Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 332 of 770
Found at i:101606720 original size:39 final size:39
Alignment explanation
Indices: 101606651--101606810 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
101606641 GGTAACCCTT
* *
101606651 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGC
1 ACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGC
101606691 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
* *
101606730 ACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
* *
101606769 ACCATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
101606808 ACA
1 ACA
101606811 TTCATACACA
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.87
40 14 0.13
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
Found at i:101613365 original size:37 final size:37
Alignment explanation
Indices: 101613278--101613425 Score: 242
Period size: 37 Copynumber: 3.9 Consensus size: 37
101613268 TATGGTAACC
* *
101613278 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATAT--CAACT
101613318 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
*
101613355 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
101613392 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
101613426 CAATTCGCAC
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
37 74 0.71
39 13 0.12
40 17 0.16
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (37 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
Found at i:101618739 original size:26 final size:26
Alignment explanation
Indices: 101618710--101618798 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
101618700 AAATTACAAG
*
101618710 TTATTAGCAATTAATATTAATTTATA
1 TTATTAGTAATTAATATTAATTTATA
* * **
101618736 TTATTTGTTATTAATATTAA-GAATA
1 TTATTAGTAATTAATATTAATTTATA
*
101618761 TTA--AGTAATTAATAAT-ATTTATA
1 TTATTAGTAATTAATATTAATTTATA
101618784 TTATTA-T-ATTAATAT
1 TTATTAGTAATTAATAT
101618799 ATTTCGATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.02
23 23 0.47
24 1 0.02
25 7 0.14
26 17 0.35
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTATTAGTAATTAATATTAATTTATA
Found at i:101618844 original size:15 final size:15
Alignment explanation
Indices: 101618826--101619031 Score: 73
Period size: 15 Copynumber: 13.6 Consensus size: 15
101618816 TATATTTCTA
101618826 TATTATTTATTTTAT
1 TATTATTTATTTTAT
*
101618841 TATTCTATCTATTATTA-
1 TA-T-TATTTATT-TTAT
*
101618858 TATTATCTATTATTA-
1 TATTATTTATT-TTAT
*
101618873 TATTATCTA-TTTA-
1 TATTATTTATTTTAT
*
101618886 TA--ATTTA-TATAT
1 TATTATTTATTTTAT
101618898 TATT-TTTATATATTAT
1 TATTATTTAT-T-TTAT
* *
101618914 TATTATATATATT-T
1 TATTATTTATTTTAT
*
101618928 TA-TATATATTTTAT
1 TATTATTTATTTTAT
101618942 T-TCTATTTAGTTATTATT
1 TAT-TATTTA-TT-TTA-T
101618960 TATT-TTTATTTCTATT
1 TATTATTTATTT-TA-T
101618976 TAGTTA-TTA-TTTAGT
1 TA-TTATTTATTTTA-T
*
101618991 TATTATTTATATTTAG
1 TATTATTTAT-TTTAT
*
101619007 TA-TATTTAGAATTTAT
1 TATTATTT--ATTTTAT
101619023 TATTATTTA
1 TATTATTTA
101619032 ATATTTAATT
Statistics
Matches: 153, Mismatches: 12, Indels: 52
0.71 0.06 0.24
Matches are distributed among these distances:
11 7 0.05
12 2 0.01
13 18 0.12
14 9 0.06
15 46 0.30
16 29 0.19
17 35 0.23
18 6 0.04
19 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:101618871 original size:30 final size:27
Alignment explanation
Indices: 101618822--101618997 Score: 107
Period size: 27 Copynumber: 6.3 Consensus size: 27
101618812 AATCTATATT
101618822 TCTA-TATTATTTATT-TTATTATTCTA
1 TCTATTATTATTTATTATTATTATT-TA
101618848 TCTATTATTATATTATCTATTATTATATTA
1 TCTATTATTAT-TTAT-TATTATTAT-TTA
*
101618878 TCTATTTATAATTTATATATTATT-TTTA
1 TCTA-TTATTATTTAT-TATTATTATTTA
* *
101618906 TATATTATTATTATATATATT-TTATATA
1 TCTATTATTATT-TAT-TATTATTATTTA
* * *
101618934 TATTTTATT-TCTATTTAGTTATTATTTA
1 TCTATTATTATTTA-TTA-TTATTATTTA
* *
101618962 T-TTTTATT-TCTATTTAGTTATTATTTA
1 TCTATTATTATTTA-TTA-TTATTATTTA
101618989 GT-TATTATT
1 -TCTATTATT
101618998 TATATTTAGT
Statistics
Matches: 129, Mismatches: 9, Indels: 22
0.81 0.06 0.14
Matches are distributed among these distances:
26 8 0.06
27 45 0.35
28 43 0.33
29 2 0.02
30 24 0.19
31 7 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (27 bp):
TCTATTATTATTTATTATTATTATTTA
Found at i:101618949 original size:11 final size:11
Alignment explanation
Indices: 101618816--101618941 Score: 73
Period size: 12 Copynumber: 10.9 Consensus size: 11
101618806 TTTATAAATC
101618816 TATATTTCTATA
1 TATATTT-TATA
101618828 T-TA-TTTAT-
1 TATATTTTATA
* *
101618836 TTTATTATTCTA
1 TATATT-TTATA
*
101618848 TCTATTATTATA
1 TATATT-TTATA
101618860 T-TATCTATTAT-
1 TATAT-T-TTATA
*
101618871 TATATTATCTATT
1 TATATT-T-TATA
*
101618884 TATAATTTATA
1 TATATTTTATA
101618895 TATTATTTTTATA
1 TA-TA-TTTTATA
101618908 TATTATTATTATA
1 TA-TATT-TTATA
101618921 TATATTTTATA
1 TATATTTTATA
101618932 TATATTTTAT
1 TATATTTTAT
101618942 TTCTATTTAG
Statistics
Matches: 97, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.01
9 5 0.05
10 3 0.03
11 32 0.33
12 33 0.34
13 23 0.24
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
TATATTTTATA
Found at i:101618950 original size:58 final size:61
Alignment explanation
Indices: 101618818--101619000 Score: 150
Period size: 62 Copynumber: 3.0 Consensus size: 61
101618808 TATAAATCTA
* *
101618818 TATTTCTATATTATTTATT-TTATTATTCTATCTATTATTATATTATCTATTATTATATTATC
1 TATTTCTAT-TTA-TTATTATTTTTATTATATCTATTATTATATTATCTATTATTATATTATC
*
101618880 TATTTATAATTTATATATTATTTTTA-TATAT-TATTATTATATATAT-T-TTATATATATT-T-
1 TATTTCT-ATTTAT-TATTATTTTTATTATATCTATTATTATAT-TATCTATTAT-TATATTATC
* * * *
101618939 TATTTCTATTTAGTTATTATTTATTTTTATTTCTATTTAGT-TATTATTTAGTTATTAT-TTAT
1 TATTTCTATTTA-TTATTATTT-TTATTATATCTA-TTATTATATTATCTA-TTATTATATTAT
101619001 ATTTAGTATA
Statistics
Matches: 100, Mismatches: 7, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
58 13 0.13
59 9 0.09
60 12 0.12
61 27 0.27
62 28 0.28
63 11 0.11
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (61 bp):
TATTTCTATTTATTATTATTTTTATTATATCTATTATTATATTATCTATTATTATATTATC
Found at i:101618959 original size:11 final size:11
Alignment explanation
Indices: 101618945--101618999 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 11
101618935 ATTTTATTTC
101618945 TATTTAGTTAT
1 TATTTAGTTAT
*
101618956 TATTTATTTTTATT
1 TATTTA--GTTA-T
101618970 TCTATTTAGTTAT
1 T--ATTTAGTTAT
101618983 TATTTAGTTAT
1 TATTTAGTTAT
101618994 TATTTA
1 TATTTA
101619000 TATTTAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 22 0.59
13 5 0.14
14 5 0.14
16 5 0.14
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.67
Consensus pattern (11 bp):
TATTTAGTTAT
Found at i:101618970 original size:27 final size:27
Alignment explanation
Indices: 101618927--101619012 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
101618917 TATATATATT
*
101618927 TTATATATATTTTATTTCTATTTAGTTA
1 TTATTTAT-TTTTATTTCTATTTAGTTA
101618955 TTATTTATTTTTATTTCTATTTAGTTA
1 TTATTTATTTTTATTTCTATTTAGTTA
* *
101618982 TTATTTAGTTATTATTTATATTTAGTATA
1 TTATTTA-TTTTTATTTCTATTTAGT-TA
101619011 TT
1 TT
101619013 TAGAATTTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 26 0.49
28 23 0.43
29 4 0.08
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTATTTATTTTTATTTCTATTTAGTTA
Found at i:101618976 original size:38 final size:38
Alignment explanation
Indices: 101618913--101619015 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 38
101618903 TTATATATTA
*
101618913 TTATTATATATATTTTATATATATTTTA-TT-TCTATTTAG
1 TTATTATTTAT-TTTTATATATA-TTTAGTTAT-TATTTAG
* *
101618952 TTATTATTTATTTTTATTTCTATTTAGTTATTATTTAG
1 TTATTATTTATTTTTATATATATTTAGTTATTATTTAG
* *
101618990 TTATTATTTATATTTA-GTATATTTAG
1 TTATTATTTATTTTTATATATATTTAG
101619016 AATTTATTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 12 0.21
38 33 0.59
39 11 0.20
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (38 bp):
TTATTATTTATTTTTATATATATTTAGTTATTATTTAG
Found at i:101619071 original size:31 final size:33
Alignment explanation
Indices: 101619029--101619102 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 33
101619019 TTATTATTAT
*
101619029 TTAAT-ATTTAATTTAAGT-TAAATAGAA-AAA
1 TTAATAATTTAATTTAAGTATAAATAAAATAAA
*
101619059 TTAATAATTTAATTTAAGTATAATTAAAATAAA
1 TTAATAATTTAATTTAAGTATAAATAAAATAAA
*
101619092 TTATTAATTTA
1 TTAATAATTTA
101619103 TTTTCATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.13
31 13 0.34
32 7 0.18
33 13 0.34
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (33 bp):
TTAATAATTTAATTTAAGTATAAATAAAATAAA
Found at i:101624877 original size:40 final size:39
Alignment explanation
Indices: 101624817--101624980 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 39
101624807 CGGAATTTAA
* ** *
