Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 232 of 378
Found at i:68579622 original size:24 final size:24
Alignment explanation
Indices: 68579541--68579623 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
68579531 AGGAAGTGCT
* * *
68579541 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAGTTTATC
68579565 AAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAA-GGCTTTGCCCCAGTTTATC
*
68579590 AGAAAAGGCTTTGCCCCAG-TTATT
1 A-AAAAGGCTTTGCCCCAGTTTATC
68579614 AAAAGAGGCT
1 AAAA-AGGCT
68579624 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.06
24 14 0.27
25 31 0.60
26 4 0.08
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTTATC
Found at i:68579883 original size:31 final size:31
Alignment explanation
Indices: 68579830--68579912 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
68579820 TACTTACAGT
*
68579830 AAAGGCTTCG-GCCAGTGATATGATTTATGA
1 AAAGGCTTCGACCCAGTGATATGATTTATGA
* *
68579860 AAAGGCTTTGACCCAGTGTTATGATTTATGA
1 AAAGGCTTCGACCCAGTGATATGATTTATGA
*
68579891 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGACCCAGTGATATG
68579913 TCGAGACTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 13 0.28
31 33 0.72
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATGATTTATGA
Found at i:68592935 original size:47 final size:48
Alignment explanation
Indices: 68592868--68593229 Score: 169
Period size: 47 Copynumber: 7.7 Consensus size: 48
68592858 TGAGAGCCGA
* * * *
68592868 TGTAAGACCATGTTTTGGACATGGCATCGGCATTGAGACGAGGGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAG
* * * *
68592916 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-T-ATTACGATAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GGCATTGA-GACGAGAGCTAG
* * * * * * *
68592962 TGTAAGACCATGTTTGGGACATGACATTGGCGTAGAGATGAGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAG
* * **** *
68593010 TGTAAGA-CGTGTCTGGGACAT-GTATCGGCCCCAATGACG-GTAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAG-AGCTAG
* * * ** *
68593057 TGTAAGA-CGTGTCTGGGACAT-GCA-CCG-ATTAAG-CTTCGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-GAGAGCTAG
* * *
68593101 TGTAAGA-CATGTCTGGGACAT-GCATCAGCATTTATACACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA-TT-GAGACGAGAGCTAG
* * * * ** * * *
68593149 TGTAAGACCATGACTAGGACATGGCATCGACCTCAATA-AAGAATGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAG-A-GCTAG
*
68593198 TGTAAGACCATGTCTAGGACATGGCATCGGCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA
68593230 ACTTAACCCA
Statistics
Matches: 236, Mismatches: 59, Indels: 37
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.00
44 28 0.12
45 6 0.03
46 30 0.13
47 76 0.32
48 41 0.17
49 48 0.20
50 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAG
Found at i:68592983 original size:94 final size:94
Alignment explanation
Indices: 68592868--68593177 Score: 292
Period size: 94 Copynumber: 3.3 Consensus size: 94
68592858 TGAGAGCCGA
* * * *
68592868 TGTAAGACCATGTTTTGGACATGGCATCGGCATTGAGACGAGGGTTAGTGTAAGACATGTCTGGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGG
*
68592933 ACATGCATCAGCCATATTACGATAGCCAG
66 ACATGCATCAGCCATATCACGATAGCCAG
* * * * * * *
68592962 TGTAAGACCATGTTTGGGACATGACATTGGCGTAGAGATGAGTGCTAGTGTAAGACGTGTCTGGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGG
* * * *
68593027 ACATGTATCGGCCCCA-ATGACGGTAGCCAG
66 ACATGCATCAG--CCATATCACGATAGCCAG
* * * **
68593057 TGTAAGA-CGTGTCTGGGACAT-GCA-CCG-ATTAAG-CTTCGTGCTAGTGTAAGACATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-GAGTGCTAGTGTAAGACATGTCTGG
* *
68593117 GACATGCATCAG-CATTTATACACGAGAGCTAG
65 GACATGCATCAGCCA--TAT-CACGATAGCCAG
* *
68593149 TGTAAGACCATGACTAGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
68593178 ACCTCAATAA
Statistics
Matches: 171, Mismatches: 35, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
88 2 0.01
91 37 0.22
92 16 0.09
93 13 0.08
94 80 0.47
95 20 0.12
96 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGG
ACATGCATCAGCCATATCACGATAGCCAG
Found at i:68594039 original size:55 final size:55
Alignment explanation
Indices: 68593973--68594078 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
68593963 CTTAAACTTT
* *
68593973 TAAGTTAGTATTGTCCATGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTA
* *
68594028 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTG
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTG
68594079 CCCTAAAGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTA
Found at i:68601208 original size:55 final size:55
Alignment explanation
Indices: 68601124--68601234 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
68601114 GGTACATGGA
* * *
68601124 AATGTATTATTGTATCTCATTTGTAGGTTTAAGGTTAAGCATTGGTGATGACAAT
1 AATGTATTATTATATATCATTTGCAGGTTTAAGGTTAAGCATTGGTGATGACAAT
68601179 AATGTATTATTATATATCATTTGCAGGTTTAAGGTTAAGCATTGGTGATGACAAT
1 AATGTATTATTATATATCATTTGCAGGTTTAAGGTTAAGCATTGGTGATGACAAT
68601234 A
1 A
68601235 TAATTCGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (55 bp):
AATGTATTATTATATATCATTTGCAGGTTTAAGGTTAAGCATTGGTGATGACAAT
Found at i:68604456 original size:39 final size:39
Alignment explanation
Indices: 68604402--68604545 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
68604392 GAATGTTCGA
68604402 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
68604441 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
68604480 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
68604519 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
68604546 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:68604492 original size:78 final size:79
Alignment explanation
Indices: 68604403--68604585 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
68604393 AATGTTCGAG
68604403 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
68604467 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
68604481 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
68604546 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
68604560 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
68604586 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:68611330 original size:25 final size:25
Alignment explanation
Indices: 68611301--68611348 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
68611291 TTATAATATG
* * *
68611301 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
68611326 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
68611349 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:68611417 original size:20 final size:20
Alignment explanation
Indices: 68611392--68611450 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
68611382 TAAATATGGT
68611392 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
68611412 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
68611432 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
68611451 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:68611531 original size:23 final size:24
Alignment explanation
Indices: 68611501--68611595 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
68611491 GAGGAAGTGA
68611501 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
68611524 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
68611548 GAAAGGGCTT-TGGCCCTAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
68611572 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
68611596 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
23 23 0.37
24 29 0.47
25 10 0.16
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:68611569 original size:47 final size:49
Alignment explanation
Indices: 68611502--68611595 Score: 124
Period size: 47 Copynumber: 2.0 Consensus size: 49
68611492 AGGAAGTGAA
*
68611502 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
*
68611549 AAAGGGCTT-TGGCCCTAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
68611596 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 1 0.02
47 18 0.44
48 11 0.27
49 11 0.27
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:68611838 original size:38 final size:38
Alignment explanation
Indices: 68611787--68611949 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
68611777 CGTTTACAGT
68611787 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
68611825 AAAGGCTTCGGCCCAG-----T--AATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
68611856 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
68611894 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
68611932 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
68611950 GCATGATTGA
Statistics
Matches: 114, Mismatches: 3, Indels: 15
0.86 0.02 0.11
Matches are distributed among these distances:
31 30 0.26
33 1 0.01
36 1 0.01
38 69 0.61
39 13 0.11
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:68611849 original size:31 final size:31
Alignment explanation
Indices: 68611811--68611926 Score: 151
Period size: 31 Copynumber: 3.5 Consensus size: 31
68611801 AGTATTATGA
68611811 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
68611842 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
68611878 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
68611911 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
68611927 TACGAAAAGG
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
31 44 0.58
33 1 0.01
36 1 0.01
38 30 0.39
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:68611863 original size:69 final size:69
Alignment explanation
Indices: 68611787--68611926 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
68611777 CGTTTACAGT
68611787 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAC
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAC
68611852 ATGA
66 ATGA
* *
68611856 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAC
68611921 ATGA
66 ATGA
68611925 AA
1 AA
68611927 TACGAAAAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAC
ATGA
Found at i:68629547 original size:25 final size:25
Alignment explanation
Indices: 68629518--68629565 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
68629508 TTATAATATG
* * *
68629518 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
68629543 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
68629566 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:68629634 original size:20 final size:20
