Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 65 of 161
Found at i:20217107 original size:129 final size:127
Alignment explanation
Indices: 20216863--20217110 Score: 295
Period size: 129 Copynumber: 1.9 Consensus size: 127
20216853 GCTTTTTAGG
* * * * * *
20216863 CCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAAGACCTTTAGCAGTACTTTTCCCAT
1 CCTTTAGCGGCACTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCAG-ACTTTTCCCAC
* * * * *
20216928 AAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCACAAGCGCCGCTAAAGACCAATA
65 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTATT-CAAAAACGCCGCTAAAGACCAATA
* *
20216992 CCTTTAGCGGCACTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGC-GACGCTTTTTCTA
1 CCTTTAGCGGCACTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCAGA--CTTTTCCCA
20217056 CAAACGCCACTAAAG-CTCATGACCTTTAGCGGCGCCTCTATT-AAAAACGCCGCTA
64 CAAACGCCACTAAAGAC-CATGACCTTTAGCGGCG-CT-TATTCAAAAACGCCGCTA
20217111 TAACATTGAC
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
127 1 0.01
128 2 0.02
129 93 0.92
130 2 0.02
131 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (127 bp):
CCTTTAGCGGCACTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCAGACTTTTCCCACA
AACGCCACTAAAGACCATGACCTTTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAATA
Found at i:20217164 original size:41 final size:41
Alignment explanation
Indices: 20217014--20217165 Score: 121
Period size: 43 Copynumber: 3.6 Consensus size: 41
20217004 CTTTCCCCAA
* * * *
20217014 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTTCTAC
1 AAACGCCACTAAA-AGCATGACTTTTAGCGACGCTTTTTC-AC
* * * *
20217057 AAACGCCACT-AAAGCTCATGACCTTTAGCGGCGCCTCTATT-AA
1 AAACGCCACTAAAAG--CATGACTTTTAGCGACG-CT-TTTTCAC
* *
20217100 AAACGCCGCTATAA-CATTGACTTTTAGCGACGCTTTTTCAC
1 AAACGCCACTAAAAGCA-TGACTTTTAGCGACGCTTTTTCAC
*
20217141 AAACGCCACTAAAAGCATAACTTTT
1 AAACGCCACTAAAAGCATGACTTTT
20217166 TATAAAAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
40 3 0.03
41 25 0.29
42 17 0.20
43 34 0.40
44 4 0.05
45 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAAGCATGACTTTTAGCGACGCTTTTTCAC
Found at i:20219614 original size:32 final size:33
Alignment explanation
Indices: 20219558--20219628 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
20219548 TGCAGACATT
20219558 ATAAGAAAAACCTAGAAAACATAACAAATTACAA
1 ATAA-AAAAACCTAGAAAACATAACAAATTACAA
20219592 ATAAAAAAACAC-AGAAAA-ATAACAAATTACAA
1 ATAAAAAAAC-CTAGAAAACATAACAAATTACAA
20219624 ATAAA
1 ATAAA
20219629 CAAATTCCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 19 0.53
33 12 0.33
34 5 0.14
ACGTcount: A:0.69, C:0.13, G:0.04, T:0.14
Consensus pattern (33 bp):
ATAAAAAAACCTAGAAAACATAACAAATTACAA
Found at i:20220229 original size:19 final size:20
Alignment explanation
Indices: 20220200--20220249 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
20220190 AAACCCCAGT
20220200 AAATTTAAAAAAAAGGCATA
1 AAATTTAAAAAAAAGGCATA
20220220 AAATTTAAAAAAAAGGCATA
1 AAATTTAAAAAAAAGGCATA
20220240 AAATTTAAAA
1 AAATTTAAAA
20220250 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (20 bp):
AAATTTAAAAAAAAGGCATA
Found at i:20221233 original size:20 final size:20
Alignment explanation
Indices: 20221146--20221233 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 20
20221136 AAATTTTAAG
*
20221146 TAATATTTAAAAGAATTAGA
1 TAATTTTTAAAAGAATTAGA
* *** *
20221166 TAAATTTTAAAATTTTTATA
1 TAATTTTTAAAAGAATTAGA
* * **
20221186 TAATTTTT-TATGTAA-TATC
1 TAATTTTTAAAAG-AATTAGA
*
20221205 TAATATTTAAAAGAATTAGA
1 TAATTTTTAAAAGAATTAGA
20221225 TAATTTTTA
1 TAATTTTTA
20221234 TAAATTTAAT
Statistics
Matches: 46, Mismatches: 19, Indels: 6
0.65 0.27 0.08
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (20 bp):
TAATTTTTAAAAGAATTAGA
Found at i:20222736 original size:41 final size:41
Alignment explanation
Indices: 20222675--20222951 Score: 296