101624817 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGC
* *** *
101624857 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
101624897 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
* * *
101624937 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
101624977 CCGG
1 CCGG
101624981 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 101 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
Found at i:101624961 original size:80 final size:80
Alignment explanation
Indices: 101624817--101624980 Score: 213
Period size: 80 Copynumber: 2.0 Consensus size: 80
101624807 CGGAATTTAA
* * ** *
101624817 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
101624882 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
101624897 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
101624961 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
101624977 CCGG
1 CCGG
101624981 GTATCATTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 70 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:101632859 original size:40 final size:40
Alignment explanation
Indices: 101632814--101632977 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 40
101632804 CGGAATTTAT
* * * *
101632814 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* *** *
101632854 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* *
101632894 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
101632934 CCAGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGC
101632974 CCGG
1 CCGG
101632978 GTATCATTCA
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
40 101 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:101643771 original size:83 final size:83
Alignment explanation
Indices: 101643631--101643797 Score: 289
Period size: 83 Copynumber: 2.0 Consensus size: 83
101643621 CTATCAGTGG
* *
101643631 CAAGTCATGAGGACAAAGCCAACGAAAATAGCTGGTGTTTATAACGTTGATTTGGTCACCATGCT
1 CAAGTCATGAGGACAAAGCCAACGAAAATAGCTGGTGTTTATAACGTTGAATCGGTCACCATGCT
*
101643696 CTCTAATTAGGTAGAACT
66 CTCTAATTAAGTAGAACT
* *
101643714 CAAGTCATGAGGACAAAGCCAACGAAAATAGTTGGTGTTTATAACGTTGAATCGGTCACCATGTT
1 CAAGTCATGAGGACAAAGCCAACGAAAATAGCTGGTGTTTATAACGTTGAATCGGTCACCATGCT
101643779 CTCTAATTAAGTAGAACT
66 CTCTAATTAAGTAGAACT
101643797 C
1 C
101643798 TTGAATAACA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (83 bp):
CAAGTCATGAGGACAAAGCCAACGAAAATAGCTGGTGTTTATAACGTTGAATCGGTCACCATGCT
CTCTAATTAAGTAGAACT
Found at i:101652615 original size:25 final size:25
Alignment explanation
Indices: 101652587--101652634 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101652577 TTATACCATG
* * *
101652587 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
101652612 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
101652635 GTTTATGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:101652703 original size:20 final size:20
Alignment explanation
Indices: 101652678--101652736 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
101652668 TAAATATGGT
101652678 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
101652698 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
101652718 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
101652737 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:101652718 original size:11 final size:11
Alignment explanation
Indices: 101652682--101652736 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
101652672 TATGGTATGT
101652682 ATGATATGCAC
1 ATGATATGCAC
* *
101652693 ATGAAATG--T
1 ATGATATGCAC
101652702 ATGATATGCAC
1 ATGATATGCAC
*
101652713 ATGATATG--T
1 ATGATATGCAC
101652722 ATGATATGCAC
1 ATGATATGCAC
101652733 ATGA
1 ATGA
101652737 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:101652816 original size:24 final size:24
Alignment explanation
Indices: 101652787--101652858 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
101652777 GAGGAAGTGA
101652787 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
101652811 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
101652835 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
101652859 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:101653085 original size:31 final size:31
Alignment explanation
Indices: 101653050--101653144 Score: 163
Period size: 31 Copynumber: 3.1 Consensus size: 31
101653040 CGTTTACAGT
*
101653050 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
101653081 AAAGGCTTCGGCCCAGTAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
101653112 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
101653143 AA
1 AA
101653145 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:101653739 original size:45 final size:45
Alignment explanation
Indices: 101653675--101653766 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
101653665 TGGTACTTAA
101653675 GCAGCCTTCATGGCTCACCTCCTCTGTCTCGGATACCTACCTGGT
1 GCAGCCTTCATGGCTCACCTCCTCTGTCTCGGATACCTACCTGGT
101653720 GCAGCCTTCATGGCTCACCTCCTCTGTCTCGGATACCTACCTGGT
1 GCAGCCTTCATGGCTCACCTCCTCTGTCTCGGATACCTACCTGGT
101653765 GC
1 GC
101653767 CCAACTTCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.13, C:0.38, G:0.21, T:0.28
Consensus pattern (45 bp):
GCAGCCTTCATGGCTCACCTCCTCTGTCTCGGATACCTACCTGGT
Found at i:101657189 original size:29 final size:29
Alignment explanation
Indices: 101657157--101657316 Score: 207
Period size: 30 Copynumber: 5.5 Consensus size: 29
101657147 ATAGTGAATC
101657157 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
101657186 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
101657216 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
** *
101657245 CGCACACTTAGTGCT-T-TATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
101657273 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
101657303 CGCACACTTAGTGC
1 CGCACACTTAGTGC
101657317 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
27 5 0.04
28 19 0.16
29 45 0.38
30 46 0.39
31 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:101657212 original size:30 final size:30
Alignment explanation
Indices: 101657157--101657316 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
101657147 ATAGTGAATC
101657157 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
101657186 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
101657216 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
101657245 CGCACACTTAGTGCTTTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
101657273 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
101657303 CGCACACTTAGTGC
1 CGCACACTTAGTGC
101657317 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:101657249 original size:59 final size:57
Alignment explanation
Indices: 101657157--101657316 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
101657147 ATAGTGAATC
*
101657157 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
101657216 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTTTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
101657273 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
101657317 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:101663931 original size:20 final size:20
Alignment explanation
Indices: 101663906--101663964 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
101663896 TAAATATGGT
101663906 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
101663926 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
101663946 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
101663965 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:101663946 original size:11 final size:11
Alignment explanation
Indices: 101663910--101663964 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
101663900 TATGGTATGT
101663910 ATGATATGCAC
1 ATGATATGCAC
* *
101663921 ATGAAATG--T
1 ATGATATGCAC
101663930 ATGATATGCAC
1 ATGATATGCAC
*
101663941 ATGATATG--T
1 ATGATATGCAC
101663950 ATGATATGCAC
1 ATGATATGCAC
101663961 ATGA
1 ATGA
101663965 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:101664044 original size:24 final size:24
Alignment explanation
Indices: 101664015--101664086 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
101664005 GAGGAAGTGA
101664015 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
101664039 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
101664063 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
101664087 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:101664313 original size:31 final size:31
Alignment explanation
Indices: 101664278--101664372 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
101664268 CGTTTACAGT
101664278 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
101664309 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
