Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 145 of 310
Found at i:47339944 original size:43 final size:43
Alignment explanation
Indices: 47339808--47339968 Score: 177
Period size: 43 Copynumber: 3.7 Consensus size: 43
47339798 CATAGGACTC
* * * *
47339808 CGATATCTGATTTCGTGTAAGACCATGTCTGAGA-TGTTGACAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
*
47339851 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACA-TCGGCAT
1 CGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
*
47339895 C-ATATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
47339937 CGATATTTGATTACATATAAGACCATGTCTGG
1 CGATATTTGATTTCGTGTAAGACCATGTCTGG
47339969 AACGTTGGCA
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
42 29 0.29
43 44 0.44
44 27 0.27
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:47346485 original size:50 final size:49
Alignment explanation
Indices: 47346410--47346600 Score: 185
Period size: 48 Copynumber: 3.9 Consensus size: 49
47346400 AAGGATAAGA
* * *
47346410 TGCCGATGCGATGTCCCAGACATGGTCTTACACTAGTTCTTATATATCAG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAG-TCTCATATATCAG
* * *
47346460 TGCCGATGCCATGTTCCAAACATGGTCTTACACT-GGCTCACATATCGAG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGTCTCATATATC-AG
* * * *
47346509 -GCTGATGCTATGTCCCAAACATGGTCTTACATTAGCTCTCATA-A-CAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAG-TCTCATATATCAG
* * * * *
47346556 TGCCGAGGTCATGTTCCAAACATGGTCTTACGCT-GGCTCATATAT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGTCTCATATAT
47346601 AACCCTAGTA
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
46 6 0.05
47 3 0.03
48 64 0.56
49 5 0.04
50 36 0.32
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGTCTCATATATCAG
Found at i:47346584 original size:96 final size:98
Alignment explanation
Indices: 47346414--47346600 Score: 270
Period size: 96 Copynumber: 1.9 Consensus size: 98
47346404 ATAAGATGCC
* * * * *
47346414 GATGCGATGTCCCAGACATGGTCTTACACTAGTTCTTATATATCAGTGCCGATGCCATGTTCCAA
1 GATGCGATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCAATGCCGAGGCCATGTTCCAA
47346479 ACATGGTCTTACACTGGCTCACATATCGAGGCT
66 ACATGGTCTTACACTGGCTCACATATCGAGGCT
* * *
47346512 GATGCTATGTCCCAAACATGGTCTTACATTAGCTCTCATA-A-CAATGCCGAGGTCATGTTCCAA
1 GATGCGATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCAATGCCGAGGCCATGTTCCAA
* *
47346575 ACATGGTCTTACGCTGGCTCATATAT
66 ACATGGTCTTACACTGGCTCACATAT
47346601 AACCCTAGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 43 0.54
97 1 0.01
98 35 0.44
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (98 bp):
GATGCGATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCAATGCCGAGGCCATGTTCCAA
ACATGGTCTTACACTGGCTCACATATCGAGGCT
Found at i:47348124 original size:29 final size:29
Alignment explanation
Indices: 47348090--47348151 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
47348080 GGACTTAATT
47348090 TTCCTTTCCTACCGAATATAAGGACTTTC
1 TTCCTTTCCTACCGAATATAAGGACTTTC
* * *
47348119 TTCCTTTCTTACCGAATCTGAGGACTTTC
1 TTCCTTTCCTACCGAATATAAGGACTTTC
47348148 TTCC
1 TTCC
47348152 AGGGAGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.40
Consensus pattern (29 bp):
TTCCTTTCCTACCGAATATAAGGACTTTC
Found at i:47351703 original size:41 final size:41
Alignment explanation
Indices: 47351587--47351725 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 41
47351577 AAATGTGTTC
* *
47351587 TCGTGTAAGACCAC-GTCTGGGAAATTGGCATTGATATATGAT
1 TCGTGTAAGACC-CTGTCTGGGACA-TGGCATCGATATATGAT
* * * * *
47351629 TATGTGTAAGACCATGTCTGGTACATCGACATCG-TATTTGAT
1 T-CGTGTAAGACCCTGTCTGGGACAT-GGCATCGATATATGAT
**
47351671 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGGGATT
1 TCGTGTAAGACCCTGTCTGGGACA-TGGCATCGATATATGA-T
*
47351714 TCATGTAAGACC
1 TCGTGTAAGACC
47351726 ACATCTAGGA
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.34
42 16 0.21
43 35 0.45
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACATGGCATCGATATATGAT
Found at i:47358012 original size:49 final size:50
Alignment explanation
Indices: 47357890--47358024 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 50
47357880 GTGTATAGGT
47357890 GTCAGTGTAAGACCATGTATGGGACATGGCATCGACACAGATATGTGAGA
1 GTCAGTGTAAGACCATGTATGGGACATGGCATCGACACAGATATGTGAGA
* * * * *
47357940 G-CTAGTGTAAGACCATGTCTGGGACATAGCGTCGAC-CTCGAT-T-TCGATA
1 GTC-AGTGTAAGACCATGTATGGGACATGGCATCGACAC-AGATATGT-GAGA
*
47357989 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 GTCAGTGTAAGACCATGTATGGGACATGGCATCGAC
47358025 TGGATGGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
48 1 0.01
49 37 0.51
50 35 0.48
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTATGGGACATGGCATCGACACAGATATGTGAGA
Found at i:47359268 original size:20 final size:21
Alignment explanation
Indices: 47359229--47359268 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47359219 GTTATAATGA
47359229 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
47359250 CCACACGTGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
47359269 ATTTAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:47367070 original size:48 final size:47
Alignment explanation
Indices: 47366975--47367237 Score: 250
Period size: 48 Copynumber: 5.5 Consensus size: 47
47366965 ATGCCTGGGA
* *
47366975 CATGTCTGGGACAT-GCATCGGCTACGAGA-T-GTGTCAGTGTAAAAC
1 CATGTCTGGGACATGGCATCGGC-ACGATATTGGTGTCAGTGTAAGAC
* *
47367020 CATGTCTGGGACATGGCATCAGCACGTATATAGGTGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCACG-ATATTGGTGTCAGTGTAAGAC
* *
47367068 CATGTCTGGGACATGGCATCGGCATGGATATCTGAGAGAT-AGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCA-CGATAT-TG-GTG-TCAGTGTAAGAC
* * *
47367118 CATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGG-CACGATATTGGT-GTCAGTGTAAGAC
* ** * *
47367167 CATGTCTGGGACATGGCATCGACTTGATGGA-T-GAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCACGAT--ATTGGTGTCAGTGTAAGAC
* *
47367214 CATGTCTAGAACATGGCATCGGCA
1 CATGTCTGGGACATGGCATCGGCA
47367238 TTATACCCCA
Statistics
Matches: 182, Mismatches: 23, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
45 17 0.09
46 9 0.05
47 32 0.18
48 47 0.26
49 37 0.20
50 38 0.21
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
CATGTCTGGGACATGGCATCGGCACGATATTGGTGTCAGTGTAAGAC
Found at i:47367182 original size:99 final size:98
Alignment explanation
Indices: 47367010--47367187 Score: 277
Period size: 99 Copynumber: 1.8 Consensus size: 98
47367000 GAGATGTGTC
*
47367010 AGTGTAAAACCATGTCTGGGACATGGCATCAGCACGTATATAGGTGTCAGTGTAAGACCATGTCT
1 AGTGTAAAACCATGTCTGGGACATGGCATCAGCACGTATATAGATGTCAGTGTAAGACCATGTCT
47367075 GGGACATGGCATCGGCATGGATATCTGAGAGAT
66 GGGACATGGCATCGGCATGGATATCTGAGAGAT
* * * * *
47367108 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATTTTGATAGTCAGTGTAAGACCATGT
1 AGTGTAAAACCATGTCTGGGACATGGCATCAG-CACGTATATAGAT-GTCAGTGTAAGACCATGT
47367172 CTGGGACATGGCATCG
64 CTGGGACATGGCATCG
47367188 ACTTGATGGA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
98 35 0.49
99 37 0.51
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (98 bp):
AGTGTAAAACCATGTCTGGGACATGGCATCAGCACGTATATAGATGTCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCATGGATATCTGAGAGAT
Found at i:47369652 original size:48 final size:48
Alignment explanation
Indices: 47369594--47369776 Score: 177
Period size: 48 Copynumber: 3.8 Consensus size: 48
47369584 ATATATTGGT
* * *
47369594 GCCGATGCCATGTCCCAAACATGGTCTTATACTGGCTCATACAACAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACAAG
* * * * * * *
47369642 GTCGATGCCATGTTCTAAACATAGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACAAG
* * * *
47369690 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACAAG
* * * * * * *
47369738 GCTGAGGTCATGTTCTAAATATGGTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCA
47369777 TATATAAACC
Statistics
Matches: 109, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 109 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACAAG
Found at i:47369718 original size:96 final size:96
Alignment explanation
Indices: 47369562--47369781 Score: 266
Period size: 96 Copynumber: 2.3 Consensus size: 96
47369552 CATGTCCCAG
* * * *
47369562 ACATGGTCTTACACTAGTTCTCATATATTG-GTGCCGATGCCATGTCCCAAACATGGTCTTATAC
1 ACATAGTCTTACACTAG--CTCACATATCGAG-GCCGATGCCATGTCCCAAACATGGTCTTACAC
* *
47369626 TGGCTCAT-ACAACAATG-TCGATGCCATGTTCTAA
63 TAGCTC-TCACAACAATGCT-GAGGCCATGTTCTAA
*
47369660 ACATAGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
1 ACATAGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
* *
47369725 CTCTCATAACAATGCTGAGGTCATGTTCTAA
66 CTCTCACAACAATGCTGAGGCCATGTTCTAA
* * *
47369756 ATATGGTCTTACACTAGCTCATATAT
1 ACATAGTCTTACACTAGCTCACATAT
47369782 AAACCTAGTA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
95 1 0.01
96 88 0.83
97 2 0.02
98 15 0.14
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (96 bp):
ACATAGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
CTCTCACAACAATGCTGAGGCCATGTTCTAA
Found at i:47371350 original size:22 final size:22
Alignment explanation
Indices: 47371325--47371367 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47371315 CCCCTAGGAA
*
47371325 TTGAAAAGTGCAATTAGGGTGT
1 TTGAAAAATGCAATTAGGGTGT
47371347 TTGAAAAATGCAATTAGGGTG
1 TTGAAAAATGCAATTAGGGTG
47371368 CTCCAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (22 bp):
TTGAAAAATGCAATTAGGGTGT
Found at i:47375990 original size:19 final size:19
Alignment explanation
Indices: 47375968--47376006 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47375958 AAGACTTAGT
47375968 TATTTTATGTTTTCTTATA
1 TATTTTATGTTTTCTTATA
47375987 TATTTTATGTTTTCTTATA
1 TATTTTATGTTTTCTTATA
47376006 T
1 T
47376007 CTTCCCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TATTTTATGTTTTCTTATA
Found at i:47388362 original size:7 final size:7
Alignment explanation
Indices: 47388348--47388385 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
47388338 ACTTTTTCAA
47388348 TCATCCC
1 TCATCCC
*
47388355 TTATCCC
1 TCATCCC
47388362 TCATCCC
1 TCATCCC
47388369 TCATCCC
1 TCATCCC
47388376 TCATCCC
1 TCATCCC
47388383 TCA
1 TCA
47388386 ATCATCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.16, C:0.53, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:47391080 original size:18 final size:18
Alignment explanation
Indices: 47391057--47391207 Score: 79
Period size: 18 Copynumber: 7.9 Consensus size: 18
47391047 GAATAATTAT
47391057 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
47391075 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
47391093 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
47391111 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
47391137 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
47391155 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
47391172 ATATTCAGTAACTATTAAA
1 TTATTCAGTAAC-AGTCAG
47391191 TTATTCAGTAACAGTCA
1 TTATTCAGTAACAGTCA
47391208 ATCTTTCCAG
Statistics
Matches: 97, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
17 14 0.14
18 52 0.54
19 15 0.15
21 2 0.02
22 1 0.01
23 2 0.02
26 11 0.11
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:47391395 original size:12 final size:12
Alignment explanation
Indices: 47391378--47391408 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47391368 ACAAATTCAA
47391378 AATAGTAACAGT
1 AATAGTAACAGT
47391390 AATAGTAACAGT
1 AATAGTAACAGT
*
47391402 AACAGTA
1 AATAGTA
47391409 TTCAACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.23
Consensus pattern (12 bp):
