Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 191 of 255
Found at i:63494559 original size:46 final size:47
Alignment explanation
Indices: 63494413--63494577 Score: 135
Period size: 46 Copynumber: 3.5 Consensus size: 47
63494403 AGGCCGACGC
* *
63494413 CATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTCTG-TGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTGGCT-T-ACATCTC-GAAGCCGAT-A
* * * *
63494463 CATGTCGCAGACATGGTTTTACACTGAC--ACATCTC-ATAGCCGATA
1 CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGA-AGCCGATA
* * * * *
63494508 CATGTCGCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCGGATT
1 CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGAAGCCGATA
*
63494554 CATGTCCCAAACAT-GTCTTTCACT
1 CATGTCCCAAACATGGTCTTACACT
63494578 AGCGCAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
44 11 0.11
45 14 0.15
46 46 0.48
47 1 0.01
50 24 0.25
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGAAGCCGATA
Found at i:63496270 original size:29 final size:27
Alignment explanation
Indices: 63496207--63496304 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 27
63496197 GCTGTATCTA
* *
63496207 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATT-ATATG
63496235 GCCCATTAGGCCCAAGTCACATGTATATG
1 GCCCATTAGGCCCAA-TCACAT-TATATG
* * *
63496264 GTCCATTAGGGCCAAATGACATTTATATG
1 GCCCATTA-GGCCCAATCACA-TTATATG
*
63496293 GCCCGTTAGGCC
1 GCCCATTAGGCC
63496305 TAGTCCCATT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 18 0.31
29 33 0.56
30 8 0.14
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (27 bp):
GCCCATTAGGCCCAATCACATTATATG
Found at i:63496544 original size:16 final size:16
Alignment explanation
Indices: 63496520--63496563 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
63496510 GTAGCCAAAC
*
63496520 TTTTAGCTTTTC-AGCA
1 TTTTGGCTTTTCGA-CA
63496536 TTTTGGCTTTTCGACA
1 TTTTGGCTTTTCGACA
63496552 TTTTGGCATTTT
1 TTTTGGC-TTTT
63496564 GACTTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTTGGCTTTTCGACA
Found at i:63503946 original size:29 final size:29
Alignment explanation
Indices: 63503907--63503980 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
63503897 ATCATATTCG
* * *
63503907 TATGGCCCATTAGGCCCAAGTCACCTGTA
1 TATGGCCCATTAGGCCCAAATAACATGTA
* *
63503936 TATGGCCCATTAGGCACAAATAACATTTA
1 TATGGCCCATTAGGCCCAAATAACATGTA
*
63503965 TATGGCCCGTTAGGCC
1 TATGGCCCATTAGGCC
63503981 GAGTCACATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATAACATGTA
Found at i:63509208 original size:41 final size:41
Alignment explanation
Indices: 63509131--63509263 Score: 112
Period size: 41 Copynumber: 3.2 Consensus size: 41
63509121 GGAATACCAT
** *
63509131 CGAATGCT-TTAT-ATCTCACATGCTAAGTGCTATTACATAGC
1 CGAA-GCTATTATAATCTCACACACTAAGTGC-CTTACATAGC
63509172 CGAAGCTATTATAATCTCACACACTAAGTGCCTTACATAGC
1 CGAAGCTATTATAATCTCACACACTAAGTGCCTTACATAGC
* ** * * *
63509213 TC-AAGCTATT-TCATTCTTGCACACTAAGTGCCATATATAGT
1 -CGAAGCTATTAT-AATCTCACACACTAAGTGCCTTACATAGC
*
63509254 CGAATCTATT
1 CGAAGCTATT
63509264 TCGAGCTGCA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
40 5 0.06
41 55 0.71
42 17 0.22
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (41 bp):
CGAAGCTATTATAATCTCACACACTAAGTGCCTTACATAGC
Found at i:63509264 original size:41 final size:40
Alignment explanation
Indices: 63509191--63509291 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
63509181 TATAATCTCA
* * *
63509191 CACACTAAGTGCCTTACATAGCTCAAGCTATTTC-ATTCTTG
1 CACACTAAGTGCCATATATAGCTCAAGCTATTTCGA-GC-TG
*
63509232 CACACTAAGTGCCATATATAG-TCGAATCTATTTCGAGCTG
1 CACACTAAGTGCCATATATAGCTC-AAGCTATTTCGAGCTG
*
63509272 CACATTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
63509292 TATCTAAGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 23 0.43
41 29 0.55
42 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCTCAAGCTATTTCGAGCTG
Found at i:63516768 original size:27 final size:26
Alignment explanation
Indices: 63516707--63516816 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
63516697 AGCATGGCTG
* **
63516707 CCAGAACAGATAATGTGACAGAATCA
1 CCAGAACAGATAATGTGGCAGAGCCA
63516733 -CAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
63516760 CCAGAACAGA-ATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
63516786 TCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
63516813 CCAG
1 CCAG
63516817 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.06
26 31 0.44
27 32 0.45
28 4 0.06
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:63516776 original size:53 final size:53
Alignment explanation
Indices: 63516707--63516816 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
63516697 AGCATGGCTG
*
63516707 CCAGAACAGATAATGTGACAGAATCA-CAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAACCATCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
63516760 CCAGAACAGA-ATATGTGGCAGAGCCATCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAACCATCAGATCAGATAATCGTGGCAGAGCCA
63516813 CCAG
1 CCAG
63516817 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.88
54 5 0.10
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAACCATCAGATCAGATAATCGTGGCAGAGCCA
Found at i:63524515 original size:27 final size:26
Alignment explanation
Indices: 63524480--63524591 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
63524470 AGCATGGCTG
* *
63524480 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
63524506 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
63524534 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
63524561 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
63524588 CCAG
1 CCAG
63524592 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:63524544 original size:54 final size:54
Alignment explanation
Indices: 63524480--63524591 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
63524470 AGCATGGCTG
*
63524480 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
** * * *
63524534 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
63524588 CCAG
1 CCAG
63524592 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:63537069 original size:22 final size:22
Alignment explanation
Indices: 63537041--63537091 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
63537031 GGGTTATGTC
*
63537041 TTGTCTCAAGACATAAGAC-CAT
1 TTGTCTCAAGACAT-ACACTCAT
*
63537063 TTGTCTCAAGATATACACTCAT
1 TTGTCTCAAGACATACACTCAT
63537085 TTGTCTC
1 TTGTCTC
63537092 GAGATAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (22 bp):
TTGTCTCAAGACATACACTCAT
Found at i:63539969 original size:18 final size:18
Alignment explanation
Indices: 63539946--63539981 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
63539936 ATGTGATTTA
63539946 TAAATTA-AAATTAATAAT
1 TAAATTATAAATT-ATAAT
63539964 TAAATTATAAATTATAAT
1 TAAATTATAAATTATAAT
63539982 ATTAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTATAAATTATAAT
Found at i:63544654 original size:55 final size:55
Alignment explanation
Indices: 63544535--63544657 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 55
63544525 ATGCGCACAC
* * * *
63544535 CCGTGTTATTTTGACAGTTTCGACCCCGAATGGTGGGCACGAGCGTGTTGCACGC
1 CCGTGTTATTTTGAAAGTTTCGACCACGAATGGTGGGCACGAGCGTGTCGCACGA
* * **
63544590 CCATTTTATTTTGAAAGTTTCGACCACGGGTGGTGGGCACGAGCGTGTCGCACGA
1 CCGTGTTATTTTGAAAGTTTCGACCACGAATGGTGGGCACGAGCGTGTCGCACGA
*
63544645 CTGTGTTATTTTG
1 CCGTGTTATTTTG
63544658 GTAGGATTGC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (55 bp):
CCGTGTTATTTTGAAAGTTTCGACCACGAATGGTGGGCACGAGCGTGTCGCACGA
Found at i:63550424 original size:65 final size:65
Alignment explanation
Indices: 63550344--63550525 Score: 256
Period size: 65 Copynumber: 2.8 Consensus size: 65
63550334 TGCATTATGC
* *
63550344 CACACGGCCATAGCACACGGGCATGTTTGTTAGCCGTGGGCTTAAGTCAGTAGCTAGCTAAGAAT
1 CACACGGCCATAGCACACGGGCGTGTTTGTTGGCCGTGGGCTTAAGTCAGTAGCTAGCTAAGAAT
* * * * *
63550409 CACACGGCCGTAGCACACGGGCGTGTTTATTGGCCGTGGGCTTAAGTCAGTTGCTAGCTACGAGT
1 CACACGGCCATAGCACACGGGCGTGTTTGTTGGCCGTGGGCTTAAGTCAGTAGCTAGCTAAGAAT
* * * **
63550474 CACACGGCCATGGCACACGGGCGTGTCTGTCGGCCGTGGGAATAAGTCAGTA
1 CACACGGCCATAGCACACGGGCGTGTTTGTTGGCCGTGGGCTTAAGTCAGTA
63550526 TATAAGCTCT
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 102 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (65 bp):
CACACGGCCATAGCACACGGGCGTGTTTGTTGGCCGTGGGCTTAAGTCAGTAGCTAGCTAAGAAT
Found at i:63553743 original size:43 final size:42
Alignment explanation
Indices: 63553696--63553828 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 42
63553686 CCTCGATTGA
*
63553696 GATTTAAGTATAAGACCATGTCTGGGACATCGGCATTGTATCT
1 GATTTAAGTGTAAGACCATGTCTGGGACATCGGCATTGTAT-T
