Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 149 of 345
Found at i:50379101 original size:21 final size:21
Alignment explanation
Indices: 50379075--50379115 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50379065 AATCATTAAA
*
50379075 TTGATGT-TATGATATGTGTAT
1 TTGATGTGTAT-AAATGTGTAT
50379096 TTGATGTGTATAAATGTGTA
1 TTGATGTGTATAAATGTGTA
50379116 AGCGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
TTGATGTGTATAAATGTGTAT
Found at i:50384181 original size:3 final size:3
Alignment explanation
Indices: 50384173--50384202 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
50384163 CATACTTAAA
50384173 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50384203 GAGATGAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50384637 original size:17 final size:17
Alignment explanation
Indices: 50384617--50384650 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50384607 GAAACTTAGT
50384617 ATAAAACTCTAAAAATG
1 ATAAAACTCTAAAAATG
50384634 ATAAAACTCTAAAAATG
1 ATAAAACTCTAAAAATG
50384651 CTTGCATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAAAACTCTAAAAATG
Found at i:50387086 original size:46 final size:46
Alignment explanation
Indices: 50386942--50387255 Score: 230
Period size: 46 Copynumber: 6.7 Consensus size: 46
50386932 TTTATGTGCT
* * *
50386942 AGTGTAAGACATGTCTGGGTCATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * *
50386988 AGTGTAAGAGTATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
**
50387036 AGTGTAAGACATGTCTTAGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * * * *
50387082 AGTGTAAGGCATGTCTGGGACATGCATCAG-CT--ACATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-GAGCC
* * *
50387126 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATAAGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGA-GA-TGAGAGCC
* ** *
50387176 AGTGTAAGATCATGTCTGGGACATGGCATC-GACTTAATG-TGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGAGAGCC
*
50387223 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
50387256 ATTATACCCT
Statistics
Matches: 216, Mismatches: 36, Indels: 30
0.77 0.13 0.11
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 10 0.05
45 16 0.07
46 58 0.27
47 58 0.27
48 27 0.12
49 5 0.02
50 34 0.16
51 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:50389289 original size:18 final size:18
Alignment explanation
Indices: 50389231--50389317 Score: 50
Period size: 18 Copynumber: 4.7 Consensus size: 18
50389221 AAAAGCCTTT
*
50389231 AAAATTTAAAATTGATTTAA
1 AAAAATTAAAATT--TTTAA
* * * *
50389251 AAATCATAAAAATTATAAA
1 AAA-AATTAAAATTTTTAA
50389270 AAAAATTAAAATTTTTAA
1 AAAAATTAAAATTTTTAA
** *
50389288 AATTA-TAAAACTTTTATA
1 AAAAATTAAAATTTTTA-A
*
50389306 AAAAATAAAAAT
1 AAAAATTAAAAT
50389318 ACCAACCCAA
Statistics
Matches: 48, Mismatches: 16, Indels: 7
0.68 0.23 0.10
Matches are distributed among these distances:
17 10 0.21
18 18 0.38
19 10 0.21
20 3 0.06
21 7 0.15
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAAATTAAAATTTTTAA
Found at i:50391260 original size:18 final size:17
Alignment explanation
Indices: 50391237--50391279 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
50391227 AAATTTCAAA
*
50391237 AAAAATTAAATAATTTTT
1 AAAAATTAAA-AATATTT
*
50391255 AAAAATTCAAAATATTT
1 AAAAATTAAAAATATTT
50391272 ATAAAATT
1 A-AAAATT
50391280 TTCAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATTAAAAATATTT
Found at i:50391267 original size:20 final size:20
Alignment explanation
Indices: 50391244--50391287 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50391234 AAAAAAAATT
*
50391244 AAATAATTTTTAAAA-ATTCA
1 AAAT-ATTTATAAAATATTCA
*
50391264 AAATATTTATAAAATTTTCA
1 AAATATTTATAAAATATTCA
50391284 AAAT
1 AAAT
50391288 TTATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTTATAAAATATTCA
Found at i:50391289 original size:18 final size:18
Alignment explanation
Indices: 50391242--50391331 Score: 72
Period size: 19 Copynumber: 4.8 Consensus size: 18
50391232 TCAAAAAAAA
* *
50391242 TTAAATAATTTTTAAAAAT
1 TTAAA-AATTTATAAAATT
*
50391261 TCAAAATATTTATAAAATT
1 TTAAAA-ATTTATAAAATT
* * *
50391280 TTCAAAATTTATATATTT
1 TTAAAAATTTATAAAATT
* *
50391298 TTTAAAATTATAAAAAATT
1 TTAAAAATT-TATAAAATT
*
50391317 TTAAAAATTTCTAAA
1 TTAAAAATTTATAAA
50391332 TAATATATAA
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
18 23 0.42
19 32 0.58
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAAAATTTATAAAATT
Found at i:50391339 original size:46 final size:45
Alignment explanation
Indices: 50391249--50391340 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
50391239 AAATTAAATA
* * *
50391249 ATTTTTAAAAATTCAAAATATTTATAAAATTTTCAAAATTTATAT
1 ATTTTTAAAAATTCAAAAAATTTATAAAAATTTCAAAATATATAT
* * *
50391294 ATTTTTTAAAATTATAAAAAATTT-TAAAAATTTCTAAATAATATAT
1 ATTTTTAAAAATT-CAAAAAATTTATAAAAATTTCAAAAT-ATATAT
50391340 A
1 A
50391341 AAGAAAGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
45 25 0.64
46 14 0.36
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (45 bp):
ATTTTTAAAAATTCAAAAAATTTATAAAAATTTCAAAATATATAT
Found at i:50392964 original size:23 final size:24
Alignment explanation
Indices: 50392936--50392982 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
50392926 TTTTTATAGT
*
50392936 ATAAATTA-TATAATATA-TATAA
1 ATAAAATATTATAATATATTATAA
*
50392958 ATAAAATATTATATTATATTATAA
1 ATAAAATATTATAATATATTATAA
50392982 A
1 A
50392983 ATTAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAAATATTATAATATATTATAA
Found at i:50392970 original size:18 final size:18
Alignment explanation
Indices: 50392929--50392971 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
50392919 TTTAATCTTT
* *
50392929 TTATAGTATAAATTATATA
1 TTATA-TATAAATAAAATA
*
50392948 ATATATATAAATAAAATA
1 TTATATATAAATAAAATA
50392966 TTATAT
1 TTATAT
50392972 TATATTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTATATATAAATAAAATA
Found at i:50394779 original size:17 final size:17
Alignment explanation
Indices: 50394759--50394809 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
50394749 TATAAAATTT
50394759 AAATATAATATAATATA
1 AAATATAATATAATATA
*
50394776 AAATAT-ATAATAAAATA
1 AAATATAAT-ATAATATA
* *
50394793 ATATATTAATTTAATAT
1 AAATA-TAATATAATAT
50394810 TACAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 17 0.63
18 6 0.22
19 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATATAATATA
Found at i:50398971 original size:40 final size:39
Alignment explanation
Indices: 50398907--50399118 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
50398897 TCTTCGGAAT
* *
50398907 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
50398946 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
50398986 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
50399026 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
50399066 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
50399106 TTAGCCCGGATAT
1 TTAGCCCGGATAT
50399119 CATTCAAATG
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.07
40 131 0.89
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:50399034 original size:80 final size:80
Alignment explanation
Indices: 50398907--50399118 Score: 345
Period size: 80 Copynumber: 2.7 Consensus size: 80
50398897 TCTTCGGAAT
* * * * *
50398907 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
50398971 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
50398986 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
50399051 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
50399066 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
50399119 CATTCAAATG
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 4 0.03
80 118 0.97
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:50404030 original size:42 final size:42
Alignment explanation
Indices: 50403971--50404134 Score: 141
Period size: 42 Copynumber: 3.8 Consensus size: 42
50403961 GGGTTATGTG
* *
50403971 TGATTTCGTGTAAGACCATATCTGGAATATGGCATTGATATT
1 TGATTTCATGTAAGACCATATCTGGAATATGGCATCGATATT
* * * **
50404013 TGATTTCATGTAAGACCATGTCTGGGACATGGCATCGATACG
1 TGATTTCATGTAAGACCATATCTGGAATATGGCATCGATATT
* * * * ** *
50404055 AGATATCGTGTAAGACCATAGCTGGGCTATCGACATCGATATAT
1 TGATTTCATGTAAGACCATATCTGGAATAT-GGCATCGATAT-T
**
50404099 GTGATCCCATGTAAGACCATATCT-GAGATATGGCAT
1 -TGATTTCATGTAAGACCATATCTGGA-ATATGGCAT
50404135 TGGCATCTTA
Statistics
Matches: 93, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 58 0.62
43 9 0.10
44 5 0.05
45 21 0.23
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGAATATGGCATCGATATT
Found at i:50404132 original size:87 final size:84
Alignment explanation
Indices: 50403976--50404134 Score: 201
Period size: 87 Copynumber: 1.9 Consensus size: 84
50403966 ATGTGTGATT
* * * ** * *
50403976 TCGTGTAAGACCATATCTGGAATATGGCATTGATATTTGATTTCATGTAAGACCATGTCTGGGAC
