Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 222 of 438
Found at i:68612161 original size:42 final size:42
Alignment explanation
Indices: 68612080--68612161 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
68612070 ACAAGTCAGT
* * * *
68612080 GAGTTACACGGCCTGGTACACAGGCGTGTGGGGCAACTCAAA
1 GAGTTACACGACCTGGAACACAGGCGTGTGAGCCAACTCAAA
* *
68612122 GAGTTACACGACCTGGAACACGGGCGTGTGAGCCTACTCA
1 GAGTTACACGACCTGGAACACAGGCGTGTGAGCCAACTCA
68612162 GTGAACTACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.17
Consensus pattern (42 bp):
GAGTTACACGACCTGGAACACAGGCGTGTGAGCCAACTCAAA
Found at i:68612760 original size:147 final size:147
Alignment explanation
Indices: 68612397--68612818 Score: 632
Period size: 146 Copynumber: 2.9 Consensus size: 147
68612387 GTTTTTTTTA
*
68612397 TTATAATTTGTTTATGTTATTGAATGAAGTTAAGTTTAAATGTTTTTGATTGTACGGTAATGCTC
1 TTATAATTTTTTTATGTTATTGAATGAAGTTAAGTTTAAATGTTTTTGATTGTACGGTAATGCTC
* * * *** *
68612462 TATGACCTTAAATCGGTGATGGATATGGGTTAGAGGTGTTACAGGCCATTTCACTCTTTGCTAAT
66 TATGACCCTAAACCGGCGACAAATATGGGTTAGAGGTGTTACAGGCCACTTCACTCTTTGCTAAT
68612527 GTACGTATATATTTTGT
131 GTACGTATATATTTTGT
*
68612544 TTATAA-TTTTTTATGTTATTGAATGAAGTTAAGTTTATATGTTTTTGATTGTACGGTAATGCTC
1 TTATAATTTTTTTATGTTATTGAATGAAGTTAAGTTTAAATGTTTTTGATTGTACGGTAATGCTC
* * *
68612608 TATGACCCTAAACCAGCGACAAATATGGGTTAGAGGTGTTATAGGCCACTTCTCTCTTTGCTAAT
66 TATGACCCTAAACCGGCGACAAATATGGGTTAGAGGTGTTACAGGCCACTTCACTCTTTGCTAAT
* *
68612673 GTA-TTCATATGTTTTGT
131 GTACGT-ATATATTTTGT
* * *
68612690 TTATAATTTTTTTATGTTATTGAGTGAAGTTAAGTTTAAATGTTTCTGATTGTATGGTAATGCTC
1 TTATAATTTTTTTATGTTATTGAATGAAGTTAAGTTTAAATGTTTTTGATTGTACGGTAATGCTC
* * * *
68612755 TATGACCCTAAACTGGCGACAAACATGGGTTAGAGGTGTTACAGGCTACTTCGCTCTTTGCTAA
66 TATGACCCTAAACCGGCGACAAATATGGGTTAGAGGTGTTACAGGCCACTTCACTCTTTGCTAA
68612819 CTTTTCAGTA
Statistics
Matches: 249, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
145 1 0.00
146 130 0.52
147 118 0.47
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (147 bp):
TTATAATTTTTTTATGTTATTGAATGAAGTTAAGTTTAAATGTTTTTGATTGTACGGTAATGCTC
TATGACCCTAAACCGGCGACAAATATGGGTTAGAGGTGTTACAGGCCACTTCACTCTTTGCTAAT
GTACGTATATATTTTGT
Found at i:68617446 original size:35 final size:35
Alignment explanation
Indices: 68617402--68617568 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
68617392 TCCTCATTGA
** *
68617402 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
68617437 AATGCCATACCTACATTTCTTAACTCAGTATGGGTTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT--G---GAT
* *
68617477 AATACCATCCCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
68617512 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
68617547 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
68617569 CTTTGTCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 84 0.73
36 2 0.02
38 1 0.01
39 2 0.02
40 26 0.23
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:68617490 original size:75 final size:74
Alignment explanation
Indices: 68617398--68617568 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 74
68617388 GTTTTCCTCA
** * * **
68617398 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
68617462 CAGTATGGGT
65 CAGTATGGGT
* *
68617472 TTGATAATACCATCCCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
68617537 CAGTAT-GG-
65 CAGTATGGGT
*
68617545 ATG--ATACCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
68617569 CTTTGTCATG
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
70 20 0.24
73 2 0.02
74 9 0.11
75 54 0.64
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGGT
Found at i:68620203 original size:29 final size:27
Alignment explanation
Indices: 68620169--68620271 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
68620159 TACTCAATCA
*
68620169 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
68620198 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
68620227 CGCACACTTAGTGCCATAAATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
68620256 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
68620272 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:68626327 original size:45 final size:45
Alignment explanation
Indices: 68626259--68626352 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
68626249 TAATTCATGG
68626259 GCTTAGGCCATAATGGGTCGAATGGGCTAATGGGCCTGTAGGCCC
1 GCTTAGGCCATAATGGGTCGAATGGGCTAATGGGCCTGTAGGCCC
* *
68626304 GCTTAGTCCATAATGGGTTGAATGGGCTAATGGGCCTGTAGGCCC
1 GCTTAGGCCATAATGGGTCGAATGGGCTAATGGGCCTGTAGGCCC
68626349 GCTT
1 GCTT
68626353 GTGTAAATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (45 bp):
GCTTAGGCCATAATGGGTCGAATGGGCTAATGGGCCTGTAGGCCC
Found at i:68626734 original size:27 final size:26
Alignment explanation
Indices: 68626693--68626979 Score: 269
Period size: 27 Copynumber: 10.7 Consensus size: 26
68626683 CCAAACTGTT
68626693 TAAAATTA-TCGAAATACCCTCGATTTG
1 TAAAATTACT-GAAATACCCTC-ATTTG
*
68626720 TAAAATTACTAAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTC-ATTTG
** *
68626747 TAAAATTACCAAAATACCCCCAATTTG
1 TAAAATTACTGAAATACCCTC-ATTTG
68626774 TAAAATTACTGAAATACCCTCAGTTTG
1 TAAAATTACTGAAATACCCTCA-TTTG
68626801 TAAAATTACTGAAATACCCTCAGTTTG
1 TAAAATTACTGAAATACCCTCA-TTTG
68626828 TAAAATTA-TCGAAATACCCTCGATTTG
1 TAAAATTACT-GAAATACCCTC-ATTTG
* * *
68626855 TAAAATTACTAAAATACCCCCCAGATTG
1 TAAAATTACTGAAATA-CCCTCA-TTTG
*
68626883 TAAAATTACCGAAATACCAC-CAGTTTG
1 TAAAATTACTGAAATACC-CTCA-TTTG
* *
68626910 CAAAACTA-TCGAAATACCC-CAATTTG
1 TAAAATTACT-GAAATACCCTC-ATTTG
** * *
68626936 TAAAATTACCAAAATAACCTCAGTTTT
1 TAAAATTACTGAAATACCCTCA-TTTG
*
68626963 TAAAATTACCGAAATAC
1 TAAAATTACTGAAATAC
68626980 ATCTATAGGG
Statistics
Matches: 223, Mismatches: 24, Indels: 26
0.82 0.09 0.10
Matches are distributed among these distances:
26 22 0.10
27 176 0.79
28 25 0.11
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
TAAAATTACTGAAATACCCTCATTTG
Found at i:68626775 original size:54 final size:54
Alignment explanation
Indices: 68626693--68626979 Score: 323
Period size: 54 Copynumber: 5.3 Consensus size: 54
68626683 CCAAACTGTT
* * * * *
68626693 TAAAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAATTTG
1 TAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGAAATACCCTCAGTTTG
*
68626747 TAAAATTACCAAAATACCCCCAATTTGTAAAATTACTGAAATACCCTCAGTTTG
1 TAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGAAATACCCTCAGTTTG
* * *
68626801 TAAAATTACTGAAATACCCTCAGTTTGTAAAATTA-TCGAAATACCCTC-GATTTG
1 TAAAATTACCGAAATACCCCCAATTTGTAAAATTACT-GAAATACCCTCAG-TTTG
** *
68626855 TAAAATTACTAAAATACCCCCCAGA-TTGTAAAATTACCGAAATACCAC-CAGTTTG
1 TAAAATTACCGAAATA-CCCCCA-ATTTGTAAAATTACTGAAATACC-CTCAGTTTG
* * * ** * *
68626910 CAAAACTATCGAAATA-CCCCAATTTGTAAAATTACCAAAATAACCTCAGTTTT
1 TAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGAAATACCCTCAGTTTG
68626963 TAAAATTACCGAAATAC
1 TAAAATTACCGAAATAC
68626980 ATCTATAGGG
Statistics
Matches: 198, Mismatches: 25, Indels: 20
0.81 0.10 0.08
Matches are distributed among these distances:
52 2 0.01
53 45 0.23
54 109 0.55
55 40 0.20
56 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGAAATACCCTCAGTTTG
Found at i:68626828 original size:81 final size:81
Alignment explanation
Indices: 68626704--68626979 Score: 360
Period size: 81 Copynumber: 3.4 Consensus size: 81
68626694 AAAATTATCG
** * * *
68626704 AAATACCCTC-GATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCC
1 AAATACCCTCAG-TTTGTAAAATTACCGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCCC
*
68626768 AATTTGTAAAATTACTG
65 AATTTGTAAAATTACTA
* * *
68626785 AAATACCCTCAGTTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCTCG
1 AAATACCCTCAGTTTGTAAAATTACCGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCCCA
68626850 ATTTGTAAAATTACTA
66 ATTTGTAAAATTACTA
* * * *
68626866 AAATACCCCCCAGATTGTAAAATTACCGAAATACCAC-CAGTTTGCAAAACTATCGAAATA-CCC
1 AAATA-CCCTCAGTTTGTAAAATTACCGAAATACC-CTCAGTTTGTAAAATTATCGAAATACCCC
*
68626929 CAATTTGTAAAATTACCA
64 CAATTTGTAAAATTACTA
* *
68626947 AAATAACCTCAGTTTTTAAAATTACCGAAATAC
1 AAATACCCTCAGTTTGTAAAATTACCGAAATAC
68626980 ATCTATAGGG
Statistics
Matches: 173, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
80 24 0.14
81 100 0.58
82 48 0.28
83 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAATACCCTCAGTTTGTAAAATTACCGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCCCA
ATTTGTAAAATTACTA
Found at i:68627437 original size:27 final size:27
Alignment explanation
Indices: 68627377--68627451 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
68627367 TTGTTTATAG
*
68627377 CTTTGTGCAAATCATATTTACTAGTGG
1 CTTTGTGCAAATCATATTTACTAGTGA
* * *
68627404 CTATGTGCATATCATATTTA-TTGATGA
1 CTTTGTGCAAATCATATTTACTAG-TGA
*
68627431 CTTTGTGTC-GATCATATTTAC
1 CTTTGTG-CAAATCATATTTAC
68627452 CCATGGCTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.05
27 36 0.92
28 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (27 bp):
CTTTGTGCAAATCATATTTACTAGTGA
Found at i:68630991 original size:27 final size:27
Alignment explanation
Indices: 68630958--68631113 Score: 156
Period size: 27 Copynumber: 5.8 Consensus size: 27
68630948 GGAAAATCAG
*
68630958 TCATTTTACCTTATAGGGGTATTACAA
1 TCATTTTACCCTATAGGGGTATTACAA
* * * *
68630985 TAATTTTACCCTACAGGGATATTACAG
1 TCATTTTACCCTATAGGGGTATTACAA
* *
68631012 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTACAA
* * *
68631039 TCATTTTACCTTAT-GAGGGTATTTCAG
1 TCATTTTACCCTATAG-GGGTATTACAA
* **
68631066 TCATTTTACCCTAT-GAGGGTATTTCGG
1 TCATTTTACCCTATAG-GGGTATTACAA
68631093 TCATTTTACCCTAT-GGGGTAT
1 TCATTTTACCCTATAGGGGTAT
68631114 CTCGGTCACC
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
26 7 0.06
27 105 0.94
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACAA
Found at i:68631027 original size:54 final size:54
Alignment explanation
Indices: 68630955--68631106 Score: 173
Period size: 54 Copynumber: 2.8 Consensus size: 54
68630945 TAGGGAAAAT
*
68630955 CAGTCATTTTACCTTATAGGGGTATTACAATAATTTTACCCTA-CAGGGATATTA
1 CAGTCATTTTACCCTATAGGGGTATTACAATAATTTTACCCTATCAGGG-TATTA
* * * * * *
68631009 CAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCTTATGAGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTACAATAATTTTACCCTATCAGGGTATTA
* ** *
68631063 CAGTCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTACCCTAT
1 CAGTCATTTTACCCTATAG-GGGTATTACAATAATTTTACCCTAT
68631107 GGGGTATCTC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 82 0.94
55 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (54 bp):
CAGTCATTTTACCCTATAGGGGTATTACAATAATTTTACCCTATCAGGGTATTA
Found at i:68631048 original size:81 final size:80
Alignment explanation
Indices: 68630958--68631113 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 80
68630948 GGAAAATCAG
68630958 TCATTTTACCTTAT-AGGGGTATTACAATAATTTTACCCTA-CAGGGATATTACAGTCATTTTAC
1 TCATTTTACCTTATGA-GGGTATTACAATAATTTTACCCTATCAGGG-TATTACAGTCATTTTAC
68631021 CCTATAGGGGTATTTCGA
64 CCTAT-GGGGTATTTCGA