* * * ** *
63553739 GATTT-CGTGTAAGACCCTGTCTAGGACAGAGGCATCGATATT
1 GATTTAAGTGTAAGACCATGTCTGGGACATCGGCATTG-TATT
* * *
63553781 GAATTACA-TGTAAGACCACGTCTGGGACGTCGGCATTGTACTT
1 GATTTA-AGTGTAAGACCATGTCTGGGACATCGGCATTGTA-TT
63553824 G-TTTA
1 GATTTA
63553829 TGAGCATCTA
Statistics
Matches: 69, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
42 35 0.51
43 34 0.49
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
GATTTAAGTGTAAGACCATGTCTGGGACATCGGCATTGTATT
Found at i:63553760 original size:42 final size:42
Alignment explanation
Indices: 63553706--63553820 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
63553696 GATTTAAGTA
* * *
63553706 TAAGACCATGTCTGGGACATCGGCATTGTATCTG-ATTTCGTG
1 TAAGACCCTGTCTGGGACATCGGCATTGTAT-TGAATTACATG
* ** *
63553748 TAAGACCCTGTCTAGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCCTGTCTGGGACATCGGCATTG-TATTGAATTACATG
*
63553791 TAAGACCAC-GTCTGGGACGTCGGCATTGTA
1 TAAGACC-CTGTCTGGGACATCGGCATTGTA
63553821 CTTGTTTATG
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 27 0.47
43 30 0.52
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACATCGGCATTGTATTGAATTACATG
Found at i:63558074 original size:30 final size:30
Alignment explanation
Indices: 63558017--63558074 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
63558007 CACGGCCATG
* * * *
63558017 ACACACGGACGTGTGGCTTGCCTGTGTGTC
1 ACACAAGGACGTGTGGATTACCCGTGTGTC
*
63558047 ACACAAGGGCGTGTGGATTACCCGTGTG
1 ACACAAGGACGTGTGGATTACCCGTGTG
63558075 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (30 bp):
ACACAAGGACGTGTGGATTACCCGTGTGTC
Found at i:63562611 original size:14 final size:14
Alignment explanation
Indices: 63562592--63562622 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63562582 TGGTATGTTT
63562592 TAAACTAAATTAAC
1 TAAACTAAATTAAC
*
63562606 TAAACTAATTTAAC
1 TAAACTAAATTAAC
63562620 TAA
1 TAA
63562623 GAAGTCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAACTAAATTAAC
Found at i:63568617 original size:49 final size:49
Alignment explanation
Indices: 63568545--63568688 Score: 234
Period size: 49 Copynumber: 2.9 Consensus size: 49
63568535 TCTATTGTGA
* *
63568545 GGTCACGTGTGTAGTACTAAGTGCATGCTACTATGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
*
63568594 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
63568643 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
63568689 GCTTTGGCTA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:63580225 original size:95 final size:91
Alignment explanation
Indices: 63580062--63580331 Score: 283
Period size: 95 Copynumber: 2.9 Consensus size: 91
63580052 TTACTTGTTT
* *
63580062 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGATAGCCAGTGTAAGACCATGTT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCACAAGATGATAGCCAGTGTAAGACCATGTT
63580127 TGGGACATGGCATCGGCGTAGAGAATGAGC
66 TGGGACAT-GCATCGGC-TA-AGAAT-AGC
* * * * *
63580157 GCCAGTGTAAGACATGTCTGGGATATACATCGGCCTCAACGATGATAGCCAGTGTAATA-CGTGT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCACAA-GATGATAGCCAGTGTAAGACCATGT
* * *
63580221 TTGGGACATGCATCGGCTAAGAGTTGT
65 TTGGGACATGCATCGGCTAAGAATAGC
* * * * * * *
63580248 TCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTAGATGAGAGCTAGTATAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCA--C-AAGATGATAGCCAGTGTAAGACCAT
*
63580312 GTCTGGGACATGGCATCGGC
63 GTTTGGGACAT-GCATCGGC
63580332 CTCGACGATG
Statistics
Matches: 146, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
90 1 0.01
91 29 0.20
92 20 0.14
93 15 0.10
94 16 0.11
95 48 0.33
96 17 0.12
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATACATCAGCCACAAGATGATAGCCAGTGTAAGACCATGTT
TGGGACATGCATCGGCTAAGAATAGC
Found at i:63580321 original size:49 final size:49
Alignment explanation
Indices: 63580249--63580377 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 49
63580239 AAGAGTTGTT
*
63580249 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATGCGTA-GATGAGAG
1 CTAGTATAAGACCATGTCTGGGACATGGCATCAGCAT-CG-ACGATGAGAG
* * *
63580297 CTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGACGATGATAG
1 CTAGTATAAGACCATGTCTGGGACATGGCATCAGCATCGACGATGAGAG
* *
63580346 CCAGTATAAGACCATGATC-GAGACATGGCATC
1 CTAGTATAAGACCATG-TCTGGGACATGGCATC
63580378 TGCAACTTAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
48 11 0.15
49 50 0.70
50 10 0.14
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (49 bp):
CTAGTATAAGACCATGTCTGGGACATGGCATCAGCATCGACGATGAGAG
Found at i:63581215 original size:55 final size:55
Alignment explanation
Indices: 63581144--63581275 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 55
63581134 CTTAAAATTG
* * * * *
63581144 AAAGTCAGT-TTAGTACATGGGCAGGCCACACGAGCTTGTGTCGTGGCCGTGTTTT
1 AAAGTCAGTGTT-GTACATGGGCAGGCCACACAAGCGTCTGTCATGGCCGTGTTTC
* *
63581199 AAAGTCAGTGTTGTACATAGGCAGGCCACACAAGGGTCTGTCATGGCCGTGTTTC
1 AAAGTCAGTGTTGTACATGGGCAGGCCACACAAGCGTCTGTCATGGCCGTGTTTC
* *
63581254 AAAGTCAATGTTGCACATGGGC
1 AAAGTCAGTGTTGTACATGGGC
63581276 TAAGGGCACG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
55 64 0.97
56 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
AAAGTCAGTGTTGTACATGGGCAGGCCACACAAGCGTCTGTCATGGCCGTGTTTC
Found at i:63587079 original size:30 final size:30
Alignment explanation
Indices: 63587045--63587102 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
63587035 TTTTCGAGCA
*
63587045 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
63587075 TAGGGGCAAAATGGTCTTTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
63587103 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:63587594 original size:47 final size:46
Alignment explanation
Indices: 63587443--63587618 Score: 172
Period size: 47 Copynumber: 3.7 Consensus size: 46
63587433 TTACTTGTGT
* * * *
63587443 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCCACAATATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATA
* * * * * **
63587489 GCTAGTGTAAGACCAGGTCTGGGACATGGCATCGGCGTAGAGAATAAGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG-ATGATA
* * *
63587538 GCCAATGTAAGACATGTTTGGGATATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGATA
* *
63587585 GCCAGTGTAAGACGTGTCTAGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
63587619 TAAAAGTTGT
Statistics
Matches: 100, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
46 11 0.11
47 55 0.55
48 21 0.21
49 13 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATA
Found at i:63587611 original size:95 final size:94
Alignment explanation
Indices: 63587443--63587618 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 94
63587433 TTACTTGTGT
* * * *
63587443 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCCACAATATGATAGCTAGTGTAAGACCAGGTC
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCAGGTC
*
63587508 TGGGACATGGCATCGGCGTAGAGAATAAGC
66 TAGGACAT-GCATCGGCGTAGAGAATAAGC
* * * *
63587538 GCCAATGTAAGACATGTTTGGGATATGCATCGGCCTCGACGATGATAGCCAGTGTAAGA-C-GTG
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCAC-AAGATGATAGCCAGTGTAAGACCAG-G
63587601 TCTAGGACATGCATCGGC
64 TCTAGGACATGCATCGGC
63587619 TAAAAGTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
94 9 0.13
95 43 0.61
96 18 0.26
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCAGGTC
TAGGACATGCATCGGCGTAGAGAATAAGC
Found at i:63588605 original size:55 final size:55
Alignment explanation
Indices: 63588521--63588653 Score: 178
Period size: 55 Copynumber: 2.4 Consensus size: 55
63588511 GCACTTAAAA
*
63588521 TTTAAAGTCAGT-TTAGTACACGGACAGGCCACACGGGCGTGTGTCATGCCCGTGT
1 TTTAAAGTCAGTGTT-GTACACGGACAGGCCACACGGGCATGTGTCATGCCCGTGT
* * * *
63588576 TTTAAAGCCAGTGTTGTGCACGGGCAGGCCACACGGGCATGTGTCATGGCCGTGT
1 TTTAAAGTCAGTGTTGTACACGGACAGGCCACACGGGCATGTGTCATGCCCGTGT
* * *
63588631 TTCAAAGTTAGTGTTGCACACGG
1 TTTAAAGTCAGTGTTGTACACGG
63588654 GTTAAGGGCG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
55 65 0.97
56 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (55 bp):
TTTAAAGTCAGTGTTGTACACGGACAGGCCACACGGGCATGTGTCATGCCCGTGT
Found at i:63594824 original size:26 final size:26
Alignment explanation
Indices: 63594795--63594845 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
63594785 CCCATTATAT
63594795 GGCTCTTCGTGAGCTTTCC-GATTAAA
1 GGCTCTTCGTGAGC-TTCCTGATTAAA
*
63594821 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTCGTGAGCTTCCTGATTAA
63594846 TGGATTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTGATTAAA
Found at i:63596825 original size:17 final size:16
Alignment explanation
Indices: 63596805--63596838 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
63596795 CATTATCTTT
63596805 TTTTTTCCATTAGTTAA
1 TTTTTTCCATTA-TTAA