Alignment explanation
Indices: 68629609--68629667 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
68629599 TAAATATGGT
68629609 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
68629629 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
68629649 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
68629668 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:68629748 original size:23 final size:24
Alignment explanation
Indices: 68629718--68629812 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
68629708 GAGGAAGTGA
68629718 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
68629741 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
68629765 GAAAGGGCTT-TGGCCCTAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
68629789 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
68629813 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
23 23 0.37
24 29 0.47
25 10 0.16
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:68629786 original size:47 final size:49
Alignment explanation
Indices: 68629719--68629812 Score: 124
Period size: 47 Copynumber: 2.0 Consensus size: 49
68629709 AGGAAGTGAA
*
68629719 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
*
68629766 AAAGGGCTT-TGGCCCTAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
68629813 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 1 0.02
47 18 0.44
48 11 0.27
49 11 0.27
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:68630055 original size:38 final size:38
Alignment explanation
Indices: 68630004--68630166 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
68629994 CGTTTACAGT
68630004 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
68630042 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
68630073 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
68630111 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
68630149 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
68630167 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:68630066 original size:31 final size:31
Alignment explanation
Indices: 68630028--68630143 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
68630018 AGTATTATGA
68630028 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
68630059 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
68630095 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
68630128 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
68630144 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:68630080 original size:69 final size:69
Alignment explanation
Indices: 68630004--68630143 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
68629994 CGTTTACAGT
68630004 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
68630069 ATGA
66 ATGA
*
68630073 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
68630138 ATGA
66 ATGA
68630142 AA
1 AA
68630144 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:68639104 original size:56 final size:57
Alignment explanation
Indices: 68639038--68639145 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 57
68639028 ATATATATGA
* * *
68639038 CCCATTAGGCCC-AATCCCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATGTGG
1 CCCATTAGGCCCGAATCACATTCATATGG-CCATTAGGCCCAAATCACATTTATGTGG
*
68639094 CCCATTAGGCCCGAATCACATTCATTTGGCCATTAGGCCCAAATCACATTTA
1 CCCATTAGGCCCGAATCACATTCATATGGCCATTAGGCCCAAATCACATTTA
68639146 CAGTCATGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 23 0.50
57 23 0.50
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
CCCATTAGGCCCGAATCACATTCATATGGCCATTAGGCCCAAATCACATTTATGTGG
Found at i:68639138 original size:28 final size:28
Alignment explanation
Indices: 68639032--68639143 Score: 136
Period size: 28 Copynumber: 4.0 Consensus size: 28
68639022 TACCTTATAT
* * *
68639032 ATATGACCCATTAGGCCCAATCCCTTTC
1 ATATGGCCCATTAGGCCCAATCACATTC
* *
68639060 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCATTAGGCCCAATCACATTC
*
68639088 ATGTGGCCCATTAGGCCCGAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
*
68639117 ATTTGG-CCATTAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCC-AATCACATT
68639144 TACAGTCATG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 60 0.82
29 13 0.18
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:68639399 original size:16 final size:16
Alignment explanation
Indices: 68639359--68639402 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
68639349 GTAGCCAAAC
68639359 TTTCAGCTTTTCCACA
1 TTTCAGCTTTTCCACA
** *
68639375 TTTTGGCTTTTCCGCA
1 TTTCAGCTTTTCCACA
68639391 TTTCAGCTTTTC
1 TTTCAGCTTTTC
68639403 GCGATTTGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.11, C:0.27, G:0.11, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCCACA
Found at i:68640664 original size:16 final size:16
Alignment explanation
Indices: 68640639--68640670 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68640629 AAATTTGAGA
*
68640639 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
68640655 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
68640671 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:68648403 original size:28 final size:28
Alignment explanation
Indices: 68648334--68648416 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
68648324 CCTATATATG
* *
68648334 TATGGCCTACTAGGCCC-AATCTCTTTCA
1 TATGGCC-ACTAGGCCCAAATCACATTCA
* *
68648362 TATGACCCATTAGGCCCAAATCACATTCA
1 TATG-GCCACTAGGCCCAAATCACATTCA
*
68648391 TTTGGCCACTAGGCCCAAATCACATT
1 TATGGCCACTAGGCCCAAATCACATT
68648417 TACAGTCATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 32 0.70
29 14 0.30
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (28 bp):
TATGGCCACTAGGCCCAAATCACATTCA
Found at i:68649907 original size:16 final size:16
Alignment explanation
Indices: 68649883--68649914 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68649873 AAATTTGAGA
68649883 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
68649899 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
68649915 ACGTTACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:68659103 original size:40 final size:40
Alignment explanation
Indices: 68659056--68659239 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
68659046 CTTGCACAAG
* * *
68659056 GCCTTCGGGTCTTAGCCCGGATATGGTCGCTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
68659096 GCCTTCGGGACTTAG-CCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
68659135 GCCTTCGGGTTTTAGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
68659175 GCCTTCGGATCTTAGTCCGGATATAAGTCACTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATAT-AGTCACTAGCACAAAT
* *
68659216 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
68659240 CATTCGAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 34 0.28
40 55 0.45
41 33 0.27
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:68659153 original size:79 final size:81
Alignment explanation
Indices: 68659021--68659239 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 81
68659011 CTCAAGTAAT
* * * * *
68659021 CTTCGGAT-TTAG-CCGGATATAACT-ACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
1 CTTCGGATCTTAGTCCAGATATAAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
** *
68659082 TCGCTAGCATAAATGC
66 TAACTAGCACAAATGC
* * *
68659098 CTTCGGGA-CTTAG-CCAGATAT-AGTCGCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATA
1 CTTC-GGATCTTAGTCCAGATATAAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATA
*
68659160 GTAACTCGCACAAATGC
65 GTAACTAGCACAAATGC
* * *
68659177 CTTCGGATCTTAGTCCGGATATAAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGAATAT
1 CTTCGGATCTTAGTCCAGATATAAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
68659240 CATTCGAATA
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
77 6 0.05
78 23 0.19
79 47 0.40
80 7 0.06
81 35 0.30
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGATCTTAGTCCAGATATAAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
TAACTAGCACAAATGC
Found at i:68659959 original size:2 final size:2
Alignment explanation
Indices: 68659952--68659979 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
68659942 ATGTGCAAAC
68659952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68659980 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68662406 original size:18 final size:18
Alignment explanation
Indices: 68662379--68662415 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
68662369 ATAAGTATAA
*
68662379 GAGTTGTTATCTCCACAG
1 GAGTTATTATCTCCACAG
68662397 GAGTTATTATCTCCACAG
1 GAGTTATTATCTCCACAG
68662415 G
1 G
68662416 GACTATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (18 bp):
GAGTTATTATCTCCACAG
Found at i:68662530 original size:15 final size:16
Alignment explanation
Indices: 68662512--68662545 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
68662502 AGATTAAATT
68662512 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
68662527 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
68662543 AAT
1 AAT
68662546 GAGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:68664341 original size:40 final size:40
Alignment explanation
Indices: 68664293--68664484 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
68664283 ATAACAACTC
68664293 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * * *
68664333 GCATAAATGCCTTCGGGACTTAACCCGGATATAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
**
68664373 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGAAACTCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACT-A
* *
68664414 -CACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
68664453 GCACAAAAGCCTTCGGGAT-TTAGCCCAGATAT
1 GCACAAATGCCTTCGGG-TCTTAGCCCGGATAT
68664485 CATTCGAATA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:68675451 original size:46 final size:46
Alignment explanation
Indices: 68675384--68675555 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
68675374 AACCCGCCCC
*
68675384 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
68675430 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
68675478 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
68675523 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
68675556 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:68675496 original size:93 final size:93