101664340 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
101664371 AA
1 AA
101664373 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:101668300 original size:40 final size:40
Alignment explanation
Indices: 101668139--101668306 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
101668129 CAATTGAATG
* * *
101668139 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG-GTT
* * *
101668180 -TATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* * * * *
101668219 ATATCCGGGCTAATACCTGAAGGCATTTGTGCGAATCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* *
101668259 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
101668299 ATATCCGG
1 ATATCCGG
101668307 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.05
40 103 0.95
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
Found at i:101670620 original size:40 final size:40
Alignment explanation
Indices: 101670516--101670759 Score: 336
Period size: 40 Copynumber: 6.2 Consensus size: 40
101670506 AAACCAAGTA
* * *
101670516 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
101670555 TCTTCGGGAC-TAGCCC-GATTCTAGTACCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
101670594 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
101670634 CCTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
101670674 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
101670714 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
101670754 CCTTCG
1 CCTTCG
101670760 TTATCATCCA
Statistics
Matches: 184, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
38 5 0.03
39 35 0.19
40 142 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:101678672 original size:40 final size:40
Alignment explanation
Indices: 101678554--101678796 Score: 334
Period size: 40 Copynumber: 6.2 Consensus size: 40
101678544 AAACCAAGTA
* * *
101678554 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
101678593 TCTTCGGGAC-TAGCCCGGTTATAG-ACCTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
101678631 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
101678671 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
101678711 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
101678751 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
101678791 CCTTCG
1 CCTTCG
101678797 TTATCATCCA
Statistics
Matches: 182, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 20 0.11
39 31 0.17
40 131 0.72
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:101686179 original size:46 final size:45
Alignment explanation
Indices: 101685997--101686181 Score: 180
Period size: 46 Copynumber: 4.0 Consensus size: 45
101685987 TCACTTGTGT
* * * *
101685997 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTACAA
1 GAGCTAGTGTAAGACATGTCT-AGACATGCATCGGCTACGA-GACGA
* *
101686043 GAGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGC-ATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTA-GACAT-GCATCGGCTA-CGAGACGA
* *
101686091 GTGCTAGTGTAAGACATGTCTAGAACATGCATCGACCT-CGAGACGCA
1 GAGCTAGTGTAAGACATGTCTAG-ACATGCATCG-GCTACGAGACG-A
101686138 -AGCTAGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGACG
1 GAGCTAGTGTAAGACATGTCT-AGACATGCATCGGCTACGAGACG
101686182 TGTCAATGTA
Statistics
Matches: 117, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
45 2 0.02
46 63 0.54
47 27 0.23
48 24 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTAGACATGCATCGGCTACGAGACGA
Found at i:101687035 original size:42 final size:42
Alignment explanation
Indices: 101686976--101687109 Score: 216
Period size: 42 Copynumber: 3.2 Consensus size: 42
101686966 GTCCACACGG
* * *
101686976 GTGTCTAGACCGTGTGTGACACACGGTCTACC-CTATGGGCGT
1 GTGTCTAGACTGTGTGTGACGCACGGTCTGCCAC-ATGGGCGT
101687018 GTGTCTAGACTGTGTGTGACGCACGGTCTGCCACATGGGCGT
1 GTGTCTAGACTGTGTGTGACGCACGGTCTGCCACATGGGCGT
101687060 GTGTCTAGACTGTGTGTGACGCACGGTCTGCCACATGGGCGT
1 GTGTCTAGACTGTGTGTGACGCACGGTCTGCCACATGGGCGT
101687102 GTGGTCTA
1 GT-GTCTA
101687110 ACCATGTGTC
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
42 81 0.93
43 6 0.07
ACGTcount: A:0.15, C:0.24, G:0.34, T:0.27
Consensus pattern (42 bp):
GTGTCTAGACTGTGTGTGACGCACGGTCTGCCACATGGGCGT
Found at i:101690477 original size:25 final size:25
Alignment explanation
Indices: 101690448--101690495 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101690438 TTATAATATG
* * *
101690448 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
101690473 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
101690496 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:101690564 original size:20 final size:20
Alignment explanation
Indices: 101690539--101690597 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
101690529 TAAATATGGT
101690539 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
101690559 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
101690579 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
101690598 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:101690678 original size:23 final size:24
Alignment explanation
Indices: 101690648--101690742 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
101690638 GAGGAAGTGA
101690648 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
101690671 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
101690695 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
101690719 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
101690743 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:101690716 original size:47 final size:49
Alignment explanation
Indices: 101690649--101690742 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
101690639 AGGAAGTGAA
*
101690649 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
101690696 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
101690743 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:101690985 original size:38 final size:38
Alignment explanation
Indices: 101690934--101691096 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
101690924 CGTTTACAGT
101690934 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
101690972 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
101691003 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
101691041 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
101691079 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
101691097 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:101690996 original size:31 final size:31
Alignment explanation
Indices: 101690958--101691073 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
101690948 AGTATTATGA
101690958 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
101690989 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
101691025 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
101691058 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
101691074 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:101691010 original size:69 final size:69
Alignment explanation
Indices: 101690934--101691073 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
101690924 CGTTTACAGT
101690934 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
101690999 ATGA
66 ATGA
*
101691003 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
101691068 ATGA
66 ATGA
101691072 AA
1 AA
101691074 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:101698718 original size:25 final size:25
Alignment explanation
Indices: 101698689--101698736 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101698679 TTATAATATG
* * *
101698689 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
101698714 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
101698737 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:101698805 original size:20 final size:20
Alignment explanation
Indices: 101698780--101698838 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
101698770 TAAATATGGT
101698780 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
101698800 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
101698820 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
101698839 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:101698919 original size:23 final size:24
Alignment explanation
Indices: 101698889--101698983 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
101698879 GAGGAAGTGA
101698889 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
101698912 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
101698936 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
101698960 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
101698984 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:101698957 original size:47 final size:49
