Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 159 of 313
Found at i:50195502 original size:13 final size:13
Alignment explanation
Indices: 50195484--50195510 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50195474 ACCGCGCACG
50195484 GCGCTCGAAACCA
1 GCGCTCGAAACCA
50195497 GCGCTCGAAACCA
1 GCGCTCGAAACCA
50195510 G
1 G
50195511 GTAAGCGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.26, T:0.07
Consensus pattern (13 bp):
GCGCTCGAAACCA
Found at i:50199263 original size:31 final size:31
Alignment explanation
Indices: 50199228--50199288 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
50199218 TCCCAATGAA
* *
50199228 TTAAAT-AACAACTTTCGAATATTTTAATAAT
1 TTAAATGAA-AACTTTCAAATAATTTAATAAT
50199259 TTAAATGAAAACTTTCAAATAATTTAATAA
1 TTAAATGAAAACTTTCAAATAATTTAATAA
50199289 CTATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.39
Consensus pattern (31 bp):
TTAAATGAAAACTTTCAAATAATTTAATAAT
Found at i:50203880 original size:18 final size:19
Alignment explanation
Indices: 50203845--50203881 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50203835 CCCATCAGCC
50203845 CAAACCCGAATGGCCCAATA
1 CAAACCCGAA-GGCCCAATA
50203865 CAAACCCGAA-GCCCAAT
1 CAAACCCGAAGGCCCAAT
50203882 TTAACCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.38, G:0.14, T:0.08
Consensus pattern (19 bp):
CAAACCCGAAGGCCCAATA
Found at i:50205020 original size:11 final size:12
Alignment explanation
Indices: 50204985--50205022 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50204975 TGTGCATTAT
*
50204985 TTATTATTATTA
1 TTATTATTATCA
50204997 TTATTATTATCA
1 TTATTATTATCA
*
50205009 TTA-TATTTTCA
1 TTATTATTATCA
50205020 TTA
1 TTA
50205023 ATAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTATTATCA
Found at i:50205127 original size:14 final size:16
Alignment explanation
Indices: 50205095--50205131 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
50205085 TATACCTTAC
50205095 ATATAATTTATTTAAT
1 ATATAATTTATTTAAT
* *
50205111 ATATAATTTTTTTTAT
1 ATATAATTTATTTAAT
50205127 ATATA
1 ATATA
50205132 CGCATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATAATTTATTTAAT
Found at i:50205733 original size:109 final size:108
Alignment explanation
Indices: 50205456--50205750 Score: 479
Period size: 108 Copynumber: 2.7 Consensus size: 108
50205446 AAAAAAAAGG
*
50205456 AAAATATTTCAAAATAAGGCAATATGTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
50205521 GGTTTCGATTTCTCGTTCGACCAAATGACTCAATATCCTTTTCA
65 GGTTTCGATTTCTCGTTCGACCAAATGACTCAATATCCTTTTCA
* * *
50205565 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAATGTGCCTTAAGGTATTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
50205630 GTTTCGATTTCTCGTTCGACCAAAT-AGC-CAAATATCCTTTT-A
66 GTTTCGATTTCTCGTTCGACCAAATGA-CTC-AATATCCTTTTCA
*
50205672 AAAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACT
1 AAAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACT
50205737 GGGTTTCGATTTCT
64 GGGTTTCGATTTCT
50205751 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
107 7 0.04
108 98 0.56
109 69 0.40
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATGACTCAATATCCTTTTCA
Found at i:50209109 original size:108 final size:109
Alignment explanation
Indices: 50208832--50209223 Score: 628
Period size: 109 Copynumber: 3.6 Consensus size: 109
50208822 AAGGAAAATA
* *
50208832 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAATGTGCCCTAAGGTACTGGATTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
50208896 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
*
50208940 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* * * *
50209005 CGATTTCTTGTTCCACCAAAT-GACTTAATATCCTTTTCAAAACT
66 CGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTTAAAAACT
*
50209049 TTTC-AAAATATGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
50209113 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT-AAAAACT
* * * * *
50209158 TTTCAAAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAACGTACCCTAAGGTGCTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
50209223 C
66 C
50209224 AAAGGTGCTG
Statistics
Matches: 260, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
108 95 0.37
109 110 0.42
110 55 0.21
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
Found at i:50209230 original size:16 final size:16
Alignment explanation
Indices: 50209209--50209239 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50209199 AACGTACCCT
50209209 AAGGTGCTGGGTTTCA
1 AAGGTGCTGGGTTTCA
50209225 AAGGTGCTGGGTTTC
1 AAGGTGCTGGGTTTC
50209240 GATTTCACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.13, G:0.39, T:0.32
Consensus pattern (16 bp):
AAGGTGCTGGGTTTCA
Found at i:50220885 original size:87 final size:87
Alignment explanation
Indices: 50220615--50220954 Score: 427
Period size: 87 Copynumber: 3.9 Consensus size: 87
50220605 AAGACAACAA
* * * * * *
50220615 ATCTTGCCTTCCTGCCTTGACAGTGAAGCAGA-TCAAAGATACAAGCTTTGTCTCCATCGGTTGC
1 ATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAA-ACA-AAGCCTTGTCTCCATCGGTTGC
* *
50220679 GGTGGAACTGGTTGAAGATAGCAG
64 AGTGGAACTGATTGAAGATAGCAG
* * *
50220703 ATC-TGTCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAAC-AAGCTTTGTCTCCACCGGTTGCG
1 ATCTTG-CCTTCCTGCGTTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCATCGGTTGCA
* *
50220766 GTAGAACTGGTTGAAGATAGCAG
65 GTGGAACTGATTGAAGATAGCAG
* *
50220789 ATCTGGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCATCGGTTGTAG
1 ATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCATCGGTTGCAG
*
50220854 TGGAGCTGATTGAAGATAGCAG
66 TGGAACTGATTGAAGATAGCAG
* * ** *
50220876 ATCTTGCCTTCCTGCGTTGACAACGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAG
1 ATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCATCGGTTGCAG
50220941 T-GAAGCTGATTGAA
66 TGGAA-CTGATTGAA
50220955 TAAAGGATCT
Statistics
Matches: 224, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
86 83 0.37
87 110 0.49
88 27 0.12
89 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (87 bp):
ATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAACAAAGCCTTGTCTCCATCGGTTGCAG
TGGAACTGATTGAAGATAGCAG
Found at i:50220917 original size:173 final size:175
Alignment explanation
Indices: 50220615--50220938 Score: 440
Period size: 173 Copynumber: 1.9 Consensus size: 175
50220605 AAGACAACAA
* * * * * *
50220615 ATCTTGCCTTCCTGCCTTGACAGTGAAGCAGATCAAAGATACAAGCTTTGTCTCCATCGGTTGCG
1 ATCTGGCCTTCCTGCCTTAACAGCGAAGCAGATCAAAGACACAAGCCTTGTCTCCATCGGTTGCA
* * **
50220680 GTGGAACTGGTTGAAGATAGCAGATCTGTCCTTCCTGCGTTAACAGCGAAGCAGATTGAAAAC-A
66 GTGGAACTGATTGAAGATAGCAGATCTGTCCTTCCTGCGTTAACAACGAAGCAGATCAAAAACAA
* *
50220744 AGCTTTGTCTCCACCGGTTGCGGTAGAACTGGTTGAAGATAGCAG
131 AGCCTTGCCTCCACCGGTTGCGGTAGAACTGGTTGAAGATAGCAG
* * *
50220789 ATCTGGCCTTCCTGCGTTAACAGCGAAGCAGATTGAAA-ACA-AAGCCTTGTCTCCATCGGTTGT
1 ATCTGGCCTTCCTGCCTTAACAGCGAAGCAGA-TCAAAGACACAAGCCTTGTCTCCATCGGTTGC
* *
50220852 AGTGGAGCTGATTGAAGATAGCAGATCT-TGCCTTCCTGCGTTGACAACGAAGCAGATCAAAAAC
65 AGTGGAACTGATTGAAGATAGCAGATCTGT-CCTTCCTGCGTTAACAACGAAGCAGATCAAAAAC
*
50220916 AAAGCCTTGCCTCCATCGGTTGC
129 AAAGCCTTGCCTCCACCGGTTGC
50220939 AGTGAAGCTG
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
172 1 0.01
173 75 0.58
174 49 0.38
175 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (175 bp):
ATCTGGCCTTCCTGCCTTAACAGCGAAGCAGATCAAAGACACAAGCCTTGTCTCCATCGGTTGCA
GTGGAACTGATTGAAGATAGCAGATCTGTCCTTCCTGCGTTAACAACGAAGCAGATCAAAAACAA
AGCCTTGCCTCCACCGGTTGCGGTAGAACTGGTTGAAGATAGCAG
Found at i:50221196 original size:175 final size:175
Alignment explanation
Indices: 50221001--50221329 Score: 543
Period size: 175 Copynumber: 1.9 Consensus size: 175
50220991 GATCGTGTCA
*
50221001 GATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCAGAGCAAATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
* * *
50221066 CAGTGGAGTGGATTAAAATA-AAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCT
66 CAGTGGAGTGGATTAAAA-ACAAAGATATTATCTCTCTGAAGTTACAACAGAGTAGATCGCGTCA
* *
50221130 GGTCTTATCTCTCTGAGATTACAGTGGAATAGACCGAATAATTTCC
130 GATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAATAATTTCC
*
50221176 GATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCAGAGCAAATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
* * *
50221241 CAGTGGAGTGGATTAAAAACCAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCGTGTCA
66 CAGTGGAGTGGATTAAAAA-CAAAGATATTATCTCTCTGAAGTTACAACAGAGTAGATCGCGTCA
50221306 GATCTTATCTCCCTGAGATTACAG
130 GATCTTATCTCCCTGAGATTACAG
50221330 CGGAGCAGAT
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
174 1 0.01
175 81 0.57
176 60 0.42
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (175 bp):
GATCTTATCTCCCTGAGATTACAGCAGAGCAAATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGTGGATTAAAAACAAAGATATTATCTCTCTGAAGTTACAACAGAGTAGATCGCGTCAG
ATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAATAATTTCC
Found at i:50221466 original size:129 final size:130
Alignment explanation
Indices: 50221176--50221467 Score: 469
Period size: 130 Copynumber: 2.3 Consensus size: 130
50221166 AATAATTTCC
*
50221176 GATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
****
50221241 CAGTGGAGTGGATTAAAAACCAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCGTGTCA
66 CAGTGGAGTGGATTAAAAACCAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCACACCA
50221306 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
** * * *
50221371 CAGTGGAGTGGATT-AAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGGTCACACCA
66 CAGTGGAGTGGATTAAAAACCAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCACACCA
* *
50221435 GGTCTTATCTCCCTGAGATTACAGTGGAGCAGA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGA
50221468 CCGAAAGATT
Statistics
Matches: 150, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
129 72 0.48
130 78 0.52
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (130 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGTGGATTAAAAACCAAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCACACCA
Found at i:50221519 original size:305 final size:304
Alignment explanation
Indices: 50220957--50221642 Score: 1122
Period size: 305 Copynumber: 2.3 Consensus size: 304
50220947 TGATTGAATA
50220957 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTA
*
50221022 CAGCAGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAA
* ** * *
50221087 AAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCTGGTCTTATCTCTCTGAGATTAC
131 AAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAGGTCTTATCTCCCTGAGATTAC
* * * *
50221152 AGTGGAATAGACCGAATAATTTCCGATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGTT
196 AGTGGAACAGACCGAATAATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAAATTGAAGCT
*
50221217 AGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAAACC
261 AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAACC
* *
50221262 AAGGATATTATCTCTCTGAAGTTACAATAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTA
*
50221327 CAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGA
66 CAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAA
* * *
50221392 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGGTCACACCAGGTCTTATCTCCCTGAGATTAC
131 AAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAGGTCTTATCTCCCTGAGATTAC
* *
50221457 AGTGGAGCAGACCGAA-AGATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGC
196 AGTGGAACAGACCGAATA-ATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAAATTGAAGC
*
50221521 TAGTAATCCTATCTTCCTGAGATTACAGTGGAGCGGATTAAAACC
260 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACC
* ** *
50221566 AAGGATCTTATCTCTCTGAAGTTTCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTA
*
50221631 CAGTGGAGCAGA
66 CAGCGGAGCAGA
50221643 CCAAAGATCG
Statistics
Matches: 353, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
304 77 0.22
305 276 0.78
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (304 bp):
AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAA
AAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAGGTCTTATCTCCCTGAGATTAC
AGTGGAACAGACCGAATAATTTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAAATTGAAGCT
AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACC
Found at i:50221670 original size:48 final size:48
Alignment explanation
Indices: 50221599--50221731 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 48
50221589 TCAGTAGAGT
*
50221599 AGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAA
1 AGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAA
* **
50221647 AGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTAA
1 AGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAA
* * *
50221695 AGCTAGTA--A--TCCTATCTCCCTGAGATTACAGTGGAGC
