Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 280 of 410
Found at i:86575020 original size:80 final size:79
Alignment explanation
Indices: 86574870--86575036 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
86574860 CGGAATATAA
* *
86574870 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
86574935 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
86574950 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
86575012 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
86575029 CCGGATAT
1 CCGGATAT
86575037 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:86575885 original size:17 final size:19
Alignment explanation
Indices: 86575862--86575907 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
86575852 AAGAAGCATG
86575862 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
86575880 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
86575898 AATCATGCTC
1 AATCATGCTC
86575908 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:86578965 original size:46 final size:45
Alignment explanation
Indices: 86578856--86578966 Score: 107
Period size: 46 Copynumber: 2.4 Consensus size: 45
86578846 CAAATCAATT
*
86578856 GATAGAAGAAGACACAAATCCTATACCCTTAAGCTGCAGTGGGATA
1 GATAGAAGAA-ACACAAATCCTATACCCCTAAGCTGCAGTGGGATA
*** * * * *
86578902 GATCA-AAGATGGTACAAATCCTATACCCCTGAGTTGTAGTGGGATG
1 GAT-AGAAGA-AACACAAATCCTATACCCCTAAGCTGCAGTGGGATA
86578948 GATAGAAGAAACCACAAAT
1 GATAGAAGAAA-CACAAAT
86578967 TTTATCTCCT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
45 1 0.02
46 48 0.96
47 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (45 bp):
GATAGAAGAAACACAAATCCTATACCCCTAAGCTGCAGTGGGATA
Found at i:86579179 original size:88 final size:89
Alignment explanation
Indices: 86579056--86579349 Score: 216
Period size: 88 Copynumber: 3.3 Consensus size: 89
86579046 GATTGTAGAT
* * * *
86579056 CTTATCTCCCTGAGATAGT-AGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCAAGGTAGCA
1 CTTATCTCCCTGAGATAGTAAGTGGAGCAGACCGAAGACGGCAAATCTTATCTTCCGAGGTAGCA
86579120 GGGGAACAGATTTTAGCCACCAGC
66 GGGGAACAGATTTTAGCCACCAGC
* * ** * *
86579144 CTTATCTCCCTGAGGTAGTAAG-GGAGCAGGCCGAAGATTG-TAGTCTTATCTTCCTGAGGTAGC
1 CTTATCTCCCTGAGATAGTAAGTGGAGCAGACCGAAGACGGCAAATCTTATCTTCC-GAGGTAGC
** *
86579207 AACGAAGCAAACTGAAGATTTTAG-----A-T
65 -A-G--GGGAAC---AGATTTTAGCCACCAGC
* * * * *
86579233 CTTATCTCCTTGAGATAG-CAGTGGAGCAGATCGAAGACGGCAAATCATAGCTTCTCGAGGTAGC
1 CTTATCTCCCTGAGATAGTAAGTGGAGCAGACCGAAGACGGCAAATCTTATCTTC-CGAGGTAGC
* *
86579297 A-GGGAGCAGATTTTAGCCACCTGC
65 AGGGGAACAGATTTTAGCCACCAGC
* * *
86579321 CTTATTTCCCTGAGGTAGCAAG-GGAGCAG
1 CTTATCTCCCTGAGATAGTAAGTGGAGCAG
86579350 GCTAAAGATT
Statistics
Matches: 155, Mismatches: 32, Indels: 38
0.69 0.14 0.17
Matches are distributed among these distances:
82 9 0.06
85 3 0.02
87 12 0.08
88 62 0.40
89 36 0.23
90 19 0.12
91 1 0.01
92 4 0.03
95 9 0.06
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (89 bp):
CTTATCTCCCTGAGATAGTAAGTGGAGCAGACCGAAGACGGCAAATCTTATCTTCCGAGGTAGCA
GGGGAACAGATTTTAGCCACCAGC
Found at i:86579192 original size:44 final size:45
Alignment explanation
Indices: 86579144--86579252 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
86579134 AGCCACCAGC
* * * **
86579144 CTTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAG-T
1 CTTATCTCCCTGAGGTAGCAACGAAGCAAACCGAAGATTGTAGAT
* * *
86579188 CTTATCTTCCTGAGGTAGCAACGAAGCAAACTGAAGATTTTAGAT
1 CTTATCTCCCTGAGGTAGCAACGAAGCAAACCGAAGATTGTAGAT
* *
86579233 CTTATCTCCTTGAGATAGCA
1 CTTATCTCCCTGAGGTAGCA
86579253 GTGGAGCAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 35 0.66
45 18 0.34
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAGGTAGCAACGAAGCAAACCGAAGATTGTAGAT
Found at i:86579266 original size:177 final size:177
Alignment explanation
Indices: 86578968--86579371 Score: 605
Period size: 177 Copynumber: 2.3 Consensus size: 177
86578958 ACCACAAATT
* *
86578968 TTATCTCCTTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTACGGTAGCAAG
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTACGGTAGCAAC
* * * *
86579033 GAAACAGACTAAAGATTGTAGATCTTATCTCCCTGAGATAGTAGTGGAGTAGATCGAAGACGGCG
66 GAAACAAACTAAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCA
* *
86579098 AATCTTATCTTC-CAAGGTAGCAGGGGAACAGATTTTAGCCACCAGCC
131 AATCATAGCTTCTCAAGGTAGCA-GGGAACAGATTTTAGCCACCAGCC
*
86579145 TTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGA-GGTAGCAA
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCT-ACGGTAGCAA
* * * *
86579209 CGAAGCAAACTGAAGATTTTAGATCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGACGGC
65 CGAAACAAACTAAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGC
* * *
86579274 AAATCATAGCTTCTCGAGGTAGCAGGGAGCAGATTTTAGCCACCTGCC
130 AAATCATAGCTTCTCAAGGTAGCAGGGAACAGATTTTAGCCACCAGCC
* **
86579322 TTATTTCCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCT
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCT
86579372 CCTTGAAGTT
Statistics
Matches: 205, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
177 195 0.95
178 10 0.05
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (177 bp):
TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTACGGTAGCAAC
GAAACAAACTAAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCA
AATCATAGCTTCTCAAGGTAGCAGGGAACAGATTTTAGCCACCAGCC
Found at i:86579402 original size:177 final size:176
Alignment explanation
Indices: 86578968--86579422 Score: 601
Period size: 177 Copynumber: 2.6 Consensus size: 176
86578958 ACCACAAATT
*
86578968 TTATCTCCTTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCT-ACGGTAGCAA
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGA-GGTAGC-A
* * * *
86579032 GGAAACAGACTAAAGATTGTAGATCTTATCTCCCTGAGATAGTAGTGGAGTAGATCGAAGACGGC
64 GGAAGCAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGC
* * *
86579097 GAATCTTATCTTCCAAGGTAGCAGGGGAACAGATTTTAGCCACCAGCC
129 AAATCATAGCTTCCAAGGTAGCAGGGGAACAGATTTTAGCCACCAGCC
* *
86579145 TTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGC-AG
* * *
86579210 GAAGCAAACTGAAGATTTTAGATCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCA
65 GAAGCAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCA
* * *
86579275 AATCATAGCTTCTCGAGGTAGCA-GGGAGCAGATTTTAGCCACCTGCC
130 AATCATAGCTTC-CAAGGTAGCAGGGGAACAGATTTTAGCCACCAGCC
* ** * *
86579322 TTATTTCCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATC-TCCTTGAAGTTGCAG
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCC-TGAGGTAGCAG
* * * * *
86579386 TGGAGTAGATTGAAGATAGCAGATCTTATCTCCCTGA
65 -GAAGCAGACTGAAGATTGTAGATCTTATCTCCCTGA
86579423 AGCTACAGCA
Statistics
Matches: 243, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
176 4 0.02
177 229 0.94
178 10 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (176 bp):
TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAGG
AAGCAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCAA
ATCATAGCTTCCAAGGTAGCAGGGGAACAGATTTTAGCCACCAGCC
Found at i:86579417 original size:45 final size:44
Alignment explanation
Indices: 86579364--86579784 Score: 273
Period size: 45 Copynumber: 9.4 Consensus size: 44
86579354 AAGATTGTAG
* *
86579364 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGA
1 TCTTATCTCCTTGAAGTTGCAGTAGAATAGATTGAAGATAGCA-A
* * * * **
86579409 TCTTATCTCCCTGAAGCTACAGCAGAATAGATCAAAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTAGAATAGATTGAAGATAGC-AA
* * * *
86579454 CCTTATCT-CTCTGAAGTTACAGTAGAACATG-TTGAAG-TACCAA
1 TCTTATCTCCT-TGAAGTTGCAGTAGAATA-GATTGAAGATAGCAA
* ** *
86579497 GTCTTATCT-CTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
1 -TCTTATCTCCT-TGAAGTTGCAGTAGAATAGATTGAAGATAGCA-A
* * * **
86579543 TCTTATCTCCCTGAAGTTACAGCAGAATAGATCAAAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTAGAATAGATTGAAGATAGC-AA
* * ** *
86579588 CCTTATCT-CTCTGAAGTTGTAGTAGAGCAGGTTGAA-ATAGCAA
1 TCTTATCTCCT-TGAAGTTGCAGTAGAATAGATTGAAGATAGCAA
* * * * *
86579631 GTCTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAGATAGTAGA
1 -TCTTATCTCCTTGAAGTTGCAGTAGAATAGATTGAAGATAGCA-A
* ** * *
86579677 TCTTATCTCCCTGAAGTTATAGCAGAATAGATCGAAGATAGCAA
1 TCTTATCTCCTTGAAGTTGCAGTAGAATAGATTGAAGATAGCAA
* ** *
86579721 ACATTATCT-CTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAA
1 TC-TTATCTCCT-TGAAGTTGCAGTAGAATAGATTGAAGATAGCAA
* * *
86579765 GCCTTATCTCCCTAAAGTTG
1 -TCTTATCTCCTTGAAGTTG
86579785 AAATGGAGCA
Statistics
Matches: 287, Mismatches: 71, Indels: 37
0.73 0.18 0.09
Matches are distributed among these distances:
43 5 0.02
44 87 0.30
45 189 0.66
46 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCTTGAAGTTGCAGTAGAATAGATTGAAGATAGCAA
Found at i:86579502 original size:89 final size:90
Alignment explanation
Indices: 86579365--86579783 Score: 330
Period size: 89 Copynumber: 4.7 Consensus size: 90
86579355 AGATTGTAGT
* * * ** *
86579365 CTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGC-AGATCTTATCTCCCTGAAGCTAC
1 CTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATAGCAAG-TCTTATCTCCCTGAAGTTAC
* *
86579429 AGCAGAATAGATCAAAGATAGCAAAC
65 AGCAGAACAGATCGAAGATAGCAAAC
* * * *
86579455 CTTATCTCTCTGAAGTTACAGTAGAACATG-TTGAAG-TACCAAGTCTTATCTCTCTGAAGTTGC