1 TCGTGTAAGACCATAGCTGGAATATGACATCGATATTTGATCCCATGTAAGACCATATCTGAGAC
50404041 ATGGCATCGATACGAGATA
66 ATGGCATCGATACGAGATA
**
50404060 TCGTGTAAGACCATAGCTGGGCTATCGACATCGATATATGTGATCCCATGTAAGACCATATCTGA
1 TCGTGTAAGACCATAGCTGGAATAT-GACATCGATAT-T-TGATCCCATGTAAGACCATATCTGA
*
50404125 GATATGGCAT
63 GACATGGCAT
50404135 TGGCATCTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 22 0.35
85 9 0.15
86 1 0.02
87 30 0.48
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (84 bp):
TCGTGTAAGACCATAGCTGGAATATGACATCGATATTTGATCCCATGTAAGACCATATCTGAGAC
ATGGCATCGATACGAGATA
Found at i:50404962 original size:43 final size:43
Alignment explanation
Indices: 50404899--50405034 Score: 236
Period size: 43 Copynumber: 3.2 Consensus size: 43
50404889 GGTGGAAGTG
* * *
50404899 CCGCTAAAAGTCATGGCTTTTAGCAGCGCTTTTGTTACAAACA
1 CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACA
50404942 CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACA
1 CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACA
*
50404985 CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACG
1 CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACA
50405028 CCGCTAA
1 CCGCTAA
50405035 TTTTGGCAGA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
CCGCTAAAAGTCACGTCTTTTAGCGGCGCTTTTGTTACAAACA
Found at i:50409161 original size:12 final size:12
Alignment explanation
Indices: 50409146--50409182 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
50409136 ATCATCCTCT
50409146 TCATCAGATTCA
1 TCATCAGATTCA
50409158 TCATCAGATTCA
1 TCATCAGATTCA
50409170 TCATCAGATTCA
1 TCATCAGATTCA
50409182 T
1 T
50409183 TCCTCGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:50410895 original size:9 final size:9
Alignment explanation
Indices: 50410881--50411024 Score: 66
Period size: 9 Copynumber: 16.0 Consensus size: 9
50410871 TAAGTATAAT
50410881 TAAGTTATG
1 TAAGTTATG
50410890 TAAGTTATG
1 TAAGTTATG
* * *
50410899 ATATGATATA
1 -TAAGTTATG
*
50410909 T-ATTTATG
1 TAAGTTATG
50410917 T-A-TTATG
1 TAAGTTATG
*
50410924 TAAGTTACG
1 TAAGTTATG
*
50410933 TAAATTATG
1 TAAGTTATG
* *
50410942 TAAGTTGTT
1 TAAGTTATG
**
50410951 TATCTTATG
1 TAAGTTATG
50410960 TACA-TTATG
1 TA-AGTTATG
*
50410969 TAAGATATGATA
1 TAAG-T-T-ATG
*
50410981 TATATTTATG
1 TA-AGTTATG
50410991 T-A-TTATG
1 TAAGTTATG
50410998 TAAGTTATG
1 TAAGTTATG
*
50411007 TAAATTATG
1 TAAGTTATG
*
50411016 TAAGATATG
1 TAAGTTATG
50411025 ATATATATTT
Statistics
Matches: 100, Mismatches: 24, Indels: 22
0.68 0.16 0.15
Matches are distributed among these distances:
7 12 0.12
8 9 0.09
9 61 0.61
10 10 0.10
11 2 0.02
12 5 0.05
13 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:50411015 original size:18 final size:18
Alignment explanation
Indices: 50410918--50411024 Score: 76
Period size: 18 Copynumber: 5.8 Consensus size: 18
50410908 ATATTTATGT
*
50410918 ATTATGTAAGTTACGTAA
1 ATTATGTAAGTTATGTAA
* * *
50410936 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
*
50410954 CTTATGTACA-TTATGTAA
1 ATTATGTA-AGTTATGTAA
* *
50410972 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
50410992 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
50411010 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
50411025 ATATATATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 41 0.60
19 4 0.06
20 1 0.01
21 5 0.07
22 6 0.09
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:50414462 original size:40 final size:39
Alignment explanation
Indices: 50414375--50414465 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
50414365 TTCGAGAAAG
* **
50414375 CGCCGCTAATGCTCGATCTATAGCGGCATTTTTCATGAA
1 CGCCGCTAATGCTCGATCTATAGCGGCATTTTGCAAAAA
* *
50414414 -GCAACGCTAATTCTCTATCTATAGCGGCATTTTGCTAAAAA
1 CGC--CGCTAATGCTCGATCTATAGCGGCATTTTGC-AAAAA
50414455 CGCCGCTAATG
1 CGCCGCTAATG
50414466 TCCGATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.05
40 35 0.83
41 3 0.07
42 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (39 bp):
CGCCGCTAATGCTCGATCTATAGCGGCATTTTGCAAAAA
Found at i:50419981 original size:50 final size:50
Alignment explanation
Indices: 50419844--50419984 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 50
50419834 CACATAGTAA
* * *
50419844 GATACCAATGCCATATCCCAGATATGGTCTTACAT-GGATTCACACATATC
1 GATACAAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCACACATATC
*
50419894 GATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
1 GATACAAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
* ** *
50419944 GATGCAAATGCCATGTCTTAGACGTGGTCTTACATGGGATC
1 GATACAAATGCCATGTCCCAGACATGGTCTTACATGGGATC
50419985 TCATATTGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 80 0.96
51 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
GATACAAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATC
Found at i:50425340 original size:48 final size:48
Alignment explanation
Indices: 50425269--50425536 Score: 401
Period size: 48 Copynumber: 5.6 Consensus size: 48
50425259 ACGATGCCTC
* * *
50425269 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAGCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* *
50425317 ATGCCGATGCCATGTCCTAGACATGGTTTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * *
50425365 ATGCCAATGTCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * *
50425413 ATGCCGATGCCATGTCCCAAACATGGTCTTACAGTGGCTCACGTGACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* *
50425461 ATGCCAATGCCATGTCCCAGACATGGTCTCACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* *
50425509 ATGTCGATGCCATGTCCCAGACAGGGTC
1 ATGCCGATGCCATGTCCCAGACATGGTC
50425537 ACACAGTTAC
Statistics
Matches: 198, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 198 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
Found at i:50434926 original size:44 final size:44
Alignment explanation
Indices: 50434876--50434963 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
50434866 GGATAAATCT
* *
50434876 AACAACCCAAGATTGTCATT-TCCTTTTTTTAAATTCTTTTTTTC
1 AACAACCCAAGATTATC-TTCTCCTCTTTTTAAATTCTTTTTTTC
*
50434920 AACAACCCAAGGTTATCTTCTCCTCTTTTTAAATTCTTTTTTTC
1 AACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTTC
50434964 TAGGATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 2 0.05
44 38 0.95
ACGTcount: A:0.24, C:0.23, G:0.05, T:0.49
Consensus pattern (44 bp):
AACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTTC
Found at i:50443721 original size:15 final size:16
Alignment explanation
Indices: 50443694--50443723 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50443684 TAAAATAAGT
50443694 TAAATGTGTACAAATA
1 TAAATGTGTACAAATA
50443710 TAAATG-GTACAAAT
1 TAAATGTGTACAAAT
50443724 GTATTATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (16 bp):
TAAATGTGTACAAATA
Found at i:50443897 original size:12 final size:12
Alignment explanation
Indices: 50443882--50443915 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50443872 AAGAAAGAAG
50443882 AAAAGAGAAAGA
1 AAAAGAGAAAGA
*
50443894 AAAAGAAAAAGA
1 AAAAGAGAAAGA
*
50443906 AAAAGGGAAA
1 AAAAGAGAAA
50443916 ACTAGGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAGA
Found at i:50443898 original size:6 final size:6
Alignment explanation
Indices: 50443871--50443910 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
50443861 ATTAGCAGGG
*
50443871 AAAGAA AGAAG-A AAAGAG AAAGAA AAAGAA AAAGAA AAAG
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG
50443911 GGAAAACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:50444917 original size:6 final size:6
Alignment explanation
Indices: 50444906--50445028 Score: 219
Period size: 6 Copynumber: 20.5 Consensus size: 6
50444896 TGTGTACCGC
* *
50444906 TACTGT TACTGT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
50444954 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
*
50445002 TACTAT TACTAT TACTAT TACTGT TAC
1 TACTAT TACTAT TACTAT TACTAT TAC
50445029 CCTTATGGTG
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 115 1.00
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (6 bp):
TACTAT
Found at i:50445332 original size:16 final size:16
Alignment explanation
Indices: 50445311--50445342 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50445301 GAAATAAGAT
50445311 AGTACAGAATATTGAA
1 AGTACAGAATATTGAA
50445327 AGTACAGAATATTGAA
1 AGTACAGAATATTGAA
50445343 TGAAAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
AGTACAGAATATTGAA
Found at i:50448210 original size:26 final size:26
Alignment explanation
Indices: 50448173--50448280 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
50448163 TAATACAAAT
*
50448173 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
50448199 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50448225 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50448251 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
50448277 TGAT
1 TGAT
