Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 666 of 770
Found at i:209368645 original size:80 final size:81
Alignment explanation
Indices: 209368555--209368744 Score: 258
Period size: 80 Copynumber: 2.4 Consensus size: 81
209368545 TAGTGATTCA
* * * *
209368555 CACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTTGGGACTTAACCC
1 CACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACCC
* *
209368620 GGTTTTGGTAACTT-G
66 GGATTTAGTAACTTAG
* * *
209368635 CACAAATGCCTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACC
1 CACAAATGCCTTCGGGACTTAGCCCGGA-TTTAGTAACTCGCACAAATGCCTTCGGGAATTAACC
*
209368699 CGGATTTAGTCACTTAG
65 CGGATTTAGTAACTTAG
*
209368716 CACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CACAAATGCCTTCGGGACTTAGCCCGGAT
209368745 ACCATTCGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 66 0.69
81 25 0.26
82 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACCC
GGATTTAGTAACTTAG
Found at i:209368742 original size:41 final size:40
Alignment explanation
Indices: 209368524--209368744 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
209368514 GCTCGATTGT
* * * * * *
209368524 CTTCGGGACATAGCCAGG-TTATAGTGATTCACACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
*
209368564 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
209368604 CTTTGGGACTTAACCCGGTTTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* *
209368644 CTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TTTAGTAACTCGCACAAATGC
* * * *
209368684 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
209368725 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAGCCCGGAT
209368745 ACCATTCGAA
Statistics
Matches: 152, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 119 0.78
41 31 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:209372441 original size:27 final size:28
Alignment explanation
Indices: 209372385--209372454 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
209372375 AAAATTGTAC
209372385 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
209372413 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
209372440 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
209372455 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:209372465 original size:27 final size:27
Alignment explanation
Indices: 209372385--209372466 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
209372375 AAAATTGTAC
* *
209372385 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
209372413 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
209372440 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
209372467 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:209380160 original size:55 final size:55
Alignment explanation
Indices: 209380064--209380167 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 55
209380054 ACGATTGCTT
** * * * *
209380064 GGCACGGGCGTGTTGCATGCCTGTGTTAATTTGACATGTTCGGCCATGGTTTCAA
1 GGCACGGGCGTGTCACATGCCCGAGTTAATTTGACAGGTTCGCCCATGGTTTCAA
** *
209380119 GGCACGGGCGTGTCACATGCCCGAGTTGTTTTGGCAGGTTCGCCCATGG
1 GGCACGGGCGTGTCACATGCCCGAGTTAATTTGACAGGTTCGCCCATGG
209380168 CGATTTATCG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 40 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (55 bp):
GGCACGGGCGTGTCACATGCCCGAGTTAATTTGACAGGTTCGCCCATGGTTTCAA
Found at i:209392076 original size:80 final size:80
Alignment explanation
Indices: 209391992--209392140 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
209391982 TATGGTAACC
* * * *
209391992 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
209392056 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
209392072 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
209392137 CCGG
66 CCGG
209392141 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:209392082 original size:40 final size:38
Alignment explanation
Indices: 209392033--209392140 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
209392023 ATCACGATTT
*
209392033 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
209392073 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
209392113 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
209392141 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:209395365 original size:39 final size:39
Alignment explanation
Indices: 209395253--209395446 Score: 235
Period size: 39 Copynumber: 4.9 Consensus size: 39
209395243 TCGTTCAAAC
* * ** * *
209395253 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * *
209395293 GCCTTCGGCACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGG-GCTTAGCCCGGATATCATAACTCGCACAATT
** *
209395333 GCCTTCGGGCTTAGCCCGGATATCATGGCTCGCACCATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
209395372 GCCTTCGGGCTTAGCCCGGATATCATAACTCACACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* *
209395411 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
209395447 TTCTTACACA
Statistics
Matches: 131, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 93 0.71
40 38 0.29
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:209400657 original size:24 final size:25
Alignment explanation
Indices: 209400595--209400663 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
209400585 GACTCATCGT
209400595 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGTATGAGCTTACT-ATATATC
* * *
209400621 AGCTTGTAAGAGCTTACTAT-TCTC
1 AGCTCGTATGAGCTTACTATATATC
209400645 AGCTCGTATGAGCTTACTA
1 AGCTCGTATGAGCTTACTA
209400664 ATTCAACTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 20 0.53
25 2 0.05
26 16 0.42
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACTATATATC
Found at i:209402521 original size:31 final size:32
Alignment explanation
Indices: 209402464--209402525 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
209402454 ACGAAGTCAC
*
209402464 CAGATACATATATTGTGGCTAGGCCACCAGAA
1 CAGATACATATATTGTGGCTAAGCCACCAGAA
*
209402496 CAGATATATATA-TGTGG-TGAAGCCACCAGA
1 CAGATACATATATTGTGGCT-AAGCCACCAGA
209402526 TTGCAGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 1 0.04
31 15 0.56
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (32 bp):
CAGATACATATATTGTGGCTAAGCCACCAGAA
Found at i:209407249 original size:46 final size:47
Alignment explanation
Indices: 209407182--209407359 Score: 231
Period size: 46 Copynumber: 3.8 Consensus size: 47
209407172 TGTAACCCGC
*
209407182 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
*
209407228 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C--GTTCGCAT
* * *
209407278 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCGTTCGCAT
209407323 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
209407360 TGCCCAAATA
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 37 0.32
47 32 0.28
48 32 0.28
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
Found at i:209407351 original size:95 final size:93
Alignment explanation
Indices: 209407190--209407363 Score: 312
Period size: 95 Copynumber: 1.8 Consensus size: 93
209407180 GCCCATAAGT
*
209407190 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
209407255 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
209407283 GAACTCGGACTCAACTCAACGAGTTCGGACGCATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGG--GCATTCGCATCCATAAGTGAACTCGGACTCAACTC
209407348 AACGAGTTCGGATGCC
64 AACGAGTTCGGATGCC
209407364 CAAATATCCA
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
93 27 0.35
95 50 0.65
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:209409774 original size:30 final size:30
Alignment explanation
Indices: 209409730--209409818 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
209409720 CAAAGATAAC
209409730 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
209409759 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
209409789 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
209409819 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:209409778 original size:15 final size:15
Alignment explanation
Indices: 209409730--209409809 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
209409720 CAAAGATAAC
*
209409730 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
209409744 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
209409759 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
209409774 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
209409789 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
209409804 AAGAAA
1 AAGAAA
209409810 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:209409818 original size:15 final size:15
Alignment explanation
Indices: 209409741--209409818 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
209409731 AGAAAACCGA
