Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 163 of 290
Found at i:52715831 original size:43 final size:43
Alignment explanation
Indices: 52715751--52715939 Score: 274
Period size: 43 Copynumber: 4.4 Consensus size: 43
52715741 GATAGATCCC
* * * *
52715751 GCAGGCCTAGTGCTGGT-AT-TATATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
52715792 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCATTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
52715835 GCAGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTG
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
52715878 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
52715921 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
52715940 AATGATATGT
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.02
43 115 0.87
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:52716323 original size:45 final size:45
Alignment explanation
Indices: 52716256--52716363 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
52716246 TTGACTTGAT
** * *
52716256 TATTCGGGCCTTTAAGCTTAGCAAACTATAATGCCGGTGAGA-TAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA-ACTAA
**
52716301 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAACTAA
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAACTAA
52716346 TA-TCGGGCC-TCGAGCCTA
1 TATTCGGGCCTTCGAGCCTA
52716364 ACAGGTGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 9 0.16
44 8 0.14
45 39 0.70
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAACTAA
Found at i:52729726 original size:49 final size:52
Alignment explanation
Indices: 52729667--52729770 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 52
52729657 CACATGCCCA
52729667 CTGACCGATCTCGCACACATA-TGCTC-GTTAAAGAATTCG-CACACAGTGC
1 CTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGACACACAGTGC
52729716 CTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGTACACACAGTGC
1 CTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCG-ACACACAGTGC
52729769 CT
1 CT
52729771 CAATTCATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
49 21 0.41
50 5 0.10
51 13 0.25
53 12 0.24
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (52 bp):
CTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGACACACAGTGC
Found at i:52730008 original size:42 final size:43
Alignment explanation
Indices: 52729924--52730065 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
52729914 CTTTGCTCGA
** * *
52729924 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCAAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
52729967 ATCACCGGCACGAAGCCTG-TAGGAACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * * ** *
52730009 ATCACCAGCACAAAGCCTGCTAGGCATGAAGGCATGATTACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
52730052 ATCACCGGCACGAA
1 ATCACCGGCACGAA
52730066 TGCCCTTCAG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 37 0.44
43 47 0.56
ACGTcount: A:0.35, C:0.31, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:52730119 original size:40 final size:40
Alignment explanation
Indices: 52730054--52730174 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
52730044 GATTACACAT
* * * *
52730054 CACCGGCACGAATGCCCTTCAGGACTTAGCCCATATGTAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCAGATATAA
* *
52730094 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCAGATATAA
*
52730134 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCAGGACTTAGCCCAGATATAA
52730174 C
1 C
52730175 TCTCAATTCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCAGGACTTAGCCCAGATATAA
Found at i:52737850 original size:40 final size:40
Alignment explanation
Indices: 52737795--52738011 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
52737785 CGGATGATAA
* *
52737795 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
52737835 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52737875 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52737915 CCGGGCTAGGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52737954 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
52737994 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52738012 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
39 54 0.33
40 109 0.66
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52737963 original size:79 final size:80
Alignment explanation
Indices: 52737791--52738011 Score: 333
Period size: 79 Copynumber: 2.8 Consensus size: 80
52737781 TATCCGGATG
* *
52737791 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
52737855 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
52737871 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
52737935 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
52737950 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
52738012 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
78 8 0.06
79 71 0.55
80 48 0.38
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:52746828 original size:27 final size:27
Alignment explanation
Indices: 52746805--52746867 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
52746795 CGAGGGTGTC
52746805 TCGGTAATTCTACCCTAAAGGGGTATT
1 TCGGTAATTCTACCCTAAAGGGGTATT
* * *
52746832 TCAGTAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTAAAGGGGTATT
52746859 TCGGTAATT
1 TCGGTAATT
52746868 TTACAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (27 bp):
TCGGTAATTCTACCCTAAAGGGGTATT
Found at i:52746943 original size:27 final size:26
Alignment explanation
Indices: 52746852--52746946 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
52746842 TACCTTACAG
* * *
52746852 GGGTATTTCGGTAATTTTACAAAT-TA
1 GGGTATTTTGGTAATTTT-CTAATCCA
* *
52746878 GGGGTATTTTGGTAATTTTATAAACCA
1 -GGGTATTTTGGTAATTTTCTAATCCA
*
52746905 --GTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTT-CTAATCCA
52746930 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
52746947 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 16 0.29
25 5 0.09
26 2 0.04
27 33 0.59
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCTAATCCA
Found at i:52747869 original size:23 final size:23
Alignment explanation
Indices: 52747843--52747918 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
52747833 CAGCTCATTG
52747843 GAGCTTACCATTTCAACTCG-TA
1 GAGCTTACCATTTCAACTCGATA
*
52747865 TGAGCTTA-C-TGTTCAGCTCGATA
1 -GAGCTTACCAT-TTCAACTCGATA
**
52747888 GAGCTTACCATTTCAACTTAATA
1 GAGCTTACCATTTCAACTCGATA
52747911 GAGCTTAC
1 GAGCTTAC
52747919 TATTCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.36
23 27 0.60
24 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
GAGCTTACCATTTCAACTCGATA
Found at i:52747884 original size:22 final size:23
Alignment explanation
Indices: 52747818--52747895 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 23
52747808 GTGTTACATA
*
52747818 AGAGCTTACTGTTTTCAGCTCAT-T
1 AGAGCTTACTG--TTCAGCTCGTAT
* *
52747842 GGAGCTTACCAT-TTCAACTCGTAT
1 AGAGCTTA-C-TGTTCAGCTCGTAT
52747866 -GAGCTTACTGTTCAGCTCG-AT
1 AGAGCTTACTGTTCAGCTCGTAT
52747887 AGAGCTTAC
1 AGAGCTTAC
52747896 CATTTCAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
21 3 0.07
22 17 0.38
23 15 0.33
24 8 0.18
25 1 0.02
26 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTCAGCTCGTAT
Found at i:52747915 original size:45 final size:45
Alignment explanation
Indices: 52747818--52747924 Score: 130
Period size: 45 Copynumber: 2.3 Consensus size: 45
52747808 GTGTTACATA
*
52747818 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATTTCAACTCGTAT
1 AGAGCTTACTG--TTCAGCTCATTAGAGCTTACCATTTCAACTC-TAT
52747866 -GAGCTTACTGTTCAGCTCGA-TAGAGCTTACCATTTCAACT-TAAT
1 AGAGCTTACTGTTCAGCTC-ATTAGAGCTTACCATTTCAACTCT-AT
*
52747910 AGAGCTTACTATTCA
1 AGAGCTTACTGTTCA
52747925 TTAGCTCAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
43 1 0.02
44 2 0.04
45 40 0.74
46 1 0.02
47 10 0.19
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTGTTCAGCTCATTAGAGCTTACCATTTCAACTCTAT
Found at i:52748183 original size:20 final size:19
Alignment explanation
Indices: 52748140--52748184 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
52748130 TGCTATTACT
52748140 AATGAACTACTATTATAGG
1 AATGAACTACTATTATAGG
* * *
52748159 GATGAACTACTGGTTATATG
1 AATGAACTACT-ATTATAGG
52748179 AATGAA
1 AATGAA
52748185 TTACAGTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (19 bp):
AATGAACTACTATTATAGG
Found at i:52750773 original size:27 final size:27
Alignment explanation
Indices: 52750675--52750756 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
52750665 AAAAGCGTAT
* *
52750675 GAAAAAGAA--AAAGAAATAGAAAAATA
1 GAAAAAGAATGAAAGAAA-ACAAAAAGA
*
52750701 AAAAAAGAATGAAAGAAAACAAAAAGA
1 GAAAAAGAATGAAAGAAAACAAAAAGA
* * *
52750728 GAAAAAGAGTGAGAGAAAACAAAATGA
1 GAAAAAGAATGAAAGAAAACAAAAAGA
52750755 GA
1 GA
52750757 TTAAGATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 8 0.17
27 32 0.68
28 7 0.15
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (27 bp):
GAAAAAGAATGAAAGAAAACAAAAAGA
Found at i:52754580 original size:23 final size:23
Alignment explanation
Indices: 52754545--52754588 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
52754535 AAAAAATAAT
*
52754545 AAAAATAATAAAAG-AAGGAACG
1 AAAAATAAGAAAAGAAAGGAACG
52754567 AAAAATAAAGAAAAGAAAGGAA
1 AAAAAT-AAGAAAAGAAAGGAA
52754589 ATATCTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 7 0.37
24 6 0.32
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAAATAAGAAAAGAAAGGAACG
Found at i:52756706 original size:37 final size:37
Alignment explanation
Indices: 52756665--52756777 Score: 103
Period size: 35 Copynumber: 3.2 Consensus size: 37
52756655 TGGTATGTGT
52756665 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
* ** * *
52756702 TATTGG-TTG-AATGTTTGATGGTG--TGAT-TTA-TCA
1 TATTGGAATGTCGTGATTGA-GGTGCCT-ATGTTAGGCA
* *
52756735 TACTGGAATGTCGTGATTGAGGTGCCTACGTTAGGCA
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
52756772 TATTGG
1 TATTGG
52756778 TTGAATGTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
33 7 0.13
34 10 0.18
35 15 0.27
36 10 0.18
37 13 0.24
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (37 bp):
TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
Found at i:52756781 original size:70 final size:70
Alignment explanation
Indices: 52756668--52756808 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
52756658 TATGTGTTAT
*
52756668 TGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATTTAT
1 TGGAATGTCGTGATTGAGGTGCCTACGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATTTAT
52756733 CATAC
66 CATAC
*
52756738 TGGAATGTCGTGATTGAGGTGCCTACGTTAGGCATATTGGTTGAATGTTTGATTGTGTGATTTAT
1 TGGAATGTCGTGATTGAGGTGCCTACGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATTTAT
52756803 CATAC
66 CATAC
52756808 T
1 T
52756809 TCGAATAATA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.40
Consensus pattern (70 bp):
TGGAATGTCGTGATTGAGGTGCCTACGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATTTAT
CATAC
Found at i:52764444 original size:35 final size:35
Alignment explanation
Indices: 52764393--52764460 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
52764383 AATTGGTTAA
* *
52764393 CAACTATCATGTCCTACCAGTGGTCTA-ACATATAG
1 CAACTAGCATGCCCTACCAGTGGTC-ACACATATAG
*
52764428 CAACTAGCATGCCCTACCTGTGGTCACACATAT
1 CAACTAGCATGCCCTACCAGTGGTCACACATAT
52764461 CTATCATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (35 bp):
CAACTAGCATGCCCTACCAGTGGTCACACATATAG
Found at i:52765527 original size:27 final size:27
Alignment explanation
Indices: 52765497--52765695 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
52765487 TACTGAAATG
*
52765497 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
52765524 CCCTCTATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
52765551 CCGTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
52765578 CCATTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
52765605 CCCTTGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
52765632 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
52765659 CCCT-TATTTTACAAAATTATCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
52765686 CCCTCGATTT
1 CCCTCGATTT
52765696 TGAAATTACT
Statistics
Matches: 148, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:52765799 original size:27 final size:27
Alignment explanation
Indices: 52765698--52765812 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
52765688 CTCGATTTTG
* **
52765698 AAATTACTAAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTGGTTTG-TA
* *
52765725 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
52765752 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52765779 AAATTACCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
52765806 AAATTAC
1 AAATTAC
52765813 TGAAATATAC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 75 0.96
28 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52765824 original size:37 final size:37
Alignment explanation
Indices: 52765779--52765857 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
52765769 CTGGTTTGTA
52765779 AAAT-TACCGAAATACCACTGGTTTGTGAAATTACTG
1 AAATATACCGAAATACCACTGGTTTGTGAAATTACTG
52765815 AAATATACCGAAATACCACTGGTTTGTGAAATTACTG
1 AAATATACCGAAATACCACTGGTTTGTGAAATTACTG
52765852 AAATAT
1 AAATAT
52765858 CCTCAATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 4 0.10
37 38 0.90
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
AAATATACCGAAATACCACTGGTTTGTGAAATTACTG
Found at i:52765868 original size:64 final size:63
Alignment explanation
Indices: 52765752--52765875 Score: 151
Period size: 64 Copynumber: 2.0 Consensus size: 63
52765742 CTAGTTTGTA
* ** *
52765752 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACTG
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCACTAATTTGTAAAATTACTG
* * * *
52765815 AAATATACCGAAATACCACTGGTTTGTGAAATTACTGAAATATC-CTCAATTTGTAAAATTA
1 AAAT-TACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCACT-AATTTGTAAAATTA
52765876 TCAAAATACC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
63 6 0.12
64 45 0.88
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (63 bp):
AAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCACTAATTTGTAAAATTACTG
Found at i:52765964 original size:27 final size:27
Alignment explanation
Indices: 52765815--52765976 Score: 96
Period size: 27 Copynumber: 5.9 Consensus size: 27
52765805 GAAATTACTG
* * *
52765815 AAATATACCGAAATACCAC-TGGTTTGTG
1 AAAT-TACTGAAATACC-CTTGGTTTATA
* *** *
52765843 AAATTACTGAAATATCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGGTTTATA
* * ** *
52765870 AAATTA-TCAAAATACCCCTAATTTACA
1 AAATTACT-GAAATACCCTTGGTTTATA
* * *
52765897 AAATTACAGAAATACCCTTGACTTTCTAA
1 AAATTACTGAAATACCCTTG-GTTTAT-A
*
52765926 AAATTA-TAGAAATACCATTGGTTTATA
1 AAATTACT-GAAATACCCTTGGTTTATA
52765953 AAATTACTGAAATACCCTTGGTTT
1 AAATTACTGAAATACCCTTGGTTT
52765977 GTAGATTTAC
Statistics
Matches: 103, Mismatches: 24, Indels: 15
0.73 0.17 0.11
Matches are distributed among these distances:
26 2 0.02
27 71 0.69
28 12 0.12
29 18 0.17
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGGTTTATA
Found at i:52766072 original size:27 final size:27
Alignment explanation
Indices: 52765993--52766094 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
52765983 TTACCAAAAC
* * * **
52765993 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACTGTAAT
* * *
52766020 ACCCCTAATA-GGTAAAAAGACCGTAA-
1 ACCCCT-GTAGGGTAAAATGACTGTAAT
*
52766046 AGCCCCTGTAGGGTAAAGTGACTGTAAT
1 A-CCCCTGTAGGGTAAAATGACTGTAAT
* *
52766074 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
52766095 GAATATGCCC
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACTGTAAT
Found at i:52766937 original size:25 final size:25
Alignment explanation
Indices: 52766904--52766973 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
52766894 AGGAAGTGCT
*
52766904 AAAAGGGCTCTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
52766929 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
52766954 GAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52766974 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:52767168 original size:42 final size:42
Alignment explanation
Indices: 52767121--52767338 Score: 382
Period size: 42 Copynumber: 5.2 Consensus size: 42
52767111 TAGTCTCCCC
52767121 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
52767163 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* * *
52767205 AAATGGACTTGCATACATCCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
52767247 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* * *
52767289 AAATGGACTTGCATACATCCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
52767331 AAATGGGC
1 AAATGGGC
52767339 CTAAGGGCCA
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 166 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:52767397 original size:31 final size:31
Alignment explanation
Indices: 52767362--52767445 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
52767352 CGTTTACAGT
52767362 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
52767393 AAAGGCTTCGGCCCAGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
52767424 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
52767446 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:52770513 original size:15 final size:16
Alignment explanation
Indices: 52770475--52770515 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
52770465 TGATTTTTGG
52770475 ATTAAA-TTGAATAGA
1 ATTAAATTTGAATAGA
52770490 ATTAAATTTGAAT-GA
1 ATTAAATTTGAATAGA
*
52770505 GTTAAATTTGA
1 ATTAAATTTGA
52770516 TTATATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
ATTAAATTTGAATAGA
Found at i:52778693 original size:22 final size:19
Alignment explanation
Indices: 52778668--52778709 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
52778658 TGATAATAAC
52778668 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
52778690 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
52778709 T
1 T
52778710 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:52778700 original size:16 final size:15
Alignment explanation
Indices: 52778668--52778706 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
52778658 TGATAATAAC
52778668 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
52778684 TTATTATAATATATAT
1 TAATTATAAT-TATAT
52778700 TAATTAT
1 TAATTAT
52778707 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:52787089 original size:47 final size:47
Alignment explanation
Indices: 52787023--52787403 Score: 606
Period size: 47 Copynumber: 8.1 Consensus size: 47
52787013 GAAATGATAG
*
52787023 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52787070 TAAGGCCTAATGGCCGATGTGAT-AATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52787116 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52787163 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
52787212 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
52787260 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52787306 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
52787353 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52787400 TAAG
1 TAAG
52787404 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
46 58 0.18
47 168 0.53
48 82 0.26
49 11 0.03
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:52787297 original size:143 final size:141
Alignment explanation
Indices: 52787023--52787401 Score: 597
Period size: 143 Copynumber: 2.7 Consensus size: 141
52787013 GAAATGATAG
*
52787023 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
*
52787088 GTGAT-AATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 GTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAG
52787150 TGTATATACGTGA
129 TGTATATACGTGA
52787163 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGCCTAATGGCCGA
52787228 TGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 TGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
52787293 TGTATATATGTGA
129 TGTATATACGTGA
* * * * *
52787306 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA-GGCCTAATGGCCGAT
*
52787371 GTGATGGATGTGAAAGTGTATA-A-ATGTGATA
65 GTGATGAATGTGAAAGTGTATATATATGTGATA
52787402 AGTCCCGAAG
Statistics
Matches: 224, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
140 44 0.20
141 34 0.15
142 55 0.25
143 80 0.36
144 11 0.05
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATACGTGA
Found at i:52787346 original size:190 final size:186
Alignment explanation
Indices: 52787025--52787401 Score: 612
Period size: 190 Copynumber: 2.0 Consensus size: 186
52787015 AATGATAGTA
52787025 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGT
52787090 GATAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GATAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