1 CTTATCTCCCTGAAGTTACAGTAGAACA-GATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTAC
** * * *
86579518 AGTGGAGCAGA-CTGAAGATAGCAGAT
65 AGCAGAACAGATC-GAAGATAGCAAAC
* * ** ** * **
86579544 CTTATCTCCCTGAAGTTACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTACA
* * * * **
86579609 GTAGAGCAGGTTGAA-ATAGCAAGT
66 GCAGAACAGATCGAAGATAGCAAAC
* * * * * * *
86579633 CTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAGATAG-TAGATCTTATCTCCCTGAAGTTAT
1 CTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATAGCAAG-TCTTATCTCCCTGAAGTTAC
*
86579697 AGCAGAATAGATCGAAGATAGCAAAC
65 AGCAGAACAGATCGAAGATAGCAAAC
* * * * * * *
86579723 ATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGCCTTATCTCCCTAAAGTT
1 CTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
86579784 GAAATGGAGC
Statistics
Matches: 259, Mismatches: 61, Indels: 19
0.76 0.18 0.06
Matches are distributed among these distances:
88 3 0.01
89 153 0.59
90 102 0.39
91 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (90 bp):
CTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTACA
GCAGAACAGATCGAAGATAGCAAAC
Found at i:86579818 original size:134 final size:134
Alignment explanation
Indices: 86579362--86579794 Score: 668
Period size: 134 Copynumber: 3.2 Consensus size: 134
86579352 TAAAGATTGT
* * * * *
86579362 AGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTTATCTCCCTGAAGCT
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTT
* * *
86579427 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTACAGTAGAACATGTTGAAGT
66 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGT
*
86579492 ACCA
131 AGCA
* *
86579496 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTT
* *
86579561 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAAT
66 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGT
86579626 AGCA
131 AGCA
** *
86579630 AGTCTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTT
* * *
86579695 ATAGCAGAATAGATCGAAGATAGCAAACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGT
66 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGT
86579760 AGCA
131 AGCA
* * *
86579764 AGCCTTATCTCCCTAAAGTTGAAATGGAGCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
86579795 AATTGAATAC
Statistics
Matches: 273, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
134 273 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (134 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTT
ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGT
AGCA
Found at i:86579846 original size:45 final size:44
Alignment explanation
Indices: 86579735--86579846 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 44
86579725 TATCTCTCTG
* * * **
86579735 AAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGCCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGGTTGAAGTAACAAACCTTATCTAACTA
* * **
86579779 AAGTTGAAATGGAGCAAATTGAA-TACCACAAACCTTATCTAACTA
1 AAGTTGCAGTGGAGCAGGTTGAAGTA--ACAAACCTTATCTAACTA
*
86579824 AAGTAGCAGTGGAGCAGGTTGAA
1 AAGTTGCAGTGGAGCAGGTTGAA
86579847 ATTACCAACT
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
43 2 0.04
44 18 0.35
45 32 0.62
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGGTTGAAGTAACAAACCTTATCTAACTA
Found at i:86580092 original size:133 final size:133
Alignment explanation
Indices: 86579804--86580070 Score: 390
Period size: 133 Copynumber: 2.0 Consensus size: 133
86579794 AAATTGAATA
* ** * *
86579804 CCACAAACCTTATCTAACTAAAGTAGCAGTGGAGCAGGTTGAAATTACCAACTCTTACCTCCTTG
1 CCACAATCCTTATCTCCCTGAAGTAGCAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* *
86579869 AAGTTCCAGCAGAGTAGATCGAAGCTACAACTATCTTCTCCCTAAAATTACATTGGAGCAGATCG
66 AACTTCCAGCAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATTACATTGGAGCAGATCG
86579934 AAG
131 AAG
* * *
86579937 CCACAATCCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACCAATTCTTATCTCCTTG
1 CCACAATCCTTATCTCCCTGAAGTAGCAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* * * * * *
86580002 AACTTTCAGCGGAGTAGATCGAAGCTACAAATTTCTTTTCCCTGAAATTACATTGGAGCGGATCG
66 AACTTCCAGCAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATTACATTGGAGCAGATCG
86580067 AAG
131 AAG
86580070 C
1 C
86580071 ACCAATTCCT
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (133 bp):
CCACAATCCTTATCTCCCTGAAGTAGCAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
AACTTCCAGCAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATTACATTGGAGCAGATCG
AAG
Found at i:86580447 original size:10 final size:10
Alignment explanation
Indices: 86580432--86580457 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
86580422 AAGATATTAT
86580432 TTTATTTTAA
1 TTTATTTTAA
86580442 TTTATTTTAA
1 TTTATTTTAA
86580452 TTTATT
1 TTTATT
86580458 AAATTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:86581006 original size:15 final size:14
Alignment explanation
Indices: 86580950--86581066 Score: 71
Period size: 15 Copynumber: 8.1 Consensus size: 14
86580940 TTATTATGTT
*
86580950 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
86580964 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
86580978 TACTATTATTATTTA
1 T-CTATTTTTATTTA
86580993 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
86581008 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
86581022 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
86581037 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
*
86581052 TCTATTTCTATTTA
1 TCTATTTTTATTTA
86581066 T
1 T
86581067 ATACTAATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 38 0.46
16 4 0.05
17 7 0.08
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:86581019 original size:29 final size:29
Alignment explanation
Indices: 86581003--86581066 Score: 53
Period size: 29 Copynumber: 2.2 Consensus size: 29
86580993 TCTAATTTTT
* *
86581003 ATTTATCTATTTA-TATTTCTACTATTATT
1 ATTTATCTATTTATTATTTAT-CTATTTTT
*
86581032 ATATT-TCTATTTATTATATT-TCTATTTCT
1 AT-TTATCTATTTATTAT-TTATCTATTTTT
86581061 ATTTAT
1 ATTTAT
86581067 ATACTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
28 2 0.07
29 19 0.66
30 6 0.21
31 2 0.07
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTATCTATTTATTATTTATCTATTTTT
Found at i:86581026 original size:44 final size:44
Alignment explanation
Indices: 86580978--86581064 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
86580968 GTTATTCTAA
86580978 TACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
*
86581022 TACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTT
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTT
86581065 ATATACTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
43 4 0.10
44 31 0.79
45 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:86581035 original size:17 final size:15
Alignment explanation
Indices: 86581013--86581058 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
86581003 ATTTATCTAT
86581013 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
86581030 TTATATTTCTATTTA
1 TTATATTTCTATTTA
86581045 TTATATTTCTATTT
1 TTATATTTCTATTT
86581059 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:86581206 original size:3 final size:3
Alignment explanation
Indices: 86581198--86581379 Score: 203
Period size: 3 Copynumber: 60.7 Consensus size: 3
86581188 TTTAAAACTT
86581198 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
86581246 TT- TATA TTTA TGTA TTA ATA TCA TTA TT- TTT TTA TT- TT- TTA TATA
1 TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * *
86581291 TTA TTG TTA TTA TCA TTA TTA TTA CTA TCA GTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
86581339 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
86581380 TATAGTATAT
Statistics
Matches: 154, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
2 8 0.05
3 136 0.88
4 9 0.06
5 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:86583846 original size:20 final size:18
Alignment explanation
Indices: 86583799--86583847 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
86583789 CAAGATAAAC
86583799 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
86583816 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
86583836 ATTAAATTAATA
1 ATTAAATTAATA
86583848 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:86591341 original size:43 final size:42
Alignment explanation
Indices: 86591209--86591371 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
86591199 TTAGGGTTAC
* *
86591209 TGAGATTACATGTAAGACCATATCTGGG-TAGGGCATCTATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
*** * *
86591250 TGAGATTTTGTGTAAGACCTTATCTGGGATATGGCATTGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
86591292 TGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGATTACATGTAAGACCATA-TCTGGGATA-TGGCATCGATA
*
86591335 TGAGATTACATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
86591372 TGGTATGGTA
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 24 0.23
42 43 0.41
43 37 0.36
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:86591350 original size:85 final size:83
Alignment explanation
Indices: 86591209--86591378 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 83
86591199 TTAGGGTTAC
* *** *