209409741 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
209409756 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
209409770 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
209409785 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
209409801 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
209409816 ATA
1 ATA
209409819 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:209412842 original size:92 final size:93
Alignment explanation
Indices: 209412731--209412902 Score: 301
Period size: 92 Copynumber: 1.9 Consensus size: 93
209412721 CGCCCATAAG
* *
209412731 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
209412795 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
209412823 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
209412888 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
209412903 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 50 0.67
93 25 0.33
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:209412875 original size:46 final size:46
Alignment explanation
Indices: 209412724--209412898 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
209412714 TGTAACCCGC
* *
209412724 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
209412770 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
209412819 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
209412862 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
209412899 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 24 0.22
46 53 0.49
47 24 0.22
48 1 0.01
49 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:209415950 original size:43 final size:42
Alignment explanation
Indices: 209415858--209415971 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
209415848 TATGATTTAT
* *
209415858 ATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGAATTC
1 ATGTAAGACCACGTCTAGGACAGTGGCATCGTATTTGAATTC
* *
209415900 GTGTAAGACC-CTTTCTAGGACAGTGGCATCGATATTTG-ATTGC
1 ATGTAAGACCAC-GTCTAGGACAGTGGCATCG-TATTTGAATT-C
* *
209415943 ATGTAAGATCACGTCTGGGAC-GTCGGCAT
1 ATGTAAGACCACGTCTAGGACAGT-GGCAT
209415972 TGTAGTAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.51
43 27 0.46
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
ATGTAAGACCACGTCTAGGACAGTGGCATCGTATTTGAATTC
Found at i:209423996 original size:33 final size:33
Alignment explanation
Indices: 209423947--209424030 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
209423937 TTTAGATTTA
*
209423947 AACTATAAACTATGAAAAACTATAGACTGAGAC
1 AACTATAGACTATGAAAAACTATAGACTGAGAC
* * *
209423980 AACTATAGATTGTGAAAAGCTATAGACTGAGAC
1 AACTATAGACTATGAAAAACTATAGACTGAGAC
**
209424013 TTCTATAGACTATGAAAA
1 AACTATAGACTATGAAAA
209424031 CTCTAGATAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (33 bp):
AACTATAGACTATGAAAAACTATAGACTGAGAC
Found at i:209424004 original size:17 final size:16
Alignment explanation
Indices: 209423946--209424037 Score: 67
Period size: 16 Copynumber: 5.6 Consensus size: 16
209423936 TTTTAGATTT
* *
209423946 AAACTATAAACTATGAA
1 AAACTATAGACTGTG-A
*
209423963 AAACTATAGACTGAGA
1 AAACTATAGACTGTGA
* *
209423979 CAACTATAGATTGTGA
1 AAACTATAGACTGTGA
*
209423995 AAAGCTATAGACTGAGA
1 AAA-CTATAGACTGTGA
*** *
209424012 CTTCTATAGACTATGA
1 AAACTATAGACTGTGA
*
209424028 AAACTCTAGA
1 AAACTATAGA
209424038 TAGTAGGATA
Statistics
Matches: 56, Mismatches: 18, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
16 33 0.59
17 23 0.41
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:209451119 original size:20 final size:20
Alignment explanation
Indices: 209451089--209451133 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
209451079 CTGTTTTATT
209451089 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
209451108 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
209451128 ATGGGC
1 ATGGGC
209451134 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:209456502 original size:20 final size:20
Alignment explanation
Indices: 209456472--209456516 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
209456462 CTGTTTTATT
209456472 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
209456491 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
209456511 ATGGGC
1 ATGGGC
209456517 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:209466577 original size:39 final size:40
Alignment explanation
Indices: 209466522--209466668 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
209466512 ATAACCACCA
* * *
209466522 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACT
*
209466562 -GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACT
*
209466601 CGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACT
* *
209466641 AGCATAAATGCCTTC-GGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
209466669 TATCATTCAA
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 47 0.48
40 48 0.49
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACT
Found at i:209466607 original size:79 final size:79
Alignment explanation
Indices: 209466502--209466668 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 79
209466492 TCTTTGGAAT
* * *
209466502 TTAG-CCGGATATAACCACCAAGCACAATTGCCTTCGGGTCTTAACCCGGGTAT-AGCAACT-GC
1 TTAGCCCGGATATAACAACC-AGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGC-ACTAGC
*
209466564 ACAAATGCCTTCGGGTC
64 ACAAATGCCTTC-GGAC
*
209466581 TTAGCCCGGATATAACAACTC-GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAGCACTAGCA
1 TTAGCCCGGATATAACAAC-CAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCACTAGCA
*
209466645 TAAATGCCTTCGGAC
65 CAAATGCCTTCGGAC
209466660 TTAGCCCGG
1 TTAGCCCGG
209466669 TATCATTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
79 48 0.62
80 29 0.37
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACAACCAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCACTAGCAC
AAATGCCTTCGGAC
Found at i:209466617 original size:40 final size:40
Alignment explanation
Indices: 209466502--209466668 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
209466492 TCTTTGGAAT
* *
209466502 TTAG-CCGGATATAACCAC-CAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTC--GCACAAATGCCTTCGGGTC
* * *
209466542 TTAACCCGGGTATAGCAACT-GCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
209466581 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
209466621 TTAGCCCGGATATAAGC-ACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
209466660 TTAGCCCGG
1 TTAGCCCGG
209466669 TATCATTCAA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 47 0.42
40 53 0.47
41 12 0.11
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:209474672 original size:40 final size:40
Alignment explanation
Indices: 209474607--209474774 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
209474597 TCTTCGGAAT
* * *
209474607 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *
209474646 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
209474686 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
209474726 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGAGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
209474766 TTAGCCCGG
1 TTAGCCCGG
209474775 GTATCATTCA
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.03
40 109 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:209487421 original size:12 final size:13
Alignment explanation
Indices: 209487393--209487425 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
209487383 TTATTTCTTT
209487393 TTCTCCATCTACC
1 TTCTCCATCTACC
*
209487406 TTCTCC-TCTTCC
1 TTCTCCATCTACC
209487418 TTCTCCAT
1 TTCTCCAT
209487426 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:209488532 original size:28 final size:28
Alignment explanation
Indices: 209488501--209488565 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
209488491 GATTACTAGA
*
209488501 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
209488529 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
209488557 ATACCCCTA
1 ATACCCCTA
209488566 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:209488723 original size:26 final size:28
Alignment explanation
Indices: 209488670--209488758 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 28
209488660 AGGAAGCGTC
*
209488670 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
**
209488698 CTGGTGGC-CTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
209488724 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
209488753 CTGGTG
1 CTGGTG
209488759 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 16 0.31
27 13 0.25
28 16 0.31
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:209488769 original size:29 final size:28
Alignment explanation