*
63596822 TTTTTTTCATTATTAA
1 TTTTTTCCATTATTAA
63596838 T
1 T
63596839 CGTAGCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTTTCCATTATTAA
Found at i:63596837 original size:16 final size:18
Alignment explanation
Indices: 63596804--63596838 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63596794 CCATTATCTT
63596804 TTTTTTTCCATTAGTTAA
1 TTTTTTTCCATTAGTTAA
63596822 TTTTTTT-CATTA-TTAA
1 TTTTTTTCCATTAGTTAA
63596838 T
1 T
63596839 CGTAGCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTTTCCATTAGTTAA
Found at i:63603804 original size:217 final size:217
Alignment explanation
Indices: 63603429--63603862 Score: 789
Period size: 217 Copynumber: 2.0 Consensus size: 217
63603419 AAAAATACTT
*
63603429 TATTGCCAAAAAATTTCTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAATCTTAAGGGTTATC
1 TATTGCCAAAAAATTTCTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAAGGGTTATC
63603494 TGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTTC
66 TGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTTC
* * *
63603559 AAACAACTTATCATGGCATTACAACATGTGAATATGGCATTCTCAATCATACAGTGCAATGGTCC
131 AAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTCC
* *
63603624 TACTAATCTATCTGCTACACAC
196 TACCAATCTATCCGCTACACAC
*
63603646 TATTGCCAAAAAA-TTCGTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAGGGGTTAT
1 TATTGCCAAAAAATTTC-TAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAAGGGTTAT
63603710 CTGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTT
65 CTGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTT
63603775 CAAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTC
130 CAAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTC
63603840 CTACCAATCTATCCGCTACACAC
195 CTACCAATCTATCCGCTACACAC
63603863 ACGAGTTTCC
Statistics
Matches: 209, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
216 3 0.01
217 206 0.99
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (217 bp):
TATTGCCAAAAAATTTCTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAAGGGTTATC
TGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTTC
AAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTCC
TACCAATCTATCCGCTACACAC
Found at i:63606325 original size:14 final size:15
Alignment explanation
Indices: 63606298--63606327 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
63606288 TATAAAGGGC
63606298 TTAAAATGATTTTTT
1 TTAAAATGATTTTTT
63606313 TTAAAAT-ATTTTTT
1 TTAAAATGATTTTTT
63606327 T
1 T
63606328 ATTTCTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTAAAATGATTTTTT
Found at i:63606509 original size:18 final size:20
Alignment explanation
Indices: 63606473--63606510 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
63606463 TCTTAAAAAA
63606473 AATATATTTAATATATATTT
1 AATATATTTAATATATATTT
*
63606493 AATA-ATTT-ATATTTATTT
1 AATATATTTAATATATATTT
63606511 TTAAAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATATTTAATATATATTT
Found at i:63607318 original size:15 final size:15
Alignment explanation
Indices: 63607298--63607327 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63607288 AAGGCTGTGA
63607298 GCAATGAGTATCGCT
1 GCAATGAGTATCGCT
63607313 GCAATGAGTATCGCT
1 GCAATGAGTATCGCT
63607328 CTTTTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (15 bp):
GCAATGAGTATCGCT
Found at i:63608953 original size:5 final size:5
Alignment explanation
Indices: 63608943--63608982 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
63608933 ACTTTAGCCA
* *
63608943 TTTAT TTTAT TTTAT TTTAT TTTTT TTTACT TTTAA TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTA
63608983 CTAACTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:63608963 original size:15 final size:16
Alignment explanation
Indices: 63608943--63609000 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 16
63608933 ACTTTAGCCA
63608943 TTTATTTTATTTTA-T
1 TTTATTTTATTTTACT
*
63608958 TTTATTTTTTTTTACT
1 TTTATTTTATTTTACT
* * *
63608974 TTTAATTTA-CTAACT
1 TTTATTTTATTTTACT
*
63608989 TTTCTTTTATTT
1 TTTATTTTATTT
63609001 GCTTCTGGCA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
15 24 0.73
16 9 0.27
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTTATTTTACT
Found at i:63612126 original size:5 final size:5
Alignment explanation
Indices: 63612116--63612167 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
63612106 AATCACCCCA
*
63612116 ATTTT ATTTT ATTTT A-TTT ATTTTT AATTGTT ATATT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT -ATT-TT ATTTT ATTTT ATTTT
63612162 ATTTT A
1 ATTTT A
63612168 CTAACTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.17
5 23 0.57
6 7 0.17
7 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:63612154 original size:22 final size:20
Alignment explanation
Indices: 63612117--63612167 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
63612107 ATCACCCCAA
*
63612117 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
63612137 TTTTAATTGTTATATTATTTA-
1 TTTT-ATT-TTATATTATTTAT
63612158 TTTTATTTTA
1 TTTTATTTTA
63612168 CTAACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 7 0.25
22 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:63612154 original size:27 final size:26
Alignment explanation
Indices: 63612115--63612166 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
63612105 TAATCACCCC
*
63612115 AATTTTATTTTATTT-TATTTATTTTT
1 AATTTTATATTATTTAT-TTTATTTTT
63612141 AATTGTTATATTATTTATTTTATTTT
1 AATT-TTATATTATTTATTTTATTTT
63612167 ACTAACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 18 0.78
28 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (26 bp):
AATTTTATATTATTTATTTTATTTTT
Found at i:63612238 original size:6 final size:6
Alignment explanation
Indices: 63612229--63612253 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63612219 TATATTTTTA
63612229 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
63612254 CTTATCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:63612253 original size:26 final size:26
Alignment explanation
Indices: 63612224--63612294 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
63612214 GTTTATATAT
*
63612224 TTTTATTATTTTTATTTTTATTTTTA
1 TTTTATTATTTTTATTTTTAATTTTA
* * * *
63612250 TTTTCTTATCTTTCTTTTAAATTTTA
1 TTTTATTATTTTTATTTTTAATTTTA
63612276 TTTTAGTTA-TTTTATTTTT
1 TTTTA-TTATTTTTATTTTT
63612295 TTCTTCTTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 32 0.91
27 3 0.09
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (26 bp):
TTTTATTATTTTTATTTTTAATTTTA
Found at i:63625079 original size:20 final size:20
Alignment explanation
Indices: 63625054--63625098 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
63625044 AGGGACTAAA
* *
63625054 ATGAAAAGTTTTAAAATTTC
1 ATGAAAAATTCTAAAATTTC
*
63625074 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTC
63625094 ATGAA
1 ATGAA
63625099 CACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTC
Found at i:63629453 original size:25 final size:26
Alignment explanation
Indices: 63629422--63629472 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
63629412 CATTAAAGTT
63629422 AAAAAAGAATTTCAAGTA-TCCCAAA
1 AAAAAAGAATTTCAAGTATTCCCAAA
*
63629447 AAAAAAGAATTTCAATTATTCCCAAA
1 AAAAAAGAATTTCAAGTATTCCCAAA
63629473 TTTTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.24
Consensus pattern (26 bp):
AAAAAAGAATTTCAAGTATTCCCAAA
Found at i:63629605 original size:41 final size:41
Alignment explanation
Indices: 63629560--63629641 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
63629550 GAGAATGATG
*
63629560 AAATTAATGATCCAAATGAGCTTAATGATGTGTCAAATGTA
1 AAATTAATAATCCAAATGAGCTTAATGATGTGTCAAATGTA
*
63629601 AAATTAATAATCCAAATGAGCTTAATGATGTGTCAGATGTA
1 AAATTAATAATCCAAATGAGCTTAATGATGTGTCAAATGTA
63629642 TCCAATATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (41 bp):
AAATTAATAATCCAAATGAGCTTAATGATGTGTCAAATGTA
Found at i:63631729 original size:10 final size:10
Alignment explanation
Indices: 63631710--63631739 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
63631700 AGGTGGTTGG
63631710 TTAGTGGGAT
1 TTAGTGGGAT
*
63631720 TTAGTAGGAT
1 TTAGTGGGAT
63631730 TTAGTGGGAT
1 TTAGTGGGAT
63631740 ATGGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (10 bp):
TTAGTGGGAT
Found at i:63632528 original size:47 final size:49
Alignment explanation
Indices: 63632446--63632551 Score: 180
Period size: 47 Copynumber: 2.2 Consensus size: 49
63632436 CGACCGTGTA
63632446 AAATCATGCAGGTCGTGTGAGTAAGCCATGTGAGGCACACAACCATGTG
1 AAATCATGCAGGTCGTGTGAGTAAGCCATGTGAGGCACACAACCATGTG
* *
63632495 AAATAATGCAGGTCGTG-G-GTATGCCATGTGAGGCACACAACCATGTG
1 AAATCATGCAGGTCGTGTGAGTAAGCCATGTGAGGCACACAACCATGTG