1 AGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGC
50221732 GGATTAAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
44 26 0.34
46 1 0.01
48 50 0.65
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (48 bp):
AGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAA
Found at i:50221738 original size:177 final size:177
Alignment explanation
Indices: 50221295--50221823 Score: 850
Period size: 175 Copynumber: 3.0 Consensus size: 177
50221285 ACAATAGAGT
*
50221295 AGATCGTGTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCT
1 AGATCGT-TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
* *
50221360 CCCTGAGATTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
65 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
* * *
50221425 GGTCACACCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA
130 GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA
* *
50221473 AGAT--TTCAGATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTT
1 AGATCGTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
** *
50221536 CCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTTCAGTAGAGTAG
66 CCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
50221601 ATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACC-AA
131 ATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA
* *
50221647 AGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCT
1 AGATCGT-TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
*
50221712 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTA
65 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
* * *
50221777 GAAT-GCATCTGGTCTTATCTCCCTGAGATTACAGTGGAACAGGCCGA
130 G-ATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGA
50221824 GGAATTTTAG
Statistics
Matches: 325, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
174 6 0.02
175 157 0.48
176 2 0.01
177 153 0.47
178 7 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (177 bp):
AGATCGTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC
CCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
ATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA
Found at i:50221755 original size:44 final size:43
Alignment explanation
Indices: 50221001--50221814 Score: 345
Period size: 44 Copynumber: 18.7 Consensus size: 43
50220991 GATCGTGTCA
** * * *
50221001 GATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGTTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
* * ** * *
50221044 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAA
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* ** * **** *
50221089 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCGTCTG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
* * * ** *
50221131 G-TCTTATCTCTCTGAGATTACAGTGGAATAGACCGAATAATTTC-C
1 GATCTTATCTCCCTGAGATTACAGTGG---AG-CAGATTAAAATCAG
* * * * *
50221176 GATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGTTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
* * ** *
50221219 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAAACCAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATC-AG
* * * * * ****
50221265 GATATTATCTCTCTGA-AGTTACAATAGAGTAGA-TCGTGTCA-
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
* * * *
50221306 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
* * ** *
50221349 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* * * * * * *
50221394 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAG-GTCACACCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
**
50221436 G-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAGATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAAA-A--TCAG
* * * *
50221481 GATCTTATCTCCCTGAGATTACAGCGAAGCAGATT-GAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * * * *
50221524 TAATCCTATCTTCCTGAGATTACAGTGGAGCGGATTAAAACCAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * * * ***
50221569 GATCTTATCTCTCTGA-AGTTTCAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
**
50221611 G-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATCGTATCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-A----ATCAG
* *
50221659 G-TCTTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * * *
50221701 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* * * * * ** *
50221746 GATCTTATCTCTCTGA-AGTTACAATAGAGTAGAAT-GCATCTG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
50221788 G-TCTTATCTCCCTGAGATTACAGTGGA
1 GATCTTATCTCCCTGAGATTACAGTGGA
50221815 ACAGGCCGAG
Statistics
Matches: 563, Mismatches: 160, Indels: 97
0.69 0.20 0.12
Matches are distributed among these distances:
41 120 0.21
42 27 0.05
43 19 0.03
44 257 0.46
45 44 0.08
46 60 0.11
48 36 0.06
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
Found at i:50222456 original size:18 final size:19
Alignment explanation
Indices: 50222421--50222457 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50222411 CCCATCAGCC
50222421 CAAACCCGAATGGCCCAATA
1 CAAACCCGAA-GGCCCAATA
50222441 CAAACCCGAA-GCCCAAT
1 CAAACCCGAAGGCCCAAT
50222458 TTAACCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.38, G:0.14, T:0.08
Consensus pattern (19 bp):
CAAACCCGAAGGCCCAATA
Found at i:50223563 original size:3 final size:3
Alignment explanation
Indices: 50223552--50223614 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
50223542 TATTATGTGC
* *
50223552 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC ATT A-T ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
50223597 -TT CATT AATA ATT ATT AT
1 ATT -ATT -ATT ATT ATT AT
50223615 GTAATTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.08
3 40 0.78
4 7 0.14
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:50223708 original size:14 final size:16
Alignment explanation
Indices: 50223676--50223712 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
50223666 TATACCTTAC
50223676 ATATAATTTATTTAAT
1 ATATAATTTATTTAAT
* *
50223692 ATATAATTTTTTTTAT
1 ATATAATTTATTTAAT
50223708 ATATA
1 ATATA
50223713 CGCATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATAATTTATTTAAT
Found at i:50224341 original size:108 final size:109
Alignment explanation
Indices: 50224042--50224469 Score: 666
Period size: 109 Copynumber: 3.9 Consensus size: 109
50224032 AAGGAAAATA
*
50224042 TTTC-AAAATAAGGCAATATTTTACGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
50224106 CGATTTCTCGTTCGAACAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
*
50224150 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* * * *
50224215 CGATTTCTTGTTCCACCAAAT-GACTTAATATCCTTTTCAAAACT
66 CGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTTAAAAACT
*
50224259 TTTC-AAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
50224323 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAAACA
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT-AAAAACT
* * *
50224368 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* * *
50224433 CGATTTCACGTT-TAGCCAAATTGCTAAATATCCTTTT
66 CGATTTCTCGTTCGA-CCAAATAGCTAAATATCCTTTT
50224470 GAATTTTAAT
Statistics
Matches: 293, Mismatches: 21, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
108 95 0.32
109 110 0.38
110 88 0.30
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
Found at i:50236963 original size:27 final size:27
Alignment explanation
Indices: 50236933--50237029 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
50236923 TGTCCCAACG
* *
50236933 GACTACTCCGTGTTTACTGTTTCGATA
1 GACTACTCCGTGTTTACTATCTCGATA
*
50236960 GACTAC-CTCATGTTTACTATCTCGAT-
1 GACTACTC-CGTGTTTACTATCTCGATA
* *
50236986 GAGCTACTCTGTGTTTACTATCTCAATA
1 GA-CTACTCCGTGTTTACTATCTCGATA
*
50237014 GACTACCCCGTGTTTA
1 GACTACTCCGTGTTTA
50237030 TTGTCCCGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.05
27 52 0.90
28 3 0.05
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (27 bp):
GACTACTCCGTGTTTACTATCTCGATA
Found at i:50239359 original size:21 final size:21
Alignment explanation
Indices: 50239335--50239374 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50239325 TTATAATGGT
*
50239335 CACATGTTATAAGAGAATAAA
1 CACATGATATAAGAGAATAAA
*
50239356 CACATGATATATGAGAATA
1 CACATGATATAAGAGAATA
50239375 TTGAGTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (21 bp):
CACATGATATAAGAGAATAAA
Found at i:50242033 original size:25 final size:26
Alignment explanation
Indices: 50242001--50242059 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
50241991 GCTCCTCATG
*
50242001 AGCTTCCCGATTA-ATGACTCTC-TAA
1 AGCTTCCCGATTACATGACTCACAT-A
50242026 AGCTTCCC-ATTACATGACTCACATA
1 AGCTTCCCGATTACATGACTCACATA
50242051 AGCTTCCCG
1 AGCTTCCCG
50242060 TTATAAGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (26 bp):
AGCTTCCCGATTACATGACTCACATA
Found at i:50242069 original size:25 final size:24
Alignment explanation
Indices: 50242024--50242086 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
50242014 ATGACTCTCT
* *
50242024 AAAGCTTCCCATTACATGACTCACA
1 AAAGCTTCCCGTTACAAGACTCA-A
* * *
50242049 TAAGCTTCCCGTTATAAGACTTAA
1 AAAGCTTCCCGTTACAAGACTCAA
50242073 AAGAGCTTCCCGTT
1 AA-AGCTTCCCGTT
50242087 TACATGTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (24 bp):
AAAGCTTCCCGTTACAAGACTCAA
Found at i:50243676 original size:18 final size:18
Alignment explanation
Indices: 50243653--50243693 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
50243643 ATTCTACCTT
*
50243653 ACATTTGGACTGTCTGCC
1 ACATTTGGACAGTCTGCC
50243671 ACATTTGGACAGTCTGCC
1 ACATTTGGACAGTCTGCC
50243689 ACATT
1 ACATT
50243694 GTTTGTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (18 bp):
ACATTTGGACAGTCTGCC
Found at i:50246756 original size:11 final size:12
Alignment explanation
Indices: 50246734--50246777 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
50246724 AACAAATCCT
50246734 CTCTCAAATTTC
1 CTCTCAAATTTC
50246746 CTCTC-AATTTC
1 CTCTCAAATTTC
50246757 CT-TCCAAATTT-
1 CTCT-CAAATTTC
50246768 CTCTCAAATT
1 CTCTCAAATT
50246778 CATATTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 17 0.59
12 11 0.38
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:50249341 original size:22 final size:22
Alignment explanation
Indices: 50249299--50249848 Score: 587
Period size: 22 Copynumber: 25.7 Consensus size: 22
50249289 AATCCTAACT
50249299 CTTAACTTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249320 CTTCACTTAAAAACCCTAAACC
1 CTTAACTTAAAAACCCTAAACC
* *
50249342 ATTAACTTAAAAACCCTAAACA
1 CTTAACTTAAAAACCCTAAACC
*
50249364 CTAAACTT-AAAACCCATAAACC
1 CTTAACTTAAAAACCC-TAAACC
* *
50249386 CTTAACCTAAAAA-CCTTAACC
1 CTTAACTTAAAAACCCTAAACC
*
50249407 CTTAACTTAGAAACCCTAAA-C
1 CTTAACTTAAAAACCCTAAACC
* *
50249428 CTTAAACCTAAAAACACTAAACC
1 CTT-AACTTAAAAACCCTAAACC
* *
50249451 CTAAACTTAAAAACACTAAACC
1 CTTAACTTAAAAACCCTAAACC
** *
50249473 CTTAACTTAAATTCCATAAACC
1 CTTAACTTAAAAACCCTAAACC
*
50249495 CTTAACCTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249516 CTTAACTTAAAAACCATAAACC
1 CTTAACTTAAAAACCCTAAACC
** *
50249538 CTTAACTTAAATTCCATAAACC
1 CTTAACTTAAAAACCCTAAACC
*
50249560 CTTAACCTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249581 CTTAACCTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249602 CTTAACTTAAAAACCATAAACC
1 CTTAACTTAAAAACCCTAAACC
** *
50249624 CTTAACTTAAATTCCATAAACC
1 CTTAACTTAAAAACCCTAAACC
*
50249646 CTTAACCTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249667 CTTAACTTAAAAACCCTAAACA
1 CTTAACTTAAAAACCCTAAACC
*
50249689 CTAAACTT-AAAACCCATAAACC
1 CTTAACTTAAAAACCC-TAAACC
*
50249711 CTTAACCTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249732 CTTAACTTAAAAACCATAAACC
1 CTTAACTTAAAAACCCTAAACC
* ** **
50249754 TTTAACTTAAATTCTATAAACC
1 CTTAACTTAAAAACCCTAAACC
*
50249776 CTTAACCTAAAAACCCT--A--
1 CTTAACTTAAAAACCCTAAACC
* *
50249794 ---AACTTAAAACCCATAAACC
1 CTTAACTTAAAAACCCTAAACC
*
50249813 CTTAACCTAAAAACCCT-AACC
1 CTTAACTTAAAAACCCTAAACC
*
50249834 CTTAACCTAAAAACC
1 CTTAACTTAAAAACC
50249849 TTAAGAGCAT
Statistics
Matches: 443, Mismatches: 67, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
15 11 0.02
17 1 0.00
20 1 0.00
21 167 0.38
22 249 0.56
23 14 0.03
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (22 bp):
CTTAACTTAAAAACCCTAAACC
Found at i:50249373 original size:65 final size:66
Alignment explanation
Indices: 50249299--50249848 Score: 632
Period size: 65 Copynumber: 8.6 Consensus size: 66
50249289 AATCCTAACT
* * * *
50249299 CTTAACTTAAAAACCCT-AACCCTTCACTTAAAAACCCTAAACCATTAACTTAAAAACCCTAAAC
1 CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAAC
*
50249363 A
66 C
* * * *
50249364 CTAAACTT-AAAACCCATAAACCCTTAACCTAAAAA-CCTTAACCCTTAACTTAGAAACCCTAAA
1 CTTAACTTAAAAACCC-TAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAA
50249427 -C
65 CC
* * * * * **