* * * * * *
68631039 TCATTTTACCTTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCTTATGAGGGTATTACAATAATTTTACCCTATCAGGGTATTACAGTCATTTTACCC
68631104 TATGGGGTAT
66 TATGGGGTAT
68631114 CTCGGTCACC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 7 0.10
81 55 0.82
82 5 0.07
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (80 bp):
TCATTTTACCTTATGAGGGTATTACAATAATTTTACCCTATCAGGGTATTACAGTCATTTTACCC
TATGGGGTATTTCGA
Found at i:68631118 original size:26 final size:27
Alignment explanation
Indices: 68630987--68631121 Score: 168
Period size: 27 Copynumber: 5.0 Consensus size: 27
68630977 TATTACAATA
* * *
68630987 ATTTTACCCTA-CAGGGATATTACAGTC
1 ATTTTACCCTATGAGGG-TATTTCGGTC
*
68631014 ATTTTACCCTAT-AGGGGTATTTCGATC
1 ATTTTACCCTATGA-GGGTATTTCGGTC
* *
68631041 ATTTTACCTTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
68631068 ATTTTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
*
68631095 ATTTTACCCTATG-GGGTATCTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
68631121 A
1 A
68631122 CCATTTTGGC
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.14
27 79 0.82
28 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCGGTC
Found at i:68635510 original size:31 final size:31
Alignment explanation
Indices: 68635469--68635532 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
68635459 CCTTTTCATA
* *
68635469 TTTCATATTTCATAACACTGGGTCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
68635500 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
68635531 TT
1 TT
68635533 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:68635777 original size:24 final size:24
Alignment explanation
Indices: 68635725--68635890 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
68635715 GCTTTATCAT
*
68635725 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
68635750 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
68635774 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
68635797 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
68635821 ATAACTGGGGCATAAGGCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
68635845 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
68635868 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
68635891 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 43 0.34
24 72 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:68635825 original size:71 final size:71
Alignment explanation
Indices: 68635725--68635890 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
68635715 GCTTTATCAT
* *
68635725 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
68635789 GCCCTTTA
64 GCCCTTTA
* * * *
68635797 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGGCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
68635862 CCTTTA
66 CCTTTA
68635868 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
68635891 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 75 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:68635890 original size:47 final size:48
Alignment explanation
Indices: 68635725--68635890 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 48
68635715 GCTTTATCAT
* * *
68635725 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
68635774 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
68635821 ATAACTGGGGCATAAGGCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
68635868 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
68635891 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 68 0.64
48 26 0.25
49 12 0.11
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:68635963 original size:9 final size:9
Alignment explanation
Indices: 68635949--68636005 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
68635939 ATCTCGTGTG
68635949 CATATCATA
1 CATATCATA
*
68635958 CATATCATGTG
1 CATATCA--TA
68635969 CATATCATA
1 CATATCATA
* *
68635978 CATGTCATGTG
1 CATATCA--TA
68635989 CATATCATA
1 CATATCATA
68635998 CATATCAT
1 CATATCAT
68636006 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:68635968 original size:20 final size:20
Alignment explanation
Indices: 68635945--68636007 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
68635935 GAACATCTCG
68635945 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
68635965 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
68635985 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
68636005 TGT
1 TGT
68636008 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:68637287 original size:27 final size:26
Alignment explanation
Indices: 68637252--68637345 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
68637242 GGGCATATTC
* *
68637252 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACC-TACAGGGGCT-TTACG
68637279 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
68637306 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
*
68637333 GTCATTTTACCTA
1 GTCACTTTACCTA
68637346 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:68637618 original size:27 final size:27
Alignment explanation
Indices: 68637394--68637626 Score: 154
Period size: 27 Copynumber: 8.6 Consensus size: 27
68637384 TTGGTAAATC
* * *
68637394 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
** * * * *
68637421 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCGAGGGTATTTCTGTAA-TTT
* * *
68637449 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCGAGGGTATTTCTGTAATTT
**
68637477 TGTAAATC-AGGGGTATTT-TGGTAATTT
1 TACAAATCGA-GGGTATTTCT-GTAATTT
* *
68637504 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
* *
68637531 CACAAA-CCAGTGGTATTT-TGGTAATTT
1 TACAAATCGAG-GGTATTTCT-GTAATTT
*
68637558 TACAAA-CTAGAGGTATTT-TGGTAATTT
1 TACAAATCGAG-GGTATTTCT-GTAATTT
*
68637585 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
**
68637612 TGTAAATCGAGGGTA
1 TACAAATCGAGGGTA
68637627 AAATAGTAAT
Statistics
Matches: 166, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.02
27 130 0.78
28 17 0.10
29 15 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TACAAATCGAGGGTATTTCTGTAATTT
Found at i:68637635 original size:27 final size:27
Alignment explanation
Indices: 68637605--68637869 Score: 293
Period size: 27 Copynumber: 9.8 Consensus size: 27
68637595 GGGTATTTCT
* *
68637605 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
68637632 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
68637659 GTAATTCTATAAATCGACGGTAAAA-T
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
68637685 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* * *
68637713 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
68637740 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
**
68637767 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
68637794 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
68637821 GTAATTATGTAAAT-TAGGGGTAAAAC-
1 GTAATTCTGTAAATCGA-GGGTAAAACA
* *
68637847 GATAATTCTATAAATCGGGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
68637870 CTTTGGTAAT
Statistics
Matches: 204, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 200 0.98
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:68637636 original size:81 final size:79
Alignment explanation
Indices: 68637576--68637826 Score: 252
Period size: 81 Copynumber: 3.1 Consensus size: 79
68637566 AGAGGTATTT
* **
68637576 TGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTACAAATCGAGGGTATAACTGTAATTTTGTAAATCGAGGGTAAAATAGTAATT-T-
*
68637641 TAAATCAAGGGTAAAA
64 TAAAACAAGGGTAAAA
* * * * * *
68637657 TAGTAATTCTATAAATCGACGGTA-AAATGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCT
1 TGGTAATTTTACAAATCGAGGGTATAACTG-TAATTTTGTAAATCGAGGGTAAAATAGTAATT-T
*
68637721 ATAAATCAAGGGTAAAA
64 -TAAAACAAGGGTAAAA
* * * * * *
68637738 CGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTG
1 TGGTAATTTTACAAATCGAGGGTATAACTGTAATTTTGTAAATCGAGGGTAAAATAGTAA-TTT-
* *
68637803 TAAATCGAGGGTAAAA
64 TAAAACAAGGGTAAAA
*
68637819 CGGTAATT
1 TGGTAATT
68637827 ATGTAAATTA
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 139 0.95
82 5 0.03
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (79 bp):
TGGTAATTTTACAAATCGAGGGTATAACTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTA
AAACAAGGGTAAAA
Found at i:68637832 original size:54 final size:54
Alignment explanation
Indices: 68637605--68637869 Score: 334
Period size: 54 Copynumber: 4.9 Consensus size: 54
68637595 GGGTATTTCT
* * * * *
68637605 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* * *
68637659 GTAATTCTATAAATCGACGGTAAAATGATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* * * *
68637713 GTAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
*
68637767 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* * * * * * *
68637821 GTAATTATGTAAAT-TAGGGGTAAAACGATAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGA-GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
68637870 CTTTGGTAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.01
54 184 0.99
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
Found at i:68637834 original size:81 final size:81
Alignment explanation
Indices: 68637606--68637869 Score: 343
Period size: 81 Copynumber: 3.3 Consensus size: 81
68637596 GGTATTTCTG
* ** *
68637606 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATAA
* *
68637671 ATCGACGGTAAAATGA
66 ATCGAGGGTAAAACGA
* * * *
68637687 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAA
1 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATAA
68637752 ATCGAGGGTAAAAC-A
66 ATCGAGGGTAAAACGA
* * * *
68637767 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTA
1 -TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATA
*
68637832 AAT-TAGGGGTAAAACGA
65 AATCGA-GGGTAAAACGA
* *
68637849 TAATTCTATAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
68637870 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 159 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATAA
ATCGAGGGTAAAACGA
Found at i:68637896 original size:27 final size:26
Alignment explanation
Indices: 68637875--68637964 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
68637865 GGGTACTTTG
68637875 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
68637902 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * **
68637929 GTATTTTTACAAACTAAGGGTATTTTG
1 GTAATTTTACAATCGAA-GGTATTTCA
68637956 GTAATTTTA
1 GTAATTTTA
68637965 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.08
27 47 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:68637923 original size:81 final size:80
Alignment explanation
Indices: 68637578--68637923 Score: 234
Period size: 81 Copynumber: 4.3 Consensus size: 80
68637568 AGGTATTTTG
* *** * * * * * **
68637578 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTA-AAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACA
*
68637643 AATC-AAGGGTAAAATA
65 AATCGAA-GGTAAAACA
* * * * * ** * *