63632542 AAATCATGCA
1 AAATCATGCA
63632552 AGCTGTGTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 37 0.69
48 1 0.02
49 16 0.30
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (49 bp):
AAATCATGCAGGTCGTGTGAGTAAGCCATGTGAGGCACACAACCATGTG
Found at i:63634075 original size:19 final size:19
Alignment explanation
Indices: 63634051--63634089 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
63634041 GATATTTATG
63634051 TAAAAATAATTCTACTCAA
1 TAAAAATAATTCTACTCAA
63634070 TAAAAATAATTCTACTCAA
1 TAAAAATAATTCTACTCAA
63634089 T
1 T
63634090 TCAGTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATTCTACTCAA
Found at i:63647119 original size:50 final size:50
Alignment explanation
Indices: 63647044--63647146 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 50
63647034 AAAGTCCATG
**
63647044 AGACCATATAGTGTAAAACCATAACTAGTGGGTTATGGTATCACATGGAA
1 AGACCATATAGTGTAAAACCATAACTAGTGGGTTATGACATCACATGGAA
* *
63647094 AGACCATATCA-TGTAAGACCATAACTAGTGGGTTATGACATCATATGGAA
1 AGACCATAT-AGTGTAAAACCATAACTAGTGGGTTATGACATCACATGGAA
63647144 AGA
1 AGA
63647147 TCAAAAGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (50 bp):
AGACCATATAGTGTAAAACCATAACTAGTGGGTTATGACATCACATGGAA
Found at i:63647282 original size:28 final size:28
Alignment explanation
Indices: 63647250--63647363 Score: 156
Period size: 28 Copynumber: 4.1 Consensus size: 28
63647240 CATGAAAACA
**
63647250 TATGAAAATGGAAGCCTTTATCACAATC
1 TATGAAAATGGAAGCCTTTATGGCAATC
* *
63647278 TATGAAAATGGAATCCTTTGTGGCAATC
1 TATGAAAATGGAAGCCTTTATGGCAATC
*
63647306 TATGAAAATGGAAGCCTTTATGGCAATA
1 TATGAAAATGGAAGCCTTTATGGCAATC
* * *
63647334 TATGAAAATGGAGGCCTTTGTGGCTATC
1 TATGAAAATGGAAGCCTTTATGGCAATC
63647362 TA
1 TA
63647364 AGGAAAGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (28 bp):
TATGAAAATGGAAGCCTTTATGGCAATC
Found at i:63647311 original size:56 final size:56
Alignment explanation
Indices: 63647250--63647363 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
63647240 CATGAAAACA
* *
63647250 TATGAAAATGGAAGCCTTTATCACAATCTATGAAAATGGAATCCTTTGTGGCAATC
1 TATGAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATC
** * *
63647306 TATGAAAATGGAAGCCTTTATGGCAATATATGAAAATGGAGGCCTTTGTGGCTATC
1 TATGAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATC
63647362 TA
1 TA
63647364 AGGAAAGGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (56 bp):
TATGAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATC
Found at i:63647379 original size:56 final size:56
Alignment explanation
Indices: 63647253--63647379 Score: 166
Period size: 56 Copynumber: 2.3 Consensus size: 56
63647243 GAAAACATAT
* * *
63647253 GAAAATGGAAGCCTTTATCACAATCTATGAAAATGGAATCCTTTGTGGCAATCTAT
1 GAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATCTAA
** * *
63647309 GAAAATGGAAGCCTTTATGGCAATATATGAAAATGGAGGCCTTTGTGGCTATCTAA
1 GAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATCTAA
*
63647365 GGAAA-GGAACGCCTT
1 GAAAATGGAA-GCCTT
63647380 CGTGGTGCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 4 0.06
56 58 0.94
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (56 bp):
GAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATCTAA
Found at i:63653493 original size:31 final size:31
Alignment explanation
Indices: 63653457--63653519 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
63653447 GGTCGTGCCC
63653457 GTGTGATATTTTAAATAGGTGTATTAGGGGT
1 GTGTGATATTTTAAATAGGTGTATTAGGGGT
*
63653488 GTGTGATATTTTAAATAGGTGTATTGGGGGT
1 GTGTGATATTTTAAATAGGTGTATTAGGGGT
63653519 G
1 G
63653520 AAAGCCTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (31 bp):
GTGTGATATTTTAAATAGGTGTATTAGGGGT
Found at i:63656747 original size:21 final size:21
Alignment explanation
Indices: 63656723--63656791 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
63656713 TTTGTAACTA
*
63656723 AGTTGGGGCAGCCTCTTGCTG
1 AGTTGGGGTAGCCTCTTGCTG
* *
63656744 AGTTGGGGTA-CTCTCTTACTA
1 AGTTGGGGTAGC-CTCTTGCTG
* * *
63656765 ATTTGGGATAGCCTGTTGCTG
1 AGTTGGGGTAGCCTCTTGCTG
63656786 AGTTGG
1 AGTTGG
63656792 AGCAACCACT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.35
Consensus pattern (21 bp):
AGTTGGGGTAGCCTCTTGCTG
Found at i:63657701 original size:78 final size:78
Alignment explanation
Indices: 63657424--63657709 Score: 330
Period size: 78 Copynumber: 3.6 Consensus size: 78
63657414 AAAACTACAT
* **
63657424 TGTGACCAGCCCCACCAACAATCGTACACACATACACCTAAAAAACAATCACTGCATGCATATTA
1 TGTGACCAGCCCCACCAACAATCATACACA-A-ACAGAT-AAAAA-AATCACTGCATGCATATTA
*
63657489 AAAAATAGTCAACAGCA
62 AAAAATAGTCAATAGCA
* *
63657506 TGTGACCATCCCCATCAACAATCATACAC--AC-GCATAAAAAATAGTCACTGCATGCATATTAA
1 TGTGACCAGCCCCACCAACAATCATACACAAACAG-ATAAAAAA-A-TCACTGCATGCATATTAA
63657568 AAAATAGTCAATAGCA
63 AAAATAGTCAATAGCA
* * * * * *
63657584 TGTGACCATCCTCGCCAACAATCATACACAGACAAATTAAAAAA-CACTGCATGCATATTAAAAA
1 TGTGACCAGCCCCACCAACAATCATACACAAACAGATAAAAAAATCACTGCATGCATATT-AAAA
*
63657648 AATAGTTAATAGCA
65 AATAGTCAATAGCA
* *
63657662 TGTGACTAGCCCCACCAACAATCATACACAAACAGATTAAAAAA-CACT
1 TGTGACCAGCCCCACCAACAATCATACACAAACAGATAAAAAAATCACT
63657710 CACTAAAATA
Statistics
Matches: 179, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
76 1 0.01
77 21 0.12
78 121 0.68
79 1 0.01
80 9 0.05
82 26 0.15
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.20
Consensus pattern (78 bp):
TGTGACCAGCCCCACCAACAATCATACACAAACAGATAAAAAAATCACTGCATGCATATTAAAAA
ATAGTCAATAGCA
Found at i:63659390 original size:15 final size:15
Alignment explanation
Indices: 63659366--63659415 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
63659356 TTATACTATT
63659366 AGACACATCACTTTC
1 AGACACATCACTTTC
* **
63659381 AGATACATCACTACC
1 AGACACATCACTTTC
*
63659396 AGACACATCAGTTTC
1 AGACACATCACTTTC
63659411 AGACA
1 AGACA
63659416 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (15 bp):
AGACACATCACTTTC
Found at i:63659885 original size:34 final size:34
Alignment explanation
Indices: 63659839--63659933 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
63659829 AACTAAAACC
* *
63659839 AAAATTAAAATAACCTTAAATCTAAAATTGAAAT
1 AAAATCAAAATAACCCTAAATCTAAAATTGAAAT
*
63659873 CAAAATC-AAATAACCCTAAATTTAAAATTGAAAT
1 -AAAATCAAAATAACCCTAAATCTAAAATTGAAAT
*
63659907 AAAATCAAAATAACCCTAAATCAAAAA
1 AAAATCAAAATAACCCTAAATCTAAAA
63659934 AATAAAAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 6 0.11
34 43 0.80
35 5 0.09
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (34 bp):
AAAATCAAAATAACCCTAAATCTAAAATTGAAAT
Found at i:63660373 original size:21 final size:21
Alignment explanation
Indices: 63660347--63660387 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
63660337 CAATGTGGGA
63660347 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
63660368 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
63660388 AGTCCCGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:63660483 original size:22 final size:22
Alignment explanation
Indices: 63660458--63660504 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
63660448 ACGTTAGTGA
63660458 TTGTTTTGTCATTTTTCAAAAG
1 TTGTTTTGTCATTTTTCAAAAG
63660480 TTGTTTTGTCATTTTTCAAAAG
1 TTGTTTTGTCATTTTTCAAAAG
63660502 TTG
1 TTG
63660505 AGTGACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (22 bp):
TTGTTTTGTCATTTTTCAAAAG
Found at i:63664697 original size:17 final size:16
Alignment explanation
Indices: 63664675--63664706 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
63664665 TTATAAATTA
63664675 TTGGAAGCTCGATCGAT
1 TTGGAAGCTCG-TCGAT
63664692 TTGGAAGCTCGTCGA
1 TTGGAAGCTCGTCGA
63664707 AGATCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCGAT
Found at i:63681054 original size:39 final size:39
Alignment explanation
Indices: 63681000--63681077 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
63680990 AATGTTTATG
63681000 TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
1 TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
*
63681039 TTCGTATGGTATTTGGTATGCTCGTCTCCAAATAAGGTA
1 TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
63681078 AGTATAGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (39 bp):
TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
Found at i:63684078 original size:19 final size:19
Alignment explanation
Indices: 63684056--63684102 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
63684046 CTAATTTTAG
*
63684056 TTAATTTATGTTATTTCGA
1 TTAATTAATGTTATTTCGA
63684075 TTAATTAATGTTATTTCGA
1 TTAATTAATGTTATTTCGA
63684094 TTAATTAAT
1 TTAATTAAT
63684103 TTTACTTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (19 bp):
TTAATTAATGTTATTTCGA
Found at i:63685631 original size:44 final size:46