Alignment explanation
Indices: 68675389--68675559 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
68675379 GCCCCTAAGT
* *
68675389 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68675454 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
68675482 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68675547 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68675560 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68676012 original size:30 final size:30
Alignment explanation
Indices: 68675978--68676037 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68675968 ATTTAATACG
68675978 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
68676008 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
68676038 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:68677419 original size:27 final size:27
Alignment explanation
Indices: 68677389--68678034 Score: 717
Period size: 27 Copynumber: 24.2 Consensus size: 27
68677379 ANAATTTCAC
* * *
68677389 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
68677416 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
68677443 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* ** * *
68677470 AATCAAGGGTAAAACAATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
68677497 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
68677524 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
68677551 AA-CTGAGGGTAAAAC-GTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
68677577 AATCGAGGGT-AAACTAGTAATTTTACA
1 AATCGAGGGTAAAAC-GGTAATTCTATA
*
68677604 AATCGAGGGTAAAACGGTATTTCTAT-
1 AATCGAGGGTAAAACGGTAATTCTATA
* ** *
68677630 -ATCGAGAGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
68677656 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
68677683 AATCGA-GGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
68677709 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
68677736 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
68677763 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
68677790 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
68677817 AA-CTGAGGGT-AAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
68677843 AATCGAGGGT-AAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
68677869 AATCGAGGGTAAAAACGGTAATTCTATA
1 AATCGAGGGT-AAAACGGTAATTCTATA
*
68677897 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
68677924 AA-CTGAGGGTAAAA-TGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
68677950 AATTGAGGGTAAAACGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
68677977 AATCGAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
68678004 AATCGAGGGT-AAACTGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
68678030 AATCG
1 AATCG
68678035 GGAGTACTTT
Statistics
Matches: 529, Mismatches: 71, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
25 24 0.05
26 132 0.25
27 343 0.65
28 30 0.06
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:68677619 original size:107 final size:108
Alignment explanation
Indices: 68677381--68678034 Score: 804
Period size: 107 Copynumber: 6.1 Consensus size: 108
68677371 ACAATCTCAN
* * * * *
68677381 AATTTCAC-AATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA
1 AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAA
* * * *
68677445 CTGAGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACAAT
66 CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
*
68677488 AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTAAA
1 AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAA
*
68677553 CTGAGGGTAAAAC-GTAATTCTATAAATCGAGGGT-AAACTAGT
66 CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGT
* * *
68677595 AATTTTACAAATCGAGGGTAAAACGGTATTTCTAT--ATCGAGAGTAAAA-TAGTAATTCTGTAA
1 AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGTAA
* *
68677657 ATTGAGGGTAAAACGGTAATTCTGTAAATCGA-GGTAAAACGGT
65 ACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
* *
68677700 AATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAA
*
68677765 CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGT
66 CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
* *
68677808 AATTCTGTA-AACT-GAGGGT-AAACGGTAATTCTATAAATCGAGGGT-AAACGGTAATT-T-TA
1 AATT-T-TACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTA
* *
68677867 CAAATCGAGGGTAAAAACGGTAATTCTATAAATCGAGGGTAAAACAGT
64 -AACT-GAGGGT-AAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
* * * *
68677915 AATTCTATAAA-CTGAGGGTAAAA-TGTAATTCTATAAATTGAGGGTAAAACGATAATT-T-TAA
1 AATTTTACAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT-A
* * *
68677976 AAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGT-AAACTGT
64 AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
* *
68678021 AATTCTATAAATCG
1 AATTTTACAAATCG
68678035 GGAGTACTTT
Statistics
Matches: 489, Mismatches: 37, Indels: 43
0.86 0.07 0.08
Matches are distributed among these distances:
104 3 0.01
105 80 0.16
106 61 0.12
107 231 0.47
108 107 0.22
109 5 0.01
110 2 0.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.28
Consensus pattern (108 bp):
AATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAA
CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGT
Found at i:68678054 original size:80 final size:81
Alignment explanation
Indices: 68677389--68678034 Score: 717
Period size: 80 Copynumber: 8.1 Consensus size: 81
68677379 ANAATTTCAC
* * * * * *
68677389 AATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGT
* * *
68677453 AAACCAGTAATTCTGTA
65 AAAACGGTAATTCTATA
* ** * *
68677470 AATCAAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
** *
68677535 AAACAATAATTCTGTA
66 AAACGGTAATTCTATA
* * *
68677551 AA-CTGAGGGTAAAAC-GTAATTCTATAAATCGAGGGT-AAACTAGTAATTTTACAAATCGAGGG
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GGTAATTCTATAAATCGAGGG
*
68677613 TAAAACGGTATTTCTAT-
64 TAAAACGGTAATTCTATA
* ** * * *
68677630 -ATCGAGAGTAAAATAGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGA-GGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
* *
68677693 AAACGGTAATTTTACA
66 AAACGGTAATTCTATA
* *
68677709 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGT
*
68677773 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTATA
** *
68677790 AATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGT-AAACGGTAATTCTATAAATCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGT
* *
68677853 -AAACGGTAATTTTACA
65 AAAACGGTAATTCTATA
*
68677869 AATCGAGGGTAAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGG
1 AATCGAGGGT-AAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGG
*
68677933 TAAAA-TGTAATTCTATA
64 TAAAACGGTAATTCTATA
* * * * * *
68677950 AATTGAGGGTAAAACGATAATTTTAAAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGT-
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
68678014 AAACTGTAATTCTATA
66 AAACGGTAATTCTATA
68678030 AATCG
1 AATCG
68678035 GGAGTACTTT
Statistics
Matches: 487, Mismatches: 59, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
78 26 0.05
79 65 0.13
80 216 0.44
81 176 0.36
82 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:68679777 original size:6 final size:6
Alignment explanation
Indices: 68679600--68679760 Score: 163
Period size: 6 Copynumber: 26.8 Consensus size: 6
68679590 AACCAAAATG
* * *
68679600 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATT AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
68679648 AGAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
68679696 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
68679744 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
68679761 TACGTGACAG
Statistics
Matches: 129, Mismatches: 14, Indels: 24
0.77 0.08 0.14
Matches are distributed among these distances:
5 12 0.09
6 108 0.84
7 8 0.06
8 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:68679963 original size:27 final size:26
Alignment explanation
Indices: 68679915--68679980 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
68679905 AACATGGCTG
*
68679915 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* * *
68679941 CCAGATACATATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
68679968 CCAGAATCAGATA
1 CCAGAA-CAGATA
68679981 ATGTGGCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:68679985 original size:27 final size:27
Alignment explanation
Indices: 68679915--68679988 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
68679905 AACATGGCTG
* *
68679915 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* *
68679941 CCAG-ATACATATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
68679968 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
68679989 AACCCACCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.79
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:68680201 original size:22 final size:22
Alignment explanation
Indices: 68680153--68680211 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
68680143 GTAAATACGT
*
68680153 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
68680175 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
68680197 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
68680212 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:68680378 original size:27 final size:26
Alignment explanation
Indices: 68680299--68680381 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
68680289 TCGATCGGTC
* * *
68680299 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
68680325 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
68680352 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
68680379 AAC
1 AAC
68680382 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:68680610 original size:27 final size:27
Alignment explanation
Indices: 68680580--68680712 Score: 153
Period size: 26 Copynumber: 5.0 Consensus size: 27
68680570 GGGGCAAAAT
* * *
68680580 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
68680607 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
68680633 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
68680660 GATAATTCTA-CCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
68680686 GGTAATTCTTCCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