50448281 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:50449433 original size:8 final size:8
Alignment explanation
Indices: 50449417--50449446 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50449407 AGATCGGCAC
50449417 AAGCTGAA
1 AAGCTGAA
*
50449425 AAGCCGAA
1 AAGCTGAA
50449433 AAGCTGAA
1 AAGCTGAA
50449441 AAGCTG
1 AAGCTG
50449447 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.27, T:0.10
Consensus pattern (8 bp):
AAGCTGAA
Found at i:50449938 original size:27 final size:26
Alignment explanation
Indices: 50449841--50449948 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
50449831 AGCATCCTGA
* * *
50449841 TGGCTATGCCACAAATATCTGATCTGG
1 TGGCTCTGCCAC-ATTATCTGTTCTGG
50449868 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACAT-TATCTGTTCTGG
50449895 TGGCTCTGCCACGATTATCTGTATCTGG
1 TGGCTCTGCCAC-ATTATCTGT-TCTGG
* **
50449923 TGACTCTGTTACATTATCTGTTCTGG
1 TGGCTCTGCCACATTATCTGTTCTGG
50449949 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGTTCTGG
Found at i:50449941 original size:54 final size:54
Alignment explanation
Indices: 50449841--50449948 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
50449831 AGCATCCTGA
*
50449841 TGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTCTGG
* * * **
50449895 TGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTTACAT-TATCTGTTCTGG
1 TGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTGG
50449949 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
TGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTCTGG
Found at i:50455226 original size:26 final size:26
Alignment explanation
Indices: 50455197--50455252 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
50455187 TGATACAAAT
50455197 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
* *
50455223 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGATAAATGTTCCA
50455249 TGAT
1 TGAT
50455253 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGATAAATGTTCCA
Found at i:50456915 original size:27 final size:27
Alignment explanation
Indices: 50456814--50456920 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
50456804 AGGAAGCGTC
* * *
50456814 CTGGTGGCTATGCCACAAATATCTG-AT
1 CTGGTGGCTCTGTCAC-ATTATCTGTAT
*
50456841 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGTCACAT-TATCTGTAT
50456868 CTGGTGGCTCTGTCACGATTATCTGTAT
1 CTGGTGGCTCTGTCAC-ATTATCTGTAT
*
50456896 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGTCACATTATCTGT
50456921 TTTGGCAGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.74
28 18 0.25
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACATTATCTGTAT
Found at i:50456918 original size:54 final size:54
Alignment explanation
Indices: 50456814--50456921 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
50456804 AGGAAGCGTC
*
50456814 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
50456868 CTGGTGGCTCTGTCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
50456922 TTGGCAGCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:50459918 original size:20 final size:20
Alignment explanation
Indices: 50459893--50459936 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
50459883 CTGAGGACAT
50459893 GGGCGTGTCCCAAGCCACAC
1 GGGCGTGTCCCAAGCCACAC
*
50459913 GGGCGTGTCCTAAGCCACAC
1 GGGCGTGTCCCAAGCCACAC
50459933 GGGC
1 GGGC
50459937 ATGTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.36, G:0.34, T:0.11
Consensus pattern (20 bp):
GGGCGTGTCCCAAGCCACAC
Found at i:50464457 original size:42 final size:43
Alignment explanation
Indices: 50464375--50464500 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
50464365 TCCCAAACGT
* *
50464375 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
* * *
50464418 GGTCTTACACGAAATCATATA-CGATGCCGA-TGTCTCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAGACAG
* *
50464460 GGTCTTACACGTAAATCTCAA-ATCGATGCAAC-GTCCCAGAC
1 GGTCTTACACG-AAATC-AAATATCGATGCCACTGTCCCAGAC
50464501 GTGGTCCCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
42 28 0.41
43 34 0.49
44 7 0.10
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:50464506 original size:43 final size:43
Alignment explanation
Indices: 50464360--50464506 Score: 126
Period size: 43 Copynumber: 3.4 Consensus size: 43
50464350 CATACAATGC
* * *
50464360 CAACGTCCCAAACGTGGTCTTACATGT-AATC-AAATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACGTAAATCTCAA-ATCGATG
* *
50464402 CCACTGTCCCAGACAG-GGTCTTACACG-AAA--TCATATACGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCTCAAAT-CGATG
* * * *
50464444 CCGATGTCTCAGACATGGTCTTACACGTAAATCTCAAATCGATG
1 -CAACGTCCCAGACGTGGTCTTACACGTAAATCTCAAATCGATG
50464488 CAACGTCCCAGACGTGGTC
1 CAACGTCCCAGACGTGGTC
50464507 CCTATATCAT
Statistics
Matches: 81, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
41 2 0.02
42 28 0.35
43 40 0.49
44 6 0.07
45 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACGTAAATCTCAAATCGATG
Found at i:50467378 original size:12 final size:12
Alignment explanation
Indices: 50467350--50467401 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
50467340 AACCGAAATG
* *
50467350 GAAACGAAAGCA
1 GAAAAGAAAGAA
50467362 GAAAAGAAAGAA
1 GAAAAGAAAGAA
*
50467374 CAAAAG-AAGAA
1 GAAAAGAAAGAA
50467385 GAAAAGAAAGAA
1 GAAAAGAAAGAA
50467397 GAAAA
1 GAAAA
50467402 AAACAAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAA
Found at i:50471913 original size:42 final size:41
Alignment explanation
Indices: 50471809--50471915 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 41
50471799 GGATTTTCGA
* * * *
50471809 TATTTGATTTCGAGTAAGACCACGTCTGGAACGTTGGCATT
1 TATTTGATTTTGTGTAAGACCACGTCTGGAACATTGACATT
* *
50471850 GATTTGAGATTTATGTGTAAGACCATGTCTAGG-ACATTGACATCT
1 TATTT--GATTT-TGTGTAAGACCACGTCT-GGAACATTGACAT-T
50471895 TATTTGATTTTGTGTAAGACC
1 TATTTGATTTTGTGTAAGACC
50471916 CTATTTGGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
41 4 0.07
42 11 0.20
43 10 0.19
44 22 0.41
45 7 0.13
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (41 bp):
TATTTGATTTTGTGTAAGACCACGTCTGGAACATTGACATT
Found at i:50477955 original size:23 final size:23
Alignment explanation
Indices: 50477941--50477989 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
50477931 TACAGACATC
*
50477941 GATGCATAGCAGATACAGAAACA
1 GATGCATAACAGATACAGAAACA
* *
50477964 GATGCATAATAGATACAGATACA
1 GATGCATAACAGATACAGAAACA
50477987 GAT
1 GAT
50477990 CCTACCCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (23 bp):
GATGCATAACAGATACAGAAACA
Found at i:50480210 original size:7 final size:7
Alignment explanation
Indices: 50480198--50480228 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
50480188 TAGTTAATAC
50480198 TATAAGA
1 TATAAGA
50480205 TATAAGA
1 TATAAGA
50480212 TATAAGA
1 TATAAGA
50480219 TATAAGA
1 TATAAGA
50480226 TAT
1 TAT
50480229 GGGGTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (7 bp):
TATAAGA
Found at i:50481850 original size:15 final size:16
Alignment explanation
Indices: 50481830--50481875 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
50481820 AACATAAGTG
50481830 ACTAAAATATAATAT-
1 ACTAAAATATAATATA
* *
50481845 -TTTAAATATAA-ATA
1 ACTAAAATATAATATA
50481859 ACTAAAATATAATATA
1 ACTAAAATATAATATA
50481875 A
1 A
50481876 AATAAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 9 0.38
16 4 0.17
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
ACTAAAATATAATATA
Found at i:50491105 original size:130 final size:130
Alignment explanation
Indices: 50490871--50491135 Score: 521
Period size: 130 Copynumber: 2.0 Consensus size: 130
50490861 TTTTGAATCT
50490871 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
1 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
50490936 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
66 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
50491001 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
1 GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
*
50491066 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTTTGCTTTTATCTCACAATTAACTATTGTTGA
66 TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
50491131 GATCT
1 GATCT
50491136 CTAAGGATAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 134 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (130 bp):
GATCTTGATTTCCTTATTTCCAAAAGGAAAGGAGTGAGGAGTTGTGTTAAATATCCTTCGTCTAA
TTTTGTTTCTTACAAAAATTTGTCACCTGTTTTTCTGCTTTTATCTCACAATTAACTATTGTTGA
Found at i:50496054 original size:22 final size:22
Alignment explanation
Indices: 50496029--50496073 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
50496019 TTTAATAAAA
50496029 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
50496051 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
50496073 A
1 A
50496074 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:50500651 original size:22 final size:22
Alignment explanation