52787155 ATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
131 ATACGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGAT
*
52787213 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGAT
*
52787277 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64 GTGAT-AATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
52787342 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGAT
128 TATATACGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAT
52787401 A
1 A
52787402 AGTCCCGAAG
Statistics
Matches: 176, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
188 42 0.24
189 22 0.12
190 112 0.64
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (186 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGT
GATAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATACGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAT
Found at i:52787577 original size:37 final size:37
Alignment explanation
Indices: 52787521--52787599 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52787511 CCGAGCTCTA
* * *
52787521 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52787558 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52787595 AAGAC
1 AAGAC
52787600 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52790975 original size:47 final size:47
Alignment explanation
Indices: 52790921--52791510 Score: 1000
Period size: 47 Copynumber: 12.5 Consensus size: 47
52790911 TATTTGAATA
*
52790921 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52790968 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52791017 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52791064 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52791111 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52791158 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52791205 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52791252 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52791299 AATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
52791346 AATGTGAAAGTGCATATATGTGATAAGGCCTAATGCCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52791393 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
52791440 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52791487 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
52791511 GAGTCCCGAA
Statistics
Matches: 513, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 468 0.91
49 45 0.09
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:52796905 original size:27 final size:27
Alignment explanation
Indices: 52796843--52796905 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
52796833 TGTCAAAAAA
52796843 TGTAATGT-AATTATAAAATAATTAAAT
1 TGTAAT-TAAATTATAAAATAATTAAAT
* *
52796870 TGTACTTAAATTATTAAAAT-ATTGAAT
1 TGTAATTAAATTA-TAAAATAATTAAAT
*
52796897 TTTAATTAA
1 TGTAATTAA
52796906 TTTTATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.77
28 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (27 bp):
TGTAATTAAATTATAAAATAATTAAAT
Found at i:52808386 original size:23 final size:24
Alignment explanation
Indices: 52808360--52808405 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
52808350 TATTTTCTTT
52808360 ATATAATCTAT-TTATTA-TAAAAA
1 ATATAAT-TATATTATTACTAAAAA
*
52808383 ATATACTTATATTATTACTAAAA
1 ATATAATTATATTATTACTAAAA
52808406 TACCATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAATTATATTATTACTAAAAA
Found at i:52812661 original size:24 final size:24
Alignment explanation
Indices: 52812634--52812690 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
52812624 AAGGTTTGAG
*
52812634 CAGTTGCAAAAGGATATGTAAGAC
1 CAGTTGCAAAAGGATATGCAAGAC
52812658 CAGTTGCAAAAGGATATGCAAGAC
1 CAGTTGCAAAAGGATATGCAAGAC
*
52812682 CAATTGCAA
1 CAGTTGCAA
52812691 GAGCAATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (24 bp):
CAGTTGCAAAAGGATATGCAAGAC
Found at i:52821093 original size:22 final size:22
Alignment explanation
Indices: 52821065--52821109 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
52821055 CTCTAGTGTG
52821065 TTTAAATAGGCTTTAGAATGCC
1 TTTAAATAGGCTTTAGAATGCC
52821087 TTTAAATAGGCTTTAGAATGCC
1 TTTAAATAGGCTTTAGAATGCC
52821109 T
1 T
52821110 AAAAGCCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (22 bp):
TTTAAATAGGCTTTAGAATGCC
Found at i:52825099 original size:46 final size:46
Alignment explanation
Indices: 52824927--52825248 Score: 194
Period size: 46 Copynumber: 6.8 Consensus size: 46
52824917 CACATTATTA
* *
52824927 GAGCCAGTGTACGACCATGTCTAGGACATGGCATCGGC-ATTGAGACAA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-TGAG--AT
* * * * * *
52824975 AAGCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCTCATAAGGT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT-ATGAGAT
* *
52825021 AAGCCAGTATAAGA-CATGTC-ACGGACAT-GCATCGGCTATGAGAT
1 GAGCCAGTGTAAGACCATGTCTA-GGACATGGCATCGGCTATGAGAT
* * * * *
52825065 GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCAGC-ACAGATAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-TGAGAT
* * * * ** * *
52825111 GCCAGAGCTAGTGTAAAACCAAGTCTGGGACATGGTGTCGGTCTCGATAACAAT
1 ----GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT--ATGA-GAT
* *
52825165 -AGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-TGAGACAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAG--AT
*
52825211 GAGCCAGTGTAAGACCATGTCTAGGACATGACATCGGC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
52825249 ATCATACCCT
Statistics
Matches: 208, Mismatches: 46, Indels: 41
0.71 0.16 0.14
Matches are distributed among these distances:
44 15 0.07
45 17 0.08
46 51 0.25
47 47 0.23
48 16 0.08
49 29 0.14
50 28 0.13
51 1 0.00
53 1 0.00
54 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGAT
Found at i:52831151 original size:79 final size:81
Alignment explanation
Indices: 52831015--52831199 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52831005 TTGAATGATG
* *
52831015 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
52831079 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
52831094 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
52831156 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
52831174 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52831200 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:52831213 original size:40 final size:40
Alignment explanation
Indices: 52831016--52831199 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
52831006 TGAATGATGT
* * * *
52831016 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
52831056 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
52831096 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
52831134 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52831175 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52831200 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:52831221 original size:79 final size:79
Alignment explanation
Indices: 52831068--52831232 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
52831058 GGACTAAGAT
* * **
52831068 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
52831133 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
52831147 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
52831210 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
52831226 CCGAAGG
1 CCGAAGG
52831233 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:52855718 original size:36 final size:36
Alignment explanation
Indices: 52855614--52855718 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
52855604 AGCTCAGACG
* * *
52855614 AAATCTCCACACGAAGTTATCGGGTCTTACCCAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGACA
* *
52855650 AAATCTCCAGACGTAGTCATCGGGTCTTACCCGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGACA
*
52855686 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
52855719 GAATATATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGACA
Found at i:52856022 original size:47 final size:46
Alignment explanation
Indices: 52855924--52856156 Score: 291
Period size: 47 Copynumber: 5.1 Consensus size: 46
52855914 CATACATATT
*
52855924 TCACATT-GCCATTC-GCTTACCACA-ATATG-ATGTTCA-ATTCA
1 TCACATTGGCCATTCGGCTTTCCACATATATGCATGTTCACATTCA
* * *
52855965 TTA-ATTGGCCATTCGGCTTTACCACATATATGTATGTTCATATTCA
1 TCACATTGGCCATTCGGCTTT-CCACATATATGCATGTTCACATTCA
*
52856011 TCACATTGGCCATTCGGCCTTTTCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTTCCACATATATGCATGTTCACATTCA
*
52856058 TCACATTGGCCATTCGGCCTTTTCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTTCCACATATATGCATGTTCACATTCA
* * **
52856105 TCACATTGGCCATTCGGCTTAT-CTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCTT-TCCACATATATGCATGTTCACATTCA
52856151 TCACAT
1 TCACAT
52856157 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
40 3 0.02
41 9 0.05
42 4 0.02
43 5 0.03
44 5 0.03
45 7 0.04
46 36 0.21
47 100 0.58
48 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCTTTCCACATATATGCATGTTCACATTCA
Found at i:52856086 original size:94 final size:93
Alignment explanation
Indices: 52855880--52856156 Score: 309
Period size: 94 Copynumber: 3.0 Consensus size: 93
52855870 TTTCACACTA
* * *
52855880 GCCATTCGGCTTTACCACATATACATACATATCTCATACATAT-TTCACATT-GCCATTC-GCTT
1 GCCATTCGGCTTTACCACATAT--ATGCATGT-TC--ACAT-TCATCACATTGGCCATTCGGCTT
* *
52855942 ACCACA-ATATG-ATGTTCA-ATTCATTA-ATTG
60 ATCACATATATGCATGTTCACATTCATCACATTG
* * *
52855972 GCCATTCGGCTTTACCACATATATGTATGTTCATATTCATCACATTGGCCATTCGGCCTTTTCAC
1 GCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG-CTTATCAC
52856037 ATATATGCATGTTCACATTCATCACATTG
65 ATATATGCATGTTCACATTCATCACATTG
* *
52856066 GCCATTCGGCCTTT-TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCTTATCTC
1 GCCATTCGG-CTTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCTTATCAC
* **
52856130 ATATATACACATTCACATTCATCACAT
65 ATATATGCATGTTCACATTCATCACAT
52856157 AAAATCCTAA
Statistics
Matches: 160, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
86 1 0.01
87 10 0.06
88 7 0.04
89 3 0.02
90 12 0.08
91 5 0.03
92 29 0.18
93 37 0.23
94 52 0.32
95 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.36
Consensus pattern (93 bp):
GCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCTTATCACA
TATATGCATGTTCACATTCATCACATTG
Found at i:52860521 original size:39 final size:40
Alignment explanation
Indices: 52860446--52860754 Score: 482
Period size: 40 Copynumber: 7.8 Consensus size: 40