68680713 AATAATTTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 46 0.51
27 45 0.49
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:68680708 original size:53 final size:53
Alignment explanation
Indices: 68680580--68680719 Score: 165
Period size: 53 Copynumber: 2.6 Consensus size: 53
68680570 GGGGCAAAAT
* * * *
68680580 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTTC
* *
68680633 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTA-CCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTTC
* * * * *
68680686 GGTAATTCTTCCTTATAGGGGTATTTCAATAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATT
68680720 TCACAATCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 6 0.08
53 68 0.92
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTTC
Found at i:68680754 original size:27 final size:27
Alignment explanation
Indices: 68680724--68681205 Score: 596
Period size: 27 Copynumber: 17.9 Consensus size: 27
68680714 ATAATTTCAC
* *
68680724 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
68680751 AATCGAGGGTAAACCGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
68680778 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
68680805 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
68680832 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
68680859 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
68680886 AATTGAGGGTAAAACGGTAATGCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
68680913 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
68680940 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
68680967 AATCGAGGGTAAAACGGTAATTCTGTG
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
68680994 AA-CTGAGGGT-AAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
68681020 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
68681047 TA-CTGAGGGTAAACCAGTAACTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
68681074 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
68681101 AATCGAGGGTAAAACGGTAATTCTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
68681128 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
68681155 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
68681182 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
68681206 ATCTTACAGG
Statistics
Matches: 391, Mismatches: 55, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
26 26 0.07
27 362 0.93
28 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:68681326 original size:26 final size:27
Alignment explanation
Indices: 68681218--68681391 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
68681208 CTTACAGGAA
68681218 TATTTCAGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
68681245 TATTTCAGTAATTTTGCAAA-CTGAGGG
1 TATTTCAGTAATTTTACAAATC-GAGGG
*
68681272 TATTTCGGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
68681299 TATTTCAGTAATTTTAC-AATCAACGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * * *
68681325 TATTTCGGTAATTTTATAAACCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
68681352 TACTTT-GGTAATTTTACAACT-GGGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
68681378 TATTTCAGTAATTT
1 TATTTCAGTAATTT
68681392 GGTAAACTAA
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
25 3 0.02
26 37 0.29
27 82 0.65
28 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:68681380 original size:53 final size:53
Alignment explanation
Indices: 68681218--68681391 Score: 217
Period size: 53 Copynumber: 3.3 Consensus size: 53
68681208 CTTACAGGAA
*
68681218 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AACTGAGGG
* * *
68681272 TATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAA-TCAACGG
1 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAACT-GAGGG
* * * * * *
68681325 TATTTCGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAACTGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAACTGAGGG
68681378 TATTTCAGTAATTT
1 TATTTCAGTAATTT
68681392 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
52 1 0.01
53 58 0.55
54 46 0.44
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (53 bp):
TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAACTGAGGG
Found at i:68686428 original size:2 final size:2
Alignment explanation
Indices: 68686421--68686450 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68686411 ACCAGAACAG
68686421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68686451 GTGGCGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68686531 original size:27 final size:26
Alignment explanation
Indices: 68686483--68686534 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
68686473 GCGAGGCTGC
*
68686483 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
68686509 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
68686535 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:68688464 original size:19 final size:18
Alignment explanation
Indices: 68688440--68688475 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
68688430 AAAAAACTGT
68688440 GCGTGTTAACGCTATGTGA
1 GCGTGTTAACGCT-TGTGA
*
68688459 GCGTGTTCACGCTTGTG
1 GCGTGTTAACGCTTGTG
68688476 TTGATCTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.14, C:0.19, G:0.33, T:0.33
Consensus pattern (18 bp):
GCGTGTTAACGCTTGTGA
Found at i:68689253 original size:23 final size:22
Alignment explanation
Indices: 68689210--68689253 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
68689200 TATCCCCACA
* *
68689210 TGGAGTGTACGGCTGGATGGAG
1 TGGAGTGTAAGGATGGATGGAG
68689232 TGGAGTGTAGAGGATGGATGGA
1 TGGAGTGTA-AGGATGGATGGA
68689254 TAGGATCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.05, G:0.50, T:0.23
Consensus pattern (22 bp):
TGGAGTGTAAGGATGGATGGAG
Found at i:68694625 original size:32 final size:33
Alignment explanation
Indices: 68694579--68694642 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
68694569 AACAGTGGGT
*
68694579 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCCTTTCAGATA-ACAGTAA
**
68694611 ACTGGGCCTTAGCCCCCTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCCTTTCAGATAACAGTA
68694643 TTGTCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.37
33 16 0.59
34 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCCTTTCAGATAACAGTAA
Found at i:68695014 original size:27 final size:26
Alignment explanation
Indices: 68694960--68695014 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
68694950 ACCTTAACCA
* * *
68694960 TAGGGGTATATCAGTAATTTTGCTCC
1 TAGGGGTAAATCAGTAATTTTCCACC
*
68694986 TAGGGGTAAATCTGTAAATTTTCCACC
1 TAGGGGTAAATCAGT-AATTTTCCACC
68695013 TA
1 TA
68695015 CAAAGGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (26 bp):
TAGGGGTAAATCAGTAATTTTCCACC
Found at i:68704239 original size:30 final size:29
Alignment explanation
Indices: 68704185--68704242 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
68704175 GAAGTATTTT
* *
68704185 TAAAAATTGGTTGCTCTTTGTGTAAATAA
1 TAAAAATTAGATGCTCTTTGTGTAAATAA
*
68704214 TAAAAATTAGATGCCTCTTTTTGTAAATA
1 TAAAAATTAGATG-CTCTTTGTGTAAATA
68704243 TTTTCAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (29 bp):
TAAAAATTAGATGCTCTTTGTGTAAATAA
Found at i:68709735 original size:29 final size:29
Alignment explanation
Indices: 68709694--68709840 Score: 131
Period size: 29 Copynumber: 5.1 Consensus size: 29
68709684 GTGAGCATGA
* * *
68709694 ATAT-AAGGTGATTTAGGCCTAACAGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* *
68709722 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* ** * *
68709751 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* *
68709780 ATATGAATGTGAATTGGGCCTAACGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
*
68709809 ATATAAA--TGAGATTGGG-CTAAGTGGGCC
1 ATATAAAGGTGA-ATTGGGCCTAA-CGGGCC
68709837 ATAT
1 ATAT
68709841 GCATGTATGT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
27 7 0.07
28 19 0.18
29 77 0.75
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATAAAGGTGAATTGGGCCTAACGGGCC
Found at i:68709783 original size:58 final size:57
Alignment explanation
Indices: 68709718--68709840 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 57
68709708 AGGCCTAACA
* * *
68709718 GGCCATATAAAGGTGATTTGGGCCTAATGGGCCATATGAATATGA-ATTGGGCCTGA-TG
1 GGCCATATAAAGGTGAATTGGGCCTAACGGGCCATAT-AA-ATGAGATTGGG-CTAAGTG
* *
68709776 GGCCATATGAATGTGAATTGGGCCTAACGGGCCATATAAATGAGATTGGGCTAAGTG
1 GGCCATATAAAGGTGAATTGGGCCTAACGGGCCATATAAATGAGATTGGGCTAAGTG
68709833 GGCCATAT
1 GGCCATAT
68709841 GCATGTATGT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
56 7 0.12
57 18 0.31
58 33 0.57
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (57 bp):
GGCCATATAAAGGTGAATTGGGCCTAACGGGCCATATAAATGAGATTGGGCTAAGTG
Found at i:68713782 original size:46 final size:46
Alignment explanation
Indices: 68713732--68713904 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
68713722 TGGTTGAGCA
68713732 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
68713778 TCCGAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
68713823 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
68713871 CCCGAGCTCATTGAGTTGAGTCAGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
68713905 GGAGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68713888 original size:93 final size:93
Alignment explanation
Indices: 68713729--68713899 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
68713719 GGATGGTTGA
* * *
68713729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
68713794 TGAGCCCGAGTTCGTGAAATGTAACTAG
66 TGAGCCAGAGTTCGTGAAATGTAACTAG
* *
68713822 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
68713887 TGAGTCAGAGTTC
66 TGAGCCAGAGTTC
68713900 ACTTAGGAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGCCAGAGTTCGTGAAATGTAACTAG
Found at i:68716968 original size:40 final size:39
Alignment explanation
Indices: 68716923--68717032 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 39
68716913 CTGGAAATTA
* * *
68716923 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--ATAC
*
68716964 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTATAC
*
68717002 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
68717033 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.03
39 29 0.48
40 30 0.49
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTATAC
Found at i:68717017 original size:39 final size:37