Alignment explanation
Indices: 63685570--63685789 Score: 185
Period size: 49 Copynumber: 4.7 Consensus size: 46
63685560 AGGATATACA
* * *
63685570 AGCCAGTGTAAGACCTGTCTGGGACATGGCGTC-AAC-TTATTGTG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAACATTAATGAG
* * *
63685614 TGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-A-C-ATTAATGAG
** * *
63685663 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAGTATATGAA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATC-G-AACATTA-ATGAG
* * * * * *
63685712 AGTCAATGTAGGACCTGTCTGGGACACGGCATC-AACTTTAATGTG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAACATTAATGAG
*
63685757 CTAGCCAGTGTAAGACCATATCTGGGACATGGC
1 --AGCCAGTGTAAGACC-TGTCTGGGACATGGC
63685790 GTCGGCATTT
Statistics
Matches: 137, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
44 30 0.22
45 4 0.03
46 4 0.03
47 13 0.09
48 15 0.11
49 70 0.51
50 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAACATTAATGAG
Found at i:63687635 original size:127 final size:127
Alignment explanation
Indices: 63687391--63687647 Score: 338
Period size: 127 Copynumber: 2.0 Consensus size: 127
63687381 CAGTGCAAGG
* * * * *
63687391 CAAACTCAAGTTGATCTTGACTTTCAACCGAACAACCTTCTTCGCTACTCTCAAATTGCAAATTT
1 CAAAATCAAGTTAATATTGACTTTCAACCCAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
* *
63687456 CATCGAGTGCGGGCTCGAGCAACTCGAACCAAATCACCAAAAAGAAATGATTTATTTACTTT
66 CATCGAGTGCGGGCCCGAGCAACTCGAACCAAATCACCAAAAAGAAACGATTTATTTACTTT
* ** * * **
63687518 CAAAATCAAGTTAATATTGGCTTTCAACCCAATGACCTTCTTCGCTATTCTCGAATTGGGAATTG
1 CAAAATCAAGTTAATATTGACTTTCAACCCAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
* *
63687583 CATTGAGTGCGGGCCCGAGCAA-TAGGAACCAAATCA-CAAAAATGAAACGATTTATTTACTTT
66 CATCGAGTGCGGGCCCGAGCAACT-CGAACCAAATCACCAAAAA-GAAACGATTTATTTACTTT
63687645 CAA
1 CAA
63687648 TACGAAACTA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
126 7 0.06
127 105 0.94
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (127 bp):
CAAAATCAAGTTAATATTGACTTTCAACCCAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
CATCGAGTGCGGGCCCGAGCAACTCGAACCAAATCACCAAAAAGAAACGATTTATTTACTTT
Found at i:63691564 original size:30 final size:31
Alignment explanation
Indices: 63691528--63691590 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
63691518 GAACCTTTTT
*
63691528 ACTTTCCCCCCAAAACGTTTACTC-CCTCCC
1 ACTTTCCCCCCAAAACGTTTACTCTCATCCC
*
63691558 ACTTTCCCCCCAAAACTTTTACTCTCATCCC
1 ACTTTCCCCCCAAAACGTTTACTCTCATCCC
63691589 AC
1 AC
63691591 CCCCGTCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.22, C:0.48, G:0.02, T:0.29
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACGTTTACTCTCATCCC
Found at i:63691650 original size:20 final size:21
Alignment explanation
Indices: 63691606--63691650 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 21
63691596 TCTACCCTAA
63691606 ACCCTAAAACTTTTTATTTTC
1 ACCCTAAAACTTTTTATTTTC
63691627 -CCCT-AAAC-TTTTATTTCTC
1 ACCCTAAAACTTTTTATTT-TC
63691646 ACCCT
1 ACCCT
63691651 TTACCCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
20 8 0.36
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.44
Consensus pattern (21 bp):
ACCCTAAAACTTTTTATTTTC
Found at i:63693813 original size:49 final size:49
Alignment explanation
Indices: 63693758--63694002 Score: 267
Period size: 49 Copynumber: 4.9 Consensus size: 49
63693748 TAGCTAAAGC
* * *
63693758 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
63693807 TATCTGGTACATGTAGTAGCCTGCACTTATTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * * *
63693857 CATCTGATACACGTAGAAGCCTGCACTTAATACTACAAACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
63693908 TAT-TAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAT
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
63693957 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
63694003 TCACAATAGA
Statistics
Matches: 160, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 80 0.50
50 46 0.29
51 34 0.21
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:63693999 original size:100 final size:99
Alignment explanation
Indices: 63693771--63694002 Score: 279
Period size: 100 Copynumber: 2.3 Consensus size: 99
63693761 CTGGTACGCA
* * **
63693771 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
* * *
63693836 TTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* * * * *
63693870 TAGAAGCCTGCACTTAATACTACAAACGTGATCGAAGTTAT-TAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCT-GGTACACATAGTAGCCTGCAC
* ** *
63693934 TTAGTACTACACATGCGA-CTAATTATCCGGTACACG
63 TTAGTACTACACACGCGACCTAACCATCCGATACACG
63693970 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
63694003 TCACAATAGA
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
99 27 0.25
100 46 0.42
101 37 0.34
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:63696142 original size:48 final size:48
Alignment explanation
Indices: 63696087--63696369 Score: 230
Period size: 48 Copynumber: 5.9 Consensus size: 48
63696077 AGGGTGAATT
* * * *
63696087 GCCGATGCCATGTTCCAAACATCGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAG
* * * ** * *
63696135 GCCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCTCACCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAG
* * * * * * *
63696183 GCCAATGTCATGTCCCAAATAGGGTCTTACACTGGCTCTCTTATTGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAG
* * * * * * * *
63696231 G--AATGCTATGTCCCAGACATGGTCTTACATTGTCTCTCACAAC-ATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGA-G
* * * *
63696277 GTCGATGCCATGTTCCAAACATGGTCTTACACTGGATCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAG
* * * *
63696325 GCCGACGCCATGTCCCAAACATGATCTTACACTGGCACACATATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
63696370 ACCCAAATGT
Statistics
Matches: 176, Mismatches: 55, Indels: 8
0.74 0.23 0.03
Matches are distributed among these distances:
46 32 0.18
48 144 0.82
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:63696289 original size:94 final size:94
Alignment explanation
Indices: 63696086--63696357 Score: 224
Period size: 94 Copynumber: 2.9 Consensus size: 94
63696076 GAGGGTGAAT
* * ** * * * * *
63696086 TGCCGATGCCATGTTCCAAACATCGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCC
1 TGCCAATGCCATGTCCCAAACAGGGTCTTACACTGGATCTCATATCGTGG--AATGCCATGTCCC
**
63696151 AGACATGGCCTTACACTAGCTCTCACCTCAA
64 AGACATGGCCTTACACTAGCTCTCACAACAA
* * * * * *
63696182 TGCCAATGTCATGTCCCAAATAGGGTCTTACACTGGCTCTCTTATTGTGGAATGCTATGTCCCAG
1 TGCCAATGCCATGTCCCAAACAGGGTCTTACACTGGATCTCATATCGTGGAATGCCATGTCCCAG
* *
63696247 ACATGGTCTTACA-TTGTCTCTCACAAC-A
66 ACATGGCCTTACACTAG-CTCTCACAACAA
* * * * * *
63696275 TCGTCGATGCCATGTTCCAAACATGGTCTTACACTGGATCTCATATCGTGGCCGACGCCATGTCC
1 T-GCCAATGCCATGTCCCAAACAGGGTCTTACACTGGATCTCATATCGTGG--AATGCCATGTCC
* **
63696340 CAAACATGATCTTACACT
63 CAGACATGGCCTTACACT
63696358 GGCACACATA
Statistics
Matches: 140, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
93 4 0.03
94 73 0.52
96 62 0.44
97 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
TGCCAATGCCATGTCCCAAACAGGGTCTTACACTGGATCTCATATCGTGGAATGCCATGTCCCAG
ACATGGCCTTACACTAGCTCTCACAACAA
Found at i:63699636 original size:12 final size:13
Alignment explanation
Indices: 63699619--63699668 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
63699609 GATAATTATT
63699619 ATAGAT-AATTCA
1 ATAGATAAATTCA
63699631 ATAGATAAATTCA
1 ATAGATAAATTCA
* **
63699644 A-AGTTTTA-TCA
1 ATAGATAAATTCA
63699655 ATAGATAAATTCA
1 ATAGATAAATTCA
63699668 A
1 A
63699669 AGTTTTACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.14
12 14 0.48
13 11 0.38
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (13 bp):
ATAGATAAATTCA
Found at i:63699656 original size:24 final size:24
Alignment explanation
Indices: 63699628--63699675 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
63699618 TATAGATAAT
63699628 TCAATAGATAAATTCAAAGTTTTA
1 TCAATAGATAAATTCAAAGTTTTA
63699652 TCAATAGATAAATTCAAAGTTTTA
1 TCAATAGATAAATTCAAAGTTTTA
63699676 CCTTATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (24 bp):
TCAATAGATAAATTCAAAGTTTTA
Found at i:63709219 original size:11 final size:11
Alignment explanation
Indices: 63709205--63709283 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 11
63709195 GACAGGATTT
63709205 TATTAATTTAA
1 TATTAATTTAA
*
63709216 TATTAATATAA
1 TATTAATTTAA
63709227 GGTATTAAATTTAA
1 --TATT-AATTTAA
63709241 T-TTAATATTTAA
1 TATT-A-ATTTAA
* **
63709253 CTAGATAATTTTT
1 -TA-TTAATTTAA
63709266 TATTAATTTAA
1 TATTAATTTAA
63709277 TATTAAT
1 TATTAAT
63709284 GTGATTAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
11 27 0.51