AATAGTAACAGT
Found at i:47391445 original size:45 final size:45
Alignment explanation
Indices: 47391388--47391582 Score: 291
Period size: 45 Copynumber: 4.3 Consensus size: 45
47391378 AATAGTAACA
* * * *
47391388 GTAATAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
47391433 GTAACGGTAACAGTAATAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
47391478 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
47391523 ATAACAGTAGCAGTAACAATATTCGACACGCAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
47391568 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
47391583 GCGGTAACTG
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 138 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:47392005 original size:10 final size:10
Alignment explanation
Indices: 47391991--47392025 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
47391981 AATTAATCAT
47391991 AATTCCATTC
1 AATTCCATTC
*
47392001 CATTCCATTC
1 AATTCCATTC
*
47392011 AATTCAATTC
1 AATTCCATTC
47392021 AATTC
1 AATTC
47392026 AAATTCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTCCATTC
Found at i:47395921 original size:48 final size:50
Alignment explanation
Indices: 47395804--47395927 Score: 157
Period size: 48 Copynumber: 2.5 Consensus size: 50
47395794 CGAGGTCGAC
*
47395804 GCCATGTCCTAGACATGGTCTTACACTACCTCTCACATATCTGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTACCTCTCACATATCTGTGCCGAT
* * *
47395854 GCCATGCCCCAGACATGGTCTTACACTAACAC-CTC-TATA-C-GTGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-AC-CTCTCACATATCTGTGCCGAT
*
47395902 GCCATGTCCCGGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
47395928 CGGACATAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
48 31 0.47
49 1 0.02
50 28 0.42
51 5 0.08
52 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTACCTCTCACATATCTGTGCCGAT
Found at i:47395932 original size:17 final size:17
Alignment explanation
Indices: 47395910--47395944 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47395900 ATGCCATGTC
*
47395910 CCGGACATGGTCTTACA
1 CCGGACATAGTCTTACA
47395927 CCGGACATAGTCTTACA
1 CCGGACATAGTCTTACA
47395944 C
1 C
47395945 TGACACCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (17 bp):
CCGGACATAGTCTTACA
Found at i:47396015 original size:46 final size:45
Alignment explanation
Indices: 47395959--47396128 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
47395949 ACCTCTCGTA
* * *
47395959 GCCGAGGCATGTCCTAGATATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* * * * *
47396005 GCCGATGCATGTCCCAGACATATCTTACACTAGCCTT-GTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGAG
* * *
47396050 GCCAATGCCATGTCCCAGACATGCTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCT-TCAT-CTCGAG
47396098 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
47396129 AACAAACAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 11 0.11
46 53 0.52
47 29 0.29
48 7 0.07
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:47403677 original size:48 final size:50
Alignment explanation
Indices: 47403511--47403732 Score: 191
Period size: 48 Copynumber: 4.6 Consensus size: 50
47403501 GGTATAATAT
* * *
47403511 CGATGCCATGTCCCGGACATGGTTTTACACTAACTA--TCGAAATCAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACCTCTAAATC-AGTGC
* * * * *
47403560 CGACGCCATGTCCTAGACATGGTCTTACACTAGC-TCTC-ACATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTA-A-ATCAGTGC
*
47403610 CGATGCCGTGTCCCAGACATGGTCTTACACTAACACCTCTAAA-C-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTAAATCAGTGC
* * * *
47403658 CAATGCCATGTCCCGGACATGGTCTTACACTGACACCTCT-AGT-A--GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTAAATCAGTGC
*
47403704 CGATG-CATGTCCTAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
47403733 GGCTTACATC
Statistics
Matches: 145, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.07
45 12 0.08
46 6 0.04
47 1 0.01
48 41 0.28
49 34 0.23
50 36 0.25
51 4 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTAAATCAGTGC
Found at i:47403816 original size:138 final size:142
Alignment explanation
Indices: 47403566--47403826 Score: 320
Period size: 138 Copynumber: 1.9 Consensus size: 142
47403556 AGGCCGACGC
* * *
47403566 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCGTGTCCCAGACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGGGCCAATGCCATGTCCCAGACATG
**
47403631 GTCTTACACTAACACCTCTAAACGTGCCAATGCCATGTCCCGGACATGGTCTTACACTGACACCT
66 GTCTTACACTAACACCTCTAAAC-TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACACCT
47403696 CTAGTAGCCGATG
130 CTAGTAGCCGATG
* *
47403709 CATGTCCTAGACAT-GTCTTACACTGGCT-T-ACATCT-TGAGGCCAATG-CATGTCCCAGACAT
1 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTG-GGCCAATGCCATGTCCCAGACAT
* * * * * *
47403769 -GTCTTACTCTAGCTCTCGTCTCAA-TGCCGATGCCATGTCTCAAACATGGTCTTACACT
65 GGTCTTACACTAACAC-C-TCTAAACTGCCAATGCCATGTCCCAAACATGGTCTTACACT
47403827 AGCTCTCATA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
138 42 0.41
139 16 0.16
140 16 0.16
141 1 0.01
142 13 0.13
143 14 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (142 bp):
CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGGGCCAATGCCATGTCCCAGACATG
GTCTTACACTAACACCTCTAAACTGCCAATGCCATGTCCCAAACATGGTCTTACACTGACACCTC
TAGTAGCCGATG
Found at i:47403829 original size:48 final size:47
Alignment explanation
Indices: 47403511--47403875 Score: 216
Period size: 46 Copynumber: 7.7 Consensus size: 47
47403501 GGTATAATAT
* * * * ** *
47403511 CGATGCCATGTCCCGGACATGGTTTTACACTAACTATCGAAATCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--TCTCAATGC
* * * **
47403560 CGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--C-TCTCAATGC
* * * *
47403610 CGATGCCGTGTCCCAGACATGGTCTTACACTAACAC-CTCTAAACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAA--TGC
* * * *
47403658 CAATGCCATGTCCCGGACATGGTCTTACACT-GACAC-CTCT-AGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCTCTCAAT-GC
* * ** *
47403704 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TACATCTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-C-TCTCAATGC
* *
47403750 CAATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCAATGC
* * *
47403796 CGATGCCATGTCTCAAACATGGTCTTACACTAGCTCTC-AT-AACGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAA--T-GC
* *
47403844 AGATG-CATGTCCCAGTCAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
47403876 ACACAAATAA
Statistics
Matches: 251, Mismatches: 48, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.04
45 17 0.07
46 67 0.27
47 27 0.11
48 60 0.24
49 31 0.12
50 37 0.15
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAATGC
Found at i:47407104 original size:10 final size:10
Alignment explanation
Indices: 47407087--47407228 Score: 72
Period size: 10 Copynumber: 14.0 Consensus size: 10
47407077 CATTTTAACA
47407087 ATATATTATT
1 ATATATTATT
47407097 -TCATATTATT
1 AT-ATATTATT
47407107 AT-TATTTATT
1 ATATA-TTATT
47407117 ATATATTATTTTT
1 ATATATTA---TT
*
47407130 CATAAATTATT
1 -ATATATTATT
47407141 AT-TATT-TT
1 ATATATTATT
*
47407149 ACATTATTATTT
1 ATA-TATTA-TT
47407161 ATATATTATT
1 ATATATTATT
47407171 ATTATATT-TT
1 A-TATATTATT
47407181 -TACT-TGTATT
1 ATA-TAT-TATT
47407191 ATATA-T-TT
1 ATATATTATT
47407199 AT-TAATTATT
1 ATAT-ATTATT
47407209 -TATATATATT
1 ATATAT-TATT
47407219 ATATATTATT
1 ATATATTATT
47407229 TTTACATATA
Statistics
Matches: 104, Mismatches: 4, Indels: 48
0.67 0.03 0.31
Matches are distributed among these distances:
7 1 0.01
8 11 0.11
9 13 0.12
10 43 0.41
11 23 0.22
12 4 0.04
13 2 0.02
14 7 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
ATATATTATT
Found at i:47407106 original size:3 final size:3
Alignment explanation
Indices: 47407100--47407228 Score: 61
Period size: 3 Copynumber: 40.3 Consensus size: 3
47407090 TATTATTTCA
* *
47407100 TAT TAT TAT TATT TAT TAT ATAT TAT TTT TCAT AAAT TAT TAT TAT T-T
1 TAT TAT TAT TA-T TAT TAT -TAT TAT TAT T-AT -TAT TAT TAT TAT TAT
* * *
47407148 TA- CAT TAT TATT TAT ATAT TAT TAT TA- TAT TTT TACT T-G TAT TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
47407193 ATATT TAT TAAT TAT T-T ATAT ATAT TAT ATAT TAT T
1 -TA-T TAT T-AT TAT TAT -TAT -TAT TAT -TAT TAT T
47407229 TTTACATATA
Statistics
Matches: 99, Mismatches: 10, Indels: 34
0.69 0.07 0.24
Matches are distributed among these distances:
2 7 0.07
3 59 0.60
4 32 0.32
5 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:47407122 original size:20 final size:20
Alignment explanation
Indices: 47407099--47407229 Score: 91
Period size: 20 Copynumber: 6.8 Consensus size: 20
47407089 ATATTATTTC
47407099 ATATTATTATTATTTATTAT
1 ATATTATTATTATTTATTAT
* **
47407119 ATATTATTTTTCATAAATTAT
1 ATATTATTATT-ATTTATTAT
*
47407140 -TATTATT-TTACATTATTAT
1 ATATTATTATTA-TTTATTAT
*
47407159 TTA-TA-TATTA-TTATTAT
1 ATATTATTATTATTTATTAT
* *
47407176 AT-TT-TTACT-TGTATTAT
1 ATATTATTATTATTTATTAT
47407193 ATATTTATTAATTATTTA-TAT
1 ATA-TTATT-ATTATTTATTAT
47407214 ATATTATATATTATTT
1 ATATTAT-TATTATTT
47407230 TTACATATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
17 20 0.23
18 2 0.02
19 14 0.16
20 32 0.37
21 16 0.18
22 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (20 bp):
ATATTATTATTATTTATTAT
Found at i:47407123 original size:30 final size:30
Alignment explanation
Indices: 47407087--47407220 Score: 98
Period size: 32 Copynumber: 4.3 Consensus size: 30
47407077 CATTTTAACA
47407087 ATATATTATTTCATATTATTATTATTTATT
1 ATATATTATTTCATATTATTATTATTTATT
47407117 ATATATTATTTTTCATAAATTATTATTA-TT-TT
1 ATATATTA--TTTCAT--ATTATTATTATTTATT
* * *
47407149 ACATTATTATTTATATATTATTATTATATTTTT
1 ATA-TATTATTT-CATATTATTATTAT-TTATT
* *
47407182 ACTTGTATTATAT-AT-TTATTAATTATTTA-T
1 A--TATATTATTTCATATTATT-ATTATTTATT
47407212 ATATATTAT
1 ATATATTAT
47407221 ATATTATTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
28 7 0.08
30 20 0.24
31 10 0.12
32 21 0.25
33 10 0.12
34 17 0.20
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
ATATATTATTTCATATTATTATTATTTATT
Found at i:47407155 original size:50 final size:50
Alignment explanation
Indices: 47407090--47407236 Score: 142
Period size: 51 Copynumber: 2.9 Consensus size: 50
47407080 TTTAACAATA
* *
47407090 TATTATTTCATATTATTATTATTTATTATATATTATTTTTCATAAAT-TAT
1 TATTATTTTA-ATTATTATTATATATTATATATTATTTTTCATAAATGTAT
**
47407140 TATTATTTTACATTATTATTTATATATTAT-TATTATATTTT--TACTTGTAT
1 TATTATTTTA-ATTATTA-TTATATATTATATATTAT-TTTTCATAAATGTAT
47407190 TATATATTTATTAATTATT-TATATATATTATATATTATTTTTACATA
1 TAT-TA-TT-TTAATTATTAT-TATATATTATATATTATTTTT-CATA
47407237 TATACACTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
49 3 0.04
50 29 0.36
51 30 0.37
52 14 0.17
53 3 0.04
54 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (50 bp):
TATTATTTTAATTATTATTATATATTATATATTATTTTTCATAAATGTAT
Found at i:47417580 original size:15 final size:14
Alignment explanation
Indices: 47417562--47417609 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
47417552 ATATTATAAT
47417562 TTTTATTAATTCATA
1 TTTTATTAATT-ATA
47417577 TTTTAATAATAATTATA
1 TTTT-AT--TAATTATA
47417594 TTTTATTAAATTATA
1 TTTTATT-AATTATA
47417609 T
1 T
47417610 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 12 0.41
16 4 0.14
17 7 0.24
18 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATTAATTATA
Found at i:47417865 original size:16 final size:16
Alignment explanation
Indices: 47417844--47417907 Score: 85
Period size: 16 Copynumber: 4.0 Consensus size: 16
47417834 TGAATTACTG
*
47417844 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
