Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 638 of 770
Found at i:200261944 original size:80 final size:80
Alignment explanation
Indices: 200261860--200262008 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
200261850 TATGGTAACC
* * * * *
200261860 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGAGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
200261924 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
200261940 CGCACGAATGCCTTCGAGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGAGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
200262005 CCGG
66 CCGG
200262009 TTATAATTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGAGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:200261950 original size:40 final size:38
Alignment explanation
Indices: 200261901--200262008 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 38
200261891 ATCACGATTT
*
200261901 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
* *
200261941 GCACGAATGCCTTCGAGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
200261981 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
200262009 TTATAATTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 54 0.92
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:200270274 original size:80 final size:80
Alignment explanation
Indices: 200270190--200270338 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
200270180 TATGGTAACC
* * * *
200270190 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
200270254 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
200270270 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
200270335 CCGG
66 CCGG
200270339 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:200270280 original size:40 final size:38
Alignment explanation
Indices: 200270231--200270338 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
200270221 ATCACGATTT
*
200270231 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
200270271 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
200270311 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
200270339 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:200272921 original size:40 final size:40
Alignment explanation
Indices: 200272866--200273029 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
200272856 TGAATGATAC
* * *
200272866 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
200272906 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
200272946 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
200272986 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
200273026 CCGG
1 CCGG
200273030 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:200272999 original size:80 final size:80
Alignment explanation
Indices: 200272866--200273043 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
200272856 TGAATGATAC
* * * * * *
200272866 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
200272930 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
200272946 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
200273011 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
200273026 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
200273044 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:200276880 original size:10 final size:10
Alignment explanation
Indices: 200276862--200276891 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
200276852 CTGAGTATTG
*
200276862 GTTGGAAGGA
1 GTTGAAAGGA
200276872 GTTGAAAGGA
1 GTTGAAAGGA
200276882 GTTGAAAGGA
1 GTTGAAAGGA
200276892 TCCTTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (10 bp):
GTTGAAAGGA
Found at i:200281622 original size:64 final size:64
Alignment explanation
Indices: 200281541--200281724 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
200281531 AGACATTATG
* *
200281541 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
200281605 ATGTAGCTAGGTCGCATGTGTGGCTTC-AGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
200281669 TAA
62 TAA
* ** * *
200281672 AT-TGGCTAGGTTACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
200281725 CGAACTCTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 22 0.23
65 6 0.06
66 16 0.16
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:200290901 original size:71 final size:71
Alignment explanation
Indices: 200290815--200290978 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
200290805 CGATTTGTCT
200290815 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200290880 CTTTCA
66 CTTTCA
200290886 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200290951 CTTTCA
66 CTTTCA
200290957 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
200290979 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:200291016 original size:71 final size:70
Alignment explanation
Indices: 200290815--200291012 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
200290805 CGATTTGTCT
* * * *
200290815 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200290880 CTTTCA
65 CTTTCA
* * * *
200290886 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200290951 CTTTCA
65 CTTTCA
* *
200290957 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
200291013 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:200300772 original size:40 final size:40
Alignment explanation
Indices: 200300713--200300854 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
200300703 AAATTGAATG
* * *
200300713 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
200300753 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
200300793 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
200300833 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
200300855 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:200300855 original size:40 final size:39
Alignment explanation
Indices: 200300752--200300880 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
200300742 TGCTGGAAAT
* * *
200300752 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
200300792 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
200300832 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
200300872 TATATCCGG
1 TATATCCGG
200300881 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:200308445 original size:59 final size:58
Alignment explanation
Indices: 200308349--200308480 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
200308339 AAAATTGTAC
200308349 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
200308407 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
200308466 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
200308481 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:200308469 original size:88 final size:89
Alignment explanation
Indices: 200308319--200308480 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
200308309 GACAAGATTG
* * *
200308319 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
200308384 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
200308408 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
200308472 AAGTGTGCG
66 AAGTGTGCG
200308481 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:200308492 original size:29 final size:29
Alignment explanation
Indices: 200308349--200308480 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
200308339 AAAATTGTAC
*
200308349 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
200308378 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
200308407 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
200308437 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
200308466 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
200308481 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:200315654 original size:40 final size:40
Alignment explanation
Indices: 200315609--200315738 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
200315599 CGGAATATAA
200315609 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
200315649 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
200315689 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
200315729 CCGGATATAA
1 CCGGATATAA
200315739 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:200315753 original size:40 final size:39
Alignment explanation
Indices: 200315625--200315775 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
200315615 ATAACCATGT
* * *
200315625 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
200315665 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
200315705 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
200315744 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
200315776 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:200315759 original size:80 final size:79