Alignment explanation
Indices: 101698890--101698983 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
101698880 AGGAAGTGAA
*
101698890 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
101698937 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
101698984 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:101699226 original size:38 final size:38
Alignment explanation
Indices: 101699175--101699337 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
101699165 CGTTTACAGT
101699175 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
101699213 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
101699244 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
101699282 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
101699320 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
101699338 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:101699237 original size:31 final size:31
Alignment explanation
Indices: 101699199--101699314 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
101699189 AGTATTATGA
101699199 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
101699230 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
101699266 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
101699299 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
101699315 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:101699251 original size:69 final size:69
Alignment explanation
Indices: 101699175--101699314 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
101699165 CGTTTACAGT
101699175 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
101699240 ATGA
66 ATGA
*
101699244 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
101699309 ATGA
66 ATGA
101699313 AA
1 AA
101699315 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:101702363 original size:61 final size:63
Alignment explanation
Indices: 101702261--101702386 Score: 229
Period size: 61 Copynumber: 2.0 Consensus size: 63
101702251 TACAAATGAC
101702261 CCATTGTGAGTACACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCG
1 CCATTGTGAGTA-ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCG
101702325 CCATTGTGAGT-ACGTGTGT-GTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCG
1 CCATTGTGAGTAACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCG
101702386 C
1 C
101702387 ATATGTAGTA
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
61 43 0.69
62 8 0.13
64 11 0.18
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (63 bp):
CCATTGTGAGTAACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCG
Found at i:101702468 original size:100 final size:100
Alignment explanation
Indices: 101702336--101702519 Score: 280
Period size: 100 Copynumber: 1.8 Consensus size: 100
101702326 CATTGTGAGT
* * * *
101702336 ACGTGTGTGTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCGCATATGTAGTACTAA
1 ACGTGTGTGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAAGTCACATATGTAGTACTAA
101702401 GTGCA-GCTACTATGCGTACTCAATGACTTCGATC
66 GTGCAGGCTACTATGCGTACTCAATGACTTCGATC
* * * *
101702435 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTA
1 ACGTGTGT-GTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAAGTCACATATGTAGTACTA
101702500 AGTGCAGGCTACTATGCGTA
65 AGTGCAGGCTACTATGCGTA
101702520 TCAGATAGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
99 8 0.11
100 54 0.72
101 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
ACGTGTGTGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAAGTCACATATGTAGTACTAA
GTGCAGGCTACTATGCGTACTCAATGACTTCGATC
Found at i:101702521 original size:50 final size:50
Alignment explanation
Indices: 101702336--101702525 Score: 206
Period size: 50 Copynumber: 3.8 Consensus size: 50
101702326 CATTGTGAGT
* * * * *
101702336 ACGTGTGT-GTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTC
* * * * * * *
101702385 GCATATGTAGTACTAAGTGCA-GCTACTATGCGTACTCA-ATGACTTCGATC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATG-GTTAGGTC
* *
101702435 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTC
*
101702485 ACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
101702526 AGCTTCGGCT
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 18 0.16
50 82 0.72
51 14 0.12
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTC
Found at i:101707124 original size:28 final size:27
Alignment explanation
Indices: 101707061--101707130 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
101707051 ATAGTGAGTC
101707061 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
101707088 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
101707116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
101707131 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:101714940 original size:28 final size:27
Alignment explanation
Indices: 101714877--101714946 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
101714867 ATAGTGAGTC
101714877 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
101714904 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
101714932 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
101714947 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:101717900 original size:40 final size:37
Alignment explanation
Indices: 101717851--101717960 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 37
101717841 TAATCCATGT
*
101717851 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGCAA---CTA
*
101717891 GCACGAATGCCTTCGGGTCTTAGCCCGGTATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGG-ATAGCAACTA
*
101717930 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
101717961 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 5 0.08
39 26 0.41
40 27 0.43
41 4 0.06
42 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.25
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGCAACTA
Found at i:101717984 original size:79 final size:79
Alignment explanation
Indices: 101717851--101717997 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
101717841 TAATCCATGT
*
101717851 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
101717915 CCGGTATAGCCACTA
65 CCGGTATAGCCACTA
* * * * *
101717930 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
101717993 CCCGG
64 CCCGG
101717998 ATATCATTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
78 3 0.05
79 55 0.93
80 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGTATAGCCACTA
Found at i:101720532 original size:29 final size:29
Alignment explanation
Indices: 101720499--101720629 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
101720489 TGACGAGATC
*
101720499 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
101720528 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
101720557 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
101720586 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
101720615 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
101720630 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:101726608 original size:18 final size:18
Alignment explanation
Indices: 101726585--101726620 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
101726575 TTCGATGTAA
101726585 GGCACATGGCCGTGTCCT
1 GGCACATGGCCGTGTCCT
101726603 GGCACATGGCCGTGTCCT
1 GGCACATGGCCGTGTCCT
101726621 AGCCCATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.33, T:0.22
Consensus pattern (18 bp):
GGCACATGGCCGTGTCCT
Found at i:101726628 original size:18 final size:18
Alignment explanation
Indices: 101726586--101726628 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
101726576 TCGATGTAAG
*
101726586 GCACATGGCCGTGTCCTG
1 GCACATGGCCGTGTCCTA
101726604 GCACATGGCCGTGTCCTA
1 GCACATGGCCGTGTCCTA
*
101726622 GCCCATG
1 GCACATG
101726629 TCCTTACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.35, G:0.30, T:0.21
Consensus pattern (18 bp):
GCACATGGCCGTGTCCTA
Found at i:101727366 original size:24 final size:24
Alignment explanation
Indices: 101727328--101727378 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
101727318 CGAGCACTAA
101727328 TAAAACAGAGAAAAGAAAACCTAG
1 TAAAACAGAGAAAAGAAAACCTAG
* * *
101727352 TAAAACTGAGTAAAGAAAATCTAG
1 TAAAACAGAGAAAAGAAAACCTAG
101727376 TAA
1 TAA
101727379 GCATTTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.16
Consensus pattern (24 bp):
TAAAACAGAGAAAAGAAAACCTAG
Found at i:101727812 original size:23 final size:24
Alignment explanation
Indices: 101727778--101727822 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
101727768 CTATATAATG
*
101727778 GGAAGCTTAT-AAGAGCCATATCA
1 GGAAGCTTATAAAGAACCATATCA
101727801 GGAAG-TTCATAAAGAACCATAT
1 GGAAGCTT-ATAAAGAACCATAT