52860436 CCAGCATGAT
* *
52860446 TGCTCTTCGGGACCTAGCCCGGATATAACA-TCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT-AGCACGAA
* *
52860486 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
52860525 TGCTCTTC-GAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
52860564 TGCTCTTC-GGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
52860603 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
52860643 TGCTCTTGGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
52860683 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
52860723 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
52860755 CTCAATTCTC
Statistics
Matches: 252, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.00
39 100 0.40
40 151 0.60
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:52862111 original size:37 final size:37
Alignment explanation
Indices: 52862026--52862136 Score: 154
Period size: 37 Copynumber: 3.0 Consensus size: 37
52862016 GCTCAGACGA
* * * *
52862026 AATCTCCACACGAAGTTATCGGGTCTTACCC--ACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
*
52862061 AATCTCCAGACGTAGTCATCGGGTCTTACCCGGATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
52862098 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGG-ATAT
52862136 A
1 A
52862137 TTTCCAAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
35 28 0.42
37 34 0.51
38 5 0.07
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
Found at i:52862429 original size:47 final size:47
Alignment explanation
Indices: 52862338--52862574 Score: 333
Period size: 47 Copynumber: 5.1 Consensus size: 47
52862328 CATACATATT
*
52862338 TCACATT-GCCATTCGGC-TTATCAC--ATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCA
* * *
52862381 TCACATTGGCCATTCGGCTTTACCACATATATGTATGTTCATATTCA
1 TCACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCA
52862428 TCACATTGGCCATTCGGCCTTT-TCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTTATCACATATATGCATGTTCACATTCA
52862475 TCACATTGGCCATTCGGCCTTT-TCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTTATCACATATATGCATGTTCACATTCA
* * * **
52862522 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCA
52862569 TCACAT
1 TCACAT
52862575 AAAATCCTAA
Statistics
Matches: 176, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
43 7 0.04
44 10 0.06
45 6 0.03
46 3 0.02
47 146 0.83
48 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCA
Found at i:52871469 original size:67 final size:64
Alignment explanation
Indices: 52871332--52871514 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
52871322 TATAGTTCGA
* * * * * * *
52871332 CTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCTATGTGACCTAGCCA-ATTTATCTCGTA
1 CTCTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCGTA
52871394 G
64 G
* * *
52871395 CTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCGT
1 CTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGT
52871460 AG
63 AG
* *
52871462 CTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 CTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
52871515 CATAATGTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.17
64 29 0.29
66 22 0.22
67 31 0.31
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (64 bp):
CTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAG
Found at i:52872275 original size:30 final size:30
Alignment explanation
Indices: 52872241--52872301 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52872231 TCCTTAACTC
52872241 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
52872271 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
52872301 A
1 A
52872302 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:52879879 original size:27 final size:27
Alignment explanation
Indices: 52879824--52879884 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
52879814 ACGGAATAGA
* *
52879824 GTAAGTCCGCCAGGATAATAAACATGG
1 GTAAGTCCGCCAGGACAATAAACACGG
* * *
52879851 GTTAGTCCGCCAGGACAGTATACACGG
1 GTAAGTCCGCCAGGACAATAAACACGG
52879878 GTAAGTC
1 GTAAGTC
52879885 TGAAGGGATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (27 bp):
GTAAGTCCGCCAGGACAATAAACACGG
Found at i:52881585 original size:20 final size:20
Alignment explanation
Indices: 52881560--52881601 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
52881550 GTCGTTCTAA
52881560 GCACCAGCAGCTCCTTTATT
1 GCACCAGCAGCTCCTTTATT
52881580 GCACCAGCAGCTCCTTTATT
1 GCACCAGCAGCTCCTTTATT
52881600 GC
1 GC
52881602 TGCTCTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.29
Consensus pattern (20 bp):
GCACCAGCAGCTCCTTTATT
Found at i:52893157 original size:16 final size:17
Alignment explanation
Indices: 52893131--52893166 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
52893121 AAGCAGTCAA
52893131 TTGTGGTATGATAAATG
1 TTGTGGTATGATAAATG
*
52893148 TTGT-GTATGATAGATG
1 TTGTGGTATGATAAATG
52893164 TTG
1 TTG
52893167 ATATTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TTGTGGTATGATAAATG
Found at i:52896027 original size:45 final size:44
Alignment explanation
Indices: 52895929--52896104 Score: 207
Period size: 45 Copynumber: 4.0 Consensus size: 44
52895919 CGAATTCATC
* * * *
52895929 CACCGGCA-TATTGCCTGCTAGGCTCAAAGCCTG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGT-ATCT
52895971 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAGTATCT
*
52896016 CACCGGCATTATAGCCTGCTAAGCTCAAGGGCCC-AATTAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAA-GGCCCGAA-TAGTATCT
* * *
52896061 CATCGGCATTATAGCCTGCTAGCCTCAAAGGCCCGATTAGTATC
1 CACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAGTATC
52896105 GTACGATATT
Statistics
Matches: 117, Mismatches: 9, Indels: 13
0.84 0.06 0.09
Matches are distributed among these distances:
42 8 0.07
43 16 0.14
44 10 0.09
45 79 0.68
46 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (44 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCT
Found at i:52900437 original size:50 final size:46
Alignment explanation
Indices: 52900314--52900484 Score: 143
Period size: 47 Copynumber: 3.6 Consensus size: 46
52900304 GTATAATGCT
* **
52900314 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTTAAGTC
1 GATGCCATGT-CCAAACATGGTCTTACACTAACTCTCACGTTAAGTC
* * **
52900361 GATTCCATGTCCTAAACACGGTCTTACACTAACTCTCACGTATCTGTGCC
1 GATGCCATGTCC-AAACATGGTCTTACACTAACTCTCACGT-TAAGT--C
* * * *
52900411 GATGCCATATCTCAAACATGGTCTTACACTAACACATCATG-T-AGCC
1 GATGCCATGTC-CAAACATGGTCTTACACTAACTC-TCACGTTAAGTC
52900457 GATG-CATGTCCCAAACAT-GTCTTACACT
1 GATGCCATGT-CCAAACATGGTCTTACACT
52900485 GGCTTACATC
Statistics
Matches: 102, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
44 10 0.10
45 11 0.11
46 8 0.08
47 33 0.32
48 4 0.04
49 1 0.01
50 30 0.29
51 5 0.05
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCAAACATGGTCTTACACTAACTCTCACGTTAAGTC
Found at i:52900494 original size:46 final size:44
Alignment explanation
Indices: 52900408--52900531 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 44
52900398 ACGTATCTGT
* *
52900408 GCCGATGCCATATCTCAAACATGGTCTTACACTAACACATCAT-GTA-
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAACACATC-TCG-AG
**
52900454 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAAC--ACATCTCGAG
52900500 GCCGATGCATGTCCCAGAA-ATGTCTTACACTA
1 GCCGATGCATGTCCCA-AACATGTCTTACACTA
52900532 GCTCTCGTCT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 11 0.16
45 14 0.21
46 41 0.60
47 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAACACATCTCGAG
Found at i:52910046 original size:23 final size:23
Alignment explanation
Indices: 52910002--52910046 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52909992 TTATATTAAA
**
52910002 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
52910025 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
52910047 TTAGTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:52914051 original size:14 final size:14
Alignment explanation
Indices: 52914032--52914062 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52914022 TGCTACCATT
52914032 TTACTATTATGTTG
1 TTACTATTATGTTG
*
52914046 TTACTATTTTGTTG
1 TTACTATTATGTTG
52914060 TTA
1 TTA
52914063 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:52914144 original size:29 final size:30
Alignment explanation
Indices: 52914093--52914153 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
52914083 ACTTATTTTA
52914093 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
52914123 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
52914152 TT
1 TT
52914154 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:52914258 original size:18 final size:18
Alignment explanation
Indices: 52914237--52914281 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
52914227 GAAATATTTA
52914237 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTTTAGTAT
52914255 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTTTAGTAT
52914273 TTTTGATGT
1 TTTTGATGT
52914282 ATTATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTTTAGTAT
Found at i:52914716 original size:8 final size:8
Alignment explanation
Indices: 52914703--52914729 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
52914693 AATGTTTTTA
52914703 TATGATTT
1 TATGATTT
52914711 TATGATTT
1 TATGATTT
52914719 TATGATTT
1 TATGATTT
52914727 TAT
1 TAT
52914730 TTACAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (8 bp):
TATGATTT
Found at i:52916681 original size:52 final size:52
Alignment explanation
Indices: 52916603--52916707 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
52916593 GAAAAGGAAA
* *
52916603 GGGCGCCCAGCTGGACGTGCTTTCCCTCAACATTCAAATGACTGTTGGCCAT
1 GGGCGCCAAGCTGGACGTGCTTTCCCTCAACATTCAAATGACCGTTGGCCAT
*
52916655 GGGCGCCAAGCTGGACGTGCTTTCCCTCAACGTTCAAATGACCGTTGGCCAT
1 GGGCGCCAAGCTGGACGTGCTTTCCCTCAACATTCAAATGACCGTTGGCCAT
52916707 G
1 G
52916708 CAACGATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (52 bp):
GGGCGCCAAGCTGGACGTGCTTTCCCTCAACATTCAAATGACCGTTGGCCAT
Found at i:52925816 original size:16 final size:15
Alignment explanation
Indices: 52925790--52925828 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
52925780 CCAAATTCGA
*
52925790 TATTTTT-ATATTATT
1 TATTTTTAATA-TAAT
52925805 TATTTTTAATATAAT
1 TATTTTTAATATAAT
52925820 TATTTTTAA
1 TATTTTTAA
52925829 ATTTGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTAATATAAT
Found at i:52934241 original size:29 final size:28