* *
47417860 ATTACAATTCTATTAC
1 ATTACAACTCTATTCC
47417876 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
47417892 ATTACAA-TCCTATTCC
1 ATTACAACT-CTATTCC
47417908 TTCCCCCCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
15 1 0.02
16 41 0.98
ACGTcount: A:0.31, C:0.28, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:47417880 original size:32 final size:32
Alignment explanation
Indices: 47417844--47417905 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
47417834 TGAATTACTG
* *
47417844 ATTACAGCTCTATTCCATTACAATTCTATTAC
1 ATTACAACTCTATTCCATTACAATCCTATTAC
47417876 ATTACAACTCTATTCCATTACAATCCTATT
1 ATTACAACTCTATTCCATTACAATCCTATT
47417906 CCTTCCCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.40
Consensus pattern (32 bp):
ATTACAACTCTATTCCATTACAATCCTATTAC
Found at i:47420637 original size:42 final size:42
Alignment explanation
Indices: 47420574--47420694 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
47420564 AAATGGTTTT
* *
47420574 ACAAGCTGTGTATCAA-TGAAGCTCCCCATGTGAGCTTAAATG
1 ACAAGTTGTGTAT-AAGCGAAGCTCCCCATGTGAGCTTAAATG
* * * *
47420616 ACAAGTTGTGTATAAGCGAAGCTCCCCACGTGATCTTAAGTT
1 ACAAGTTGTGTATAAGCGAAGCTCCCCATGTGAGCTTAAATG
* * * *
47420658 ACAAGTTGTGTATCAGCAAAGCTCCCCGTGCGAGCTT
1 ACAAGTTGTGTATAAGCGAAGCTCCCCATGTGAGCTT
47420695 GCTCCTCATT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (42 bp):
ACAAGTTGTGTATAAGCGAAGCTCCCCATGTGAGCTTAAATG
Found at i:47421096 original size:15 final size:15
Alignment explanation
Indices: 47421078--47421107 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47421068 TTAAAAAAAC
*
47421078 ACATGTTATAATATA
1 ACATATTATAATATA
47421093 ACATATTATAATATA
1 ACATATTATAATATA
47421108 GTTAAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
ACATATTATAATATA
Found at i:47423462 original size:18 final size:19
Alignment explanation
Indices: 47423427--47423470 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
47423417 TGCATGGCAA
* *
47423427 TATAAATTCATTAGATATT
1 TATAAATTCATTAAATATG
47423446 TATAAATT-ATTAAATATG
1 TATAAATTCATTAAATATG
47423464 TATAAAT
1 TATAAAT
47423471 AAGTTGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (19 bp):
TATAAATTCATTAAATATG
Found at i:47428536 original size:48 final size:49
Alignment explanation
Indices: 47428434--47428565 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 49
47428424 TGAAATCTTG
*
47428434 TATAAGACCATATCTGGGATATGGCATTGGTATC-G-ACACGAGATCCCA
1 TATAAGACCATATCTGGGATATGGCATTGGCATCTGTACAC-AGATCCCA
* * * * **
47428482 TGTAAGACCATATCTGGGATATGCCATTGGCATCTGTATA-AGGTTTCA
1 TATAAGACCATATCTGGGATATGGCATTGGCATCTGTACACAGATCCCA
* * *
47428530 TATAAGACCATGTCTGGGACATGGCATCGGCA-CTGT
1 TATAAGACCATATCTGGGATATGGCATTGGCATCTGT
47428566 TATTAGACTT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
47 4 0.06
48 63 0.90
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
TATAAGACCATATCTGGGATATGGCATTGGCATCTGTACACAGATCCCA
Found at i:47432750 original size:16 final size:16
Alignment explanation
Indices: 47432729--47432769 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
47432719 AGAGTAAATC
*
47432729 GAAAGCTCGTTGGATT
1 GAAAGCTCGTCGGATT
47432745 GAAAGCTCGTCGGATT
1 GAAAGCTCGTCGGATT
47432761 GAAAGCTCG
1 GAAAGCTCG
47432770 ACAGAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (16 bp):
GAAAGCTCGTCGGATT
Found at i:47436929 original size:47 final size:47
Alignment explanation
Indices: 47436886--47436980 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
47436876 ACCACATTTT
*
47436886 TGTTATGGCAACTTGGCTGCATTTATAGTGG-TTGAAGCACACATATC
1 TGTTATGGCAACTTGGCTGCA-ATATAGTGGCTTGAAGCACACATATC
* * * *
47436933 TGTTTTGGCAGCTTGGCTGCAATATAGTGGCTTG-ACCACATATATC
1 TGTTATGGCAACTTGGCTGCAATATAGTGGCTTGAAGCACACATATC
47436979 TG
1 TG
47436981 ATCTGGCAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
46 20 0.48
47 22 0.52
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (47 bp):
TGTTATGGCAACTTGGCTGCAATATAGTGGCTTGAAGCACACATATC
Found at i:47436978 original size:46 final size:47
Alignment explanation
Indices: 47436886--47436989 Score: 122
Period size: 46 Copynumber: 2.2 Consensus size: 47
47436876 ACCACATTTT
* * *
47436886 TGTTATGGCAACTTGGCTGCATTTATAGTGGTTGAAGCACACATATC
1 TGTTATGGCAGCTTGGCTGCATATATAGTGGTTGAACCACACATATC
* *
47436933 TGTTTTGGCAGCTTGGCTGCA-ATATAGTGGCTTG-ACCACATATATC
1 TGTTATGGCAGCTTGGCTGCATATATAGTGG-TTGAACCACACATATC
* *
47436979 TGATCTGGCAG
1 TGTTATGGCAG
47436990 TTTAAACTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.55
47 22 0.45
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (47 bp):
TGTTATGGCAGCTTGGCTGCATATATAGTGGTTGAACCACACATATC
Found at i:47437137 original size:22 final size:23
Alignment explanation
Indices: 47437098--47437140 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
47437088 TGGGTAGGAA
47437098 GTTTTCTGAAAAATTTGCATTTT
1 GTTTTCTGAAAAATTTGCATTTT
47437121 GTTTTCT--AAAATATTGCATT
1 GTTTTCTGAAAAAT-TTGCATT
47437141 GGCATAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (23 bp):
GTTTTCTGAAAAATTTGCATTTT
Found at i:47439417 original size:21 final size:21
Alignment explanation
Indices: 47439392--47439460 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
47439382 TATAATGATT
47439392 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
47439413 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
47439433 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
47439453 ATTATTAT
1 ATTATTAT
47439461 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:47441578 original size:20 final size:21
Alignment explanation
Indices: 47441540--47441584 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
47441530 CAATTAATTT
47441540 TTTTTTAAAAATTGAAAAT-A
1 TTTTTTAAAAATTGAAAATAA
*
47441560 TTTTTT-AAAATTGTTAAATAA
1 TTTTTTAAAAATTG-AAAATAA
47441581 TTTT
1 TTTT
47441585 AATAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTTTAAAAATTGAAAATAA
Found at i:47445710 original size:6 final size:7
Alignment explanation
Indices: 47445694--47445720 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47445684 GATTCATTAG
47445694 AAAAACA
1 AAAAACA
47445701 AAAAACA
1 AAAAACA
47445708 AAAAACA
1 AAAAACA
47445715 AAAAAC
1 AAAAAC
47445721 TTCATTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:47447246 original size:3 final size:3
Alignment explanation
Indices: 47447238--47447283 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
47447228 AAATCAAAAG
47447238 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47447284 AAGATACCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47448340 original size:13 final size:14
Alignment explanation
Indices: 47448312--47448345 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
47448302 ATGAGTTGCT
47448312 ATATAATATGATATA
1 ATATAATA-GATATA
47448327 ATATAATA-ATATA
1 ATATAATAGATATA
47448340 ATATAA
1 ATATAA
47448346 ATGGATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATAATAGATATA
Found at i:47449748 original size:26 final size:26
Alignment explanation
Indices: 47449695--47449750 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
47449685 TGTTATTTAT
* * *
47449695 TTTTCCTTTCTTTCTTTTTTATTTTA
1 TTTTCCTTTCTTTCTTTTTGAATCTA
47449721 TTTT-CTTTCTTTTCTTTTTGAATCTA
1 TTTTCCTTTC-TTTCTTTTTGAATCTA
47449747 TTTT
1 TTTT
47449751 ATACATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTCCTTTCTTTCTTTTTGAATCTA
Found at i:47450370 original size:3 final size:3
Alignment explanation
Indices: 47450362--47450485 Score: 124
Period size: 3 Copynumber: 40.3 Consensus size: 3
47450352 TTTGGCTACC
* * * * *
47450362 TTA TTA TTA -AA TTAA TTA TTT TTA ATA TTA TTA TTA TTA CTA TTT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
47450407 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTAA TGTA CTG TTA TTC TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA T-TA
47450455 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47450486 ACTATTAAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.01
3 88 0.90
4 8 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:47457257 original size:64 final size:64
Alignment explanation
Indices: 47457184--47457311 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
47457174 TCATTCATAA
* *
47457184 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGAAGAATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
47457248 CACATCTAGTTAGAAGAATTTGATTTATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGAAGAATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
47457312 AGATACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGAAGAATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:47457461 original size:44 final size:44
Alignment explanation
Indices: 47457390--47457655 Score: 134
Period size: 44 Copynumber: 6.0 Consensus size: 44
47457380 GCCTTGTCTC
** * **
47457390 TCTGAGGTAGCAATAAAACAGGTTGAAGATTGAAGTCTTATCTT
1 TCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGTCTTATCTT
* * * * *
47457434 TTTGAGGTAGTAAGGAAGCAGACTGAAGGTTGAAGATCTCATCTC
1 TCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG-TCTTATCTT
* *
47457479 TCT-A---AGCAATAGTGGAGCAGA-TCGAAGA-TGACGAATCTTATCTT
1 TCTGAGGTAGC-A-AG-GAAGCAGACT-GAAGATTGA--AGTCTTATCTT
* * * * * ** ***** * *
47457523 CCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTGTCTT
1 TCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGTCTTATCTT
**
47457567 TCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGAAGTCTTATC-T
1 TCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGAAGTCTTATCTT
47457610 TCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTT
1 TC-TGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG-TCTTATCTT
47457656 CCTAAGCAGT
Statistics
Matches: 159, Mismatches: 45, Indels: 34
0.67 0.19 0.14
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 10 0.06
44 109 0.69
45 30 0.19
46 3 0.02
47 1 0.01
48 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
TCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGTCTTATCTT
Found at i:47457674 original size:177 final size:176
Alignment explanation
Indices: 47457378--47457907 Score: 740
Period size: 177 Copynumber: 3.0 Consensus size: 176
47457368 GGTGAATTCA
* *
47457378 CAGCCTTGTCTCTCTGAGGTAGCAATAAAACAGGTTGAAGATTGAAGTCTTATCTTTTTGAGGTA
1 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATC-TTTTGAGGTA
* * * *
47457443 GTAAGGAAGCAGACTGAAGGTTGAAGATCTCATC-TCTCTAAGCAATAGTGGAGCAGATCGAAGA
65 GCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTTC-CTAAGCAGTAGTGGAGCAGATCGAAGA
*
47457507 TGACGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCAC
129 TGACGAATCTTATCTTCCCGAAGTAGCAGGGGAGCAGATTTTAGCCAC
* *
47457555 CAGCCTTGTCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCTTGAGGTA
1 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATCTT-TTGAGGTA
* *
47457620 GCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTTGTGGAGCAGATCAAAGAT
65 GCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * * **
47457685 GGCGAATCTTATCTTCCCGATGTAGCAAGGGAATAGATTTTAGCCAC
130 GACGAATCTTATCTTCCCGAAGTAGCAGGGGAGCAGATTTTAGCCAC
* * * *
47457732 CAGCCTTATCTCTCTGAGGTAGTAAGAAAGCATGTTAAAGATTGAAGTCTTATCTTTCTGAGGTA
1 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATCTTT-TGAGGTA
* * * *
47457797 GCAAGGAAGCAGATTGAATATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
65 GCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * * * * *
47457862 GACGAATCTTGTC-TCCCTAAATAGTAGTGGAGCAGATTTAAGCCAC