Alignment explanation
Indices: 68716923--68717032 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 37
68716913 CTGGAAATTA
* *
68716923 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGGC
**
68716961 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTATTC
1 T--ATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGT-GGC
68717002 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
68717033 ACGTGATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
38 1 0.02
39 30 0.48
40 30 0.48
41 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGGC
Found at i:68724963 original size:40 final size:40
Alignment explanation
Indices: 68724878--68725028 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
68724868 AATTGAATGA
* * *
68724878 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
68724918 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
68724959 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
68724998 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
68725029 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:68725042 original size:40 final size:40
Alignment explanation
Indices: 68724914--68725044 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
68724904 TATGCTGGAA
* * *
68724914 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
68724954 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
68724994 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
68725034 ATTATATCCGG
1 ATTATATCCGG
68725045 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:68729969 original size:16 final size:16
Alignment explanation
Indices: 68729948--68729979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68729938 GTTGTAACGC
68729948 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
68729964 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
68729980 TCTTGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:68731426 original size:29 final size:29
Alignment explanation
Indices: 68731384--68731517 Score: 139
Period size: 29 Copynumber: 4.7 Consensus size: 29
68731374 GTGAGCATGA
*
68731384 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* *
68731412 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* ** * *
68731441 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* * *
68731470 ATATGAATGTGAATTGGGCCTGACGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
68731499 ATATAAA--TGAGATTGGGCC
1 ATATAAAGGTGA-ATTGGGCC
68731518 ATGTGGGCCA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
27 3 0.03
28 12 0.13
29 80 0.84
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGAATTGGGCCTAACGGGCC
Found at i:68731469 original size:58 final size:57
Alignment explanation
Indices: 68731396--68731530 Score: 166
Period size: 58 Copynumber: 2.4 Consensus size: 57
68731386 ATAAGGTGAT
* * * *
68731396 TTGGGCCTAACGGGCCATATAAAGGTGATTTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTGATGGGCCATATAAAGGTGAATTGGGCCTAACGGGCCATAT-AA-ATGAGA
* * *
68731454 TTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTGACGGGCCATATAAATGAGA
1 TTGGGCCTGATGGGCCATATAAAGGTGAATTGGGCCTAACGGGCCATATAAATGAGA
68731511 TTGGGCCATG-TGGGCCATAT
1 TTGGGCC-TGATGGGCCATAT
68731531 GCATGTATGT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.06
57 20 0.29
58 44 0.65
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (57 bp):
TTGGGCCTGATGGGCCATATAAAGGTGAATTGGGCCTAACGGGCCATATAAATGAGA
Found at i:68737156 original size:43 final size:43
Alignment explanation
Indices: 68737107--68737270 Score: 183
Period size: 43 Copynumber: 3.8 Consensus size: 43
68737097 TAACAAGACG
*
68737107 TGATTATGTGTAAGACCATGTTTGGGACATTGGCATC-ATAT-
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* *
68737148 TGCGATTATGTGTGAGACCATGTCTGGGACATTGGCATCGTTATA
1 T--GATTATGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* *
68737193 TGATT-TCATGTAAGACCATGTCTGGGACATTGGCATCGATATG
1 TGATTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* ** * *
68737236 TGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCAT
68737271 TGTACGAGCT
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 94 0.89
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
Found at i:68738639 original size:16 final size:16
Alignment explanation
Indices: 68738620--68738650 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68738610 CTTCTTCACT
68738620 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
68738636 TACTTACTTACTTAA
1 TACTCACTTACTTAA
68738651 TCAAACTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:68738767 original size:23 final size:24
Alignment explanation
Indices: 68738729--68738773 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
68738719 TTTGCTCTTC
*
68738729 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
68738753 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
68738774 ACTTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:68739031 original size:55 final size:53
Alignment explanation
Indices: 68738845--68739096 Score: 172
Period size: 55 Copynumber: 4.8 Consensus size: 53
68738835 CGGGTACCTT
* * * * * * *
68738845 ACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTCCCTTATAAACTC
* * * * *
68738894 ACCACTACCCTGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTCCCTTATAAACTC
* * *
68738947 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTCCCTTATAGTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTCCCTTATA--AACTC
* *** * * *
68739002 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTCCCTTATAAA-CTC
** * * * *
68739056 ACCAATTTTCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 ACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
68739097 AAACCCTAAT
Statistics
Matches: 161, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 34 0.21
52 4 0.02
53 45 0.28
54 7 0.04
55 69 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTCCCTTATAAACTC
Found at i:68741093 original size:93 final size:93
Alignment explanation
Indices: 68740981--68741152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68740971 GCCCATAAGT
* *
68740981 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68741046 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
68741074 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68741139 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
68741153 CAAATATCCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68741148 original size:46 final size:46
Alignment explanation
Indices: 68740973--68741148 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
68740963 TGTAACCCGC
* * *
68740973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
68741019 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
68741069 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
68741112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
68741149 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:68743569 original size:29 final size:29
Alignment explanation
Indices: 68743530--68743617 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
68743520 CAAAGATAAC
*
68743530 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
68743559 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
68743588 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
68743618 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:68743588 original size:15 final size:15
Alignment explanation
Indices: 68743530--68743608 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
68743520 CAAAGATAAC
*
68743530 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
68743544 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
68743559 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
68743573 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
68743588 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
68743603 AAGAAA
1 AAGAAA
68743609 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:68743617 original size:15 final size:15
Alignment explanation
Indices: 68743541--68743617 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
68743531 AGAAAACCGA
68743541 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
68743556 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
68743570 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
68743584 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
68743600 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
68743615 ATA
1 ATA
68743618 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:68746711 original size:93 final size:93
Alignment explanation
Indices: 68746552--68746723 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68746542 GCCCATAAGT
* *
68746552 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68746617 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
68746645 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68746710 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
68746724 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:68746719 original size:46 final size:46
Alignment explanation
Indices: 68746544--68746719 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
68746534 TGTAACCCGC
* * *
68746544 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
68746590 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
68746640 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
68746683 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
68746720 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:68748604 original size:640 final size:639
Alignment explanation
Indices: 68747370--68748605 Score: 1692
Period size: 640 Copynumber: 1.9 Consensus size: 639
68747360 GCACAAGTTG
* *
68747370 TCTAACATAATTTAAAACCTCATATTCTATCATAAAACACCAAAATACACAAATTTCACCTATGG
1 TCTAACATAATTTAAAACCTCACATTCTATCATAAAACACCAAAATACACAAATTTCAACTATGG
* * *
68747435 GTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGCATAAGCTAAATCGAGCTACCGGG
66 GTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATCAAGCTACCGGA
*
68747500 ACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGAAGCT
131 ACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAAC-GACTTACAATCGAGCTTGAAAGCT
*** ** ** **
68747565 TGAAAAACCCTAGCCATGGTTTCTCCTTGCTATATTCGGCCATGGGGTTGAAGATGAGCAAAATT