12 9 0.17
13 9 0.17
14 7 0.13
15 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:63709236 original size:61 final size:61
Alignment explanation
Indices: 63709154--63709283 Score: 179
Period size: 61 Copynumber: 2.1 Consensus size: 61
63709144 ATTTACCTAG
* ** *
63709154 ATATTAATATGAGATACTAAATTTAATTTAATATTTATTTAGACAGGATTTTATTAATTTA
1 ATATTAATATAAGATACTAAATTTAATTTAATATTTAACTAGACAAGATTTTATTAATTTA
* * * **
63709215 ATATTAATATAAGGTATTAAATTTAATTTAATATTTAACTAGATAATTTTTTATTAATTTA
1 ATATTAATATAAGATACTAAATTTAATTTAATATTTAACTAGACAAGATTTTATTAATTTA
63709276 ATATTAAT
1 ATATTAAT
63709284 GTGATTAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATTAATATAAGATACTAAATTTAATTTAATATTTAACTAGACAAGATTTTATTAATTTA
Found at i:63710443 original size:21 final size:20
Alignment explanation
Indices: 63710411--63710449 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
63710401 TCATCTTCAC
*
63710411 TGGCATCGCGATACCAAGCA
1 TGGCATCACGATACCAAGCA
63710431 TGGCTATCACGATACCAAG
1 TGGC-ATCACGATACCAAG
63710450 ACACCTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (20 bp):
TGGCATCACGATACCAAGCA
Found at i:63723060 original size:18 final size:18
Alignment explanation
Indices: 63723037--63723079 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
63723027 GCAAATAAAG
63723037 GTGTTGCCGAATAGAATA
1 GTGTTGCCGAATAGAATA
*
63723055 GTGTTGCCGAATAGAATG
1 GTGTTGCCGAATAGAATA
63723073 GTGTTGC
1 GTGTTGC
63723080 TGAACGTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (18 bp):
GTGTTGCCGAATAGAATA
Found at i:63728430 original size:50 final size:49
Alignment explanation
Indices: 63728276--63728432 Score: 124
Period size: 50 Copynumber: 3.2 Consensus size: 49
63728266 CGTCCCAATA
* * * *
63728276 TATGGCTCTTCGGAGCTTCCCGATTA-AAGGATCTTTTATGAGCTTTCTG-A
1 TATGGCTCTTTGGAGCTTCCCG-TTATATGG--CTTATATGAGCTTTCTGTT
* * * * ** *
63728326 TATTGGCTC-TTGAACCTTCCCATTAT-TGTCTCGTATGAGCCTTCCTGTT
1 TA-TGGCTCTTTGGAGCTTCCCGTTATATGGCTTATATGAG-CTTTCTGTT
*
63728375 AATGGCTCTTTGGAGCTTCCCGTTATATGGCTTATATGAGCTTTCTGTTT
1 TATGGCTCTTTGGAGCTTCCCGTTATATGGCTTATATGAGCTTTCTG-TT
63728425 TATGGCTC
1 TATGGCTC
63728433 GAAAGAGCTT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
47 8 0.10
48 12 0.15
49 25 0.31
50 30 0.37
51 6 0.07
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (49 bp):
TATGGCTCTTTGGAGCTTCCCGTTATATGGCTTATATGAGCTTTCTGTT
Found at i:63729768 original size:43 final size:43
Alignment explanation
Indices: 63729673--63729770 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
63729663 ACAACCTGAG
* * ** *
63729673 ACACGGGCATGTTTCTTGACTGTGTTTGCCACACGGCTTAGCC
1 ACACAGGCGTGTTTCTTGACCATGTTTGCCACACGGCCTAGCC
* * * *
63729716 ACACGGGCGTGTTTCTTGACCATGTTTGCTACATGGCCTGGCC
1 ACACAGGCGTGTTTCTTGACCATGTTTGCCACACGGCCTAGCC
*
63729759 ATACAGGCGTGT
1 ACACAGGCGTGT
63729771 GTCCCCTGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.30
Consensus pattern (43 bp):
ACACAGGCGTGTTTCTTGACCATGTTTGCCACACGGCCTAGCC
Found at i:63731670 original size:24 final size:24
Alignment explanation
Indices: 63731638--63731691 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
63731628 GTATTCCACT
63731638 AATCATTTGCCTACACCTATATCA
1 AATCATTTGCCTACACCTATATCA
63731662 AATCATTTGCCTACACCTATATCA
1 AATCATTTGCCTACACCTATATCA
63731686 AATCAT
1 AATCAT
63731692 AAGTCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (24 bp):
AATCATTTGCCTACACCTATATCA
Found at i:63738506 original size:18 final size:18
Alignment explanation
Indices: 63738485--63738524 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
63738475 TCTCCTTTTA
63738485 AACAGTAGTCTCCACC-TG
1 AACAGTAGTCTCC-CCTTG
*
63738503 AACAGTAGTTTCCCCTTG
1 AACAGTAGTCTCCCCTTG
63738521 AACA
1 AACA
63738525 ATGGTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (18 bp):
AACAGTAGTCTCCCCTTG
Found at i:63751464 original size:23 final size:24
Alignment explanation
Indices: 63751436--63751497 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
63751426 GGCGAGACTC
63751436 TTTTTTTATATTAAAT-TT-TTTT
1 TTTTTTTATATTAAATATTATTTT
* *
63751458 TTGTTTTTAAATAAAATATTATTTT
1 TT-TTTTTATATTAAATATTATTTT
63751483 TTTATTTT-TATTAAA
1 TTT-TTTTATATTAAA
63751498 AATATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.06
23 12 0.38
24 8 0.25
25 10 0.31
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTTTTATATTAAATATTATTTT
Found at i:63751497 original size:25 final size:27
Alignment explanation
Indices: 63751453--63751503 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
63751443 ATATTAAATT
*
63751453 TTTTTTTGTTTTTAAAT-AAAATATTA
1 TTTTTTTATTTTTAAATAAAAATATTA
*
63751479 TTTTTTTATTTTT-ATTAAAAATATT
1 TTTTTTTATTTTTAAATAAAAATATT
63751504 TAAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTTTATTTTTAAATAAAAATATTA
Found at i:63751831 original size:23 final size:21
Alignment explanation
Indices: 63751798--63751864 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 21
63751788 CCACCCACCG
63751798 GAAGAGAGAAAGAAAAGAGAGAAA
1 GAAGA-AGAAAGAAAAGA-AG-AA
* *
63751822 GGAGAAGAAA-AAATGAAGAA
1 GAAGAAGAAAGAAAAGAAGAA
63751842 GAAGAAGAAAG-AAAGAAGAA
1 GAAGAAGAAAGAAAAGAAGAA
63751862 GAA
1 GAA
63751865 AATGTAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 22 0.58
21 2 0.05
22 5 0.13
23 5 0.13
24 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.01
Consensus pattern (21 bp):
GAAGAAGAAAGAAAAGAAGAA
Found at i:63751846 original size:17 final size:17
Alignment explanation
Indices: 63751807--63751866 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
63751797 GGAAGAGAGA
*
63751807 AAGAAAAGAGAGAAAGGAG
1 AAGAAAA-A-AGAAAGAAG
63751826 AAGAAAAAATG-AAGAAG
1 AAGAAAAAA-GAAAGAAG
*
63751843 AAGAAGAAAGAAAGAAG
1 AAGAAAAAAGAAAGAAG
63751860 AAGAAAA
1 AAGAAAA
63751867 TGTAATGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.03
17 26 0.72
18 2 0.06
19 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAGAAAGAAG
Found at i:63754932 original size:6 final size:6
Alignment explanation
Indices: 63754921--63754964 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
63754911 GCATCATGCA
* * *
63754921 CCAGAG CCAGAG ACAAAG CCAGAG CCAGAG CTAGAG CCAGAG CC
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CC
63754965 GGAACTACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.36, C:0.32, G:0.30, T:0.02
Consensus pattern (6 bp):
CCAGAG
Found at i:63755409 original size:21 final size:22
Alignment explanation
Indices: 63755383--63755424 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63755373 CTCTTGAAAC
*
63755383 AGGGGC-ACATGCCCATGTGGA
1 AGGGGCAACACGCCCATGTGGA
*
63755404 AGGGGCAACACGCCCGTGTGG
1 AGGGGCAACACGCCCATGTGG
63755425 CCTTCTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGA
Found at i:63756361 original size:6 final size:6
Alignment explanation
Indices: 63756346--63756376 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
63756336 GACACAACAA
*
63756346 GAAAAT GAAAAG GAAAAG GAAAAG GAAAAG G
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG G
63756377 GTAAGCACAA
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:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (6 bp):
GAAAAG
Found at i:63756799 original size:49 final size:48
Alignment explanation
Indices: 63756705--63756953 Score: 207
Period size: 49 Copynumber: 5.2 Consensus size: 48
63756695 TTCCAAACAT
* * * *
63756705 GGTCTTACACTGGCTCTCACA-TCTA-AGTCGATGTCATGTCCCAGACA
1 GGTCTTACACTGACTCTCATACTC-AGTGTCGATGCCATGTCCCAGACA
63756752 GGTCTTACACTGACT-TCCATACGTCAAG-G-CTGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCT-CATAC-TC-AGTGTC-GATGCCATGTCCCAGACA
* ** * * *
63756801 AGTCTTACACTGGTTCTCACTTA-TCTGTGTCAATGCCATGTCTCAGACA
1 GGTCTTACACTGACTCTCA--TACTCAGTGTCGATGCCATGTCCCAGACA
* * *
63756850 GGTCTTACACT-A---ACATACCTCA-AGCCGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCTCATA-CTCAGTGTCGATGCCATGTCCCAGACA
63756894 GGTCTTACACTGACTCTCAT-CTATCAGTGTCGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCTCATAC--TCAGTGTCGATGCCATGTCCCAGACA
63756943 GGTCTTACACT
1 GGTCTTACACT
63756954 AGCACACACA
Statistics
Matches: 162, Mismatches: 21, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 29 0.18
45 5 0.03
46 2 0.01
47 17 0.10
48 8 0.05
49 95 0.59
50 2 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GGTCTTACACTGACTCTCATACTCAGTGTCGATGCCATGTCCCAGACA
Found at i:63756899 original size:93 final size:95
Alignment explanation
Indices: 63756705--63756954 Score: 321
Period size: 93 Copynumber: 2.6 Consensus size: 95
63756695 TTCCAAACAT
** *
63756705 GGTCTTACACTGGCTCTCAC--ATCTAAGTCGATGTCATGTCCCAGACAGGTCTTACACTGACTT
1 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACT-A--T