130 GACGAATCTTATCTTCCCGAAGTAGCAGGGGAGCAGATTTTAGCCAC
47457908 AATCCTATCT
Statistics
Matches: 312, Mismatches: 38, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
176 27 0.09
177 283 0.91
178 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (176 bp):
CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATCTTTTGAGGTAG
CAAGGAAGCAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGATG
ACGAATCTTATCTTCCCGAAGTAGCAGGGGAGCAGATTTTAGCCAC
Found at i:47457784 original size:44 final size:45
Alignment explanation
Indices: 47457736--47457832 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
47457726 AGCCACCAGC
*
47457736 CTTATCTCTCTGAGGTAGTAAGAAAGCATG-TTAAAGATTGAAG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCA-GATTAAAGATTGAAGAT
* * * *
47457780 CTTATCTTTCTGAGGTAGCAAGGAAGCAGATTGAATATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGATTAAAGATTGAAGAT
47457825 CTTATCTC
1 CTTATCTC
47457833 CCTAAGCAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 36 0.80
45 8 0.18
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGATTAAAGATTGAAGAT
Found at i:47457852 original size:44 final size:44
Alignment explanation
Indices: 47457804--47458327 Score: 391
Period size: 44 Copynumber: 12.1 Consensus size: 44
47457794 GTAGCAAGGA
* *
47457804 AGCAGATTGAATATTGAAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGAAGATCTTATCTCCCTAAGCAGTAGTGG
* * * **
47457848 AGCAGATCGAAGA-CGACGAATCTTGTCTCCCTAAATAGTAGTGG
1 AGCAGATTGAAGATCGAAG-ATCTTATCTCCCTAAGCAGTAGTGG
* * *
47457892 AGCAGATTTAAG--CCACA-ATCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGA-AGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
47457934 AGAAGGTTGAAGAT-TACAGATCTTATCTCCTTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGA-AGATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
47457978 AGTAAATCGAAGA-C-AGTGAATCTTGTCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGA-AG-ATCTTATCTCCCTAAGCAGTAGTGG
* * ** *
47458022 AGCAGATTTAAG--CCACTATCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGAAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
47458064 GGTAGGTTGAAGAT-TACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGA-AGATCTTATCTCCCTAAGCAGTAGTGG
* ** *
47458108 AGCAGATCGAAGA-CGGCGAATCTTGTCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGAAG-ATCTTATCTCCCTAAGCAGTAGTGG
* * ** *
47458152 AGCAGATTTAAG--CCACCATCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGAAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
47458194 AGTAGGA-TGAAGAT-TACAGATCTTATCTCCCTAAGCAGCAGTGG
1 AGCA-GATTGAAGATCGA-AGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
47458238 AGCAGATCGAAGATGGCAA-ATCTTGTCTCCCTAAGCAGTAGTAG
1 AGCAGATTGAAGATCG-AAGATCTTATCTCCCTAAGCAGTAGTGG
* * ** *
47458282 AGCAGATTTAAG--CCACCATCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTGAAGATCGAAGATCTTATCTCCCTAAGCAGTAGTGG
47458324 AGCA
1 AGCA
47458328 TGTTGAAATC
Statistics
Matches: 378, Mismatches: 81, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.00
42 117 0.31
43 20 0.05
44 238 0.63
45 1 0.00
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
AGCAGATTGAAGATCGAAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:47457974 original size:86 final size:85
Alignment explanation
Indices: 47457827--47458327 Score: 461
Period size: 86 Copynumber: 5.8 Consensus size: 85
47457817 TTGAAGATCT
* * **
47457827 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAATAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACG-ATCTTATCTCCCTAAGCAGTAGTGG
*
47457892 AGCAGATTTAAGCCACAATCC
65 AGCAGATTGAAGCCACAATCC
* * ** *
47457913 TATCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTACAGATCTTATCTCCTTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGAC-GATCTTATCTCCCTAAGCAGTAGTGG
* * * * * *
47457978 AGTAAATCGAAGACAGTGAATCT
65 AGCAGATTGAAGCCA--CAATCC
* * * * * *
47458001 TGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCACTATCCTATCTCCCTAAGCAGTAGTGGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGATCTTATCTCCCTAAGCAGTAGTGGA
* * ** *
47458065 GTAGGTTGAAGATTACAGATCT
66 GCAGATTGAAG-CCACA-ATCC
* * *
47458087 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACG-ATCTTATCTCCCTAAGCAGTAGTGG
* *
47458152 AGCAGATTTAAGCCACCATCC
65 AGCAGATTGAAGCCACAATCC
* ** *
47458173 TATCTCCCTAAGCAGTAGTGGAGTAGGA-TGAAGATTACAGATCTTATCTCCCTAAGCAGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATTGAAGACGAC-GATCTTATCTCCCTAAGCAGTAGTG
* * *
47458237 GAGCAGATCGAAGATGGCA-AATCT
64 GAGCAGATTG-A-A-GCCACAATCC
* * * * * *
47458261 TGTCTCCCTAAGCAGTAGTAGAGCAGATTTAAG-CCACCATCCTATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGATCTTATCTCCCTAAGCAGTAGTGGA
47458325 GCA
66 GCA
47458328 TGTTGAAATC
Statistics
Matches: 333, Mismatches: 69, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
85 1 0.00
86 219 0.66
87 16 0.05
88 94 0.28
89 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (85 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATTGAAGCCACAATCC
Found at i:47458043 original size:130 final size:130
Alignment explanation
Indices: 47457821--47458334 Score: 857
Period size: 130 Copynumber: 4.0 Consensus size: 130
47457811 TGAATATTGA
* **
47457821 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAATAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* *
47457886 TAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
* * * * *
47457951 AGATCTTATCTCCTTAAGCAGTAGTGGAGTAAATCGAAGACAGTGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* *
47458016 TAGTGGAGCAGATTTAAGCCACTATCCTATCTCCCTAAGCAGTAGTGGGGTAGGTTGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
47458081 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
*
47458146 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
* * *
47458211 AGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* * *
47458276 TAGTAGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCATGTTGAA
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA
47458335 ATCCATAATT
Statistics
Matches: 358, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 358 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
Found at i:47458399 original size:260 final size:260
Alignment explanation
Indices: 47457831--47458399 Score: 802
Period size: 260 Copynumber: 2.2 Consensus size: 260
47457821 AGATCTTATC
* *
47457831 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAATAGTAGTGGAGCA
1 TCCCTAAGCACTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAACAGTAGTGGAGCA
*
47457896 GATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTACAGATCTTATC
66 GATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGTGGAGAAGGATGAAGATTACAGATCTTATC
* * * ** *
47457961 TCCTTAAGCAGTAGTGGAGTAAATCGAAGACAGTGAATCTTGTCTCCCTAAGCAGTAGTGGAGCA
131 TCCCTAAGCAGCAGTGGAGCAAATCGAAGACAGCAAATCTTGTCTCCCTAAGCAGTAGTAGAGCA
* * * * * *
47458026 GATTTAAGCCACTATCCTATCTCCCTAAGCAGTAGTGGGGTAGGTTGAAGATTACAGATCTTATC
196 GATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATTACAAATCATATA
* * *
47458091 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAGTAGTGGAGCA
1 TCCCTAAGCACTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAACAGTAGTGGAGCA
* *
47458156 GATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATTACAGATCTTATC
66 GATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGTGGAGAAGGATGAAGATTACAGATCTTATC
* **
47458221 TCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCCCTAAGCAGTAGTAGAGCA
131 TCCCTAAGCAGCAGTGGAGCAAATCGAAGACAGCAAATCTTGTCTCCCTAAGCAGTAGTAGAGCA
* *
47458286 GATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCATGTTGAA-A-TCCATAATTCATA
196 GATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATTACA-AA-TCATA
47458349 TA
259 TA
* ** * * * *
47458351 TCCTTAAAGTTCTAGTGGAGTAGATCGAAG-CTACAAATCTTTTCTCCCT
1 TCCCT-AAGCACTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCT
47458400 GAAATGGCAC
Statistics
Matches: 274, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
258 3 0.01
259 2 0.01
260 249 0.91
261 20 0.07
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (260 bp):
TCCCTAAGCACTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAACAGTAGTGGAGCA
GATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGTGGAGAAGGATGAAGATTACAGATCTTATC
TCCCTAAGCAGCAGTGGAGCAAATCGAAGACAGCAAATCTTGTCTCCCTAAGCAGTAGTAGAGCA
GATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATTACAAATCATATA
Found at i:47458510 original size:88 final size:88
Alignment explanation
Indices: 47458341--47459077 Score: 838
Period size: 88 Copynumber: 8.4 Consensus size: 88
47458331 TGAAATCCAT
* * * * * *
47458341 AATTCATATATCCTTAAAG-TTCTAGTGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTGAAAT
1 AATTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAAT
* ** *
47458405 GGCACTAAAGCGGCTCGAAGCCAC
65 GGCATTGGAGTGGCTCGAAGCCAC
* * * *
47458429 AATTTGTATCAT-CTTGAAGTTTCAGCGAAGTATATCAAAGCTACAAATCTCTTCTCCCTAAAAT
1 AATTCGTATC-TCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAAT
* *
47458493 GGTATTGGAGTGCCTCGAAGCCAC
65 GGCATTGGAGTGGCTCGAAGCCAC
* * *
47458517 AATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAA-CTACAAATCTCTTCTCCCTGTAAT
1 AATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATC-AAAGCTACAAATCTCTTCTCCCTGAAAT
* * *
47458581 GGAATTAGAGTGGCTCGAAGCCAT
65 GGCATTGGAGTGGCTCGAAGCCAC
* * * ** *
47458605 AATTCATATCTCCTTAAAGTTCCAGCGGAGTAGATTGAAGTTACAAATCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
* *
47458670 GTATTGGAGTGGCTCGAAGCCAA
66 GCATTGGAGTGGCTCGAAGCCAC
* * * *
47458693 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAACTAAAAATCTCTTCTCCTTGAAATG
1 AATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
*
47458758 GCATTGGAGTGGCTCAAAGCCAC
66 GCATTGGAGTGGCTCGAAGCCAC
* * * * *
47458781 AATTTGTATCTCCTTAAAG-CTCTAGCGGAGTAGATTCAAA-ATACAAATCTTTTTCTCCCTGAA
1 AATTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGA-TCAAAGCTACAAATC-TCTTCTCCCTGAA
* ** *
47458844 ATGGCATTAGAGCAGCTCAAAGCCAC
63 ATGGCATTGGAGTGGCTCGAAGCCAC
* * *
47458870 AATTCGTATCTTCTTGAAGTTTCAGCGGAGTATATCGAAGCTACAAATCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
** *
47458935 GCATTGGAGCAGCTCGAAGCCAT
66 GCATTGGAGTGGCTCGAAGCCAC
* * *
47458958 AATTCTTATCTCCTTGAAG-TTCTAGCAGAGTAGATCAAAGCTACAAGTCTCTTCTCCCTGAAAT
1 AATTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAAT
**
47459022 GGCATTGGAACGGCTCGAAGCCAC
65 GGCATTGGAGTGGCTCGAAGCCAC
* * * *
47459046 AATTCTTATCTCCCTGAAGTTGCAGTGGAGTA
1 AATTCGTATCTCCTTGAAGTTTCAGCGGAGTA
47459078 TATTAAATCT
Statistics
Matches: 554, Mismatches: 83, Indels: 24
0.84 0.13 0.04
Matches are distributed among these distances:
87 7 0.01
88 463 0.84
89 82 0.15
90 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (88 bp):
AATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
GCATTGGAGTGGCTCGAAGCCAC
Found at i:47458555 original size:44 final size:43
Alignment explanation
Indices: 47458507--47458728 Score: 101
Period size: 44 Copynumber: 5.0 Consensus size: 43
47458497 TTGGAGTGCC
47458507 TCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGA
1 TCGAAGCCACAATTC-TATCTCCTTGAAGTTCCAACGGAGTAGA
* * * ** ** * *
47458551 TCGAAACTACAAATCTCT-TCTCCCTGTAA--TGGAATTAGAGTGGC
1 TCGAAGCCAC-AAT-TCTATCTCCTTG-AAGTTCCAA-CGGAGTAGA
* * *
47458595 TCGAAGCCATAATTCATATCTCCTTAAAGTTCCAGCGGAGTAGA
1 TCGAAGCCACAATTC-TATCTCCTTGAAGTTCCAACGGAGTAGA
* ** * * *** ** * *
47458639 TTGAAGTTACAAATCTCT-TCTCCCTGAAATGGTATTGGAGTGGC
1 TCGAAGCCAC-AAT-TCTATCTCCTTGAAGTTCCAACGGAGTAGA
* *