Indices: 50500626--50500675 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
50500616 TTTAATAAAA
50500626 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
50500648 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
*
50500670 ACAATA
1 AAAATA
50500676 ACATAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:50500822 original size:48 final size:44
Alignment explanation
Indices: 50500702--50500825 Score: 149
Period size: 44 Copynumber: 2.7 Consensus size: 44
50500692 TGGCTGTGCA
* *
50500702 GAATTTGCAAGTAGTTGCAGATTCTCCTTGATATTAGGAAGTTT
1 GAATTTGCAAGTAGTTGCAGATTCCCCTTGATATGAGGAAGTTT
* *
50500746 GAATCTGCAAGTAGTTGCAGATTTCCCTTGATATGAGGAAGTCATGT
1 GAATTTGCAAGTAGTTGCAGATTCCCCTTGATATGAGGAAGT--T-T
* * *
50500793 AGACTTTGCAAGTTGTTGAAGATTCCCCTTGAT
1 -GAATTTGCAAGTAGTTGCAGATTCCCCTTGAT
50500826 TTTTGTGAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 38 0.57
46 1 0.01
47 1 0.01
48 27 0.40
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (44 bp):
GAATTTGCAAGTAGTTGCAGATTCCCCTTGATATGAGGAAGTTT
Found at i:50504086 original size:33 final size:33
Alignment explanation
Indices: 50504044--50504140 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
50504034 TCTTCTTGAC
* *
50504044 ATTCCAGCTCCTGTCCAGCAACCACACACTTCA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
*
50504077 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
*
50504110 ATTCCAGCTCCTGTCCAGCAATCAAACACTC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTC
50504141 TCACTCAGAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.28, C:0.42, G:0.09, T:0.21
Consensus pattern (33 bp):
ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
Found at i:50509594 original size:12 final size:12
Alignment explanation
Indices: 50509577--50509601 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50509567 TAGATGTCTA
50509577 TTATGTTAAAGG
1 TTATGTTAAAGG
50509589 TTATGTTAAAGG
1 TTATGTTAAAGG
50509601 T
1 T
50509602 GATCTGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TTATGTTAAAGG
Found at i:50509700 original size:32 final size:31
Alignment explanation
Indices: 50509651--50509724 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
50509641 TTCTAAAACT
50509651 AAAATCAGAAATAGAAGGAATTTATGCAAATG
1 AAAAT-AGAAATAGAAGGAATTTATGCAAATG
* * *
50509683 AAAATAGAGAATTGAAGGAATTTTTGTAAATG
1 AAAATAGA-AATAGAAGGAATTTATGCAAATG
*
50509715 AGAATAGAAA
1 AAAATAGAAA
50509725 GAAATTCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 5 0.14
32 32 0.86
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (31 bp):
AAAATAGAAATAGAAGGAATTTATGCAAATG
Found at i:50512538 original size:46 final size:46
Alignment explanation
Indices: 50512470--50512557 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
50512460 CGCCACTCTA
50512470 TGTATGATCAATGTCACAACATTGCGAGGGATGATCTTGCGACATT
1 TGTATGATCAATGTCACAACATTGCGAGGGATGATCTTGCGACATT
*** *
50512516 TGTATGATCAATGTCGTGACATTGCGAGGGATGATGTTGCGA
1 TGTATGATCAATGTCACAACATTGCGAGGGATGATCTTGCGA
50512558 TTGTAGCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (46 bp):
TGTATGATCAATGTCACAACATTGCGAGGGATGATCTTGCGACATT
Found at i:50518413 original size:51 final size:51
Alignment explanation
Indices: 50518337--50518439 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
50518327 CCCGAGGTAA
50518337 TCATTAAGAGGAGACATGTTTTATAGGATCCTTACACCAATTAATTCATTT
1 TCATTAAGAGGAGACATGTTTTATAGGATCCTTACACCAATTAATTCATTT
50518388 TCATTAAGAGGAGACATGTTTTATAGGATCCTTACACCAATTAATTCATTT
1 TCATTAAGAGGAGACATGTTTTATAGGATCCTTACACCAATTAATTCATTT
50518439 T
1 T
50518440 TTCTTTTTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (51 bp):
TCATTAAGAGGAGACATGTTTTATAGGATCCTTACACCAATTAATTCATTT
Found at i:50523934 original size:40 final size:40
Alignment explanation
Indices: 50523820--50524020 Score: 180
Period size: 39 Copynumber: 5.1 Consensus size: 40
50523810 CGGATGATAA
* * * *
50523820 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* * *
50523860 CCGGGCTAA-ACCCAAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
50523899 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAATTATTGA-A-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-ATAT
* *
50523938 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * * *
50523978 CTGGG-TCAAGTCTCGAAGGCATTTGAGCAAG-TAGTTATAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
50524018 CCG
1 CCG
50524021 ACTAAATTCC
Statistics
Matches: 130, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 65 0.50
40 63 0.48
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:50529118 original size:33 final size:33
Alignment explanation
Indices: 50529034--50529107 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
50529024 TACTCTCTGT
*
50529034 TTGGTGTGTTGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * *
50529067 CTAGTGTGTTGGTTGGATTAGCTCTTCTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
50529100 TTGGTGTG
1 TTGGTGTG
50529108 CTGGAGGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.12, G:0.34, T:0.41
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:50531124 original size:29 final size:30
Alignment explanation
Indices: 50531042--50531102 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
50531032 TTATGTTCTC
*
50531042 TCTTTGCGTTTGGTAAGTGTAATTAGCGTT
1 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
50531072 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
1 TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
50531102 T
1 T
50531103 TATTGCTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.46
Consensus pattern (30 bp):
TCTTTGCGTTTGGTAAGTGCAATTAGCGTT
Found at i:50531594 original size:17 final size:19
Alignment explanation
Indices: 50531566--50531604 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
50531556 TTGAACTTTA
50531566 GGGCTGTGTGGG-CCACAC
1 GGGCTGTGTGGGTCCACAC
*
50531584 GGGCT-TGTGGGTTCACAC
1 GGGCTGTGTGGGTCCACAC
50531602 GGG
1 GGG
50531605 TGGACCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.10, C:0.23, G:0.46, T:0.21
Consensus pattern (19 bp):
GGGCTGTGTGGGTCCACAC
Found at i:50535943 original size:39 final size:39
Alignment explanation
Indices: 50535921--50536130 Score: 348
Period size: 39 Copynumber: 5.4 Consensus size: 39
50535911 CTACGGGACT
* * *
50535921 TTAGCCCGGAGAGAACACCAGCACGAATGCCTTTGGGGC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
50535960 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
*
50535999 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
*
50536038 TTAGCCCAGATATAACACCAGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
* *
50536077 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
*
50536116 TTAGCCTGGATATAA
1 TTAGCCCGGATATAA
50536131 TTCTCCATTA
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
Found at i:50537151 original size:2 final size:2
Alignment explanation
Indices: 50537144--50537180 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
50537134 ATATAATCAC
* *
50537144 AT AT AT AT AC AT AT AT AT AT AT AA AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50537181 ACCTAAATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:50537161 original size:14 final size:14
Alignment explanation
Indices: 50537144--50537181 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
50537134 ATATAATCAC
*
50537144 ATATATATACATAT
1 ATATATATAAATAT
50537158 ATATATATAAATAT
1 ATATATATAAATAT
50537172 ATATATATAA
1 ATATATATAA
50537182 CCTAAATCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATAAATAT
Found at i:50543283 original size:39 final size:39
Alignment explanation
Indices: 50543239--50543359 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
50543229 ATGCAAGACA
50543239 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
50543278 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
50543317 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
50543356 CTGG
1 CTGG
50543360 TGCTGGTAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.26, G:0.32, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:50544732 original size:52 final size:52
Alignment explanation
Indices: 50544654--50544759 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
50544644 GTAATCGATC
50544654 TATAAGTAAATTAATTATTTGCATTGCTTAAAACTTACTAAGCATTGAAGCT
1 TATAAGTAAATTAATTATTTGCATTGCTTAAAACTTACTAAGCATTGAAGCT
50544706 TATAAGTAAATTAATTATTTGCATTGCTTAAAACTTACTAAGCATTGAAGCT
1 TATAAGTAAATTAATTATTTGCATTGCTTAAAACTTACTAAGCATTGAAGCT
50544758 TA
1 TA
50544760 CTCCGTGTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (52 bp):
TATAAGTAAATTAATTATTTGCATTGCTTAAAACTTACTAAGCATTGAAGCT
Found at i:50559557 original size:38 final size:38
Alignment explanation
Indices: 50559501--50559583 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
50559491 AGAAAAAGAG
50559501 ATAGTTAGGGTTCAGCTAGTTCAAGCATCAATTAAGGT
1 ATAGTTAGGGTTCAGCTAGTTCAAGCATCAATTAAGGT