101727823 AGGGAAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 7 0.37
24 10 0.53
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (24 bp):
GGAAGCTTATAAAGAACCATATCA
Found at i:101729521 original size:13 final size:13
Alignment explanation
Indices: 101729505--101729530 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101729495 TTATTTACCG
101729505 AAATTATTATAAT
1 AAATTATTATAAT
101729518 AAATTATTATAAT
1 AAATTATTATAAT
101729531 TATGATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:101733274 original size:19 final size:20
Alignment explanation
Indices: 101733250--101733288 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
101733240 ATTATTTTTT
101733250 AAATTG-AAAATATTTATAA
1 AAATTGAAAAATATTTATAA
101733269 AAATTGAAAAAATATTTATA
1 AAATTG-AAAAATATTTATA
101733289 CTTTGAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATTGAAAAATATTTATAA
Found at i:101735954 original size:29 final size:29
Alignment explanation
Indices: 101735921--101735994 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
101735911 CCTTCGAGCT
101735921 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
101735950 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
101735979 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
101735995 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:101735955 original size:58 final size:58
Alignment explanation
Indices: 101735862--101735994 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
101735852 ATACTCGATT
* * * * *
101735862 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
101735920 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
101735978 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
101735995 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:101743835 original size:29 final size:29
Alignment explanation
Indices: 101743802--101743875 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
101743792 CCTTCGAGCT
101743802 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
101743831 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
101743860 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
101743876 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:101743836 original size:58 final size:58
Alignment explanation
Indices: 101743743--101743875 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
101743733 ATACTCGATT
* * * * *
101743743 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
101743801 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
101743859 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
101743876 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:101749736 original size:51 final size:49
Alignment explanation
Indices: 101749615--101749838 Score: 270
Period size: 50 Copynumber: 4.5 Consensus size: 49
101749605 TGAGGTCATG
* *
101749615 TGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCACA
* * *
101749663 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT-GGTCACA
* * * ** *
101749714 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT-GGTCACA
* * * *
101749764 TGTGTAGTACTAAGTGTAGGATACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCACA
*
101749813 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
101749839 TGCATACTAG
Statistics
Matches: 150, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
48 26 0.17
49 40 0.27
50 45 0.30
51 39 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCACA
Found at i:101749819 original size:99 final size:99
Alignment explanation
Indices: 101749615--101749838 Score: 290
Period size: 99 Copynumber: 2.3 Consensus size: 99
101749605 TGAGGTCATG
* *
101749615 TGTGTAGTACTAAGTGCAGGCTACTACTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 TGTGTAGTACTAAGTGCAGGCTACTACTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGC
* *
101749680 AGGCTACTATGCGTACCCGATAACTTCGATCACA
66 AGGATACTACGCGTACCCGATAACTTCGATCACA
* ** *
101749714 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGATAATT-GGTCACATGTGTAGTACTAAGT
* * * * *
101749779 GTAGGATACTACGTGTACCGGATAA-TT-GGTCGCA
64 GCAGGATACTACGCGTACCCGATAACTTCGATCACA
*
101749813 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
101749839 TGCATACTAG
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 57 0.52
100 12 0.11
101 40 0.37
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGC
AGGATACTACGCGTACCCGATAACTTCGATCACA
Found at i:101753112 original size:79 final size:82
Alignment explanation
Indices: 101752976--101753158 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 82
101752966 TCGAATGATG
* *
101752976 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
101753040 TGTGCGAGTTACTA-AT
66 TGTGCGAGTTACTATAA
* * **
101753056 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
101753118 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
* *
101753136 T-CGAGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
101753159 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:101753167 original size:40 final size:40
Alignment explanation
Indices: 101752976--101753160 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
101752966 TCGAATGATG
* * *
101752976 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
101753016 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
101753056 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
101753095 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
101753136 T-CGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
101753161 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:101753182 original size:79 final size:78
Alignment explanation
Indices: 101753010--101753183 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 78
101753000 GTGCTAAGTG
* * *
101753010 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGCTAAGCCCGAAGG
**
101753075 CATTGGTGCGAGTT
65 CATTGGAACGAGTT
* *
101753089 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGAGCTATGTCCCGA
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGAGCTAAG-CCCGA
*
101753152 AGGCATTTGAACGAG-T
62 AGGCATTGGAACGAGTT
101753168 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
101753184 ATTTCGAAGG
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 52 0.64
80 28 0.35
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGCTAAGCCCGAAGGC
ATTGGAACGAGTT
Found at i:101756802 original size:42 final size:42
Alignment explanation
Indices: 101756755--101756861 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
101756745 TATTGGTCTC
101756755 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
101756797 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
101756839 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
101756862 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:101756926 original size:27 final size:28
Alignment explanation
Indices: 101756869--101756938 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
101756859 AAAATTGTAC
**
101756869 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
101756897 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
101756924 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
101756939 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:101762309 original size:39 final size:40
Alignment explanation
Indices: 101762174--101762394 Score: 360
Period size: 40 Copynumber: 5.6 Consensus size: 40
101762164 GATGATAATG
101762174 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
101762214 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
101762254 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
101762294 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* *
101762333 GGGCTAAGTCCCGAAGGCATTTGTGCAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
101762372 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
101762395 AGCGAGTAGC
Statistics
Matches: 175, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
38 2 0.01
39 66 0.38
40 107 0.61
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:101762346 original size:79 final size:80
Alignment explanation
Indices: 101762174--101762426 Score: 367
Period size: 79 Copynumber: 3.2 Consensus size: 80
101762164 GATGATAATG
101762174 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
* *
101762239 CTAGTGACTA-ATTCC
66 CGAGTTACTATA-TCC
101762254 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC-GGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
101762318 CGAGTTACTATATCC
66 CGAGTTACTATATCC
* * *
101762333 GGGCTAAGTCCCGAAGGCATTTGTGCAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
101762396 GCGAG-TAGCTATAT-C
65 GCGAGTTA-CTATATCC
* *
101762411 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
101762427 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