47458683 TCGAAGCCAAAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGA
1 TCGAAGCCACAATTC-TATCTCCTTGAAGTTCCAACGGAGTAGA
47458727 TC
1 TC
47458729 AAAACTAAAA
Statistics
Matches: 118, Mismatches: 48, Indels: 24
0.62 0.25 0.13
Matches are distributed among these distances:
42 4 0.03
43 13 0.11
44 85 0.72
45 12 0.10
46 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
TCGAAGCCACAATTCTATCTCCTTGAAGTTCCAACGGAGTAGA
Found at i:47458793 original size:44 final size:44
Alignment explanation
Indices: 47458657--47458795 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
47458647 ACAAATCTCT
* * * *
47458657 TCTCCCTGAAATGGTATTGGAGTGGCTCGAAGCCAAAATTCGTA
1 TCTCCTTGAAATGGCATTGGAGTGGCTCAAAGCCAAAATTTGTA
* ** ** * * * * * *
47458701 TCTCCTTGAAGTTCCAGCGGAGTAGATCAAAACTAAAAATCTCT-
1 TCTCCTTGAAATGGCATTGGAGTGGCTCAAAGC-CAAAATTTGTA
*
47458745 TCTCCTTGAAATGGCATTGGAGTGGCTCAAAGCCACAATTTGTA
1 TCTCCTTGAAATGGCATTGGAGTGGCTCAAAGCCAAAATTTGTA
47458789 TCTCCTT
1 TCTCCTT
47458796 AAAGCTCTAG
Statistics
Matches: 66, Mismatches: 27, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 6 0.09
44 54 0.82
45 6 0.09
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTCCTTGAAATGGCATTGGAGTGGCTCAAAGCCAAAATTTGTA
Found at i:47458953 original size:44 final size:44
Alignment explanation
Indices: 47458834--47459063 Score: 153
Period size: 44 Copynumber: 5.2 Consensus size: 44
47458824 CAAATCTTTT
* * *
47458834 TCTCCCTGAAATGGCATTAGAGCAGCTCAAAGCCACAATTCGTA
1 TCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCTTA
* * * ** ** * ** * *
47458878 TCTTCTTGAAGTTTCAGCGGAGTATATCGAAGCTACAAATCTCT-
1 TCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCT-TA
*
47458922 TCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCATAATTCTTA
1 TCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCTTA
* * * * * * * * *
47458966 TCTCCTTGAAGT-TC-TAGCAGAGTAGATCAAAGCTACAAGTCTCT-
1 TCTCCCTGAAATGGCATTG--GAGCAGCTCGAAGCCACAATTCT-TA
* *
47459010 TCTCCCTGAAATGGCATTGGAACGGCTCGAAGCCACAATTCTTA
1 TCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCTTA
47459054 TCTCCCTGAA
1 TCTCCCTGAA
47459064 GTTGCAGTGG
Statistics
Matches: 129, Mismatches: 49, Indels: 16
0.66 0.25 0.08
Matches are distributed among these distances:
42 2 0.02
43 3 0.02
44 119 0.92
45 3 0.02
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAATGGCATTGGAGCAGCTCGAAGCCACAATTCTTA
Found at i:47459119 original size:51 final size:49
Alignment explanation
Indices: 47459050--47459266 Score: 177
Period size: 51 Copynumber: 4.5 Consensus size: 49
47459040 AGCCACAATT
47459050 CTTATCTCCCTGAAGTTGCAGTGGAGTATATTAAATCTAGAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTA-ATTAAA-CTAGAAATCACAAAC
* * ** *
47459101 CTTATCTCGCTGAAGTTGCAGTGGAG----CAAACT-GAAGAT-AGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAATTAAACTAGAA-ATCA-CAAAC
* *
47459146 CTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTA-ATT-AAACTAGAAATCACAAAC
* * * * * **
47459197 CTTATCTCCCTGAAGTTGTAGTGGGGTAAGT----T-GAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAATTAAACTAGAAATCACAAAC
47459241 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
47459267 CAGACTGAAG
Statistics
Matches: 134, Mismatches: 22, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
44 36 0.27
45 31 0.23
46 3 0.02
50 2 0.01
51 58 0.43
52 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (49 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAATTAAACTAGAAATCACAAAC
Found at i:47459165 original size:45 final size:44
Alignment explanation
Indices: 47459101--47459313 Score: 158
Period size: 45 Copynumber: 4.6 Consensus size: 44
47459091 AATCACAAAC
*
47459101 CTTATCTCGCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGT-AAT
* * * * * *
47459146 CTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAG---T----AAT
* * * ** * *
47459197 CTTATCTCCCTGAAGTTGTAGTGGGGTAAGTTGAAGTTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTAA-T
* *
47459241 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTA-AT
* * *
47459286 CTCATCTCCTTGAAGTTGCAATGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
47459314 GATTAAGCTA
Statistics
Matches: 131, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.02
44 31 0.24
45 61 0.47
46 1 0.01
48 1 0.01
51 35 0.27
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTAAT
Found at i:47459213 original size:96 final size:95
Alignment explanation
Indices: 47459044--47459276 Score: 306
Period size: 96 Copynumber: 2.4 Consensus size: 95
47459034 GCTCGAAGCC
* * * *
47459044 ACAATTCTTATCTCCCTGAAGTTGCAGTGGAGTATATTAAATCTAGAAATCACAAACCTTATCTC
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAACCTTATCTC
*
47459109 GCTGAAGTTGCAGTGGAGCAAACTGAAGAT
66 CCTGAAGTTGCAGTGGAGCAAACTGAAGAT
* *
47459139 AGTGAA-TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAACCTTATC
1 A--CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAACCTTATC
* * * ** *
47459203 TCCCTGAAGTTGTAGTGGGGTAAGTTGAAGTT
64 TCCCTGAAGTTGCAGTGGAGCAAACTGAAGAT
* *
47459235 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
47459277 AAAGTAGATC
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
94 2 0.02
95 35 0.29
96 80 0.67
97 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (95 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAACCTTATCTC
CCTGAAGTTGCAGTGGAGCAAACTGAAGAT
Found at i:47460039 original size:21 final size:20
Alignment explanation
Indices: 47460006--47460053 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
47459996 AAGGTTACTG
*
47460006 TTTTTTTTCTTTTCTTTCTT
1 TTTTTTTTATTTTCTTTCTT
47460026 TTTTATTTTATTTTCTTTCTT
1 TTTT-TTTTATTTTCTTTCTT
47460047 TTCTTTT
1 TT-TTTT
47460054 CGAATCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTTTATTTTCTTTCTT
Found at i:47460717 original size:3 final size:3
Alignment explanation
Indices: 47460709--47460897 Score: 102
Period size: 3 Copynumber: 62.3 Consensus size: 3
47460699 TTTGGCTACT
* * * * *
47460709 TTA TTA TTA -AA TTAA TTA TTT TTA ATA TTA TTA TTA CTA TTT TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
47460754 TTA TTA CTA CTA CTA CTA TTA TTA TTA TTAA CTTA TTA TTA TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA
* * * *
47460801 TTA GTA -TA TTA TTA TT- TCCTA TT- TT- TTA -TA TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
47460843 TTA ACA TATA TTA TTA TTAA TGTA TTG TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA
47460891 TTA TTA T
1 TTA TTA T
47460898 ACTATTAAAC
Statistics
Matches: 148, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
2 10 0.07
3 122 0.82
4 12 0.08
5 4 0.03
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:47461174 original size:21 final size:21
Alignment explanation
Indices: 47461148--47461197 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
47461138 TATTACTATT
47461148 ATTAATATCATCGCCATTATG
1 ATTAATATCATCGCCATTATG
*
47461169 ATTAATATCATCGTCATTATG
1 ATTAATATCATCGCCATTATG
47461190 ATTAATAT
1 ATTAATAT
47461198 TATTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (21 bp):
ATTAATATCATCGCCATTATG
Found at i:47505267 original size:29 final size:28
Alignment explanation
Indices: 47505232--47505335 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 28
47505222 ATAATATGAT
*
47505232 TTGGGCCTAATGGGCCATAGGAATGAGAA
1 TTGGGCCTAATGGGCCATAAGAAT-AGAA
*
47505261 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATAAGAATA-GAA
* **
47505290 CTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATAAGAATAGA-A
*
47505318 TTGGG-CTAGTGGGCCATA
1 TTGGGCCTAATGGGCCATA
47505336 TGCATGTATG
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 10 0.16
28 8 0.13
29 44 0.71
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATAAGAATAGAA
Found at i:47505287 original size:58 final size:56
Alignment explanation
Indices: 47505224--47505335 Score: 145
Period size: 58 Copynumber: 2.0 Consensus size: 56
47505214 GCATGAATAT
** *
47505224 AATATGATTTGGGCCTA-ATGGGCCATAGGAATGAGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATAGGAATAAG-ATTGGG-CTAGTGGGCCATAAG
**
47505282 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATAGGAATAAGATTGGGCTAGTGGGCCATA
47505336 TGCATGTATG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 13 0.27
57 7 0.15
58 28 0.58
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (56 bp):
AATATGAACTGGGCCAGATGGGCCATAGGAATAAGATTGGGCTAGTGGGCCATAAG
Found at i:47505642 original size:27 final size:26
Alignment explanation
Indices: 47505595--47505651 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
47505585 AAAACCGTAA
* * * *
47505595 TAAGGGAAAAATTATCGAAATGCCCT
1 TAAGGGAAAAATTACCAAAATACCCC
47505621 TAAGGGCAAAAATTACCAAAATACCCC
1 TAAGGG-AAAAATTACCAAAATACCCC
47505648 TAAG
1 TAAG
47505652 TGTTGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (26 bp):
TAAGGGAAAAATTACCAAAATACCCC
Found at i:47509600 original size:20 final size:20
Alignment explanation
Indices: 47509575--47509622 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
47509565 TTCGTGGACT
*
47509575 TGGGTTGAGAATTGGCCAAA
1 TGGGTTGAGAATGGGCCAAA
* *
47509595 TGGGTT-TGAATGGGCTAAA
1 TGGGTTGAGAATGGGCCAAA
47509614 TGGGCTTGA
1 TGGG-TTGA
47509623 TGAGCTGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.25, C:0.08, G:0.38, T:0.29
Consensus pattern (20 bp):
TGGGTTGAGAATGGGCCAAA
Found at i:47509741 original size:29 final size:28
Alignment explanation
Indices: 47509709--47509815 Score: 117
Period size: 29 Copynumber: 3.8 Consensus size: 28
47509699 ATAATATGAT
47509709 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
*
47509738 TTGGGCCTAATGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * * * *
47509767 CTAGGCCAAATGGGCCATTTGAATA-AGT
1 TTGGGCCTAATGGGCCATATGAATAGA-A
*
47509795 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
47509816 CATATATGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 17 0.27
29 46 0.72
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:47514850 original size:31 final size:31
Alignment explanation
Indices: 47514807--47514874 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
47514797 TCAGTCTCGA
47514807 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
47514837 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
47514868 CATATCA
1 CATATCA
47514875 TTGACCGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:47514885 original size:30 final size:31
Alignment explanation
Indices: 47514807--47514889 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
47514797 TCAGTCTCGA
* *
47514807 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGACCGAAGCCTTTTCATAAAT
*
47514837 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGACCGAAGCCTTTTCATAAAT
*
47514868 CATATCA-TTGACCGAAGCCTTT
1 CATATCACTGGACCGAAGCCTTT
47514890 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 18 0.37
31 31 0.63
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTGGACCGAAGCCTTTTCATAAAT
Found at i:47515141 original size:25 final size:25
Alignment explanation
Indices: 47515109--47515178 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
47515099 CTCTTTTAAT
47515109 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
47515134 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
47515159 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47515179 AGCACTTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:47515634 original size:27 final size:28
Alignment explanation
Indices: 47515571--47515626 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