*
50559539 ATAGTTAGGGTTCGGCTAGTTCAAGCATCAATTAAGGT
1 ATAGTTAGGGTTCAGCTAGTTCAAGCATCAATTAAGGT
50559577 ATGAGTT
1 AT-AGTT
50559584 TTATTCGGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 39 0.91
39 4 0.09
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (38 bp):
ATAGTTAGGGTTCAGCTAGTTCAAGCATCAATTAAGGT
Found at i:50573280 original size:46 final size:48
Alignment explanation
Indices: 50573208--50573310 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
50573198 GACAGGACAG
* * *
50573208 GACAGAAATGACCCATGTAAGTCCATATCA-AT-TATATGGCTTTGGA
1 GACAGGAATGACCCATGTAAGCCCATATCATATATATATGGCATTGGA
* *
50573254 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGACCCATGTAAGCCCATATCATATATATATGGCATTGGA
50573302 GACAGGAAT
1 GACAGGAAT
50573311 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 26 0.52
47 2 0.04
48 22 0.44
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (48 bp):
GACAGGAATGACCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:50573319 original size:48 final size:46
Alignment explanation
Indices: 50573220--50573322 Score: 134
Period size: 48 Copynumber: 2.2 Consensus size: 46
50573210 CAGAAATGAC
* * *
50573220 CCATGTAAGTCCATATCAATTATATGGCTTTGGAGACAGGAATGAG
1 CCATGTAAGCCCATATCAATTATATGGCATTGGAGACAGGAATAAG
* *
50573266 CCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGGAATAAT
1 CCATGTAAGCCCATATCA-AT-TATATGGCATTGGAGACAGGAATAAG
*
50573314 TCATGTAAG
1 CCATGTAAG
50573323 TCTATGTCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 16 0.33
47 2 0.04
48 31 0.63
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (46 bp):
CCATGTAAGCCCATATCAATTATATGGCATTGGAGACAGGAATAAG
Found at i:50576273 original size:45 final size:45
Alignment explanation
Indices: 50576223--50576313 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
50576213 CAAAAACATG
*
50576223 TGTCACATACATCATGAACTCAGACCATAACTCAATAAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
* *
50576268 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
50576313 T
1 T
50576314 CACATAGATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGA
Found at i:50584226 original size:45 final size:45
Alignment explanation
Indices: 50584176--50584263 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
50584166 CCAAAACATG
*
50584176 TGTCACATACATCATGAACTCAGACCATAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
* * *
50584221 TGTCACATATATCATGATCTCAGGCCACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
50584264 GATCACATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
Found at i:50588586 original size:28 final size:28
Alignment explanation
Indices: 50588521--50588586 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
50588511 TTATTTAGTA
* *
50588521 TCAGTAT-AGTCTGGGCCTTAGCCCTAT
1 TCAGTATCAGTCTGGGCCTAAGCCCAAT
* * * *
50588548 ACCGTAACAGTGTGGGCCTAAGCCCAAT
1 TCAGTATCAGTCTGGGCCTAAGCCCAAT
50588576 TCAGTATCAGT
1 TCAGTATCAGT
50588587 ACAGTGCAGT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (28 bp):
TCAGTATCAGTCTGGGCCTAAGCCCAAT
Found at i:50598233 original size:139 final size:141
Alignment explanation
Indices: 50598056--50598338 Score: 462
Period size: 139 Copynumber: 2.0 Consensus size: 141
50598046 TCAGCACAAA
*
50598056 ATGGAATGAAAAGAAAGAAGTAGAAACAAGGAACTTCGGCTTAAATCCCGAAGAGGCACGAAAGA
1 ATGGAATGAAAAGAAAGAAGTAGAAACAAGAAACTTCGGCTTAAATCCCGAAGAGGCACGAAAGA
*
50598121 GAGATCGGCACAAGGGAGAAAGATACCAAAAGCGT-AAA-AAAAACCCAAAATGGAAAAGGGAGA
66 GAGATCGGCACAAGGGAGAAAGATACCAAAAGCGTAAAAGAAAAACCCAAAATAGAAAAGGGAGA
50598184 AATCAGCACCT
131 AATCAGCACCT
* * *
50598195 ATGGAATGAAAAGAAAGAAGTAGAAATAAGAAATTTCGGCTTAAATCCTGAAGAGGCACGAAAGA
1 ATGGAATGAAAAGAAAGAAGTAGAAACAAGAAACTTCGGCTTAAATCCCGAAGAGGCACGAAAGA
* *
50598260 GAGATCGGCCCAAGGGAGAAAGATACCAAAAGCGTCAAAAAGAAAAACCCAAAATAGAAGAGGGA
66 GAGATCGGCACAAGGGAGAAAGATACCAAAAGCGT--AAAAGAAAAACCCAAAATAGAAAAGGGA
*
50598325 GAAATCAGCCCCT
129 GAAATCAGCACCT
50598338 A
1 A
50598339 CTCCTATACC
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
139 95 0.72
142 3 0.02
143 34 0.26
ACGTcount: A:0.49, C:0.16, G:0.25, T:0.11
Consensus pattern (141 bp):
ATGGAATGAAAAGAAAGAAGTAGAAACAAGAAACTTCGGCTTAAATCCCGAAGAGGCACGAAAGA
GAGATCGGCACAAGGGAGAAAGATACCAAAAGCGTAAAAGAAAAACCCAAAATAGAAAAGGGAGA
AATCAGCACCT
Found at i:50607416 original size:23 final size:23
Alignment explanation
Indices: 50607390--50607433 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
50607380 TGGGTCGATT
50607390 TTAT-CCACACATGGTGTGTAGGG
1 TTATACCA-ACATGGTGTGTAGGG
* *
50607413 TTATACGAAGATGGTGTGTAG
1 TTATACCAACATGGTGTGTAG
50607434 AGGCTAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (23 bp):
TTATACCAACATGGTGTGTAGGG
Found at i:50613078 original size:19 final size:19
Alignment explanation
Indices: 50613054--50613092 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50613044 CACACAGCCA
* *
50613054 AGACACACTCTCGTGTTCT
1 AGACACACACCCGTGTTCT
50613073 AGACACACACCCGTGTTCT
1 AGACACACACCCGTGTTCT
50613092 A
1 A
50613093 AGACGTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (19 bp):
AGACACACACCCGTGTTCT
Found at i:50622840 original size:27 final size:27
Alignment explanation
Indices: 50622810--50623014 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
50622800 ATATTGAGTC
* * * *
50622810 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50622837 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50622864 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50622892 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50622919 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50622946 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50622973 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50623000 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50623015 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50631128 original size:27 final size:27
Alignment explanation
Indices: 50631098--50631302 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
50631088 ATATTGAGTC
* * * *
50631098 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50631125 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50631152 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50631180 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50631207 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50631234 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50631261 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50631288 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50631303 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50642492 original size:47 final size:47
Alignment explanation
Indices: 50642441--50642557 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 47
50642431 TAGTATAAAA
*
50642441 CATGTCTGGGACAT-GCATCGGCTACAAGATGAT-AGTCAATGTAAGAC
1 CATGTCTGGGACATGGCATCGGCT-CAAGATG-TGAGCCAATGTAAGAC
* * ** *
50642488 CATGTCTGGGACATGGCATTGACTTGAGATGTGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCTCAAGATGTGAGCCAATGTAAGAC
*
50642535 CGTGTCTGGGACATGGCATCGGC
1 CATGTCTGGGACATGGCATCGGC
50642558 ATCTTACCCA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.86
48 7 0.12
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (47 bp):
CATGTCTGGGACATGGCATCGGCTCAAGATGTGAGCCAATGTAAGAC
Found at i:50642496 original size:94 final size:94
Alignment explanation
Indices: 50642335--50642506 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 94
50642325 TCGTGTGTAA
* * ** * *
50642335 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGATCATGTC
1 GCTAGTATAAAACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTC
50642400 TGGGACATGGCATCGGTATTGAGACAAGG
66 TGGGACATGGCATCGGTATTGAGACAAGG
* * * *
50642429 GCTAGTATAAAACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAATGTAAGACCATGTC
1 GCTAGTATAAAACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTC
50642494 TGGGACATGGCAT
66 TGGGACATGGCAT
50642507 TGACTTGAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTATAAAACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTC
TGGGACATGGCATCGGTATTGAGACAAGG
Found at i:50642541 original size:94 final size:94
Alignment explanation
Indices: 50642338--50642557 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 94
50642328 TGTGTAAGCT
* ** * *
50642338 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGATCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
* *
50642403 GACATGGCATCGGTATTGAGACAAGGGCT
66 GACATGGCATCGGTATTGAGACAAGAGCC
* * * * *
50642432 AGTATAAAACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
* ***
50642497 GACATGGCAT-TG-ACTTGAGATGTGAGCC
66 GACATGGCATCGGTA-TTGAGACAAGAGCC
*
50642525 AGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
50642558 ATCTTACCCA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
92 1 0.01
93 17 0.16
94 78 0.75
95 8 0.08