Indices: 209488680--209488769 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 28
209488670 CTGGTGGCTA
* *
209488680 TGCCACAAATTATCTGTTCTGGTGGC-C
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
209488707 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
209488734 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
209488763 TGTCACA
1 TGCCACA
209488770 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 16 0.31
27 13 0.25
28 8 0.15
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:209489242 original size:19 final size:18
Alignment explanation
Indices: 209489218--209489260 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
209489208 TTTTAATTAT
* *
209489218 TTTTATGGTTTTGTTTTA
1 TTTTATGATTTTATTTTA
*
209489236 CTTTTATTATTTTATTTTA
1 -TTTTATGATTTTATTTTA
209489255 TTTTAT
1 TTTTAT
209489261 TATATGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTATGATTTTATTTTA
Found at i:209489260 original size:18 final size:19
Alignment explanation
Indices: 209489226--209489263 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
209489216 ATTTTTATGG
*
209489226 TTTTGTTTTACTTTTATTA
1 TTTTATTTTACTTTTATTA
209489245 TTTTATTTTA-TTTTATTA
1 TTTTATTTTACTTTTATTA
209489263 T
1 T
209489264 ATGATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTATTTTACTTTTATTA
Found at i:209495233 original size:12 final size:13
Alignment explanation
Indices: 209495205--209495237 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
209495195 TCTTATTTTT
209495205 TTCTCCATCTACC
1 TTCTCCATCTACC
*
209495218 TTCTCC-TCTTCC
1 TTCTCCATCTACC
209495230 TTCTCCAT
1 TTCTCCAT
209495238 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:209495307 original size:6 final size:7
Alignment explanation
Indices: 209495282--209495306 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
209495272 ATCCTTAATC
209495282 TTTTTAT
1 TTTTTAT
209495289 TTTTTAT
1 TTTTTAT
209495296 TTTTTAT
1 TTTTTAT
209495303 TTTT
1 TTTT
209495307 AGCCTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:209496886 original size:29 final size:29
Alignment explanation
Indices: 209496754--209496878 Score: 216
Period size: 29 Copynumber: 4.3 Consensus size: 29
209496744 TGTTGAAAAA
* *
209496754 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
209496783 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
209496812 CTCGCACACATAGTGCCTCGATTACTGA-
1 CTCGCACACATAGTGCCTCGATTACTGAT
209496840 CTCCGCACACATAGTGCCTCGATTACTGAT
1 CT-CGCACACATAGTGCCTCGATTACTGAT
209496870 CTCGCACAC
1 CTCGCACAC
209496879 GTAATGCCCA
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
28 2 0.02
29 88 0.96
30 2 0.02
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:209498974 original size:37 final size:37
Alignment explanation
Indices: 209498921--209499011 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
209498911 TATAAAAGAA
209498921 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
209498958 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
209498995 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
209499012 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:209499162 original size:49 final size:49
Alignment explanation
Indices: 209499107--209499370 Score: 465
Period size: 49 Copynumber: 5.4 Consensus size: 49
209499097 TTTTACATTA
209499107 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
209499156 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
209499205 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
209499254 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
209499303 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
209499352 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
209499371 CATATATGTA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:209502120 original size:40 final size:41
Alignment explanation
Indices: 209502076--209502174 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
209502066 TCGATTGTCC
* * **
209502076 TCGGGACATAGCCCGG-TTATAGTTA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
209502116 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
209502157 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
209502175 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:209502790 original size:29 final size:29
Alignment explanation
Indices: 209502658--209502782 Score: 232
Period size: 29 Copynumber: 4.3 Consensus size: 29
209502648 TGTTGAAAAA
* *
209502658 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
209502687 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
209502716 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
209502745 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
209502774 CTCGCACAC
1 CTCGCACAC
209502783 GTAATGCCCA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:209504876 original size:37 final size:36
Alignment explanation
Indices: 209504823--209504912 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 36
209504813 TATAAAAGAA
209504823 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
209504860 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
209504896 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
209504913 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
36 11 0.22
37 38 0.78
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:209505063 original size:49 final size:49
Alignment explanation
Indices: 209505008--209505271 Score: 465
Period size: 49 Copynumber: 5.4 Consensus size: 49
209504998 TTTTACATTA
209505008 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
209505057 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
209505106 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
209505155 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
209505204 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
209505253 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
209505272 CATATATGTA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:209509857 original size:46 final size:46
Alignment explanation
Indices: 209509711--209509934 Score: 150
Period size: 47 Copynumber: 4.8 Consensus size: 46
209509701 TGGGTAAGGT
* * * ** *
209509711 GCCGATGCCATGCCCCAGGCATGGTCTTACACTAGCACACGTCTCGT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
* * * * * *
209509758 GTCAATGCCATGTCCCAGACATGGTCTTACACAGAC-TATCATCTTGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CGTCTCG-A
209509806 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
* * * * * * *
209509851 GACCGATTCATGTCCCAAACAT-GCCTCACACTAGCCCT-CGCCTCGA
1 G-CCGATGCATGTCCCAGACATGGTCTTACACT-GGCTTACGTCTCGA
* * *
209509897 TGCTGATTCCATGTCCCATACATGGTCTTACACTGGCT
1 -GCCGA-TGCATGTCCCAGACATGGTCTTACACTGGCT
209509935 CTCATAATAT
Statistics
Matches: 138, Mismatches: 31, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
45 2 0.01
46 53 0.38
47 70 0.51
48 13 0.09
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
Found at i:209536370 original size:12 final size:12
Alignment explanation
Indices: 209536353--209536378 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
209536343 CTAAAGCTTT
209536353 TCTTTTCTCTTC
1 TCTTTTCTCTTC
209536365 TCTTTTCTCTTC
1 TCTTTTCTCTTC
209536377 TC
1 TC
209536379 CATAATTCTC
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTTTCTCTTC
Found at i:209537510 original size:27 final size:27
Alignment explanation
Indices: 209537467--209537733 Score: 258
Period size: 27 Copynumber: 10.4 Consensus size: 27
209537457 ACCCGATAAT
*
209537467 GGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* * *
209537494 GAGTAAAATGACTGTAATACCTCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
209537521 GGGCAAAATGACCGT-A-A----TGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
209537542 GGGTAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
209537569 GGGTAAAATGACCGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
209537596 GGGTAAAATGATCATAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
209537623 GGATAAAAT----G-----CCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
209537641 GGGTAAAATGACCGCAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
209537668 GGGTAGAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
**
209537695 GGGTAAAATGATAGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
209537722 TGGTAAAATGAC
1 GGGTAAAATGAC
209537734 GATTATGCCC
Statistics
Matches: 197, Mismatches: 28, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
18 15 0.08
21 18 0.09
22 2 0.01
25 1 0.01
26 1 0.01
27 160 0.81
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTGTA
Found at i:209537543 original size:21 final size:21
Alignment explanation