50249428 CTTAAACCTAAAAACACTAAACCCTAAACTTAAAAACACTAAACCCTTAACTTAAATTCCATAAA
1 CTT-AACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAA
50249493 CC
65 CC
* * * **
50249495 CTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAACTTAAATTCCATAAAC
1 CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAAC
50249559 C
66 C
*
50249560 CTTAACCTAAAAACCCT-AACCCTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCATAAAC
1 CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAAC
50249623 C
66 C
** * *
50249624 CTTAACTTAAATTCCATAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAAC
1 CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAAC
*
50249688 A
66 C
*
50249689 CTAAACTT-AAAACCCATAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCATAAA
1 CTTAACTTAAAAACCC-TAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAA
50249752 CC
65 CC
* ** ** *
50249754 TTTAACTTAAATTCTATAAACCCTTAACCTAAAAACCCT--A-----AACTTAAAACCCATAAAC
1 CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAAC
50249812 C
66 C
*
50249813 CTTAACCTAAAAACCCT-AACCCTTAACCTAAAAACC
1 CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACC
50249849 TTAAGAGCAT
Statistics
Matches: 425, Mismatches: 51, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
58 19 0.04
59 29 0.07
64 51 0.12
65 263 0.62
66 59 0.14
67 4 0.01
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (66 bp):
CTTAACTTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCATAAAC
C
Found at i:50249397 original size:87 final size:87
Alignment explanation
Indices: 50249299--50249848 Score: 624
Period size: 87 Copynumber: 6.4 Consensus size: 87
50249289 AATCCTAACT
* * * *
50249299 CTTAACTTAAAAACCCTAACCCTTCACTTAAAAACCCTAAACCATTAACTTAAAAACCCTAAACA
1 CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACC
50249364 CTAAACTTAAAACCCATAAACC
66 CTAAACTTAAAACCCATAAACC
* * * *
50249386 CTTAACCTAAAAACCTTAACCCTTAACTTAGAAACCCTAAA-CCTTAAACCTAAAAACACTAAAC
1 CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAAAC
*
50249450 CCTAAACTTAAAA-ACACTAAACC
65 CCTAAACTTAAAACCCA-TAAACC
* ** * * *
50249473 CTTAACTTAAATTCCATAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCATAAAC
1 CTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAAC
* **
50249537 CCTTAACTTAAATTCCATAAACC
65 CCTAAACTTAAAACCCATAAACC
* *
50249560 CTTAACCTAAAAACCCTAACCCTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACC
1 CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACC
* **
50249624 CTTAACTTAAATTCCATAAACC
66 CTAAACTTAAAACCCATAAACC
* *
50249646 CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACACTAAACTT-AAAACCCATAAAC
1 CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-TAAAC
* *
50249710 CCTTAACCTAAAAACCC-T-AACC
65 CC-TAAACTTAAAACCCATAAACC
* * * ** ** *
50249732 CTTAACTTAAAAACCATAAACCTTTAACTTAAATTCTATAAACCCTTAACCT---AA----AAAC
1 CTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAAC
50249790 CCTAAACTTAAAACCCATAAACC
65 CCTAAACTTAAAACCCATAAACC
*
50249813 CTTAACCTAAAAACCCTAACCCTTAACCTAAAAACC
1 CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACC
50249849 TTAAGAGCAT
Statistics
Matches: 399, Mismatches: 53, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
79 12 0.03
80 21 0.05
81 19 0.05
85 2 0.01
86 136 0.34
87 175 0.44
88 34 0.09
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (87 bp):
CTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACC
CTAAACTTAAAACCCATAAACC
Found at i:50249791 original size:15 final size:15
Alignment explanation
Indices: 50249771--50249812 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
50249761 TAAATTCTAT
*
50249771 AAACCCTTAACCTAA
1 AAACCCTAAACCTAA
*
50249786 AAACCCTAAA-CTTA
1 AAACCCTAAACCTAA
50249800 AAACCCATAAACC
1 AAACCC-TAAACC
50249813 CTTAACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 13 0.57
16 1 0.04
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACCTAA
Found at i:50253417 original size:59 final size:58
Alignment explanation
Indices: 50253237--50253520 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
50253227 ATGATAAATT
* ** * *
50253237 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
50253296 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
50253357 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
50253416 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
50253478 T
58 C
*
50253479 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
50253521 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:50253444 original size:120 final size:122
Alignment explanation
Indices: 50253230--50253520 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
50253220 TAGTATGATG
* **
50253230 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
50253295 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
50253351 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
50253414 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
50253472 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
50253521 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:50253499 original size:18 final size:19
Alignment explanation
Indices: 50253464--50253500 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50253454 ATTATTAAGA
50253464 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
50253483 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
50253501 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:50253770 original size:16 final size:16
Alignment explanation
Indices: 50253736--50253788 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
50253726 GATTAGCTAT
50253736 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
50253753 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50253769 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50253785 TACA
1 TACA
50253789 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:50253834 original size:22 final size:21
Alignment explanation
Indices: 50253804--50254443 Score: 357
Period size: 22 Copynumber: 29.9 Consensus size: 21
50253794 CCAAACGCAC
* *
50253804 CCTAAACCCTTAACTTAAATT
1 CCTAAACCCTTAACCTAAAAT
*
50253825 CCATAAACCCTTAACCTAAAAAC
1 CC-TAAACCCTTAACCT-AAAAT
* *
50253848 CCT-AACCTTTAACTTAAAAAT
1 CCTAAACCCTTAACCT-AAAAT
*
50253869 CCTAAACCCTAAACCT--AA-
1 CCTAAACCCTTAACCTAAAAT
*
50253887 ---AAACCCTTAAGCTAAAAAT
1 CCTAAACCCTTAACCT-AAAAT
* * *
50253906 -CTTAACCCTTAACTTAAAAAC
1 CCTAAACCCTTAACCT-AAAAT
* *
50253927 CCTAAACTCTTAACCTAAAAC
1 CCTAAACCCTTAACCTAAAAT
*
50253948 CCTAAA-CCTTAAACTTAAAA-
1 CCTAAACCCTT-AACCTAAAAT
* *
50253968 CACATAAATCCTTAACCTAAAAAC
1 C-C-TAAACCCTTAACCT-AAAAT
*
50253992 CCT-AACCCTTAACCTAGAAAC
1 CCTAAACCCTTAACCTA-AAAT
** *
50254013 CCTAAACCCTTAAATTAAATTT
1 CCTAAACCCTTAACCTAAA-AT
* * *
50254035 CATAAAACCTTAACCTAAAAAC
1 CCTAAACCCTTAACCT-AAAAT
* * *
50254057 CCT-AACCCATAACTTAAAAA
1 CCTAAACCCTTAACCTAAAAT
* *
50254077 CCTTAAACCCTTAACTTAAATT
1 CC-TAAACCCTTAACCTAAAAT
*
50254099 CCATAAACCCTTAACCTAAAAAA
1 CC-TAAACCCTTAACCT-AAAAT
* * *
50254122 CCT-AACACTTAACTTAAAAAC
1 CCTAAACCCTTAACCT-AAAAT
* *
50254143 CCTAAACCCTAAACCTAAAAA
1 CCTAAACCCTTAACCTAAAAT
*
50254164 CCATAAACCCTTAACCTAAAAA
1 CC-TAAACCCTTAACCTAAAAT
* * *
50254186 CC-ATAACTCTTAACTTAAAAAC
1 CCTA-AACCCTTAACCT-AAAAT
* *
50254208 CCTAAACTCTTAACCTAAAAA
1 CCTAAACCCTTAACCTAAAAT
*
50254229 CCATAAA-CCTTAAACTTAAAA-
1 CC-TAAACCCTT-AACCTAAAAT
*
50254250 CACATAAACCCTTAACCTAAAAA
1 C-C-TAAACCCTTAACCTAAAAT
* *
50254273 CTCT-AACCTTTAACCTAGAAAC
1 C-CTAAACCCTTAACCTA-AAAT
* *
50254295 CCTAAA-CTTTAAACTTAAAA-
1 CCTAAACCCTT-AACCTAAAAT
*
50254315 CCTATAAACCCTTAACCTAAAAA
1 CC--TAAACCCTTAACCTAAAAT
* * *
50254338 CCTTAACCCTTAACTTAGAAAC
1 CCTAAACCCTTAACCTA-AAAT
* * *
50254360 CCTAAACCATTAACTTAAATT
1 CCTAAACCCTTAACCTAAAAT
*
50254381 CCATAAACCCTTAACCTAAAAAC
1 CC-TAAACCCTTAACCT-AAAAT
* *
50254404 CCT-AACCCTTAACTTAAATT
1 CCTAAACCCTTAACCTAAAAT
50254424 CCATAAACCCTTAACCTAAA
1 CC-TAAACCCTTAACCTAAA
50254444 GGCTTAAAAA
Statistics
Matches: 493, Mismatches: 81, Indels: 89
0.74 0.12 0.13
Matches are distributed among these distances:
15 11 0.02
18 2 0.00
19 2 0.00
20 19 0.04
21 179 0.36
22 240 0.49
23 39 0.08
24 1 0.00
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (21 bp):
CCTAAACCCTTAACCTAAAAT
Found at i:50253864 original size:43 final size:44
Alignment explanation
Indices: 50253802--50254443 Score: 549
Period size: 43 Copynumber: 15.0 Consensus size: 44
50253792 AACCAAACGC
**
50253802 ACCCTAAACCCTTAACTTAAATTCCATAAACCCTTAACCTAAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* *
50253846 ACCCT-AACCTTTAACTTAAAAATCC-TAAACCCTAAACCT---A
1 ACCCTAAACCCTTAACTTAAAAA-CCATAAACCCTTAACCTAAAA
* * *
50253886 A----AAACCCTTAAGC-TAAAAATC-TTAACCCTTAACTTAAAA
1 ACCCTAAACCCTTAA-CTTAAAAACCATAAACCCTTAACCTAAAA
* * * * *
50253925 ACCCTAAACTCTTAACCT-AAAACCCTAAA-CCTTAAACTTAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* * * * *
50253967 ACACATAAATCCTTAACCTAAAAACCCT-AACCCTTAACCTAGAA
1 AC-CCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* *** *
50254011 ACCCTAAACCCTTAAATTAAATTTCATAAAACCTTAACCTAAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* * * *
50254055 ACCCT-AACCCATAACTTAAAAACCTTAAACCCTTAACTTAAAT
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* * * * *
50254098 TCCATAAACCCTTAACCTAAAAAACC-T-AACACTTAACTTAAAA
1 ACCCTAAACCCTTAA-CTTAAAAACCATAAACCCTTAACCTAAAA
* *
50254141 ACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAACCTAAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* * * *
50254185 ACCAT-AACTCTTAACTTAAAAACCCTAAACTCTTAACCTAAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
*
50254228 ACCATAAA-CCTTAAACTT-AAAACACATAAACCCTTAACCTAAAA
1 ACCCTAAACCCTT-AACTTAAAAAC-CATAAACCCTTAACCTAAAA
* * * * * * * *
50254272 ACTCT-AACCTTTAACCTAGAAACCCTAAA-CTTTAAACTTAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* * * * *
50254314 ACCTATAAACCCTTAACCTAAAAACC-TTAACCCTTAACTTAGAA
1 ACC-CTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
* **
50254358 ACCCTAAACCATTAACTTAAATTCCATAAACCCTTAACCTAAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
**
50254402 ACCCT-AACCCTTAACTTAAATTCCATAAACCCTTAACCTAAA
1 ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAA
50254444 GGCTTAAAAA
Statistics
Matches: 479, Mismatches: 90, Indels: 59
0.76 0.14 0.09
Matches are distributed among these distances:
36 12 0.03
37 14 0.03
38 1 0.00
39 2 0.00
40 2 0.00
42 38 0.08
43 245 0.51
44 156 0.33
45 9 0.02
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (44 bp):
ACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAA
Found at i:50253919 original size:58 final size:57
Alignment explanation
Indices: 50253829--50253956 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 57
50253819 TAAATTCCAT
* *
50253829 AAACCCTTAACCTAAAAACCCTAACCTTTAACTTAAAAATCCTAAACCCTAAACCTAA
1 AAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTAAACCT-A
* * * * *
50253887 AAACCCTTAAGCTAAAAATCTTAACCCTTAACTTAAAAACCCTAAACTCTTAACCTA
1 AAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTAAACCTA
*
50253944 AAACCCTAAACCT
1 AAACCCTTAACCT
50253957 TAAACTTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 12 0.20
58 49 0.80
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.23
Consensus pattern (57 bp):
AAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTAAACCTA
Found at i:50253989 original size:65 final size:63
Alignment explanation
Indices: 50253912--50254443 Score: 475
Period size: 65 Copynumber: 8.2 Consensus size: 63
50253902 AAATCTTAAC
* * *
50253912 CCTTAACTTAAAAACCCTAAACTCTTAACCT-AAAACCCTAAACCTTAAACTTAAAACACATAAA
1 CCTTAACCTAAAAACCAT-AACCCTTAACCTAAAAACCCTAAACCTTAAACTTAAAAC-CATAAA
* * **
50253976 TCCTTAACCTAAAAACCCTAACCCTTAACCTAGAAACCCTAAACCCTTAAA-TTAAATTTCATAA
1 -CCTTAACCTAAAAACCATAACCCTTAACCTAAAAACCCTAAA-CCTTAAACTTAAA-ACCAT-A
50254040 AA
62 AA
* * * * *
50254042 CCTTAACCTAAAAACCCTAACCCATAACTTAAAAACCTTAAACCCTT-AACTTAAATTCCATAAA
1 CCTTAACCTAAAAACCATAACCCTTAACCTAAAAACCCTAAA-CCTTAAACTTAAA-ACCATAAA
* * * *
50254106 CCCTTAACCTAAAAAACC-TAACACTTAACTTAAAAACCCTAAACCCTAAACCTAAAAACCATAA
1 -CCTTAACCT-AAAAACCATAACCCTTAACCTAAAAACCCTAAACCTTAAA-CTTAAAACCATAA
50254170 A
63 A
* * * *
50254171 CCCTTAACCTAAAAACCATAACTCTTAACTTAAAAACCCTAAACTCTTAACCTAAAAACCATAAA
1 -CCTTAACCTAAAAACCATAACCCTTAACCTAAAAACCCTAAAC-CTTAAACTTAAAACCATAAA
* * * * * *
50254236 CCTTAAACTTAAAACACATAAACCCTTAACCTAAAAACTCT-AACCTTTAACCTAGAAACCCTAA
1 CCTTAACCTAAAAAC-CAT-AACCCTTAACCTAAAAACCCTAAACCTTAAACTTA-AAACCATAA
50254300 A
63 A
* * * * * *
50254301 CTTTAAACTTAAAACCTATAAACCCTTAACCTAAAAACCTTAACCCTT-AACTTAGAAACCCTAA
1 CCTTAACCTAAAAACC-AT-AACCCTTAACCTAAAAACCCTAAACCTTAAACTTA-AAACCATAA
50254365 A
63 A
* ** * *
50254366 CCATTAACTTAAATTCCATAAACCCTTAACCTAAAAACCCTAACCCTT-AACTTAAATTCCATAA