86591209 TGAGATTACATGTAAGACCATATCTGGGTAGGGCATCTATATGAGATTTTGTGTAAGACCTTATC
1 TGAGATTACATGTAAGACCATATCTGGGTAGGGCATCGATATGAGATTACATGTAAGACCATATC
86591274 TGGGATATGGCATTGATA
66 TGGGATATGGCATTGATA
* * *
86591292 TGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATTACATGTAAGACCAT
1 TGAGATTACATGTAAGACCATA-TCTGGG-TA-GGGCATCGATATGAGATTACATGTAAGACCAT
* *
86591356 ATTTGGGATATGGCATTGGTA
63 ATCTGGGATATGGCATTGATA
86591377 TG
1 TG
86591379 GTACTGTGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 24 0.32
84 3 0.04
85 47 0.64
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (83 bp):
TGAGATTACATGTAAGACCATATCTGGGTAGGGCATCGATATGAGATTACATGTAAGACCATATC
TGGGATATGGCATTGATA
Found at i:86611790 original size:17 final size:18
Alignment explanation
Indices: 86611764--86611797 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
86611754 TTTTTGTTTA
86611764 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
86611781 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
86611798 ATATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:86612336 original size:8 final size:8
Alignment explanation
Indices: 86612323--86612379 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
86612313 AATTTTAATT
86612323 TTATTTAA
1 TTATTTAA
86612331 TTATTTAA
1 TTATTTAA
86612339 TT-TTTCAA
1 TTATTT-AA
*
86612347 TTTATTGAA
1 -TTATTTAA
86612356 TTA-TTAA
1 TTATTTAA
*
86612363 TAATTT--
1 TTATTTAA
86612369 TTATTTAA
1 TTATTTAA
86612377 TTA
1 TTA
86612380 AATTTTTGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
6 5 0.13
7 8 0.21
8 20 0.51
9 4 0.10
10 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (8 bp):
TTATTTAA
Found at i:86612374 original size:25 final size:23
Alignment explanation
Indices: 86612313--86612375 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 23
86612303 TTTTCTCCTA
* *
86612313 AATTTTAATTTTATTTAATTATTT
1 AATTTTTA-TTTATTGAATTATTT
86612337 AATTTTTCAATTTATTGAATTATTAAT
1 AATTTTT--ATTTATTGAATTATT--T
86612364 AATTTTTATTTA
1 AATTTTTATTTA
86612376 ATTAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 6 0.18
25 18 0.55
26 1 0.03
27 8 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
AATTTTTATTTATTGAATTATTT
Found at i:86621501 original size:93 final size:93
Alignment explanation
Indices: 86621337--86621525 Score: 369
Period size: 93 Copynumber: 2.0 Consensus size: 93
86621327 CTTGGTATAC
86621337 GTTTATGTAAGGAGTACACTTAGTCTAAGTTTATTACTTTTAAGGTTGTTAAATGGATGGGATTT
1 GTTTATGTAAGGAGTACACTTAGTCTAAGTTTATTACTTTTAAGGTTGTTAAATGGATGGGATTT
86621402 CTGTGCAGATTGTCGCCAGTAGGTGAAG
66 CTGTGCAGATTGTCGCCAGTAGGTGAAG
*
86621430 GTTTCTGTAAGGAGTACACTTAGTCTAAGTTTATTACTTTTAAGGTTGTTAAATGGATGGGATTT
1 GTTTATGTAAGGAGTACACTTAGTCTAAGTTTATTACTTTTAAGGTTGTTAAATGGATGGGATTT
86621495 CTGTGCAGATTGTCGCCAGTAGGTGAAG
66 CTGTGCAGATTGTCGCCAGTAGGTGAAG
86621523 GTT
1 GTT
86621526 GTTGGTTAAG
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (93 bp):
GTTTATGTAAGGAGTACACTTAGTCTAAGTTTATTACTTTTAAGGTTGTTAAATGGATGGGATTT
CTGTGCAGATTGTCGCCAGTAGGTGAAG
Found at i:86622410 original size:26 final size:26
Alignment explanation
Indices: 86622368--86622417 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
86622358 CACTTACTGC
*
86622368 TACTGGTAGCTACGCTGCGTTATTAT
1 TACTGGTAGCTACGCTGCGATATTAT
**
86622394 TACTGGTAGCTTTGCTGCGATATT
1 TACTGGTAGCTACGCTGCGATATT
86622418 GGTGTGCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
TACTGGTAGCTACGCTGCGATATTAT
Found at i:86638362 original size:19 final size:19
Alignment explanation
Indices: 86638338--86638374 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
86638328 TTTTACACAT
86638338 AAACCAAAA-ATTTCAAAAA
1 AAACCAAAACA-TTCAAAAA
86638357 AAACCAAAACATTCAAAA
1 AAACCAAAACATTCAAAA
86638375 GATACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.14
Consensus pattern (19 bp):
AAACCAAAACATTCAAAAA
Found at i:86638699 original size:13 final size:13
Alignment explanation
Indices: 86638683--86638710 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
86638673 GCGACACCCA
86638683 TTAAAAAAATATT
1 TTAAAAAAATATT
86638696 TTAAAAAAATATT
1 TTAAAAAAATATT
86638709 TT
1 TT
86638711 TTGAAGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:86643589 original size:23 final size:23
Alignment explanation
Indices: 86643559--86643604 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
86643549 AAGAAAGAGG
86643559 AGGCAGGCCCCGTTGAGTTCTTA
1 AGGCAGGCCCCGTTGAGTTCTTA
86643582 AGGCAGGCCCCGTTGAGTTCTTA
1 AGGCAGGCCCCGTTGAGTTCTTA
86643605 CACTTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.26
Consensus pattern (23 bp):
AGGCAGGCCCCGTTGAGTTCTTA
Found at i:86644777 original size:2 final size:2
Alignment explanation
Indices: 86644770--86644813 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
86644760 AAGATATCAG
86644770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86644812 TA
1 TA
86644814 AAGTTTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86654159 original size:6 final size:6
Alignment explanation
Indices: 86654150--86654203 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
86654140 ACAATAAATG
* * *
86654150 TAAAAA TAAAAA TAAAAC TAAAAA TAAGAAAA TAAAAT TGAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-A-AAAA TAAAAA TAAAAA TAAAAA
86654200 TAAA
1 TAAA
86654204 TGATAAATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 33 0.82
7 2 0.05
8 5 0.12
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:86654163 original size:18 final size:18
Alignment explanation
Indices: 86654132--86654210 Score: 70
Period size: 18 Copynumber: 4.2 Consensus size: 18
86654122 AAGAAGTCTA
*
86654132 AAAACATAACAATAAATGT
1 AAAA-ATAAAAATAAATGT
**
86654151 AAAAATAAAAATAAAACT
1 AAAAATAAAAATAAATGT
86654169 AAAAATAAGAAAATAAAAT-T
1 AAAAAT-A-AAAAT-AAATGT
*
86654189 GAAAATAAAAATAAATGAT
1 AAAAATAAAAATAAATG-T
86654208 AAA
1 AAA
86654211 TGGACTCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
17 4 0.08
18 22 0.45
19 9 0.18
20 11 0.22
21 3 0.06
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAATAAATGT
Found at i:86654174 original size:26 final size:26
Alignment explanation
Indices: 86654152--86654202 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
86654142 AATAAATGTA
86654152 AAAATAAAAAT-AAAACTAAAAATAAG
1 AAAATAAAAATGAAAA-TAAAAATAAG
*
86654178 AAAATAAAATTGAAAATAAAAATAA
1 AAAATAAAAATGAAAATAAAAATAA
86654203 ATGATAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAATAAAAATGAAAATAAAAATAAG
Found at i:86654337 original size:23 final size:23
Alignment explanation
Indices: 86654311--86654354 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
86654301 AGTGTCGCAT
*
86654311 CAATACGATCGAACCTCTGATCA
1 CAATACGATCAAACCTCTGATCA
* *
86654334 CAATACGGTCAAACCTTTGAT
1 CAATACGATCAAACCTCTGAT
86654355 TGTAGTACTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (23 bp):
CAATACGATCAAACCTCTGATCA
Found at i:86661581 original size:37 final size:37
Alignment explanation
Indices: 86661538--86661613 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
86661528 TCAAAAGTGA
* **
86661538 TAGGTTTTATGTAAATATATAGTATATATTATTTGTC
1 TAGGTTTTATGTAAATATACAACATATATTATTTGTC
* *
86661575 TAGGTTTTATGTAAGTATACAACATATATTATTTTTC
1 TAGGTTTTATGTAAATATACAACATATATTATTTGTC
86661612 TA
1 TA
86661614 TCTTAATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (37 bp):
TAGGTTTTATGTAAATATACAACATATATTATTTGTC
Found at i:86661914 original size:22 final size:22
Alignment explanation
Indices: 86661865--86661908 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
86661855 CTTTTGTTCA
86661865 TGATTTGTTAATTAGATTTATT
1 TGATTTGTTAATTAGATTTATT
86661887 TGATTTGTTACA-TA-ATTTATT
1 TGATTTGTTA-ATTAGATTTATT
86661908 T
1 T
86661909 CTATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TGATTTGTTAATTAGATTTATT
Found at i:86663384 original size:9 final size:9
Alignment explanation
Indices: 86663372--86663398 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
86663362 AATAACTATT
86663372 AAAACTAAC
1 AAAACTAAC
86663381 AAAACTAAC
1 AAAACTAAC
86663390 AAAACTAAC
1 AAAACTAAC
86663399 TCTCTCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAACTAAC
Found at i:86671775 original size:46 final size:47
Alignment explanation
Indices: 86671651--86671829 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 47
86671641 CGACCACCTT
* * ** *
86671651 ATGAGATCCAATGTAAGACCATGTCTGGGACATGACATCAACATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTTGAG
* * *
86671699 ACGAGAGCTAGTATAAGA-CATGTCT-GGACATGCATCGGCCTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAG
*
86671744 ATGTA-AGCCAGTGTAAGA-CATGTCTAGGACATGCATCGG-CTATGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAG
* *
86671790 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCG
86671830 ACACCTTACC
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 33 0.29
46 40 0.36
47 20 0.18
48 19 0.17
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAG
Found at i:86675134 original size:79 final size:80
Alignment explanation
Indices: 86675051--86675198 Score: 174
Period size: 79 Copynumber: 1.9 Consensus size: 80
86675041 TATGGTAACC
* * * *
86675051 CGCACCAAGGCCTACTGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