68637659 GTAATTCTATAAATCGACGGTAAAA-TGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
1 GTAATTTTA-AAATCGAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAATGGTAATTTTAC
*
68637723 AAATC-AAGGGTAAAACG
64 AAATCGAA-GGTAAAACA
* **
68637740 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTA
1 GTAATTTTA-AAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACA
* *
68637805 AATCGAGGGTAAAACG
65 AATCGAAGGTAAAACA
* * * ***
68637821 GTAATTATGTAAATTAG-GGGTAAAAC-GATAATTCTATAAATCGGGGGTACTTTGGTAATTTTA
1 GTAATT-T-TAAAATCGAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAATGGTAATTTTA
* ***
68637884 CAAGTCGAAGGTATTTCA
63 CAAATCGAAGGTAAAACA
68637902 GTAATTTTACAAATCGAGGGTA
1 GTAATTTTA-AAATCGAGGGTA
68637924 TTTCAGTATT
Statistics
Matches: 220, Mismatches: 37, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
79 2 0.01
80 8 0.04
81 201 0.91
82 7 0.03
83 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (80 bp):
GTAATTTTAAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACAA
ATCGAAGGTAAAACA
Found at i:68640881 original size:52 final size:52
Alignment explanation
Indices: 68640819--68640922 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
68640809 ATATGTATGC
*
68640819 GGCATCCGAGCTTATTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
1 GGCATCCGAGCTCATTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
68640871 GGCATCCGAGCTCATTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
1 GGCATCCGAGCTCATTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
68640923 AATTGGGTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (52 bp):
GGCATCCGAGCTCATTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
Found at i:68642984 original size:43 final size:43
Alignment explanation
Indices: 68642887--68643052 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
68642877 ATCGAGATGA
*** *
68642887 GATTACATGTAAGACCATGTCTAACACATTGGCATTG-TATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTA-TAT
* * *
68642930 GTTTACGTGTAAGACAATGTCTGGGACATTGGCATTGTTATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTATAT
* * * ** * *
68642973 GATTTCATGTAAGGCCACGTCTGGGATGTTGGCATCGATATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTATAT
* * *
68643016 GATGACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
68643053 ACGAGCTCTA
Statistics
Matches: 97, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
42 7 0.07
43 88 0.91
44 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTATAT
Found at i:68653089 original size:27 final size:27
Alignment explanation
Indices: 68653058--68653137 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
68653048 AAGGGGGTGG
68653058 TCCATCGAGATAGTAAACATGTGGTAA
1 TCCATCGAGATAGTAAACATGTGGTAA
* *
68653085 TCCATC-ATGACAGTAAACATGTGGTAT
1 TCCATCGA-GATAGTAAACATGTGGTAA
* *
68653112 TCTATCG-GTATAGTAAACACGTGGTA
1 TCCATCGAG-ATAGTAAACATGTGGTA
68653138 GTTTGTCGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
TCCATCGAGATAGTAAACATGTGGTAA
Found at i:68653177 original size:27 final size:27
Alignment explanation
Indices: 68653147--68653211 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
68653137 AGTTTGTCGA
* * *
68653147 GACATTAAACATAAGGTAGTCTACTGG
1 GACAATAAACATAAGGTAGTCCACCGG
* * **
68653174 GACAGTAAAAATGTGGTAGTCCACCGG
1 GACAATAAACATAAGGTAGTCCACCGG
68653201 GACAATAAACA
1 GACAATAAACA
68653212 CAAGAATGTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (27 bp):
GACAATAAACATAAGGTAGTCCACCGG
Found at i:68659874 original size:6 final size:6
Alignment explanation
Indices: 68659860--68659890 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
68659850 ATAAGGTCTC
*
68659860 TTTAAT TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
68659891 GGGGATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:68661785 original size:23 final size:23
Alignment explanation
Indices: 68661755--68661856 Score: 95
Period size: 22 Copynumber: 4.5 Consensus size: 23
68661745 CAACTTATTG
68661755 GAGCTTACTGTTTTAGCTCG-TA
1 GAGCTTACTGTTTTAGCTCGATA
*
68661777 TGAGCTTACT-ATTTAGCTCGATA
1 -GAGCTTACTGTTTTAGCTCGATA
* * *
68661800 GAACTTACTG-TTCAGCTCAATA
1 GAGCTTACTGTTTTAGCTCGATA
** *
68661822 GAGCTTACCATTTCAGCTC-ATTA
1 GAGCTTACTGTTTTAGCTCGA-TA
68661845 GAGCTTACTGTT
1 GAGCTTACTGTT
68661857 CATCAACTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
22 35 0.53
23 31 0.47
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (23 bp):
GAGCTTACTGTTTTAGCTCGATA
Found at i:68662034 original size:19 final size:20
Alignment explanation
Indices: 68662010--68662067 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
68662000 TACCGATCAT
68662010 ATGAAT-AAGCTA-TGTTGAA
1 ATGAATGAA-CTATTGTTGAA
*
68662029 ATGAATGAATTATTGTTGAA
1 ATGAATGAACTATTGTTGAA
* *
68662049 ATGAATGAATTACTGTTGA
1 ATGAATGAACTATTGTTGA
68662068 TACAGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (20 bp):
ATGAATGAACTATTGTTGAA
Found at i:68662047 original size:20 final size:20
Alignment explanation
Indices: 68662022--68662067 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
68662012 GAATAAGCTA
*
68662022 TGTTGAAATGAATGAATTAT
1 TGTTGAAATGAATGAATTAC
68662042 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGAATGAATTAC
68662062 TGTTGA
1 TGTTGA
68662068 TACAGATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTTGAAATGAATGAATTAC
Found at i:68662079 original size:20 final size:19
Alignment explanation
Indices: 68662056--68662129 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
68662046 GAAATGAATG
68662056 AATTACTGTTGATACAGATA
1 AATTACTGTT-ATACAGATA
* *
68662076 AATTACTGTTATTACTGATG
1 AATTACTGTTA-TACAGATA
*
68662096 AATTACTGGTTATACAGATG
1 AATTACT-GTTATACAGATA
*
68662116 AACTACTAGTTATA
1 AATTACT-GTTATA
68662130 TGAATGAAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.89
21 4 0.09
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
AATTACTGTTATACAGATA
Found at i:68662080 original size:40 final size:39
Alignment explanation
Indices: 68662048--68662137 Score: 94
Period size: 40 Copynumber: 2.2 Consensus size: 39
68662038 TTATTGTTGA
68662048 AATGAATGAATTACT-GTTGATACAGATAAATTACTGTTATT
1 AATG-ATGAATTACTGGTT-ATACAGATAAATTACTGTTA-T
* * *
68662089 ACTGATGAATTACTGGTTATACAGATGAACTACTAGTTAT
1 AATGATGAATTACTGGTTATACAGATAAATTACT-GTTAT
68662129 -ATGAATGAA
1 AATG-ATGAA
68662138 GTTATATGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
39 2 0.05
40 30 0.71
41 10 0.24
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (39 bp):
AATGATGAATTACTGGTTATACAGATAAATTACTGTTAT
Found at i:68666009 original size:20 final size:19
Alignment explanation
Indices: 68665984--68666028 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
68665974 AAATAATTGA
68665984 AAAATTCAAAACTTTATTTT
1 AAAATTCAAAA-TTTATTTT
* *
68666004 AAAATTTTAAAATTTCTTTT
1 AAAA-TTCAAAATTTATTTT
68666024 AAAAT
1 AAAAT
68666029 GATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 15 0.68
21 6 0.27
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTCAAAATTTATTTT
Found at i:68666034 original size:21 final size:21
Alignment explanation
Indices: 68665983--68666036 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
68665973 GAAATAATTG
68665983 AAAA-ATTCAAAACTTTATTTT
1 AAAATATT-AAAACTTTATTTT
* *
68666004 AAAATTTTAAAA-TTTCTTTT
1 AAAATATTAAAACTTTATTTT
68666024 AAAATGATTAAAA
1 AAAAT-ATTAAAA
68666037 AAACATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 12 0.43
21 14 0.50
22 2 0.07
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAATATTAAAACTTTATTTT
Found at i:68670059 original size:13 final size:15
Alignment explanation
Indices: 68670041--68670069 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68670031 ATGGCCAAAC
68670041 AAAAAA-GAGAGAAA
1 AAAAAAGGAGAGAAA
68670055 AAAAAAGGAGAGAAA
1 AAAAAAGGAGAGAAA
68670070 TAGACTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAAGGAGAGAAA
Found at i:68671092 original size:11 final size:11
Alignment explanation
Indices: 68671076--68671100 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
68671066 ATATCTAGAA
68671076 TTCTCTTCATT
1 TTCTCTTCATT
68671087 TTCTCTTCATT
1 TTCTCTTCATT
68671098 TTC
1 TTC
68671101 ATTAACTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:68672378 original size:25 final size:25
Alignment explanation
Indices: 68672349--68672400 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
68672339 AGGAATAATT
**
68672349 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
68672374 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
68672399 TG
1 TG
68672401 TCAAGCCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:68673059 original size:10 final size:10
Alignment explanation
Indices: 68673044--68673071 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
68673034 ATATTACATG
68673044 TTTACTTTGT
1 TTTACTTTGT
68673054 TTTACTTTGT
1 TTTACTTTGT
68673064 TTTACTTT
1 TTTACTTT
68673072 TTCTCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:68674133 original size:21 final size:21
Alignment explanation
Indices: 68674080--68674167 Score: 106
Period size: 21 Copynumber: 4.1 Consensus size: 21
68674070 ATATCGACTT
* **
68674080 TGTCG-ATCAGGCACTTTATG
1 TGTCGTATCAGGCACCTCGTG
*
68674100 TGTCGTATTTCAGGAACCTCGTG
1 TGTCGTA--TCAGGCACCTCGTG
68674123 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
*
68674144 TGTCGTTTCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
68674165 TGT
1 TGT
68674168 TGTTTCAAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
20 5 0.08
21 37 0.63
23 17 0.29
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTCGTATCAGGCACCTCGTG
Found at i:68674172 original size:21 final size:21
Alignment explanation
Indices: 68674098--68674179 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
68674088 AGGCACTTTA
*
68674098 TGTGTCGTATTTCAGGAACCTCG
1 TGTGTCG--TTTCAGGCACCTCG
*
68674121 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCG
68674142 TGTGTCGTTTCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCG
* *
68674163 TGTGTTGTTTCAAGCAC
1 TGTGTCGTTTCAGGCAC
68674180 TTATGTGTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 47 0.87
23 7 0.13
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTCAGGCACCTCG
Found at i:68675087 original size:22 final size:22
Alignment explanation
Indices: 68675061--68675123 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
68675051 TCTTTGATTA
68675061 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* *
68675083 TTAGCACATCT-GTGCTATCTGT
1 TTAGCACAT-TAGTGCTCTCCGT
* * *
68675105 ATAACACTTTAGTGCTCTC
1 TTAGCACATTAGTGCTCTC
68675124 TATTTAGTAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:68677061 original size:11 final size:11
Alignment explanation
Indices: 68677045--68677069 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
68677035 ATATCTAGAA
68677045 TTCTCTTCATT
1 TTCTCTTCATT
68677056 TTCTCTTCATT
1 TTCTCTTCATT
68677067 TTC
1 TTC
68677070 ATTAACTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:68678350 original size:25 final size:25