1 CC-TTAACCTAAAAACCAT-AACCCTTAACCTAAAAACCCTAAACCTTAAACTTAAA-ACCATAA
50254430 A
63 A
50254431 CCCTTAACCTAAA
1 -CCTTAACCTAAA
50254444 GGCTTAAAAA
Statistics
Matches: 404, Mismatches: 44, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
64 48 0.12
65 296 0.73
66 60 0.15
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (63 bp):
CCTTAACCTAAAAACCATAACCCTTAACCTAAAAACCCTAAACCTTAAACTTAAAACCATAAA
Found at i:50254229 original size:152 final size:149
Alignment explanation
Indices: 50253834--50254421 Score: 542
Period size: 152 Copynumber: 3.9 Consensus size: 149
50253824 TCCATAAACC
* * * *
50253834 CTTAACCTAAAAACCCT-AACCTTTAACTTAAAAATCC-TAAACCCTAAACCTAAAAA-C----C
1 CTTAACCTAAAAACCCTAAACCCTAAACCTAAAAA-CCATAAACCCTTAACCTAAAAACCATAAC
* * * * * *
50253892 CTTAAGC-TAAAAATCTTAACCCTTAACTTAAAAACCCTAAACTCTTAACCTAAAACCCTAAA-C
65 CTTAA-CTTAAAAACCCTAAACCTTAACTTAAAAACCATAAACCCTTAACCTAAAACCATAAACC
* * *
50253955 CTTAAACTTAAAACACATAA-A
129 CTT-AACCTAAAAAACCTAACA
* * * ** ***
50253976 TCCTTAACCTAAAAACCCT-AACCCTTAACCTAGAAACCCTAAACCCTTAAATTAAATTTCATAA
1 --CTTAACCTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAACCTAAAAACCAT--
* * * * * *
50254040 AACCTTAACCTAAAAACCCTAACCCATAACTTAAAAACCTTAAACCCTTAACTTAAATTCCATAA
62 AACCTTAACTTAAAAACCCTAAACCTTAACTTAAAAACCATAAACCCTTAACCTAAA-ACCATAA
50254105 ACCCTTAACCTAAAAAACCTAACA
126 ACCCTTAACCTAAAAAACCTAACA
*
50254129 CTTAACTTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAACCTAAAAACCATAACT
1 CTTAACCTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAACCTAAAAACCATAAC-
* *
50254194 CTTAACTTAAAAACCCTAAACTCTTAACCTAAAAACCATAAA-CCTTAAACTTAAAACACATAAA
65 CTTAACTTAAAAACCCTAAAC-CTTAACTTAAAAACCATAAACCCTT-AACCTAAAAC-CATAAA
50254258 CCCTTAACCT-AAAAACTCTAAC-
127 CCCTTAACCTAAAAAAC-CTAACA
* ** * *
50254280 CTTTAACCTAGAAACCCTAAACTTTAAA-CTTAAAACCTATAAACCCTTAACCTAAAAACCTTAA
1 C-TTAACCTAAAAACCCTAAACCCTAAACCTAAAAACC-ATAAACCCTTAACCTAAAAACCATAA
* ** *
50254344 CCCTTAACTTAGAAACCCTAAACCATTAACTTAAATTCCATAAACCCTTAACCTAAAAACCCT-A
64 -CCTTAACTTAAAAACCCTAAACC-TTAACTTAAAAACCATAAACCCTTAACCT-AAAACCATAA
*
50254408 ACCCTTAACTTAAA
126 ACCCTTAACCTAAA
50254422 TTCCATAAAC
Statistics
Matches: 372, Mismatches: 47, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
143 2 0.01
144 45 0.12
145 1 0.00
150 4 0.01
151 114 0.31
152 191 0.51
153 15 0.04
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (149 bp):
CTTAACCTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAACCTAAAAACCATAACC
TTAACTTAAAAACCCTAAACCTTAACTTAAAAACCATAAACCCTTAACCTAAAACCATAAACCCT
TAACCTAAAAAACCTAACA
Found at i:50254343 original size:14 final size:15
Alignment explanation
Indices: 50254313--50254345 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50254303 TTAAACTTAA
*
50254313 AACCTATAAACCCTT
1 AACCTATAAAACCTT
50254328 AACCTA-AAAACCTT
1 AACCTATAAAACCTT
50254342 AACC
1 AACC
50254346 CTTAACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCTATAAAACCTT
Found at i:50257884 original size:125 final size:124
Alignment explanation
Indices: 50257644--50258142 Score: 481
Period size: 125 Copynumber: 4.0 Consensus size: 124
50257634 CAAATATGCT
* *** * *
50257644 ACTGTAGCAAAAGCGCGTCCACGTGGGAATGATTTCATAAATTCTTCTCATAAAGCATCCAG-GT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCATAAAGCATCCAGCTT
* * * *
50257708 AGAAGCAATTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTTCAGGACCA
66 A-AAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAA-TAATTTTTTCAGGACCA
* * * * *
50257769 ACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCAGAAAATCTTCTCA-AATCGTATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCATAA-AGCATCCAGCT
* *
50257833 TAAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTTAGGACCT
65 TAAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCA
* * * * * * *
50257894 ACTGTAGCAAAAACGCATCCATGTGGGCGCGATTTTACAAATTCTTCTCATAAAGCATCCAGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCATAAAGCATCCAGCT-
* * * * * *
50257959 GAAAGGA--TTTATACTATTTGCTTAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCA
65 TAAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCA
* * ** * *
50258018 ACTGTAGCAAACA-CGTGTCCATGCA-ACCGCTATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 ACTGTAGCAAA-AGCGCGTCCACG-AGGGCGCGATTTCAGAAATTCTTCTCATAA-AGCATCCAG
* * * * * *
50258080 CTTGAAGCGTTTTTTATACAATTGGCTCAGAAATGTCAACACGAAATAATTTTTTCAGGACCA
63 CTTAAAGC-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCA
50258143 GAAAAATTTG
Statistics
Matches: 304, Mismatches: 58, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
123 42 0.14
124 58 0.19
125 129 0.42
126 75 0.25
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCATAAAGCATCCAGCTT
AAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCA
Found at i:50258081 original size:249 final size:250
Alignment explanation
Indices: 50257642--50258141 Score: 666
Period size: 249 Copynumber: 2.0 Consensus size: 250
50257632 CCCAAATATG
* * * *
50257642 CTACTGTAGCAAAAGCGCGTCCACGTGGGAATGATTTCATAAATTCTTCTCATAAAGCATCCAGG
1 CTACTGTAGCAAAAACGCATCCACGTGGGAACGATTTCACAAATTCTTCTCATAAAGCATCCAGG
* * *
50257707 TAGAAGCAATTTTATACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTTCAGGACCAACT
66 TAGAAGCAATTTTATACTATTTACTCAGAAACATCAACTCAAAATTATTTCTTCCAGGACCAACT
*** * *
50257772 GTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCAGAAAATCTTCTCAAATCGTATCCTGCTTAAA
131 GTAGCAAAAGCGCGTCCACGAGACCGCGATTTCAGAAAATCTTCTCAAATAGCATCCTGCTTAAA
* * * *
50257837 GCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTTAGGAC
196 GCATTTTTTATACAATTGGCTCAGAAACGTCAACACGAAATAATTTTTTCAGGAC
* ** *
50257892 CTACTGTAGCAAAAACGCATCCATGTGGGCGCGATTTTACAAATTCTTCTCATAAAGCATCCAGG
1 CTACTGTAGCAAAAACGCATCCACGTGGGAACGATTTCACAAATTCTTCTCATAAAGCATCCAGG
* * * *
50257957 TAGAAAG-GA-TTTATACTATTTGCTTAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCAAC
66 TAG-AAGCAATTTTATACTATTTACTCAGAAACATCAACTCAAAATTATTTCTTCCAGGACCAAC
* * * *
50258020 TGTAGCAAACA-CGTGTCCATGCA-ACCGCTATTTCAGAAATTCTTCTCAAATAGCATCCTGCTT
130 TGTAGCAAA-AGCGCGTCCACG-AGACCGCGATTTCAGAAAATCTTCTCAAATAGCATCCTGCTT
* * *
50258083 GAAGCGTTTTTTATACAATTGGCTCAGAAATGTCAACACGAAATAATTTTTTCAGGAC
193 AAAGCATTTTTTATACAATTGGCTCAGAAACGTCAACACGAAATAATTTTTTCAGGAC
50258141 C
1 C
50258142 AGAAAAATTT
Statistics
Matches: 216, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
249 150 0.69
250 63 0.29
251 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (250 bp):
CTACTGTAGCAAAAACGCATCCACGTGGGAACGATTTCACAAATTCTTCTCATAAAGCATCCAGG
TAGAAGCAATTTTATACTATTTACTCAGAAACATCAACTCAAAATTATTTCTTCCAGGACCAACT
GTAGCAAAAGCGCGTCCACGAGACCGCGATTTCAGAAAATCTTCTCAAATAGCATCCTGCTTAAA
GCATTTTTTATACAATTGGCTCAGAAACGTCAACACGAAATAATTTTTTCAGGAC
Found at i:50281339 original size:24 final size:25
Alignment explanation
Indices: 50281312--50281386 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 25
50281302 CAAACTGTTT
50281312 TTTACTAAAATATTACAAAAAAA-A
1 TTTACTAAAATATTACAAAAAAATA
50281336 TTTA-TCAAAATAATATACAAAAAAATTTA
1 TTTACT-AAAAT-AT-TACAAAAAAA--TA
*
50281365 TTTACTAAAATAATA-AAAAAAA
1 TTTACTAAAATATTACAAAAAAA
50281387 GACAGCTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
23 1 0.02
24 9 0.21
25 2 0.05
26 17 0.40
27 2 0.05
28 1 0.02
29 10 0.23
30 1 0.02
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (25 bp):
TTTACTAAAATATTACAAAAAAATA
Found at i:50281374 original size:29 final size:26
Alignment explanation
Indices: 50281312--50281386 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 26
50281302 CAAACTGTTT
50281312 TTTACTAAAAT-AT-TACAAAAAAAA
1 TTTACTAAAATAATATACAAAAAAAA
50281336 TTTA-TCAAAATAATATACAAAAAAATTTA
1 TTTACT-AAAATAATATACAAAAAAA---A
50281365 TTTACTAAAATAATA-A-AAAAAA
1 TTTACTAAAATAATATACAAAAAA
50281387 GACAGCTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
23 1 0.02
24 9 0.20
25 2 0.05
26 10 0.23
27 6 0.14
28 1 0.02
29 14 0.32
30 1 0.02
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (26 bp):
TTTACTAAAATAATATACAAAAAAAA
Found at i:50281752 original size:151 final size:150
Alignment explanation
Indices: 50281467--50281858 Score: 565
Period size: 151 Copynumber: 2.6 Consensus size: 150
50281457 GTATTTCAGT
** *
50281467 CTTTTGTTCGTATTTTTTTTAGATTTTATTA-TTTTAAAAAATATACTATTTTTTAATTTT-TTA
1 CTTTTGTTCGTATTTTTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATT-
* * * * **
50281530 ATTTTACATTATTTTAGTAGATTATATTTGAAAGGTATTCATTTAGTGTGTGTTTTTATTTAAAT
65 ATTTTACATTATTTTAGTACATTATACTTGAAAGGTATTAATTTAGTGTATGTTTTTAAATAAA-
*
50281595 TTAAAAAAATCCTTATTTCGAC
129 TTAAAAAAACCCTTATTTCGAC
50281617 CTTTTGTTCGTATTTTTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTA
1 CTTTTGTTCGTATTTTTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTA
* * *
50281682 TTTTACATTATTTTAGTACATTATGCTTGAAATGTATTAATTTATTGTAT-TTTTTAAATAAATT
66 TTTTACATTATTTTAGTACATTATACTTGAAAGGTATTAATTTAGTGTATGTTTTTAAATAAATT
*
50281746 AAAAAAACCCTTATTTCGGC
131 AAAAAAACCCTTATTTCGAC
* * *
50281766 CTTTTATTCGTATTTTTTTCCCTGAATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTA
1 CTTTTGTTCGTATTTTTTT--C-GGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTA
50281831 TTATTTTACATTATTTTAGTACATTATA
63 TTATTTTACATTATTTTAGTACATTATA
50281859 AATTTTTAAA
Statistics
Matches: 219, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
149 38 0.17
150 39 0.18
151 73 0.33
152 69 0.32
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.54
Consensus pattern (150 bp):
CTTTTGTTCGTATTTTTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTA
TTTTACATTATTTTAGTACATTATACTTGAAAGGTATTAATTTAGTGTATGTTTTTAAATAAATT
AAAAAAACCCTTATTTCGAC
Found at i:50281963 original size:116 final size:120
Alignment explanation
Indices: 50281744--50281973 Score: 362
Period size: 116 Copynumber: 1.9 Consensus size: 120
50281734 TTTAAATAAA
*
50281744 TTAAAAAAACCCTTATTTCGGCCTTTTATTCGTATTTTTTTCCCTGAATTTTATTACTTTAAAAA
1 TTAAAAAAACCCTTATTTCGGCCCTTTATTCGTATTTTTTTCCCTGAATTTTATTACTTTAAAAA
*
50281809 AATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATAAATTT
66 AATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATAAATTT
* * *
50281864 TTAAAAAAATCCTTATTTTGGCCCTTTGTTCGTA-TTTTTT-CCT-AGATTTTATTACTTT-AAA
1 TTAAAAAAACCCTTATTTCGGCCCTTTATTCGTATTTTTTTCCCTGA-ATTTTATTACTTTAAAA
*
50281925 ATAT-TAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTAT
65 AAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTAT
50281974 GCTTGAAATA
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
116 44 0.43
117 7 0.07
118 16 0.16
119 6 0.06
120 30 0.29
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (120 bp):
TTAAAAAAACCCTTATTTCGGCCCTTTATTCGTATTTTTTTCCCTGAATTTTATTACTTTAAAAA
AATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATAAATTT
Found at i:50282229 original size:154 final size:153
Alignment explanation
Indices: 50282000--50282820 Score: 1242
Period size: 154 Copynumber: 5.3 Consensus size: 153
50281990 TTTAGTGTGT
** * *
50282000 TTTTTATTGAAAGTAATAAAATCCAAGAAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
1 TTTTT-TT-AAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
* *
50282065 TAAAATTTATTTAAAACACACACTAAATGGATACATTTCAAACATAATGTACTAAAATAATGTAA
64 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
50282130 AATAATAAAATTAGAAAATAATATA
129 AATAATAAAATTAGAAAATAATATA
*
50282155 TTTTTATTGAAAGTAATAAAATCTGAG-AAAAAATACGAACAAAGGGCCGAAATAATGATTTTTT
1 TTTTT-TT-AAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
50282219 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
64 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
50282284 AATAATAAAATTAGAAAATAATATA
129 AATAATAAAATTAGAAAATAATATA
*
50282309 TTTTTATTGAAAGTAATAAAATCTGAG-AAAAAATACGAACAAAGGGCCGAAATAATGATTTTTT
1 TTTTT-TT-AAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
50282373 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
64 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
50282438 AATAATAAAATTAGAAAATAGTATA
129 AATAATAAAATTAGAAAATAATATA
* * * * *
50282463 TTTTTTTAAAGTAATAAAAT-TCGGGAAAAAAATACGAATAAATGGCCAAAATAAGGGTTTTTTT
1 TTTTTTTAAAGTAATAAAATCT-GAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTT
* * *
50282527 --AATTTATTTAAAAAACACAGTAAATTAATACATTTCAAGCATAATGTACTAAAATAATGTAAA
65 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
50282590 ATAATAAAATTAGAAAATAGTATA
130 ATAATAAAATTAGAAAATAATATA
* *
50282614 -TTTTTTAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTT
1 TTTTTTTAAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAA-GG-ATTTTTT
** * *
50282678 TAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAACATAATGTAA
64 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
50282743 AATAATAAAATTAGAAAATAATATA
129 AATAATAAAATTAGAAAATAATATA
* * * * *