Indices: 209537517--209537560 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
209537507 GTAATACCTC
209537517 TGTAGGGCAAAATGACCGTAA
1 TGTAGGGCAAAATGACCGTAA
*
209537538 TGTAGGGTAAAATGACCGTAA
1 TGTAGGGCAAAATGACCGTAA
209537559 TG
1 TG
209537561 CCCCTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.23
Consensus pattern (21 bp):
TGTAGGGCAAAATGACCGTAA
Found at i:209537598 original size:75 final size:75
Alignment explanation
Indices: 209537467--209537687 Score: 243
Period size: 75 Copynumber: 3.0 Consensus size: 75
209537457 ACCCGATAAT
* * * * * *
209537467 GGGTAAAATGACCGTAATGCCCCTGTAGAGTAAAATGACTGTAATACCTCTGTAGGGCAAAATGA
1 GGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
*
209537532 CCGTAATGTA
66 CCGTAATGCA
209537542 GGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
1 GGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
* * * *
209537607 TCATAATACCC
66 CCGTAAT-GCA
** ** * * *
209537618 CTGTAGGAT-A---AAATGCCCCTATAGGGTAAAATGACCGCAATACCCCTATAGGGTAGAATGA
1 GGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
209537679 CCGTAATGC
66 CCGTAATGC
209537688 CCCTGTAGGG
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
71 1 0.01
72 53 0.43
75 65 0.52
76 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (75 bp):
GGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
CCGTAATGCA
Found at i:209537642 original size:18 final size:18
Alignment explanation
Indices: 209537615--209537650 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
209537605 GATCATAATA
*
209537615 CCCCTGTAGGATAAAATG
1 CCCCTATAGGATAAAATG
*
209537633 CCCCTATAGGGTAAAATG
1 CCCCTATAGGATAAAATG
209537651 ACCGCAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
CCCCTATAGGATAAAATG
Found at i:209537660 original size:72 final size:72
Alignment explanation
Indices: 209537557--209537704 Score: 242
Period size: 72 Copynumber: 2.1 Consensus size: 72
209537547 AAATGACCGT
* *
209537557 AATGCCCCTATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGATCATAATACCCCTGT
1 AATGCCCCTATAGGGTAAAATGACCGCAATACCCCTATAGGGTAAAATGACCATAATACCCCTGT
209537622 AGGATAA
66 AGGATAA
* * *
209537629 AATGCCCCTATAGGGTAAAATGACCGCAATACCCCTATAGGGTAGAATGACCGTAATGCCCCTGT
1 AATGCCCCTATAGGGTAAAATGACCGCAATACCCCTATAGGGTAAAATGACCATAATACCCCTGT
*
209537694 AGGGTAA
66 AGGATAA
209537701 AATG
1 AATG
209537705 ATAGTAATAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (72 bp):
AATGCCCCTATAGGGTAAAATGACCGCAATACCCCTATAGGGTAAAATGACCATAATACCCCTGT
AGGATAA
Found at i:209537691 original size:99 final size:100
Alignment explanation
Indices: 209537467--209537733 Score: 353
Period size: 99 Copynumber: 2.6 Consensus size: 100
209537457 ACCCGATAAT
* * * *
209537467 GGGTAAAATGACCGTAATGCCCCTGTAGAGTAAAATGA-CTGTAATACCTCTGTAGGGCAAAATG
1 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATC-ATAATACCCCTGTA-GGTAAAATG
* * *
209537531 ACCGTAATGTAGGGTAAAATGACCGTAATGCCCCTATA
64 ACCCTAA-GTAGGGTAAAATGACCGCAATACCCCTATA
* * *
209537569 GGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGATCATAATACCCCTGTAGGATAAAATGC
1 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCATAATACCCCTGTAGG-TAAAATGA
209537634 CCCT-A-TAGGGTAAAATGACCGCAATACCCCTATA
65 CCCTAAGTAGGGTAAAATGACCGCAATACCCCTATA
*
209537668 GGGTAGAATGACCGTAATGCCCCTGTAGGGTAAAATGAT-AGTAATACCCCTGTATGGTAAAATG
1 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCA-TAATACCCCTGTA-GGTAAAATG
209537732 AC
64 AC
209537734 GATTATGCCC
Statistics
Matches: 147, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
98 1 0.01
99 84 0.57
100 2 0.01
101 3 0.02
102 56 0.38
103 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (100 bp):
GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGATCATAATACCCCTGTAGGTAAAATGAC
CCTAAGTAGGGTAAAATGACCGCAATACCCCTATA
Found at i:209540048 original size:40 final size:39
Alignment explanation
Indices: 209540003--209540210 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
209539993 CGGAATACAA
*
209540003 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
209540043 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
209540083 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
209540123 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
209540163 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
209540203 CCGGATAT
1 CCGGATAT
209540211 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:209540143 original size:80 final size:80
Alignment explanation
Indices: 209540003--209540209 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
209539993 CGGAATACAA
* * *
209540003 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
209540067 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
209540083 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
209540147 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
209540163 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
209540210 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:209548207 original size:39 final size:40
Alignment explanation
Indices: 209548054--209548259 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 40
209548044 CGGAATACAA
* * *
209548054 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
209548094 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATAGAACAACTTGCACGAATGCCTTCGGGTCTTAGC
**
209548134 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
209548174 CCGGATGGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAGAACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
* ** * ** * *
209548213 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATAGAACAACTTGCACGAATGCCTTCGGGTCTTAGC
209548253 CCGGATA
1 CCGGATA
209548260 TCATTCAATT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
38 3 0.02
39 28 0.20
40 104 0.75
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATAGAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:209548243 original size:79 final size:80
Alignment explanation
Indices: 209548054--209548259 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 80
209548044 CGGAATACAA
* * *
209548054 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
209548118 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * * **
209548134 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGGGTC-ACTAGCAC-AATG
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT-
*
209548197 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * *
209548213 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
209548260 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.03
79 59 0.56
80 44 0.42
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:209550602 original size:40 final size:40
Alignment explanation
Indices: 209550565--209550790 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
209550555 GCTACTCGTT
* * *
209550565 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
209550605 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
209550645 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
209550685 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * *
209550725 CAAATGCCTTC-GGATCTTATTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
209550766 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
209550791 CATCATTCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:209551431 original size:34 final size:37
Alignment explanation
Indices: 209551386--209551470 Score: 140
Period size: 34 Copynumber: 2.4 Consensus size: 37
209551376 AGGCTACCTA
209551386 TGGCCGAACATACACATCAA-TC-ATACTCATTCAT-
1 TGGCCGAACATACACATCAACTCTATACTCATTCATG
*
209551420 TGGCTGAACATACACATCAACTCTATACTCATTCATG
1 TGGCCGAACATACACATCAACTCTATACTCATTCATG
209551457 TGGCCGAACATACA
1 TGGCCGAACATACA
209551471 TGTCTATGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 19 0.41
35 2 0.04
36 12 0.26
37 13 0.28
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (37 bp):
TGGCCGAACATACACATCAACTCTATACTCATTCATG
Found at i:209552764 original size:28 final size:27
Alignment explanation
Indices: 209552718--209552777 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
209552708 ACTATATTGA
* * *
209552718 TACTGTATTGTGCTTAGGCCCACACTG
1 TACTGTATAGAGCTAAGGCCCACACTG
*
209552745 TTACTGTATAGAGCTAAGGCCCAGACTG
1 -TACTGTATAGAGCTAAGGCCCACACTG
209552773 TACTG
1 TACTG
209552778 ATACTGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (27 bp):
TACTGTATAGAGCTAAGGCCCACACTG
Found at i:209552798 original size:33 final size:34
Alignment explanation
Indices: 209552741--209552811 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
209552731 TTAGGCCCAC
* *
209552741 ACTGTTACTGTATAGAGCTAAGGCCCAGACTG-T
1 ACTGATACTGAATAGAGCTAAGGCCCAGACTGTT
* *
209552774 ACTGATACTGAATAGGGCTCAGGCCCAGACTGTT