Alignment explanation
Indices: 200315609--200315775 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
200315599 CGGAATATAA
*
200315609 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
200315674 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
200315689 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
200315751 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
200315768 CCGGATAT
1 CCGGATAT
200315776 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:200323751 original size:40 final size:38
Alignment explanation
Indices: 200323625--200323753 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 38
200323615 CGGAATATAA
*
200323625 CCGGATATAACCAGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCAC-AATGCCTTCGGGTCTTAGC
* **
200323664 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTCTTAGC
* *
200323704 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAA-TGCCTTCGGGTCTTAGC
200323744 CCGGATATAA
1 CCGGATATAA
200323754 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 13 0.17
40 63 0.83
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTTAGC
Found at i:200323768 original size:40 final size:40
Alignment explanation
Indices: 200323640--200323790 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
200323630 TATAACCAGT
* * *
200323640 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
200323680 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
200323720 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* *
200323760 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
200323791 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:200323774 original size:80 final size:78
Alignment explanation
Indices: 200323625--200323790 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 78
200323615 CGGAATATAA
* *
200323625 CCGGATATAACCAGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGC
200323690 CTTCGGGTCTTAGC
66 CTTCGGG-CTTAGC
* * * ** *
200323704 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
200323767 TGTCTTCGGGCTTAGC
63 TGCCTTCGGGCTTAGC
200323783 CCGGATAT
1 CCGGATAT
200323791 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 30 0.40
80 45 0.60
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (78 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGC
CTTCGGGCTTAGC
Found at i:200328175 original size:28 final size:28
Alignment explanation
Indices: 200328137--200328243 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
200328127 GAATCATTCG
* *
200328137 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
200328165 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
200328193 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
200328221 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
200328244 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:200333232 original size:28 final size:28
Alignment explanation
Indices: 200333198--200333352 Score: 132
Period size: 28 Copynumber: 5.5 Consensus size: 28
200333188 AACCGATCTT
*
200333198 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
200333226 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
*
200333255 GAACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** *
200333283 GCACACACAGTGCCTCAACAAC-CAATCTC
1 GCACACACAGTG-CTCGGTTACGGAA-CTC
* *
200333312 ACACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
*
200333340 ACACACACAGTGC
1 GCACACACAGTGC
200333353 CTATGTTCAC
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
28 57 0.58
29 41 0.42
ACGTcount: A:0.31, C:0.35, G:0.18, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:200333238 original size:57 final size:57
Alignment explanation
Indices: 200333168--200333354 Score: 284
Period size: 57 Copynumber: 3.2 Consensus size: 57
200333158 GATCTCATTT
* * *
200333168 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
200333227 CACACACAGTGCCTCAACAACCGATCTCGAACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * *
200333284 CACACACAGTGCCTCAACAACCAATCTCACACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
200333341 CACACACAGTGCCT
1 CACACACAGTGCCT
200333355 ATGTTCACTT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
57 112 0.94
59 7 0.06
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:200333265 original size:29 final size:29
Alignment explanation
Indices: 200333223--200333324 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
200333213 GGTTACGGAA
*
200333223 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGAACACACAGTGCCTCAACAACCGAT
**** * *
200333252 CTCGAACACACAGTG-CTCGGTTACGGAA
1 CTCGAACACACAGTGCCTCAACAACCGAT
* *
200333280 CTCGCACACACAGTGCCTCAACAACCAAT
1 CTCGAACACACAGTGCCTCAACAACCGAT
200333309 CTC-ACACACACAGTGC
1 CTCGA-ACACACAGTGC
200333325 TCGATTACGG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.15
Consensus pattern (29 bp):
CTCGAACACACAGTGCCTCAACAACCGAT
Found at i:200336878 original size:30 final size:30
Alignment explanation
Indices: 200336842--200336972 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
200336832 GACAAGATTG
* * * * *
200336842 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
200336872 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
200336900 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
200336930 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
200336959 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
200336973 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:200336933 original size:58 final size:58
Alignment explanation
Indices: 200336842--200336972 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
200336832 GACAAGATTG
* * * * * *
200336842 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
200336900 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
200336959 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
200336973 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:200344815 original size:30 final size:30
Alignment explanation
Indices: 200344779--200344909 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
200344769 GACAAGATTG
* * * * *
200344779 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
200344809 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
200344837 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
200344867 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
200344896 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
200344910 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:200344870 original size:58 final size:58
Alignment explanation
Indices: 200344779--200344909 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
200344769 GACAAGATTG
* * * * * *
200344779 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
200344837 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
200344896 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
200344910 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:200347142 original size:17 final size:18
Alignment explanation
Indices: 200347100--200347148 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
200347090 AGTTGAAAAG
200347100 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
200347119 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
200347136 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
200347149 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:200348034 original size:40 final size:40
Alignment explanation
Indices: 200347968--200348134 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
200347958 AAATTGAATG
* * *
200347968 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
200348007 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
200348047 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
200348087 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
200348127 ATATCCGG
1 ATATCCGG
200348135 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:200355142 original size:17 final size:18
Alignment explanation
Indices: 200355100--200355148 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
200355090 AGTTGAAAAG
200355100 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
200355119 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
200355136 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
200355149 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:200356036 original size:40 final size:40
Alignment explanation
Indices: 200355970--200356136 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
200355960 AAATTGAATG
* * *
200355970 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
200356009 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