Alignment explanation
Indices: 68678321--68678372 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
68678311 AAGAATAATT
**
68678321 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
68678346 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
68678371 TG
1 TG
68678373 TTAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:68680168 original size:11 final size:11
Alignment explanation
Indices: 68680119--68680179 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
68680109 ATAGAAATAG
68680119 AAAAGAAAGAA
1 AAAAGAAAGAA
* *
68680130 AGAACAAACGAA
1 AAAAGAAA-GAA
*
68680142 ACAGAAGGAAAAAA
1 A-A-AA-GAAAGAA
68680156 AAAAGAAAGAA
1 AAAAGAAAGAA
*
68680167 AAATGAAAGAA
1 AAAAGAAAGAA
68680178 AA
1 AA
68680180 GGAGAAAGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 24 0.62
12 6 0.15
13 1 0.03
14 5 0.13
15 3 0.08
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:68680875 original size:24 final size:24
Alignment explanation
Indices: 68680848--68680894 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
68680838 ATTGAAATGG
68680848 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
68680872 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
68680895 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:68681097 original size:41 final size:39
Alignment explanation
Indices: 68681052--68681187 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 39
68681042 CGACTTCGAG
*
68681052 TCGATGAGGCACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGGCACTGGGTGTCAA-TTACTACTTCGAATT-AT
* *
68681093 TCGATGAGGCACTGGGTGCCAATT--TACTTC-AATTTAG
1 TCGATGAGGCACTGGGTGTCAATTACTACTTCGAA-TTAT
* **
68681130 TCGATGAGACACAAGGTGTCAAATTACTACTTCGAATTAT
1 TCGATGAGGCACTGGGTGTC-AATTACTACTTCGAATTAT
*
68681170 CCGATGAGGCACTGGGTG
1 TCGATGAGGCACTGGGTG
68681188 CCAAACTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
37 18 0.23
38 12 0.15
40 25 0.32
41 23 0.29
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (39 bp):
TCGATGAGGCACTGGGTGTCAATTACTACTTCGAATTAT
Found at i:68691096 original size:18 final size:19
Alignment explanation
Indices: 68691053--68691100 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
68691043 GGCATTTTCC
68691053 AACCTTAACATACAAAATA
1 AACCTTAACATACAAAATA
* *
68691072 AATCTTAACATAC-AAATC
1 AACCTTAACATACAAAATA
*
68691090 GACCTTAACAT
1 AACCTTAACAT
68691101 TCATCACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (19 bp):
AACCTTAACATACAAAATA
Found at i:68693384 original size:27 final size:27
Alignment explanation
Indices: 68693354--68693415 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
68693344 GGGCAAAATG
68693354 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
68693381 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
68693408 GTAATTTT
1 GTAATTTT
68693416 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:68693509 original size:27 final size:27
Alignment explanation
Indices: 68693462--68693726 Score: 203
Period size: 27 Copynumber: 9.8 Consensus size: 27
68693452 GGGTATTTTG
** * ** *
68693462 GTAATTTTACAAATTGAGGGTATTTCT
1 GTAATTTTGTAAATCGAGGGTAAATCA
68693489 GTAATTTTGTAAATCGAGGGTAAAAT-A
1 GTAATTTTGTAAATCGAGGGT-AAATCA
* * **
68693516 GTAATTCTGTAAATCAAGAGAAAAAT-A
1 GTAATTTTGTAAATCGAG-GGTAAATCA
* * * *
68693543 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAATCA
*
68693569 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTTTGTAAATCGAGGGTAAATCA
* * *
68693597 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAATCA
* *
68693624 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAATCA
* * *
68693651 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAATCA
** * * **
68693678 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTGTAAATCGAGGGTAAATCA
**
68693705 GTAATTTTACAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
68693727 TTTCAGTATT
Statistics
Matches: 195, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 5 0.03
27 186 0.95
28 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAATCA
Found at i:68693520 original size:54 final size:54
Alignment explanation
Indices: 68693462--68693744 Score: 246
Period size: 54 Copynumber: 5.2 Consensus size: 54
68693452 GGGTATTTTG
* ** * * *
68693462 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACA
* ** * ** * *
68693516 GTAATTCTGTAAATCAAGAGAAAAAT-AGTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTTTACAAATCGAG-GGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACA
** * *
68693569 GATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 G-TAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACA
* * *
68693624 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACA
* * ** * ** ***
68693678 GTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACA
*
68693732 GTATTTTTACAAA
1 GTAATTTTACAAA
68693745 CTAAGGGTAT
Statistics
Matches: 185, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
53 5 0.03
54 176 0.95
55 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACA
Found at i:68693547 original size:81 final size:80
Alignment explanation
Indices: 68693462--68693683 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 80
68693452 GGGTATTTTG
* * *** *
68693462 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTATAAATCGAGGGTAAAAC-GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
*
68693527 AATCAAGAGAAAAATA
65 AATCAAGAGAAAAACA
* *
68693543 GTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTATAAATCGAGGGTAAAACG-TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* *
68693608 AATCAAGGGTAAAACA
65 AATCAAGAGAAAAACA
* *
68693624 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATT
1 GTAATTTTATAAATCGAGGGTAAAAC-GTAATTTTGTAAATCGAGGGTAAAACAGTAATT
68693684 TTACAAGTCG
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 122 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (80 bp):
GTAATTTTATAAATCGAGGGTAAAACGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
ATCAAGAGAAAAACA
Found at i:68693727 original size:27 final size:27
Alignment explanation
Indices: 68693370--68693767 Score: 146
Period size: 27 Copynumber: 14.7 Consensus size: 27
68693360 TTACCCCACA
**
68693370 AGGGTATTTCAGTAATTTTAC-CCTAC-
1 AGGGTATTTCAGTAATTTTACAAAT-CG
* * *
68693396 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 A-GGGTATTTCAGTAATTTTACAAATCG
** *
68693423 ATGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCAGTAATTTTACAAATCG
** *
68693450 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAATCG
* **
68693478 AGGGTATTTCTGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * ** *
68693505 AGGGTAAAAT-AGTAATTCTGTAAATCA
1 AGGGT-ATTTCAGTAATTTTACAAATCG
** ** * *
68693532 AGAGAAAAAT-AGTAATTCTATAAATCG
1 AG-GGTATTTCAGTAATTTTACAAATCG
* *** **
68693559 ACGGTAAAAC-GATAATTTTGTAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*** * ** *
68693586 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*** *
68693613 AGGGTAAAACAGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*** * **
68693640 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*** * *
68693667 AGGGTAAAACGGTAATTTTACAAGTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
68693694 AAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
68693721 AGGGTATTTCAGTATTTTTACAAA-CTA
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
68693748 AGGGTATTTCGGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
68693768 GTAAACTAAA
Statistics
Matches: 307, Mismatches: 55, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
26 8 0.03
27 294 0.96
28 5 0.02
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:68693734 original size:81 final size:80
Alignment explanation
Indices: 68693462--68693726 Score: 295
Period size: 81 Copynumber: 3.3 Consensus size: 80
68693452 GGGTATTTTG
* *** * *
68693462 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
*
68693527 AATCAAGAGAAAAAT-A
66 AATCAAG-G-TAAATCA
* * *
68693543 GTAATTCTATAAATCGACGGTAAAAC-GATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GTAATTTTACAAATCGAGGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
*
68693607 AAATCAAGGGTAAAACA
65 AAATCAA-GGTAAATCA
* * *
68693624 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATT-T-TA
1 GTAATTTTACAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
**
68693687 CAAGTCGAAGGTATTTCA
66 -AA-TC-AAGGTAAATCA
68693705 GTAATTTTACAAATCGAGGGTA
1 GTAATTTTACAAATCGAGGGTA
68693727 TTTCAGTATT
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
79 2 0.01
80 7 0.04
81 146 0.92
82 4 0.03
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (80 bp):
GTAATTTTACAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGTAAATCA
Found at i:68693781 original size:27 final size:27
Alignment explanation
Indices: 68693678--68693782 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
68693668 GGGTAAAACG
* *
68693678 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
68693705 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
68693732 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
68693759 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
68693783 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:68700462 original size:24 final size:24
Alignment explanation
Indices: 68700435--68700480 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
68700425 AAAGTTACTT
68700435 GTAAAACTAAAATTACATGCATAA
1 GTAAAACTAAAATTACATGCATAA
*
68700459 GTAAGACTAAAATTACATGCAT
1 GTAAAACTAAAATTACATGCAT
68700481 GTAGTTAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (24 bp):
GTAAAACTAAAATTACATGCATAA
Found at i:68701316 original size:2 final size:2
Alignment explanation
Indices: 68701309--68701345 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
68701299 CTTCCTTTGT
* *
68701309 TC TC TC TC TC TC TC TC TC TC TC GC TC TC GC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
68701346 TTTCTTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.05, T:0.46
Consensus pattern (2 bp):
TC
Found at i:68701693 original size:27 final size:27
Alignment explanation
Indices: 68701660--68701713 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
68701650 TTACAATCTA
68701660 GAGTTTGCTTGTTTCCTTAGAAACAAT
1 GAGTTTGCTTGTTTCCTTAGAAACAAT
68701687 GAGTTTGCTTGTTTCCTTAGAAACAAT
1 GAGTTTGCTTGTTTCCTTAGAAACAAT
68701714 CATTGGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (27 bp):
GAGTTTGCTTGTTTCCTTAGAAACAAT
Found at i:68713577 original size:61 final size:61
Alignment explanation
Indices: 68713482--68713651 Score: 174
Period size: 61 Copynumber: 2.9 Consensus size: 61
68713472 TTATTATTAA
** * * * *
68713482 ATTTTAATAGGATTATAATTAAATGTAATTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATAAC
**
68713543 ATTTTAATATAATTATTATTAAATATAATTTAAT---AAT---AATGTATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATAAC
* *
68713598 ATTCTTAATGTAATTATTATTAAAATATGAA-TTAATAAAAATAAAAATACATAA