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
GACATGGCATCGGTATTGAGACAAGAGCC
Found at i:50650004 original size:47 final size:47
Alignment explanation
Indices: 50649821--50650040 Score: 193
Period size: 46 Copynumber: 4.7 Consensus size: 47
50649811 ACATTATGAG
* * *
50649821 AGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGA-CA-A
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TCGAGATGATA
* * * *
50649868 GGGCTAGTGTAAAACATGTCTGGGACAT-GCATCGGCCTCGAGAAG-TA
1 -AGCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGATGATA
* *
50649915 AGCCAGTGTAAGACATATTTGGGACAT-GCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGATGATA
* * * * *
50649961 AGTCGGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGATGATA
*
50650008 AGCCAGTGTGAGACAGTGTCTGGGACATGGCAT
1 AGCCAGTGTAAGACA-TGTCTGGGACATGGCAT
50650041 TAGCACCTTA
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 62 0.44
47 60 0.42
48 18 0.13
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAGATGATA
Found at i:50656745 original size:95 final size:94
Alignment explanation
Indices: 50656642--50656816 Score: 269
Period size: 95 Copynumber: 1.9 Consensus size: 94
50656632 AGAGTGAGAA
* **
50656642 TCTTATTAACTAATTGAATTTTAGAACAATGGAAATAACTAATTCTTCTAGTTAACTACTCAAAA
1 TCTTATTAACTAATTGAATTTTAAAACAATCAAAATAACTAATTCTTCTAGTTAACTA-TCAAAA
*
50656707 CCATGCTACCCTAAAAAGAGAACTAATTCT
65 ACATGCTACCCTAAAAAGAGAACTAATTCT
* * *
50656737 TCTTATTAACTATTTGAATTTTAAAACAATCAAAATAACTAATTCTTCTTGTTAACTATTAAAAA
1 TCTTATTAACTAATTGAATTTTAAAACAATCAAAATAACTAATTCTTCTAGTTAACTATCAAAAA
*
50656802 CATGCTACTCTAAAA
66 CATGCTACCCTAAAA
50656817 GAAGAAAAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 19 0.26
95 53 0.74
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (94 bp):
TCTTATTAACTAATTGAATTTTAAAACAATCAAAATAACTAATTCTTCTAGTTAACTATCAAAAA
CATGCTACCCTAAAAAGAGAACTAATTCT
Found at i:50662236 original size:33 final size:33
Alignment explanation
Indices: 50662198--50662326 Score: 197
Period size: 33 Copynumber: 3.9 Consensus size: 33
50662188 GACTGAGTGG
50662198 GAGTGTTTGGTTGCTGGACAAGAGCTGGAATGT
1 GAGTGTTTGGTTGCTGGACAAGAGCTGGAATGT
* * *
50662231 GAGTGTTTGATTGCTGGACAGGAGATGGAATGT
1 GAGTGTTTGGTTGCTGGACAAGAGCTGGAATGT
*
50662264 GAGTGTTTGGTTGTTGGA-AAGGAGCTGGAATGT
1 GAGTGTTTGGTTGCTGGACAA-GAGCTGGAATGT
*
50662297 GAGTGTTTGGTTGCTGGACAGGAGCTGGAA
1 GAGTGTTTGGTTGCTGGACAAGAGCTGGAA
50662327 ATAAGATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.22, C:0.07, G:0.41, T:0.30
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTGGACAAGAGCTGGAATGT
Found at i:50669388 original size:32 final size:32
Alignment explanation
Indices: 50669334--50669461 Score: 202
Period size: 32 Copynumber: 4.0 Consensus size: 32
50669324 CATAAAAAAT
50669334 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* * * * *
50669366 ATTATACAGTAGGTTTATATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
50669398 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
50669430 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
50669462 TATAGTTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 84 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:50672249 original size:5 final size:5
Alignment explanation
Indices: 50672239--50672298 Score: 84
Period size: 5 Copynumber: 12.0 Consensus size: 5
50672229 AGCTACAATC
* * * *
50672239 ATTAG ATTAG ATTAG ATGAG ATTAG ACTAG ATTAT ATTAG ATTAG AATAG
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG
50672289 ATTAG ATTAG
1 ATTAG ATTAG
50672299 TTGTTTATCT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.37
Consensus pattern (5 bp):
ATTAG
Found at i:50674172 original size:35 final size:34
Alignment explanation
Indices: 50674126--50674224 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 34
50674116 TTTGGTACCT
50674126 ATACAAGTAGAAATCTCAATGTTAAGTACAGACCC
1 ATACAAGTAGAAATCTCAATGTT-AGTACAGACCC
* *
50674161 ATACAAGTAGAAATCTC-A-GCT--TCCA-ACCC
1 ATACAAGTAGAAATCTCAATGTTAGTACAGACCC
* *
50674190 ATAAAAGTAGAAATCTCAATGTTAGGTATAGACCC
1 ATACAAGTAGAAATCTCAATGTTA-GTACAGACCC
50674225 CCAACATTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
29 20 0.38
30 4 0.08
31 2 0.04
33 2 0.04
34 3 0.06
35 21 0.40
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.23
Consensus pattern (34 bp):
ATACAAGTAGAAATCTCAATGTTAGTACAGACCC
Found at i:50676832 original size:19 final size:21
Alignment explanation
Indices: 50676782--50676835 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
50676772 GGTGAATCAA
* *
50676782 CTCTTAAGA-CTTCTGTTTAG
1 CTCTTACGAGCTTCTGTTCAG
50676802 CTCTTACGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
50676823 CT-TT-CGAGCTTCT
1 CTCTTACGAGCTTCT
50676836 ATTGGTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 9 0.29
20 10 0.32
21 12 0.39
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.43
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAG
Found at i:50677676 original size:50 final size:52
Alignment explanation
Indices: 50677573--50677681 Score: 125
Period size: 50 Copynumber: 2.1 Consensus size: 52
50677563 ATGAGTTATT
**
50677573 TAATGCAAGACTTAATTTAATAATGCATACTTAAACTAACATGGGAGTTACA
1 TAATGCAAGACTTAATTTAATAATGCATACTTAAACTAACATGAAAGTTACA
* * * *
50677625 TAATGCAAGTCATT-ATTT-ATGATGCATACTT-AACTACCATTAAAGTTACA
1 TAATGCAAGAC-TTAATTTAATAATGCATACTTAAACTAACATGAAAGTTACA
*
50677675 TACTGCA
1 TAATGCA
50677682 TTACTTTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
50 21 0.43
51 12 0.24
52 14 0.29
53 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (52 bp):
TAATGCAAGACTTAATTTAATAATGCATACTTAAACTAACATGAAAGTTACA
Found at i:50684061 original size:55 final size:52
Alignment explanation
Indices: 50683977--50684207 Score: 238
Period size: 55 Copynumber: 4.4 Consensus size: 52
50683967 AGGGTTTAAA
*
50683977 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGTCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAG-CAAG
* * * *
50684032 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAA-G-CAAG
* * *
50684088 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAA-GCAAG
* * *
50684140 GATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC-AA--AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGCAAG
*
50684189 GATACCACGTAAGACCATG
1 GATACCATGTAAGACCATG
50684208 AAAATTCATG
Statistics
Matches: 150, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
49 21 0.14
52 7 0.05
53 40 0.27
54 11 0.07
55 66 0.44
56 5 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGCAAG
Found at i:50684180 original size:108 final size:110
Alignment explanation
Indices: 50683981--50684181 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
50683971 TTTAAAGATA
*
50683981 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGTCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
50684046 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
*
50684091 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
50684153 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
50684182 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:50684441 original size:16 final size:16
Alignment explanation
Indices: 50684420--50684450 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50684410 ATAAATTTGA
50684420 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
50684436 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
50684451 AGGGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:50688742 original size:21 final size:20
Alignment explanation
Indices: 50688718--50688756 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
50688708 GAGTATTTTG
50688718 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
50688739 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
50688757 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:50690028 original size:22 final size:22
Alignment explanation
Indices: 50689998--50690040 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50689988 AATTTAGCCA
50689998 TTTGATTTGGCTTGTAAATATC
1 TTTGATTTGGCTTGTAAATATC
* * *
50690020 TTTGGTTTGGTTTGTATATAT
1 TTTGATTTGGCTTGTAAATAT
50690041 ATCCATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (22 bp):
TTTGATTTGGCTTGTAAATATC
Found at i:50690468 original size:94 final size:94
Alignment explanation
Indices: 50690334--50690521 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
50690324 GATTTAGTTG
50690334 GTTTAAATACTCATTTATGCTATGTTTTGGTACCATTGAGTTTGGTGTAGGTGCGCTCAAGTTTG
1 GTTTAAATACTCATTTATGCTATGTTTTGGTACCATTGAGTTTGGTGTAGGTGCGCTCAAGTTTG
* *
50690399 GGTGGCAAATTGCCTTGGTAAATAGCCTA
66 GGTGGCAAATTCCCTTCGTAAATAGCCTA
50690428 GTTTAAATACTCATTTATGCTATGTTTTGGTACCATTGAGTTTGGTGTAGGTGCGCTCAAGTTTG
1 GTTTAAATACTCATTTATGCTATGTTTTGGTACCATTGAGTTTGGTGTAGGTGCGCTCAAGTTTG
50690493 GGTGGCAAATTCCCTTCGTAAATAGCCTA
66 GGTGGCAAATTCCCTTCGTAAATAGCCTA