200356049 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
200356089 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
200356129 ATATCCGG
1 ATATCCGG
200356137 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:200359023 original size:19 final size:20
Alignment explanation
Indices: 200358988--200359025 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
200358978 TATGATTACC
200358988 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
200359008 TCATGTGCAT-TCATACAT
1 TCATGTGCATATCATACAT
200359026 ACCATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:200360936 original size:40 final size:39
Alignment explanation
Indices: 200360891--200361098 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
200360881 CGGATTACAA
*
200360891 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
200360931 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
200360971 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
200361011 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
200361051 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
200361091 CCGGATAT
1 CCGGATAT
200361099 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:200361031 original size:80 final size:80
Alignment explanation
Indices: 200360891--200361098 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
200360881 CGGATTACAA
* * *
200360891 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
200360956 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
200360971 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
200361035 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
200361051 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
200361099 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:200369066 original size:40 final size:39
Alignment explanation
Indices: 200369021--200369227 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
200369011 CGGATTACAA
*
200369021 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
200369061 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
200369101 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
200369141 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
200369181 CCGGATATAATTACTAGCA-AAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
200369220 CCGGATAT
1 CCGGATAT
200369228 CATTCAATTG
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 25 0.17
40 119 0.83
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:200369161 original size:80 final size:80
Alignment explanation
Indices: 200369021--200369227 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
200369011 CGGATTACAA
* * *
200369021 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
200369086 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
200369101 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
200369165 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
200369181 CCGGATATAATTACTAGCA-AAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
200369228 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 24 0.22
80 84 0.77
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:200377560 original size:28 final size:28
Alignment explanation
Indices: 200377518--200377617 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 28
200377508 ATGGTAGTAC
* *
200377518 CTTAAACGTGGAAGTTTGTCAGGACGAT
1 CTTAAACGTGGAAGTCTATCAGGACGAT
* * * *
200377546 CTTAATCGTGTAAGTCTATCATGATGAT
1 CTTAAACGTGGAAGTCTATCAGGACGAT
* * * *
200377574 CTTAAACGTGGAAGTCCATCTGTATGAT
1 CTTAAACGTGGAAGTCTATCAGGACGAT
*
200377602 CTTAAATGTGGAAGTC
1 CTTAAACGTGGAAGTC
200377618 CTCCGAAACA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (28 bp):
CTTAAACGTGGAAGTCTATCAGGACGAT
Found at i:200383906 original size:40 final size:41
Alignment explanation
Indices: 200383861--200384027 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
200383851 CGGAATATAA
*
200383861 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
200383901 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
200383941 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
200383981 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
200384020 CCGGATAT
1 CCGGATAT
200384028 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200384871 original size:17 final size:19
Alignment explanation
Indices: 200384848--200384893 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
200384838 AAGAAGCATG
200384848 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
200384866 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
200384884 AATCATGCTC
1 AATCATGCTC
200384894 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:200393539 original size:40 final size:40
Alignment explanation
Indices: 200393484--200393693 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
200393474 AACATTGGAA
200393484 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200393524 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200393564 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
200393604 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
200393643 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
200393684 CTATATCCGG
1 ATATATCCGG
200393694 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:200399817 original size:6 final size:6
Alignment explanation
Indices: 200399806--200399839 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
200399796 ATCCAAAAGT
200399806 TTTTAA TTTTAA TTTTAA TTTTTCAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA -TTTT-AA TTTTAA TT
200399840 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.62
7 8 0.31
8 2 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:200399835 original size:14 final size:13
Alignment explanation
Indices: 200399806--200399839 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
200399796 ATCCAAAAGT
200399806 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
200399818 TTTTAATTTTTCAA
1 TTTTAATTTTT-AA
200399832 TTTTAATT
1 TTTTAATT
200399840 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 4 0.20
14 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:200399909 original size:18 final size:18
Alignment explanation
Indices: 200399880--200399916 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
200399870 GGCCCACACA
200399880 CTAGTTAGTTT-ATTTTC
1 CTAGTTAGTTTAATTTTC
200399897 CTAGTTCAGTTTAATTTTC
1 CTAGTT-AGTTTAATTTTC
200399916 C
1 C
200399917 AGTACAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 5 0.28
19 7 0.39
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (18 bp):
CTAGTTAGTTTAATTTTC
Found at i:200403061 original size:20 final size:20
Alignment explanation
Indices: 200403036--200403107 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
200403026 TAAGCTTATG
200403036 GTAAGTAAATGGAATGGAAA
1 GTAAGTAAATGGAATGGAAA
** *
200403056 GTAAGTAAATAAAATGAAAA
1 GTAAGTAAATGGAATGGAAA
*
200403076 GTAAGTAAATGGAATGGTAA
1 GTAAGTAAATGGAATGGAAA
200403096 GTAAG-AAATGGA
1 GTAAGTAAATGGA
200403108 GTTCTTCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 7 0.16
20 38 0.84
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
GTAAGTAAATGGAATGGAAA
Found at i:200408444 original size:20 final size:20
Alignment explanation
Indices: 200408419--200408487 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
200408409 TAAGCTTATG
200408419 GTAAGTAAATGGAATGGAAA
1 GTAAGTAAATGGAATGGAAA
** *
200408439 GTAAGTAAATAAAATGAAAA
1 GTAAGTAAATGGAATGGAAA
* *
200408459 GTAAGTAAATGGACTGGTAA
1 GTAAGTAAATGGAATGGAAA
200408479 GTAAG-AAAT
1 GTAAGTAAAT
200408488 TGAGTGCTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 4 0.10
20 37 0.90
ACGTcount: A:0.52, C:0.01, G:0.25, T:0.22
Consensus pattern (20 bp):
GTAAGTAAATGGAATGGAAA
Found at i:200409844 original size:123 final size:124
Alignment explanation
Indices: 200409599--200409845 Score: 388
Period size: 123 Copynumber: 2.0 Consensus size: 124
200409589 ATTAAAACCA
* * * *
200409599 ATTCAAAACATAGATATTTTACCTTATACGAGCCCTCGAGGCCCTAAATACACGTTAGAAACAAG
1 ATTCAAAACATACAGATTTTACCATATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAACAAG
* * *
200409664 TTGGGACTAAATTGGGAACTTAGAGAATTTTTCAAGAAACAAGGAAATTTTTCAAAACT
66 TTGGGACTAAATTGGAAACTCAGAGAATTTTTCAAGAAACAAGGAAAATTTTCAAAACT
* * **
200409723 ATTCAAAACATACAGATTTTCCCATATACGAGCCCTCGAGTCCCAAAATACGTGTTAGAAA-AAG
1 ATTCAAAACATACAGATTTTACCATATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAACAAG
200409787 TTGGGACTAAATTGGAAACTCAGAGAATTTTTCAAGAAACAAGGAAAATTTTCAAAACT
66 TTGGGACTAAATTGGAAACTCAGAGAATTTTTCAAGAAACAAGGAAAATTTTCAAAACT
200409846 GTAAAGGTCA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
123 59 0.53
124 53 0.47
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (124 bp):
ATTCAAAACATACAGATTTTACCATATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAACAAG
TTGGGACTAAATTGGAAACTCAGAGAATTTTTCAAGAAACAAGGAAAATTTTCAAAACT
Found at i:200411623 original size:40 final size:39
Alignment explanation
Indices: 200411496--200411663 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 39
200411486 CGGAATATAA
*
200411496 CCGGATATAATC-ACGT-GCACAAATGCCTACGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * *
200411536 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
200411576 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * * *
200411616 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
200411656 CCGGATAT
1 CCGGATAT
200411664 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 103 0.97
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:200414299 original size:40 final size:41
Alignment explanation
Indices: 200414254--200414382 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 41
200414244 CGGAATATAA
200414254 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
* * *
200414294 CCGGATAGAAT---GTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
200414332 CCGGATGTAGCCAC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
200414372 CCGGATATAAT
1 CCGGATATAAT
200414383 TTCCAGCATA
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
37 2 0.03
38 30 0.42
40 40 0.56
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200414396 original size:40 final size:40
Alignment explanation
Indices: 200414254--200414417 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
200414244 CGGAATATAA
* ** *
200414254 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
* *
200414294 CCGGATAGAATGT-C-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * * *
200414332 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
* * * *
200414372 CCGGATATAATTTCCAGCATAATTGTCTTC-GG-ATTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
200414410 CCGGATAT
1 CCGGATAT
200414418 CATTCAATTT
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
38 40 0.41
39 6 0.06
40 52 0.53
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:200422278 original size:40 final size:40
Alignment explanation
Indices: 200422233--200422400 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
200422223 CGGAATATAA
200422233 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
200422273 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
200422313 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
200422353 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
200422393 CCGGATAT
1 CCGGATAT
200422401 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200425993 original size:28 final size:28
Alignment explanation
Indices: 200425924--200426024 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
200425914 GACAAGATTG
* * * *
200425924 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
200425954 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
200425982 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
200426011 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
200426025 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:200426018 original size:29 final size:28
Alignment explanation
Indices: 200425953--200426024 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
200425943 AAAATTGTAC
*
200425953 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
200425981 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
200426010 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
200426025 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:200432906 original size:28 final size:28
Alignment explanation
Indices: 200432837--200432937 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
200432827 GACAAGATTG
* * * *
200432837 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
200432867 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
200432895 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
200432924 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
200432938 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:200432931 original size:29 final size:28
Alignment explanation
Indices: 200432866--200432937 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
200432856 AAAATTGTAC
*
200432866 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
200432894 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
200432923 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
200432938 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:200438426 original size:40 final size:40
Alignment explanation
Indices: 200438299--200438428 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
200438289 ATGCTGGAAA
*
200438299 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTA-GTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
* * * *
200438339 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGCGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
*
200438379 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
200438419 TTATATCCGG
1 TTATATCCGG
200438429 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
Found at i:200441143 original size:40 final size:41
Alignment explanation
Indices: 200441099--200441185 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
200441089 TTTTACATTC
* *
200441099 GCGGCGTTTGCAAT-AACACGCCGC-AAAAAATAGAGCAATA
1 GCGGCGTTTGCAATCAAAACGCCGCTAAAAAA-AGAACAATA
***
200441139 GCGGCGTTTTTGATCAAAACGCCGCTAAAAAAAGAACAATA
1 GCGGCGTTTGCAATCAAAACGCCGCTAAAAAAAGAACAATA
200441180 GCGGCG
1 GCGGCG
200441186 ATTTTGGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 11 0.28
41 23 0.57
42 6 0.15
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (41 bp):
GCGGCGTTTGCAATCAAAACGCCGCTAAAAAAAGAACAATA
Found at i:200441169 original size:41 final size:40
Alignment explanation
Indices: 200441116--200441205 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 40
200441106 TTGCAATAAC
* *
200441116 ACGCCGC-AAAAAATAGAGCAATAGCGGCG-TTTTTGATCAAA
1 ACGCCGCTAAAAAA-AGAACAATAGCGGCGATTTTGGA--AAA
200441157 ACGCCGCTAAAAAAAGAACAATAGCGGCGATTTTGGAAAA
1 ACGCCGCTAAAAAAAGAACAATAGCGGCGATTTTGGAAAA
200441197 ACGCCGCTA
1 ACGCCGCTA
200441206 TAGGTCGAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
40 12 0.27
41 21 0.47
42 12 0.27
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (40 bp):
ACGCCGCTAAAAAAAGAACAATAGCGGCGATTTTGGAAAA
Found at i:200441223 original size:41 final size:41
Alignment explanation
Indices: 200441178--200441367 Score: 290
Period size: 41 Copynumber: 4.6 Consensus size: 41
200441168 AAAAGAACAA
* *
200441178 TAGCGGCGATTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* *
200441219 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAAAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
*
200441260 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * ** *
200441301 TAGCGGCGCTTTTGTAAAAACGCCGCTATATGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
200441342 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
200441368 AAAAAAGTAA
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
Found at i:200441687 original size:18 final size:18
Alignment explanation
Indices: 200441658--200441708 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
200441648 TTGTCCCTTG
200441658 TTATATATATATATTAA-A
1 TTATA-ATATATATTAAGA
*
200441676 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
200441695 TTATAATATATATT
1 TTATAATATATATT
200441709 TAGGGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:200442145 original size:15 final size:15
Alignment explanation
Indices: 200442125--200442159 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
200442115 GATTTTAATG
*
200442125 TATAAGATAAATGTA
1 TATAAGATAAATATA
200442140 TATAAGATAAATATA
1 TATAAGATAAATATA
200442155 TATAA
1 TATAA
200442160 ATTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TATAAGATAAATATA
Found at i:200442198 original size:24 final size:23
Alignment explanation
Indices: 200442131--200442198 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
200442121 AATGTATAAG
* *
200442131 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
200442156 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
200442180 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
200442199 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:200445690 original size:40 final size:40
Alignment explanation
Indices: 200445583--200445746 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
200445573 CGGGATTCAA
* * * * *
200445583 CCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
200445623 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
*
200445663 CCGGATATAA-CAACTCA-CACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