Alignment explanation
Indices: 52934170--52934243 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 28
52934160 TAAAAAGTTT
*
52934170 TGGGGAGTAAAAGTTTGAGGTAAAGTAAA
1 TGGGGAGT-AAATTTTGAGGTAAAGTAAA
52934199 TAGATGGGAG--AATTTTGAGGTAAAGTAAA
1 T-G--GGGAGTAAATTTTGAGGTAAAGTAAA
52934228 TGGGAGAGTAAATTTT
1 TGGG-GAGTAAATTTT
52934244 TGGTGGGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 1 0.03
29 26 0.68
30 1 0.03
32 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.28
Consensus pattern (28 bp):
TGGGGAGTAAATTTTGAGGTAAAGTAAA
Found at i:52934347 original size:29 final size:29
Alignment explanation
Indices: 52934290--52934348 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
52934280 GATAGGAGGG
* * *
52934290 GAGTAAAAGTTTTGGGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTGGGGAAAAATGAGAAA
52934319 GAGTAAAAGTTTTGAGGGAAAAAT-AGAAA
1 GAGTAAAAGTTTTG-GGGAAAAATGAGAAA
52934348 G
1 G
52934349 GTTTGAGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (29 bp):
GAGTAAAAGTTTTGGGGAAAAATGAGAAA
Found at i:52938724 original size:86 final size:86
Alignment explanation
Indices: 52938579--52938744 Score: 262
Period size: 86 Copynumber: 1.9 Consensus size: 86
52938569 ACAAAAAACG
*
52938579 TAAGGTTGTATATGGTATGTTACATTACTTTGATTGGCTCATTTGATTGGAATGTATTATCCAAC
1 TAAGGTTGTAGATGGTATGTTACATTACTTTGATTGGCTCATTTGATTGGAATGTATTATCCAAC
52938644 ACTACGTTTGGTTCGCTGACA
66 ACTACGTTTGGTTCGCTGACA
* * * * *
52938665 TAAGGTTGTCGATGGTATGTTACATTA-TCTTGTTTGGTTCATTTGGTTGGAATGTATTATCCAG
1 TAAGGTTGTAGATGGTATGTTACATTACT-TTGATTGGCTCATTTGATTGGAATGTATTATCCAA
52938729 CACTACGTTTGGTTCG
65 CACTACGTTTGGTTCG
52938745 TTGTAATAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
85 1 0.01
86 72 0.99
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.42
Consensus pattern (86 bp):
TAAGGTTGTAGATGGTATGTTACATTACTTTGATTGGCTCATTTGATTGGAATGTATTATCCAAC
ACTACGTTTGGTTCGCTGACA
Found at i:52938765 original size:16 final size:16
Alignment explanation
Indices: 52938744--52938788 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
52938734 CGTTTGGTTC
* *
52938744 GTTGTAATAGAATTGA
1 GTTGTAATACAATAGA
52938760 GTTGTAATACAATAGA
1 GTTGTAATACAATAGA
*
52938776 GCTGTAAT-CAATA
1 GTTGTAATACAATA
52938789 ATTCAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (16 bp):
GTTGTAATACAATAGA
Found at i:52938992 original size:37 final size:37
Alignment explanation
Indices: 52938950--52939020 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
52938940 TTGTTATTAA
*
52938950 ATTTTAATAGGATTATTATTAAAAATAATTTAATCAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
* *
52938987 ATTTTAATATAATTATTATTAAATATAATTTAAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAAT
52939021 AAAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (37 bp):
ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
Found at i:52939008 original size:26 final size:25
Alignment explanation
Indices: 52938979--52939050 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 25
52938969 TAAAAATAAT
52938979 TTAATCATATTTTAATATAATTATTA
1 TTAAT-ATATTTTAATATAATTATTA
* *
52939005 TTAAATATAATTTAATA-AA--AATA
1 TT-AATATATTTTAATATAATTATTA
*
52939028 ATAATAT-TTTTAATATAATTATT
1 TTAATATATTTTAATATAATTATT
52939051 TTTATATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 7 0.19
22 7 0.19
23 4 0.11
24 2 0.05
25 2 0.05
26 12 0.32
27 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATATATTTTAATATAATTATTA
Found at i:52939045 original size:14 final size:16
Alignment explanation
Indices: 52939028--52939107 Score: 71
Period size: 16 Copynumber: 5.1 Consensus size: 16
52939018 AATAAAAATA
52939028 ATAATATTTTTA-A-T
1 ATAATATTTTTATATT
52939042 ATAATTATTTTTATATT
1 ATAA-TATTTTTATATT
* *
52939059 AAAATATTTTTATTTT
1 ATAATATTTTTATATT
52939075 A-AATTATATTTTGATATT
1 ATAA-TAT-TTTT-ATATT
52939093 A-AATA-TTTTATATT
1 ATAATATTTTTATATT
52939107 A
1 A
52939108 AATTATATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
14 10 0.18
15 14 0.25
16 16 0.28
17 10 0.18
18 7 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
ATAATATTTTTATATT
Found at i:52939045 original size:17 final size:17
Alignment explanation
Indices: 52939025--52939070 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
52939015 TTTAATAAAA
52939025 ATAATAATATTTTTAAT
1 ATAATAATATTTTTAAT
52939042 ATAAT--TATTTTT-AT
1 ATAATAATATTTTTAAT
52939056 ATTAA-AATATTTTTA
1 A-TAATAATATTTTTA
52939071 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.12
15 10 0.40
16 7 0.28
17 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATAATAATATTTTTAAT
Found at i:52939102 original size:32 final size:33
Alignment explanation
Indices: 52939030--52939135 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 33
52939020 TAAAAATAAT
52939030 AATATTTTTA-A-TATAATTAT-TTTTATATTAA
1 AATATTTTTATATTA-AATTATATTTTATATTAA
*
52939061 AATATTTTTATTTTAAATTATATTTTGATATT-A
1 AATATTTTTATATTAAATTATATTTT-ATATTAA
52939094 AATA-TTTTATATTAAATTATATTAAATTATATTAA
1 AATATTTTTATATTAAATTATATT---TTATATTAA
*
52939129 ATTATTT
1 AATATTT
52939136 CAAATATTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
31 10 0.16
32 24 0.38
33 11 0.17
34 10 0.16
35 6 0.10
36 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
AATATTTTTATATTAAATTATATTTTATATTAA
Found at i:52939127 original size:15 final size:15
Alignment explanation
Indices: 52939052--52939133 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
52939042 ATAATTATTT
* *
52939052 TTATATTAAAATATTT
1 TTATATTAAATTA-TA
*
52939068 TTATTTTAAATTATA
1 TTATATTAAATTATA
*
52939083 TTTTGATATTAAA-TATT
1 --TT-ATATTAAATTATA
52939100 TTATATTAAATTATA
1 TTATATTAAATTATA
* * *
52939115 TTAAATTATATTAAA
1 TTATATTAAATTATA
52939130 TTAT
1 TTAT
52939134 TTCAAATATT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 8 0.15
15 21 0.40
16 11 0.21
17 5 0.10
18 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (15 bp):
TTATATTAAATTATA
Found at i:52939140 original size:10 final size:10
Alignment explanation
Indices: 52939100--52939133 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
52939090 ATTAAATATT
52939100 TTATATTAAA
1 TTATATTAAA
52939110 TTATATTAAA
1 TTATATTAAA
52939120 TTATATTAAA
1 TTATATTAAA
52939130 TTAT
1 TTAT
52939134 TTCAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTATATTAAA
Found at i:52941597 original size:15 final size:15
Alignment explanation
Indices: 52941577--52941609 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
52941567 AAGTAAAGTG
52941577 ATTTTGGATATACGA
1 ATTTTGGATATACGA
*
52941592 ATTTTGGATATATGA
1 ATTTTGGATATACGA
52941607 ATT
1 ATT
52941610 AATGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (15 bp):
ATTTTGGATATACGA
Found at i:52941679 original size:26 final size:26
Alignment explanation
Indices: 52941650--52941701 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
52941640 ATGAAAGGAC
52941650 CAAATCACAAATTTCGAGAAGTTTAA
1 CAAATCACAAATTTCGAGAAGTTTAA
* *
52941676 CAAATCCCAAATTTTGAGAAGTTTAA
1 CAAATCACAAATTTCGAGAAGTTTAA
52941702 GGACTAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (26 bp):
CAAATCACAAATTTCGAGAAGTTTAA
Found at i:52948410 original size:22 final size:21
Alignment explanation
Indices: 52948385--52948425 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
52948375 TCCACAAGAA
52948385 TAATATAAAATCAAAGAAATAT
1 TAATATAAAAT-AAAGAAATAT
* *
52948407 TAATTTAAAATAAATAAAT
1 TAATATAAAATAAAGAAAT
52948426 TCAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TAATATAAAATAAAGAAATAT
Found at i:52956866 original size:8 final size:8
Alignment explanation
Indices: 52956855--52956886 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
52956845 CTAGATCGGC
52956855 AAAAGCCG
1 AAAAGCCG
52956863 AAAAGCCG
1 AAAAGCCG
*
52956871 AAATGCCG
1 AAAAGCCG
52956879 AAAAGCCG
1 AAAAGCCG
52956887 GTATTTCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52957675 original size:113 final size:113
Alignment explanation
Indices: 52957477--52957705 Score: 440
Period size: 113 Copynumber: 2.0 Consensus size: 113
52957467 AAGTGCAGGG
*
52957477 TTGGATGGGGTTATCGTGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
1 TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
52957542 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGA
66 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGA
52957590 TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
1 TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
*
52957655 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCTAGA
66 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGA
52957703 TTG
1 TTG
52957706 ATATTGATAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (113 bp):
TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGA
Found at i:52958930 original size:26 final size:28
Alignment explanation
Indices: 52958900--52958954 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
52958890 AAACTCTTCT
52958900 AAAAGAAAACTC-AAGAGAA-ATTATTA
1 AAAAGAAAACTCAAAGAGAATATTATTA
*
52958926 AAAAGAAAACTCAAAGAGAATTTTATTA
1 AAAAGAAAACTCAAAGAGAATATTATTA
52958954 A
1 A
52958955 CTCAAAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 12 0.46
27 7 0.27
28 7 0.27
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (28 bp):
AAAAGAAAACTCAAAGAGAATATTATTA
Found at i:52969015 original size:31 final size:30
Alignment explanation
Indices: 52968977--52969093 Score: 103
Period size: 31 Copynumber: 3.8 Consensus size: 30
52968967 TTAATCACAT
*
52968977 TAATATTAAATTAATAAAACATTATCTAAA
1 TAATATTAAATTAATAAAATATTATCTAAA
** * *
52969007 TAAGTATTAAATTAAATTTAATATCA-C-ATAT
1 TAA-TATTAAATT-AATAAAATATTATCTA-AA
* *
52969038 TAATATTAAATTAATAAAATACTATCTAGA
1 TAATATTAAATTAATAAAATATTATCTAAA
*
52969068 TAAATATTAAATTAAATTAAATATTA
1 T-AATATTAAATT-AATAAAATATTA
52969094 AATTTATTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
29 8 0.12
30 15 0.22
31 26 0.39
32 18 0.27
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATATTATCTAAA
Found at i:52969064 original size:61 final size:61
Alignment explanation
Indices: 52968975--52969091 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
52968965 AATTAATCAC
* * *
52968975 ATTAATATTAAATTAATAAAACATTATCTAAATAAGTATTAAATTAAATTTAATATCACAT
1 ATTAATATTAAATTAATAAAACACTATCTAAATAAATATTAAATTAAATTAAATATCACAT
* *
52969036 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATAT
1 ATTAATATTAAATTAATAAAACACTATCTAAATAAATATTAAATTAAATTAAATAT