77 16 0.10
78 9 0.06
79 96 0.59
80 41 0.25
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:101770353 original size:79 final size:80
Alignment explanation
Indices: 101770222--101770475 Score: 358
Period size: 79 Copynumber: 3.2 Consensus size: 80
101770212 GATGATAACG
* *
101770222 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT-CGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
101770286 CTAGTGACTA-ATTCC
66 CGAGTGACTATA-TCC
101770301 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
101770365 CGAGTTACTATATCC
66 CGAGTGACTATATCC
** *
101770380 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
101770444 GCGAGT-AGCTATATCC
65 GCGAGTGA-CTATATCC
* *
101770460 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
101770476 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
78 26 0.16
79 72 0.45
80 63 0.39
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTGACTATATCC
Found at i:101770365 original size:40 final size:40
Alignment explanation
Indices: 101770222--101770449 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
101770212 GATGATAACG
* *
101770222 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
101770261 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
101770301 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
101770340 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
101770380 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
101770420 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
101770450 AGCTATATCC
Statistics
Matches: 179, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
39 77 0.43
40 102 0.57
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:101770456 original size:40 final size:38
Alignment explanation
Indices: 101770222--101770475 Score: 332
Period size: 40 Copynumber: 6.4 Consensus size: 38
101770212 GATGATAACG
* *
101770222 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATCC
*
101770261 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAA-TCC
101770301 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAA-TCC
101770340 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-ATCC
*
101770380 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTA-ATCC
*
101770420 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTA-ATCC
* *
101770460 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
101770476 TACTTGGTTT
Statistics
Matches: 202, Mismatches: 7, Indels: 12
0.91 0.03 0.05
Matches are distributed among these distances:
39 89 0.44
40 111 0.55
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATCC
Found at i:101772848 original size:40 final size:41
Alignment explanation
Indices: 101772782--101772986 Score: 205
Period size: 40 Copynumber: 5.2 Consensus size: 41
101772772 AAATTGAATG
* * **
101772782 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTCGTGC-GAGTTATT
* * ***
101772821 ATATCCGGGTTAAGACCCGAAGGCAA-T--TGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTTATT
101772859 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTTATT
*
101772899 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTTATT
* * *
101772939 CTATCCGGGCTAAGACCCGAAGGC-ATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTCGTGCGA-GTTATT
101772979 ATATCCGG
1 ATATCCGG
101772987 TTATATTCCG
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
37 1 0.01
38 29 0.20
39 15 0.10
40 99 0.69
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTTATT
Found at i:101779991 original size:14 final size:14
Alignment explanation
Indices: 101779972--101779999 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101779962 TTTGGAAGTG
101779972 TATATATATACATA
1 TATATATATACATA
101779986 TATATATATACATA
1 TATATATATACATA
101780000 AGTATGCCCG
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATACATA
Found at i:101780530 original size:27 final size:28
Alignment explanation
Indices: 101780476--101780543 Score: 129
Period size: 27 Copynumber: 2.5 Consensus size: 28
101780466 ATTGGTACAT
101780476 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATTATATAG
101780504 CACTAAGTGTGCGAG-TTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATTATATAG
101780531 CACTAAGTGTGCG
1 CACTAAGTGTGCG
101780544 GAATCACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTATATAG
Found at i:101787985 original size:12 final size:12
Alignment explanation
Indices: 101787968--101787993 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101787958 TTTGGAAGTG
101787968 TATATATATACA
1 TATATATATACA
101787980 TATATATATACA
1 TATATATATACA
101787992 TA
1 TA
101787994 AGTATGCCCG
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:101788524 original size:27 final size:28
Alignment explanation
Indices: 101788468--101788537 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
101788458 AAATTGGTAC
101788468 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
101788496 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
101788523 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
101788538 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:101792853 original size:40 final size:40
Alignment explanation
Indices: 101792666--101792871 Score: 297
Period size: 40 Copynumber: 5.2 Consensus size: 40
101792656 GGACTAAGAT
* * * *
101792666 CCGAAGGCATTTGTGCTAGTGACTATATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
101792706 CCGAAGGCATTTTTCCGAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
101792746 CCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
101792786 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** * *
101792826 CCGAAGGCATTTGTGCGAGTTGTTATATCC-AGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
101792865 CCGAAGG
1 CCGAAGG
101792872 TACTTGGGTT
Statistics
Matches: 152, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.09
40 138 0.91
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:101803628 original size:40 final size:40
Alignment explanation
Indices: 101803573--101803698 Score: 218
Period size: 40 Copynumber: 3.1 Consensus size: 40
101803563 TATTCGAATG
101803573 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
101803613 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
101803653 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
101803693 ATATCC
1 ATATCC
101803699 AGCTAAATCC
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
40 81 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:101823028 original size:29 final size:29
Alignment explanation
Indices: 101822938--101823097 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
101822928 ACTCGATTTC
* * **
101822938 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
101822967 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
101822995 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
101823025 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
101823054 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
101823083 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
101823098 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:101830163 original size:28 final size:28
Alignment explanation
Indices: 101830131--101830201 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
101830121 AATGAGATTG
*
101830131 GCACTAAGTGTGTGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
101830159 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
101830187 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
101830202 CTTTATCGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:101846334 original size:44 final size:44
Alignment explanation
Indices: 101846242--101846346 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
101846232 GGGTGTTACA
* * * * * **
101846242 CTTTGTGGCATATTCTGATTTGGTCTTTGTGGTATTCTGTCATT
1 CTTTGTGGCGTATTCTGATTTGGCCGTTGTGGCAATCTGTCAGC
* *
101846286 CTTTGTGGCGCATTCTGATTTGGCCGTTGTGGCAATCTGTTAGC
1 CTTTGTGGCGTATTCTGATTTGGCCGTTGTGGCAATCTGTCAGC
*
101846330 CTTTGTGGTGTATTCTG
1 CTTTGTGGCGTATTCTG
101846347 TTTAACTATT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.10, C:0.16, G:0.27, T:0.47
Consensus pattern (44 bp):
CTTTGTGGCGTATTCTGATTTGGCCGTTGTGGCAATCTGTCAGC
Found at i:101851462 original size:29 final size:29
Alignment explanation
Indices: 101851420--101851478 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
101851410 ATCACATTGC
101851420 TTTGTTACTTTGCATATCCTTTATGTGTT
1 TTTGTTACTTTGCATATCCTTTATGTGTT
*
101851449 TTTGTTGCTTTGCATATCCTTTATGTGTT
1 TTTGTTACTTTGCATATCCTTTATGTGTT
101851478 T
1 T
101851479 CCTAGCTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.12, C:0.14, G:0.15, T:0.59
Consensus pattern (29 bp):
TTTGTTACTTTGCATATCCTTTATGTGTT