1 ATT-TTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAAAAATAAATAA
68713652 GATTAAAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
55 17 0.19
56 16 0.18
57 11 0.12
58 5 0.06
60 3 0.03
61 30 0.34
63 7 0.08
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (61 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATAAC
Found at i:68713578 original size:55 final size:57
Alignment explanation
Indices: 68713519--68713642 Score: 164
Period size: 55 Copynumber: 2.2 Consensus size: 57
68713509 ATTTAATAAA
* *
68713519 AATAAAAATAAATAATTTAATCATATT-TTAATATAATTATTATT-AAATAT-AATTT
1 AATAAAAATAAATAATTTAATAACATTCTTAATATAATTATTATTAAAATATGAA-TT
* ** *
68713574 AATAATAATGTATAATTTAATAACATTCTTAATGTAATTATTATTAAAATATGAATT
1 AATAAAAATAAATAATTTAATAACATTCTTAATATAATTATTATTAAAATATGAATT
68713631 AATAAAAATAAA
1 AATAAAAATAAA
68713643 AATACATAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
55 22 0.39
56 16 0.28
57 17 0.30
58 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (57 bp):
AATAAAAATAAATAATTTAATAACATTCTTAATATAATTATTATTAAAATATGAATT
Found at i:68716849 original size:14 final size:14
Alignment explanation
Indices: 68716830--68716858 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
68716820 AGTATACTTC
68716830 ATGGTGTAAGTGAA
1 ATGGTGTAAGTGAA
68716844 ATGGTGTAAGTGAA
1 ATGGTGTAAGTGAA
68716858 A
1 A
68716859 GAAAGAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (14 bp):
ATGGTGTAAGTGAA
Found at i:68721601 original size:20 final size:20
Alignment explanation
Indices: 68721543--68721601 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
68721533 TATTCTATGA
68721543 TATTATA-TAAATTAACGAA-
1 TATTATATTAAATTAAC-AAT
* * **
68721562 -AATATATTTAATTATTAAT
1 TATTATATTAAATTAACAAT
68721581 TATTATATTAAATTAACAAT
1 TATTATATTAAATTAACAAT
68721601 T
1 T
68721602 GCGTATCTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 7 0.24
19 6 0.21
20 16 0.55
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (20 bp):
TATTATATTAAATTAACAAT
Found at i:68723043 original size:26 final size:25
Alignment explanation
Indices: 68723007--68723057 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
68722997 CCATATTTGT
68723007 ACTTTTATTTTTTTCAATTTAGTGA
1 ACTTTTATTTTTTTCAATTTAGTGA
68723032 ACTTTTATTTTTTTCAATTTAGTGA
1 ACTTTTATTTTTTTCAATTTAGTGA
68723057 A
1 A
68723058 ATTATCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (25 bp):
ACTTTTATTTTTTTCAATTTAGTGA
Found at i:68725452 original size:21 final size:21
Alignment explanation
Indices: 68725428--68725492 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
68725418 AAATCTAACT
68725428 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
68725449 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
68725467 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*
68725488 AAAGC
1 GAAGC
68725493 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:68725453 original size:39 final size:39
Alignment explanation
Indices: 68725410--68725510 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
68725400 ATTGTGATCT
**
68725410 GAAGCCCGAAATCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
68725449 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
68725488 AAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
68725511 TCATCAGAGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:68728853 original size:31 final size:31
Alignment explanation
Indices: 68728818--68728968 Score: 178
Period size: 31 Copynumber: 4.8 Consensus size: 31
68728808 CTTGTCACTT
* *
68728818 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
* * * *
68728849 GTAGCCGGAGTTACCATTTTTTTTATCT-ATCAA
1 GTAGCCGAAGCTACCA--CTTTTCA-CTGATCAA
* *
68728882 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
*
68728913 GTAGCAGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
*
68728944 GTAGTCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
68728969 TGTCATTTGT
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
30 2 0.02
31 74 0.73
33 23 0.23
34 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAA
Found at i:68728898 original size:64 final size:62
Alignment explanation
Indices: 68728818--68728968 Score: 196
Period size: 64 Copynumber: 2.4 Consensus size: 62
68728808 CTTGTCACTT
* * * * * *
68728818 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCGGAGTTACCATTTTTTTTATCT-ATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCA--CTTTTCA-CTGATCAA
*
68728882 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAA
*
68728944 GTAGTCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
68728969 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 2 0.03
62 33 0.43
64 42 0.55
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTGATCAA
Found at i:68729045 original size:50 final size:51
Alignment explanation
Indices: 68728944--68729072 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
68728934 CACTGATCAA
* * * *
68728944 GTAGTCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
* *
68728995 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGTTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
68729045 GTAGCCGAAGCTATTACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
68729073 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:68730387 original size:39 final size:39
Alignment explanation
Indices: 68730325--68730425 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
68730315 ATCGTGATCT
** * *
68730325 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
*
68730364 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
68730403 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
68730426 TCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
Found at i:68730407 original size:21 final size:21
Alignment explanation
Indices: 68730344--68730407 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
68730334 AATCTAGCTA
68730344 AAGCACATAAGTGCTAAACAG
1 AAGCACATAAGTGCTAAACAG
** *
68730365 AAGC-CCGAAG-GCT-AACTG
1 AAGCACATAAGTGCTAAACAG
*
68730383 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACAG
68730404 AAGC
1 AAGC
68730408 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
AAGCACATAAGTGCTAAACAG
Found at i:68733269 original size:40 final size:40
Alignment explanation
Indices: 68733223--68733352 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
68733213 CGGAATACAA
*
68733223 CCGGATATAACCACGT-GCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** * *
68733263 CCGGATAGAATGACTCGCATGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
68733303 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
68733343 CCGGATATAA
1 CCGGATATAA
68733353 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:68733367 original size:40 final size:40
Alignment explanation
Indices: 68733249--68733386 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
68733239 GCACGAATGT
* *
68733249 CTTCGGGTCTTAGCCCGGATAGAATGACTC-GCATGAA-TGC
1 CTTCGGGTCTTAGCCCGGATATAATCAC-CAGCAT-AATTGC
* ** * *
68733289 CTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGC
1 CTTCGGGTCTTAGCCCGGATATAATCACCAGCATAATTGC
* ** *
68733329 CTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGT
1 CTTCGGGTCTTAGCCCGGATATAATCACCAGCATAATTGC
* *
68733369 CTTTGGGGCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
68733387 GTATCATTCA
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 2 0.03
40 75 0.97
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.28
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACCAGCATAATTGC
Found at i:68739600 original size:46 final size:46
Alignment explanation
Indices: 68739533--68739660 Score: 202
Period size: 46 Copynumber: 2.8 Consensus size: 46
68739523 GTAACCCGCT
* * * *
68739533 CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATC
*
68739579 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATC
*
68739625 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
68739661 TGCCCAAACA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATC
Found at i:68739679 original size:46 final size:46
Alignment explanation
Indices: 68739540--68739679 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 46
68739530 GCTCATAAGC
* ***
68739540 GAACTCAGACTCAACTCAACGAGCTCGG--GCGTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCGCAAACATCC-T-AGT
* ** *
68739586 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCGCAAACATCCTAGT
* *
68739632 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCGCAAACATCCTAGT
68739678 GA
1 GA
68739680 CATGTCACTT
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
44 8 0.11
46 62 0.83
50 5 0.07
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCGCAAACATCCTAGT
Found at i:68747173 original size:57 final size:57
Alignment explanation
Indices: 68746990--68747499 Score: 567
Period size: 57 Copynumber: 9.0 Consensus size: 57
68746980 CAAAAGATGC
* * * *
68746990 CCTTTAACAGGTTTTCCACAAAGGTTTA-CTTTCTAGAGTTTTTCCATAAAGGCTAT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
* * *
68747046 CCTTTAACAGGTTCGCTACAAAGGCTTACCTTTCTAGAG-TTTGCCACAAAGGCTCT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
*
68747102 CCTTTAACAGGTTTGCCACAAAGGCTTACATTTCTAGAGTTTTGCCACAAAGGCTAT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
* * * * * *
68747159 CCTTTAATATGTTTGCCACAAAGGTTTACCTTTCCAGAGTTTTTCCACAAAGGATAT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
* * * * * * ** *
68747216 CCTTTAACAAGTTCGCCATATAGGCTTACCTTTTTAGAGTTTTTCCATGAAGTCTAT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
* * * * *
68747273 CCTTTAATAGGTGTGCCATAAAGGCTTACCTTTCCAGTGTTTTGCCACAAAGGCTAT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
* ** * * * * *
68747330 CCTTTAATAGGTTCACCACATAGGCTTAACTTTCTAGAGTTTTGCGATAAAGACTAT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
** * * * * * *
68747387 CCTTTAACAGGTTCACCACAAAGGCTTACATTTCCAGAGTTTTTCCAAAAAAGGTTGT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCC-ACAAAGGCTAT
* *
68747445 CCTTTAATAGGTTTGCCACATAGGCTTACCTTTCTAGAGTTTTGCCGA-AAAGGCT
1 CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCC-ACAAAGGCT
68747500 TTTCTTCTCC
Statistics
Matches: 378, Mismatches: 73, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
56 74 0.20
57 257 0.68
58 47 0.12
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (57 bp):
CCTTTAACAGGTTTGCCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT
Found at i:68747228 original size:29 final size:28
Alignment explanation
Indices: 68747085--68747228 Score: 93
Period size: 29 Copynumber: 5.0 Consensus size: 28
68747075 CTTTCTAGAG
* *
68747085 TTTGCCACAAAGGCTCTCCTTTAAC-AGG
1 TTTGCCACAAAGG-TATCCTTTAACAAGT
*
68747113 TTTGCCACAAAGGCT-TACATTT--CTAGAGT
1 TTTGCCACAAAGG-TAT-CCTTTAAC-A-AGT
* *
68747142 TTTGCCACAAAGGCTATCCTTTAATATG-
1 TTTGCCACAAAGG-TATCCTTTAACAAGT
* *
68747170 TTTGCCACAAAGGTTTACCTTT-CCAGAGT
1 TTTGCCACAAAGGTAT-CCTTTAACA-AGT