1 ACTGATACTGAATAGAGCTAAGGCCCAGACTGTT
209552808 ACTG
1 ACTG
209552812 CATGCACCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
ACTGATACTGAATAGAGCTAAGGCCCAGACTGTT
Found at i:209554029 original size:27 final size:27
Alignment explanation
Indices: 209553968--209554064 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
209553958 TTTTCTATAG
* *
209553968 AGGCTTTTCTTGCATGATTTGCC-GTAA
1 AGGCTTTTCTTTCATGATTCGCCAG-AA
* *
209553995 AAGTTTTTCTTTCATGATTCGCCAGAA
1 AGGCTTTTCTTTCATGATTCGCCAGAA
** *
209554022 AGGCTTTTCTTTTGTGATTCGCCACAA
1 AGGCTTTTCTTTCATGATTCGCCAGAA
*
209554049 AGGCTTCT-TTTCATGA
1 AGGCTTTTCTTTCATGA
209554065 CATGTTCACG
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
26 6 0.11
27 50 0.88
28 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGCTTTTCTTTCATGATTCGCCAGAA
Found at i:209554909 original size:31 final size:31
Alignment explanation
Indices: 209554872--209554932 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
209554862 AAAAGAAAGA
209554872 AAAAAAACTCTCCCTTTCTCTATGCTTAATG
1 AAAAAAACTCTCCCTTTCTCTATGCTTAATG
209554903 AAAAAAACTCTCCCTTTCTCTATGCTTAAT
1 AAAAAAACTCTCCCTTTCTCTATGCTTAAT
209554933 ATGTAACACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (31 bp):
AAAAAAACTCTCCCTTTCTCTATGCTTAATG
Found at i:209557976 original size:28 final size:28
Alignment explanation
Indices: 209557944--209558013 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
209557934 AATGAGATTG
*
209557944 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
209557972 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
209558000 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
209558014 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:209565279 original size:2 final size:2
Alignment explanation
Indices: 209565272--209565301 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
209565262 CACATTCGGC
209565272 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
209565302 AATGTATGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:209565884 original size:28 final size:28
Alignment explanation
Indices: 209565852--209565921 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
209565842 AATGAGATTG
*
209565852 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
209565880 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
209565908 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
209565922 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:209569208 original size:29 final size:29
Alignment explanation
Indices: 209569175--209569262 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
209569165 GTGACGAGAT
209569175 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
209569204 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
209569233 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
209569262 T
1 T
209569263 AACACTATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:209569297 original size:29 final size:29
Alignment explanation
Indices: 209569175--209569297 Score: 147
Period size: 29 Copynumber: 4.2 Consensus size: 29
209569165 GTGACGAGAT
* *
209569175 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
209569204 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209569233 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
** * * *
209569262 TAACACTATGTGCGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209569291 CGGCACT
1 TGGCACT
209569298 GGGTGTGCGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:209576851 original size:29 final size:29
Alignment explanation
Indices: 209576818--209576905 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
209576808 GTGACGAGAT
209576818 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
209576847 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
209576876 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
209576905 T
1 T
209576906 AACACTATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:209576940 original size:29 final size:29
Alignment explanation
Indices: 209576818--209576940 Score: 147
Period size: 29 Copynumber: 4.2 Consensus size: 29
209576808 GTGACGAGAT
* *
209576818 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
209576847 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209576876 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
** * * *
209576905 TAACACTATGTGCGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
209576934 CGGCACT
1 TGGCACT
209576941 GGGTGTGCGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:209583299 original size:42 final size:42
Alignment explanation
Indices: 209583252--209583373 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
209583242 TACCATACCA
* * *
209583252 ATGTCATATCTCAGATATGGTCTGACATGTGATCTCACATCG
1 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCACATCG
* * * *
209583294 ATGTCAATAGCCCAGTTATGGTCTTATACG-AAGTCTCACATCG
1 ATGTC-ATATCCCAGATATGGTCTTACATGTAA-TCTCACATCG
*
209583337 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCA
209583374 ACAAACGCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACATGTAATCTCACATCG
Found at i:209585006 original size:3 final size:3
Alignment explanation
Indices: 209584998--209585034 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
209584988 TGATTCCATA
209584998 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
209585035 TAGAATGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:209587852 original size:38 final size:39
Alignment explanation
Indices: 209587805--209587900 Score: 126
Period size: 38 Copynumber: 2.5 Consensus size: 39
209587795 GGACTAGGAT
*
209587805 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
* * *
209587843 CCGAAGGCATT--TGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAG-C
209587881 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
209587901 CGCTATATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
36 21 0.43
38 22 0.45
40 6 0.12
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
Found at i:209587923 original size:38 final size:37
Alignment explanation
Indices: 209587881--209587952 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
209587871 GGGTTAAGTC
*
209587881 CCGAAGGCATTCGTGCGAGTCGCTATATACCGGTTCGT
1 CCGAAGGCATTCGAGCGAGTCGCTATAT-CCGGTTCGT
* *
209587919 CCGAAGGCATTTGAGCGAGTCGTTATATCCGGTT
1 CCGAAGGCATTCGAGCGAGTCGCTATATCCGGTT
209587953 AAATTCCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 6 0.19
38 25 0.81
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (37 bp):
CCGAAGGCATTCGAGCGAGTCGCTATATCCGGTTCGT
Found at i:209595846 original size:39 final size:40
Alignment explanation
Indices: 209595746--209595927 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
209595736 TCGAATGATG
* * *
209595746 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
209595786 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
209595826 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
209595864 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
209595905 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
209595928 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:209595891 original size:78 final size:80
Alignment explanation
Indices: 209595746--209595927 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
209595736 TCGAATGATG
* * * *
209595746 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
209595811 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
209595826 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
209595888 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
209595905 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
209595928 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:209600018 original size:17 final size:18
Alignment explanation
Indices: 209599976--209600024 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
209599966 AGTTGAAAAG
209599976 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
209599995 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
209600012 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
209600025 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:209600912 original size:40 final size:40
Alignment explanation
Indices: 209600846--209601012 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
209600836 AAATTGAATG
* * *
209600846 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
209600885 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
209600925 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
209600965 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
209601005 ATATCCGG
1 ATATCCGG