86675114 CCCGGATAGAATGATT
65 CCCGGATAGAATGATT
* * * * * * *
86675130 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
86675195 CCGG
66 CCGG
86675199 TTATAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
78 1 0.02
79 29 0.52
80 26 0.46
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGATT
Found at i:86675182 original size:40 final size:40
Alignment explanation
Indices: 86675091--86675204 Score: 129
Period size: 40 Copynumber: 2.9 Consensus size: 40
86675081 TATCACGATT
* * ** * *
86675091 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGATTC
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
86675131 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
86675171 GCACCATTGCCTTCGGGTCTTAACCCGGTTATAA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAA
86675205 TTTCCAGCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:86683153 original size:40 final size:40
Alignment explanation
Indices: 86683108--86683275 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
86683098 CGGAATATAA
*
86683108 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
86683148 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
86683188 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
86683228 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
86683268 CCGGATAT
1 CCGGATAT
86683276 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:86683258 original size:80 final size:80
Alignment explanation
Indices: 86683124--86683275 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
86683114 ATAACCATGT
* *
86683124 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
86683189 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
86683204 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
86683267 CCCGGATAT
64 CCCGGATAT
86683276 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:86690392 original size:47 final size:44
Alignment explanation
Indices: 86690326--86690543 Score: 145
Period size: 47 Copynumber: 4.7 Consensus size: 44
86690316 ATTGTTGGCT
* * *
86690326 AGTGTAAGACATGTTTGGGACATGCATTGACCACCTT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCA--TTGACGAGAGCC
* *
86690372 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATT--GACGAGAGCC
* ** * * *
86690420 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GC-CATTGACGAGAGCC
*
86690466 AGTGTAAGATCATGTCTGGGACATGGCATCGAC-TTGA-GATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATTGACG--A-GAGCC
* *
86690513 AGTGTAGGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
86690544 GCACCTTACC
Statistics
Matches: 138, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 30 0.22
47 76 0.55
48 27 0.20
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATTGACGAGAGCC
Found at i:86690484 original size:94 final size:93
Alignment explanation
Indices: 86690323--86690545 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 93
86690313 GTTATTGTTG
* * * * **
86690323 GCTAGTGTAAGACATGTTTGGGACATGCATTGACCACCTTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAACAGATGAGAGCCAGTGTAAGACCATGTC
*
86690388 TGGGACATGGCATCGGCATTGAGACGA-GA
66 TGGGACATGGCATCGAC-TTGAGA-GATGA
* * * * *
86690417 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGATAGTCAGTGTAAGATCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAACAGATGAGAGCCAGTGTAAGACCATGTC
*
86690482 TGGGACATGGCATCGACTTGAGATATGA
66 TGGGACATGGCATCGACTTGAGAGATGA
* * *
86690510 GCCAGTGTAGGACCATGTCTAGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
86690546 ACCTTACCCA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 1 0.01
93 18 0.16
94 83 0.75
95 8 0.07
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAACAGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACTTGAGAGATGA
Found at i:86699667 original size:20 final size:20
Alignment explanation
Indices: 86699642--86699687 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
86699632 TGCACACAGA
*
86699642 GAAGAACGAAGAAAAGACTC
1 GAAGAACAAAGAAAAGACTC
86699662 GAAGAACAAAGAAAAGACTC
1 GAAGAACAAAGAAAAGACTC
86699682 GAAGAA
1 GAAGAA
86699688 AGCCATCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.24, T:0.04
Consensus pattern (20 bp):
GAAGAACAAAGAAAAGACTC
Found at i:86703859 original size:28 final size:28
Alignment explanation
Indices: 86703828--86703919 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 28
86703818 CATGCAGTAA
86703828 CAGTCTGGGCCTTAGCCCTATACAATAT
1 CAGTCTGGGCCTTAGCCCTATACAATAT
86703856 CAGTGCAGTTTGGGCCTTAGCCCTATACAATAAT
1 CAGT-C----TGGGCCTTAGCCCTATACAAT-AT
* * *
86703890 -AGTATGGGCCTAAG-CCTAATACAGTAT
1 CAGTCTGGGCCTTAGCCCT-ATACAATAT
86703917 CAG
1 CAG
86703920 AAAATGTAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
27 5 0.09
28 21 0.40
29 1 0.02
33 24 0.45
34 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (28 bp):
CAGTCTGGGCCTTAGCCCTATACAATAT
Found at i:86704108 original size:27 final size:27
Alignment explanation
Indices: 86704053--86704123 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
86704043 GCCAGCAACA
**
86704053 GTGGCA-AGCCACCAGTATTAATAATT
1 GTGGCATAGCCACCAGTAACAATAATT
86704079 GTGGCATAGCCACCAGTAACAATGAA-T
1 GTGGCATAGCCACCAGTAACAAT-AATT
* * *
86704106 GTGACATAGTCACTAGTA
1 GTGGCATAGCCACCAGTA
86704124 TAGTACTTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 6 0.16
27 30 0.79
28 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTGGCATAGCCACCAGTAACAATAATT
Found at i:86704211 original size:23 final size:23
Alignment explanation
Indices: 86704175--86704221 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
86704165 GTCATGTCAT
* *
86704175 AAACATTACGTGTATACAAAGTC
1 AAACACTACATGTATACAAAGTC
86704198 AAACACTACATGTATACAAAGTC
1 AAACACTACATGTATACAAAGTC
86704221 A
1 A
86704222 TACTCAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (23 bp):
AAACACTACATGTATACAAAGTC
Found at i:86704359 original size:27 final size:27
Alignment explanation
Indices: 86704287--86704483 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
86704277 GGGCATAATC
** *
86704287 GTCATTTTACTATACATGGGGTATTACG
1 GTCATTTTACCCTACA-GGGGCATTACG
* * *
86704315 GTTATTTTA--TTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
86704340 GTCATCTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
86704367 GTCATCTTACCATACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
86704394 GTCATTTTACCTTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
86704421 GTCA-TTTACCCTACAGGGCCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
86704447 GCCATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
86704474 GTCATTTTAC
1 GTCATTTTAC
86704484 AACCTGAGGG
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
25 17 0.12
26 24 0.17
27 93 0.65
28 8 0.06
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:86704430 original size:80 final size:80
Alignment explanation
Indices: 86704287--86704483 Score: 263
Period size: 80 Copynumber: 2.5 Consensus size: 80
86704277 GGGCATAATC
* *
86704287 GTCATTTTACTATACATGGGGTATTACGGTTATTTTA-TTATAGGGGCATTACGGTCATCTTACC
1 GTCATTTTACCATACA-GGGGTATTACGGTCATTTTACTTATAGGGGCATTACGGTCATCTTACC
* **
86704351 CTATAGGGGTATTACG
65 CTACAGGGCCATTACG
* * *
86704367 GTCATCTTACCATACAGGGGCATTACGGTCATTTTACCTTATAGGGGTATTACGGTCAT-TTACC
1 GTCATTTTACCATACAGGGGTATTACGGTCATTTTA-CTTATAGGGGCATTACGGTCATCTTACC
86704431 CTACAGGGCCATTACG
65 CTACAGGGCCATTACG
* * *
86704447 GCCATTTTACCCTACAGGGGTATTATGGTCATTTTAC
1 GTCATTTTACCATACAGGGGTATTACGGTCATTTTAC
86704484 AACCTGAGGG
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 19 0.19
80 63 0.62
81 20 0.20
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (80 bp):
GTCATTTTACCATACAGGGGTATTACGGTCATTTTACTTATAGGGGCATTACGGTCATCTTACCC
TACAGGGCCATTACG
Found at i:86704453 original size:53 final size:53
Alignment explanation
Indices: 86704328--86704480 Score: 234
Period size: 53 Copynumber: 2.9 Consensus size: 53
86704318 ATTTTATTAT
*
86704328 AGGGGCATTACGGTCATCTTACCCTATAGGGGTATTACGGTCATCTTACCATAC
1 AGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCAT-TTACCATAC
* *
86704382 AGGGGCATTACGGTCATTTTACCTTATAGGGGTATTACGGTCATTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTACCATAC
* * * *
86704435 AGGGCCATTACGGCCATTTTACCCTACAGGGGTATTATGGTCATTT
1 AGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTT
86704481 TACAACCTGA
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 49 0.54
54 42 0.46
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (53 bp):
AGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCATTTACCATAC
Found at i:86704521 original size:27 final size:27
Alignment explanation
Indices: 86704491--86704542 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
86704481 TACAACCTGA
86704491 GGGTATTTC-GATAATTTTACAAATCAG
1 GGGTATTTCAG-TAATTTTACAAATCAG
*
86704518 GGGTATTTCAGTAATTTTAGAAATC
1 GGGTATTTCAGTAATTTTACAAATC
86704543 GAGGTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAG
Found at i:86704796 original size:10 final size:10
Alignment explanation
Indices: 86704781--86704807 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
86704771 TGGCATCACA
86704781 AGGCCCATCG
1 AGGCCCATCG
86704791 AGGCCCATCG
1 AGGCCCATCG
86704801 AGGCCCA