195 TGAAAAACCCTAGCCATGGGAACTCCTTGAAATATTCGGCCATCAGGAAGAAGATGAGCAAAATT
**
68747630 GGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACTACTAAAC
260 GGCTTTTAATTTTGTATTTTAATTCATTTTACAACTAAATGACCAAAATGCCCTTACTACTAAAC
*
68747695 TTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTCTT
325 TTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTATT
* ** * * *
68747760 TAAGGACCTCTAATTAATAATTAATTCAATTTTATGCAAAATACTTCTAGAACACAAGTTTTGCA
390 TAAGGACCCCTAATTAATAATTAAAGCAATTTCATACAAAATACTTCTAGAACACAAGTTTTACA
* * *
68747825 ATTTATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATT
455 AATTATTCAATTTAGTCCCAAATCTCAAATTAAGCACTTTATGCATAAAATTTCATCACGAAATT
* * * *
68747890 TTCACACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTCTATCTCA
520 TTCACACAATCATGAAATCATATCATAGACCTCAAAATAATAATAAAATAATTATTTCTACCTCA
68747955 GATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACA
585 GATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACA
68748010 TCTAACATAATTTAAAACCTCACATTCTATCATAAAACACCAAAATACACAAATTTCAACTATGG
1 TCTAACATAATTTAAAACCTCACATTCTATCATAAAACACCAAAATACACAAATTTCAACTATGG
* * * * *
68748075 GTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTAATCAAGTTATCGGA
66 GTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATCAAGCTACCGGA
* * * * * *
68748140 ACT-C-AAAACGTAAAGATCGTTAAAAACGGGGCTTGGAATC-ACTTACTATGGAGCTTGAAAGC
131 ACTCCAAAAACGTAAAAATCATTAAAAACGAGGC-TAGAA-CGACTTACAATCGAGCTTGAAAGC
* * *
68748202 TTGAAACAAACCCTAGCTATGGAGAAC-CCTTGAAAT-TTTGGCC-TCATGAAGAAGATG-GACA
194 TTG-AA-AAACCCTAGCCATGG-GAACTCCTTGAAATATTCGGCCATCAGGAAGAAGATGAG-C-
* *
68748263 AAAATTGGCTTTTAATTTTGT-TTTTAATTCATTTTAATAAGTAAATGACCAAAATGCCCTTACT
254 AAAATTGGCTTTTAATTTTGTATTTTAATTCATTTT-ACAACTAAATGACCAAAATGCCCTTACT
* *
68748327 ACTAAACTTTCCCAAAAATTCCATCCATGTCCAATTTTTTTCCATAGACTTAGAAATTGGTCAAA
318 ACTAAACTTT-CCAAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAA
* * *
68748392 TTGCTATTTAA-GACCCCCTCATTAAT-ATTCCAAAGCAATTTCATACTAAAA-ACTTCTAGAAT
382 TTACTATTTAAGGA-CCCCTAATTAATAATT--AAAGCAATTTCATAC-AAAATACTTCTAGAAC
* * * * **
68748454 GCAAGTTTTACAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGCACTTTATGCATAGCATTT
443 ACAAGTTTTACAAATTATTCAATTTAGTCCCAAATCTCAAATTAAGCACTTTATGCATAAAATTT
68748519 CATCACGAAATTTTCACACAATCATGAAATCATATCAT-GAACCTCAAAATAATAATAAAATAAA
508 CATCACGAAATTTTCACACAATCATGAAATCATATCATAG-ACCTCAAAATAATAATAAAAT--A
68748583 ATT-TTT-TACCTCAGA-TTTGTGGT
570 ATTATTTCTACCTCAGATTTTGTGGT
68748606 TTCACAACCA
Statistics
Matches: 522, Mismatches: 58, Indels: 32
0.85 0.09 0.05
Matches are distributed among these distances:
637 1 0.00
638 71 0.14
639 73 0.14
640 225 0.43
641 141 0.27
642 7 0.01
643 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.32
Consensus pattern (639 bp):
TCTAACATAATTTAAAACCTCACATTCTATCATAAAACACCAAAATACACAAATTTCAACTATGG
GTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGAATAAGCTAAATCAAGCTACCGGA
ACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGACTTACAATCGAGCTTGAAAGCTT
GAAAAACCCTAGCCATGGGAACTCCTTGAAATATTCGGCCATCAGGAAGAAGATGAGCAAAATTG
GCTTTTAATTTTGTATTTTAATTCATTTTACAACTAAATGACCAAAATGCCCTTACTACTAAACT
TTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTAAAATTACTATTT
AAGGACCCCTAATTAATAATTAAAGCAATTTCATACAAAATACTTCTAGAACACAAGTTTTACAA
ATTATTCAATTTAGTCCCAAATCTCAAATTAAGCACTTTATGCATAAAATTTCATCACGAAATTT
TCACACAATCATGAAATCATATCATAGACCTCAAAATAATAATAAAATAATTATTTCTACCTCAG
ATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACA
Found at i:68751442 original size:14 final size:15
Alignment explanation
Indices: 68751423--68751452 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68751413 GTTTATTATA
68751423 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
68751437 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
68751452 T
1 T
68751453 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:68753204 original size:43 final size:43
Alignment explanation
Indices: 68753116--68753265 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
68753106 AATATGATAT
* * * * *
68753116 TCGGGCCTCG-GCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
*
68753159 TCGGGCTTCGAGCCTAGTAGGCTATAATGCCGGT-AAGATAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA-ATAATA
* *
68753202 TCGGGCTTTTG-GCCTAGCAGGCTATAATGCCGGTGAAATGATA
1 TCGGGC-TTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* *
68753245 TCGGTCTTCAAGCCTAGCAGG
1 TCGGGCTTCGAGCCTAGCAGG
68753266 TGAAATGCCA
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
42 3 0.03
43 63 0.71
44 18 0.20
45 5 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:68753361 original size:40 final size:40
Alignment explanation
Indices: 68753213--68753360 Score: 122
Period size: 40 Copynumber: 3.6 Consensus size: 40
68753203 CGGGCTTTTG
*
68753213 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGTCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGT-TTAAA
* * **
68753256 GCCTAGCAGG-TGAAATGCCAGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCT-AAATGCCGGTGAATGAATTC-GGTTTAAA
* ***
68753297 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTC-GGTTTAAA
*
68753337 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
68753361 TTTGATAAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
40 31 0.38
41 26 0.32
42 13 0.16
43 11 0.14
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGTTTAAA
Found at i:68757619 original size:51 final size:51
Alignment explanation
Indices: 68757542--68757746 Score: 295
Period size: 51 Copynumber: 4.0 Consensus size: 51
68757532 CGGATACACG
* * * * *
68757542 GTGGCCTTAACATAGTGCTACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
* * *
68757593 GTGGCCTTCACATAGTACAACGCTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
*
68757644 GTGGCCTTCACTTAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
68757695 GTGTCCTTCACATAGTACCACACTTGTGTCTAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
68757746 G
1 G
68757747 GTTCAACTGG
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 141 0.99
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:68757811 original size:28 final size:27
Alignment explanation
Indices: 68757765--68757915 Score: 179
Period size: 28 Copynumber: 5.7 Consensus size: 27
68757755 GGGAAGTTTC
*
68757765 TCACTTAGCACCATACCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
68757793 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
68757821 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
* *
68757845 TAACTTAGCACATTGCCATGAACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
68757873 TCACTTA--A-ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
68757897 TCACTTAGCACGATGCCAT
1 TCACTTAGCAC-ATGCCAT
68757916 ATCCTAGATA
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
24 41 0.39
25 2 0.02
26 2 0.02
27 3 0.03
28 58 0.55
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:68757842 original size:24 final size:26
Alignment explanation
Indices: 68757780--68757906 Score: 145
Period size: 24 Copynumber: 4.9 Consensus size: 26
68757770 TAGCACCATA
68757780 CCATGGACTTATTTCACTTAGCACATTG
1 CCATGGACTTATTTCACTTAG--CATTG
68757808 CCATGGACTTATTTCACTTAG-A-TG
1 CCATGGACTTATTTCACTTAGCATTG
* *
68757832 CCATGGTCTTATTTAACTTAGCACATTG
1 CCATGGACTTATTTCACTTAG--CATTG
* *
68757860 CCATGAACTTATTTCACTTA--AATG
1 CCATGGACTTATTTCACTTAGCATTG
*
68757884 CCATGGTCTTATTTCACTTAGCA
1 CCATGGACTTATTTCACTTAGCA
68757907 CGATGCCATA
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
24 42 0.49
25 1 0.01
26 1 0.01
27 1 0.01
28 40 0.47
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (26 bp):
CCATGGACTTATTTCACTTAGCATTG
Found at i:68757843 original size:52 final size:52
Alignment explanation
Indices: 68757780--68757915 Score: 220
Period size: 52 Copynumber: 2.6 Consensus size: 52
68757770 TAGCACCATA
* * *
68757780 CCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATG
1 CCATGGTCTTATTTCACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
*
68757832 CCATGGTCTTATTTAACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
1 CCATGGTCTTATTTCACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
68757884 CCATGGTCTTATTTCACTTAGCACGA-TGCCAT
1 CCATGGTCTTATTTCACTTAGCAC-ATTGCCAT
68757916 ATCCTAGATA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 77 0.99
53 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (52 bp):
CCATGGTCTTATTTCACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
Found at i:68757983 original size:54 final size:54
Alignment explanation
Indices: 68757891--68758049 Score: 133
Period size: 49 Copynumber: 3.0 Consensus size: 54
68757881 ATGCCATGGT
* * *
68757891 CTTATTTCACTTAGCACGA-TGCCAT-ATCCTAGA-TATGGTCTTACATGTGAA-TCA
1 CTTATTTCACTTAGCAC-ATTGCCATGGT-CTA-ACCATGGTCTTAC-TGTCAATTCA
68757945 CTTATTTCACTTAGCACATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCA
1 CTTATTTCACTTAGCACATTGCCATGGTCTAACCATGGTC--TTACTGTCAATTCA
*
68758001 --TA-TT-AC--A-CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCA
1 CTTATTTCACTTAGCACATTGCCATGGTCTAACCATGGTC--TTACTGTCAATTCA
68758050 TATTACACTA
Statistics
Matches: 95, Mismatches: 4, Indels: 17
0.82 0.03 0.15
Matches are distributed among these distances:
49 41 0.43
50 1 0.01
52 2 0.02
53 4 0.04
54 34 0.36
55 6 0.06
56 7 0.07
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (54 bp):
CTTATTTCACTTAGCACATTGCCATGGTCTAACCATGGTCTTACTGTCAATTCA
Found at i:68758021 original size:49 final size:49
Alignment explanation
Indices: 68757959--68758057 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
68757949 TTTCACTTAG
*
68757959 CACATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACA
1 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
68758008 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
1 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
68758057 C
1 C
68758058 TACGCAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (49 bp):
CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
Found at i:68763060 original size:13 final size:12
Alignment explanation
Indices: 68763032--68763060 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
68763022 GAAAACTTTT
68763032 AAAAATTTCATG
1 AAAAATTTCATG
68763044 AAAAATTTCATG
1 AAAAATTTCATG
68763056 AAAAA
1 AAAAA
68763061 CAGGGGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (12 bp):