200445703 CCGGATATAATCACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
200445743 CCGG
1 CCGG
200445747 GTATCATTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200449050 original size:634 final size:635
Alignment explanation
Indices: 200447527--200449452 Score: 3800
Period size: 635 Copynumber: 3.0 Consensus size: 635
200447517 TAAGGCTGTC
200447527 ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
1 ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
200447592 TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
66 TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
*
200447657 TAGGTAATGGAAGATGTATGTCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
131 TAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
*
200447722 GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTGGCTCT
196 GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTAGCTCT
*
200447787 TTTCCTTCGAATACATGGTTCTCTTAAAATTAAATGCTCAGGTACTTTCTGCATATTCTGTGATT
261 TTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTCTGCATATTCTGTGATT
200447852 CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
326 CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
200447917 TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
391 TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
200447982 AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
456 AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
200448047 TTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
521 TTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
*
200448112 CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGGT
586 CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTAGATCCTGGT
200448162 ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
1 ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
200448227 TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
66 TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
200448292 TAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
131 TAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
200448357 GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTAGCTCT
196 GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTAGCTCT
200448422 TTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTCTGCATATTCTGTGATT
261 TTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTCTGCATATTCTGTGATT
200448487 CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
326 CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
200448552 TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
391 TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
200448617 AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
456 AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
200448682 TTAGATGTTC-TTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
521 TTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
200448746 CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTAGATCCTGGT
586 CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTAGATCCTGGT
200448796 ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
1 ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
200448861 TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
66 TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
200448926 TAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
131 TAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
200448991 GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTAGCTCT
196 GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTAGCTCT
*
200449056 TTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTTTGCATATTCTGTGATT
261 TTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTCTGCATATTCTGTGATT
200449121 CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
326 CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
200449186 TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
391 TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
200449251 AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
456 AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
200449316 TTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
521 TTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
200449381 CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTAGATCCTGGT
586 CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTAGATCCTGGT
200449431 ACAAGTGGGCACTTGCAAAACT
1 ACAAGTGGGCACTTGCAAAACT
200449453 TGTGACAGCC
Statistics
Matches: 1285, Mismatches: 5, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
634 632 0.49
635 653 0.51
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (635 bp):
ACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTTCTATATTTGCTTAAACTGAAATATATT
TGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTATTTGCAAGAAACAGATT
TAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTATGTATTTGGTACTAGAT
GAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTGATCATTTTCTAGCTCT
TTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTCTGCATATTCTGTGATT
CTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGCCTCTGTAAACATAAAG
TTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAA
AGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTT
TTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGC
CATATTTTGCTAAGGTGTATAGCTTCATTGGCAGTGTCTTAGATCCTGGT
Found at i:200451180 original size:27 final size:28
Alignment explanation
Indices: 200451123--200451191 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
200451113 AAACTTGTAC
*
200451123 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
200451151 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
200451178 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
200451192 GACTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 8 0.21
27 14 0.36
28 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:200457518 original size:44 final size:44
Alignment explanation
Indices: 200457461--200457726 Score: 191
Period size: 44 Copynumber: 5.8 Consensus size: 44
200457451 TATGCTTGCT
*
200457461 GATGAATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
* * * * *
200457505 GATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CAACTCTT-A-GCC
* * *
200457552 GATGCATGTCCCATG-CAT-T-TTACTCTGGCACTCATCTCTGT-GCC
1 GATGCATGTCCCA-GACATGTCTTACACTAGCA--CAACTCT-TAGCC
* * ** * * *
200457596 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTTATTTGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG--CACAACT-CTT-AGCC
*
200457646 GATGCATGTCCCAGACATGTCTTCCACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
*
200457690 GATGCATGTCCCAGACACGTCTTACACTGGAGCACAA
1 GATGCATGTCCCAGACATGTCTTACACT--AGCACAA
200457727 ATTACCCAAT
Statistics
Matches: 177, Mismatches: 25, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
44 64 0.36
45 30 0.17
46 18 0.10
47 19 0.11
48 24 0.14
49 15 0.08
50 7 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
Found at i:200457691 original size:94 final size:92
Alignment explanation
Indices: 200457408--200457719 Score: 332
Period size: 93 Copynumber: 3.4 Consensus size: 92
200457398 TGGGAATATT
* * * * *
200457408 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATATATGCT-TGCTGATGAATGTCC
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCATATAT-TTGTGCTGATGCATGTCC
200457472 CAGACATGTCTTACACTAGCACAACTCTTA
63 CAGACATGTCTTACACTAGCACAACTCTTA
* * * * * *
200457502 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCT-GTTGAGGCCGATGCATGTCCCA
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATATATTTG-TGCTGATGCATGTCCCA
* * *
200457565 TG-CAT-T-TTACTCTGGCACTCATCTCTGT-
65 -GACATGTCTTACACTAGCA--CAACTCT-TA
* *
200457593 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTTATTTGTGCTGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCATATATTTGTGCTGATGCATGTCCC
*
200457658 AGACATGTCTTCCACTAGCACAACTCTTA
64 AGACATGTCTTACACTAGCACAACTCTTA
200457687 GCCGATGCATGTCCCAGACACGTCTTACACTGG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGG
200457720 AGCACAAATT
Statistics
Matches: 178, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
89 10 0.06
90 1 0.01
91 32 0.18
92 41 0.23
93 42 0.24
94 40 0.22
95 4 0.02
96 8 0.04
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATATATTTGTGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACAACTCTTA
Found at i:200459247 original size:34 final size:34
Alignment explanation
Indices: 200459209--200459274 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
200459199 AATAACACGA
200459209 ATAAACCGAAAGAAAAAAGGGATTAGAATAATGG
1 ATAAACCGAAAGAAAAAAGGGATTAGAATAATGG
* *
200459243 ATAAACCTAAAGAAAAAATGGATTAGAATAAT