50690522 TTTTTGTCCA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.38
Consensus pattern (94 bp):
GTTTAAATACTCATTTATGCTATGTTTTGGTACCATTGAGTTTGGTGTAGGTGCGCTCAAGTTTG
GGTGGCAAATTCCCTTCGTAAATAGCCTA
Found at i:50690954 original size:18 final size:19
Alignment explanation
Indices: 50690931--50690967 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50690921 TTTTTGGCAA
50690931 AAAAATTT-TAAGTTTTTC
1 AAAAATTTCTAAGTTTTTC
50690949 AAAAATTTCCTAAGTTTTT
1 AAAAATTT-CTAAGTTTTT
50690968 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
AAAAATTTCTAAGTTTTTC
Found at i:50692295 original size:23 final size:23
Alignment explanation
Indices: 50692269--50692396 Score: 175
Period size: 23 Copynumber: 5.6 Consensus size: 23
50692259 ATATGTGAAA
** * *
50692269 CCTTTGTGTAATATTCTGTAACG
1 CCTTTGTGGCATATTCTGCAATG
50692292 CCTTTGTGGCATATTCTGCAATG
1 CCTTTGTGGCATATTCTGCAATG
* *
50692315 CTTTTGTGGTATATTCTGCAATG
1 CCTTTGTGGCATATTCTGCAATG
*
50692338 CCTTTGTGGCATATTTTGCAATG
1 CCTTTGTGGCATATTCTGCAATG
* *
50692361 CCTTTGTGGCATATTTTGTAATG
1 CCTTTGTGGCATATTCTGCAATG
50692384 CCTTTGTGGCATA
1 CCTTTGTGGCATA
50692397 CATATTCTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 95 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (23 bp):
CCTTTGTGGCATATTCTGCAATG
Found at i:50700953 original size:37 final size:37
Alignment explanation
Indices: 50700903--50700981 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50700893 TTATTACGAA
* *
50700903 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
50700940 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50700977 GTCTT
1 GTCTT
50700982 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50701178 original size:47 final size:47
Alignment explanation
Indices: 50701100--50701671 Score: 910
Period size: 47 Copynumber: 12.1 Consensus size: 47
50701090 CCCTTCGGGA
** * * * * * *
50701100 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
50701147 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50701194 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50701241 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50701288 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50701337 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
50701384 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
50701431 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50701478 CTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50701525 CTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50701572 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50701619 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
50701668 CTTA
1 CTTA
50701672 CTATCATTTC
Statistics
Matches: 500, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 413 0.83
49 87 0.17
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50710439 original size:17 final size:17
Alignment explanation
Indices: 50710417--50710450 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50710407 AGAGAAGAAA
50710417 AAGATTAATTTTGAGAT
1 AAGATTAATTTTGAGAT
*
50710434 AAGATTGATTTTGAGAT
1 AAGATTAATTTTGAGAT
50710451 TCGTTACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (17 bp):
AAGATTAATTTTGAGAT
Found at i:50711733 original size:15 final size:15
Alignment explanation
Indices: 50711713--50711742 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50711703 TATCCTTTAC
50711713 CCTACATTGATGATT
1 CCTACATTGATGATT
50711728 CCTACATTGATGATT
1 CCTACATTGATGATT
50711743 TGTTTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
CCTACATTGATGATT
Found at i:50716914 original size:27 final size:27
Alignment explanation
Indices: 50716874--50717039 Score: 163
Period size: 27 Copynumber: 6.1 Consensus size: 27
50716864 AGGAAGTGTC
*
50716874 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
50716901 CTGGTGGCTTTGCCACAAATATCTGCT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
50716928 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
50716955 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * * * *
50716982 TTGGTGGCTCTGCTACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
* * * *
50717010 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
50717036 CTGG
1 CTGG
50717040 CAGCCATGCT
Statistics
Matches: 113, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 5 0.04
27 95 0.84
28 13 0.12
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:50716956 original size:54 final size:54
Alignment explanation
Indices: 50716874--50717039 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 54
50716864 AGGAAGTGTC
* * * *
50716874 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTTTGCCACAAATATCTGCT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACAAATATCTGCT
* * *
50716928 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACAAATATCTGCT
* * * * * * *
50716982 TTGGTGGCTCTGCTACGATTATCTATATCTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACGATTATCT-GATCTGGTGGCTCTGCCACAAATATCTGCT
50717036 CTGG
1 CTGG
50717040 CAGCCATGCT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 79 0.83
55 16 0.17
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACAAATATCTGCT
Found at i:50717030 original size:81 final size:81
Alignment explanation
Indices: 50716874--50717039 Score: 190
Period size: 81 Copynumber: 2.0 Consensus size: 81
50716864 AGGAAGTGTC
* * *
50716874 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTTTGCCACAAATATCTGCTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCT
50716939 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* * * * * * * * *
50716955 CTGGTGGCTCTGCCACATATATTTGTTTTGGTGGCTCTGCTACGATTATCTATATCTGGTGACTC
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT-GATCTGGTGACTC
* *
50717020 TGTCAC-ATTATCTGTT
65 TGCCACGATTATCTGAT
50717036 CTGG
1 CTGG
50717040 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
81 55 0.79
82 15 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCT
GCCACGATTATCTGAT
Found at i:50724988 original size:54 final size:54
Alignment explanation
Indices: 50724906--50725071 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
50724896 AGGAAGCGTC
* * * *
50724906 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
50724960 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* **
50725014 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTAACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
50725068 CTGG
1 CTGG
50725072 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 86 0.84
55 16 0.16
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:50725061 original size:27 final size:26
Alignment explanation
Indices: 50724906--50725071 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
50724896 AGGAAGCGTC
* *
50724906 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
50724933 CTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
50724960 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
50724987 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
50725014 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* ** *
50725042 CTGGTGACTCTGTAACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
50725068 CTGG
1 CTGG
50725072 CAGCCATGCT
Statistics
Matches: 122, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.07
27 96 0.79
28 18 0.15
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:50725062 original size:81 final size:81
Alignment explanation
Indices: 50724906--50725071 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
50724896 AGGAAGCGTC
* * *
50724906 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGCTCTGGTGGCTCT
1 CTGGTGGCTATACCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGATCTGGTGACTCT
*
50724971 GCCACGATTATCTGAT
66 GCAACGATTATCTGAT
* * *
50724987 CTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGGCTATACCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTG-ATCTGGTGACT
* *
50725051 CTGTAAC-ATTATCTGTT
64 CTGCAACGATTATCTGAT
50725068 CTGG
1 CTGG
50725072 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.78
82 16 0.22
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATACCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGATCTGGTGACTCT
GCAACGATTATCTGAT
Found at i:50728851 original size:25 final size:25
Alignment explanation
Indices: 50728823--50728879 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
50728813 AACTTTTCTA
50728823 AGCATTTA-AAGTCACAACTCCTGTG
1 AGCATTTACAA-TCACAACTCCTGTG
* **
50728848 AGCATTTACAATCACAGCTTGTGTG
1 AGCATTTACAATCACAACTCCTGTG
50728873 AGCATTT
1 AGCATTT
50728880 TTCCCGCGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCATTTACAATCACAACTCCTGTG
Found at i:50730611 original size:20 final size:19
Alignment explanation
Indices: 50730566--50730612 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
50730556 GTGTCTGGCA
* *