50282768 TTTTTTTAAAGTAATAAAAT-TCAGGAAAAAAATATGAATAAATGGCTGAAATA
1 TTTTTTTAAAGTAATAAAATCTGA-GAAAAAAATACGAACAAAGGGCCGAAATA
50282821 CAAACATGTT
Statistics
Matches: 620, Mismatches: 37, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
150 47 0.08
151 87 0.14
152 22 0.04
153 35 0.06
154 360 0.58
155 69 0.11
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (153 bp):
TTTTTTTAAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTA
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATA
Found at i:50282686 original size:305 final size:306
Alignment explanation
Indices: 50282000--50282813 Score: 1307
Period size: 305 Copynumber: 2.7 Consensus size: 306
50281990 TTTAGTGTGT
* *
50282000 TTTTTATTGAAAGTAATAAAATCCAAGAAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
1 TTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
* *
50282065 TAAAATTTATTTAAAACACACACTAAATGGATACATTTCAAACATAATGTACTAAAATAATGTAA
66 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
50282130 AATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAA-TCTGAGAAAAAATACGAA
131 AATAATAAAATTAGAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGGA-AAAAAATACGAA
* * * *
50282194 CAAAGGGCCGAAATAATGATTTTTTTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCA
193 TAAATGGCCAAAATAAGGATTTTTTT-AAATTTATTTAAAAAACACACTAAATGAATACATTTCA
50282259 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATA
257 AACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATA
* * *
50282309 TTTTTATTGAAAGTAATAAAATCTGAG-AAAAAATACGAACAAAGGGCCGAAATAATGATTTTTT
1 TTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
50282373 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
66 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
50282438 AATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAATA
131 AATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTC-GGAAAAAAATACGAATA
* * * *
50282503 AATGGCCAAAATAAGGGTTTTTTT-AATTTATTTAAAAAACACAGTAAATTAATACATTTCAAGC
195 AATGGCCAAAATAAGGATTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAAC
*
50282567 ATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA
260 ATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATA
50282614 -TTTT-TT-AAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
1 TTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGG--TTTT
** * *
50282676 TTTAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAACATAATGT
64 TTTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
*
50282741 AAAATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTCAGGAAAAAAATATGAA
129 AAAATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTC-GGAAAAAAATACGAA
50282806 TAAATGGC
193 TAAATGGC
50282814 TGAAATACAA
Statistics
Matches: 472, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
302 17 0.04
303 31 0.07
304 4 0.01
305 218 0.46
306 12 0.03
307 37 0.08
308 128 0.27
309 25 0.05
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (306 bp):
TTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
AATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTCGGAAAAAAATACGAATAA
ATGGCCAAAATAAGGATTTTTTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACA
TAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATA
Found at i:50287479 original size:17 final size:18
Alignment explanation
Indices: 50287445--50287490 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
50287435 CCGTTATGTC
50287445 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
50287460 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
50287477 CGCGACCGCGACCG
1 CGCGACCGCGACCG
50287491 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:50287901 original size:146 final size:147
Alignment explanation
Indices: 50287636--50287928 Score: 534
Period size: 146 Copynumber: 2.0 Consensus size: 147
50287626 TTTAAGGTGT
*
50287636 GCATTTTCACAAATAAGAAGCTTATTTGCAGCAATTTTGTTGAAAGTTTTCAGGCAATTACGAAA
1 GCATTTTCACAAATAAGAAGCTTATTTGCAGCAATTTTGTTGAAAGTTTACAGGCAATTACGAAA
50287701 CTGACCTGAGCAACCATAAAGGCTCTCTGCTGTTGATCAGCCCTTTAGCCATTCCCCTTAAATTT
66 CTGACCTGAGCAACCATAAAGGCTCTCTGCTGTTGATCAGCCCTTTAGCCATTCCCCTTAAATTT
*
50287766 GTACTGGTTCATGGAAC
131 GTACAGGTTCATGGAAC
* *
50287783 GCATTTTCACAAATAAGAAGGTTATTTGCAGCAATTTTGTTGAAA-TTTACAGGCAATTACGAGA
1 GCATTTTCACAAATAAGAAGCTTATTTGCAGCAATTTTGTTGAAAGTTTACAGGCAATTACGAAA
*
50287847 CTGACCTGAGCAACCATAAAGGCTCTCTGCTGTTGATCAGCCCTTTAGCCATTCCCCTTGAATTT
66 CTGACCTGAGCAACCATAAAGGCTCTCTGCTGTTGATCAGCCCTTTAGCCATTCCCCTTAAATTT
50287912 GTACAGGTTCATGGAAC
131 GTACAGGTTCATGGAAC
50287929 CAAACCCCTT
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
146 97 0.69
147 44 0.31
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (147 bp):
GCATTTTCACAAATAAGAAGCTTATTTGCAGCAATTTTGTTGAAAGTTTACAGGCAATTACGAAA
CTGACCTGAGCAACCATAAAGGCTCTCTGCTGTTGATCAGCCCTTTAGCCATTCCCCTTAAATTT
GTACAGGTTCATGGAAC
Found at i:50292058 original size:4 final size:4
Alignment explanation
Indices: 50292049--50292095 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
50292039 GCAACTTATA
50292049 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
50292096 ATCTTTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:50292958 original size:29 final size:29
Alignment explanation
Indices: 50292926--50293051 Score: 94
Period size: 24 Copynumber: 4.7 Consensus size: 29
50292916 AATTTATTAG
50292926 GAATTTTTAAGTTTTAGGTTGTTTAAACT
1 GAATTTTTAAGTTTTAGGTTGTTTAAACT
**
50292955 GAA---TT--GTTTTAAATTGTTTAAACT
1 GAATTTTTAAGTTTTAGGTTGTTTAAACT
* * *
50292979 CAATTTTTATG-TTTAGGTT-TATT--A-G
1 GAATTTTTAAGTTTTAGGTTGT-TTAAACT
**
50293004 GAATTTTTAAGTTTTAAATTGTTTAAACT
1 GAATTTTTAAGTTTTAGGTTGTTTAAACT
*
50293033 CAATTTTTAAG-TTTAGGTT
1 GAATTTTTAAGTTTTAGGTT
50293052 TATTAGGTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 23
0.66 0.13 0.21
Matches are distributed among these distances:
24 19 0.26
25 9 0.12
26 11 0.15
27 4 0.06
28 15 0.21
29 14 0.19
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.52
Consensus pattern (29 bp):
GAATTTTTAAGTTTTAGGTTGTTTAAACT
Found at i:50293023 original size:54 final size:54
Alignment explanation
Indices: 50292960--50293097 Score: 231
Period size: 54 Copynumber: 2.5 Consensus size: 54
50292950 AAACTGAATT
* *
50292960 GTTTTAAATTGTTTAAACTCAATTTTTATGTTTAGGTTTATTAGGAATTTTTAA
1 GTTTTAAATTGTTTAAACTCAATTTTTAAGTTTAGGTTTATTAGGAATTGTTAA
*
50293014 GTTTTAAATTGTTTAAACTCAATTTTTAAGTTTAGGTTTATTAGGTATTGTTAA
1 GTTTTAAATTGTTTAAACTCAATTTTTAAGTTTAGGTTTATTAGGAATTGTTAA
*
50293068 GTTTTAAATTGTTTAATCTCAATTGTTTAA
1 GTTTTAAATTGTTTAAACTCAATT-TTTAA
50293098 ACGCAAAGGA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 74 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (54 bp):
GTTTTAAATTGTTTAAACTCAATTTTTAAGTTTAGGTTTATTAGGAATTGTTAA
Found at i:50293092 original size:29 final size:29
Alignment explanation
Indices: 50293005--50293094 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
50292995 GTTTATTAGG
*
50293005 AATTTTTAAGTTTTAAATTGTTTAAACTC
1 AATTGTTAAGTTTTAAATTGTTTAAACTC
* ** **
50293034 AATTTTTAAG-TTTAGGTT-TATT-AGGT-
1 AATTGTTAAGTTTTAAATTGT-TTAAACTC
*
50293060 -ATTGTTAAGTTTTAAATTGTTTAATCTC
1 AATTGTTAAGTTTTAAATTGTTTAAACTC
50293088 AATTGTT
1 AATTGTT
50293095 TAAACGCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
25 8 0.17
26 8 0.17
27 6 0.13
28 8 0.17
29 16 0.35
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.53
Consensus pattern (29 bp):
AATTGTTAAGTTTTAAATTGTTTAAACTC
Found at i:50294022 original size:19 final size:18
Alignment explanation
Indices: 50294000--50294035 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
50293990 AATTAACTCT
*
50294000 TAATGTAAAAAAATAAACG
1 TAATCTAAAAAAA-AAACG
50294019 TAATCTAAAAAAAAAAC
1 TAATCTAAAAAAAAAAC
50294036 TTAGTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (18 bp):
TAATCTAAAAAAAAAACG
Found at i:50294570 original size:20 final size:22
Alignment explanation
Indices: 50294524--50294573 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
50294514 GAAATTTAAT
50294524 TTTTTC-TTTTTTGTTCGTTTA
1 TTTTTCATTTTTTGTTCGTTTA
**
50294545 ACTTTCATTTTTT-TTC-TTTA
1 TTTTTCATTTTTTGTTCGTTTA
50294565 TTTTTCATT
1 TTTTTCATT
50294574 CTCTTCTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 11 0.46
21 7 0.29
22 6 0.25
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTTCATTTTTTGTTCGTTTA
Found at i:50295840 original size:42 final size:43
Alignment explanation
Indices: 50295793--50295907 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
50295783 GTGCTAAATA
* * *
50295793 GAAACCCGTAAGGGTTGAACGGAAGCTCATTAGAA-CTGAACG
1 GAAACCCATAAGGGTTGAACGGAAGCTCATAAAAACCTGAACG
* **
50295835 GAAACCCATAAGGGTTAAACAAAAGCTCA-AAAAACCTGAACG
1 GAAACCCATAAGGGTTGAACGGAAGCTCATAAAAACCTGAACG
* * * *
50295877 GAAACTCATTAGAGTTGAACGGAAACTCATA
1 GAAACCCATAAGGGTTGAACGGAAGCTCATA
50295908 TGAGTTAAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.05
42 54 0.93
43 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.17
Consensus pattern (43 bp):
GAAACCCATAAGGGTTGAACGGAAGCTCATAAAAACCTGAACG
Found at i:50309751 original size:17 final size:17
Alignment explanation
Indices: 50309726--50309768 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
50309716 TATTTTTAAC
*
50309726 TTTAATTTTTATATATA
1 TTTATTTTTTATATATA
*
50309743 TTTATTTTTTTTATATA
1 TTTATTTTTTATATATA
50309760 TTTACTTTT
1 TTTA-TTTT
50309769 ATTTTGCAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTTTTATATATA
Found at i:50310049 original size:21 final size:21
Alignment explanation
Indices: 50310000--50310052 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
50309990 ACCCATCAGC
50310000 CTTTCACCTATCAAATCCTAAT
1 CTTTCACCTATCAAATCC-AAT
*
50310022 CTTTCACCTATCACATCC-AT
1 CTTTCACCTATCAAATCCAAT
50310042 CTTTTCACCTA
1 C-TTTCACCTA
50310053 GAAAACTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 3 0.10
21 9 0.31
22 17 0.59
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (21 bp):
CTTTCACCTATCAAATCCAAT
Found at i:50314212 original size:42 final size:42
Alignment explanation
Indices: 50314142--50314280 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
50314132 GCCCGAAGGC
* * *
50314142 TAAACAGAAGCAT-ATAAGTGCTAAACAGAAACTCGTAAGGGT
1 TAAACAGAAGC-TCAAAAGAGCTGAACAGAAACTCGTAAGGGT
* * ** * *
50314184 TGAACGGAAGCTCATTAGAGCTGAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTGAACAGAAACTCGTAAGGGT
* *
50314226 TAAACAGAAGCTCAAAAGAGCTGAACGGAAACTCG-AATGAGT
1 TAAACAGAAGCTCAAAAGAGCTGAACAGAAACTCGTAA-GGGT
50314268 TAAACAGAAGCTC
1 TAAACAGAAGCTC
50314281 GTGAGAGTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.04
42 77 0.96
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCAAAAGAGCTGAACAGAAACTCGTAAGGGT
Found at i:50317646 original size:725 final size:725
Alignment explanation
Indices: 50316257--50317711 Score: 2811
Period size: 725 Copynumber: 2.0 Consensus size: 725
50316247 GGATTCACTC
*
50316257 AATTCAGACCAATACAATGGCATCTTACATTTCCACCTATAAAGAGCTTCGAACGGTGCCGTTTT
1 AATTCAGACCAATACAATGGCATCTTACATTTCCACCCATAAAGAGCTTCGAACGGTGCCGTTTT
50316322 TATACTGGGTTTATAATTGTTGTTATATGAAAATTCAGCCAATGGTAAATATCTTTCCCAGCTAC
66 TATACTGGGTTTATAATTGTTGTTATATGAAAATTCAGCCAATGGTAAATATCTTTCCCAGCTAC
*
50316387 CTTCAAATTTGAGTATACAACATCTCAACATATCCTCTAGAATCTGAATCACTCATTCTGATTGT
131 CTTCAAATTTGAGTATACAACATCTCAACATATCCTATAGAATCTGAATCACTCATTCTGATTGT
50316452 CTATCGGTTTGAGGATGAAACGTTAACTTAATGCTCAAAGATTTTTGTAGTTTACTCCAAAATCT
196 CTATCGGTTTGAGGATGAAACGTTAACTTAATGCTCAAAGATTTTTGTAGTTTACTCCAAAATCT
*
50316517 TGATGTAAATCTTGGATCTCGATCTGAAATGATAGATGTTGGAACCCCATGTAACCTCACAATCT
261 CGATGTAAATCTTGGATCTCGATCTGAAATGATAGATGTTGGAACCCCATGTAACCTCACAATCT
*
50316582 CTGCTATATACAATTCTGCTAACTTCTCAAGTGAAAAGTCTGTTCTGACTGGGACAAAATGTGCT
326 CTGCTATATACAATTCTGCTAACTTCTCAAGTGAAAAGTCTGTTCTGACTGGGACAAAATGTGCC
50316647 GACTTAGTCAATCTATCAACAACCACCTAGATCGAATCTTTCTTTCTCAGAGTCACAGGTAGACC
391 GACTTAGTCAATCTATCAACAACCACCTAGATCGAATCTTTCTTTCTCAGAGTCACAGGTAGACC
50316712 GGATACAAAATCCATCGTGATATGTTCCCACTTCCATTCAGGAATCATGACTGGTTGTAATAAAC
456 GGATACAAAATCCATCGTGATATGTTCCCACTTCCATTCAGGAATCATGACTGGTTGTAATAAAC
*
50316777 CCATTGGTACCTGATGTTCTACTTTCACTTGCTGACAAATCAAACATTTAGCTATGAATTCACGA
521 CCATTGGTACCTGATGTTCTACTTTCACTTGCTGACAAATCAAACATTTAGCTATGAATTCACAA
*
50316842 ATTTCCCATTTCATACTCGGCCACCAATACATCCGTTTCAAATCACTATACATTTTTGTAGTACC
586 ATTTCCCATTTCATACTCGGCCACCAATACATCCGTTTCAAATCACTATACATTTTCGTAGTACC
*
50316907 CAGATGAATAGAGTACATACTACTATAAGCTTCAAAAAGAATATCATTTTTCAAATTCAAATTAT
651 CAGATAAATAGAGTACATACTACTATAAGCTTCAAAAAGAATATCATTTTTCAAATTCAAATTAT
50316972 TCAGAACACA
716 TCAGAACACA
*
50316982 AATTCAGACCAATACAATGGCGTCTTACATTTCCACCCATAAAGAGCTTCGAACGGTGCCGTTTT
1 AATTCAGACCAATACAATGGCATCTTACATTTCCACCCATAAAGAGCTTCGAACGGTGCCGTTTT
*
50317047 TATACTGGGTTTATAATTGTTGTTATATGAGAATTCAGCCAATGGTAAATATCTTTCCCAGCTAC