1 ATAAACCGAAAGAAAAAAGGGATTAGAATAAT
200459275 CTTGGACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (34 bp):
ATAAACCGAAAGAAAAAAGGGATTAGAATAATGG
Found at i:200459441 original size:17 final size:17
Alignment explanation
Indices: 200459419--200459452 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
200459409 GGAAAGAATA
200459419 AAGAATTTATGAAAATC
1 AAGAATTTATGAAAATC
200459436 AAGAATTTATGAAAATC
1 AAGAATTTATGAAAATC
200459453 GAAAGAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAGAATTTATGAAAATC
Found at i:200463276 original size:40 final size:38
Alignment explanation
Indices: 200463188--200463292 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 38
200463178 TGAATTCTCA
* * *
200463188 CACACTAAGTGCCAATATATAGCCGAAGTTATTTAATCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATTGAATCG
200463227 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTAT-T-GAATCG
* *
200463267 TACACTAAGTGCCGTACATAGCCGAA
1 CACACTAAGTGCCATACATAGCCGAA
200463293 TTGTCATCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
38 16 0.27
39 14 0.24
40 29 0.49
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (38 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATTGAATCG
Found at i:200476590 original size:30 final size:30
Alignment explanation
Indices: 200476556--200476615 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
200476546 CTTTAATACG
* *
200476556 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCACCTA
* *
200476586 AACTTTTGCATAATTACACTTTTGCACCTA
1 AACTTTGGCAAAATTACACTTTTGCACCTA
200476616 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCACCTA
Found at i:200477530 original size:18 final size:17
Alignment explanation
Indices: 200477500--200477535 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
200477490 ACAACCTTCT
*
200477500 TTTTAATTTTAATTTAC
1 TTTTAATTCTAATTTAC
200477517 TTTTAATTACTAATTTAC
1 TTTTAATT-CTAATTTAC
200477535 T
1 T
200477536 AAACTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAATTCTAATTTAC
Found at i:200478065 original size:3 final size:3
Alignment explanation
Indices: 200478057--200478103 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
200478047 CAAACGGGGT
*
200478057 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC TTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
200478104 TCTTCTCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
CTC
Found at i:200481273 original size:5 final size:5
Alignment explanation
Indices: 200481263--200481289 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
200481253 AAAATTATAC
200481263 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
200481290 TAGTTAGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:200481278 original size:29 final size:29
Alignment explanation
Indices: 200481209--200481268 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
200481199 TGAATGAATG
200481209 AATGAATAATAAGAGAAAATTATACAAAT
1 AATGAATAATAAGAGAAAATTATACAAAT
200481238 AATGAATAATAAGAGAAAATTATACAAAT
1 AATGAATAATAAGAGAAAATTATACAAAT
200481267 AA
1 AA
200481269 AATAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.10, T:0.23
Consensus pattern (29 bp):
AATGAATAATAAGAGAAAATTATACAAAT
Found at i:200497481 original size:71 final size:71
Alignment explanation
Indices: 200497397--200497560 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
200497387 CGATTTGTCT
200497397 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200497462 CTTTCA
66 CTTTCA
200497468 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200497533 CTTTCA
66 CTTTCA
200497539 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
200497561 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:200497598 original size:71 final size:70
Alignment explanation
Indices: 200497397--200497594 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
200497387 CGATTTGTCT
* * * *
200497397 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200497462 CTTTCA
65 CTTTCA
* * * *
200497468 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200497533 CTTTCA
65 CTTTCA
* *
200497539 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
200497595 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:200505437 original size:26 final size:27
Alignment explanation
Indices: 200505377--200505438 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
200505367 ATGGAGGAAG
* *
200505377 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGACTATGCCACACT
* * *
200505403 TATTATTACTGGTGGCT-TGCCACACT
1 TACTGTTACTGGTGACTATGCCACACT
200505429 TACTGTTACT
1 TACTGTTACT
200505439 AGCAGCTACG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (27 bp):
TACTGTTACTGGTGACTATGCCACACT
Found at i:200511371 original size:29 final size:28
Alignment explanation
Indices: 200511339--200511441 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
200511329 GTGACGAGAT
* *
200511339 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
200511368 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
200511397 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
200511426 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
200511442 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:200519197 original size:30 final size:29
Alignment explanation
Indices: 200519134--200519237 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
200519124 GTGACGAGAT
* * *
200519134 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
200519163 TGGCACTAAGTGTGCGAGTTTGGACTAATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
* * *
200519193 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
200519222 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
200519238 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
29 42 0.68
30 20 0.32
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:200524241 original size:40 final size:40
Alignment explanation
Indices: 200524204--200524389 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
200524194 GCTACTCGTT
*
200524204 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
200524244 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
200524284 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
200524324 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
200524365 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
200524390 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:200532270 original size:40 final size:40
Alignment explanation
Indices: 200532233--200532418 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
200532223 GCTACTCGTT
*
200532233 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
200532273 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
200532313 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
200532353 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
200532394 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
200532419 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:200540305 original size:40 final size:40
Alignment explanation
Indices: 200540268--200540453 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
200540258 GCTACTCGTT
*
200540268 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
200540308 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
200540348 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
200540388 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
200540429 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
200540454 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:200548321 original size:40 final size:40
Alignment explanation
Indices: 200548284--200548469 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
200548274 GCTACTCGTT
*
200548284 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
200548324 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
200548364 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
200548404 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
200548445 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
200548470 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:200553242 original size:16 final size:16
Alignment explanation
Indices: 200553223--200553263 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
200553213 AAGAAATTTT
*
200553223 AAAATTATAAAAAATG
1 AAAAATATAAAAAATG
*
200553239 AAAAATATAAAAAATT
1 AAAAATATAAAAAATG
*
200553255 AATAATATA
1 AAAAATATA
200553264 GAAATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAATATAAAAAATG
Found at i:200553633 original size:20 final size:19
Alignment explanation
Indices: 200553600--200553670 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
200553590 ATAAAAAAAT
200553600 ATTTTTA-T-ATTTTCATA
1 ATTTTTATTAATTTTCATA