1 AGGCCCA
86704808 AAACAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.41, G:0.30, T:0.07
Consensus pattern (10 bp):
AGGCCCATCG
Found at i:86707301 original size:20 final size:22
Alignment explanation
Indices: 86707276--86707321 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
86707266 TTAAGTAGGA
86707276 TTTTATC-TTTATTT-TTTATT
1 TTTTATCTTTTATTTATTTATT
86707296 TTTTATCTTTTATTTATTTATT
1 TTTTATCTTTTATTTATTTATT
86707318 TTTT
1 TTTT
86707322 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATCTTTTATTTATTTATT
Found at i:86707323 original size:8 final size:7
Alignment explanation
Indices: 86707283--86707321 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
86707273 GGATTTTATC
86707283 TTTATTT
1 TTTATTT
86707290 TTTATTT
1 TTTATTT
*
86707297 TTTATCT
1 TTTATTT
86707304 TTTATTT
1 TTTATTT
86707311 ATTTATTT
1 -TTTATTT
86707319 TTT
1 TTT
86707322 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:86721573 original size:31 final size:31
Alignment explanation
Indices: 86721535--86721598 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
86721525 CCTTTTCATA
86721535 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
86721566 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
86721597 TT
1 TT
86721599 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:86721866 original size:23 final size:23
Alignment explanation
Indices: 86721811--86721930 Score: 197
Period size: 23 Copynumber: 5.1 Consensus size: 23
86721801 CCGAGCCTCT
86721811 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86721833 TTTTTTAATAACTGGGGCATAAGCCC
1 ---TTTAATAACTGGGGCATAAGCCC
*
86721859 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86721882 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86721905 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86721928 TTT
1 TTT
86721931 TTGCACTTCC
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
23 70 0.76
25 16 0.17
26 6 0.07
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:86721997 original size:11 final size:11
Alignment explanation
Indices: 86721978--86722057 Score: 64
Period size: 11 Copynumber: 7.8 Consensus size: 11
86721968 GCATTTATGA
*
86721978 GCATCTCATGT
1 GCATATCATGT
86721989 GCATATCA--T
1 GCATATCATGT
*
86721998 ACATATCATGT
1 GCATATCATGT
86722009 GCATATCA--T
1 GCATATCATGT
* *
86722018 ACATGTCATGT
1 GCATATCATGT
86722029 GCATATCA--T
1 GCATATCATGT
* *
86722038 ACATGTCATGT
1 GCATATCATGT
86722049 GCATATCAT
1 GCATATCAT
86722058 ACATACCATA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
9 22 0.42
11 30 0.58
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (11 bp):
GCATATCATGT
Found at i:86722008 original size:20 final size:20
Alignment explanation
Indices: 86721983--86722062 Score: 142
Period size: 20 Copynumber: 4.0 Consensus size: 20
86721973 TATGAGCATC
86721983 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
86722003 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
86722023 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
86722043 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
86722063 CCATATTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:86722133 original size:25 final size:25
Alignment explanation
Indices: 86722105--86722152 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
86722095 GTACATAAAC
* * *
86722105 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
86722130 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
86722153 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:86728520 original size:31 final size:31
Alignment explanation
Indices: 86728482--86728545 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
86728472 CCTTTTCATA
86728482 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
86728513 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
86728544 TT
1 TT
86728546 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:86728827 original size:22 final size:23
Alignment explanation
Indices: 86728758--86728874 Score: 195
Period size: 22 Copynumber: 5.1 Consensus size: 23
86728748 CCTAGCCTCT
86728758 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86728780 TTTTTAATAACTGGGGCATAAGCCC
1 --TTTAATAACTGGGGCATAAGCCC
86728805 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86728827 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86728849 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86728872 TTT
1 TTT
86728875 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.06
22 32 0.36
23 31 0.34
24 16 0.18
25 6 0.07
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:86728949 original size:20 final size:20
Alignment explanation
Indices: 86728921--86729003 Score: 134
Period size: 20 Copynumber: 4.2 Consensus size: 20
86728911 GCATTTATGA
*
86728921 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
86728941 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
86728961 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
86728981 AC--ATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
86728999 ACATA
1 ACATA
86729004 CCATATTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
18 17 0.29
20 41 0.71
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:86728998 original size:11 final size:11
Alignment explanation
Indices: 86728926--86728980 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
86728916 TATGAACATC
86728926 TCATGTGCATA
1 TCATGTGCATA
*
86728937 TCA--TACATA
1 TCATGTGCATA
86728946 TCATGTGCATA
1 TCATGTGCATA
* *
86728957 TCA--TACATG
1 TCATGTGCATA
86728966 TCATGTGCATA
1 TCATGTGCATA
86728977 TCAT
1 TCAT
86728981 ACATCATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:86729078 original size:25 final size:25
Alignment explanation
Indices: 86729046--86729093 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
86729036 ATACATAAAC
* * *
86729046 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
86729071 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
86729094 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:86732513 original size:43 final size:43
Alignment explanation
Indices: 86732408--86732515 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
86732398 TAGCCCAGCT
* * * *
86732408 ATGGTCTTATACAAAATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
* *
86732451 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
86732494 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
86732516 CTCTTTAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
Found at i:86734913 original size:5 final size:5
Alignment explanation
Indices: 86734903--86734950 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
86734893 TTAATTTTGG
*
86734903 TTTTC TTTTC TTTTC TCTTC TTTTC -TTTC TTTTTC TTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
86734951 TTTGTTGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
4 8 0.21
5 27 0.69
6 4 0.10
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:86734950 original size:15 final size:15
Alignment explanation
Indices: 86734903--86734951 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
86734893 TTAATTTTGG
*
86734903 TTTTCTTTTCTTTTC
1 TTTTCTTTTCTTTTT
* *
86734918 TCTTCTTTTCTTTCT
1 TTTTCTTTTCTTTTT
86734933 TTTTCTTTTCTTTTT
1 TTTTCTTTTCTTTTT
86734948 TTTT
1 TTTT
86734952 TTGTTGTAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTCTTTTT
Found at i:86734951 original size:10 final size:10
Alignment explanation
Indices: 86734903--86734951 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 10
86734893 TTAATTTTGG
86734903 TTTTCTTTTCT
1 TTTTCTTTT-T
86734914 TTTCTCTTCTTT
1 TTT-TCTT-TTT
86734926 TCTTTCTTTTT
1 T-TTTCTTTTT
86734937 CTTTTCTTTTT
1 -TTTTCTTTTT
86734948 TTTT
1 TTTT
86734952 TTGTTGTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.12
11 15 0.44
12 11 0.32
13 4 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:86740033 original size:46 final size:45
Alignment explanation
Indices: 86739970--86740148 Score: 146
Period size: 46 Copynumber: 3.9 Consensus size: 45
86739960 TATCGCGAGG
* *
86739970 CCGATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATA
* * * *
86740016 CCGATGCATGTCCCAGACATGTCTTATAGTAGCT-TAAATATCTCGAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCT---CATCTC-ATA
** * * * *
86740064 TTGATGCATATCCCAGACATGTCTTACACTGGCTCTCATGCT-GTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAT-A
* * *
86740110 CTGATGCATGTCTCAGACATGTCTTACACTAGCACTCAT
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT
86740149 ATCACCCATT
Statistics
Matches: 105, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 67 0.64
47 2 0.02
48 34 0.32
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATA
Found at i:86740057 original size:94 final size:94
Alignment explanation
Indices: 86739928--86740100 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
86739918 AAGCTGACAC
* ** * * *
86739928 CATGTCCCAGACAGGTTTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCTCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGACCGATGCATATCCCAGACATGTC
86739993 TTACACTAGCTCTCGTCTCAATACCGATG
66 TTACACTAGCTCTCGTCTCAATACCGATG
* * * * **