209601013 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:209608015 original size:17 final size:18
Alignment explanation
Indices: 209607973--209608021 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
209607963 AGTTGAAAAG
209607973 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
209607992 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
209608009 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
209608022 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:209608909 original size:40 final size:40
Alignment explanation
Indices: 209608843--209609009 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
209608833 AAATTGAATG
* * *
209608843 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
209608882 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
209608922 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
209608962 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
209609002 ATATCCGG
1 ATATCCGG
209609010 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:209618460 original size:2 final size:2
Alignment explanation
Indices: 209618453--209618492 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
209618443 TAAAAGAAAG
209618453 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
209618493 AAATTAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:209620791 original size:19 final size:19
Alignment explanation
Indices: 209620769--209620809 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
209620759 TTATTAATAA
209620769 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTAAAAATTAT
**
209620788 TTTGAATTTTGGAAATTAT
1 TTTGAATTTTAAAAATTAT
209620807 TTT
1 TTT
209620810 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTGAATTTTAAAAATTAT
Found at i:209620999 original size:14 final size:14
Alignment explanation
Indices: 209620980--209621013 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
209620970 TTAACTCAAA
209620980 TAATTTGAATAACT
1 TAATTTGAATAACT
*
209620994 TAATTTGATTAACT
1 TAATTTGAATAACT
*
209621008 CAATTT
1 TAATTT
209621014 AAAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (14 bp):
TAATTTGAATAACT
Found at i:209623354 original size:2 final size:2
Alignment explanation
Indices: 209623347--209623384 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
209623337 GTTGTATGTG
* *
209623347 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
209623385 CCTTGAATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:209628807 original size:18 final size:18
Alignment explanation
Indices: 209628784--209628872 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
209628774 CGTTTACGGT
209628784 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
*
209628802 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
*
209628820 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGC
* * * *
209628838 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
209628856 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
209628873 TAGTTGGGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:209628829 original size:36 final size:36
Alignment explanation
Indices: 209628782--209628872 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
209628772 ACCGTTTACG
*
209628782 GTACTATTCACGTATACAGCACTATTCACGTATACA
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
* * *
209628818 GTACTATTCACGTATACGGCACTATTTACGAATACG
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
*
209628854 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
209628873 TAGTTGGGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGAATACA
Found at i:209644637 original size:40 final size:40
Alignment explanation
Indices: 209644582--209644852 Score: 447
Period size: 40 Copynumber: 6.8 Consensus size: 40
209644572 AGATGATAAT
* * *
209644582 CGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
209644622 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
209644662 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
*
209644702 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
209644742 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
**
209644782 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
209644822 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
209644853 AGCTATATCC
Statistics
Matches: 220, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 219 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:209649645 original size:24 final size:24
Alignment explanation
Indices: 209649402--209649643 Score: 405
Period size: 24 Copynumber: 10.1 Consensus size: 24
209649392 GCAAAGACCA
*
209649402 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
209649426 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
209649450 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
209649474 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
209649498 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
209649522 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
209649546 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
209649570 TAT-GCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
209649593 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
209649617 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
209649641 TAT
1 TAT
209649644 AGTCACATTC
Statistics
Matches: 210, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 23 0.11
24 187 0.89
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:209656822 original size:29 final size:29
Alignment explanation
Indices: 209656797--209656890 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
209656787 TCACACACCC
* * *
209656797 AGTGCCGTATTTTTCCAGCATGCACAGTT
1 AGTGCCATATATTTCCAGCATGCACACTT
209656826 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
209656855 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
209656884 AGTGCCA
1 AGTGCCA
209656891 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:209663933 original size:29 final size:29
Alignment explanation
Indices: 209663909--209664002 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
209663899 TCGCACACCC
* * *
209663909 AGTGCCGTATTTTTCCAGCATGCACAATT
1 AGTGCCATATATTTCCAGCATGCACACTT
209663938 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
209663967 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
209663996 AGTGCCA
1 AGTGCCA
209664003 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:209663944 original size:58 final size:58
Alignment explanation
Indices: 209663871--209664002 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
209663861 AATTTAAGCC
* * * *
209663871 CGCACACA-TAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACA-ATTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
209663929 TGCACAATTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACAATTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
*
209663987 CGCACACTTAGTGCCA
1 CGCACAATTAGTGCCA
209664003 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
57 1 0.02
58 59 0.97
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACAATTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:209665930 original size:19 final size:20
Alignment explanation
Indices: 209665906--209665943 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
209665896 TGGTACACCA
209665906 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
209665925 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
209665944 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:209666283 original size:93 final size:93
Alignment explanation
Indices: 209666173--209666343 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
209666163 GCCCCTAAGT
* *
209666173 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
209666238 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
209666266 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
209666331 CGAGTTCGGATGC
66 CGAGTTCGGATGC
209666344 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:209666340 original size:46 final size:46
Alignment explanation
Indices: 209666168--209666340 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
209666158 AACCCGCCCC
* * *
209666168 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
209666214 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
209666262 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
209666307 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
209666341 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:209673500 original size:19 final size:20
Alignment explanation
Indices: 209673476--209673513 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
209673466 TGGTACACCA
209673476 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