*
200553617 GTTTTTATATAATTTTCATA
1 ATTTTTAT-TAATTTTCATA
200553637 ATTTTCTATT-ATTTTCAGTA
1 ATTTT-TATTAATTTTCA-TA
200553657 ATTTTT-TTAATTTT
1 ATTTTTATTAATTTT
200553671 TTGCAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
17 6 0.13
18 2 0.04
19 14 0.30
20 21 0.46
21 3 0.07
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTATTAATTTTCATA
Found at i:200553641 original size:19 final size:18
Alignment explanation
Indices: 200553600--200553670 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
200553590 ATAAAAAAAT
200553600 ATTTTTAT-ATTTTCATA
1 ATTTTTATAATTTTCATA
*
200553617 GTTTTTATATAATTTTCATA
1 -ATTTT-TATAATTTTCATA
*
200553637 ATTTTCTATTATTTTCAGTA
1 ATTTT-TATAATTTTCA-TA
*
200553657 ATTTTTTTAATTTT
1 ATTTTTATAATTTT
200553671 TTGCAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.09
19 24 0.55
20 16 0.36
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTATAATTTTCATA
Found at i:200553689 original size:9 final size:9
Alignment explanation
Indices: 200553600--200553689 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 9
200553590 ATAAAAAAAT
200553600 ATTTTTAT-
1 ATTTTTATA
*
200553608 ATTTTCATA
1 ATTTTTATA
*
200553617 GTTTTTATATA
1 -ATTTT-TATA
*
200553628 ATTTTCATA
1 ATTTTTATA
*
200553637 ATTTTCTATT
1 ATTTT-TATA
*
200553647 ATTTTCAGTA
1 ATTTTTA-TA
*
200553657 ATTTTTTTA
1 ATTTTTATA
200553666 ATTTTT-TGCA
1 ATTTTTAT--A
200553676 A-TTTTATA
1 ATTTTTATA
200553684 ATTTTT
1 ATTTTT
200553690 GAAAAGTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
8 10 0.16
9 25 0.40
10 24 0.39
11 3 0.05
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:200554067 original size:2 final size:2
Alignment explanation
Indices: 200554062--200554108 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
200554052 GAGATTTTTT
*
200554062 TA TA TA T- TA AA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
200554102 TA TA TA T
1 TA TA TA T
200554109 TAAGAATGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:200554088 original size:23 final size:23
Alignment explanation
Indices: 200554062--200554108 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
200554052 GAGATTTTTT
200554062 TATATATTAAATATATATATATA
1 TATATATTAAATATATATATATA
*
200554085 TATATATTATATATATATATATA
1 TATATATTAAATATATATATATA
200554108 T
1 T
200554109 TAAGAATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATATTAAATATATATATATA
Found at i:200554105 original size:17 final size:17
Alignment explanation
Indices: 200554062--200554110 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
200554052 GAGATTTTTT
*
200554062 TATATAT-TAAATA-TA
1 TATATATATATATATTA
200554077 TATATATATATATATTA
1 TATATATATATATATTA
200554094 TATATATATATATATTA
1 TATATATATATATATTA
200554111 AGAATGTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 7 0.23
16 5 0.16
17 19 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATATATATATTA
Found at i:200562212 original size:41 final size:41
Alignment explanation
Indices: 200562167--200562284 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
200562157 TGAAAGATAA
200562167 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
200562208 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
200562238 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
200562279 ATGTAG
1 ATGTAG
200562285 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:200562223 original size:71 final size:71
Alignment explanation
Indices: 200562135--200562298 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
200562125 GAGATGTATC
200562135 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
200562200 AGGACA
66 AGGACA
200562206 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
200562271 AGGACA
66 AGGACA
200562277 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
200562299 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:200569786 original size:41 final size:41
Alignment explanation
Indices: 200569741--200569858 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
200569731 TGAAAGATAA
200569741 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
200569782 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
200569812 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
200569853 ATGTAG
1 ATGTAG
200569859 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:200569797 original size:71 final size:71
Alignment explanation
Indices: 200569709--200569872 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
200569699 GAGATGTATC
200569709 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
200569774 AGGACA
66 AGGACA
200569780 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
200569845 AGGACA
66 AGGACA
200569851 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
200569873 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:200573696 original size:40 final size:40
Alignment explanation
Indices: 200573651--200573817 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
200573641 CGGAATATAA
200573651 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
200573691 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
200573731 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
200573771 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
200573810 CCGGATAT
1 CCGGATAT
200573818 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200581652 original size:40 final size:39
Alignment explanation
Indices: 200581607--200581772 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
200581597 CGGAATATAA
200581607 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
200581647 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
200581686 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
200581726 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
200581765 CCGGATAT
1 CCGGATAT
200581773 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:200581729 original size:79 final size:79
Alignment explanation
Indices: 200581623--200581772 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
200581613 ATAATCACGT
*
200581623 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
200581686 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
200581702 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
200581767 GGATAT
66 GGATAT
200581773 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:200589868 original size:20 final size:20
Alignment explanation
Indices: 200589843--200589888 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
200589833 ATTGGGTCTT
200589843 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
200589863 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
200589882 GCCCATA
1 GCCCATA
200589889 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:200589897 original size:19 final size:20
Alignment explanation
Indices: 200589855--200589898 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
200589845 CCATATTAAC
** *
200589855 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
200589875 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
200589894 ACAGT
1 ACAGT
200589899 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:200591210 original size:17 final size:17
Alignment explanation
Indices: 200591188--200591236 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
200591178 TGAGAGAAGG
200591188 ATAGAAAAGAATAAAAA
1 ATAGAAAAGAATAAAAA
*
200591205 ATAGAAGAAGGAAAAAAAA
1 ATAGAA-AA-GAATAAAAA
200591224 ATA-AAAA-AATAAA
1 ATAGAAAAGAATAAA
200591237 TCCTAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 5 0.18
17 8 0.29
18 4 0.14
19 11 0.39
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (17 bp):
ATAGAAAAGAATAAAAA
Found at i:200595864 original size:16 final size:17
Alignment explanation
Indices: 200595843--200595876 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
200595833 GTAGATTGGA
*
200595843 AATTGAAAGTG-GAATG
1 AATTGAAAATGTGAATG
200595859 AATTGAAAATGTGAATG
1 AATTGAAAATGTGAATG
200595876 A
1 A
200595877 CCTATTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (17 bp):
AATTGAAAATGTGAATG
Found at i:200598648 original size:42 final size:42
Alignment explanation
Indices: 200598543--200598705 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
200598533 CGGAAAGCTC
* * * * * *
200598543 ATACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATTAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
*
200598585 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAA
*
200598628 ATACGATGCCAATGTCCCAGACGTGGTCTTACACATAAATCATA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACAC-GAAATCA-A
* * *
200598672 AGT-CAATGCCAACT-TCCCAAACGTGTTCTTACAC
1 A-TACGATGCCAA-TGTCCCAGACGTGGTCTTACAC
200598706 AAAAACACAT
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 39 0.38
