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
49954778 CCCACAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATAT
49954805 TTGGGCCTTC
Statistics
Matches: 228, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.01
37 64 0.28
38 158 0.69
39 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:49954879 original size:43 final size:43
Alignment explanation
Indices: 49954802--49954883 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
49954792 GCTGGTATTA
* * **
49954802 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
49954845 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
49954884 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:49980144 original size:17 final size:18
Alignment explanation
Indices: 49980117--49980151 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
49980107 GGCCAAAATG
49980117 GGCTGTGTGGGCCCCACA
1 GGCTGTGTGGGCCCCACA
49980135 GGCT-TGTGGGCCCCACA
1 GGCTGTGTGGGCCCCACA
49980152 CGGGTAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.11, C:0.34, G:0.37, T:0.17
Consensus pattern (18 bp):
GGCTGTGTGGGCCCCACA
Found at i:49980405 original size:27 final size:27
Alignment explanation
Indices: 49980375--49980539 Score: 190
Period size: 27 Copynumber: 6.1 Consensus size: 27
49980365 AGACCTTTTT
49980375 TGTGGTAAAATGACTATTTTGCCCTTA
1 TGTGGTAAAATGACTATTTTGCCCTTA
*
49980402 TGTGGTACAATGACTATTTTGCCCTTA
1 TGTGGTAAAATGACTATTTTGCCCTTA
* *
49980429 TGTGGTAAAATGATTGTTTTGCCCTTA
1 TGTGGTAAAATGACTATTTTGCCCTTA
* *
49980456 TGTGGTCAAATGACTGTTTTGCCCTTA
1 TGTGGTAAAATGACTATTTTGCCCTTA
** * *
49980483 TGACGTGAAATGACTACTTTT-CCATTA
1 TGTGGTAAAATGACTA-TTTTGCCCTTA
* * * *
49980510 TATGGTAAGATGACTGTTTTTCCC-TA
1 TGTGGTAAAATGACTATTTTGCCCTTA
49980536 TGTG
1 TGTG
49980540 ATGTATATAT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 9 0.08
27 104 0.89
28 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (27 bp):
TGTGGTAAAATGACTATTTTGCCCTTA
Found at i:49985381 original size:42 final size:41
Alignment explanation
Indices: 49985330--49985451 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
49985320 GGACTATTTT
* * * *
49985330 GAGAATTACATAGCCTGGAACACAGCTGTGTGACCCTACTCA
1 GAGAGTTACATGGGCTGGGACACAG-TGTGTGACCCTACTCA
* * *
49985372 GAGAGTTACACGGGCTGGGACACTGTCGCT-TGACCCTACTTA
1 GAGAGTTACATGGGCTGGGACACAGT-G-TGTGACCCTACTCA
* *
49985414 GAGAGTTACATGGGCTGGGACATAGTTGTGTGTCCCTA
1 GAGAGTTACATGGGCTGGGACACAG-TGTGTGACCCTA
49985452 GTTTGAAGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.03
42 61 0.94
43 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
GAGAGTTACATGGGCTGGGACACAGTGTGTGACCCTACTCA
Found at i:49993385 original size:39 final size:39
Alignment explanation
Indices: 49993250--49993369 Score: 222
Period size: 39 Copynumber: 3.1 Consensus size: 39
49993240 TGTGAATATA
49993250 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
49993289 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
49993328 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
49993367 TAT
1 TAT
49993370 GTGCTGGACA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:50002281 original size:42 final size:43
Alignment explanation
Indices: 50002219--50002366 Score: 208
Period size: 43 Copynumber: 3.5 Consensus size: 43
50002209 ATTTGAAAAA
* * *
50002219 AAACACCGCTAAAAGTCATGGCTTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTACCAC
*
50002262 AAACGCCGCT-AAGGTCATGGCCTTTAGCGGTGCTTTTACCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTACCAC
* * *
50002304 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTACCAC
* *
50002347 AAATGCCGCTAAAAGTCATG
1 AAACGCCGCTAAAGGTCATG
50002367 AAATTTTAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 39 0.41
43 55 0.59
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTTACCAC
Found at i:50006548 original size:21 final size:20
Alignment explanation
Indices: 50006522--50006606 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 20
50006512 ACTCCTAAAC
50006522 CTTAAAGCCTAAACCATATAT
1 CTTAAA-CCTAAACCATATAT
* * *
50006543 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAAC-CTA---AAC-CATATAT
50006568 CTTAAACCCTAAACCATATAT
1 CTTAAA-CCTAAACCATATAT
50006589 CTTAAACCATAAACCATA
1 CTTAAACC-TAAACCATA
50006607 AACTATAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
20 3 0.06
21 28 0.55
22 3 0.06
24 3 0.06
25 13 0.25
26 1 0.02
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (20 bp):
CTTAAACCTAAACCATATAT
Found at i:50006558 original size:46 final size:46
Alignment explanation
Indices: 50006506--50006595 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
50006496 CTTCAAATAC
* *
50006506 TAGTTAACTCCTAAACCTTAAAGCCTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
50006552 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
50006596 CATAAACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:50006575 original size:7 final size:7
Alignment explanation
Indices: 50006561--50006614 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