Found at i:101852471 original size:89 final size:88
Alignment explanation
Indices: 101852269--101852542 Score: 327
Period size: 89 Copynumber: 3.1 Consensus size: 88
101852259 AGTACTCACA
* * *
101852269 ACAAAGGCTTCCTTTTCCAGAGATTTGTCAAAAAGGCATTC-TTTTCATTTAGTACTCACCGAAA
1 ACAAAGGCTTTCTTTTCCAGAGATTTGCCAAAAAGGCA-TCATTTTCATTCAGTACTCACC-AAA
* *** *
101852333 A-GCTTCCCTTTTGAAATATTTGCC
64 AGGCTTTCCTTACCATATATTTGCC
* * * * * *
101852357 ACAAAGGTTTTCATTTCCAGGGATTTGCCATAAAGGCATCATTTTCGTTCAGTATTCACCATAAA
1 ACAAAGGCTTTCTTTTCCAGAGATTTGCCAAAAAGGCATCATTTTCATTCAGTACTCACCA-AAA
101852422 GGCTTTCCTTACCATATATTTGCC
65 GGCTTTCCTTACCATATATTTGCC
* * * * *
101852446 ATAAAGGCTTTCTTTTTCAGAGATTTTCCACAAAGTCATCATTTTCATTCAGTACTCACCACAAA
1 ACAAAGGCTTTCTTTTCCAGAGATTTGCCAAAAAGGCATCATTTTCATTCAGTACTCACCA-AAA
101852511 GGCTTTCCTTACCATATATTTGCC
65 GGCTTTCCTTACCATATATTTGCC
101852535 ACAAAGGC
1 ACAAAGGC
101852543 ATCTATTTCA
Statistics
Matches: 157, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
87 3 0.02
88 51 0.32
89 103 0.66
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (88 bp):
ACAAAGGCTTTCTTTTCCAGAGATTTGCCAAAAAGGCATCATTTTCATTCAGTACTCACCAAAAG
GCTTTCCTTACCATATATTTGCC
Found at i:101852512 original size:60 final size:60
Alignment explanation
Indices: 101852448--101852604 Score: 208
Period size: 60 Copynumber: 2.6 Consensus size: 60
101852438 TATTTGCCAT
* * * * * * *
101852448 AAAGGCTTTCTTTTTCAGAGATTTTCCACAAAGTCATC-ATTTTCATTCAGTACTCACCAC
1 AAAGGCTTTCCTTTCCATAAATTTGCCACAAAGGCATCTA-TTTCATTCAGTAATCACCAC
* * *
101852508 AAAGGCTTTCCTTACCATATATTTGCCACAAAGGCATCTATTTCATTCATTAATCACCAC
1 AAAGGCTTTCCTTTCCATAAATTTGCCACAAAGGCATCTATTTCATTCAGTAATCACCAC
101852568 AAAGGCTTTCCTTTCCATAAATTTGCCACAAAGGCAT
1 AAAGGCTTTCCTTTCCATAAATTTGCCACAAAGGCAT
101852605 TTCCTTTTTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
60 84 0.99
61 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (60 bp):
AAAGGCTTTCCTTTCCATAAATTTGCCACAAAGGCATCTATTTCATTCAGTAATCACCAC
Found at i:101852540 original size:29 final size:29
Alignment explanation
Indices: 101852419--101852610 Score: 91
Period size: 29 Copynumber: 6.4 Consensus size: 29
101852409 TATTCACCAT
*
101852419 AAAGGCTTTCCTTACCATATATTTGCCAT
1 AAAGGCTTTCCTTACCATATATTTGCCAC
* ** * * *
101852448 AAAGGCTTTCTTTTTCAGAGATTTTCCAC
1 AAAGGCTTTCCTTACCATATATTTGCCAC
* * * ** * **
101852477 AAAGTC-ATCATTTTCATTCAGTACTCACCAC
1 AAAGGCTTTCCTTACCA-T-A-TATTTGCCAC
101852508 AAAGGCTTTCCTTACCATATATTTGCCAC
1 AAAGGCTTTCCTTACCATATATTTGCCAC
* ** * * **
101852537 AAAGGCATCTATTTCATTCAT-TAATCACCAC
1 AAAGGC-TTTCCTT-A-CCATATATTTGCCAC
* *
101852568 AAAGGCTTTCCTTTCCATAAATTTGCCAC
1 AAAGGCTTTCCTTACCATATATTTGCCAC
101852597 AAAGGCATTTCCTT
1 AAAGGC-TTTCCTT
101852611 TTTGAGGTTT
Statistics
Matches: 115, Mismatches: 39, Indels: 17
0.67 0.23 0.10
Matches are distributed among these distances:
28 11 0.10
29 52 0.45
30 17 0.15
31 26 0.23
32 9 0.08
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (29 bp):
AAAGGCTTTCCTTACCATATATTTGCCAC
Found at i:101861212 original size:41 final size:41
Alignment explanation
Indices: 101861155--101861238 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
101861145 AACCTGATGG
101861155 TACTAGATGTTTAGCTTTGACTTGGTGACAGATCAAACATT
1 TACTAGATGTTTAGCTTTGACTTGGTGACAGATCAAACATT
* *
101861196 TACTAGATGTTTAGCTTTGACTTGGTGATAGATCAATCATT
1 TACTAGATGTTTAGCTTTGACTTGGTGACAGATCAAACATT
101861237 TA
1 TA
101861239 GAAACAAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (41 bp):
TACTAGATGTTTAGCTTTGACTTGGTGACAGATCAAACATT
Found at i:101869076 original size:46 final size:46
Alignment explanation
Indices: 101869026--101869198 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
101869016 TGGTTGAGCA
* * *
101869026 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGTTGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
101869072 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* **
101869119 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
*
101869165 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
101869199 GGGGCAGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:101869182 original size:93 final size:93
Alignment explanation
Indices: 101869023--101869193 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
101869013 GGATGGTTGA
* * * *
101869023 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGTTGTAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
101869088 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
101869116 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
101869180 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
101869194 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:101869460 original size:19 final size:20
Alignment explanation
Indices: 101869423--101869460 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
101869413 ATAAGGTGGT
101869423 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
101869443 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
101869461 TGGTGGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:101872185 original size:24 final size:25
Alignment explanation
Indices: 101872146--101872210 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
101872136 GCTTAAATGA
101872146 TAAGCTCTACGAGCTGA-AAAT-AG
1 TAAGCTCTACGAGCTGATAAATCAG
*
101872169 TAAGCTCTTACGAGCTGATATATCAG
1 TAAGCTC-TACGAGCTGATAAATCAG
101872195 TAAGCTCATACGAGCT
1 TAAGCTC-TACGAGCT
101872211 ATGGTGAGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 7 0.19
24 10 0.27
25 3 0.08
26 17 0.46
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (25 bp):
TAAGCTCTACGAGCTGATAAATCAG
Found at i:101875117 original size:43 final size:41
Alignment explanation
Indices: 101875069--101875223 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 41
101875059 TGTGTTTTCA
*
101875069 TGTAAGACCACATCTGGGACATTGGCATCGATCTGTGATTATG
1 TGTAAGACCACGTCTGGGACATTGGCATCGAT-TGTGATTA-G
* * * *
101875112 TGTAAGACCATGTCTGGGACATCGACATCGTATT-TGATTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATTGTGATTAG
* *
101875153 TATAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGA-TAG
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TGTGATTAG
**
101875194 CATGTAAGACCACGTCTGGGATTTTGGCAT
1 --TGTAAGACCACGTCTGGGACATTGGCAT
101875224 TGTATGATAT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.31
42 8 0.09
43 49 0.54
44 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTGTGATTAG
Found at i:101881111 original size:49 final size:50
Alignment explanation
Indices: 101880919--101881116 Score: 245
Period size: 50 Copynumber: 4.0 Consensus size: 50
101880909 ATGATGTAGC
* * *
101880919 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T
* * * * * * *
101880970 TCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAAT
* * *
101881020 TAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAAT
* *
101881070 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
101881117 GTTTGGCTAC
Statistics
Matches: 124, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
49 41 0.33
50 44 0.35
51 39 0.31
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAAT
Found at i:101881129 original size:99 final size:101
Alignment explanation
Indices: 101880919--101881132 Score: 281
Period size: 99 Copynumber: 2.1 Consensus size: 101
101880909 ATGATGTAGC
* * * *
101880919 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGT
1 TAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGT
* *
101880984 AGTACTAAGTGCAAGCTACTACGTGTATCAGATAGT
66 AGTACTAAGTGCAAGCTACTACGCGTACCAGATAGT
* * * *
101881020 TAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGT
1 TAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGT
* *
101881083 AGTACTAAGTGCAGGCTACTATGCGTACCAGATAGT
66 AGTACTAAGTGCAAGCTACTACGCGTACCAGATAGT
*
101881119 TTGG-CTACATATGT
1 TAGGTC-ACATATGT
101881133 GGCACTTATG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
98 1 0.01
99 52 0.53
100 2 0.02
101 44 0.44
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGT
AGTACTAAGTGCAAGCTACTACGCGTACCAGATAGT
Found at i:101885437 original size:18 final size:18
Alignment explanation
Indices: 101885401--101885435 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
101885391 GTTGAGCCGA
*
101885401 AATGGGCTATGTGGGCCC
1 AATGGGCTACGTGGGCCC
101885419 AATGGGCT-CGTGGGCCC
1 AATGGGCTACGTGGGCCC
101885436 CACATAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (18 bp):
AATGGGCTACGTGGGCCC
Found at i:101891805 original size:47 final size:47
Alignment explanation
Indices: 101891751--101891844 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
101891741 TTATCTAACT
101891751 GAACACACAAACAATTAAATTTTCATACGAAACTTTCACACATGCGA