66 TATACTGGGTTTATAATTGTTGTTATATGAAAATTCAGCCAATGGTAAATATCTTTCCCAGCTAC
50317112 CTTCAAATTTGAGTATACAACATCTCAACATATCCTATAGAATCTGAATCACTCATTCTGATTGT
131 CTTCAAATTTGAGTATACAACATCTCAACATATCCTATAGAATCTGAATCACTCATTCTGATTGT
50317177 CTATCGGTTTGAGGATGAAACGTTAACTTAATGCTCAAAGATTTTTGTAGTTTACTCCAAAATCT
196 CTATCGGTTTGAGGATGAAACGTTAACTTAATGCTCAAAGATTTTTGTAGTTTACTCCAAAATCT
50317242 CGATGTAAATCTTGGATCTCGATCTGAAATGATAGATGTTGGAACCCCATGTAACCTCACAATCT
261 CGATGTAAATCTTGGATCTCGATCTGAAATGATAGATGTTGGAACCCCATGTAACCTCACAATCT
50317307 CTGCTATATACAATTCTGCTAACTTCTCAAGTGAAAAGTCTGTTCTGACTGGGACAAAATGTGCC
326 CTGCTATATACAATTCTGCTAACTTCTCAAGTGAAAAGTCTGTTCTGACTGGGACAAAATGTGCC
*
50317372 GACTTAGTCAATCTATCAACAATCACCTAGATCGAATCTTTCTTTCTCAGAGTCACAGGTAGACC
391 GACTTAGTCAATCTATCAACAACCACCTAGATCGAATCTTTCTTTCTCAGAGTCACAGGTAGACC
50317437 GGATACAAAATCCATCGTGATATGTTCCCACTTCCATTCAGGAATCATGACTGGTTGTAATAAAC
456 GGATACAAAATCCATCGTGATATGTTCCCACTTCCATTCAGGAATCATGACTGGTTGTAATAAAC
50317502 CCATTGGTACCTGATGTTCTACTTTCACTTGCTGACAAATCAAACATTTAGCTATGAATTCACAA
521 CCATTGGTACCTGATGTTCTACTTTCACTTGCTGACAAATCAAACATTTAGCTATGAATTCACAA
*
50317567 ATTTCCCATTTCATACTCGGCCACCAATACATCCGTTTCAAATCATTATACATTTTCGTAGTACC
586 ATTTCCCATTTCATACTCGGCCACCAATACATCCGTTTCAAATCACTATACATTTTCGTAGTACC
50317632 CAGATAAATAGAGTACATACTACTATAAGCTTCAAAAAGAATATCATTTTTCAAATTCAAATTAT
651 CAGATAAATAGAGTACATACTACTATAAGCTTCAAAAAGAATATCATTTTTCAAATTCAAATTAT
50317697 TCAGAACACA
716 TCAGAACACA
50317707 AATTC
1 AATTC
50317712 TATTACGATA
Statistics
Matches: 719, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
725 719 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (725 bp):
AATTCAGACCAATACAATGGCATCTTACATTTCCACCCATAAAGAGCTTCGAACGGTGCCGTTTT
TATACTGGGTTTATAATTGTTGTTATATGAAAATTCAGCCAATGGTAAATATCTTTCCCAGCTAC
CTTCAAATTTGAGTATACAACATCTCAACATATCCTATAGAATCTGAATCACTCATTCTGATTGT
CTATCGGTTTGAGGATGAAACGTTAACTTAATGCTCAAAGATTTTTGTAGTTTACTCCAAAATCT
CGATGTAAATCTTGGATCTCGATCTGAAATGATAGATGTTGGAACCCCATGTAACCTCACAATCT
CTGCTATATACAATTCTGCTAACTTCTCAAGTGAAAAGTCTGTTCTGACTGGGACAAAATGTGCC
GACTTAGTCAATCTATCAACAACCACCTAGATCGAATCTTTCTTTCTCAGAGTCACAGGTAGACC
GGATACAAAATCCATCGTGATATGTTCCCACTTCCATTCAGGAATCATGACTGGTTGTAATAAAC
CCATTGGTACCTGATGTTCTACTTTCACTTGCTGACAAATCAAACATTTAGCTATGAATTCACAA
ATTTCCCATTTCATACTCGGCCACCAATACATCCGTTTCAAATCACTATACATTTTCGTAGTACC
CAGATAAATAGAGTACATACTACTATAAGCTTCAAAAAGAATATCATTTTTCAAATTCAAATTAT
TCAGAACACA
Found at i:50319222 original size:16 final size:16
Alignment explanation
Indices: 50319197--50319242 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
50319187 TTTATAATAT
*
50319197 AAATTCAACACTTATA
1 AAATTCAACACTTAAA
* *
50319213 AAATTTAACA-ATAAA
1 AAATTCAACACTTAAA
50319228 AAATTCAACACTTAA
1 AAATTCAACACTTAA
50319243 TTTTTCAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATTCAACACTTAAA
Found at i:50319262 original size:16 final size:15
Alignment explanation
Indices: 50319231--50319264 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
50319221 CAATAAAAAA
50319231 TTCAACACTTAATTT
1 TTCAACACTTAATTT
* *
50319246 TTCAATACTTAAATT
1 TTCAACACTTAATTT
50319261 TTCA
1 TTCA
50319265 GTTTATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:50323389 original size:14 final size:14
Alignment explanation
Indices: 50323367--50323396 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50323357 GTTGCGTTCG
*
50323367 TAGTTAATTTAGAT
1 TAGTAAATTTAGAT
50323381 TAGTAAATTTAGAT
1 TAGTAAATTTAGAT
50323395 TA
1 TA
50323397 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTAAATTTAGAT
Found at i:50323832 original size:23 final size:23
Alignment explanation
Indices: 50323806--50323864 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
50323796 ATTATATATT
* *
50323806 AAATATATTTTTTATTTTTAATC
1 AAATATATATATTATTTTTAATC
50323829 AAATATATATATTATTTTTAATC
1 AAATATATATATTATTTTTAATC
50323852 AAATATATATATT
1 AAATATATATATT
50323865 TATATATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
AAATATATATATTATTTTTAATC
Found at i:50323878 original size:23 final size:24
Alignment explanation
Indices: 50323798--50323884 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 24
50323788 CGGCCCGAAT
* *
50323798 TATAT-ATTAAATATAT-TTTTTA
1 TATATAATCAAATATATATATTTA
* *
50323820 TTTTTAATCAAATATATATA-TTA
1 TATATAATCAAATATATATATTTA
* *
50323843 TTTTTAATCAAATATATATATTTA
1 TATATAATCAAATATATATATTTA
*
50323867 TATAT-ATTAAATATATAT
1 TATATAATCAAATATATAT
50323885 TTAATATGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
22 3 0.05
23 45 0.82
24 7 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATCAAATATATATATTTA
Found at i:50330563 original size:23 final size:23
Alignment explanation
Indices: 50330520--50330564 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
50330510 CTACAAAATG
50330520 GTGGCAAAAACAATCGCAAATCA
1 GTGGCAAAAACAATCGCAAATCA
*
50330543 GTGGCAAAAACAATTGCAAATC
1 GTGGCAAAAACAATCGCAAATC
50330565 GATTACAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (23 bp):
GTGGCAAAAACAATCGCAAATCA
Found at i:50333562 original size:20 final size:20
Alignment explanation
Indices: 50333501--50333563 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
50333491 TAGTAATGAG
* *
50333501 AATACCAATTTTATAGTAAT
1 AATATCAATTTTATAATAAT
* *
50333521 AATATCAACTTTATCATAAT
1 AATATCAATTTTATAATAAT
*
50333541 AATATCGATTTTATAATAAT
1 AATATCAATTTTATAATAAT
50333561 AAT
1 AAT
50333564 GGTACTAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (20 bp):
AATATCAATTTTATAATAAT
Found at i:50335664 original size:14 final size:14
Alignment explanation
Indices: 50335645--50335675 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
50335635 AATTATCCAA
50335645 ATTGAGAAATGACC
1 ATTGAGAAATGACC
*
50335659 ATTGAGAAATGTCC
1 ATTGAGAAATGACC
50335673 ATT
1 ATT
50335676 TTTATTATTA
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:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (14 bp):
ATTGAGAAATGACC
Found at i:50344069 original size:29 final size:31
Alignment explanation
Indices: 50344019--50344076 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
50344009 TCTCGACTCT
* *
50344019 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTACAAAATTATCATTTTTGCCCCTA
*
50344049 AACTTTTACATAATTA-CATTTTTGCCCC
1 AACTTTTACAAAATTATCATTTTTGCCCC
50344077 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (31 bp):
AACTTTTACAAAATTATCATTTTTGCCCCTA
Found at i:50349224 original size:35 final size:35
Alignment explanation
Indices: 50349185--50349255 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50349175 AGCACGAAGC
50349185 ATTACTTAACTTATCTTACTAATTCGGAGCATAAA
1 ATTACTTAACTTATCTTACTAATTCGGAGCATAAA
50349220 ATTACTTAACTTATCTTACTAATTCGGAGCATAAA
1 ATTACTTAACTTATCTTACTAATTCGGAGCATAAA
50349255 A
1 A
50349256 ATTTACTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (35 bp):
ATTACTTAACTTATCTTACTAATTCGGAGCATAAA
Found at i:50352182 original size:24 final size:24
Alignment explanation
Indices: 50352150--50352200 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
50352140 GTGAGTTTTA
50352150 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
50352174 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
50352198 AAT
1 AAT
50352201 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:50361724 original size:24 final size:25
Alignment explanation
Indices: 50361689--50361736 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
50361679 TTATGAAATT
50361689 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
50361713 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
50361737 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:50361795 original size:28 final size:27
Alignment explanation
Indices: 50361764--50361839 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
50361754 ATTTATTAGT
50361764 TATAATTATTTTAAATTTTATTAAATCA
1 TATAATTATTTTAAATTTTATTAAAT-A
* * *
50361792 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATTAAATA
*
50361819 T-TAATTATTTCAAATTTTATT
1 TATAATTATTTTAAATTTTATT
50361840 TTATAGTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
26 12 0.32
27 8 0.21
28 18 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATTAAATA
Found at i:50361920 original size:120 final size:120
Alignment explanation
Indices: 50361777--50362069 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 120
50361767 AATTATTTTA
* * *
50361777 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
* *
50361840 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATAATTAAG
64 TTACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATAATTAAG
50361897 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
50361962 ACAGTATCATATATAATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATAATTAAG
50362017 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
50362070 TAAATATGAT
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 5 0.03
120 157 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATAATTAAG
Found at i:50361937 original size:15 final size:15
Alignment explanation
Indices: 50361902--50361953 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50361892 TTAAGAATTT
*
50361902 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50361916 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50361930 TATTTAATAATAAT-
1 TATTTAATTATAATA
50361944 TATGTTAATT
1 TAT-TTAATT
50361954 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50362022 original size:61 final size:59
Alignment explanation
Indices: 50361837--50362023 Score: 143
Period size: 61 Copynumber: 3.1 Consensus size: 59
50361827 TTCAAATTTT
* *
50361837 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATAATTAAGA
1 ATTTTA-AGTATCATATATAATG-TTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
* * * * * * * * *
50361898 ATTTT-ATTA-AAT-TATATAT-TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-T
1 ATTTTAAGTATCATATATA-ATGTTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
50361957 ATTTTACAGTATCATATATAATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 ATTTTA-AGTATCATATATAAT-GTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
50362018 ATTTTA
1 ATTTTA
50362024 TTAAATTATA
Statistics
Matches: 92, Mismatches: 20, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
56 6 0.07
57 14 0.15
58 9 0.10
59 9 0.10
60 8 0.09
61 16 0.17
62 9 0.10
63 15 0.16
64 6 0.07
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (59 bp):
ATTTTAAGTATCATATATAATGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
Found at i:50362052 original size:16 final size:16
Alignment explanation
Indices: 50362031--50362072 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50362021 TTATTAAATT
*
50362031 ATATATTTTAATTATA
1 ATATATTTTAATAATA
50362047 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
50362062 AT-TATGTTTAA
1 ATATAT-TTTAA
50362073 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:50362057 original size:15 final size:15
Alignment explanation
Indices: 50362022--50362063 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50362012 TTAAGAATTT
*
50362022 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50362036 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50362050 TATTTAATAATAAT
1 TATTTAATTATAAT
50362064 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50362169 original size:147 final size:147
Alignment explanation
Indices: 50362006--50362278 Score: 512
Period size: 147 Copynumber: 1.9 Consensus size: 147
50361996 ATAAGAATAT
* *
50362006 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
50362071 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAA-AATAATTT
66 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAA-AACAATAATTT
50362135 ACCAAAACAAATTTCTGC
130 ACCAAAACAAATTTCTGC
50362153 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
50362218 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAAAACAATAA
66 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAAAACAATAA
50362279 CAATAATCAT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
146 2 0.02
147 121 0.98
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAAAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:50362193 original size:18 final size:17
Alignment explanation
Indices: 50362165--50362199 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50362155 ATTATTAAGA
*
50362165 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50362182 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50362200 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50362446 original size:45 final size:44
Alignment explanation
Indices: 50362359--50362453 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
50362349 TTACACCTCT
*
50362359 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