Period size: 41 Copynumber: 6.8 Consensus size: 41
20222665 AAAATAGAGA
*
20222675 ATTAGCGGCGCTACTT--CAAAAATACCGCTAAAGCCCTGAGT-
1 ATTAGCGGCGCT--TTCCCAAAAACACCGCTAAAGCCCTGA-TC
* * * * * *
20222716 ATTAGAGGTGCTTCCCCAAAAACGCTGCTAAATCCCTGATC
1 ATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGATC
* * *
20222757 ATTAGCGGCGCTTT-CCTAAAA-ACCGCTAAATCCCTAATC
1 ATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGATC
* *
20222796 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGATC
1 ATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGATC
** *
20222837 ATTAGCGGCGCTTTCCCAAAAATGCCGCTAAAGGCCTGATC
1 ATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGATC
* *
20222878 ATTAGCGGCGCTTTCCTAAAAACGA-CGCTAAAGCCCTGAGC
1 ATTAGCGGCGCTTTCCCAAAAAC-ACCGCTAAAGCCCTGATC
* *
20222919 ATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTC-CCAAAAACACCGCTAAA
20222952 ACCCCGAAAG
Statistics
Matches: 200, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
39 30 0.15
40 13 0.06
41 143 0.71
42 14 0.07
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGATC
Found at i:20222855 original size:121 final size:122
Alignment explanation
Indices: 20222675--20222951 Score: 371
Period size: 121 Copynumber: 2.3 Consensus size: 122
20222665 AAAATAGAGA
* ** *
20222675 ATTAGCGGCGCTACTT-CAAAAATACCGCTAAAGCCCTGAGTATTAGAGGTGCTTCCCCAAAAAC
1 ATTAGCGGCGCT-TTTCCAAAAACGCCGCTAAAGCCCTGAGTATTAGAGGCGCTTCCCCAAAAAC
* * * *
20222739 GCTGCTAAATCCCTGATCATTAGCGGCGCTTTCCTAAAAAC-CGCTAAATCCCTAATC
65 GCCGCTAAAGCCCTGATCATTAGCGGCGCTTTCCTAAAAACACGCTAAAGCCCTAAGC
* * *
20222796 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGA-TCATTAGCGGCGCTTTCCCAAAAAT
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGT-ATTAGAGGCGCTTCCCCAAAAAC
* *
20222860 GCCGCTAAAGGCCTGATCATTAGCGGCGCTTTCCTAAAAACGACGCTAAAGCCCTGAGC
65 GCCGCTAAAGCCCTGATCATTAGCGGCGCTTTCCTAAAAAC-ACGCTAAAGCCCTAAGC
*
20222919 ATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTT-TCCAAAAACGCCGCTAAA
20222952 ACCCCGAAAG
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
120 3 0.02
121 90 0.66
123 27 0.20
124 17 0.12
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (122 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGTATTAGAGGCGCTTCCCCAAAAACG
CCGCTAAAGCCCTGATCATTAGCGGCGCTTTCCTAAAAACACGCTAAAGCCCTAAGC
Found at i:20223450 original size:125 final size:125
Alignment explanation
Indices: 20223226--20223474 Score: 399
Period size: 125 Copynumber: 2.0 Consensus size: 125
20223216 CAAACATGCT
* * * *
20223226 ACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCTTCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGAGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
* * *
20223291 GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATCATTTCTTCCAGGACCA
66 AAAGCGATTTTATACTATTTACTCAGAAACGTCAACTCAAAATCATTTCTTCCAGGACCA
20223351 ACTGTAGCAAAAGCGCGTCCACGTGAGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGAGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
* ** *
20223416 AAAGTGATTTTATACTATTTACTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGACC
66 AAAGCGATTTTATACTATTTACTCAGAAACGTCAACTCAAAATCATTTCTTCCAGGACC
20223475 TAAAAACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGAGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
AAAGCGATTTTATACTATTTACTCAGAAACGTCAACTCAAAATCATTTCTTCCAGGACCA
Found at i:20228744 original size:5 final size:5
Alignment explanation
Indices: 20228734--20228787 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
20228724 CATAAAATCA
*
20228734 AAAAG AAAAG AAAAA AAAAGG AAAA- AAGAAG AAAAAG AAAAG -AAA-
1 AAAAG AAAAG AAAAG AAAA-G AAAAG AA-AAG -AAAAG AAAAG AAAAG
20228779 AAAAG AAAA
1 AAAAG AAAA
20228788 AAGAGAGCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
4 8 0.20
5 24 0.59
6 7 0.17
7 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:20228752 original size:22 final size:19
Alignment explanation