47515561 GGGCATATTC
47515571 GTCA-TTTA-CCATACAGGGGTATTACG
1 GTCACTTTACCCATACAGGGGTATTACG
47515597 GTCACTTTACCCA-ACAGGGGCT-TTACG
1 GTCACTTTACCCATACAGGGG-TATTACG
47515624 GTC
1 GTC
47515627 TTTTTACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 19 0.70
28 4 0.15
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (28 bp):
GTCACTTTACCCATACAGGGGTATTACG
Found at i:47515793 original size:56 final size:54
Alignment explanation
Indices: 47515673--47515874 Score: 194
Period size: 54 Copynumber: 3.7 Consensus size: 54
47515663 TACAAGGGTG
* * * *
47515673 TTTTGGTAAATTTATAAACCAAGGGTATTTTAGTAATTTTGTAAAGC-AATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAA-CTAGTGGTA
* * * * *
47515727 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTTAGTAATTTTGTAAACTAGTGGTA
* ** ***
47515783 TTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAACTAGTGGTA
*
47515837 TTTTGGTAATTTTACAAA-CTATGGGTATTTTAGTAATT
1 TTTTGGTAATTTTACAAATC-AAGGGTATTTTAGTAATT
47515875 CTACCCTTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
54 67 0.56
55 17 0.14
56 36 0.30
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAACTAGTGGTA
Found at i:47515873 original size:27 final size:27
Alignment explanation
Indices: 47515666--47515906 Score: 168
Period size: 27 Copynumber: 8.9 Consensus size: 27
47515656 TTCATCCTAC
* * * * *
47515666 AAGGGTGTTTTGGTAAATTTATAAACC
1 AAGGGTATTTTAGTAATTTTACAAACT
**
47515693 AAGGGTATTTTAGTAATTTTGTAAAGC-
1 AAGGGTATTTTAGTAATTTTACAAA-CT
* * *
47515720 AATGGTATTTCTA-TAATTTTTAGAAAGT
1 AAGGGTATTT-TAGTAA-TTTTACAAACT
* ** *
47515748 CAAGGGTATTTTTGTAATTTTGTAAATT
1 -AAGGGTATTTTAGTAATTTTACAAACT
* * *
47515776 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTACAAACT
** *
47515803 AAGGGTATTTCGGTAATTTCACAAACT
1 AAGGGTATTTTAGTAATTTTACAAACT
*
47515830 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTAGTAATTTTACAAACT
* * *
47515857 ATGGGTATTTTAGTAATTCTAC--CCTT
1 AAGGGTATTTTAGTAATTTTACAAAC-T
*
47515883 AAGGGTATTTTAGTAATTTCACAA
1 AAGGGTATTTTAGTAATTTTACAA
47515907 TCGAGGGTAA
Statistics
Matches: 173, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 22 0.13
27 118 0.68
28 20 0.12
29 12 0.07
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTACAAACT
Found at i:47515873 original size:54 final size:54
Alignment explanation
Indices: 47515641--47515874 Score: 177
Period size: 54 Copynumber: 4.3 Consensus size: 54
47515631 TACCTATTAG
* ** * * * * *
47515641 GGGTATTTTAGTCATTTCATCCTACAAG-GGTGTTTTGGTAAATTTATAAACCAA
1 GGGTATTTTAGTAATTTCA-CAAACTAGTGGTATTTTGGTAATTTTACAAACTAA
*** * * * *
47515695 GGGTATTTTAGTAATTTTGTAAAGC-AATGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTTTAGTAATTTCACAAA-CTAGTGGTATTT-TGGTAA-TTTTACAAACT-AA
* *** * * *
47515751 GGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTAGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAA
** *
47515805 GGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAT
1 GGGTATTTTAGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAA
47515859 GGGTATTTTAGTAATT
1 GGGTATTTTAGTAATT
47515875 CTACCCTTAA
Statistics
Matches: 142, Mismatches: 31, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
53 2 0.01
54 87 0.61
55 18 0.13
56 35 0.25
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAA
Found at i:47515873 original size:81 final size:80
Alignment explanation
Indices: 47515752--47515906 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 80
47515742 GAAAGTCAAG
* ** * * * *
47515752 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTAC-AATTAAGGGTATTTCAGT
47515817 AATTTCACAAACTAGT
65 AATTTCACAAACTAGT
* ** *
47515833 GGTATTTTGGTAATTTTACAAACTATGGGTATTTTAGTAATTCTACCCTTAAGGGTATTTTAGTA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACAATTAAGGGTATTTCAGTA
47515898 ATTTCACAA
66 ATTTCACAA
47515907 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 24 0.38
81 39 0.62
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACAATTAAGGGTATTTCAGTA
ATTTCACAAACTAGT
Found at i:47515941 original size:27 final size:27
Alignment explanation
Indices: 47515905--47515994 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
47515895 GTAATTTCAC
** *
47515905 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
47515932 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
47515959 AATCAAGGGAAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
47515986 AATCGAGGG
1 AATCGAGGG
47515995 CACTTTGGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:47529931 original size:38 final size:39
Alignment explanation
Indices: 47529880--47529965 Score: 138
Period size: 38 Copynumber: 2.2 Consensus size: 39
47529870 TAGTGAAAAA
*
47529880 TTGTTCTTCAGGAAACAAATCATTTATTTCAACTTCAT-
1 TTGTTCTTTAGGAAACAAATCATTTATTTCAACTTCATC
*
47529918 TTGTTCTTTAGGAAACGAATCATTTATTTCAACTTCATC
1 TTGTTCTTTAGGAAACAAATCATTTATTTCAACTTCATC
*
47529957 TAGTTCTTT
1 TTGTTCTTT
47529966 GGTATTGGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.82
39 8 0.18
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (39 bp):
TTGTTCTTTAGGAAACAAATCATTTATTTCAACTTCATC
Found at i:47538742 original size:28 final size:28
Alignment explanation
Indices: 47538710--47538838 Score: 116
Period size: 28 Copynumber: 4.6 Consensus size: 28
47538700 TGAACGTATC
*
47538710 GCACACTAAGTGCCATCCTGGATGTCTT
1 GCACACTAAGTGCCATCCTGGATATCTT
*
47538738 GCACACTAAGTGCCATCCTTGATAAT-TT
1 GCACACTAAGTGCCATCCTGGAT-ATCTT
* * * * * *
47538766 GCTCACTAAGAGGCATTTCTGGATGTTTT
1 GCACACTAAGTGCCA-TCCTGGATATCTT
* * ** *
47538795 ACACACTAAGTACCATCCTCAATAACTT
1 GCACACTAAGTGCCATCCTGGATATCTT
47538823 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
47538839 TTTAAAAATT
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
28 58 0.75
29 19 0.25
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATCCTGGATATCTT
Found at i:47538840 original size:57 final size:57
Alignment explanation
Indices: 47538710--47538840 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 57
47538700 TGAACGTATC
* * * ** *
47538710 GCACACTAAGTGCCA-TCCTGGATGTCTTGCACACTAAGTGCCATCCTTGATAATTT
1 GCACACTAAGTGCCATTTCTGGATGTCTTACACACTAAGTACCATCCTCAATAACTT
* * * *
47538766 GCTCACTAAGAGGCATTTCTGGATGTTTTACACACTAAGTACCATCCTCAATAACTT
1 GCACACTAAGTGCCATTTCTGGATGTCTTACACACTAAGTACCATCCTCAATAACTT
47538823 GCACACTAAGTGCCATTT
1 GCACACTAAGTGCCATTT
47538841 TAAAAATTGA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
56 12 0.20
57 49 0.80
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (57 bp):
GCACACTAAGTGCCATTTCTGGATGTCTTACACACTAAGTACCATCCTCAATAACTT
Found at i:47543741 original size:18 final size:18
Alignment explanation
Indices: 47543697--47543743 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
47543687 ACCAGTGTGG
*
47543697 TAGGCCGTGTGGCAATAA
1 TAGGCCGTGTGGAAATAA
*
47543715 TAGGACGTGTGGAAATAA
1 TAGGCCGTGTGGAAATAA
47543733 -AGGGCCGTGTG
1 TA-GGCCGTGTG
47543744 ATTGACGAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.21
Consensus pattern (18 bp):
TAGGCCGTGTGGAAATAA
Found at i:47551345 original size:26 final size:26
Alignment explanation
Indices: 47551316--47551365 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
47551306 TCTCATCCCT
47551316 ATTTTACCCCCAGTAAAATTTTGATG
1 ATTTTACCCCCAGTAAAATTTTGATG
**
47551342 ATTTTACCCTTAGTAAAATTTTGA
1 ATTTTACCCCCAGTAAAATTTTGA
47551366 GAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCCAGTAAAATTTTGATG
Found at i:47553263 original size:10 final size:10
Alignment explanation
Indices: 47553248--47553272 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47553238 TCTTGTGTAT
47553248 TGGGCCTCGA
1 TGGGCCTCGA
47553258 TGGGCCTCGA
1 TGGGCCTCGA
47553268 TGGGC
1 TGGGC
47553273 AAAATGGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.28, G:0.44, T:0.20
Consensus pattern (10 bp):
TGGGCCTCGA
Found at i:47572509 original size:30 final size:30
Alignment explanation
Indices: 47572451--47572509 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47572441 AGTTTTCAGG
* *
47572451 ATCCACACGGGCAGGGCACACGGCCATGTA
1 ATCCACACGGGCAGGCCACACAGCCATGTA
47572481 ATCCACACGGGCAGGCCACA-AGCTCATGT
1 ATCCACACGGGCAGGCCACACAGC-CATGT
47572510 GCCAGCCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.27, C:0.34, G:0.27, T:0.12
Consensus pattern (30 bp):
ATCCACACGGGCAGGCCACACAGCCATGTA
Found at i:47573627 original size:22 final size:21
Alignment explanation
Indices: 47573590--47573632 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47573580 TAATTTAAAC
47573590 ATTTTTATTTTATTTCATTTT
1 ATTTTTATTTTATTTCATTTT
*
47573611 ATTTTTGTTTTAGTTTCATTTT
1 ATTTTTATTTTA-TTTCATTTT
47573633 TAATTACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (21 bp):
ATTTTTATTTTATTTCATTTT
Found at i:47576568 original size:30 final size:30
Alignment explanation
Indices: 47576512--47576569 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
47576502 GTTTTTGACC
* *
47576512 CACATGGCCTGGGCACACGGGTGTGTGGAG
1 CACACGGCCTGGGCACACGGGGGTGTGGAG
*
47576542 CACACGGCCT-GGCAACATGGGGGTGTGG
1 CACACGGCCTGGGC-ACACGGGGGTGTGG
47576570 GAGAAGCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.16
Consensus pattern (30 bp):
CACACGGCCTGGGCACACGGGGGTGTGGAG
Found at i:47576935 original size:22 final size:20
Alignment explanation
Indices: 47576877--47576928 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
47576867 ATCTCCCCAA
*
47576877 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
*
47576897 TTTTAATTGTTAGATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
47576919 TTTTATTTTA
1 TTTTATTTTA
47576929 CTAATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 6 0.21
22 15 0.54
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:47576991 original size:16 final size:18
Alignment explanation
Indices: 47576963--47577001 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
47576953 ATACTTATAT
47576963 TTTTAATTTTTTACATA-
1 TTTTAATTTTTTACATAC
*
47576980 TTTTAA-TTTTTATATAC
1 TTTTAATTTTTTACATAC
47576997 TTTTA
1 TTTTA
47577002 TTATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAATTTTTTACATAC
Found at i:47577000 original size:17 final size:16
Alignment explanation
Indices: 47576957--47577011 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
47576947 ATTCTTATAC
47576957 TTATAT-TTTTAATTTT
1 TTATATATTTTAA-TTT
*
47576973 TTACATATTTTAATTT
1 TTATATATTTTAATTT
47576989 TTATATACTTTTATTATTT
1 TTATATA-TTTTA--ATTT
47577008 TTAT
1 TTAT
47577012 TTTGCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 14 0.42
17 11 0.33
19 8 0.24
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATATATTTTAATTT
Found at i:47577118 original size:14 final size:14
Alignment explanation
Indices: 47577099--47577129 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47577089 TATCATTGAG
47577099 TTTATTATTATTAT
1 TTTATTATTATTAT
*
47577113 TTTATTATTTTTAT
1 TTTATTATTATTAT
47577127 TTT
1 TTT
47577130 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:47577134 original size:6 final size:6
Alignment explanation
Indices: 47577099--47577186 Score: 54
Period size: 6 Copynumber: 14.3 Consensus size: 6
47577089 TATCATTGAG
* * * * * *
47577099 TTTATT ATTATT ATT-TT ATTATT TTTATT TTTATTT TTTATC TTTCTC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT
* *
47577147 TTTAAT TTT-GT TTTAGTTGT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTA--T-T TTTATT TTTATT TTTATT TT
47577187 CTCTTCAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 9 0.13
6 46 0.69
7 7 0.10
9 5 0.07