209673495 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
209673514 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:209673899 original size:92 final size:92
Alignment explanation
Indices: 209673742--209673910 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
209673732 GCCCCTAAGT
* *
209673742 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
209673807 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
209673834 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
209673898 CGAGTTCGGATGC
65 CGAGTTCGGATGC
209673911 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 10 0.14
92 63 0.86
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:209673907 original size:45 final size:44
Alignment explanation
Indices: 209673741--209673907 Score: 203
Period size: 45 Copynumber: 3.7 Consensus size: 44
209673731 CGCCCCTAAG
* * *
209673741 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAA
* *
209673786 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCATCCATAA
*
209673833 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
209673877 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGA
209673908 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 57 0.54
47 31 0.30
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
Found at i:209677740 original size:40 final size:39
Alignment explanation
Indices: 209677573--209677754 Score: 265
Period size: 39 Copynumber: 4.6 Consensus size: 39
209677563 AATGTTCGAG
209677573 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
209677612 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
209677651 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
209677690 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
209677730 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
209677755 TGTTTGAACG
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 90 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:209685216 original size:40 final size:39
Alignment explanation
Indices: 209685049--209685230 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
209685039 AATGTTCGAG
*
209685049 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
209685088 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
209685127 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
209685166 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
209685206 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
209685231 TGTTTTGAAC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:209690507 original size:31 final size:31
Alignment explanation
Indices: 209690464--209690542 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
209690454 TTTAACGGTT
*
209690464 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
209690495 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
209690526 ATTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
209690543 CCTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:209690690 original size:24 final size:24
Alignment explanation
Indices: 209690663--209690719 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
209690653 CCGTACCAAC
209690663 CAACACACCATGTGGGGAATGATT
1 CAACACACCATGTGGGGAATGATT
209690687 CAACACACCATGTGGGGAATGATT
1 CAACACACCATGTGGGGAATGATT
*
209690711 CAACCCACC
1 CAACACACC
209690720 CAACCAACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (24 bp):
CAACACACCATGTGGGGAATGATT
Found at i:209690897 original size:52 final size:51
Alignment explanation
Indices: 209690795--209690914 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 51
209690785 AACTGGGGTA
*
209690795 AAGCCCTTTTCGGTAAACTGGGGCGAAGCCCTTTTCAATAAACTAGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCGAAGCCCTTTTCAATAAACGAGGGCAT
* *
209690846 AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACGGGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGC-GAAGCCCTTTTCAATAAACGAGGGCAT
209690898 AAGCCCTTTTCGGTAAA
1 AAGCCCTTTTCGGTAAA
209690915 TTTTCAATAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
51 24 0.37
52 41 0.63
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (51 bp):
AAGCCCTTTTCGGTAAACTGGGGCGAAGCCCTTTTCAATAAACGAGGGCAT
Found at i:209690914 original size:26 final size:26
Alignment explanation
Indices: 209690785--209690914 Score: 174
Period size: 26 Copynumber: 5.1 Consensus size: 26
209690775 CTCTTTTAAT
*
209690785 AACTGGGGTA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
209690810 AACTGGGGC-GAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
209690835 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
209690861 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
209690887 AACGGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
209690913 AA
1 AA
209690915 TTTTCAATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 29 0.32
26 61 0.68
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:209691808 original size:26 final size:26
Alignment explanation
Indices: 209691742--209691843 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
209691732 GGGCATATTC
209691742 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
209691769 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * ***
209691796 GTCTTTTTACCTATTAAGGGTATTTTA
1 GTCATTTTACCTA-CAAGGGTATTACG
*
209691823 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
209691844 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
26 5 0.09
27 46 0.79
28 7 0.12
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:209691890 original size:27 final size:27
Alignment explanation
Indices: 209691864--209691993 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
209691854 ATCTACAAAC
*
209691864 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
209691891 CAATGGTATTTCTA-AAATTTT-TAAAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
*
209691920 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
209691947 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
209691974 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
209691994 CACAATAGAA
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 55 0.68
28 7 0.09
29 17 0.21
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:209691966 original size:56 final size:54
Alignment explanation
Indices: 209691864--209691993 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 54
209691854 ATCTACAAAC
*
209691864 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTAAAATTTTTAAAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTAAAA-TTTTAAAAA-T
* * * ** *
209691920 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-AAAATTTTAAAAAT
**
209691974 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
209691994 CACAATAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 18 0.29
55 9 0.14
56 36 0.57
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTAAAATTTTAAAAAT
Found at i:209692037 original size:27 final size:27
Alignment explanation
Indices: 209692004--209692088 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
209691994 CACAATAGAA
*
209692004 GGTAAAACGGTAATTTTGT-AAGCTGAG
1 GGTAAAACGGTAATTTTGTAAATC-GAG
*
209692031 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAACGGTAATTTTGTAAATCGAG
** *
209692058 GGTAAAACAATAATTTTATAAATCGAG
1 GGTAAAACGGTAATTTTGTAAATCGAG
209692085 GGTA
1 GGTA
209692089 CTTTGGTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 48 0.94
28 3 0.06
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.31
Consensus pattern (27 bp):
GGTAAAACGGTAATTTTGTAAATCGAG
Found at i:209694410 original size:31 final size:30
Alignment explanation
Indices: 209694331--209694443 Score: 133
Period size: 31 Copynumber: 3.7 Consensus size: 30
209694321 TTAGTCTTGA
209694331 CATATACTGGGCCGAAGCC-TTTCATATAA-
1 CATATACTGGGCCGAAGCCTTTTCATA-AAT
* * *
209694360 CGGT-TACGGGGCTGAAGCCTTTTCATAAAT
1 C-ATATACTGGGCCGAAGCCTTTTCATAAAT
209694390 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
*
209694421 CATATCATTGGGCCGAAGCCTTT
1 CATAT-ACTGGGCCGAAGCCTTT
209694444 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
29 17 0.24
30 10 0.14
31 45 0.62
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:209694690 original size:25 final size:26
Alignment explanation
Indices: 209694649--209694758 Score: 165
Period size: 26 Copynumber: 4.3 Consensus size: 26
209694639 CTGGAGGCCT
209694649 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
209694673 AGCCCTTTTCAGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
209694698 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
209694724 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
209694750 AGCACTTTT
1 AGCCCTTTT
209694759 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