* * *
63756768 CCATACGTCAAGGCTGATGCCATGTCCCAGACA
63 ACATACCTCAAGGCCGATGCCATGTCCCAGACA
* * * *
63756801 AGTCTTACACTGGTTCTCACTTATCTGTGTCAATGCCATGTCTCAGACAGGTCTTACACTA-ACA
1 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTATACA
63756865 TACCTCAA-GCCGATGCCATGTCCCAGACA
66 TACCTCAAGGCCGATGCCATGTCCCAGACA
* *
63756894 GGTCTTACACTGACTCTCA-TCTATCAGTGTCGATGCCATGTCCCAGACAGGTCTTACACTA
1 GGTCTTACACTGGCTCTCACT-TATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTA
63756955 GCACACACAT
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 73 0.54
94 9 0.07
96 18 0.13
97 1 0.01
98 33 0.24
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (95 bp):
GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTATACA
TACCTCAAGGCCGATGCCATGTCCCAGACA
Found at i:63764527 original size:49 final size:48
Alignment explanation
Indices: 63764422--63764691 Score: 198
Period size: 49 Copynumber: 5.5 Consensus size: 48
63764412 CGATGCTGAC
* * * *
63764422 GCCATGTTCCAAACATGGTCTTACACTGACTCTCACA-TCTAA-GTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTTCATACTC-AAGGTCGAT
63764470 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACGTCAAGGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATAC-TCAAGGTCGAT
* * * ** *
63764519 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCACTTA-T-TTGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCA--TACTCAAG-GTCGAT
* * * **
63764568 GACATGTCCCAGAAAGGTCTTACACT-AGCTTGCATATCTTGAGG-CTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATA-CTCAAGGTC-GAT
* * *
63764617 ACCGTGTCCCAGACAGGTCTTACACTGACTCTT-AT-CT-ATCAGTGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACT-TTCATACTCA--AG-GTCGAT
63764666 GCCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
63764692 AGCACACACA
Statistics
Matches: 179, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
47 23 0.13
48 18 0.10
49 132 0.74
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACTCAAGGTCGAT
Found at i:63764589 original size:98 final size:98
Alignment explanation
Indices: 63764423--63764694 Score: 281
Period size: 98 Copynumber: 2.8 Consensus size: 98
63764413 GATGCTGACG
* *
63764423 CCATGTTCCAAACATGGTCTTACACTGACTCTCA-C-ATCTAAGT--CGATGCCATGTCCCAGAC
1 CCATGTCCCAGACA-GGTCTTACACTGACTCTCATCTATC--AGTGCCGATGCCATGTCCCAGAC
* *
63764484 AGGTCTTACACT-GACTTTCATA-CGTCAAGG-TCGATG
63 AGGTCTTACACTAG-CTTGCATATC-TCAAGGCT-GATA
* * ** ** * *
63764520 CCATGTCCCAGATAGGTCTTACACTGGCTCTCA-CTTATTTGTGTTGATGACATGTCCCAGAAAG
1 CCATGTCCCAGACAGGTCTTACACTGACTCTCATC-TATCAGTGCCGATGCCATGTCCCAGACAG
**
63764584 GTCTTACACTAGCTTGCATATCTTGAGGCTGATA
65 GTCTTACACTAGCTTGCATATCTCAAGGCTGATA
* *
63764618 CCGTGTCCCAGACAGGTCTTACACTGACTCTTATCTATCAGTGCCGATGCCATGTCCCAGACAGG
1 CCATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCAGTGCCGATGCCATGTCCCAGACAGG
63764683 TCTTACACTAGC
66 TCTTACACTAGC
63764695 ACACACATCA
Statistics
Matches: 144, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
96 21 0.15
97 11 0.08
98 108 0.75
99 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (98 bp):
CCATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCAGTGCCGATGCCATGTCCCAGACAGG
TCTTACACTAGCTTGCATATCTCAAGGCTGATA
Found at i:63769314 original size:24 final size:23
Alignment explanation
Indices: 63769282--63769330 Score: 89
Period size: 24 Copynumber: 2.1 Consensus size: 23
63769272 TTATTTCCGT
63769282 TCTGCTAAATTTTGTGTCTGTTGC
1 TCTGCTAAATTTTGTGTCTG-TGC
63769306 TCTGCTAAATTTTGTGTCTGTGC
1 TCTGCTAAATTTTGTGTCTGTGC
63769329 TC
1 TC
63769331 ATTTGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (23 bp):
TCTGCTAAATTTTGTGTCTGTGC
Found at i:63770583 original size:20 final size:20
Alignment explanation
Indices: 63770558--63770627 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
63770548 AATTAGATTT
63770558 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
*
63770578 ATTTAAATTAAAAATA-TAA
1 ATTTAAAATAAAAATATTAA
* *
63770597 ATTTATAATATTAAATATTTAA
1 ATTTAAAATA-AAAATA-TTAA
63770619 ATATTAAAA
1 AT-TTAAAA
63770628 AAGACTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.27
20 20 0.49
22 5 0.12
23 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:63770855 original size:31 final size:33
Alignment explanation
Indices: 63770793--63770858 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
63770783 TAAAATAATT
*
63770793 TTTTTATAAAATTTTAAAATATATAATTAAAAA
1 TTTTTATAAAATTTCAAAATATATAATTAAAAA
63770826 TTTTTA-AAAATTTCAAAATA-AT-ATATAAAAA
1 TTTTTATAAAATTTCAAAATATATAAT-TAAAAA
63770857 TT
1 TT
63770859 AATTTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 2 0.06
31 10 0.32
32 13 0.42
33 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTTTATAAAATTTCAAAATATATAATTAAAAA
Found at i:63770872 original size:22 final size:22
Alignment explanation
Indices: 63770847--63770928 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
63770837 TTCAAAATAA
*
63770847 TATATAAAAATTAATTTAAATT
1 TATATAAAAATTATTTTAAATT
*
63770869 TATAAAAAAATATATTTTAGAATT
1 TATATAAAAAT-TATTTTA-AATT
*
63770893 T-TATAAAAAATATTTTAAACTT
1 TATATAAAAATTATTTTAAA-TT
*
63770915 T-TTTAAAAAATTAT
1 TATAT-AAAAATTAT
63770929 ATATGTTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.04
22 22 0.44
23 21 0.42
24 5 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TATATAAAAATTATTTTAAATT
Found at i:63770878 original size:23 final size:25
Alignment explanation
Indices: 63770847--63770902 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
63770837 TTCAAAATAA
*
63770847 TATATAAAAAT-TAATTTA-AA-TT
1 TATAAAAAAATATAATTTAGAATTT
*
63770869 TATAAAAAAATATATTTTAGAATTT
1 TATAAAAAAATATAATTTAGAATTT
63770894 TATAAAAAA
1 TATAAAAAA
63770903 TATTTTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.34
23 6 0.21
24 2 0.07
25 11 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TATAAAAAAATATAATTTAGAATTT
Found at i:63771151 original size:20 final size:20
Alignment explanation
Indices: 63771122--63771160 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63771112 ATATTTTTAA
* *
63771122 TTTTTCTTTTAAATTAATTG
1 TTTTTATTTTAAATAAATTG
63771142 TTTTTATTTTAAATAAATT
1 TTTTTATTTTAAATAAATT
63771161 TAATTGTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTATTTTAAATAAATTG
Found at i:63776887 original size:30 final size:31
Alignment explanation
Indices: 63776828--63776891 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
63776818 ACTTAACAAG
63776828 CAAATGCTTCTAAAATAATAATAAAAATTAA
1 CAAATGCTTCTAAAATAATAATAAAAATTAA
*
63776859 CAAATGCCTT-TAAAATAATAA-GAAAATTAA
1 CAAATG-CTTCTAAAATAATAATAAAAATTAA
63776889 CAA
1 CAA
63776892 TAAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 11 0.35
31 17 0.55
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAATAAAAATTAA
Found at i:63776941 original size:14 final size:14
Alignment explanation
Indices: 63776922--63776952 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63776912 ATCTAAACAA
63776922 TAACAACAAAATAG
1 TAACAACAAAATAG
*
63776936 TAACAACATAATAG
1 TAACAACAAAATAG
63776950 TAA
1 TAA
63776953 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:63778147 original size:10 final size:11
Alignment explanation
Indices: 63778132--63778178 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
63778122 TCGATCCTAC
63778132 TACTATT-TAT
1 TACTATTATAT
*
63778142 TACTATTAAAT
1 TACTATTATAT
63778153 TACTACTCTATAT
1 TACTA-T-TATAT
*
63778166 TACTATTAAAT
1 TACTATTATAT
63778177 TA
1 TA
63778179 AGTTAGAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 7 0.23
11 13 0.42
12 2 0.06
13 9 0.29
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (11 bp):
TACTATTATAT
Found at i:63778166 original size:24 final size:24
Alignment explanation
Indices: 63778129--63778178 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
63778119 GGATCGATCC
*
63778129 TACTACTATTTATTACTATTAAAT
1 TACTACTATATATTACTATTAAAT
*
63778153 TACTACTCTATATTACTATTAAAT
1 TACTACTATATATTACTATTAAAT
63778177 TA
1 TA
63778179 AGTTAGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (24 bp):
TACTACTATATATTACTATTAAAT
Found at i:63784247 original size:50 final size:51
Alignment explanation
Indices: 63784180--63784275 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 51
63784170 AACACAACAG
* * * *
63784180 GTGAAGCCATTAGGGATGAGGGTGACGTTGAGTCTTCAAATGAAGAGACAT
1 GTGAAGCCATTAGGGATGAAGATGACGTCGAGTCTTCAAAAGAAGAGACAT
* * *
63784231 GTGAAGGCATT-GGGATGAAGATGATGTCGAGTCTTTAAAAGAAGA
1 GTGAAGCCATTAGGGATGAAGATGACGTCGAGTCTTCAAAAGAAGA
63784276 TGATGTTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 28 0.74
51 10 0.26
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.24
Consensus pattern (51 bp):