52969092 TAAATTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAACACTATCTAAATAAATATTAAATTAAATTAAATATCACAT
Found at i:52972231 original size:17 final size:17
Alignment explanation
Indices: 52972185--52972231 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
52972175 TCTTTAAAGG
*
52972185 CCGATAAATGA-AATGC
1 CCGACAAATGATAATGC
*
52972201 CCGATC-AATTATAATGC
1 CCGA-CAAATGATAATGC
52972218 CCGACAAATGATAA
1 CCGACAAATGATAA
52972232 ATGATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (17 bp):
CCGACAAATGATAATGC
Found at i:52979424 original size:312 final size:312
Alignment explanation
Indices: 52978950--52979591 Score: 1070
Period size: 312 Copynumber: 2.1 Consensus size: 312
52978940 ATTTTAACTA
*
52978950 ATTAAATAAATCTCAAATGCACGATTTCAAAATATGAGTTTAATCAAGATGACATAATTGTGTTA
1 ATTAATTAAATCT--AATGCACGATTTCAAAATATGAGTTTAATCAAGATGACATAATTGTGTTA
*
52979015 GATCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTTAC
64 GATCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTCAC
* *
52979080 GGCAACTCGGTAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACT
129 GACAACTCGGAAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACT
*
52979145 AGATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGTACATAC
194 AGATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATAC
* * *
52979210 AAATTTATTATATCGAAATGATCTCTTGTACATATCCCTATGTCAATTCAAACG
259 AAACTTATTAGATCGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACG
*
52979264 ATTAATTAAATCTAATGCATGATTTCAAAATATGA-TTTAAATCAAGATGACATAATTGTGTTAG
1 ATTAATTAAATCTAATGCACGATTTCAAAATATGAGTTT-AATCAAGATGACATAATTGTGTTAG
* * *
52979328 ATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTTATATTGTTACGAATAAATTCACG
65 ATCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTCACG
*
52979393 ACAACTCGGAAATTTGCTAACTTATGAACATACTTACCTACCAAAATCCATTCATCTCTTGACTA
130 ACAACTCGGAAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACTA
* * *
52979458 TATCCCTATGTCAATTCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATTCA
195 GATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATACA
* * * *
52979523 TACTTATTAGATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCCAATG
260 AACTTATTAGATCGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACG
52979576 ATTAATTAAATCTAAT
1 ATTAATTAAATCTAAT
52979592 AAGCACATAA
Statistics
Matches: 307, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
311 3 0.01
312 292 0.95
314 12 0.04
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (312 bp):
ATTAATTAAATCTAATGCACGATTTCAAAATATGAGTTTAATCAAGATGACATAATTGTGTTAGA
TCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTCACGA
CAACTCGGAAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACTAG
ATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATACAA
ACTTATTAGATCGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACG
Found at i:52980823 original size:12 final size:12
Alignment explanation
Indices: 52980806--52980831 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52980796 AAAATTCATC
52980806 AAAATTAATTAA
1 AAAATTAATTAA
52980818 AAAATTAATTAA
1 AAAATTAATTAA
52980830 AA
1 AA
52980832 TTCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAATTAA
Found at i:52980889 original size:19 final size:18
Alignment explanation
Indices: 52980854--52980888 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52980844 ATATTTTAAG
*
52980854 TAAAATTTAATTATTTTA
1 TAAAAATTAATTATTTTA
52980872 TAAAAATTAATTATTTT
1 TAAAAATTAATTATTTT
52980889 TTGACAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAAAATTAATTATTTTA
Found at i:52993065 original size:14 final size:14
Alignment explanation
Indices: 52993046--52993073 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52993036 AATGAAAGTA
52993046 CATAGTATATGATG
1 CATAGTATATGATG
52993060 CATAGTATATGATG
1 CATAGTATATGATG
52993074 AAAGTGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
CATAGTATATGATG
Found at i:52995586 original size:49 final size:49
Alignment explanation
Indices: 52995509--52995605 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
52995499 GTCAAAAGCT
* *
52995509 TTAGTTTCATGAGTAAATTACATTTAAATTGTGGTGTGATGTAATACCC
1 TTAGCTTCATGAGTAAATTACATTTAAATTGTGGCGTGATGTAATACCC
*
52995558 TTAGCTTCATGAGTGAATTACATTTAAATTGTGGCGTGATGTAATACC
1 TTAGCTTCATGAGTAAATTACATTTAAATTGTGGCGTGATGTAATACC
52995606 TGACAATCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (49 bp):
TTAGCTTCATGAGTAAATTACATTTAAATTGTGGCGTGATGTAATACCC
Found at i:52997881 original size:8 final size:8
Alignment explanation
Indices: 52997834--52997880 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
52997824 ATCGGTAAAA
52997834 GCCGAAAT
1 GCCGAAAT
52997842 GCCGAAAT
1 GCCGAAAT
* *
52997850 GCCAAAAA
1 GCCGAAAT
*
52997858 GCCAAAAT
1 GCCGAAAT
*
52997866 GCCGAAAG
1 GCCGAAAT
52997874 GCCGAAA
1 GCCGAAA
52997881 GTTTGGCTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.45, C:0.26, G:0.23, T:0.06
Consensus pattern (8 bp):
GCCGAAAT
Found at i:52998060 original size:29 final size:29
Alignment explanation
Indices: 52998025--52998102 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
52998015 GCCTAACGGG
*
52998025 CCATATAAATGTGATTTGGTCCCAATGGA
1 CCATATAAATGTGATTTGGGCCCAATGGA
* * * *
52998054 CCATATACAGGTGATTTGGGCCTAATGGG
1 CCATATAAATGTGATTTGGGCCCAATGGA
* *
52998083 CCATATGAATATGA-TTGGGC
1 CCATATAAATGTGATTTGGGC
52998103 TTAATGGGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (29 bp):
CCATATAAATGTGATTTGGGCCCAATGGA
Found at i:53002503 original size:38 final size:39
Alignment explanation
Indices: 53002414--53002553 Score: 167
Period size: 38 Copynumber: 3.6 Consensus size: 39
53002404 ACATTATTTA
* * *
53002414 GGCTCTGTGTCTAGCAAGCTCTGTGCCGGTGTATTATATCG
1 GGCTCTGTGCCTAGCAAGCTTTGTGCTGGTG-A-TATATCG
*
53002455 GGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGATAT-TCG
1 GGCTCTGTGCCTAGCAAGCTTTGTGCTGGTGATATATCG
* * *
53002493 GGCTTTGTGCCTAGCAAGCTTTGTGCTGATGATATATCA
1 GGCTCTGTGCCTAGCAAGCTTTGTGCTGGTGATATATCG
*
53002532 GGCT-TAGTGCCTAGCAGGCTTT
1 GGCTCT-GTGCCTAGCAAGCTTT
53002554 ATGTCGGTGT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
38 36 0.41
39 24 0.27
40 1 0.01
41 27 0.31
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (39 bp):
GGCTCTGTGCCTAGCAAGCTTTGTGCTGGTGATATATCG
Found at i:53002764 original size:21 final size:21
Alignment explanation
Indices: 53002740--53002804 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
53002730 AAGGAAGGTA
53002740 ATGTTCAACGAAAGTATGTTT
1 ATGTTCAACGAAAGTATGTTT
*
53002761 ATGTTC-ATGAAA-T-TG---
1 ATGTTCAACGAAAGTATGTTT
*
53002776 ATATTCAAACGAAAGTATGTTT
1 ATGTTC-AACGAAAGTATGTTT
53002798 ATGTTCA
1 ATGTTCA
53002805 TGAAATTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
15 5 0.15
17 5 0.15
18 3 0.09
19 3 0.09
20 5 0.15
21 7 0.21
22 5 0.15
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGTTCAACGAAAGTATGTTT
Found at i:53003645 original size:18 final size:18
Alignment explanation
Indices: 53003622--53003659 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
53003612 ATGAAAGGTG
*
53003622 TTAAGTACATGTA-TATGT
1 TTAAGTAAAT-TAGTATGT
53003640 TTAAGTAAATTAGTATGT
1 TTAAGTAAATTAGTATGT
53003658 TT
1 TT
53003660 GCTTTTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (18 bp):
TTAAGTAAATTAGTATGT
Found at i:53010461 original size:25 final size:25
Alignment explanation
Indices: 53010419--53010467 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
53010409 CTTTATTATT
* *
53010419 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
53010444 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
53010468 GGTCCTCTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:53010594 original size:20 final size:20
Alignment explanation
Indices: 53010566--53010603 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53010556 CTAGGAACTA
53010566 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
53010586 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
53010604 TATATGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:53016215 original size:46 final size:46
Alignment explanation
Indices: 53016118--53016252 Score: 152
Period size: 46 Copynumber: 2.9 Consensus size: 46
53016108 GGTGGTATGT
**
53016118 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAACCACATT-ATGA--A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT---CGGCATTGA-GACGA
* *
53016165 -AGCCAGTGTACGACATGTCTGGGACATTCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
* *
53016210 GAGCCAGTGTAAGACATGTCTTGGACATGCATCGGCGTTGAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
53016253 TATGCAAGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
43 7 0.09
44 1 0.01
45 1 0.01
46 67 0.88
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
Found at i:53017390 original size:43 final size:44
Alignment explanation
Indices: 53017298--53017391 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
53017288 ATATGCCTCC
* *
53017298 TCTGGCCATGGGCGTGTGCCTCAGCCGTGTGGAGGACACGGCCT
1 TCTGGCCATGGGCGTGTGCCTCAGCCGTATGGAGGACACGGACT
* * *
53017342 T-TGGCCATGGGTGTGTGCCTC-GACCGTATGGAGGATAC-GATT
1 TCTGGCCATGGGCGTGTGCCTCAG-CCGTATGGAGGACACGGACT
53017384 TCTGGCCA
1 TCTGGCCA
53017392 CGAGCATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (44 bp):
TCTGGCCATGGGCGTGTGCCTCAGCCGTATGGAGGACACGGACT
Found at i:53017390 original size:109 final size:109
Alignment explanation
Indices: 53017195--53017405 Score: 334
Period size: 109 Copynumber: 1.9 Consensus size: 109
53017185 CGGGTAGAGA
53017195 CATGGCCGTGTGCCTCAGCCGTGTAGAGGACACAGCCTCTGGCCATGGGCGTGTGCCTCGACCGT
1 CATGGCCGTGTGCCTCAGCCGTGTAGAGGACACAGCCTCTGGCCATGGGCGTGTGCCTCGACCGT
* *
53017260 GTGGAGGACATGACTTTTGGCCACGAGCATATGCCTCCTCTGGC
66 ATGGAGGACACGACTTTTGGCCACGAGCATATGCCTCCTCTGGC
* * * * *
53017304 CATGGGCGTGTGCCTCAGCCGTGTGGAGGACACGGCCTTTGGCCATGGGTGTGTGCCTCGACCGT
1 CATGGCCGTGTGCCTCAGCCGTGTAGAGGACACAGCCTCTGGCCATGGGCGTGTGCCTCGACCGT
*
53017369 ATGGAGGATACGA-TTTCTGGCCACGAGCATATGCCTC
66 ATGGAGGACACGACTTT-TGGCCACGAGCATATGCCTC
53017406 GACCATGTGC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 3 0.03
109 90 0.97
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.23
Consensus pattern (109 bp):
CATGGCCGTGTGCCTCAGCCGTGTAGAGGACACAGCCTCTGGCCATGGGCGTGTGCCTCGACCGT
ATGGAGGACACGACTTTTGGCCACGAGCATATGCCTCCTCTGGC
Found at i:53017512 original size:69 final size:69