23 5 0.06
24 6 0.08
25 34 0.43
26 35 0.44
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:209694732 original size:51 final size:49
Alignment explanation
Indices: 209694649--209694758 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 49
209694639 CTGGAGGCCT
*
209694649 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
209694698 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATA
*
209694750 AGCACTTTT
1 AGCCCTTTT
209694759 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
48 5 0.09
49 7 0.13
50 10 0.18
51 24 0.44
52 9 0.16
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
Found at i:209697916 original size:47 final size:47
Alignment explanation
Indices: 209697846--209698285 Score: 664
Period size: 47 Copynumber: 9.3 Consensus size: 47
209697836 GTATGAGATA
* *
209697846 TATATATGTGATACGGCCGAATGGCAAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
209697893 CATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
209697940 TATAGATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
209697987 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
209698034 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
209698081 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
209698128 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 --TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
209698177 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
209698224 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
209698271 TATAAATGTGATAAG
1 TATATATGTGATAAG
209698286 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 313 0.87
49 45 0.13
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:209697973 original size:22 final size:22
Alignment explanation
Indices: 209697945--209698067 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
209697935 AAGTGTATAG
209697945 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
209697967 ATGTGATGAATG-TGAAAGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
* *
209697991 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
209698014 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
209698038 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
209698061 ATGTGAT
1 ATGTGAT
209698068 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 25 0.36
23 13 0.19
24 13 0.19
25 18 0.26
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:209700295 original size:30 final size:30
Alignment explanation
Indices: 209700259--209700418 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
209700249 GACAAGATTG
* * * * *
209700259 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
209700289 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
209700317 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
209700346 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
209700376 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
209700405 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
209700419 GATTCACATA
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:209700386 original size:59 final size:57
Alignment explanation
Indices: 209700259--209700418 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
209700249 GACAAGATTG
* * * * * *
209700259 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
209700317 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
209700376 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
209700419 GATTCACATA
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:209711218 original size:40 final size:40
Alignment explanation
Indices: 209711173--209711340 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
209711163 CGGAATATAA
209711173 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
209711213 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
209711253 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
209711293 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209711333 CCGGATAT
1 CCGGATAT
209711341 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209719235 original size:40 final size:40
Alignment explanation
Indices: 209719190--209719357 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
209719180 CGGAATATAA
209719190 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
209719230 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
209719270 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
209719310 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
209719350 CCGGATAT
1 CCGGATAT
209719358 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:209725454 original size:46 final size:45
Alignment explanation
Indices: 209725387--209725556 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
209725377 AACCCGCCCC
* *
209725387 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCATCCA
* * *
209725433 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTAGCATCCA
* * * *
209725479 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCATCCA
209725525 T-AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
209725557 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 2 0.02
45 31 0.30
46 66 0.63
47 4 0.04
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTAGCATCCA
Found at i:209725557 original size:91 final size:92
Alignment explanation
Indices: 209725392--209725560 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
209725382 GCCCCTAAGT
* *
209725392 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
209725457 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
* *
209725484 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
209725548 CGAGTTCGGATGC
66 CGAGTTCGGATGC
209725561 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 35 0.48
92 38 0.52
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:209726010 original size:30 final size:30
Alignment explanation
Indices: 209725976--209726035 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
209725966 ATTTAATACG
209725976 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
209726006 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
209726036 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:209733006 original size:46 final size:44
Alignment explanation
Indices: 209732939--209733108 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 44
209732929 AACCCGCCCC
*
209732939 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TT-GCATCCA
* * *
209732985 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-CTTGCATCCA
* * *
209733031 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTGCATCCA
209733076 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
209733109 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 31 0.30
46 63 0.60
47 3 0.03
48 2 0.02
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTGCATCCA
Found at i:209733100 original size:91 final size:92
Alignment explanation
Indices: 209732944--209733112 Score: 304
Period size: 91 Copynumber: 1.8 Consensus size: 92
209732934 GCCCCTAAGT
* *
209732944 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
209733009 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
209733036 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
209733100 CGAGTTCGGATGC
66 CGAGTTCGGATGC
209733113 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 44 0.59
92 30 0.41
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:209733565 original size:30 final size:30
Alignment explanation
Indices: 209733531--209733590 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
209733521 ATTTAATACG
209733531 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
209733561 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
209733591 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:209734913 original size:8 final size:8
Alignment explanation
Indices: 209734902--209734938 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
209734892 ACTTTCGACT
209734902 TTTCGGCA
1 TTTCGGCA
*
209734910 TTTCGGCT
1 TTTCGGCA
209734918 TTTCGGCA
1 TTTCGGCA
*
209734926 TTTCAGCA
1 TTTCGGCA
209734934 TTTCG
1 TTTCG
209734939 ATTTTTGCCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (8 bp):
TTTCGGCA
Found at i:209734919 original size:16 final size:16
Alignment explanation
Indices: 209734894--209734929 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
209734884 GTAGCCGAAC
209734894 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCGGCA
*
209734910 TTTCGGCTTTTCGGCA
1 TTTCGACTTTTCGGCA
209734926 TTTC
1 TTTC
209734930 AGCATTTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.25, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Done.