GTGAAGCCATTAGGGATGAAGATGACGTCGAGTCTTCAAAAGAAGAGACAT
Found at i:63785180 original size:17 final size:17
Alignment explanation
Indices: 63785158--63785190 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
63785148 TTAACTTAAC
63785158 TAAATTAAT-TTCTCAAT
1 TAAATT-ATGTTCTCAAT
63785175 TAAATTATGTTCTCAA
1 TAAATTATGTTCTCAA
63785191 CTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATTATGTTCTCAAT
Found at i:63786246 original size:13 final size:12
Alignment explanation
Indices: 63786223--63786252 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
63786213 AATTTCAATT
63786223 TTATTAGGATAA
1 TTATTAGGATAA
63786235 TTATTAAGGATAA
1 TTATT-AGGATAA
63786248 TTATT
1 TTATT
63786253 TAGATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (12 bp):
TTATTAGGATAA
Found at i:63786294 original size:10 final size:10
Alignment explanation
Indices: 63786270--63786318 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
63786260 AATTTTAGGT
63786270 TTTAT-TTTCA
1 TTTATCTTT-A
63786280 TTTATCTTTA
1 TTTATCTTTA
*
63786290 ATTATCTTTA
1 TTTATCTTTA
63786300 TTTAT-TTGTA
1 TTTATCTT-TA
63786310 TTTATCTTT
1 TTTATCTTT
63786319 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:63787071 original size:17 final size:18
Alignment explanation
Indices: 63787039--63787072 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63787029 TATTCTTCAT
*
63787039 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
63787057 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
63787073 CAATTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:63789974 original size:13 final size:13
Alignment explanation
Indices: 63789956--63789997 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
63789946 GCAACCTAAT
63789956 TTTTTTTATTTTA
1 TTTTTTTATTTTA
63789969 TTTTTTTA-TTTA
1 TTTTTTTATTTTA
*
63789981 TTCTTATTATTCTTA
1 TT-TTTTTATT-TTA
63789996 TT
1 TT
63789998 AGTTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 1 0.04
15 5 0.20
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:63789980 original size:17 final size:17
Alignment explanation
Indices: 63789955--63789988 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63789945 GGCAACCTAA
63789955 TTTTTTTTATT-TTATT
1 TTTTTTTTATTCTTATT
63789971 TTTTTATTTATTCTTATT
1 TTTTT-TTTATTCTTATT
63789989 ATTCTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTATTCTTATT
Found at i:63791156 original size:16 final size:16
Alignment explanation
Indices: 63791137--63791171 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
63791127 CATATAATAA
63791137 ATTATTAATATAAATT
1 ATTATTAATATAAATT
**
63791153 ATTATTTTTATAAATT
1 ATTATTAATATAAATT
63791169 ATT
1 ATT
63791172 TAATATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTAATATAAATT
Found at i:63791194 original size:19 final size:19
Alignment explanation
Indices: 63791170--63791208 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63791160 TTATAAATTA
*
63791170 TTTAATATTTCAAT-TTTAT
1 TTTAATAATT-AATATTTAT
63791189 TTTAATAATTAATATTTAT
1 TTTAATAATTAATATTTAT
63791208 T
1 T
63791209 ACAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATAATTAATATTTAT
Found at i:63793486 original size:17 final size:18
Alignment explanation
Indices: 63793456--63793501 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
63793446 ATTTAAATTG
63793456 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
63793474 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
63793490 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
63793502 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:63797801 original size:3 final size:3
Alignment explanation
Indices: 63797795--63797894 Score: 74
Period size: 3 Copynumber: 33.0 Consensus size: 3
63797785 TAAAAAAATT
* **
63797795 TAA TAA TAA TAA TAC TGG TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * * ** * *
63797841 TAA TAA TCA TGA TGA TGA TGA TGA TGG TAT TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63797889 TAA TAA
1 TAA TAA
63797895 AAATCTTAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
3 80 0.96
4 3 0.04
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:63802856 original size:24 final size:24
Alignment explanation
Indices: 63802820--63802876 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
63802810 TGATGAAAGC
**
63802820 ATGAGCCCAAAAACTCATAGGTAT
1 ATGAGCCTGAAAACTCATAGGTAT
63802844 ATGAGCCTGAAAACTCATAGGTAT
1 ATGAGCCTGAAAACTCATAGGTAT
*
63802868 ATGAACCTG
1 ATGAGCCTG
63802877 TGCCAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (24 bp):
ATGAGCCTGAAAACTCATAGGTAT
Found at i:63804978 original size:14 final size:14
Alignment explanation
Indices: 63804961--63804994 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
63804951 TAGAAAAAAA
63804961 AAGAAAGAAA-GAAG
1 AAGAAAGAAACG-AG
63804975 AAGAAAGAAACGAG
1 AAGAAAGAAACGAG
63804989 AAGAAA
1 AAGAAA
63804995 AAATCAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAACGAG
Found at i:63813203 original size:23 final size:24
Alignment explanation
Indices: 63813151--63813204 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
63813141 ATTAAATAAA
63813151 TATTA-TTTTATTAATATTTTGAT
1 TATTATTTTTATTAATATTTTGAT
*
63813174 T-TGATTTTTAATT-ATATTTT-AT
1 TATTATTTTT-ATTAATATTTTGAT
63813196 TATTATTTT
1 TATTATTTT
63813205 ATTTAGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 5 0.19
23 18 0.69
24 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (24 bp):
TATTATTTTTATTAATATTTTGAT
Found at i:63814907 original size:21 final size:21
Alignment explanation
Indices: 63814881--63814948 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
63814871 ACTCATATGA
*
63814881 GTTTCAGTTTAACCCTTCTGG
1 GTTTCAGTTTAACCCTTTTGG
* * **
63814902 GTTTCAGTTCAACTCTTTTAA
1 GTTTCAGTTTAACCCTTTTGG
*
63814923 GCTTCAGTTTAACCCTTTTGG
1 GTTTCAGTTTAACCCTTTTGG
63814944 GTTTC
1 GTTTC
63814949 TGTTAAGCTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTTGG
Found at i:63814968 original size:42 final size:42
Alignment explanation
Indices: 63814863--63814977 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
63814853 TCTCATGAGC
* *
63814863 TTCAG-TCAACTCATATGAGTTTCAGTTTAACCCTTCTGGGT
1 TTCAGTTCAACTCCTATGAGCTTCAGTTTAACCCTTCTGGGT
* * * *
63814904 TTCAGTTCAACTCTTTTAAGCTTCAGTTTAACCCTTTTGGGT
1 TTCAGTTCAACTCCTATGAGCTTCAGTTTAACCCTTCTGGGT
* *
63814946 TTCTGTT-AAGCTCCTATGAGCTTCCGTTTAAC
1 TTCAGTTCAA-CTCCTATGAGCTTCAGTTTAAC
63814978 TCATACGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 7 0.11
42 55 0.89
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAACTCCTATGAGCTTCAGTTTAACCCTTCTGGGT
Found at i:63832737 original size:22 final size:23
Alignment explanation
Indices: 63832712--63832755 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
63832702 AATTCTATTT
63832712 TAATAATAAATTTTAAA-AATAA
1 TAATAATAAATTTTAAATAATAA
**
63832734 TAATTTTAAATTTTAAATAATA
1 TAATAATAAATTTTAAATAATA
63832756 CTCTTCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATAAATTTTAAATAATAA
Found at i:63832740 original size:15 final size:16
Alignment explanation
Indices: 63832713--63832743 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63832703 ATTCTATTTT
63832713 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
63832729 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
63832744 TTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:63837761 original size:26 final size:25
Alignment explanation
Indices: 63837718--63837800 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
63837708 CATGAAATTC
63837718 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
63837743 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
*
63837769 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
63837795 TTATCA
1 TTATCA
63837801 CTTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 8 0.15
26 46 0.84
27 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:63842236 original size:16 final size:18
Alignment explanation
Indices: 63842204--63842238 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
63842194 TAATTAACCC
63842204 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
63842222 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
63842238 C
1 C
63842239 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:63846144 original size:17 final size:16
Alignment explanation
Indices: 63846124--63846158 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
63846114 AAAACAGAGT
*
63846124 AGAAAAGAAGGAAAGAA
1 AGAAAAGAAAG-AAGAA
63846141 AGAAAAGAAAGAAGAA
1 AGAAAAGAAAGAAGAA
63846157 AG
1 AG
63846159 GGAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAGAAGAA
Done.