Indices: 20228733--20228789 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 19
20228723 TCATAAAATC
*
20228733 AAAAAGAAAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
* *
20228752 AGGAAAAAAGAAGAAAAAGAA
1 A--AAAAAAAAAGAAAAAAAA
*
20228773 AAGAAAAAAAGAAAAAA
1 AAAAAAAAAAGAAAAAA
20228790 GAGAGCCCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 14 0.47
21 16 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAA
Found at i:20228757 original size:11 final size:10
Alignment explanation
Indices: 20228733--20228782 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
20228723 TCATAAAATC
20228733 AAAAAGAAAAG
1 AAAAA-AAAAG
20228744 AAAAAAAAAGG
1 AAAAAAAAA-G
*
20228755 AAAAAAGAAG
1 AAAAAAAAAG
20228765 AAAAAGAAAAG
1 AAAAA-AAAAG
20228776 AAAAAAA
1 AAAAAAA
20228783 GAAAAAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 12 0.34
11 23 0.66
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:20228758 original size:8 final size:7
Alignment explanation
Indices: 20228733--20228791 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 7
20228723 TCATAAAATC
20228733 AAAAAGA
1 AAAAAGA
*
20228740 AAAGAAAA
1 AAA-AAGA
20228748 AAAAAGGA
1 AAAAA-GA
20228756 AAAAAGA
1 AAAAAGA
20228763 AGAAAA-A
1 A-AAAAGA
*
20228770 GAAAAGAA
1 AAAAAG-A
20228778 AAAAAGA
1 AAAAAGA
20228785 AAAAAGA
1 AAAAAGA
20228792 GAGCCCAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.09
7 17 0.40
8 22 0.51
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:20229751 original size:44 final size:44
Alignment explanation
Indices: 20229672--20230149 Score: 283
Period size: 44 Copynumber: 10.6 Consensus size: 44
20229662 CATATCAAAC
20229672 CTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGTTACAAGT
* * * *
20229716 CTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C-AAGT
* * * *
20229761 CTTATTTCCCTTAAGTTGCAGCGGAACATG-TTGAAGCTATTA-ATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAG---TTACA----AG-T
* * * **
20229812 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA-TATA-AAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TACAAGT
** * * *
20229853 CTTATCTCTTTGAAGTTGCAATGGAGCAGGTTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
* * * *
20229897 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAGT
* * * * * *
20229942 CTTATTTCCCTGAAATTGTAGTGGAACGGATTGAAGCTATAAATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-TACA----AG-T
* * * ** **
20229993 CTTATCTCCCTGAAGTTACAGTGGATCAGATCGAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
* * *
20230037 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAGT
** * *
20230081 CTTATCTCCCAAAAGTTGTAGTGGAGCAGATTGAAGCTACTAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAGT
* *
20230125 CCTATCTCCATGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
20230150 TCGGATTAAA
Statistics
Matches: 329, Mismatches: 76, Indels: 58
0.71 0.16 0.13
Matches are distributed among these distances:
41 26 0.08
42 2 0.01
43 4 0.01
44 157 0.48
45 69 0.21
46 7 0.02
47 2 0.01
48 2 0.01
49 4 0.01
50 3 0.01
51 53 0.16
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
Found at i:20229978 original size:181 final size:181
Alignment explanation
Indices: 20229658--20230156 Score: 646
Period size: 181 Copynumber: 2.7 Consensus size: 181
20229648 GATGGATTGA
* *
20229658 AGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCT
1 AGATCATATAAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
* * * *
20229723 CCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTTAAGTTGCAGCGGAAC
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAAC
* * * *
20229788 ATG-TTGAAGCTATTAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
131 -GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTAGAGC
** * *
20229839 AGATCATATAAAACCTTATCTCTTTGAAGTTGCAATGGAGCAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATATAAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