*
68747199 TTTTCCACAAAGGATATCCTTTAACAAGT
1 TTTGCCACAAAGG-TATCCTTTAACAAGT
68747228 T
1 T
68747229 CGCCATATAG
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
26 1 0.01
27 4 0.04
28 38 0.41
29 43 0.47
30 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (28 bp):
TTTGCCACAAAGGTATCCTTTAACAAGT
Found at i:68747304 original size:28 final size:28
Alignment explanation
Indices: 68746990--68747477 Score: 196
Period size: 28 Copynumber: 17.2 Consensus size: 28
68746980 CAAAAGATGC
* * *
68746990 CCTTTAACAGGTTTTCCACAAAGGTTTA
1 CCTTTAATAGGTTTGCCACAAAGGCTTA
* * *
68747018 -CTTT-CTAGAGTTTTTCCATAAAGGC-TA
1 CCTTTAATAG-G-TTTGCCACAAAGGCTTA
* * *
68747045 TCCTTTAACAGGTTCGCTACAAAGGCTTA
1 -CCTTTAATAGGTTTGCCACAAAGGCTTA
*
68747074 CCTTT-CTAGAGTTTGCCACAAAGGCTCT-
1 CCTTTAATAG-GTTTGCCACAAAGGCT-TA
*
68747102 CCTTTAACAGGTTTGCCACAAAGGCTTA
1 CCTTTAATAGGTTTGCCACAAAGGCTTA
* *
68747130 CATTT-CTAGAGTTTTGCCACAAAGGC-TA
1 CCTTTAATAG-G-TTTGCCACAAAGGCTTA
* *
68747158 TCCTTTAATATGTTTGCCACAAAGGTTTA
1 -CCTTTAATAGGTTTGCCACAAAGGCTTA
* * * * *
68747187 CCTTTCCAGAGTTTTTCCACAAAGG-ATA
1 CCTTT-AATAGGTTTGCCACAAAGGCTTA
* * * * *
68747215 TCCTTTAACAAGTTCGCCATATAGGCTTA
1 -CCTTTAATAGGTTTGCCACAAAGGCTTA
* * ** *
68747244 CCTTT-TTAGAGTTTTTCCATGAAGTC-TA
1 CCTTTAATAG-G-TTTGCCACAAAGGCTTA
* *
68747272 TCCTTTAATAGGTGTGCCATAAAGGCTTA
1 -CCTTTAATAGGTTTGCCACAAAGGCTTA
* *
68747301 CCTTTCCAGT-GTTTTGCCACAAAGGC-TA
1 CCTTT--AATAGGTTTGCCACAAAGGCTTA
** *
68747329 TCCTTTAATAGGTTCACCACATAGGCTTA
1 -CCTTTAATAGGTTTGCCACAAAGGCTTA
* * * * *
68747358 ACTTT-CTAGAGTTTTGCGATAAAGAC-TA
1 CCTTTAATAG-G-TTTGCCACAAAGGCTTA
* **
68747386 TCCTTTAACAGGTTCACCACAAAGGCTTA
1 -CCTTTAATAGGTTTGCCACAAAGGCTTA
* * * * * * *
68747415 CATTTCCAGAGTTTTTCCAAAAAAGG-TTGT
1 CCTTT-AATAGGTTTGCC-ACAAAGGCTT-A
*
68747445 CCTTTAATAGGTTTGCCACATAGGCTTA
1 CCTTTAATAGGTTTGCCACAAAGGCTTA
68747473 CCTTT
1 CCTTT
68747478 CTAGAGTTTT
Statistics
Matches: 331, Mismatches: 92, Indels: 74
0.67 0.19 0.15
Matches are distributed among these distances:
26 2 0.01
27 18 0.05
28 167 0.50
29 123 0.37
30 21 0.06
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (28 bp):
CCTTTAATAGGTTTGCCACAAAGGCTTA
Found at i:68747701 original size:53 final size:53
Alignment explanation
Indices: 68747619--68747721 Score: 172
Period size: 53 Copynumber: 1.9 Consensus size: 53
68747609 TCCTTAAAAT
68747619 TTTCCATATGATGCCATAACCCACCAGTTA-GGATCTTACACGATATGGTCTTC
1 TTTCCATATGATGCCATAACCCACCAGTTATGG-TCTTACACGATATGGTCTTC
* *
68747672 TTTCCATATGATGTCATAACCCACTAGTTATGGTCTTACACGATATGGTC
1 TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACGATATGGTC
68747722 GTTTAGTGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 45 0.96
54 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (53 bp):
TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACGATATGGTCTTC
Found at i:68749325 original size:17 final size:18
Alignment explanation
Indices: 68749265--68749325 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
68749255 ACCCTCCTAC
68749265 TATATTATAT-GATGTTATA
1 TATATTATATAG-T-TTATA
* *
68749284 TCATACTATATAGTATATAA
1 T-ATATTATATAGTTTAT-A
68749304 TATATTA-ATAGTTTATA
1 TATATTATATAGTTTATA
68749321 TATAT
1 TATAT
68749326 GCTGCAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 6 0.17
18 8 0.23
19 9 0.26
20 11 0.31
21 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (18 bp):
TATATTATATAGTTTATA
Found at i:68761122 original size:24 final size:24
Alignment explanation
Indices: 68761061--68761156 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 24
68761051 ACCCAGTGCC
68761061 GTATAT-TTCCAGCATGCACACT-
1 GTATATATTCCAGCATGCACACTA
68761083 -TAGTATA--CCAGCATGCACACTA
1 GTA-TATATTCCAGCATGCACACTA
68761105 GTATATATTCCAGCATGCACACTTA
1 GTATATATTCCAGCATGCACAC-TA
68761130 GTGCCATATATTTCCAGCATGCACACT
1 GT---ATATA-TTCCAGCATGCACACT
68761157 TAGTGCCAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
21 16 0.25
22 7 0.11
23 2 0.03
24 13 0.21
25 4 0.06
28 6 0.10
29 15 0.24
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (24 bp):
GTATATATTCCAGCATGCACACTA
Found at i:68761148 original size:29 final size:28
Alignment explanation
Indices: 68761090--68761164 Score: 113
Period size: 29 Copynumber: 2.8 Consensus size: 28
68761080 ACTTAGTATA
68761090 CCAGCATGCACAC-TAGT---ATATATT
1 CCAGCATGCACACTTAGTGCCATATATT
68761114 CCAGCATGCACACTTAGTGCCATATATTT
1 CCAGCATGCACACTTAGTGCCATATA-TT
68761143 CCAGCATGCACACTTAGTGCCA
1 CCAGCATGCACACTTAGTGCCA
68761165 ATCTCGTCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
24 13 0.28
25 4 0.09
28 5 0.11
29 24 0.52
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
CCAGCATGCACACTTAGTGCCATATATT
Found at i:68762482 original size:25 final size:23
Alignment explanation
Indices: 68762447--68762494 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
68762437 GCATCCACAC
68762447 TTTTTTTTTTCATCATTTTCCTT
1 TTTTTTTTTTCATCATTTTCCTT
* *
68762470 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
68762495 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTTTCATCATTTTCCTT
Found at i:68770638 original size:40 final size:40
Alignment explanation
Indices: 68770583--68770792 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
68770573 AACATTGGAA
68770583 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68770623 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68770663 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
68770703 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
68770742 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
68770783 CTATATCCGG
1 ATATATCCGG
68770793 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:68778771 original size:40 final size:40
Alignment explanation
Indices: 68778716--68778925 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
68778706 AACATTGGAA
68778716 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68778756 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68778796 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
68778836 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
68778875 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
68778916 CTATATCCGG
1 ATATATCCGG
68778926 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:68780778 original size:3 final size:3
Alignment explanation
Indices: 68780770--68780797 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
68780760 GTTGGAGCTC
68780770 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
68780798 TGCAGTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:68783771 original size:3 final size:3
Alignment explanation
Indices: 68783753--68783841 Score: 103
Period size: 3 Copynumber: 30.0 Consensus size: 3
68783743 ATATAATACC
* * * *
68783753 AAT AGT AAT AAT -AT AAT AAT GAC AA- AAGT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
68783797 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT CAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
68783842 GATGATGATA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
2 6 0.08
3 64 0.86
4 4 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:68785699 original size:89 final size:87
Alignment explanation
Indices: 68785538--68786187 Score: 352
Period size: 94 Copynumber: 7.2 Consensus size: 87
68785528 GTTTGTTTTG
* * * ** *
68785538 ATCTGCTTCACTGTAACTTC-GAGAGATAAGATCTGTGATTTAACTTAAATCTATTCCACTGTAA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATC-GTAATTT--C---AATCTGCTCCACTGCAA
* * *
68785602 CTTTAGGGAAATAAGATTTGCTATCTTCG
60 CTTCAGGGAGATAAGATTTG-TATCTTCA
* *
68785631 GTCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTAATTTCAACCTGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TCGTAATTTCAATCTGCTCCACTGCAACTTCA
*
68785696 GGGAGATAAG-GTTGT-T-TT-A
65 GGGAGATAAGATTTGTATCTTCA
* * *
68785715 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAAACTGTTCCACTGCAA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATC-GTAATTT--C---AATCTGCTCCACTGCAA
* * * * *
68785780 TTTTAGGTAAATAAGATTTGCTATCTTTA
60 CTTCAGGGAGATAAGATTTG-TATCTTCA
* * * * * * * * **
68785809 GTCTGCTCCACTGCAACTCCAGGGAGATGAGACTTGT--GTT-GATTTGCTCTGCTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TCGTAATTTCAATCTGCTCCACTGCAACTTCA
** * *
68785871 AAGAGATAAGATCTGTAATTTAGCTTTA
65 GGGAGATAAGATTTGT-A--T--CTTCA
* * * * * * *
68785899 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTCCACTGGAACTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TCG-TAATTTCAATCTGCTCCACTGCAACTTC
* *
68785964 AGGGAGATAAGACTTGTATCTTCG
64 AGGGAGATAAGATTTGTATCTTCA
* * ** * *
68785988 ACCTGCTCTACTGCAACTTCAGAGAGATAAGATC-T-ATTTTGATCTGCTCTACTGCAACTTCAA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCGTAATTTCAATCTGCTCCACTGCAACTTCAG
* * *
68786051 AGAGATAAGATCTGTAATTTAGCTTTA
66 GGAGATAAGATTTGT-A--T--CTTCA
* * * * * * * *
68786078 ATCCGTTCCACTGTAACTTCAGGGAAATAAGATTTGCT-ATCTTCAGTCTGCTCCGCTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TCG-TAAT-TTCAATCTGCTCCACTGCAACTT
* *
68786142 TAGGGAGATAAGATTTTTGA-CTTCA
63 CAGGGAGATAAGATTTGT-ATCTTCA
* *
68786167 ATCTACTCCACTGAAACTTCA
1 ATCTGCTCCACTGCAACTTCA
68786188 AGGAGATCTA
Statistics
Matches: 423, Mismatches: 102, Indels: 68
0.71 0.17 0.11
Matches are distributed among these distances:
83 2 0.00
84 37 0.09
85 36 0.09
86 29 0.07
87 1 0.00
88 6 0.01
89 103 0.24
90 66 0.16
91 4 0.01
92 4 0.01
93 25 0.06
94 107 0.25
95 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (87 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCGTAATTTCAATCTGCTCCACTGCAACTTCAG
GGAGATAAGATTTGTATCTTCA
Found at i:68785732 original size:40 final size:43
Alignment explanation
Indices: 68785632--68786187 Score: 243
Period size: 45 Copynumber: 12.5 Consensus size: 43
68785622 CTATCTTCGG
68785632 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTAATTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGT-ATTTCAA
* * * *
68785676 CCTGCTCCACTGCAACTTCAGGGAGATAAG-GTTGT-TTT-AA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTATTTCAA
*
68785716 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTC-GT-ATTT--C---AA
* * * * * * * * *
68785765 ACTGTTCCACTGCAATTTTAG-GTAAATAAGATTTGCTATCTTTAG
1 TCTGCTCCACTGCAACTTCAGAG-AGATAAGACTCG-TAT-TTCAA
* * * * * *
68785810 TCTGCTCCACTGCAACTCCAGGGAGATGAGACTTGT-GTT-GA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTATTTCAA
* ** *
68785851 TTTGCTCTGCTGCAACTTCAAAGAGATAAGA-TCTGTAATTTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTC-GT-ATTT--C---AA
* * * * * *
68785900 TCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCG-TA-TTTCAA
* * * *
68785945 TCTGCTCCACTGGAACTTCAGGGAGATAAGACTTGTATCTTCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTAT-TTCAA
* * **
68785989 CCTGCTCTACTGCAACTTCAGAGAGATAAGA-TC-TATTTTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTATTTCAA
* *
68786030 TCTGCTCTACTGCAACTTCAAAGAGATAAGA-TCTGTAATTTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTC-GT-ATTT--C---AA