* *** *
50362403 ATTACATTCAACCAAATAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
50362448 ATTACA
1 ATTACA
50362454 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.43
45 25 0.57
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:50362453 original size:16 final size:16
Alignment explanation
Indices: 50362432--50362469 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
50362422 TTGATTTGCT
*
50362432 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
50362448 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
50362464 AATACA
1 ATTACA
50362470 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:50368567 original size:52 final size:48
Alignment explanation
Indices: 50368505--50368697 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
50368495 GAAATGTGAT
* * *
50368505 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
50368557 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
50368604 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
50368650 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
50368698 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:50371933 original size:15 final size:15
Alignment explanation
Indices: 50371913--50371981 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
50371903 GTATCTTGGG
50371913 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
50371928 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
50371943 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
50371958 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
50371973 TTTCTTTAT
1 TTTCTTTAT
50371982 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:50371982 original size:30 final size:30
Alignment explanation
Indices: 50371904--50371991 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
50371894 CATAGTATCG
* * * *
50371904 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
50371934 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
50371964 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
50371992 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:50374434 original size:46 final size:46
Alignment explanation
Indices: 50374384--50374559 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
50374374 TGTTTGGGCA
50374384 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*** * * * * *
50374430 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
*
50374477 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
50374523 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50374560 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 73 0.67
47 36 0.33
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50374539 original size:93 final size:93
Alignment explanation
Indices: 50374380--50374551 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50374370 AGGATGTTTG
*
50374380 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50374445 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
50374473 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50374538 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50374552 ACTTATGGGC
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:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:50381048 original size:12 final size:12
Alignment explanation
Indices: 50381031--50381056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50381021 GATCAACTAC
50381031 AAAAACACAAAA
1 AAAAACACAAAA
50381043 AAAAACACAAAA
1 AAAAACACAAAA
50381055 AA
1 AA
50381057 TGGGTTCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACACAAAA
Found at i:50382525 original size:8 final size:8
Alignment explanation
Indices: 50382512--50382540 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
50382502 TTTTAAATGA
50382512 TATTTTAT
1 TATTTTAT
50382520 TATTTTAT
1 TATTTTAT
50382528 TATTTTAT
1 TATTTTAT
50382536 TATTT
1 TATTT
50382541 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:50384365 original size:428 final size:428
Alignment explanation
Indices: 50383568--50384684 Score: 2164
Period size: 428 Copynumber: 2.6 Consensus size: 428
50383558 GACTATTGTC
* * * *
50383568 GAAACCA-TCTTTTGAAAAACAAAAATATTTTAGGTTGTCGACCTTTTAAAAAATTAAAATTGGG
1 GAAACCATTTTTTTGAAAAATAAAAGT-TTTAAGGTTGTCGACCTTTTAAAAAATTAAAATTGGG
*
50383632 AGTCGCCACCAATCTTTATTAGGATGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGT
65 AGTCGCCACCAATCTTTATTAGGGTGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGT
*
50383697 TTTAAAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGG
130 TTTAGAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGG
50383762 TGAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGA
195 TGAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGA
50383827 AATGTATAATGCAAACAATATTTAAGTAATAAGATAATGAATGCGAAAGGATGTCATGAATTTTT
260 AATGTATAATGCAAACAATATTTAAGTAATAAGATAATGAATGCGAAAGGATGTCATGAATTTTT
50383892 TAAAAAAATATATTTTTCTCGACTGTAAGACAAAAATTAATCAACTTTGCGGCTCGACTCTCTTT
325 TAAAAAAATATATTTTTCTCGACTGTAAGACAAAAATTAATCAACTTTGCGGCTCGACTCTCTTT
50383957 TTTTAAAAAAAATGTCCCTAGTGGAGTCGTCAAGCTGTT
390 TTTTAAAAAAAATGTCCCTAGTGGAGTCGTCAAGCTGTT
50383996 GAAACCATTTTTTTGAAAAATAAAAGTTTTAAGGTTGTCGACCTTTTAAAAAATTAAAATTGGGA
1 GAAACCATTTTTTTGAAAAATAAAAGTTTTAAGGTTGTCGACCTTTTAAAAAATTAAAATTGGGA
50384061 GTCGCCACCAATCTTTATTAGGGTGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGTT
66 GTCGCCACCAATCTTTATTAGGGTGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGTT
50384126 TTAGAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGGT
131 TTAGAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGGT
50384191 GAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGAA
196 GAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGAA
50384256 ATGTATAATGCAAACAATATTTAAGTAATAAGATAATGAATGCGAAAGGATGTCATGAATTTTTT
261 ATGTATAATGCAAACAATATTTAAGTAATAAGATAATGAATGCGAAAGGATGTCATGAATTTTTT
50384321 AAAAAAATATATTTTTCTCGACTGTAAGACAAAAATTAATCAACTTTGCGGCTCGACTCTCTTTT
326 AAAAAAATATATTTTTCTCGACTGTAAGACAAAAATTAATCAACTTTGCGGCTCGACTCTCTTTT
50384386 TTTAAAAAAAATGTCCCTAGTGGAGTCGTCAAGCTGTT
391 TTTAAAAAAAATGTCCCTAGTGGAGTCGTCAAGCTGTT
50384424 GAAACCATTTTTTTGAAAAATAAAAGTTTTAAGGTTGTCGACCTTTTAAAAAATTAAAATTGGGA
1 GAAACCATTTTTTTGAAAAATAAAAGTTTTAAGGTTGTCGACCTTTTAAAAAATTAAAATTGGGA
50384489 GTCGCCACCAATCTTTATTAGGGTGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGTT
66 GTCGCCACCAATCTTTATTAGGGTGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGTT
50384554 TTAGAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGGT
131 TTAGAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGGT
50384619 GAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGAA
196 GAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGAA
50384684 A
261 A
50384685 CGACATGCAA
Statistics
Matches: 682, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
428 666 0.98
429 16 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (428 bp):
GAAACCATTTTTTTGAAAAATAAAAGTTTTAAGGTTGTCGACCTTTTAAAAAATTAAAATTGGGA
GTCGCCACCAATCTTTATTAGGGTGTGATTGGATCACCTAAAAAAACGGCTTTGGTCTACGAGTT
TTAGAAAAAACGAAGACATAGGTACGGATGTATCCCGAAAGCAATCCACTACTCTACACGGAGGT
GAAAACCTCACGAAGGCATAGCTTCTTACTCTCACTTAAAAGGGTAAAATTGTTCAACTCATGAA
ATGTATAATGCAAACAATATTTAAGTAATAAGATAATGAATGCGAAAGGATGTCATGAATTTTTT
AAAAAAATATATTTTTCTCGACTGTAAGACAAAAATTAATCAACTTTGCGGCTCGACTCTCTTTT
TTTAAAAAAAATGTCCCTAGTGGAGTCGTCAAGCTGTT
Found at i:50385661 original size:23 final size:22
Alignment explanation
Indices: 50385618--50385675 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
50385608 AAAAGGTATC
* *
50385618 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50385639 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
50385662 TACATATCATATCT
1 TACAAATCATATCT
50385676 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50385678 original size:19 final size:19
Alignment explanation
Indices: 50385631--50385747 Score: 126
Period size: 19 Copynumber: 5.8 Consensus size: 19
50385621 AAATTAAATC
*
50385631 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
50385651 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
50385673 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
50385694 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
50385713 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
50385732 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
50385748 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 50 0.58
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:50385691 original size:21 final size:19
Alignment explanation
Indices: 50385654--50385747 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
50385644 AATCATATCT
*
50385654 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
50385673 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
50385694 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50385713 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50385732 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
50385748 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50386121 original size:44 final size:44
Alignment explanation
Indices: 50386066--50386149 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
50386056 GTAACCACAG
* ** *
50386066 GGAGGTAAAATCCGCCATCTTCGATCTACTCCACTATTGCTTAA
1 GGAGATAAAATCCGAAATCTTCAATCTACTCCACTATTGCTTAA
* * *
50386110 GGAGATAAAATCTGAAATCTTCAATCTATTCCACTGTTGC
1 GGAGATAAAATCCGAAATCTTCAATCTACTCCACTATTGC
50386150 CCAGGGAAGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
GGAGATAAAATCCGAAATCTTCAATCTACTCCACTATTGCTTAA
Found at i:50386227 original size:28 final size:28
Alignment explanation
Indices: 50386187--50386243 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
50386177 TGTACTCCAC
50386187 TATAACCATAGGGAGGTAAAATCCGCCA
1 TATAACCATAGGGAGGTAAAATCCGCCA
*
50386215 TATAACCATAGGGAGGTAAAATCTGCCA
1 TATAACCATAGGGAGGTAAAATCCGCCA
50386243 T
1 T
50386244 CTTCGATCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (28 bp):
TATAACCATAGGGAGGTAAAATCCGCCA
Found at i:50386332 original size:160 final size:160
Alignment explanation
Indices: 50386057--50386375 Score: 548
Period size: 160 Copynumber: 2.0 Consensus size: 160
50386047 TACCCCACTG
*
50386057 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTATTGCTTAAGGAGATAAAATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAAGGAGATAAAATC
* *
50386122 TGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
66 TAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATAACTGGCTTCAATGTACTCCAC
*
50386187 TATAACCATAGGGAGGTAAAATCCGCCATA
131 TATAACCACAGGGAGGTAAAATCCGCCATA
* * * * *
50386217 TAACCATAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAAGGAGATAAAATC
50386282 TAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATAACTGGCTTCAATGTACTCCAC
66 TAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATAACTGGCTTCAATGTACTCCAC
*
50386347 TATAACCACAGGGAGGTAAAATCTGCCAT
131 TATAACCACAGGGAGGTAAAATCCGCCAT
50386376 CTTCGATCTG
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
160 149 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (160 bp):
TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAAGGAGATAAAATC
TAAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATAACTGGCTTCAATGTACTCCAC
TATAACCACAGGGAGGTAAAATCCGCCATA
Found at i:50391873 original size:98 final size:98
Alignment explanation
Indices: 50391704--50391898 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 98
50391694 ACAATAAAAT
*
50391704 TTTAAAAGAACATTCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTAAAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTAAAATTCC
50391769 TTTAAAATCCCAAATTCGGAATATTTCATTTAC
66 TTTAAAATCCCAAATTCGGAATATTTCATTTAC
50391802 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTAAAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTAAAATTCC
50391867 TTTAAAATCCCAAATTCGGAATATTTCATTTA
66 TTTAAAATCCCAAATTCGGAATATTTCATTTA
50391899 TTATTTTTAA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTAAAATTCC
TTTAAAATCCCAAATTCGGAATATTTCATTTAC
Found at i:50393222 original size:23 final size:22
Alignment explanation
Indices: 50393194--50393239 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
50393184 CAAATTAAAT
50393194 TTCTAAGATTACAAAATCATATC
1 TTCTAAGATTAC-AAATCATATC
*
50393217 TTCTAAGATTACATATCATATC
1 TTCTAAGATTACAAATCATATC
50393239 T
1 T
50393240 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (22 bp):
TTCTAAGATTACAAATCATATC
Found at i:50393242 original size:19 final size:19
Alignment explanation
Indices: 50393195--50393311 Score: 126
Period size: 19 Copynumber: 5.8 Consensus size: 19
50393185 AAATTAAATT
*
50393195 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