* *
20229904 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAATTGTAGTGGAAC
66 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAAC
* *
20229969 GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTGGATC
131 GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTAGAGC
* * *
20230020 AGATCGA-AGCCACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAA-TCT
1 AGATC-ATA--TA-AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCT
* * * * * * * *
20230083 TATCTCCCAAAAGTTGTAGTGGAGCAGATTGAAGCTA-CTAATCCTATCTCCATGAAGTTGCAGT
61 TATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
*
20230147 GGATCGGATT
126 GGAACGGATT
20230157 AAAATGATGA
Statistics
Matches: 276, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
180 1 0.00
181 167 0.61
182 1 0.00
183 31 0.11
184 74 0.27
185 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (181 bp):
AGATCATATAAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
CCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAAC
GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTAGAGC
Found at i:20231715 original size:26 final size:26
Alignment explanation
Indices: 20231685--20231767 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
20231675 TTATCATCAC
**
20231685 TTATTTTAAGTTT-TTAAATATATTAT
1 TTATTTTAA-TTTCTTTTATATATTAT
* *
20231711 TTATTTTAATTTGTTTTACATATTAT
1 TTATTTTAATTTCTTTTATATATTAT
*
20231737 TTATTTAAATTTCTTTTATATATTAT
1 TTATTTTAATTTCTTTTATATATTAT
20231763 TTATT
1 TTATT
20231768 GTAAACTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 3 0.06
26 47 0.94
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TTATTTTAATTTCTTTTATATATTAT
Found at i:20231782 original size:26 final size:25
Alignment explanation
Indices: 20231702--20231852 Score: 87
Period size: 26 Copynumber: 6.0 Consensus size: 25
20231692 AAGTTTTTAA
* *
20231702 ATATATTATTTATTTTAATTTGTTTT
1 ATATATTATTTA-TTTAAATTATTTT
* *
20231728 ACATATTATTTATTTAAATTTCTTTT
1 ATATATTATTTATTTAAA-TTATTTT
*
20231754 ATATATTATTTATTGTAAACTA--TT
1 ATATATTATTTATT-TAAATTATTTT
* *
20231778 ATATA-TATCT-TTCAAATT-TTTAT
1 ATATATTATTTATTTAAATTATTT-T
* * *
20231801 ATATATATATATATTTTAAAACTGTTTT
1 ATATAT-TATTTA-TTT-AAATTATTTT
* * *
20231829 ATATGTTATTTTTTTATATTATTT
1 ATATATTATTTATTTAAATTATTT
20231853 ATTTTAAATT
Statistics
Matches: 96, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
21 4 0.04
22 3 0.03
23 10 0.10
24 7 0.07
25 15 0.16
26 34 0.35
27 10 0.10
28 10 0.10
29 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (25 bp):
ATATATTATTTATTTAAATTATTTT
Found at i:20231875 original size:25 final size:26
Alignment explanation
Indices: 20231838--20231959 Score: 85
Period size: 25 Copynumber: 4.9 Consensus size: 26
20231828 TATATGTTAT
* *
20231838 TTTTTTATATTATTTATTTTAAATTG
1 TTTTATATGTTATTTATTTTAAATTG
* * *
20231864 TTTTAT-TGTTATTTATTTTTAGTTT
1 TTTTATATGTTATTTATTTTAAATTG
* * * *
20231889 TTTTATATTTTGTTTATTTGAAA--A
1 TTTTATATGTTATTTATTTTAAATTG
*
20231913 TTTT-TA--TTATTTATTTTGAATTG
1 TTTTATATGTTATTTATTTTAAATTG
* *
20231936 TTCTTATAAGTCATTTATTTTAAA
1 TT-TTATATGTTATTTATTTTAAA
20231960 CTATTATTTA
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
21 11 0.15
23 4 0.06
24 6 0.08
25 23 0.32
26 16 0.22
27 12 0.17
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (26 bp):
TTTTATATGTTATTTATTTTAAATTG
Found at i:20231883 original size:40 final size:41
Alignment explanation
Indices: 20231802--20231994 Score: 124
Period size: 40 Copynumber: 4.9 Consensus size: 41
20231792 AATTTTTATA
* *
20231802 TATATATATATATTTTAAAACTGTTTTATATGTTA-TT-TTTT
1 TATAT-TATTTATTTT-AAATTGTTTTATATGTTATTTATTTT
20231843 TATATTATTTATTTTAAATTGTTTTAT-TGTTATTTATTTT
1 TATATTATTTATTTTAAATTGTTTTATATGTTATTTATTTT
* * * * *
20231883 TAGT-TTTTTTATATT---TTG-TTTAT-T-TGA--AAATTT
1 TA-TATTATTTATTTTAAATTGTTTTATATGTTATTTATTTT
* * *