86740022 CATGTCCCAGACATGTCTTATAGTAGCTTAAATATCTCGAGATTGATGCATATCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGACCGATGCATATCCCAGACATGTC
*
86740087 TTACACTGGCTCTC
66 TTACACTAGCTCTC
86740101 ATGCTGTGGC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 66 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGACCGATGCATATCCCAGACATGTC
TTACACTAGCTCTCGTCTCAATACCGATG
Found at i:86741771 original size:27 final size:27
Alignment explanation
Indices: 86741733--86741807 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
86741723 CAACATATGG
*
86741733 AGTCCATTGGGACAATAAACACAAGGT
1 AGTCCATCGGGACAATAAACACAAGGT
* * * *
86741760 AGTGCATCGGGATAGTAAACACGAGGT
1 AGTCCATCGGGACAATAAACACAAGGT
* *
86741787 AGTCCATCAGGACATTAAACA
1 AGTCCATCGGGACAATAAACA
86741808 TGGGGTATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
AGTCCATCGGGACAATAAACACAAGGT
Found at i:86751006 original size:40 final size:40
Alignment explanation
Indices: 86750951--86751092 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
86750941 TAGCCCGGAT
* *
86750951 CTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
86750991 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
86751031 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
86751071 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
86751093 CATTCGAATA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.03
40 81 0.92
41 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:86754782 original size:49 final size:49
Alignment explanation
Indices: 86754726--86754845 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
86754716 GTCGATGTCG
* *
86754726 TGTCCCAAATAGGTTTTACACTGACT-TTCATATATCGAG-GCCAATGACA
1 TGTCCCAAACAGGTCTTACACTGACTCTT-ATATATCG-GTGCCAATGACA
* * *
86754775 TGTCCCAAACAGGTCTTACACTGGCTCTTATCTATCGGTGCCAATGCCA
1 TGTCCCAAACAGGTCTTACACTGACTCTTATATATCGGTGCCAATGACA
* * *
86754824 TGTCTCAGACATGTCTTACACT
1 TGTCCCAAACAGGTCTTACACT
86754846 AACACATAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.02
49 58 0.95
50 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TGTCCCAAACAGGTCTTACACTGACTCTTATATATCGGTGCCAATGACA
Found at i:86766868 original size:16 final size:16
Alignment explanation
Indices: 86766849--86766879 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86766839 TAAATAGTAA
*
86766849 TATAAATTTTATATAT
1 TATAAAATTTATATAT
86766865 TATAAAATTTATATA
1 TATAAAATTTATATA
86766880 ATACGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAAAATTTATATAT
Found at i:86767009 original size:22 final size:21
Alignment explanation
Indices: 86766984--86767029 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
86766974 AAGTTATGAT
86766984 TGAAAAACTATAATATTATTTA
1 TGAAAAACTATAATATT-TTTA
* * *
86767006 TGAATAAGTATATTATTTTTA
1 TGAAAAACTATAATATTTTTA
86767027 TGA
1 TGA
86767030 TTTATAACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (21 bp):
TGAAAAACTATAATATTTTTA
Found at i:86767562 original size:17 final size:18
Alignment explanation
Indices: 86767540--86767579 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
86767530 CAAATACTAC
86767540 TAAAATAAAAT-TATTAA
1 TAAAATAAAATATATTAA
*
86767557 TAAAATAAGATGATATTAA
1 TAAAATAAAAT-ATATTAA
86767576 TAAA
1 TAAA
86767580 TGATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAAATAAAATATATTAA
Found at i:86767801 original size:18 final size:18
Alignment explanation
Indices: 86767770--86767827 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
86767760 TTTTAAAGAA
86767770 ATAT-AAATATAAAATAAT
1 ATATAAAATA-AAAATAAT
*
86767788 ATATAAAATAAAAAAAAT
1 ATATAAAATAAAAATAAT
*
86767806 TTATAAAA-AAATTAATAAT
1 ATATAAAATAAA--AATAAT
86767825 ATA
1 ATA
86767828 GAGATAACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 3 0.09
18 18 0.55
19 12 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAATAAAAATAAT
Found at i:86780423 original size:13 final size:13
Alignment explanation
Indices: 86780405--86780434 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
86780395 CCACATGCTA
86780405 GTGTGGCTTGCCC
1 GTGTGGCTTGCCC
86780418 GTGTGGCTTGCCC
1 GTGTGGCTTGCCC
86780431 GTGT
1 GTGT
86780435 ATCCCATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.40, T:0.33
Consensus pattern (13 bp):
GTGTGGCTTGCCC
Found at i:86784443 original size:21 final size:21
Alignment explanation
Indices: 86784419--86784462 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
86784409 CTAAAATGTT
86784419 TAGAATAATAGTATATAAAAA
1 TAGAATAATAGTATATAAAAA
86784440 TAGAATAATAGTATATAAAAA
1 TAGAATAATAGTATATAAAAA
86784461 TA
1 TA
86784463 ATAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
TAGAATAATAGTATATAAAAA
Found at i:86791276 original size:67 final size:68
Alignment explanation
Indices: 86791145--86791280 Score: 159
Period size: 67 Copynumber: 2.0 Consensus size: 68
86791135 CGAAAGTCTA
* * * * * *
86791145 CCAGGACAATAAACATGGGATTACACTATGTAATACCATAGCTAAGCTATGATAACATATGAAGT
1 CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTAAGCTATGACAACAAATGAAGT
86791210 CCG
66 CCG
* * * *
86791213 CCAGGAAAATAAACAT-GGATCATACTATGTAAGACTATAAC-AGGGCTATGGCAACAAATGAAG
1 CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTA-AGCTATGACAACAAATGAAG
86791276 TCCG
65 TCCG
86791280 C
1 C
86791281 ATGACAGTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
66 1 0.02
67 41 0.72
68 15 0.26
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (68 bp):
CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTAAGCTATGACAACAAATGAAGT
CCG
Found at i:86795872 original size:55 final size:57
Alignment explanation
Indices: 86795809--86795921 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
86795799 ATATTATAAG
86795809 AAGTTGAAGAACGGAAGAAGAAG-A-AGACTTACCTGGATAAAGAAGGAGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATAAAGAAGGAGATGGAAA
* *
86795864 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATGAAGAAGGGGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATAAAGAAGGAGATGGAAA
86795921 A
1 A
86795922 TGTCTTATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 23 0.43
56 1 0.02
57 30 0.56
ACGTcount: A:0.48, C:0.07, G:0.33, T:0.12
Consensus pattern (57 bp):
AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATAAAGAAGGAGATGGAAA
Found at i:86800609 original size:29 final size:29
Alignment explanation
Indices: 86800567--86800625 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
86800557 GGAAATGGGA
86800567 TAGAGTGACGATGGATTTTGTTTCGGGTT
1 TAGAGTGACGATGGATTTTGTTTCGGGTT
86800596 TAGAGTGACGATGGATTTTGTTTCGGGTT
1 TAGAGTGACGATGGATTTTGTTTCGGGTT
86800625 T
1 T
86800626 GCCCTTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.07, G:0.34, T:0.42
Consensus pattern (29 bp):
TAGAGTGACGATGGATTTTGTTTCGGGTT
Found at i:86802328 original size:39 final size:39
Alignment explanation
Indices: 86802274--86802352 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
86802264 TTTTATGAAG
86802274 TTTGATGATAGTATATGGAAGCTTGATGTTGGGTTAACA
1 TTTGATGATAGTATATGGAAGCTTGATGTTGGGTTAACA
86802313 TTTGATGATAGTATATGGAAGCTTGATGTTGGGTTAACA
1 TTTGATGATAGTATATGGAAGCTTGATGTTGGGTTAACA
86802352 T
1 T
86802353 GATTTGTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.39
Consensus pattern (39 bp):
TTTGATGATAGTATATGGAAGCTTGATGTTGGGTTAACA
Found at i:86803641 original size:22 final size:23
Alignment explanation
Indices: 86803615--86803657 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
86803605 TATTTGGCCA
*
86803615 TGTGA-TATGACTTGGTTTTGGT
1 TGTGATTATGACTTGATTTTGGT
*
86803637 TGTGATTATGATTTGATTTTG
1 TGTGATTATGACTTGATTTTG
86803658 ACATACGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (23 bp):
TGTGATTATGACTTGATTTTGGT
Found at i:86808408 original size:47 final size:47
Alignment explanation
Indices: 86808339--86808624 Score: 448
Period size: 47 Copynumber: 6.1 Consensus size: 47
86808329 AGCCAAGGCA
* *
86808339 AATGTGATGAATGTGAATATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
86808386 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
86808433 AATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
86808480 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
86808527 AATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
86808574 AATGTGATGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
86808621 AATG
1 AATG
86808625 CGAAATGTGT
Statistics
Matches: 221, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 218 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:86808653 original size:46 final size:46
Alignment explanation
Indices: 86808598--86808688 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
86808588 GGAAGTGTAT
* *
86808598 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
86808644 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
86808689 TGTATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:86808695 original size:141 final size:139
Alignment explanation
Indices: 86808347--86808680 Score: 372
Period size: 141 Copynumber: 2.4 Consensus size: 139
86808337 CAAATGTGAT
* * * *
86808347 GAATGTGAATATG-CATATGTGTGATAAGGCCGAATGGCCAATGTGATG-AATGTGAACATGCAC
1 GAATGTGAACATGACATA--TGTGATAAAGCCAAATGGCCAATGTGA-GAAATGTGAACATGCAT
* *