50393215 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
50393237 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
50393258 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
50393277 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
50393296 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
50393312 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 50 0.58
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:50393255 original size:21 final size:19
Alignment explanation
Indices: 50393218--50393311 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
50393208 AATCATATCT
*
50393218 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
50393237 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
50393258 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50393277 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50393296 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
50393312 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50398653 original size:11 final size:11
Alignment explanation
Indices: 50398639--50398678 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
50398629 GAAATGACAG
* *
50398639 CAAAACAGTAG
1 CAAAACAGCAC
50398650 CAAAACAGCAC
1 CAAAACAGCAC
50398661 CAAAACAGCAC
1 CAAAACAGCAC
50398672 CAAAACA
1 CAAAACA
50398679 ATGGAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.57, C:0.30, G:0.10, T:0.03
Consensus pattern (11 bp):
CAAAACAGCAC
Found at i:50407627 original size:21 final size:21
Alignment explanation
Indices: 50407587--50407627 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50407577 AAATGAGAAA
* **
50407587 TTACGTATGTTATGGTTAAAC
1 TTACCTATGTTATGAATAAAC
50407608 TTACCTATGTTATGAATAAA
1 TTACCTATGTTATGAATAAA
50407628 TACATTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (21 bp):
TTACCTATGTTATGAATAAAC
Found at i:50408144 original size:96 final size:96
Alignment explanation
Indices: 50407980--50408157 Score: 322
Period size: 96 Copynumber: 1.9 Consensus size: 96
50407970 TCAGAAGTAG
*
50407980 CTCTGATACCAACAAATGTAATACCTCCTACCCGTATTCGTCGCTGAAATATAGTATGAGGCGTT
1 CTCTGATACCAACAAATGTAATACCTCCTACCCGTATTCGTCGCTGAAATATAGTATGAGGCATT
50408045 ACCAAATTTTACCGAATCGGCTAAACCGTAA
66 ACCAAATTTTACCGAATCGGCTAAACCGTAA
50408076 CTCTGATACCAACAAATGTAATACC-CCATACCCGTATTCGTCGCTGAAATATAGTATGAGGCAT
1 CTCTGATACCAACAAATGTAATACCTCC-TACCCGTATTCGTCGCTGAAATATAGTATGAGGCAT
*
50408140 TACCAGATTTTACCGAAT
65 TACCAAATTTTACCGAAT
50408158 TTTTTTTTCA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
95 2 0.03
96 77 0.97
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (96 bp):
CTCTGATACCAACAAATGTAATACCTCCTACCCGTATTCGTCGCTGAAATATAGTATGAGGCATT
ACCAAATTTTACCGAATCGGCTAAACCGTAA
Found at i:50418183 original size:15 final size:15
Alignment explanation
Indices: 50418163--50418216 Score: 108
Period size: 15 Copynumber: 3.6 Consensus size: 15
50418153 TATATATATA
50418163 AGTTGGTAACAAATC
1 AGTTGGTAACAAATC
50418178 AGTTGGTAACAAATC
1 AGTTGGTAACAAATC
50418193 AGTTGGTAACAAATC
1 AGTTGGTAACAAATC
50418208 AGTTGGTAA
1 AGTTGGTAA
50418217 ATGGTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (15 bp):
AGTTGGTAACAAATC
Found at i:50418319 original size:172 final size:172
Alignment explanation
Indices: 50418028--50418338 Score: 586
Period size: 172 Copynumber: 1.8 Consensus size: 172
50418018 TTGGTATGGA
* *
50418028 AACAAATCAGTTGGTAAATGGTATAAATGTGGTTAAATGTGCTGAGATTATTTTTTATATAGCAT
1 AACAAATCAGTTGGTAAATGGTATAAATGTGGTCAAATGTGCTGAGATTATTTTTGATATAGCAT
50418093 GGAAATAGTATTGAGATTAATTAGGTATGTATGGTTAAGGTTTGAACAAATATGCTCATGTATAT
66 GGAAATAGTATTGAGATTAATTAGGTATGTATGGTTAAGGTTTGAACAAATATGCTCATGTATAT
50418158 ATATAAGTTGGTAACAAATCAGTTGGTAACAAATCAGTTGGT
131 ATATAAGTTGGTAACAAATCAGTTGGTAACAAATCAGTTGGT
*
50418200 AACAAATCAGTTGGTAAATGGTATAAATGTGGTCAAATGTGGTGAGATTATTTTTGATATAGCAT
1 AACAAATCAGTTGGTAAATGGTATAAATGTGGTCAAATGTGCTGAGATTATTTTTGATATAGCAT
*
50418265 GGAAATAGTATTGAGATTAATTAGGTATGTATGGTTAAGGTTTGAACTAATATGCTCATGTATAT
66 GGAAATAGTATTGAGATTAATTAGGTATGTATGGTTAAGGTTTGAACAAATATGCTCATGTATAT
50418330 ATATAAGTT
131 ATATAAGTT
50418339 TGATGCTTGA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 135 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.37
Consensus pattern (172 bp):
AACAAATCAGTTGGTAAATGGTATAAATGTGGTCAAATGTGCTGAGATTATTTTTGATATAGCAT
GGAAATAGTATTGAGATTAATTAGGTATGTATGGTTAAGGTTTGAACAAATATGCTCATGTATAT
ATATAAGTTGGTAACAAATCAGTTGGTAACAAATCAGTTGGT
Found at i:50425321 original size:27 final size:27
Alignment explanation
Indices: 50425291--50425356 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
50425281 GCCTATTTGA
50425291 GAGGCGCCAATGGTGGTACCTATCTAG
1 GAGGCGCCAATGGTGGTACCTATCTAG
* *
50425318 GAGGCGCCAATGGTGGTGCCTATCTGG
1 GAGGCGCCAATGGTGGTACCTATCTAG
50425345 GAGGCGCCAATG
1 GAGGCGCCAATG
50425357 CTCTGATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.20
Consensus pattern (27 bp):
GAGGCGCCAATGGTGGTACCTATCTAG
Found at i:50425397 original size:19 final size:19
Alignment explanation
Indices: 50425373--50425413 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
50425363 TTTTTTCGAG
*
50425373 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
50425392 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
50425411 TTT
1 TTT
50425414 TTGTGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:50425603 original size:19 final size:20
Alignment explanation
Indices: 50425557--50425611 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
50425547 CAAAAAATTA
50425557 CAATATTACAATA-T-ATCC
1 CAATATTACAATATTCATCC
* *
50425575 CGACATTACAATATTCAT-C
1 CAATATTACAATATTCATCC
50425594 CAATATTACAATATTCAT
1 CAATATTACAATATTCAT
50425612 ACAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 11 0.35
19 18 0.58
20 2 0.06
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.35
Consensus pattern (20 bp):
CAATATTACAATATTCATCC
Found at i:50425648 original size:19 final size:19
Alignment explanation
Indices: 50425616--50425667 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
50425606 ATTCATACAA
50425616 ATTAT-TTA-AAATTTAGG
1 ATTATGTTATAAATTTAGG
50425633 ATTATGTTATAAATTTAGG
1 ATTATGTTATAAATTTAGG
50425652 ATTATGTTATAAATTT
1 ATTATGTTATAAATTT
50425668 TTGTGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
ATTATGTTATAAATTTAGG
Found at i:50425828 original size:252 final size:254
Alignment explanation
Indices: 50425373--50425860 Score: 901
Period size: 252 Copynumber: 1.9 Consensus size: 254
50425363 TTTTTTCGAG
*
50425373 TTTAGGGTTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
1 TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
50425438 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCC
66 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCC
*
50425503 TAATTTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAA
131 TAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAA
*
50425568 TATATCCCGACATTACAATATTCATC-CAATATTACAATATTCATACAAATTATTTAAAA
196 TATATCCCGACATTACAATATTCA-CACAAAATTACAATATTCATACAAATTATTTAAAA
*
50425627 TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAACATT
1 TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
50425692 TAATTTATTAGTAATAAATTACAAAATTACTAATAAG-T-TACTAATAAATTTATAACATAATCC
66 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCC
*
50425755 TAAATTACTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAA
131 TAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAA
50425820 TATATCCCGACATTACAATATTCACACAAAATTACAATATT
196 TATATCCCGACATTACAATATTCACACAAAATTACAATATT
50425861 ACAATATTCA
Statistics
Matches: 228, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
251 1 0.00
252 126 0.55
253 1 0.00
254 100 0.44
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (254 bp):
TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCC
TAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAA
TATATCCCGACATTACAATATTCACACAAAATTACAATATTCATACAAATTATTTAAAA
Found at i:50425867 original size:27 final size:27
Alignment explanation
Indices: 50425831--50425887 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
50425821 ATATCCCGAC
50425831 ATTACAATATTCACACAAAATTACAAT
1 ATTACAATATTCACACAAAATTACAAT
* * *
50425858 ATTACAATATTCATATAAAATTGCAAT
1 ATTACAATATTCACACAAAATTACAAT
50425885 ATT
1 ATT
50425888 TTTTTGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCACACAAAATTACAAT
Found at i:50425953 original size:22 final size:24
Alignment explanation
Indices: 50425920--50426042 Score: 100
Period size: 27 Copynumber: 5.1 Consensus size: 24
50425910 ATAGATTATC
*
50425920 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
50425944 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
50425968 TATAATTTTGTATGAATATTGTAAT
1 TAT-ATTTTGTATGAATATTGTAAT
*
50425993 GTCGGGATATATTG--T-AATATTGTAA-
1 -T----ATATTTTGTATGAATATTGTAAT
50426018 T-T-TTTTGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
50426040 TAT
1 TAT
50426043 TTTATAATTA
Statistics
Matches: 81, Mismatches: 3, Indels: 31
0.70 0.03 0.27
Matches are distributed among these distances:
18 4 0.05
19 1 0.01
20 1 0.01
21 10 0.12
22 17 0.21
23 3 0.04
24 5 0.06
25 3 0.04
26 12 0.15
27 18 0.22
29 5 0.06
30 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:50426250 original size:27 final size:27
Alignment explanation
Indices: 50426173--50426239 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
50426163 TAACATAAAT
50426173 TTCATTGGCGCCTCTCTATAAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
*
50426200 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
50426227 TTCATTGGCGCCT
1 TTCATTGGCGCCT
50426240 ACCTGATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATAAGGCACC
Found at i:50429677 original size:29 final size:28
Alignment explanation
Indices: 50429610--50429691 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 28
50429600 AATTTGTGAG
* **
50429610 AATTAAACAAAATCAAAATTTCATGTATAA
1 AATTACACAAAATC-AAATTT-ATACATAA
**
50429640 TTTTACACAAAATCAAAGTTTATACATAA
1 AATTACACAAAATCAAA-TTTATACATAA
50429669 AATTACACACTAAATCAAATTTA
1 AATTACACA--AAATCAAATTTA
50429692 ATGTATAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 16 0.38
30 18 0.43
31 8 0.19
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.32
Consensus pattern (28 bp):
AATTACACAAAATCAAATTTATACATAA
Found at i:50440296 original size:30 final size:30
Alignment explanation
Indices: 50440255--50440313 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
50440245 GATTTCAGGG
*
50440255 GCCACACGGGCTAGACACACGGCCGTGTGA
1 GCCACACGGGCTAGACACACGGCCATGTGA
* * *
50440285 GCCACATGGGCTGGACACATGGCCATGTG
1 GCCACACGGGCTAGACACACGGCCATGTG
50440314 CCAGACCGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.31, G:0.34, T:0.14
Consensus pattern (30 bp):
GCCACACGGGCTAGACACACGGCCATGTGA
Found at i:50442040 original size:29 final size:29
Alignment explanation
Indices: 50442007--50442064 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
50441997 AAGAGTTGTT
50442007 TAAGCTCATCCAACCAAATACACCACATA
1 TAAGCTCATCCAACCAAATACACCACATA
50442036 TAAGCTCATCCAACCAAATACACCACATA
1 TAAGCTCATCCAACCAAATACACCACATA
50442065 GGACCTCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.17
Consensus pattern (29 bp):
TAAGCTCATCCAACCAAATACACCACATA
Found at i:50448786 original size:19 final size:21
Alignment explanation
Indices: 50448749--50448802 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
50448739 CTCTTTCAAC
*
50448749 AAAAAAATCAAAATAATTT-T
1 AAAAAATTCAAAATAATTTAT
*
50448769 CAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTTAT
*
50448789 AAAAAATTTAAAAT
1 AAAAAATTCAAAAT
50448803 TATCATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTAT
Found at i:50449886 original size:22 final size:22
Alignment explanation
Indices: 50449858--50449900 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
50449848 TTTTGTATGT
50449858 ATAGTGTGTTGATTATTCTTGC
1 ATAGTGTGTTGATTATTCTTGC
50449880 ATAGTGTGTTGATTATTCTTG
1 ATAGTGTGTTGATTATTCTTG
50449901 GTTTTTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.07, G:0.23, T:0.51
Consensus pattern (22 bp):
ATAGTGTGTTGATTATTCTTGC
Found at i:50451661 original size:35 final size:35
Alignment explanation
Indices: 50451600--50451685 Score: 131
Period size: 35 Copynumber: 2.5 Consensus size: 35
50451590 ATACATGACT
*
50451600 CAAGCTAACAAACT--TAGCTTCTTACTCTTACTAA
1 CAAGCTAAC-AACTCCTAGCTTCCTACTCTTACTAA
50451634 CAAGCTAACAACTCCTAGCTTCCTACTCTTACTAA
1 CAAGCTAACAACTCCTAGCTTCCTACTCTTACTAA
*
50451669 CAAACTAACAACTCCTA
1 CAAGCTAACAACTCCTA
50451686 CTAACAAGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
33 4 0.08
34 9 0.19
35 35 0.73
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.28
Consensus pattern (35 bp):
CAAGCTAACAACTCCTAGCTTCCTACTCTTACTAA
Done.