50730566 ATAAATGAT-TACATGTGT
1 ATAAATAATGTACATATGT
50730584 ATAAATAATGTACATATGT
1 ATAAATAATGTACATATGT
50730603 ATAAAATAAT
1 AT-AAATAAT
50730613 AAATAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (19 bp):
ATAAATAATGTACATATGT
Found at i:50732698 original size:93 final size:93
Alignment explanation
Indices: 50732585--50732756 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50732575 CGCCCATAAG
* *
50732585 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50732650 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
50732678 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50732743 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50732757 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50732753 original size:46 final size:46
Alignment explanation
Indices: 50732578--50732753 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
50732568 TGTAACCCGC
* * *
50732578 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
50732624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
50732674 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50732717 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
50732754 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50739806 original size:93 final size:93
Alignment explanation
Indices: 50739692--50739863 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
50739682 TGCCCATAAG
* *
50739692 CGAACTCGGAATCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50739757 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
50739785 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50739850 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50739864 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50739860 original size:46 final size:46
Alignment explanation
Indices: 50739685--50739860 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
50739675 TGTAACCTGC
* * * *
50739685 CCATAAGCGAACTCGGAATCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
50739731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
50739781 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50739824 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
50739861 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50739879 original size:46 final size:46
Alignment explanation
Indices: 50739734--50739872 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
50739724 TTCGCATCCA
50739734 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
50739782 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
50739827 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
50739873 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:50740993 original size:41 final size:40
Alignment explanation
Indices: 50740939--50741068 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
50740929 GACCTCGAGT
*
50740939 CGATGAGACACTGGGTGTCAATCTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGATTAATC
** ** *
50740980 CGATGAGGTACTGGGTACCAA-T-TTACTTCGGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAATC
*
50741017 CGATGAGACACTGGGTGTCAATTTATTACTTCGAATT-ATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGATTAATC
*
50741057 CGATGAGGCACT
1 CGATGAGACACT
50741069 ATGTGCCAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
37 17 0.24
38 13 0.18
39 3 0.04
40 22 0.31
41 17 0.24
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAATC
Found at i:50743406 original size:17 final size:17
Alignment explanation
Indices: 50743367--50743408 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
50743357 TTAAAACTAA
50743367 AAAAAATTAAAAAATAGT
1 AAAAAA-TAAAAAATAGT
*
50743385 TAAAAATAAAAAATCA-T
1 AAAAAATAAAAAAT-AGT
50743402 AAAAAAT
1 AAAAAAT
50743409 CCAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAAATAAAAAATAGT
Found at i:50743462 original size:21 final size:23
Alignment explanation
Indices: 50743423--50743472 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
50743413 AAAAAATTAG
*
50743423 AAAATTATAAAAAATATATTTTT
1 AAAATTATAAAAAATATATTTTC
50743446 AAAATTAT-AAAAA-ATATTTTC
1 AAAATTATAAAAAATATATTTTC
50743467 AAAATT
1 AAAATT
50743473 CTCATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 13 0.50
22 5 0.19
23 8 0.31
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTATAAAAAATATATTTTC
Found at i:50743736 original size:10 final size:10
Alignment explanation
Indices: 50743723--50743767 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
50743713 AAATAAGCAC
50743723 AAATTTTAAA
1 AAATTTTAAA
*
50743733 AAATTTATGAA
1 AAATTT-TAAA
*
50743744 AAATTTTTAA
1 AAATTTTAAA
*
50743754 AAATATTAAA
1 AAATTTTAAA
50743764 AAAT
1 AAAT
50743768 AAATTATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:50743766 original size:21 final size:21
Alignment explanation
Indices: 50743723--50743767 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
50743713 AAATAAGCAC
*
50743723 AAATTTTAAAAAATTTATGAA
1 AAATTTTAAAAAATTTATAAA
* *
50743744 AAATTTTTAAAAATAT-TAAA
1 AAATTTTAAAAAATTTATAAA
50743764 AAAT
1 AAAT
50743768 AAATTATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTTTAAAAAATTTATAAA
Found at i:50745888 original size:26 final size:27
Alignment explanation
Indices: 50745850--50745906 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
50745840 AGAGTTTGAC
50745850 CATACTTTTTAAACCTTAGTAATACTT
1 CATACTTTTTAAACCTTAGTAATACTT
50745877 CATA-TTTTTAAACCTTAGTAATACTT
1 CATACTTTTTAAACCTTAGTAATACTT
50745903 CATA
1 CATA
50745907 ACCTAGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.44
Consensus pattern (27 bp):
CATACTTTTTAAACCTTAGTAATACTT
Found at i:50750794 original size:19 final size:19
Alignment explanation
Indices: 50750758--50750795 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50750748 TGTACAAAGC
*
50750758 TATCTTTAACTGGTATAAA
1 TATCTTTAACTGCTATAAA
50750777 TATCTTT-ACTGCTAATAAA
1 TATCTTTAACTGCT-ATAAA
50750796 AATGCATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (19 bp):
TATCTTTAACTGCTATAAA
Found at i:50754390 original size:43 final size:42
Alignment explanation
Indices: 50754299--50754393 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 42
50754289 ATGTGGTTAT
* *
50754299 GTGTAAGATCATGTCTGGGAAATTGGCATCATTATGTGATTAC
1 GTGTAAGA-CATGTCTCGGAAATTGGCATCATTATGTAATTAC
* * * *
50754342 ATGTAAGACAATGTCTCGGACATTGGCATCGTTAAT-TAATTTC
1 GTGTAAGAC-ATGTCTCGGAAATTGGCATCATT-ATGTAATTAC
50754385 GTGTAAGAC
1 GTGTAAGAC
50754394 CATAGTTAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.02
43 40 0.93
44 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (42 bp):
GTGTAAGACATGTCTCGGAAATTGGCATCATTATGTAATTAC
Found at i:50760164 original size:41 final size:41
Alignment explanation
Indices: 50760095--50760231 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
50760085 GCATAAAACC
* * * *
50760095 TGCTAGGC-CTAAGCCTG-TATCATACACCGACACAAGGCC
1 TGCTAGGCTCAAAGCCTGATTTAATACACCGACACAAGGCT
* * * * *
50760134 TGCTAGACTCAAAGTCTGATTTTATACACCGGCA-ATAAGCT
1 TGCTAGGCTCAAAGCCTGATTTAATACACCGACACA-AGGCT
* *
50760175 TGCTAGGCAT-AAAGCCTGATTTAATTCACCAACACAAGGCT
1 TGCTAGGC-TCAAAGCCTGATTTAATACACCGACACAAGGCT
50760216 TGCTAGGCTCAAAGCC
1 TGCTAGGCTCAAAGCC
50760232 CGAATATCAT
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
39 7 0.09
40 9 0.12
41 59 0.77
42 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (41 bp):
TGCTAGGCTCAAAGCCTGATTTAATACACCGACACAAGGCT
Found at i:50768023 original size:22 final size:22
Alignment explanation
Indices: 50767995--50768040 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
50767985 GCTAGACTCA
50767995 AAGTCTGATTTTATACACCGGC
1 AAGTCTGATTTTATACACCGGC
50768017 AAGTCTGATTTTATACACCGGC
1 AAGTCTGATTTTATACACCGGC
50768039 AA
1 AA
50768041 TAAGCCTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (22 bp):
AAGTCTGATTTTATACACCGGC
Found at i:50774590 original size:47 final size:47
Alignment explanation
Indices: 50774531--50774971 Score: 702
Period size: 47 Copynumber: 9.4 Consensus size: 47
50774521 GATGTACAAG
* * *
50774531 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
50774578 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
50774625 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
50774672 GTGTATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
50774719 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
50774766 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
50774813 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
50774860 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
50774907 GTGTATATATGTGATAAGGCCGAATGGCCAATATGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
50774954 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
50774972 TCCCGAAGGG
Statistics
Matches: 368, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 368 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Done.