Alignment explanation
Indices: 53017411--53017539 Score: 231
Period size: 69 Copynumber: 1.9 Consensus size: 69
53017401 GCCTCGACCA
* *
53017411 TGTGCCTCTATTTGGTTGCTGGCGTCAAAAACAGAATGTCAAGGTTTTTAGACACGGGTGCCTCA
1 TGTGCCTCTATTTGGTTGCTGACATCAAAAACAGAATGTCAAGGTTTTTAGACACGGGTGCCTCA
53017476 GCCG
66 GCCG
*
53017480 TGTGCCTCTATTTGGTTGCTGACATCAGAAACAGAATGTCAAGGTTTTTAGACACGGGTG
1 TGTGCCTCTATTTGGTTGCTGACATCAAAAACAGAATGTCAAGGTTTTTAGACACGGGTG
53017540 TGTCGTGGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (69 bp):
TGTGCCTCTATTTGGTTGCTGACATCAAAAACAGAATGTCAAGGTTTTTAGACACGGGTGCCTCA
GCCG
Found at i:53030021 original size:27 final size:27
Alignment explanation
Indices: 53029987--53030056 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
53029977 CTTCATTCAT
* *
53029987 GAAATAATTACATGAATTGGTTATATG
1 GAAATAATTATATGAATTGGTTAAATG
*
53030014 GATATAATTATATGAATTGGTTAAATG
1 GAAATAATTATATGAATTGGTTAAATG
53030041 GAAATAATTATATGAA
1 GAAATAATTATATGAA
53030057 ATGGAACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.44, C:0.01, G:0.17, T:0.37
Consensus pattern (27 bp):
GAAATAATTATATGAATTGGTTAAATG
Found at i:53038631 original size:21 final size:21
Alignment explanation
Indices: 53038608--53038648 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
53038598 TTATTTGATA
*
53038608 TTTAAATTTATTTTTGAATTAT
1 TTTAAA-TTATTATTGAATTAT
53038630 TTTAAATTATTATTGAATT
1 TTTAAATTATTATTGAATT
53038649 CGTTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTAAATTATTATTGAATTAT
Found at i:53046415 original size:23 final size:23
Alignment explanation
Indices: 53046345--53046416 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
53046335 TACCTCGTTA
*
53046345 ACAAATTTATTCATTTTTTATAC
1 ACAAATTTATTCATTTTTTATAT
* *
53046368 ACAAATTTATTCGGTTTTTTTTAT
1 ACAAATTTATTC-ATTTTTTATAT
*
53046392 A-AAATTTATTCATTCTTTTGTAT
1 ACAAATTTATTCATT-TTTTATAT
53046415 AC
1 AC
53046417 CTCACAGTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.05
23 30 0.73
24 9 0.22
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.54
Consensus pattern (23 bp):
ACAAATTTATTCATTTTTTATAT
Found at i:53053532 original size:17 final size:17
Alignment explanation
Indices: 53053487--53053532 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
53053477 GAAAAATGAG
*
53053487 AATTTTTAAAACACGAA
1 AATTTTTGAAACACGAA
*
53053504 AA-TTTCGAAAACACGAA
1 AATTTTTG-AAACACGAA
53053521 AATTTTTGAAAC
1 AATTTTTGAAAC
53053533 CTGAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 3 0.12
17 17 0.71
18 4 0.17
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:53054154 original size:15 final size:17
Alignment explanation
Indices: 53054134--53054165 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53054124 TTAGGAAACG
53054134 TACATAA-A-AAATATA
1 TACATAATATAAATATA
53054149 TACATAATATAAATATA
1 TACATAATATAAATATA
53054166 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:53054707 original size:11 final size:11
Alignment explanation
Indices: 53054674--53054714 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
53054664 AAATCATTTT
53054674 GAAGAGAGAAA
1 GAAGAGAGAAA
*
53054685 GAA-A-AAAAA
1 GAAGAGAGAAA
*
53054694 GAAGGGAGAAA
1 GAAGAGAGAAA
53054705 GAAGAGAGAA
1 GAAGAGAGAA
53054715 GGGAGAGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:53054895 original size:13 final size:13
Alignment explanation
Indices: 53054858--53054897 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
53054848 ATGTATATAT
53054858 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
*
53054871 AAACAACA-AAAAA
1 AAAGAA-AGAAAAA
53054884 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
53054897 A
1 A
53054898 GTTTCGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:53055201 original size:20 final size:19
Alignment explanation
Indices: 53055176--53055232 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 19
53055166 AGGGTTTCTT
53055176 GGTTTTTTTCGGGGGGGTTA
1 GGTTTTTTT-GGGGGGGTTA
53055196 GGTTTTTTCTTGGGGGGGTTA
1 GG-TTTTT-TTGGGGGGGTTA
53055217 GGTTTTTTTGGGGGGG
1 GGTTTTTTTGGGGGGG
53055233 CTTAATGGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.26
20 7 0.20
21 17 0.49
22 2 0.06
ACGTcount: A:0.04, C:0.04, G:0.47, T:0.46
Consensus pattern (19 bp):
GGTTTTTTTGGGGGGGTTA
Found at i:53055210 original size:21 final size:20
Alignment explanation
Indices: 53055176--53055232 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
53055166 AGGGTTTCTT
*
53055176 GGTTTTTTTCGGGGGGGTTA
1 GGTTTTTTTTGGGGGGGTTA
53055196 GGTTTTTTCTTGGGGGGGTTA
1 GGTTTTTT-TTGGGGGGGTTA
53055217 GG-TTTTTTTGGGGGGG
1 GGTTTTTTTTGGGGGGG
53055233 CTTAATGGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 9 0.26
20 13 0.37
21 13 0.37
ACGTcount: A:0.04, C:0.04, G:0.47, T:0.46
Consensus pattern (20 bp):
GGTTTTTTTTGGGGGGGTTA
Found at i:53056280 original size:72 final size:72
Alignment explanation
Indices: 53056064--53056684 Score: 886
Period size: 72 Copynumber: 8.5 Consensus size: 72
53056054 GTGATCTGAA
* * *
53056064 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTAAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
53056129 ATGTGAACCGAG
63 --GTGTCCCGAG
* * * *
53056141 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
**
53056206 TGTCTTGAG
64 TGTCCCGAG
** * *
53056215 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAAAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
53056280 TCCCGAG
66 TCCCGAG
* *
53056287 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTAGAAAACAGAAAGTGAAATTACCTCAGCAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-GAAAACAGAAATTGAAATTACCTCAGCGT
53056351 GTCCCGAG
65 GTCCCGAG
*
53056359 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTAGAAAACAGAAAATGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-GAAAACAGAAATTGAAATTACCTCAGCGT
53056423 GTCCCGAG
65 GTCCCGAG
53056431 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
53056496 TCCCGAG
66 TCCCGAG
*
53056503 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAATTTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
53056568 TCCTGAG
66 TCCCGAG
** * * *
53056575 GCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTAACAACAGAAATTGAAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTG-AAATTACCTCAGC
*
53056640 GTGTCCTGAG
63 GTGTCCCGAG
53056650 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
53056685 TTTGAAAAAT
Statistics
Matches: 501, Mismatches: 38, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
71 5 0.01
72 327 0.65
73 11 0.02
74 47 0.09
75 50 0.10
76 21 0.04
77 40 0.08
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Found at i:53056375 original size:144 final size:145
Alignment explanation
Indices: 53056059--53057616 Score: 1546
Period size: 144 Copynumber: 10.4 Consensus size: 145
53056049 AGTGTGTGAT
* * * *
53056059 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTAAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAAAAATTGAAATTACC
** *
53056124 TCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAA
64 TCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAA
* *
53056189 TTGAAAATACCTCAACGTGTC
125 TTGAAATTACCTCAGCGTGTC
* ** * *
53056210 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAATAAAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCTC
* *
53056274 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAACAGAAAGTGAAA
66 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAA
*
53056339 TTACCTCAGCATGTC
131 TTACCTCAGCGTGTC
* *
53056354 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAGAAAACAGAAAA-TGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACA-AAAATTGAAATTACCT
*
53056417 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
65 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
53056482 ATTACCTCAGCGTGTC
130 ATTACCTCAGCGTGTC
* * * *
53056498 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAATTTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCTC
* ** * *
53056562 AGCGTGTCCTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTAACAACAGAAATTGA
66 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTG-
53056627 AAATTACCTCAGCGTGTC
128 AAATTACCTCAGCGTGTC
53056645 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-----TT------T-T---TTGAAAA-CA
* * * *
53056710 GAAATTGAAATTACCTCAACCTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
49 AAAATTGAAATTACCTCAGCGTGTCC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
53056774 TGATAAACAGAAATTGAAATTACCTCAGCGTGTC
113 TGA-AAACAGAAATTGAAATTACCTCAGCGTGTC
* ** *
53056808 CTGAGGCTCAACTTATTTCTCGTAATATGAGTTGATTTTTTGAAAAATAGATTGAAACACAAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT------T---TTGAAA-ACAAAAA
** * *
53056873 TTGACAA-TACCTCAGAATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAA
53 TTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* *
53056937 AACAGAAATTGAAATTACCTTAGCATGTC
117 AACAGAAATTGAAATTACCTCAGCGTGTC
* *
53056966 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAAAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTG-AAAACAAAAATTGAAATTA
* ** ** * * *
53057031 CCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAGAACAGAAATT
62 CCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
*
53057096 GAAATTACCTCAGTGTGTC
127 GAAATTACCTCAGCGTGTC
** *
53057115 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAAAAATTGAAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAA-AACAAAAATTG-AAATTAC
* *
53057180 CTCAGCGTGTCCTGAGGCTCAACTCACCACTCGC-A-AT--G-TGA-----G----CAGAAATTG
63 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG
* * *
53057231 AAAATACCTCAACTTGTC
128 AAATTACCTCAGCGTGTC
* * * * *
53057249 TTGAGGCTTAACTCACCTCTCGCAATATGACTTGA-TTTTTGAAAA-ATAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCTC
*
53057312 AGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTGA
66 AGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGA
53057376 AATTACCTCAGCGTGTGAC
129 AATTACCTCAGCGTGT--C
* * *
53057395 ATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAA-ACAAAAATTGAAATT
* ** *
53057460 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGGAACATAAAT
61 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-G---------
* **
53057525 TAAAACACAAAAATTGACAA-TACCTCAGCGTACC
115 --AAA-ACAGAAATTGA-AATTACCTCAGCGTGTC
* *
53057559 CCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTGAAAAACAAAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAAAAATTGAAA
53057617 AATGGAAATC
Statistics
Matches: 1208, Mismatches: 120, Indels: 150
0.82 0.08 0.10
Matches are distributed among these distances:
128 2 0.00
129 35 0.03
130 8 0.01
131 4 0.00
132 7 0.01
133 1 0.00
134 56 0.05
138 1 0.00
139 1 0.00
143 5 0.00
144 279 0.23
145 10 0.01
146 85 0.07
147 70 0.06
148 56 0.05
149 129 0.11
150 3 0.00
151 40 0.03
152 2 0.00
153 54 0.04
154 7 0.01
155 1 0.00
158 64 0.05
159 85 0.07
160 14 0.01
161 1 0.00
162 1 0.00
163 48 0.04
164 59 0.05
165 56 0.05
166 22 0.02
167 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (145 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCTC
AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAA
TTACCTCAGCGTGTC
Found at i:53056449 original size:216 final size:216
Alignment explanation
Indices: 53056064--53057616 Score: 1526
Period size: 216 Copynumber: 6.9 Consensus size: 216
53056054 GTGATCTGAA
*
53056064 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTAAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
53056129 ATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
63 ATGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGA
* * ** ** *
53056193 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAA
123 AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAA
53056258 AAATTGAAATTACCTCAGCGTGTCCCGAG
188 AAATTGAAATTACCTCAGCGTGTCCCGAG
* * *
53056287 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAACAGAAAGTGAAATTACCTCAGCATG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCATG
* * *
53056352 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAACAGAAAATGAAATTACCT
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
*
53056417 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
131 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAA
53056482 ATTACCTCAGCGTGTCCCGAG
196 ATTACCTCAGCGTGTCCCGAG
* * * *
53056503 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAATTTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCATG
** * *
53056568 TCCTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTAACAACAGAAATTGAAAATTA
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTG-AAATTA
*
53056633 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATA
128 CCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA---G-------TTG---AAT-T-
* * * *
53056698 AATTGAAAAGCAGAAATTGAAATTACCTCAACCTG-CCTTGAG
178 --TTGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCC-CGAG
* *
53056740 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAATACCTCAGCAT
* ** * *
53056805 GTCCTGAGGCTCAACTTATTTCTCGTAATATGAGTTGATTTTTTGAAAAATAGATTGAAACACAA
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT------T---TTGAAA-ACAG
** * * *
53056870 AAATTGACAA-TACCTCAGAATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
116 AAATTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
* * *
53056934 GAAAACAGAAATTGAAATTACCTTAGCATGTCCCGAG
180 GAAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAG
*
53056971 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAAAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTG-AAAACAGAAATTGAAAATACCTCA
* ** * * *
53057036 GCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAGAACAGAAATTGAAAT
61 GCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
* * ** * *
53057101 TACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAA
126 TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAA-AACAA
*
53057166 AAATTGAAAATTACCTCAGCGTGTCCTGAG
188 AAATTG-AAATTACCTCAGCGTGTCCCGAG
* * *
53057196 GCTCAACTCACCACTCGC-A-AT--G-TGA-----G----CAGAAATTGAAAATACCTCAACTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCATG
* * * * *
53057247 TCTTGAGGCTTAACTCACCTCTCGCAATATGACTTGATTTTTGAAAA-ATAAATTGAAAATACCT
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
* *
53057311 CAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTG
131 CAGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAAAAATTG
**
53057375 AAATTACCTCAGCGTGTGACATGAG
194 AAATTACCTCAGCGTGT--CCCGAG
53057400 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAA-ACAGAAATTGAAAATACCTC
* * * *
53057465 AACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGGAACATAAATTAAAA
60 AGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-G-----------AAA
* ** *
53057530 CACAAAAATTGACAA-TACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA
112 -ACAGAAATTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
53057594 TTTTTGAAAAACAAAAATTGAAA
175 ATTTTG-AAAACAAAAATTGAAA
53057617 AATGGAAATC
Statistics
Matches: 1140, Mismatches: 99, Indels: 166
0.81 0.07 0.12
Matches are distributed among these distances:
202 17 0.01
203 16 0.01
204 25 0.02
205 53 0.05
206 64 0.06
208 1 0.00
209 3 0.00
211 1 0.00
216 197 0.17
217 8 0.01
218 42 0.04
219 48 0.04
220 29 0.03
221 61 0.05
222 6 0.01
223 39 0.03
224 69 0.06
225 43 0.04
226 1 0.00
229 3 0.00
231 56 0.05
232 12 0.01
233 1 0.00
235 65 0.06
236 12 0.01
237 65 0.06
238 62 0.05
239 74 0.06
240 6 0.01
241 3 0.00
246 1 0.00
247 1 0.00
249 41 0.04
250 15 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (216 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCATG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAA
ATTACCTCAGCGTGTCCCGAG
Found at i:53056793 original size:73 final size:73
Alignment explanation
Indices: 53056700--53056853 Score: 213
Period size: 73 Copynumber: 2.1 Consensus size: 73
53056690 AAAATATAAA
53056700 TTGAAAAGCAGAAATTGAAATTACCTCAACCTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAATTACCTCAACCTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
53056764 AGTTGATTT
65 AGTTGATTT
* * * ** *
53056773 TTGATAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAATTACCTCAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
53056837 AGTTGATTTT
65 AGTTGA-TTT
53056847 TTGAAAA
1 TTGAAAA
53056854 ATAGATTGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
73 60 0.83
74 12 0.17
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAATTACCTCAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:53056992 original size:72 final size:73
Alignment explanation
Indices: 53056859--53057221 Score: 417
Period size: 72 Copynumber: 4.9 Consensus size: 73
53056849 GAAAAATAGA
* * * *
53056859 TTGAAACACAAAAATTGACAA-TACCTCAGAATGCCCCGAGGCTCAACTCACCTCTCACAATATG
1 TTGAAA-ACAAAAATTGA-AATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
53056923 AGTTGA-TTT
64 AGTTGATTTT
* * *
53056932 TTGAAAACAGAAATTGAAATTACCTTAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
53056997 TTGATTTTTTT
66 TTGA---TTTT
* * ** *
53057008 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTG-AAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
53057073 GTTGA-ATT
65 GTTGATTTT
* * ** **
53057081 TTGAGAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
53057146 TTGATTTTT
66 TTGA-TTTT
* * * *
53057155 TTTAACAACAAAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATGTG
1 TTGAA-AACAAAAATTG-AAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
53057220 AG
64 AG
53057222 CAGAAATTGA
Statistics
Matches: 250, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
71 2 0.01
72 114 0.46
73 11 0.04
74 5 0.02
75 10 0.04
76 50 0.20
77 58 0.23
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (73 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:53057341 original size:71 final size:73
Alignment explanation
Indices: 53057225--53057529 Score: 395
Period size: 71 Copynumber: 4.1 Consensus size: 73
53057215 ATGTGAGCAG
* * *
53057225 AAATTGAAAATACCTCAACTTGTCTTGAGGCTTAACTCACCTCTCGCAATATGACTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
53057289 GAAAA-AT
66 GAAAACAT
* * *
53057296 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
53057360 GACAAACAT
66 GA-AAACAT
* * *
53057369 AAATTGAAATTACCTCAGCGTGTGACATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----
*
53057434 TTTTTTGAAAGACAG
60 TTTTTTGAAA-ACAT
*
53057449 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
53057514 G-GAACAT
66 GAAAACAT
53057521 AAATT-AAAA
1 AAATTGAAAA
53057530 CACAAAAATT
Statistics
Matches: 208, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
71 64 0.31
72 11 0.05
73 24 0.12
74 7 0.03
75 35 0.17
78 34 0.16
79 2 0.01
80 31 0.15
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAT
Found at i:53069419 original size:18 final size:18
Alignment explanation
Indices: 53069377--53069421 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
53069367 GAAAAATGAG
53069377 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
53069394 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
53069411 AATTTTTGAAA
1 AATTTTTGAAA
53069422 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:53070045 original size:15 final size:17
Alignment explanation
Indices: 53070025--53070056 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53070015 TTAGGAAACG
53070025 TACATAA-A-AAATATA
1 TACATAATATAAATATA
53070040 TACATAATATAAATATA
1 TACATAATATAAATATA
53070057 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:53071093 original size:19 final size:19
Alignment explanation
Indices: 53071069--53071120 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
53071059 TCTTGGTTTT
53071069 TTTTTTGGGGGGGGTTAGG
1 TTTTTTGGGGGGGGTTAGG
**** *
53071088 TTTTTTTTTTGGAGTTAGG
1 TTTTTTGGGGGGGGTTAGG
53071107 TTTTTTGGGGGGGG
1 TTTTTTGGGGGGGG
53071121 GCTTAATGGG
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.06, C:0.00, G:0.44, T:0.50
Consensus pattern (19 bp):
TTTTTTGGGGGGGGTTAGG
Found at i:53073758 original size:13 final size:13
Alignment explanation
Indices: 53073725--53073762 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
53073715 ACTATGATTA
53073725 AATTTTAATATTT
1 AATTTTAATATTT
53073738 AATCTTT-ATATTTT
1 AAT-TTTAATA-TTT
53073752 AATTTTAATAT
1 AATTTTAATAT
53073763 AATTTGGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTTTAATATTT
Found at i:53076885 original size:26 final size:26
Alignment explanation
Indices: 53076856--53076937 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
53076846 TGATACAAAT
53076856 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53076882 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53076908 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53076934 TGAT
1 TGAT
53076938 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.