1 GAACACACAAACAATTAAATTTTCATACGAAACTTTCACACATGCGA
101891798 GAACACACAAACAATTAAATTTTCATACGAAACTTTCACACATGCGA
1 GAACACACAAACAATTAAATTTTCATACGAAACTTTCACACATGCGA
101891845 ATTCACATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (47 bp):
GAACACACAAACAATTAAATTTTCATACGAAACTTTCACACATGCGA
Found at i:101901820 original size:46 final size:46
Alignment explanation
Indices: 101901767--101901942 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
101901757 TATTTGGGCA
101901767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
101901813 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
101901860 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
101901906 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101901943 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:101901922 original size:93 final size:93
Alignment explanation
Indices: 101901763--101901934 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
101901753 GGGATATTTG
* *
101901763 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
101901828 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
101901856 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
101901921 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
101901935 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:101904877 original size:15 final size:15
Alignment explanation
Indices: 101904857--101904925 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
101904847 GTATCTTGGG
101904857 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
101904872 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
101904887 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
101904902 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
101904917 TTTCTTTAT
1 TTTCTTTAT
101904926 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:101904926 original size:30 final size:30
Alignment explanation
Indices: 101904848--101904935 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
101904838 CATAGTATCG
* * * *
101904848 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
101904878 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
101904908 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
101904936 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:101907372 original size:46 final size:46
Alignment explanation
Indices: 101907319--101907494 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
101907309 TATTTGGGCA
101907319 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
101907365 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
101907412 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
101907458 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101907495 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:101907474 original size:93 final size:93
Alignment explanation
Indices: 101907315--101907486 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
101907305 GGGATATTTG
* *
101907315 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
101907380 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
101907408 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
101907473 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
101907487 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:101913231 original size:19 final size:19
Alignment explanation
Indices: 101913207--101913246 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
101913197 AGCTCCCATG
101913207 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
101913226 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
101913245 TA
1 TA
101913247 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:101914505 original size:14 final size:14
Alignment explanation
Indices: 101914483--101914530 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
101914473 ACCTAAACCG
* *
101914483 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
101914497 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
101914511 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
101914525 ACCATT
1 ACCATT
101914531 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:101914907 original size:11 final size:11
Alignment explanation
Indices: 101914891--101914932 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
101914881 TATACAAGTT
101914891 AAAAAAAATCA
1 AAAAAAAATCA
101914902 AAAAAAAATTCA
1 AAAAAAAA-TCA
101914914 AAAAAAAATCA
1 AAAAAAAATCA
101914925 AAAAAAAA
1 AAAAAAAA
101914933 AAAAAGAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:101914908 original size:12 final size:12
Alignment explanation
Indices: 101914891--101914933 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
101914881 TATACAAGTT
101914891 AAAAAAAATCAA
1 AAAAAAAATCAA
*
101914903 AAAAAAATTC-A
1 AAAAAAAATCAA
101914914 AAAAAAAATCAA
1 AAAAAAAATCAA
101914926 AAAAAAAA
1 AAAAAAAA
101914934 AAAAGAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:101920168 original size:19 final size:19
Alignment explanation
Indices: 101920144--101920183 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
101920134 AGCTCCCATG
101920144 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
101920163 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
101920182 TA
1 TA
101920184 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:101921443 original size:14 final size:14
Alignment explanation
Indices: 101921421--101921468 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
101921411 ACCTAAACCG
* *
101921421 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
101921435 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
101921449 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
101921463 ACCATT
1 ACCATT
101921469 CCATTTGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:101925896 original size:12 final size:13
Alignment explanation
Indices: 101925878--101925916 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
101925868 TCAGATTTTG
101925878 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
101925891 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
101925904 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
101925917 ACTTACTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:101927628 original size:30 final size:28
Alignment explanation
Indices: 101927575--101927630 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
101927565 TTCTTCCACG
* *
101927575 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
101927603 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
101927631 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:101932384 original size:30 final size:30
Alignment explanation
Indices: 101932350--101932447 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
101932340 AGCTCACTCC
101932350 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
101932380 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
101932410 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
101932440 TAGCTCAT
1 TAGCTCAT
101932448 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:101934236 original size:10 final size:10
Alignment explanation
Indices: 101934221--101934247 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
101934211 TAAGTTGAAG
101934221 TTGAGCTGAT
1 TTGAGCTGAT
101934231 TTGAGCTGAT
1 TTGAGCTGAT
101934241 TTGAGCT
1 TTGAGCT
101934248 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:101935884 original size:14 final size:14
Alignment explanation
Indices: 101935865--101935909 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
101935855 AACTCATCTT
*
101935865 AGTTTAATTAAATG
1 AGTTTAATTTAATG
101935879 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
101935892 AATTTAATTTAATG
1 AGTTTAATTTAATG
101935906 AGTT
1 AGTT
101935910 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:101940746 original size:14 final size:14
Alignment explanation
Indices: 101940699--101940746 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
101940689 GTACGAATGG
*
101940699 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
101940713 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
101940727 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
101940741 ATTGGT
1 AATGGT
101940747 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:101947150 original size:11 final size:11
Alignment explanation
Indices: 101947134--101947173 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
101947124 ACTCTTTTTC
101947134 TTTTTTTTGAT
1 TTTTTTTTGAT
*
101947145 TTTTTTTTGAA
1 TTTTTTTTGAT
101947156 TTTTTTTTGAT
1 TTTTTTTTGAT
101947167 TTTTTTT
1 TTTTTTT
101947174 AACTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.82
Consensus pattern (11 bp):
TTTTTTTTGAT
Done.