AAAAATTTCATG
Found at i:68764970 original size:79 final size:80
Alignment explanation
Indices: 68764869--68765051 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
68764859 ACGACTCGCT
** * * *
68764869 CAAATGCCTTCGGGACGAAGCCCGATTATAGTGACTCGCCCGAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCG
* *
68764933 GGTTTAGTAACTT-GCA
64 GATATAGTAACTTAGCA
* **
68764949 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
68765013 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
68765029 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
68765052 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 52 0.59
80 33 0.38
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:68764983 original size:39 final size:40
Alignment explanation
Indices: 68764869--68765053 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
68764859 ACGACTCGCT
** * * *
68764869 CAAATGCCTTCGGGACGAAGCCC-GATTATAGTGACTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
68764909 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
68764949 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
68764988 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
68765029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68765054 CATCATTCGA
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 72 0.62
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:68767783 original size:51 final size:51
Alignment explanation
Indices: 68767700--68767903 Score: 259
Period size: 51 Copynumber: 4.0 Consensus size: 51
68767690 CGGATACACG
* * * *
68767700 GTGGCTTTCACATA-TACCACCCTTGTAG-CCAAAGCTATTTTATCCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
* *
68767750 GTTGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* ** * * *
68767801 GTGGCCATCATTTAGTACCGCACCTGTGTCCAAAGCTATTATATTCACATA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
68767852 GTGGCCTTCACATAGTACCACACTTTTGTCTAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
68767903 G
1 G
68767904 GTTCAACTGG
Statistics
Matches: 132, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 13 0.10
51 119 0.90
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:68767999 original size:24 final size:24
Alignment explanation
Indices: 68767937--68768113 Score: 147
Period size: 24 Copynumber: 6.9 Consensus size: 24
68767927 TAGCACCATA
*
68767937 CCATGGACTTATTTTACTTAGCAAATTG
1 CCATGGACTTATTTCACTTAG---A-TG
*
68767965 CCATGGACTTATTTCACTTAGATA
1 CCATGGACTTATTTCACTTAGATG
* *
68767989 CCATGGTCTTATTTCACTTAGCCCGTTG
1 CCATGGACTTATTTCACTTA----GATG
**
68768017 CGTTGGACTTATTTCACTTAGATG
1 CCATGGACTTATTTCACTTAGATG
*
68768041 CCATGGTCTTATTTCACTTAGCACGTTG
1 CCATGGACTTATTTCACTTAG-A---TG
* * *
68768069 CCTTGAACTTATTTCACTTAAATG
1 CCATGGACTTATTTCACTTAGATG
*
68768093 CCATGGTCTTATTTCACTTAG
1 CCATGGACTTATTTCACTTAG
68768114 CACGATGCCA
Statistics
Matches: 121, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
24 60 0.50
25 2 0.02
27 1 0.01
28 58 0.48
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (24 bp):
CCATGGACTTATTTCACTTAGATG
Found at i:68768000 original size:52 final size:52
Alignment explanation
Indices: 68767934--68768122 Score: 270
Period size: 52 Copynumber: 3.6 Consensus size: 52
68767924 ACTTAGCACC
* * ** *
68767934 ATACCATGGACTTATTTTACTTAGCAAATTGCCATGGACTTATTTCACTTAG
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
* *
68767986 ATACCATGGTCTTATTTCACTTAGCCCGTTGCGTTGGACTTATTTCACTTAG
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
* * *
68768038 ATGCCATGGTCTTATTTCACTTAGCACGTTGCCTTGAACTTATTTCACTTAA
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
* *
68768090 ATGCCATGGTCTTATTTCACTTAGCACGATGCC
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCC
68768123 ATATCCTAGA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (52 bp):
ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
Found at i:68768186 original size:82 final size:82
Alignment explanation
Indices: 68768075--68768265 Score: 336
Period size: 82 Copynumber: 2.4 Consensus size: 82
68768065 GTTGCCTTGA
*
68768075 ACTTATTTCACTTA--A-A-TGCCATGGTCTTATTTCACTTAGCACGATGCCATATCCTAGATAT
1 ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCATATCCTAGATAT
68768136 GGTCTTACATGTGAATC
66 GGTCTTACATGTGAATC
68768153 ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCATATCCTAGATAT
1 ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCATATCCTAGATAT
68768218 GGTCTTACATGTGAATC
66 GGTCTTACATGTGAATC
*
68768235 ACTTATTTCACTTAGCTCATTGCCATGGTCT
1 ACTTATTTCACTTAGCACATTGCCATGGTCT
68768266 AACCATGGTC
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
78 14 0.13
80 1 0.01
81 1 0.01
82 91 0.85
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (82 bp):
ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCATATCCTAGATAT
GGTCTTACATGTGAATC
Found at i:68768314 original size:49 final size:49
Alignment explanation
Indices: 68768252--68768347 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
68768242 TCACTTAGCT
68768252 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACACA
1 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACACA
68768301 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACA
1 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACA
68768348 TTACGCAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (49 bp):
CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACACA
Found at i:68774189 original size:27 final size:27
Alignment explanation
Indices: 68773989--68774180 Score: 267
Period size: 27 Copynumber: 7.1 Consensus size: 27
68773979 GTTTACCAAG
* *
68773989 TTACTGAAGTACCCCTGTAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
*
68774016 TTATTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
68774043 TTACTAAAATACCCTTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
68774070 TTACTGAAATACCGCTGTAGAGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
68774097 TTACTGAAATACCGCTATAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
68774124 TTACTGAAATACCCTTGTACGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
68774151 ATACCGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
68774178 TTA
1 TTA
68774181 TCGAGATACT
Statistics
Matches: 144, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTAGGGTAGAA
Found at i:68774207 original size:81 final size:80
Alignment explanation
Indices: 68773998--68774208 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 80
68773988 GTTACTGAAG
* * * *
68773998 TACCCCTGTAGGGTAAAATTATTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGTAG
1 TACCCCTGTAGGGTAGAATTATCGAAATACCCTTGT-GGGTAGAATTACTAAAATACCCTTGTAC
* *
68774063 GGTAGAATTACTGAAA
65 GGTAGAAATACCGAAA
* * * *
68774079 TACCGCTGTAGAGTAGAATTA-CTGAAATACCGCTAT-AGGGTAGAATTACTGAAATACCCTTGT
1 TACCCCTGTAGGGTAGAATTATC-GAAATACC-CT-TGTGGGTAGAATTACTAAAATACCCTTGT
68774142 ACGGTAGAAATACCGAAA
63 ACGGTAGAAATACCGAAA
* * *
68774160 TACCCCTGTAGGGTAGAATTATCGAGATACTCTTGTGGTGTAAAATTAC
1 TACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTGG-GTAGAATTAC
68774209 CATTTTGCCC
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 100 0.93
82 2 0.02
83 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (80 bp):
TACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTGGGTAGAATTACTAAAATACCCTTGTACG
GTAGAAATACCGAAA
Found at i:68774838 original size:25 final size:25
Alignment explanation
Indices: 68774810--68774874 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
68774800 CACACTCTGG
68774810 TTCTGATTCTATTACCTAATACTGA
1 TTCTGATTCTATTACCTAATACTGA
* * * *
68774835 TTCTGATTCTGTCACTTAATTCTGA
1 TTCTGATTCTATTACCTAATACTGA
68774860 TTCTGATTCTGATTA
1 TTCTGATTCT-ATTA
68774875 TGTCACCTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (25 bp):
TTCTGATTCTATTACCTAATACTGA
Found at i:68774842 original size:6 final size:6
Alignment explanation
Indices: 68774831--68774921 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
68774821 TTACCTAATA
* * * *
68774831 CTGATT CTGATT CTG-TCA CTTAATT CTGATT CTGATT CTGATT ATG-TCAC
1 CTGATT CTGATT CTGAT-T C-TGATT CTGATT CTGATT CTGATT CTGAT--T
* *
68774881 CTGATT CTGATT CTGATT CTCATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
68774922 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
5 3 0.05
6 55 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:68774866 original size:31 final size:31
Alignment explanation
Indices: 68774831--68774900 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
68774821 TTACCTAATA
* *
68774831 CTGATTCTGATTCTGTCACTTAATTCTGATT
1 CTGATTCTGATTATGTCACCTAATTCTGATT
*
68774862 CTGATTCTGATTATGTCACCTGATTCTGATT
1 CTGATTCTGATTATGTCACCTAATTCTGATT
68774893 CTGATTCT
1 CTGATTCT
68774901 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
CTGATTCTGATTATGTCACCTAATTCTGATT
Found at i:68777337 original size:43 final size:44
Alignment explanation
Indices: 68777281--68777443 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 44
68777271 AGCTCGTACA
* * **
68777281 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACA-TATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAGTATCG
* * * *
68777323 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCA-ATTAAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAGT-ATCG
* * *
68777366 ATGCCAATGTCCCAGACATGGTCTTAGATGAAATCTCAGTA-CA
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAGTATCG
* *
68777409 ATGCCAATGTCCCAGCCATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATC
68777444 GCATCTTGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 6 0.06
43 89 0.90
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAGTATCG
Found at i:68780567 original size:11 final size:11
Alignment explanation
Indices: 68780551--68780580 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
68780541 AAACACATCG
68780551 AAACATGCCAA
1 AAACATGCCAA
*
68780562 AAACATACCAA
1 AAACATGCCAA
68780573 AAACATGC
1 AAACATGC
68780581 AACCTATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.27, G:0.07, T:0.10
Consensus pattern (11 bp):
AAACATGCCAA
Found at i:68781224 original size:24 final size:24
Alignment explanation
Indices: 68781197--68781242 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
68781187 GTTATTGAGT
*
68781197 TCATA-TATGAAACATATGACTTTA
1 TCATATTATCAAACATAT-ACTTTA