* * * * * * * *
68786079 TCCGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCG-TAT-TTCAA
* * * * ** *
68786124 TCTGCTCCGCTGCAACTTTAGGGAGATAAGATTTTTGACTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGT-ATTTCAA
* *
68786168 TCTACTCCACTGAAACTTCA
1 TCTGCTCCACTGCAACTTCA
68786188 AGGAGATCTA
Statistics
Matches: 387, Mismatches: 85, Indels: 80
0.70 0.15 0.14
Matches are distributed among these distances:
40 31 0.08
41 66 0.17
42 5 0.01
43 11 0.03
44 86 0.22
45 88 0.23
46 1 0.00
48 3 0.01
49 83 0.21
50 13 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTATTTCAA
Found at i:68785775 original size:178 final size:178
Alignment explanation
Indices: 68785518--68785842 Score: 476
Period size: 178 Copynumber: 1.8 Consensus size: 178
68785508 CTACTGCAAC
* * * *
68785518 GGGAGGTAAGGTTTGTTTTGATCTGCTTCACTGTAACTTCGAGAGATAAGATCTGTGATTTAACT
1 GGGAGATAAGGTTTGTTTTAATCTGCTTCACTGCAACTTCGAGAGATAAGATCTGTAATTTAACT
* *
68785583 TAAATCTATTCCACTGTAACTTTAGGGAAATAAGATTTGCTATCTTCGGTCTGCTCCACTGCAAC
66 TAAATCTATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAAC
*
68785648 TTCAGAGAGATAAGACTCGTAATTTCAACCTGCTCCACTGCAACTTCA
131 TCCAGAGAGATAAGACTCGTAATTTCAACCTGCTCCACTGCAACTTCA
*
68785696 GGGAGATAAGG-TTGTTTTAATCTGC-TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAG
1 GGGAGATAAGGTTTGTTTTAATCTGCTTC-ACTGCAACTTC-GAGAGATAAGATCTGTAATTTAA
* * * *
68785759 CTTTAAA-CTGTTCCACTGCAATTTTAGGTAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGC
64 C-TTAAATCTATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
* *
68785823 AACTCCAGGGAGATGAGACT
128 AACTCCAGAGAGATAAGACT
68785843 TGTGTTGATT
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
176 2 0.02
177 23 0.18
178 100 0.77
179 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (178 bp):
GGGAGATAAGGTTTGTTTTAATCTGCTTCACTGCAACTTCGAGAGATAAGATCTGTAATTTAACT
TAAATCTATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAAC
TCCAGAGAGATAAGACTCGTAATTTCAACCTGCTCCACTGCAACTTCA
Found at i:68785879 original size:135 final size:135
Alignment explanation
Indices: 68785637--68786022 Score: 517
Period size: 135 Copynumber: 2.9 Consensus size: 135
68785627 TTCGGTCTGC
* * * * * **
68785637 TCCACTGCAACTTCAGAGAGATAAGACTCG-TAATTTCAACCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
68785701 ATAAG-GTTGTTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAA
66 ATAAGACTTGTCTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAA
68785765 ACTGT
131 ACTGT
* * * *
68785770 TCCACTGCAATTTTAGGTAAATAAGATTTGCTATCTTT-AGTCTGCTCCACTGCAACTCCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTAT-TTTCAGTCTGCTCCACTGCAACTTCAGGGA
* * * * *
68785834 GATGAGACTTGTGTTGATTTGCTCTGCTGCAACTTCAAAGAGATAAGATCTGTAATTTAGCTTTA
65 GATAAGACTTGTCTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTTA
*
68785899 ATCTGT
130 AACTGT
*
68785905 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTCCACTGGAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGGGAG
*
68785970 ATAAGACTTGTATCTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
66 ATAAGACTTG--TCTT-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
68786023 ATTTTGATCT
Statistics
Matches: 216, Mismatches: 30, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
133 23 0.11
134 33 0.15
135 125 0.58
137 3 0.01
138 32 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (135 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTCTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAA
ACTGT
Found at i:68786058 original size:179 final size:179
Alignment explanation
Indices: 68785811--68786154 Score: 548
Period size: 179 Copynumber: 1.9 Consensus size: 179
68785801 TATCTTTAGT
* * * *
68785811 CTGCTCCACTGCAACTCCAGGGAGATGAGACTTGTGTTGATTTGCTCTGCTGCAACTTCAAAGAG
1 CTGCTCCACTGCAACTCCAGAGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAAAGAG
* *
68785876 ATAAGATCTGTAATTTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTT
66 ATAAGATCTGTAATTTAGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
*
68785941 TCAGTCTGCTCCACTGGAACTTCAGGGAGATAAGACTTGTATCTTCGAC
131 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCGAC
* *
68785990 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTAT-T-TTGATCTGCTCTACTGCAACTTCAAAG
1 CTGCTCCACTGCAACTCCAGAGAGATAAGA-CT-TGTGTTGATCTGCTCTACTGCAACTTCAAAG
*
68786053 AGATAAGATCTGTAATTTAGCTTTAATCCGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTAT
64 AGATAAGATCTGTAATTTAGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
* *
68786118 CTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGA
129 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
68786155 TTTTTGACTT
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
179 147 0.97
180 3 0.02
181 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (179 bp):
CTGCTCCACTGCAACTCCAGAGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAAAGAG
ATAAGATCTGTAATTTAGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCGAC
Found at i:68786063 original size:41 final size:42
Alignment explanation
Indices: 68785632--68786061 Score: 224
Period size: 44 Copynumber: 9.8 Consensus size: 42
68785622 CTATCTTCGG
* **
68785632 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGTAATTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTC-T-ATTTTGA
* * * * *
68785676 CCTGCTCCACTGCAACTTCAGGGAGATAAG-GT-TGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTCTATTTTGA
* * *
68785716 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TCT-A--T---TTTGA
* * * * *
68785765 ACTGTTCCACTGCAATTTTAG-GTAAATAAGATTTGCTATCTTT-A
1 TCTGCTCCACTGCAACTTCAGAG-AGATAAGA-TT-CTAT-TTTGA
* * * * * *
68785809 GTCTGCTCCACTGCAACTCCAGGGAGATGAGACT-TGTGTTGA
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGATTCTATTTTGA
* ** * * *
68785851 TTTGCTCTGCTGCAACTTCAAAGAGATAAGATCTGTAATTTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TCT-A--T---TTTGA
* * * *
68785900 TCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-CTATTTTGA
* * * *
68785944 GTCTGCTCCACTGGAACTTCAGGGAGATAAGACTTGTATCTTCGA
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTCTAT-TTTGA
* *
68785989 CCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTATTTTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTCTATTTTGA
* *
68786030 TCTGCTCTACTGCAACTTCAAAGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
68786062 CTGTAATTTA
Statistics
Matches: 296, Mismatches: 62, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
40 32 0.11
41 60 0.20
42 9 0.03
43 3 0.01
44 64 0.22
45 59 0.20
46 3 0.01
47 2 0.01
48 1 0.00
49 59 0.20
50 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATTCTATTTTGA
Found at i:68786286 original size:68 final size:68
Alignment explanation
Indices: 68786173--68787118 Score: 1362
Period size: 68 Copynumber: 13.9 Consensus size: 68
68786163 TTCAATCTAC
* * ** *
68786173 TCCACTGAAACTTCAAGGAGATCTACTATGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786238 AGA
66 AGA
* * * * * *
68786241 TCCACTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCACTCCAATGCCATTTCAGGAAGAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786306 AGA
66 AGA
* * * *
68786309 TCCACTGAAACTTCAAGGAGATCTACTATGGCTTTTAGCCGCTCCAACGCTATTTCAGGAAGAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786374 AGA
66 AGA
* *
68786377 TCCACTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786442 AGA
66 AGA
* * * * *
68786445 TCCGCTGAAACTTCAAAGAGATCTGCTGTGGCTTTTAGTCACTCCAACGCCATTTCAGGAAGAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786510 AGA
66 AGA
** * * *
68786513 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGTCATTTCAGGGAAAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786578 AGA
66 AGA
* * * * *
68786581 TTCGCTAAAACCTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGA-AGA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA-A
68786645 GAGA
65 GAGA
*
68786649 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACTCCATTTCAGGG-GAGA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA-A
68786713 GAGA
65 GAGA
* * * *
68786717 TCCTCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCACTTCAACGCCATTTCAGGGAAAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786782 AGA
66 AGA
*
68786785 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACTCCATTTCAGGG-GAGA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA-A
68786849 GAGA
65 GAGA
* * * * * * *
68786853 TCCTCTGAAACTTCAAGAAGATATGTTGTGGCTTTTAGCCACTCCAATGCCATTTCAGGGAAAAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786918 AGA
66 AGA
* *
68786921 TCCACTGAAACTTCAAGAAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGGA-AAG
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
68786985 AGA
66 AGA
* *
68786988 TCCACTGAAACTTCAAGGAGATCTGCTGTGGTTTTTAGCCGCTCTAACGCCATTTCAGGG-GAAA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAG-AA
68787052 GAGA
65 GAGA
* *
68787056 TCCTCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGAGAGA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA
68787119 GGGATTGGTA
Statistics
Matches: 789, Mismatches: 81, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
67 64 0.08
68 722 0.92
69 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (68 bp):
TCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAG
AGA
Found at i:68794665 original size:63 final size:65
Alignment explanation
Indices: 68794586--68794722 Score: 242
Period size: 63 Copynumber: 2.1 Consensus size: 65
68794576 TCTGTAGTTT
*
68794586 AAAAGAAAACTATGTAAAGGATATAAATAAATAAAATGATAATAACAAGAATAAAATACGT-AAA
1 AAAATAAAACTATGTAAAGGATATAAATAAATAAAATGATAATAACAAGAATAAAATACGTAAAA
*
68794650 AAAATAAAA-TATGTAAAGGATATAAATAAATAAAATGTTAATAACAAGAATAAAATACGTAAAA
1 AAAATAAAACTATGTAAAGGATATAAATAAATAAAATGATAATAACAAGAATAAAATACGTAAAA
68794714 AAAATAAAA
1 AAAATAAAA
68794723 GTAACATTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 50 0.71
64 20 0.29
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (65 bp):
AAAATAAAACTATGTAAAGGATATAAATAAATAAAATGATAATAACAAGAATAAAATACGTAAAA
Found at i:68794718 original size:33 final size:33
Alignment explanation
Indices: 68794613--68794718 Score: 89
Period size: 33 Copynumber: 3.3 Consensus size: 33
68794603 AGGATATAAA
*
68794613 TAAATAAAATGATAATAACAAGAATAAAATACG
1 TAAAAAAAATGATAATAACAAGAATAAAATACG
* * *
68794646 T-AAAAAAAT-AAAATATGTA-AAGGATATAA-A--
1 TAAAAAAAATGATAATA---ACAAGAATAAAATACG
* *
68794676 TAAATAAAATGTTAATAACAAGAATAAAATACG
1 TAAAAAAAATGATAATAACAAGAATAAAATACG
68794709 TAAAAAAAAT
1 TAAAAAAAAT
68794719 AAAAGTAACA
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
29 1 0.02
30 9 0.17
31 13 0.24
32 12 0.22
33 18 0.33
34 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (33 bp):
TAAAAAAAATGATAATAACAAGAATAAAATACG
Found at i:68794875 original size:3 final size:3
Alignment explanation
Indices: 68794857--68794942 Score: 99