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:47577150 original size:19 final size:20
Alignment explanation
Indices: 47577109--47577155 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
47577099 TTTATTATTA
* *
47577109 TTATTTTATTATTTTTATTT
1 TTATTTTATTATCTTTATCT
*
47577129 TTATTTT-TTATCTTTCTCT
1 TTATTTTATTATCTTTATCT
47577148 TTAATTTT
1 TT-ATTTT
47577156 GTTTTAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTATTATCTTTATCT
Found at i:47578732 original size:94 final size:94
Alignment explanation
Indices: 47578564--47578925 Score: 326
Period size: 94 Copynumber: 3.9 Consensus size: 94
47578554 GATTCATGCA
* * * * * *
47578564 CCAGTGCAAGACATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAGTGTAAGATCATGTTT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
*
47578629 GGGACATGGCATCGGCATC-TAGACGAGGG
66 GGGACATGGCATCGGCA-CAGAGACGAGGG
* * * * *
47578658 CTAGTGTAAGACATGTCTAGGACATGCATCAGCCATATTGTGAGTGCCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
* *
47578723 GGGACATGGCATCGGCACAGAGATGAGTG
66 GGGACATGGCATCGGCACAGAGACGAGGG
* * * * * *
47578752 CCAGAGTAAGACATGTCTGGGACATGCATCGGCCTTGACA-GA-GATAGCTAGTGTAAGA-CGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCC---ACATTATGAGAGCCAGTGTAAGACCATG
* * * *** *
47578814 TTTGGGACA-CGCATCGGC-TA-AGATTTGTG
63 TCTGGGACATGGCATCGGCACAGAGACGAGGG
* * * *
47578843 CCAATGTAAGA-ATGTTTGGGACATGCATCAACACGCATATATGAGAGCCAGTGTAAGACCATGT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCCAGTGTAAGACCATGT
*
47578907 CTAGGACATGGCATCGGCA
64 CTGGGACATGGCATCGGCA
47578926 ATATATCCCA
Statistics
Matches: 214, Mismatches: 43, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
88 2 0.01
90 19 0.09
91 31 0.14
92 11 0.05
93 17 0.08
94 119 0.56
95 13 0.06
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCACAGAGACGAGGG
Found at i:47578802 original size:141 final size:139
Alignment explanation
Indices: 47578564--47578925 Score: 337
Period size: 141 Copynumber: 2.6 Consensus size: 139
47578554 GATTCATGCA
* ** * *
47578564 CCAGTGCAAGACATGTCTGGGACATGCTTCGGCTACATTATGAGAGCCAGTGTAAGATCATGTTT
1 CCAGTGCAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCCAGAGTAAGATCATGTCT
* *
47578629 GGGACATGGCATCGGCATCTAGACGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAT
66 GGGACATGGCATCGGCA-CTAGACGAGAGCTAGTGTAAGACATGTCTAGGACACGCATCAGCCAT
47578694 ATTGTGAGTG
130 ATTGTGAGTG
* *
47578704 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTGCCAGAGTAAGA-CATG
1 CCAGTGCAAGA-CATGTCTGGGACAT-GCATCGGCTACA-AGATGAGAGCCAGAGTAAGATCATG
* * * * *
47578767 TCTGGGACAT-GCATCGGC-CTTGACAGAGATAGCTAGTGTAAGACGTGTTTGGGACACGCATCG
63 TCTGGGACATGGCATCGGCACTAGAC-GAG--AGCTAGTGTAAGACATGTCTAGGACACGCATCA
* *
47578830 GCTAAGATT-T--GTG
125 GC-CATATTGTGAGTG
* * * ** * * *
47578843 CCAATGTAAGA-ATGTTTGGGACATGCATCAAC-ACGCATATATGAGAGCCAGTGTAAGACCATG
1 CCAGTGCAAGACATGTCTGGGACATGCATCGGCTA--CA-AGATGAGAGCCAGAGTAAGATCATG
*
47578906 TCTAGGACATGGCATCGGCA
63 TCTGGGACATGGCATCGGCA
47578926 ATATATCCCA
Statistics
Matches: 185, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
136 7 0.04
137 12 0.06
138 24 0.13
139 29 0.16
140 26 0.14
141 60 0.32
142 27 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (139 bp):
CCAGTGCAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCCAGAGTAAGATCATGTCT
GGGACATGGCATCGGCACTAGACGAGAGCTAGTGTAAGACATGTCTAGGACACGCATCAGCCATA
TTGTGAGTG
Found at i:47578930 original size:47 final size:46
Alignment explanation
Indices: 47578564--47578931 Score: 270
Period size: 47 Copynumber: 7.9 Consensus size: 46
47578554 GATTCATGCA
* *
47578564 CCAGTGCAAGACATGTCTGGGACATGCTTCGGCTACAT-TATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACATATATGAGAG
* * * *
47578610 CCAGTGTAAGATCATGTTTGGGACATGGCATCGGCATC-TAGACGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CATATATGAGAG
* * * * *
47578658 CTAGTGTAAGACATGTCTAGGACATGCATCAGC-CATATTGTGAGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCACATA-TATGAGAG
* * *
47578704 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATATATGAGAG
* * *
47578752 CCAGAGTAAGACATGTCTGGGACATGCATCGGC-CTTGACA-GAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCACAT-ATATGAG--AG
* * * * * * *
47578799 CTAGTGTAAGACGTGTTTGGGACACGCATCGGCTA-AGAT-T-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACATATATGAGAG
* * **
47578843 CCAATGTAAGA-ATGTTTGGGACATGCATCAACACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CATATATGAGAG
*
47578890 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-ATATAT
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATATAT
47578932 CCCATATTGA
Statistics
Matches: 250, Mismatches: 49, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 17 0.07
44 11 0.04
45 9 0.04
46 43 0.17
47 102 0.41
48 46 0.18
49 14 0.06
50 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCACATATATGAGAG
Found at i:47589552 original size:9 final size:8
Alignment explanation
Indices: 47589530--47589561 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
47589520 GTTGTAATGC
47589530 CCAAAAAT
1 CCAAAAAT
47589538 CCAAAAAT
1 CCAAAAAT
47589546 CCAAAAAT
1 CCAAAAAT
*
47589554 CCCAAAAT
1 CCAAAAAT
47589562 TTTGAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.12
Consensus pattern (8 bp):
CCAAAAAT
Found at i:47591095 original size:29 final size:29
Alignment explanation
Indices: 47591059--47591138 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
47591049 TGAATGTGAC
*
47591059 TGGGCCTAATGGGCCATATATAA-GTGATT
1 TGGGCCTAATGGGCCATATATAATATGA-T
*
47591088 TGGGCCTAAAGAGG-C-TATATGAATATGAT
1 TGGGCCTAATG-GGCCATATAT-AATATGAT
* *
47591117 TGGGCTTAATGGGCCAGATATA
1 TGGGCCTAATGGGCCATATATA
47591139 GGTATGTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
28 7 0.17
29 25 0.61
30 9 0.22
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATATAATATGAT
Found at i:47595499 original size:14 final size:14
Alignment explanation
Indices: 47595480--47595506 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47595470 AGTGGTCCAG
47595480 TTGAACTGAACTGA
1 TTGAACTGAACTGA
47595494 TTGAACTGAACTG
1 TTGAACTGAACTG
47595507 GCCAAGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (14 bp):
TTGAACTGAACTGA
Found at i:47601317 original size:22 final size:22
Alignment explanation
Indices: 47601292--47601336 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47601282 TGATAACCTG
47601292 AAAACTGTGACTTCAATAATAA
1 AAAACTGTGACTTCAATAATAA
47601314 AAAACTGTGACTTCAATAATAA
1 AAAACTGTGACTTCAATAATAA
47601336 A
1 A
47601337 CCGTACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (22 bp):
AAAACTGTGACTTCAATAATAA
Found at i:47603690 original size:46 final size:46
Alignment explanation
Indices: 47603640--47603729 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 46
47603630 CCACTGGAGT
* * *
47603640 TGCAGTTAAACTGCCAGATCAAATATATGTGGTCAAGCCACTATCC
1 TGCAGTCAAACTACCAGAACAAATATATGTGGTCAAGCCACTATCC
* * ** *
47603686 TGCAGTCAAGCTACCATAACAGTTATGTGTGGTCAAGCCACTAT
1 TGCAGTCAAACTACCAGAACAAATATATGTGGTCAAGCCACTAT
47603730 AATTGTTGTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCAGTCAAACTACCAGAACAAATATATGTGGTCAAGCCACTATCC
Found at i:47609444 original size:27 final size:27
Alignment explanation
Indices: 47609384--47609444 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
47609374 CATACATATC
** * *
47609384 ATAGGGGCATATTAGTCATTTTACCAC
1 ATAGGGGCATAACAGTCATTTCACCAA
*
47609411 ATAGGGGCATAACAGTCATTTCATCAA
1 ATAGGGGCATAACAGTCATTTCACCAA
*
47609438 ATTGGGG
1 ATAGGGG
47609445 TCTAGGTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTCACCAA
Found at i:47611630 original size:113 final size:113
Alignment explanation
Indices: 47611491--47611718 Score: 456
Period size: 113 Copynumber: 2.0 Consensus size: 113
47611481 TTTAATCCCT
47611491 AATTTGAAATTTCATTCAAAATCACTTAACAAATGTCGTTTATCTAACAACAACTATTTATTTTC
1 AATTTGAAATTTCATTCAAAATCACTTAACAAATGTCGTTTATCTAACAACAACTATTTATTTTC
47611556 TACCATCAAACATCAAAATACATACACATTCATCAATGGTAAAACCCA
66 TACCATCAAACATCAAAATACATACACATTCATCAATGGTAAAACCCA
47611604 AATTTGAAATTTCATTCAAAATCACTTAACAAATGTCGTTTATCTAACAACAACTATTTATTTTC
1 AATTTGAAATTTCATTCAAAATCACTTAACAAATGTCGTTTATCTAACAACAACTATTTATTTTC
47611669 TACCATCAAACATCAAAATACATACACATTCATCAATGGTAAAACCCA
66 TACCATCAAACATCAAAATACATACACATTCATCAATGGTAAAACCCA
47611717 AA
1 AA
47611719 ACTTTTAACA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (113 bp):
AATTTGAAATTTCATTCAAAATCACTTAACAAATGTCGTTTATCTAACAACAACTATTTATTTTC
TACCATCAAACATCAAAATACATACACATTCATCAATGGTAAAACCCA
Found at i:47626598 original size:43 final size:43
Alignment explanation
Indices: 47626561--47626708 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
47626551 TATGTGTTCT
47626561 CATGTAATACCACGTCTGGGACATTGGCATCGATATGTGATTA
1 CATGTAATACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * * * ** *
47626604 CGTGTAAAACCACGTCTGAGACGTTGGCATTAATATGTGTTTA
1 CATGTAATACCACGTCTGGGACATTGGCATCGATATGTGATTA
* *** * *
47626647 CGA-GTAAGACCTTATTTGGGACAGTGGCATCGATATGTGATTA
1 C-ATGTAATACCACGTCTGGGACATTGGCATCGATATGTGATTA
47626690 CATGTAAGT-CCACGTCTGG
1 CATGTAA-TACCACGTCTGG
47626709 AATGTTGGCA
Statistics
Matches: 78, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
42 1 0.01
43 77 0.99
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTAATACCACGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:47629602 original size:17 final size:18
Alignment explanation
Indices: 47629570--47629604 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47629560 ACTTGGTGCA
47629570 TTTACAAAACATACTTATT
1 TTTACAAAACA-ACTTATT
47629589 TTTACAAAAC-ACTTAT
1 TTTACAAAACAACTTAT
47629605 ATATATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTACAAAACAACTTATT
Found at i:47633358 original size:46 final size:46
Alignment explanation
Indices: 47633309--47633488 Score: 213
Period size: 46 Copynumber: 3.9 Consensus size: 46
47633299 TACCCTGACA
*
47633309 CATCTCGTA-GCCGATGCATGCCCCAGACATGTCTTACACTAGCT-T
1 CATCTC-TAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
*
47633354 ACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
1 -CATCTCTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* * * * *
47633401 CGTCTCAATGTCGATGTCATGTCCTAGACATGTTCTTACACTAGCTCT
1 CATCTCTAGGCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCT
* *
47633449 CATAATCT-GGCCGATGCATGTCCCAGATATGTCTTACACT
1 CAT-CTCTAGGCCGATGCATGTCCCAGACATGTCTTACACT
47633489 GGCACACAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 61 0.53
47 28 0.24
48 23 0.20
49 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CATCTCTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
Found at i:47633461 original size:94 final size:92
Alignment explanation
Indices: 47633320--47633488 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 92
47633310 ATCTCGTAGC
*
47633320 CGATGCATGCCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACAT
1 CGATGCATGCCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAGACAT
47633385 GTCTTACACTAGCTCTCGTCTCAATGT
66 GTCTTACACTAGCTCTCGTCTCAATGT
* * *
47633412 CGATGTCATGTCCTAGACATGTTCTTACACTAGCTCT-CATAATC-TGGCCGATGCATGTCCCAG
1 CGATG-CATGCCCCAGACATG-TCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATGTCCCAG
*
47633475 ATATGTCTTACACT
62 ACATGTCTTACACT
47633489 GGCACACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 47 0.69
95 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (92 bp):
CGATGCATGCCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGT
Found at i:47637051 original size:118 final size:118
Alignment explanation