68781221 TCATATTATCAAACATATACTT
1 TCATATTATCAAACATATACTT
68781243 GAAAAACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (24 bp):
TCATATTATCAAACATATACTTTA
Found at i:68789236 original size:40 final size:40
Alignment explanation
Indices: 68789179--68789276 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 40
68789169 ATTTCTATTT
* *
68789179 GTATAAACT-ATAATTCATTCA-CATAACCAGTAATTCATCC
1 GTATAAA-TAATAATTCATTCAGAATAA-CAATAATTCATCC
*
68789219 GTATAAATAATAGTTCA-TCAGTAATAACAATAATTCATCC
1 GTATAAATAATAATTCATTCAG-AATAACAATAATTCATCC
* * *
68789259 GTATCAACAATATTTCAT
1 GTATAAATAATAATTCAT
68789277 CCATATAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 4 0.08
40 40 0.83
41 4 0.08
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (40 bp):
GTATAAATAATAATTCATTCAGAATAACAATAATTCATCC
Found at i:68789287 original size:20 final size:20
Alignment explanation
Indices: 68789180--68789287 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 20
68789170 TTTCTATTTG
* *
68789180 TATAAACTATAATTCATTCA
1 TATAAACAATAATTCATCCA
* * * *
68789200 CATAACCAGTAATTCATCCG
1 TATAAACAATAATTCATCCA
* *
68789220 TATAAATAATAGTTCAT-CA
1 TATAAACAATAATTCATCCA
*
68789239 GTA-ATAACAATAATTCATCCG
1 -TATA-AACAATAATTCATCCA
* *
68789260 TATCAACAATATTTCATCCA
1 TATAAACAATAATTCATCCA
68789280 TATAAACA
1 TATAAACA
68789288 CATATCTTAT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
19 2 0.03
20 62 0.95
21 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (20 bp):
TATAAACAATAATTCATCCA
Found at i:68789534 original size:24 final size:22
Alignment explanation
Indices: 68789503--68789579 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
68789493 CTGATAAACA
*
68789503 GTAAGCTCTATTGGGCTGAAAGCG
1 GTAAGCTCTATTGAGCTG-AA-CG
*
68789527 GTAAGCTCTATTGAGCTGAACA
1 GTAAGCTCTATTGAGCTGAACG
*
68789549 GTAAGCTCTATCGAGCTGAATCG
1 GTAAGCTCTATTGAGCTGAA-CG
68789572 GTAAGCTC
1 GTAAGCTC
68789580 ATACGAGATG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
22 20 0.42
23 11 0.23
24 17 0.35
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAACG
Found at i:68796634 original size:40 final size:40
Alignment explanation
Indices: 68796416--68796612 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
68796406 TCGAATGATG
* *
68796416 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
68796456 TCCGGACTAAGATCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
68796495 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68796535 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
68796575 TCCGAGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
68796613 TAACCGGGCT
Statistics
Matches: 145, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
39 32 0.22
40 110 0.76
41 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68796640 original size:40 final size:40
Alignment explanation
Indices: 68796416--68796640 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
68796406 TCGAATGATG
*
68796416 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
68796456 TCCGGACTAAGAT-CCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68796495 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68796535 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
68796575 TCCGAGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
68796616 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68796641 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 32 0.19
40 131 0.79
41 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68804791 original size:79 final size:78
Alignment explanation
Indices: 68804617--68804811 Score: 306
Period size: 79 Copynumber: 2.5 Consensus size: 78
68804607 TCGAATGATG
* *
68804617 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGACTAAGATCCGAAGGCATTG
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGACTAAGATCCGAAGGCATTG
68804681 TGCGAGTTACTAAA
65 TGCGAGTTACTAAA
68804695 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC-GACTAAGATCCGAAGGCA-T
68804759 TGTGCGAGTTACTAAA
63 TGTGCGAGTTACTAAA
*
68804775 TCCGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
68804812 TAACCGGGCT
Statistics
Matches: 109, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
78 32 0.29
79 54 0.50
80 23 0.21
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (78 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGACTAAGATCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:68804839 original size:40 final size:40
Alignment explanation
Indices: 68804617--68804811 Score: 294
Period size: 40 Copynumber: 5.0 Consensus size: 40
68804607 TCGAATGATG
* *
68804617 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
68804657 TCC-GACTAAGATCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68804695 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
68804735 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
68804775 TCCGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
68804812 TAACCGGGCT
Statistics
Matches: 147, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
38 14 0.10
39 66 0.45
40 67 0.46
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68804858 original size:79 final size:80
Alignment explanation
Indices: 68804617--68804846 Score: 262
Period size: 79 Copynumber: 2.9 Consensus size: 80
68804607 TCGAATGATG
* * *
68804617 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GACTAAGATCCGAAGGCAT
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
68804679 TGTG--CGAGTTACTAAA
64 T-TGAACGAGTTACTAAA
*
68804695 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTT
**
68804760 GTGCGAGTTACTAAA
66 GAACGAGTTACTAAA
* * *
68804775 TCCGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCA
68804836 TTTGAACGAGT
63 TTTGAACGAGT
68804847 AGCTATATCC
Statistics
Matches: 136, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
78 35 0.26
79 81 0.60
80 20 0.15
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:68804870 original size:79 final size:78
Alignment explanation
Indices: 68804630--68804872 Score: 248
Period size: 79 Copynumber: 3.1 Consensus size: 78
68804620 GGGCTAAGTC
* *
68804630 CCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GACTAAGATCCGAAGGCATTGTG--CGAGTTAC
1 CCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCATT-TGAACGAGTTAC
*
68804691 TAAATCCGGACTAAGAT
64 TAAATCCGGA-TAA-CT
* **
68804708 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
*
68804773 AATCCGGATAAGT
66 AATCCGGATAACT
* * *
68804786 CCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAG-TA
1 -CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA
* *
68804848 GCTATATCCGGTTAAACT
63 -CTAAATCCGGAT-AACT
68804866 CCGAAGG
1 CCGAAGG
68804873 TACGTGATTC
Statistics
Matches: 145, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
78 27 0.19
79 95 0.66
80 23 0.16
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
AATCCGGATAACT
Found at i:68809639 original size:18 final size:18
Alignment explanation
Indices: 68809616--68809654 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
68809606 GCCACAGTAC
68809616 CTTTACTAACAGAATTTT
1 CTTTACTAACAGAATTTT
68809634 CTTTACTAACAGAATTTT
1 CTTTACTAACAGAATTTT
68809652 CTT
1 CTT
68809655 ATTTCACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.46
Consensus pattern (18 bp):
CTTTACTAACAGAATTTT
Found at i:68819192 original size:29 final size:29
Alignment explanation
Indices: 68819159--68819319 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
68819149 GTGACGAGAT
68819159 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
68819188 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
68819217 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
68819246 TGACACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
68819275 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
68819304 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
68819320 GGCTTAAATT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 116 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:68827226 original size:29 final size:29
Alignment explanation
Indices: 68827193--68827353 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
68827183 GTGACGAGAT
68827193 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
68827222 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
68827251 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
68827280 TGACACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
68827309 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
68827338 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
68827354 GGCTTAAATT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 116 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:68840580 original size:43 final size:43
Alignment explanation
Indices: 68840481--68840580 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
68840471 CCAGCTATGC
* * * *
68840481 TCTTACA-ATAAATCATATAACGATGCCAATGTGCCAGAGATGG
1 TCTTACACAT-AATCACATAACGATGCCAATGTCCCAAACATGG
* *
68840524 TCTTACACGTAATCACATAATGATGCCAATGTCCCAAACATGG
1 TCTTACACATAATCACATAACGATGCCAATGTCCCAAACATGG
68840567 TCTTACACATAATC
1 TCTTACACATAATC
68840581 TCATCTTGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 48 0.98
44 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
TCTTACACATAATCACATAACGATGCCAATGTCCCAAACATGG
Found at i:68843489 original size:16 final size:18
Alignment explanation
Indices: 68843468--68843500 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
68843458 CCATATAGCT
68843468 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
68843484 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
68843501 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:68849793 original size:38 final size:38
Alignment explanation
Indices: 68849718--68849793 Score: 86
Period size: 38 Copynumber: 2.0 Consensus size: 38
68849708 GATAATTAAA
* *
68849718 AATAAAATTCTAAAATCTAAAAAATAAAAAGTAGTTTT
1 AATAAAATTCGAAAATCTAAAAAATAAAAAATAGTTTT
68849756 AATAAAATT-GAAAA-CATAAAATAATAAATAAAT-GTTTT
1 AATAAAATTCGAAAATC-TAAAA-AATAAA-AAATAGTTTT
68849794 TAAACATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
36 1 0.03
37 9 0.27
38 20 0.61
39 3 0.09
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (38 bp):
AATAAAATTCGAAAATCTAAAAAATAAAAAATAGTTTT
Done.