44 29 0.28
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:200601820 original size:9 final size:9
Alignment explanation
Indices: 200601806--200601853 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
200601796 TTAAATTTTA
200601806 ATTTTATAT
1 ATTTTATAT
200601815 ATTTTATA-
1 ATTTTATAT
200601823 ATTTATATAT
1 ATTT-TATAT
200601833 ATTTCTA-AT
1 ATTT-TATAT
200601842 -TTTTATAT
1 ATTTTATAT
200601850 ATTT
1 ATTT
200601854 ATTTCGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 2 0.06
8 9 0.26
9 17 0.50
10 6 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:200601826 original size:17 final size:18
Alignment explanation
Indices: 200601804--200601853 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
200601794 TCTTAAATTT
200601804 TAATTTTATATATTT-TA
1 TAATTTTATATATTTCTA
200601821 TAATTTATATATATTTCTA
1 TAATTT-TATATATTTCTA
*
200601840 -ATTTTTATATATTT
1 TAATTTTATATATTT
200601854 ATTTCGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 15 0.50
18 13 0.43
19 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTTTATATATTTCTA
Found at i:200601856 original size:21 final size:21
Alignment explanation
Indices: 200601826--200601875 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
200601816 TTTTATAATT
*
200601826 TATATATATTTCTAATTTTT-A
1 TATATTTATTTC-AATTTTTCA
*
200601847 TATATTTATTTCGATTTTTCA
1 TATATTTATTTCAATTTTTCA
*
200601868 TATTTTTA
1 TATATTTA
200601876 ATGTGTACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
TATATTTATTTCAATTTTTCA
Found at i:200605154 original size:40 final size:40
Alignment explanation
Indices: 200605019--200605171 Score: 143
Period size: 40 Copynumber: 3.9 Consensus size: 40
200605009 GTGTGCATGA
* *
200605019 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTT-A
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * *
200605058 GCTAGTAT-T-ATATCCGGGCTAAGACCCTGAAGGCATTCGT
1 GCAAAT-TGTGATATCCGGGCTAAGACCC-GAAGGCATTTGT
* * *
200605098 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
200605138 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
200605172 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
38 17 0.18
39 11 0.12
40 48 0.52
41 17 0.18
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:200610604 original size:40 final size:40
Alignment explanation
Indices: 200610518--200610621 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
200610508 GCTAGTAATT
* * *
200610518 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
* *
200610558 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
* * *
200610598 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
200610622 CTTGGTGCGG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTG
Found at i:200618625 original size:40 final size:39
Alignment explanation
Indices: 200618499--200618642 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 39
200618489 AGAAATTGAA
* *
200618499 TGATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* *
200618539 T-ATATCCGGG-TAAGACCCGAAGGCATTCGTGCAAGTTG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
200618577 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * *
200618617 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
200618643 CTTGGTGCGG
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
36 4 0.05
37 2 0.02
38 8 0.09
39 26 0.30
40 46 0.53
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:200622215 original size:28 final size:28
Alignment explanation
Indices: 200622169--200622237 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
200622159 TTTAAAACCC
*
200622169 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
200622196 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
200622224 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
200622238 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:200626146 original size:28 final size:28
Alignment explanation
Indices: 200626111--200626167 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
200626101 TAGGGGTATT
200626111 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
200626139 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
200626167 G
1 G
200626168 TGATCTACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.46
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTC
Found at i:200630084 original size:28 final size:28
Alignment explanation
Indices: 200630049--200630105 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
200630039 TAGGGGTATT
200630049 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
200630077 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
200630105 G
1 G
200630106 TGATCTACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.46
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTC
Found at i:200633057 original size:40 final size:40
Alignment explanation
Indices: 200632989--200633166 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
200632979 CCAAGGCCAA
* * * *
200632989 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
200633028 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
200633068 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
200633108 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
200633148 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
200633167 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:200641168 original size:39 final size:40
Alignment explanation
Indices: 200640990--200641172 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
200640980 CCGCACCAAG
* * * * * * * *
200640990 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
200641030 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
200641070 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
200641110 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
200641149 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
200641173 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:200642859 original size:29 final size:29
Alignment explanation
Indices: 200642827--200642921 Score: 154
Period size: 29 Copynumber: 3.3 Consensus size: 29
200642817 GGCTGTCACA
* * *
200642827 TAGTGTCATATTTTTCCAGCATGCACACT
1 TAGTGCCATATATTTCCAGCACGCACACT
*
200642856 TAGTGCCTTATATTTCCAGCACGCACACT
1 TAGTGCCATATATTTCCAGCACGCACACT
200642885 TAGTGCCATATATTTCCAGCACGCACACT
1 TAGTGCCATATATTTCCAGCACGCACACT
200642914 TAGTGCCA
1 TAGTGCCA
200642922 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
TAGTGCCATATATTTCCAGCACGCACACT
Found at i:200650633 original size:29 final size:29
Alignment explanation
Indices: 200650601--200650736 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
200650591 ATACCCTTCG
** * *
200650601 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
200650630 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
200650659 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
200650688 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
200650717 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
200650737 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:200650728 original size:58 final size:58
Alignment explanation
Indices: 200650576--200650735 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
200650566 AATTTAAGCC
* *** * * ** * *
200650576 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
200650634 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
200650692 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
200650736 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:200662045 original size:3 final size:3
Alignment explanation
Indices: 200662037--200662120 Score: 80
Period size: 3 Copynumber: 27.0 Consensus size: 3
200662027 GTAATAAAGG
* *
200662037 AAT AAT AAT CAT AAT TAT AAT AAT AAT AACT AAT AAT AA- ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT AAT
* * *
200662083 GAAT AAT AAC AGT AAT AAT AAT AAT GAAG AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
200662121 TAAAAATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.02
3 56 0.85
4 9 0.14
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:200662088 original size:47 final size:48
Alignment explanation
Indices: 200662036--200662129 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 48
200662026 AGTAATAAAG
* * *
200662036 GAATAATAATCA-TAATTATAATAAT-AATAACTAATAA-TAAATATAAT
1 GAATAATAA-CAGTAATAATAATAATGAAGAA-TAATAATTAAAAATAAT
200662083 GAATAATAACAGTAATAATAATAATGAAGAATAATAATTAAAAATAA
1 GAATAATAACAGTAATAATAATAATGAAGAATAATAATTAAAAATAA
200662130 ATAAATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 2 0.05
47 27 0.66
48 12 0.29
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (48 bp):
GAATAATAACAGTAATAATAATAATGAAGAATAATAATTAAAAATAAT
Done.