Indices: 47636843--47637080 Score: 413
Period size: 118 Copynumber: 2.0 Consensus size: 118
47636833 CCAAAATTTG
47636843 CTCTTACTGAACTTGGCGTATAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTC
1 CTCTTACTGAACTTGGCGTATAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTC
47636908 CGCAAGCTCACTCTCATCACTCGAATAAATCAAAATGCCACCAATAAAGACAA
66 CGCAAGCTCACTCTCATCACTCGAATAAATCAAAATGCCACCAATAAAGACAA
* *
47636961 CTCTTACTGAACTTGGTGTATAACTGCATATCTTTCAAGGTTTGTAAAACCATTCTCAAATGCTC
1 CTCTTACTGAACTTGGCGTATAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTC
** * * *
47637026 CGCGTGCTCACTCTCATCACTCGAATAAATCAATATGTCATCAATAAAGACAA
66 CGCAAGCTCACTCTCATCACTCGAATAAATCAAAATGCCACCAATAAAGACAA
47637079 CT
1 CT
47637081 AAGAACTTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (118 bp):
CTCTTACTGAACTTGGCGTATAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTC
CGCAAGCTCACTCTCATCACTCGAATAAATCAAAATGCCACCAATAAAGACAA
Found at i:47641201 original size:45 final size:47
Alignment explanation
Indices: 47640993--47641213 Score: 154
Period size: 50 Copynumber: 4.7 Consensus size: 47
47640983 GTATAATGCT
* * * *
47640993 GATGCCATGTCCCAGATATGGTCTTACACTGGATCATC-CATCAAGT--C
1 GATGCCATGTCCCAGACATGGTCTTACACTGCA-CA-CATATC-CGTGCC
* * * * * *
47641040 GATGCCACGTCCCAAACATGGTCTTACACTG-ACTATCGAAAT-TGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGCAC-A-C-ATATCCG-TGCC
* * *
47641089 GACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G--CACACATATCCGTGCC
*
47641139 GATGCCATGTCCCAGACATGGTCTTACACTG-ACACAT-TTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGCACACATATCCGT-GCC
47641185 GATG-CATGTCCCAGACAT-GTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
47641214 GCTTACAACT
Statistics
Matches: 142, Mismatches: 20, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 19 0.13
46 17 0.12
47 28 0.20
48 2 0.01
49 27 0.19
50 34 0.24
51 2 0.01
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGCACACATATCCGTGCC
Found at i:47642715 original size:22 final size:22
Alignment explanation
Indices: 47642690--47642731 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
47642680 TTATCCCTTT
*
47642690 AAGTTTGATTTTATTTCAATTA
1 AAGTTTGATTTCATTTCAATTA
**
47642712 AAGTTTTCTTTCATTTCAAT
1 AAGTTTGATTTCATTTCAAT
47642732 ATGTAATTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.55
Consensus pattern (22 bp):
AAGTTTGATTTCATTTCAATTA
Found at i:47645830 original size:12 final size:12
Alignment explanation
Indices: 47645815--47645850 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
47645805 GCAAAAAGAG
47645815 ATGCAAGAACAA
1 ATGCAAGAACAA
* *
47645827 ATGCAAGCACAG
1 ATGCAAGAACAA
47645839 ATGCAAGAACAA
1 ATGCAAGAACAA
47645851 CTAGCTAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.08
Consensus pattern (12 bp):
ATGCAAGAACAA
Found at i:47650558 original size:44 final size:45
Alignment explanation
Indices: 47650510--47650612 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 45
47650500 AGCCACCAGC
* * *
47650510 CTTATCTCCCTGAGGTAGTAAGGGAGCA-ACCTAAAGATTGTAG-T
1 CTTATCTCCCTGAGGCAGCAAGGAAGCAGA-CTAAAGATTGTAGAT
* * *
47650554 CTTATCTTCCTGAGGCAGCAAGGAAGCAGACTGAAGTTTGTAGAT
1 CTTATCTCCCTGAGGCAGCAAGGAAGCAGACTAAAGATTGTAGAT
* *
47650599 CCTATCTCTCTGAG
1 CTTATCTCCCTGAG
47650613 ATAGCAGTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAGGCAGCAAGGAAGCAGACTAAAGATTGTAGAT
Found at i:47650708 original size:173 final size:174
Alignment explanation
Indices: 47650372--47650784 Score: 526
Period size: 173 Copynumber: 2.4 Consensus size: 174
47650362 TTTTAGCCAC
* * * *
47650372 TAGCCTTATC-TCTCGGAGGTAGCAAGGGAA-CAGGCTGCAGATTGTAGATCTTATCTCCCTGAG
1 TAGCCTTATCTTC-CTGAGGTAGCAA-GGAAGCAGACTGAAGATTGTAGATCCTATCTCCCTGAG
* * *
47650435 ACAACAGTGGGGCGGATAAAAAATGGTGATTCTTATCTTTCCGAGGTAGCAGGGGAGCAGATTTT
64 ACAACAGTGGGGCAGATAAAAAATGGTGA----TATCTTCCCGAGCTAGCAGGGGAGCAGATTTT
*
47650500 AGCCACCAGCCTTATCTCCCTGAGGTAGTAAGGGAGCAACCTAAAGATTG
125 AGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAACCTAAAGATTG
* * * * *
47650550 TAGTCTTATCTTCCTGAGGCAGCAAGGAAGCAGACTGAAGTTTGTAGATCCTATCTCTCTGAGAT
1 TAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCCTATCTCCCTGAGAC
* **
47650615 AGCAGTGGGGCAGATTGAAAATGGTGA-ATCTTCCCGAGCTAGCAGGGGAGCAGATTTTAGCCAC
66 AACAGTGGGGCAGATAAAAAATGGTGATATCTTCCCGAGCTAGCAGGGGAGCAGATTTTAGCCAC
* *
47650679 CAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAAGCTGAAGATTG
131 CAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAACCTAAAGATTG
* * * * * * *
47650723 TAGCCTTATCTTCTTAAGGTAGCAAGAAAGTAGACTGAAGATGGTACATCTTATCTCCCTGA
1 TAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCCTATCTCCCTGA
47650785 AGTTGCAGTG
Statistics
Matches: 204, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
173 127 0.62
177 4 0.02
178 71 0.35
179 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (174 bp):
TAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGATCCTATCTCCCTGAGAC
AACAGTGGGGCAGATAAAAAATGGTGATATCTTCCCGAGCTAGCAGGGGAGCAGATTTTAGCCAC
CAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAACCTAAAGATTG
Found at i:47651857 original size:39 final size:39
Alignment explanation
Indices: 47651801--47651965 Score: 249
Period size: 39 Copynumber: 4.2 Consensus size: 39
47651791 CTGGCAATTT
** * * *
47651801 GCCTGCTAGGTATAAACCCCAACTTAACACCGGTACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
*
47651840 GCCTGCTAGGTACAAACCTAAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
* *
47651879 GCCTGCTAGGTATAAACCTTAAGTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
*
47651918 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
47651957 GCCTGCTAG
1 GCCTGCTAG
47651966 ACATTAAGTC
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
Found at i:47654428 original size:44 final size:44
Alignment explanation
Indices: 47654380--47654643 Score: 174
Period size: 44 Copynumber: 6.0 Consensus size: 44
47654370 CCTTATCTCT
* *
47654380 CTGAGGTAGCAAGCGAGTAGGTTGAAGATTGTAGTCTCATCTTC
1 CTGAGGTAGCAAGCGAGCAGATTGAAGATTGTAGTCTCATCTTC
* * * *
47654424 CTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCTCC
1 CTGAGGTAGCAAGCGAGCAGATTGAAGATTGTAG-TCTCATCTTC
* * * * * * * * *
47654469 CT-AAGTAG-TAGTGGAGTAGATAGAAGATGGCAAATCTTATCTTC
1 CTGAGGTAGCAAG-CGAGCAGATTGAAGATTG-TAGTCTCATCTTC
* * * ** ***** * *
47654513 TTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATC-TC
1 CTGAGGTAGCAAGCGAGCAGATTGAAGATTGTAGTCTCATCTTC
* *
47654556 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTCATCTTC
1 -CTGAGGTAGCAAGCGAGCAGATTGAAGATTGTAGTCTCATCTTC
* * *
47654601 CTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
1 CTGAGGTAGCAAGCGAGCAGATTGAAGATTGTAG-TCTCATCT
47654644 CCCTAAGTAG
Statistics
Matches: 161, Mismatches: 51, Indels: 15
0.71 0.22 0.07
Matches are distributed among these distances:
43 4 0.02
44 121 0.75
45 35 0.22
46 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
CTGAGGTAGCAAGCGAGCAGATTGAAGATTGTAGTCTCATCTTC
Found at i:47654938 original size:177 final size:177
Alignment explanation
Indices: 47654337--47654953 Score: 907
Period size: 177 Copynumber: 3.5 Consensus size: 177
47654327 CTGCCACACC
* * * *
47654337 TGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGCGAGTAGGT
1 TGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGC
47654402 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
66 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
47654467 CCCTAAGTAGTAGTGGAGTAGATAGAAGATGGCAAATCTTATCTTCT
131 CCCTAAGTAGTAGTGGAGTAGATAGAAGATGGCAAATCTTATCTTCT
* *
47654514 TGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
1 TGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGC
47654579 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
66 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
*
47654644 CCCTAAGTAGTAGTGGAGTAGATAGAAGATGGCGAATCTTATCTTCT
131 CCCTAAGTAGTAGTGGAGTAGATAGAAGATGGCAAATCTTATCTTCT
* * *
47654691 TGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGAAACAGGC
1 TGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGC
* ** * * * *
47654756 TGAAGATTATAGTCTCATCTTCCTGAGGTAGCAAGGGAGGAGACTAAAGATTGTAGATTTTATCT
66 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
* * * * * *
47654821 CCCTAAGCAGTAGTGTAGCAGATCGAAGATGGCAAATATTATCTTCC
131 CCCTAAGTAGTAGTGGAGTAGATAGAAGATGGCAAATCTTATCTTCT
* * * *
47654868 CGAGGTAGCAGGGGAGC-GAATTTTAGCCACTAGTCTCATCT-TCCTGTA-GTAGCAAGGGAGCA
1 TGAGGTAGCAGGGGAGCAG-ATTTTAGCCACCAGCCTTATCTCT-CTG-AGGTAGCAAGGGAGCA
** *
47654930 AACTGAAGATTGTAGATCTTATCT
63 GGCTGAAGATTGTAG-TCTCATCT
47654954 CCCTAAGCAG
Statistics
Matches: 402, Mismatches: 34, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
176 2 0.00
177 392 0.98
178 8 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (177 bp):
TGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGC
TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGCAAGCAGATTAAAGATTGTAGATCTGATCT
CCCTAAGTAGTAGTGGAGTAGATAGAAGATGGCAAATCTTATCTTCT
Found at i:47655126 original size:133 final size:132
Alignment explanation
Indices: 47654765--47655126 Score: 460
Period size: 133 Copynumber: 2.7 Consensus size: 132
47654755 CTGAAGATTA
* * *
47654765 TAGTCTCATCTTCCTGAGGTAGCAAGGGAGGAGACT-AAAGATTGTAGATTTTATCTCCCTAAGC
1 TAGTCTCATCTTCCTTAGGTAGCAAGGGAGCAGACTGAAA-ATTGTAGATCTTATCTCCCTAAGC
* * * *
47654829 AGTAGTGTAGCAGATCGAAGATGGCAAATATTATCTTCCCGAGGTAGCAGGGGAGCGAATTTTAG
65 AGTAGTGGAGCAGATCGAAGATGGCGAA-CTTATCTTCCCAAGGTAGCAGGGGAGCGAATTTTAG
47654894 CCAC
129 CCAC
* *
47654898 TAGTCTCATCTTCCTGTA-GTAGCAAGGGAGCAAACTGAAGATTGTAGATCTTATCTCCCTAAGC
1 TAGTCTCATCTTCCT-TAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGC
* *
47654962 AGTTGTGGAGCAGATCGAAGATGGCGAAACTTATCTTCCCAAGGTAGCAGGGGAGC-AGATTTTT
65 AGTAGTGGAGCAGATCGAAGATGGCG-AACTTATCTTCCCAAGGTAGCAGGGGAGCGA-ATTTTA
47655026 GCCAC
128 GCCAC
* * * * * *
47655031 TAGTCTTATCTTTCTTAGGTAGCAAGGGAGTAGACTGAAAATTATAGATCTTATCTCCCTGACGT
1 TAGTCTCATCTTCCTTAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTTATCTCCCT-AAGC
* * * *
47655096 AGCAGTGGAGTAGATCGAAGACGGTGAACTT
65 AGTAGTGGAGCAGATCGAAGATGGCGAACTT
47655127 TAGCAATGGA
Statistics
Matches: 199, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
132 3 0.02
133 168 0.84
134 28 0.14
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (132 bp):
TAGTCTCATCTTCCTTAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCGAACTTATCTTCCCAAGGTAGCAGGGGAGCGAATTTTAGCC
AC
Found at i:47655558 original size:16 final size:17
Alignment explanation
Indices: 47655533--47655564 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47655523 AGTGATAAAT
47655533 AAACCAAAAATAAATTA
1 AAACCAAAAATAAATTA
47655550 AAACC-AAAATAAATT
1 AAACCAAAAATAAATT
47655565 TTTTTAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (17 bp):
AAACCAAAAATAAATTA
Found at i:47657924 original size:40 final size:40
Alignment explanation
Indices: 47657841--47658103 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
47657831 TTGAATGCTG
* * * * * *
47657841 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
47657881 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
47657921 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
47657961 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47658001 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47658041 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47658080 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47658104 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Done.