86808410 ATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAA
63 ATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAAGCCGAA
*
86808475 TGGCCAATGTGA
128 TGGCCAATGCGA
* * *
86808487 TGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATA
1 -GAATGTGAACATG-ACATATGTGATAAAGCCAAATGGCCAATGTGAGAAATGTGAACATGCATA
* * * *
86808552 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAA
64 TATGTGATAAGGCCGAATGGCCAATGTGATAAATGT-GAACATGCATATATGTGATAAAGCCGAA
*
86808616 TGGCTAATGCGA
128 TGGCCAATGCGA
* * * * *
86808628 -AATGTGTATGAGATG-GATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGT
1 GAATGTG-A--ACATGACATATGTGATAAAGCCAAATGGCCAATGTGAGAAATGT
86808681 ATGAGATGTG
Statistics
Matches: 167, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
139 6 0.04
140 32 0.19
141 118 0.71
142 7 0.04
143 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (139 bp):
GAATGTGAACATGACATATGTGATAAAGCCAAATGGCCAATGTGAGAAATGTGAACATGCATATA
TGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAAGCCGAATGG
CCAATGCGA
Found at i:86811886 original size:3 final size:3
Alignment explanation
Indices: 86811878--86811902 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
86811868 GCTGAGCCGC
86811878 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
86811903 AATTGCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:86813148 original size:2 final size:2
Alignment explanation
Indices: 86813141--86813166 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86813131 ATTATATTTA
86813141 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
86813167 TAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86815277 original size:31 final size:31
Alignment explanation
Indices: 86815242--86815302 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
86815232 TGTAATTTAA
86815242 ATTAAGTTT-TAATTAAG-TATTTATTATTATT
1 ATTAAGTTTAT-A-TAAGATATTTATTATTATT
*
86815273 ATTAAGTTTATATATGATATTTATTATTAT
1 ATTAAGTTTATATAAGATATTTATTATTAT
86815303 AAATTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 23 0.85
32 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (31 bp):
ATTAAGTTTATATAAGATATTTATTATTATT
Found at i:86815511 original size:20 final size:20
Alignment explanation
Indices: 86815483--86815520 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
86815473 AAAAATCAAC
86815483 TTTCTCATAAAATCAATTTAT
1 TTTCTCAT-AAATCAATTTAT
86815504 TTTC-CATAAATCAATTT
1 TTTCTCATAAATCAATTT
86815521 TAGGAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 3 0.18
21 4 0.24
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTCTCATAAATCAATTTAT
Found at i:86817730 original size:30 final size:30
Alignment explanation
Indices: 86817679--86817740 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
86817669 AAAACTTTTT
*
86817679 ATTTTCCCCCAAAATTTTTAC-TCCCTCCC
1 ATTTTCCCCCAAAACTTTTACTTCCCTCCC
*
86817708 ATTTTCCCCTTAAAACTTTTACTTCCCTCCC
1 ATTTTCCCC-CAAAACTTTTACTTCCCTCCC
86817739 AT
1 AT
86817741 CCCACCCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.31
30 10 0.34
31 10 0.34
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.40
Consensus pattern (30 bp):
ATTTTCCCCCAAAACTTTTACTTCCCTCCC
Found at i:86819501 original size:43 final size:42
Alignment explanation
Indices: 86819365--86819513 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 42
86819355 TGTGATATCG
* * *
86819365 TGTAAGACCACGTTTGGGAC-GTTGGCATCGACTTTTGTTTTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TTTTG-ATTACA
* * * *
86819409 TGTAAGACCATGTCTGGGACA-TCGGTATCG-TATCTGATTTCG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGAT-TTTGATTACA
* *
86819451 TATAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGAT-TTTGATTACA
86819494 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
86819514 GTTGACATTG
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.35
43 31 0.37
44 24 0.29
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATTTTGATTACA
Found at i:86819511 original size:85 final size:86
Alignment explanation
Indices: 86819357--86819513 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 86
86819347 TTCCGATATG
* * *
86819357 TGATATCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTTTGTTTTACATGTAAGACCATGT
1 TGATATCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
86819422 CTGGGACATCGGTATCGTATC
66 CTGGGACATCGGTATCGTATC
*
86819443 TGATTTCGTATAAGACC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATATCGTATAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
86819504 TGTCTGGGAC
63 TGTCTGGGAC
86819514 GTTGACATTG
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
85 27 0.42
86 36 0.56
87 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (86 bp):
TGATATCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
CTGGGACATCGGTATCGTATC
Found at i:86819536 original size:86 final size:86
Alignment explanation
Indices: 86819357--86819529 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 86
86819347 TTCCGATATG
* * * *
86819357 TGATATCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTTTGTTTTACATGTAAGACCATGT
1 TGATTTCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
** *
86819422 CTGGGACATCGGTATCGTATC
66 CTGGGACATCGACATCGTATA
86819443 TGATTTCGTATAAGACC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATTTCGTATAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
* * *
86819504 TGTCTGGGACGTTGACATTGTATA
63 TGTCTGGGACATCGACATCGTATA
86819528 TG
1 TG
86819530 CTTTTCGAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 37 0.50
86 36 0.49
87 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (86 bp):
TGATTTCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
CTGGGACATCGACATCGTATA
Found at i:86820076 original size:25 final size:24
Alignment explanation
Indices: 86820036--86820082 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
86820026 TTCTTTCCAC
86820036 TTTCTTTCTATTTCTTTATTATGT
1 TTTCTTTCTATTTCTTTATTATGT
*
86820060 TTTCATTT-TATTATCTTTGTTAT
1 TTTC-TTTCTATT-TCTTTATTAT
86820083 TATTATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCTTTATTATGT
Found at i:86822972 original size:44 final size:45
Alignment explanation
Indices: 86822905--86823012 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 45
86822895 TGTCTTTGAC
** * * *
86822905 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
* *
86822949 ATGGACTTATATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA-TTATAAT
86822995 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
86823013 TTTCTGTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.59
46 22 0.41
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:86829396 original size:28 final size:28
Alignment explanation
Indices: 86829361--86829417 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
86829351 CTTTACTTAA
86829361 TTTTCTTTTAATTGTTTATTTATCATTT
1 TTTTCTTTTAATTGTTTATTTATCATTT
*
86829389 TTTTCTTTTAATTTTTTATTTATCATTT
1 TTTTCTTTTAATTGTTTATTTATCATTT
86829417 T
1 T
86829418 AACCTTTAGA
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:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTCTTTTAATTGTTTATTTATCATTT
Found at i:86829416 original size:14 final size:14
Alignment explanation
Indices: 86829375--86829417 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
86829365 CTTTTAATTG
86829375 TTTATTTATCATTT
1 TTTATTTATCATTT
* *
86829389 TTT-TCTTTTAATTT
1 TTTAT-TTATCATTT
86829403 TTTATTTATCATTT
1 TTTATTTATCATTT
86829417 T
1 T
86829418 AACCTTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATCATTT
Found at i:86829424 original size:28 final size:28
Alignment explanation
Indices: 86829365--86829424 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
86829355 ACTTAATTTT
***
86829365 CTTTTAATTGTTTATTTATCATTTTTTT
1 CTTTTAATTGTTTATTTATCATTTTAAC
*
86829393 CTTTTAATTTTTTATTTATCATTTTAAC
1 CTTTTAATTGTTTATTTATCATTTTAAC
86829421 CTTT
1 CTTT
86829425 AGAAACTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (28 bp):
CTTTTAATTGTTTATTTATCATTTTAAC
Found at i:86831085 original size:43 final size:43
Alignment explanation
Indices: 86831024--86831110 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
86831014 AAGAGTAGAT
* *
86831024 CTTGCATAATTGAATGGAGTTACCTGTAATCCTAGAAATAGGA
1 CTTGCATAATTGAATGGAGTTACATGAAATCCTAGAAATAGGA
* *
86831067 CTTGCGTAATTGAATGGAGTTTCATGAAATCCTAGAAATAGGA
1 CTTGCATAATTGAATGGAGTTACATGAAATCCTAGAAATAGGA
86831110 C
1 C
86831111 AACATAAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (43 bp):
CTTGCATAATTGAATGGAGTTACATGAAATCCTAGAAATAGGA
Found at i:86836903 original size:18 final size:19
Alignment explanation
Indices: 86836858--86836904 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
86836848 ACCACTTAAC
86836858 TTTTAAATTTTAATAATTTT
1 TTTTAAATTTTAAT-ATTTT
**
86836878 TCCATAAATTTTAAT-TTTT
1 T-TTTAAATTTTAATATTTT
86836897 TTTTAAAT
1 TTTTAAAT
86836905 AAAATTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 1 0.05
21 11 0.50
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAATTTTAATATTTT
Found at i:86837080 original size:32 final size:32
Alignment explanation
Indices: 86837044--86837104 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
86837034 TTATCTTTTC
* *