50006551 ATAGTTAACT
50006561 CATAAAC
1 CATAAAC
*
50006568 CTTAAAC
1 CATAAAC
*
50006575 CCTAAAC
1 CATAAAC
* *
50006582 CATATAT
1 CATAAAC
*
50006589 CTTAAAC
1 CATAAAC
50006596 CATAAAC
1 CATAAAC
50006603 CATAAAC
1 CATAAAC
*
50006610 TATAA
1 CATAA
50006615 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:50006832 original size:41 final size:40
Alignment explanation
Indices: 50006771--50006949 Score: 234
Period size: 41 Copynumber: 4.4 Consensus size: 40
50006761 GTTATATGAC
* *
50006771 TTTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
50006812 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCT-GT
* *
50006853 TTTTAGCGGCTTTTTTCAAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
* * * *
50006893 TTTTTGCGGCATTTTTTACTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGC-GTTTTT-CCAAAAGCGCCGCTAATGCTCTGT
*
50006934 TTTTAGTGGCGTTTTT
1 TTTTAGCGGCGTTTTT
50006950 GGTAAAACGC
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 16 0.13
41 105 0.83
42 5 0.04
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGT
Found at i:50006956 original size:40 final size:40
Alignment explanation
Indices: 50006771--50006979 Score: 233
Period size: 41 Copynumber: 5.1 Consensus size: 40
50006761 GTTATATGAC
* * *
50006771 TTTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTCT-GT
*
50006812 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTCT-GT
* *
50006853 TTTTAGCGGCTTTTTTCAAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTCTGT
* * *
50006893 TTTTTGCGGCATTTTTTACTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGC-GTTTTT-CTAAAAGCGCCGCTAATGCTCTGT
* * * *
50006934 TTTTAGTGGCGTTTTTGGTAAAA-CGCCGCTATTGCTATGT
1 TTTTAGCGGCGTTTTT-CTAAAAGCGCCGCTAATGCTCTGT
50006974 GTTTTA
1 -TTTTA
50006980 CAATTTTTGC
Statistics
Matches: 152, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
40 37 0.24
41 110 0.72
42 5 0.03
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTCTGT
Found at i:50007018 original size:12 final size:12
Alignment explanation
Indices: 50007003--50007028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50006993 GTTTTTTGAT
50007003 AAAACGCCGCTA
1 AAAACGCCGCTA
50007015 AAAACGCCGCTA
1 AAAACGCCGCTA
50007027 AA
1 AA
50007029 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:50025341 original size:15 final size:15
Alignment explanation
Indices: 50025321--50025349 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50025311 CATAAGAATA
50025321 AGTAAAACCAGGATT
1 AGTAAAACCAGGATT
50025336 AGTAAAACCAGGAT
1 AGTAAAACCAGGAT
50025350 CAATCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (15 bp):
AGTAAAACCAGGATT
Found at i:50036791 original size:103 final size:103
Alignment explanation
Indices: 50036612--50036817 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
50036602 CAATCAAGTA
*
50036612 CTTTATAAACTAGAACACACATGTTTCACGTATTTCAAGTTAGTCCTAAACATCAAATTAAACAC
1 CTTTATAAACTAGAACACACATGTTTCACCTATTTCAAGTTAGTCCTAAACATCAAATTAAACAC
50036677 CTAGTCATAAAATTTTCAACCTCGAATTCGTGGTTTCG
66 CTAGTCATAAAATTTTCAACCTCGAATTCGTGGTTTCG
* *
50036715 CTTTATAAACTAGAACACACATTTTTCACCTATTTCAATTTAGTCCTAAACATCAAATTAAACAC
1 CTTTATAAACTAGAACACACATGTTTCACCTATTTCAAGTTAGTCCTAAACATCAAATTAAACAC
50036780 CTAGTCATAAAATTTTCAACCTCGAATTCGTGGTTTCG
66 CTAGTCATAAAATTTTCAACCTCGAATTCGTGGTTTCG
50036818 AAACCACTGT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (103 bp):
CTTTATAAACTAGAACACACATGTTTCACCTATTTCAAGTTAGTCCTAAACATCAAATTAAACAC
CTAGTCATAAAATTTTCAACCTCGAATTCGTGGTTTCG
Found at i:50044920 original size:27 final size:27
Alignment explanation
Indices: 50044890--50044944 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
50044880 ATAATTATAG
50044890 TTAAGTACGTCTATTTGCTTATAAACT
1 TTAAGTACGTCTATTTGCTTATAAACT
*
50044917 TTAAGTATGTCTATTTGCTTATAAACT
1 TTAAGTACGTCTATTTGCTTATAAACT
50044944 T
1 T
50044945 ACCTCAGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (27 bp):
TTAAGTACGTCTATTTGCTTATAAACT
Found at i:50050326 original size:27 final size:26
Alignment explanation
Indices: 50050291--50050402 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
50050281 AGCATGGCTG
* *
50050291 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
50050317 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
50050345 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
50050372 CCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
50050399 CCAG
1 CCAG
50050403 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:50050392 original size:54 final size:54
Alignment explanation
Indices: 50050291--50050402 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
50050281 AGCATGGCTG
* *
50050291 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAACCA
* * * *
50050345 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTATGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAACCA
50050399 CCAG
1 CCAG
50050403 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAACCA
Done.