Period size: 3 Copynumber: 29.0 Consensus size: 3
68794847 ATATAATACC
* *
68794857 AAT AGT AAT AAT -AT AAT AAT GAA- AA- AAGT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT AAT AAT AAT AAT
68794901 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT CAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
68794943 TATGATGATG
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
2 8 0.11
3 59 0.81
4 6 0.08
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:68794950 original size:3 final size:3
Alignment explanation
Indices: 68794944--68794972 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
68794934 AATAATAATT
68794944 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
68794973 AAATAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:68796964 original size:3 final size:3
Alignment explanation
Indices: 68796958--68797004 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
68796948 TTTTTCTCTT
68796958 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
68797005 TACTAAAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:68797428 original size:17 final size:17
Alignment explanation
Indices: 68797396--68797434 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
68797386 CTTAAATTTT
** *
68797396 TTTAAAATTTTTAATTC
1 TTTAAAATTTGAAATTA
68797413 TTTAAAATTTGAAATTA
1 TTTAAAATTTGAAATTA
68797430 TTTAA
1 TTTAA
68797435 TATATAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAAATTTGAAATTA
Found at i:68798017 original size:15 final size:14
Alignment explanation
Indices: 68797998--68798037 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
68797988 CCATGGCCAT
68797998 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
68798012 TAAAACCCTAAACCA
1 T-AAACCTTAAACCA
*
68798027 TAGACCTTAAA
1 TAAACCTTAAA
68798038 TATTAAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:68798215 original size:16 final size:15
Alignment explanation
Indices: 68798160--68798216 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
68798150 ATATGATGTT
* *
68798160 TTTTGGGGTTTAAGG
1 TTTTAGGGTTTATGG
* *
68798175 TTTTAGGGGTTATAG
1 TTTTAGGGTTTATGG
*
68798190 -TTTAGTGTTTATGG
1 TTTTAGGGTTTATGG
68798204 TTTTTAGGGTTTA
1 -TTTTAGGGTTTA
68798217 GGGGTTATAG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 11 0.34
15 11 0.34
16 10 0.31
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.53
Consensus pattern (15 bp):
TTTTAGGGTTTATGG
Found at i:68798217 original size:37 final size:39
Alignment explanation
Indices: 68798176--68798256 Score: 130
Period size: 37 Copynumber: 2.1 Consensus size: 39
68798166 GGTTTAAGGT
*
68798176 TTTAGGGGTTATAGTTTAGTGTTTATG-GTTTTTA-GGG
1 TTTAGGGGTTATAGATTAGTGTTTATGAGTTTTTAGGGG
*
68798213 TTTAGGGGTTATAGATTAGTGTTTATGATTTTTTAGGGG
1 TTTAGGGGTTATAGATTAGTGTTTATGAGTTTTTAGGGG
68798252 TTTAG
1 TTTAG
68798257 AGTTTTAGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 26 0.65
38 6 0.15
39 8 0.20
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.51
Consensus pattern (39 bp):
TTTAGGGGTTATAGATTAGTGTTTATGAGTTTTTAGGGG
Found at i:68798280 original size:18 final size:16
Alignment explanation
Indices: 68798243--68798282 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
68798233 GTTTATGATT
*
68798243 TTTTAGGGGTTTAGAG
1 TTTTAGGGGTTTAGAC
68798259 TTTTAGGGGTTATATGAC
1 TTTTAGGGGTT-TA-GAC
68798277 TTTTAG
1 TTTTAG
68798283 CGGCGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 2 0.10
18 8 0.38
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (16 bp):
TTTTAGGGGTTTAGAC
Found at i:68798351 original size:41 final size:39
Alignment explanation
Indices: 68798277--68798390 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 39
68798267 GTTATATGAC
* *
68798277 TTTTAGCGGCGTTTTGACCATAAACGCTGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTG--CAAAAACGCCGCTATTGCTCT-GT
*
68798319 TTTTAGCGGCGTGTTTGCTAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGT-TTTGCAAAAACGCCGCTATTGCTCTGT
*
68798359 TTTTAGCGGCGTTTTATCCAAAAACGCCGCTA
1 TTTTAGCGGCG-TTT-TGCAAAAACGCCGCTA
68798391 AAAACGCCGC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
40 15 0.23
41 33 0.52
42 12 0.19
43 4 0.06
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTGCAAAAACGCCGCTATTGCTCTGT
Found at i:68798395 original size:12 final size:12
Alignment explanation
Indices: 68798378--68798404 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
68798368 CGTTTTATCC
68798378 AAAAACGCCGCT
1 AAAAACGCCGCT
68798390 AAAAACGCCGCT
1 AAAAACGCCGCT
68798402 AAA
1 AAA
68798405 GCCTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:68804655 original size:28 final size:28
Alignment explanation
Indices: 68804401--68804675 Score: 221
Period size: 28 Copynumber: 9.8 Consensus size: 28
68804391 CATTCCCTTT
* *
68804401 CAGAGAT-AGCCACAAAGGCTTCATTTTA
1 CAGAGATCA-CCACAAAGGCTTCCTTTAA
* * * *
68804429 CAAATATCGCAACAAAGGCTTCCTTTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
* * * *
68804457 CAGAGAACGCCACGAATGCTTCCTTTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
* * **
68804485 TAGAGATCGCCGA-AAAGGAATCCTTTAA
1 CAGAGATCACC-ACAAAGGCTTCCTTTAA
* * * * *
68804513 CAAAGTTCGCTACAAAGGCTTCTTTTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
* * *
68804541 CAGCGATCATCACAAAGGCTTTCTTTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
*
68804569 CAGAGATCACCACAAAGGCTTCCATTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
* * * * * *
68804597 TAGAGGTCGCTACAAAAGATTCCTTTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
* *
68804625 CAGAGATCACCACAAAAGATTCCTTTAA
1 CAGAGATCACCACAAAGGCTTCCTTTAA
* *
68804653 CAGATATTACCACAAAGGCTTCC
1 CAGAGATCACCACAAAGGCTTCC
68804676 CTTCTCTTGG
Statistics
Matches: 192, Mismatches: 52, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
27 1 0.01
28 190 0.99
29 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (28 bp):
CAGAGATCACCACAAAGGCTTCCTTTAA
Found at i:68804884 original size:53 final size:53
Alignment explanation
Indices: 68804797--68804944 Score: 152
Period size: 53 Copynumber: 2.8 Consensus size: 53
68804787 AAATATTTCC
** * *
68804797 ATATGATGTCATAACCCACCAGTTACAGTCTTACACGATATGGTCTTCTTTTT
1 ATATGATACCATAACCCACCAGTTACAATCTTACACGATATGATCTTCTTTTT
* * * * ***
68804850 ATATGATACCATACCCCACCAGTTATAATTTTACATGATATGATCTTCTTCCC
1 ATATGATACCATAACCCACCAGTTACAATCTTACACGATATGATCTTCTTTTT
** * * *
68804903 ATATGATGTCATAACCCACCAATTACGATCTTACACAATATG
1 ATATGATACCATAACCCACCAGTTACAATCTTACACGATATG
68804945 GTCCATTAGT
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
53 75 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (53 bp):
ATATGATACCATAACCCACCAGTTACAATCTTACACGATATGATCTTCTTTTT
Found at i:68807643 original size:25 final size:24
Alignment explanation
Indices: 68807608--68807658 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
68807598 ACAAACACAA
68807608 CTCTTTATGAGCGTCCTGATATAGG
1 CTCTTTATGAGCGTCCTGATAT-GG
* *
68807633 CTCTTTTTGAGCTTCCTGATATGG
1 CTCTTTATGAGCGTCCTGATATGG
68807657 CT
1 CT
68807659 TGCTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (24 bp):
CTCTTTATGAGCGTCCTGATATGG
Found at i:68808829 original size:59 final size:59
Alignment explanation
Indices: 68808758--68808936 Score: 349
Period size: 59 Copynumber: 3.0 Consensus size: 59
68808748 AGACACGAAA
*
68808758 GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTAGTCGTGT
1 GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTGGTCGTGT
68808817 GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTGGTCGTGT
1 GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTGGTCGTGT
68808876 GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTGGTCGTGT
1 GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTGGTCGTGT
68808935 GT
1 GT
68808937 TCCCTGCATT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 119 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (59 bp):
GTATGTCTCAGCCGTGTGTGACACACGGCTTTGCACACAAGTGTGTGGTTTGGTCGTGT
Found at i:68810604 original size:18 final size:18
Alignment explanation
Indices: 68810551--68810604 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
68810541 GATTATGGTT
*
68810551 TAAAAAAATATCTGAAAAA
1 TAAAAAAA-ATCTAAAAAA
* * *
68810570 TATAAAAAATTTTAAAAA
1 TAAAAAAAATCTAAAAAA
*
68810588 TAAAAAAAATCCAAAAA
1 TAAAAAAAATCTAAAAA
68810605 GAATATATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (18 bp):
TAAAAAAAATCTAAAAAA
Found at i:68811682 original size:54 final size:54
Alignment explanation
Indices: 68811562--68811690 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
68811552 AGTTTGTATA
* *
68811562 AGATATTATAA-TTATTTAATTTTATTTTTACCTAATTAATATTCAGTTATACTT
1 AGATATT-TAATTTATTAAATTTTATTTTTACCTAATTAATATTCAGTTATAATT
* * * *
68811616 AGATATTAAATTTATTAAATTTTATTTTTA-TTAAATTAATATTTAGATTCTAATT
1 AGATATTTAATTTATTAAATTTTATTTTTACCT-AATTAATATTCAG-TTATAATT
*
68811671 TG-TATTTAATTTATTAAATT
1 AGATATTTAATTTATTAAATT
68811691 AAACTAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
53 3 0.05
54 54 0.84
55 7 0.11
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (54 bp):
AGATATTTAATTTATTAAATTTTATTTTTACCTAATTAATATTCAGTTATAATT
Found at i:68812064 original size:19 final size:19
Alignment explanation
Indices: 68812040--68812080 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
68812030 ATCTTTATGA
*
68812040 GAAACACACTTCAGTTGGT
1 GAAACACACTTCAGTTGAT
68812059 GAAACACACTTCAGTTGAT
1 GAAACACACTTCAGTTGAT
68812078 GAA
1 GAA
68812081 CTTTTCTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (19 bp):
GAAACACACTTCAGTTGAT
Found at i:68819796 original size:23 final size:23
Alignment explanation
Indices: 68819741--68819787 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
68819731 TTGGCTAATG
68819741 TGGCCTATATGTCTTATGTTGTT
1 TGGCCTATATGTCTTATGTTGTT
68819764 TGGCCTATATGTCTTATGTTGTT
1 TGGCCTATATGTCTTATGTTGTT
68819787 T
1 T
68819788 TGGTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.53
Consensus pattern (23 bp):
TGGCCTATATGTCTTATGTTGTT
Found at i:68819956 original size:13 final size:13
Alignment explanation
Indices: 68819938--68819963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68819928 AAATTTGAGA
68819938 ATTCTATGAATGC
1 ATTCTATGAATGC
68819951 ATTCTATGAATGC
1 ATTCTATGAATGC
68819964 TAACTTAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
ATTCTATGAATGC
Found at i:68820765 original size:42 final size:43
Alignment explanation
Indices: 68820705--68820793 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 43
68820695 GCCACTGAAG
* *
68820705 TAAAGATCATGACATTTAG-TGGCGCTTTT-TCACAAACGCCGC
1 TAAAGATCACGACATTTAGCT-GCGCTTTTCTCAAAAACGCCGC
*
68820747 TAAAGATCACGACCTTTAGCTGCGCTTTTCTCAAAAACGCCGC
1 TAAAGATCACGACATTTAGCTGCGCTTTTCTCAAAAACGCCGC
68820790 TAAA
1 TAAA
68820794 AGTCATGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 25 0.60
43 17 0.40
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
TAAAGATCACGACATTTAGCTGCGCTTTTCTCAAAAACGCCGC
Done.