86837044 TAAATAACA-ATTTTTATTAATTTTTAATTACA
1 TAAATAAAACATTTTTATTAA-ATTTAATTACA
86837076 TAAATAAAACATTTTTATTAAATTTAATT
1 TAAATAAAACATTTTTATTAAATTTAATT
86837105 TATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
TAAATAAAACATTTTTATTAAATTTAATTACA
Found at i:86849515 original size:3 final size:3
Alignment explanation
Indices: 86849507--86849554 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
86849497 TTCAAAGAAA
86849507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86849555 TAGTATGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:86849641 original size:19 final size:19
Alignment explanation
Indices: 86849619--86849685 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
86849609 TTTTCGAAAA
86849619 TTTTTAAATTTTTA-ACATT
1 TTTTTAAATTTTTATA-ATT
*
86849638 TTTTATATATTATTTATAATT
1 TTTT-TAAATT-TTTATAATT
*
86849659 TTTTTAAATTGTTATAATT
1 TTTTTAAATTTTTATAATT
86849678 TTTTTAAA
1 TTTTTAAA
86849686 AAATATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 20 0.48
20 10 0.24
21 11 0.26
22 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTTAAATTTTTATAATT
Found at i:86849680 original size:20 final size:20
Alignment explanation
Indices: 86849619--86849682 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
86849609 TTTTCGAAAA
86849619 TTTTTAAATTTTTA-ACATTT
1 TTTTTAAATTTTTATA-ATTT
* *
86849639 TTTATATATTATTTATAA-TT
1 TTTTTAAATT-TTTATAATTT
*
86849659 TTTTTAAATTGTTATAATTT
1 TTTTTAAATTTTTATAATTT
86849679 TTTT
1 TTTT
86849683 AAAAAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 6 0.17
20 24 0.67
21 5 0.14
22 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAAATTTTTATAATTT
Found at i:86849725 original size:20 final size:20
Alignment explanation
Indices: 86849636--86849725 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 20
86849626 ATTTTTAACA
*
86849636 TTTTTTATATATTATTTATAAT
1 TTTTTTA-AAATTATTT-TAAT
* *
86849658 TTTTTT-AAATTGTTATAAT
1 TTTTTTAAAATTATTTTAAT
86849677 TTTTTTAAAAAATATATTTT--T
1 TTTTTT--AAAAT-TATTTTAAT
*
86849698 TTAATTTTAAAATTATTTTGAT
1 TT--TTTTAAAATTATTTTAAT
86849720 TTTTTT
1 TTTTTT
86849726 TTTGTAATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
19 10 0.18
20 16 0.29
21 8 0.15
22 13 0.24
23 8 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTTAAAATTATTTTAAT
Found at i:86856173 original size:26 final size:26
Alignment explanation
Indices: 86856144--86856195 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
86856134 TAAAAAAATT
*
86856144 CATAAACTATAAATCAAATAATTATC
1 CATAAACCATAAATCAAATAATTATC
*
86856170 CATAAACCGTAAATCAAATAATTATC
1 CATAAACCATAAATCAAATAATTATC
86856196 TTTACCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (26 bp):
CATAAACCATAAATCAAATAATTATC
Found at i:86859958 original size:20 final size:20
Alignment explanation
Indices: 86859933--86859974 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
86859923 CGTTCTATTT
86859933 ATATTTTATT-TTATATATAA
1 ATATTTT-TTATTATATATAA
*
86859953 ATATTTTTTATTATATTTAA
1 ATATTTTTTATTATATATAA
86859973 AT
1 AT
86859975 TGTTGTTCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTTTTTATTATATATAA
Found at i:86860523 original size:82 final size:82
Alignment explanation
Indices: 86860377--86860541 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 82
86860367 TACAAAACGA
* *
86860377 ATCAACCATGCCTTCCAAGAGCAATGACACTTGAAAACTGGTGGATCAAAAGTCTTTTCTTTTTT
1 ATCAACCATGCCTTCCAAGAGCAATGACACTTGAAAACTGGTGGATCAAAAGTCTCTTCCTTTTT
*
86860442 GTTCCTATGACACCAAG
66 GTTCCTATGACACAAAG
*
86860459 ATCAACCATGCCTTCTAAGAGCAATGACACTTGAAAACTGGTGGATCAAAAGTCTCTTCCTTTTT
1 ATCAACCATGCCTTCCAAGAGCAATGACACTTGAAAACTGGTGGATCAAAAGTCTCTTCCTTTTT
86860524 GTTCCTATGACACAAAG
66 GTTCCTATGACACAAAG
86860541 A
1 A
86860542 AGACCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (82 bp):
ATCAACCATGCCTTCCAAGAGCAATGACACTTGAAAACTGGTGGATCAAAAGTCTCTTCCTTTTT
GTTCCTATGACACAAAG
Found at i:86862200 original size:41 final size:39
Alignment explanation
Indices: 86862124--86862202 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
86862114 CGAAATCCCA
** *
86862124 ATCAAAATTTTTAATTCTTTTTTTATTTTATTTTTCCAG
1 ATCAAAACATTTAATTCTTTTTTTATTTTACTTTTCCAG
86862163 ATCAAAACATTTAATTCTGTTTTTTATAATTT-CTTTTCCA
1 ATCAAAACATTTAATTCT-TTTTTTAT--TTTACTTTTCCA
86862203 AGTACGCAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 16 0.47
40 8 0.24
41 7 0.21
42 3 0.09
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.57
Consensus pattern (39 bp):
ATCAAAACATTTAATTCTTTTTTTATTTTACTTTTCCAG
Found at i:86867736 original size:19 final size:17
Alignment explanation
Indices: 86867714--86867793 Score: 51
Period size: 18 Copynumber: 4.6 Consensus size: 17
86867704 CAACCCAATT
86867714 TTTATTTATTTTTCTTAA
1 TTTA-TTATTTTTCTTAA
86867732 CTTTA--ATTTCTT-TTAA
1 -TTTATTATTT-TTCTTAA
*
86867748 TTTATTATTTTTCTTTTTA
1 TTTATTATTTTTC--TTAA
* *
86867767 TTT-TTATTTTACTTTAT
1 TTTATTATTTTTC-TTAA
86867784 TTTATTATTT
1 TTTATTATTT
86867794 ACTATTTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
15 4 0.08
16 10 0.20
17 12 0.24
18 14 0.28
19 10 0.20
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTATTTTTCTTAA
Found at i:86867783 original size:31 final size:35
Alignment explanation
Indices: 86867742--86867807 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 35
86867732 CTTTAATTTC
86867742 TTTTAATTTA-TTATT-TTT-CT-TTTTATTTTTA
1 TTTTAATTTATTTATTATTTACTATTTTATTTTTA
*
86867773 TTTTACTTTATTTTATTATTTACTATTTTATTTTT
1 TTTTAATTTA-TTTATTATTTACTATTTTATTTTT
86867808 CAATGTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 9 0.31
33 5 0.17
34 3 0.10
35 2 0.07
36 10 0.34
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTTAATTTATTTATTATTTACTATTTTATTTTTA
Found at i:86868720 original size:96 final size:96
Alignment explanation
Indices: 86868548--86868836 Score: 402
Period size: 96 Copynumber: 3.0 Consensus size: 96
86868538 AAATTAATTT
* * * *
86868548 TTAAGAATGTGTTGGGCTGAGTAAC-CAGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAA
1 TTAAGAGTGTGTTGGGCTGAGTAACTGA-GGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAA
*
86868612 AAGGTTCGATATGTTCTTAAGAAAAATAAAAA
65 AAGGTTCAATATGTTCTTAAGAAAAATAAAAA
* * *
86868644 TTAGGAGTGTGTTGGACTGAGTAACTGAGGTGGGGTGTTTGGCTATCATCTCTCTTCGCGTCAAA
1 TTAAGAGTGTGTTGGGCTGAGTAACTGAGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
86868709 AGGTTCAATATGTTCTTAAGAAAAATAAAAA
66 AGGTTCAATATGTTCTTAAGAAAAATAAAAA
* * * * *
86868740 TTAAGAGTATGTTGGGCTAAGTAA-TCGAGGTGGAGTGCTTGACTATTATCTCTCTTCGCGTCAA
1 TTAAGAGTGTGTTGGGCTGAGTAACT-GAGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAA
* *
86868804 AAGGTTCAATATATTCTTAAGCAAAACTAAAAA
65 AAGGTTCAATATGTTCTTAAG-AAAAATAAAAA
86868837 AAAAAAAAGG
Statistics
Matches: 172, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
95 1 0.01
96 160 0.93
97 11 0.06
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (96 bp):
TTAAGAGTGTGTTGGGCTGAGTAACTGAGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
AGGTTCAATATGTTCTTAAGAAAAATAAAAA
Found at i:86869451 original size:13 final size:13
Alignment explanation
Indices: 86869427--86869462 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
86869417 TTTAATTCCC
86869427 ATTATATTAGGATA
1 ATTAT-TTAGGATA
*
86869441 ATTATTTAGGATT
1 ATTATTTAGGATA
86869454 ATTATTTAG
1 ATTATTTAG
86869463 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (13 bp):
ATTATTTAGGATA
Found at i:86869484 original size:12 final size:13
Alignment explanation
Indices: 86869445--86869486 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
86869435 AGGATAATTA
86869445 TTTAGGA-TTATT
1 TTTAGGATTTATT
86869457 ATTTA-GATTTATT
1 -TTTAGGATTTATT
86869470 TTTAGGATTTATT
1 TTTAGGATTTATT
86869483 TTTA
1 TTTA
86869487 TTTATCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (13 bp):
TTTAGGATTTATT
Found at i:86869489 original size:10 final size:10
Alignment explanation
Indices: 86869476--86869525 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
86869466 TATTTTTAGG
86869476 ATTTATTTTT
1 ATTTATTTTT
*
86869486 ATTTATCTTT
1 ATTTATTTTT
*
86869496 ATTTATCTTT
1 ATTTATTTTT
* *
86869506 AATTATTTGT
1 ATTTATTTTT
86869516 ATTTATTTTT
1 ATTTATTTTT
86869526 TTGGAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:86869489 original size:23 final size:24
Alignment explanation
Indices: 86869445--86869496 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
86869435 AGGATAATTA
*
86869445 TTTAGGATTATTATTTAGATTTATT
1 TTTAGGATTATTATTTA-ATTTATC
86869470 TTTAGGATTTATT-TTT-ATTTATC
1 TTTAGGA-TTATTATTTAATTTATC
86869493 TTTA
1 TTTA
86869497 TTTATCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 10 0.40
25 10 0.40
26 5 0.20
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (24 bp):
TTTAGGATTATTATTTAATTTATC
Found at i:86869552 original size:23 final size:23
Alignment explanation
Indices: 86869526--86869572 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
86869516 ATTTATTTTT
86869526 TTGGAATTTAAGTAGGACTAGAC
1 TTGGAATTTAAGTAGGACTAGAC
86869549 TTGGAATTTAAGTAGGACTAGAC
1 TTGGAATTTAAGTAGGACTAGAC
86869572 T
1 T
86869573 ATCTTTCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (23 bp):
TTGGAATTTAAGTAGGACTAGAC
Done.