20231916 T-TATTATTTATTTTGAATTGTTCTTATAAGTCATTTATTTT
1 TATATTATTTATTTTAAATTGTT-TTATATGTTATTTATTTT
* * *
20231957 AAACTATTATTTACTTTAAATTGTTTTATATATTATTT
1 -TA-TATTATTTATTTTAAATTGTTTTATATGTTATTT
20231995 TGTTTCGTTT
Statistics
Matches: 117, Mismatches: 19, Indels: 30
0.70 0.11 0.18
Matches are distributed among these distances:
31 1 0.01
32 9 0.08
33 5 0.04
35 5 0.04
36 7 0.06
37 7 0.06
38 5 0.04
39 15 0.13
40 24 0.21
41 10 0.09
43 10 0.09
44 19 0.16
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (41 bp):
TATATTATTTATTTTAAATTGTTTTATATGTTATTTATTTT
Found at i:20234483 original size:12 final size:13
Alignment explanation
Indices: 20234443--20234489 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 13
20234433 AATGTGTATG
20234443 TATATA-TTAT-A
1 TATATAGTTATAA
20234454 TATAT-GTTAT-A
1 TATATAGTTATAA
20234465 TATATAGTTATAA
1 TATATAGTTATAA
*
20234478 TA-ATAGTAATAA
1 TATATAGTTATAA
20234490 ATCAAATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.47
12 14 0.44
13 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
TATATAGTTATAA
Found at i:20235912 original size:29 final size:29
Alignment explanation
Indices: 20235812--20235980 Score: 178
Period size: 29 Copynumber: 5.8 Consensus size: 29
20235802 ACTAAATGCT
* ** * * *
20235812 AAAAGGGATAGTTTCGACTATCGACTATA
1 AAAAGGGATGGTGACGACCATCAACTATG
*
20235841 AAAAGGGATGGTGACGACCATTAACTATG
1 AAAAGGGATGGTGACGACCATCAACTATG
* *
20235870 AAAAGGGATGGTGATGACCATCAACTATA
1 AAAAGGGATGGTGACGACCATCAACTATG
* * * *
20235899 AAAAGGGATAGTGACGATCATCGATTAATG
1 AAAAGGGATGGTGACGACCATCAACT-ATG
20235929 AAAAGGGATGGTGACGACCATCGAA-TATG
1 AAAAGGGATGGTGACGACCATC-AACTATG
* *
20235958 AAAAGGGGTGGTTACGACCATCA
1 AAAAGGGATGGTGACGACCATCA
20235981 TTAACACACT
Statistics
Matches: 117, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
28 1 0.01
29 92 0.79
30 23 0.20
31 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (29 bp):
AAAAGGGATGGTGACGACCATCAACTATG
Found at i:20235948 original size:59 final size:58
Alignment explanation
Indices: 20235812--20235980 Score: 178
Period size: 59 Copynumber: 2.9 Consensus size: 58
20235802 ACTAAATGCT
* ** * * * *
20235812 AAAAGGGATAGTTTCGACTATCGACTATAAAAAGGGATGGTGACGACCATTAACTATG
1 AAAAGGGATGGTGACGACCATCAACTATAAAAAGGGATAGTGACGACCATCAACTATG
* * * *
20235870 AAAAGGGATGGTGATGACCATCAACTATAAAAAGGGATAGTGACGATCATCGATTAATG
1 AAAAGGGATGGTGACGACCATCAACTATAAAAAGGGATAGTGACGACCATCAACT-ATG
* * * *
20235929 AAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGGTGGTTACGACCATCA
1 AAAAGGGATGGTGACGACCATC-AACTATAAAAAGGGATAGTGACGACCATCA
20235981 TTAACACACT
Statistics
Matches: 91, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 44 0.48
59 45 0.49
60 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (58 bp):
AAAAGGGATGGTGACGACCATCAACTATAAAAAGGGATAGTGACGACCATCAACTATG
Found at i:20237153 original size:30 final size:30
Alignment explanation
Indices: 20237117--20237181 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
20237107 ACGGCTTAAG
20237117 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
1 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
* **
20237147 ACACGGTCGTGTGTTTCAGTTGTGTGAGTC
1 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
20237177 ACACG
1 ACACG
20237182 TGTTGGGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.29
Consensus pattern (30 bp):
ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
Found at i:20238027 original size:15 final size:15
Alignment explanation
Indices: 20238007--20238044 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
20237997 TGATTCGACA
20238007 TAACCTTTC-TGCGAT
1 TAACCTTTCATGC-AT
20238022 TAACCTTTCATGCAT
1 TAACCTTTCATGCAT
20238037 TAATCCTT
1 TAA-CCTT
20238045 AAGTCCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (15 bp):
TAACCTTTCATGCAT
Found at i:20239901 original size:262 final size:262
Alignment explanation
Indices: 20239431--20239950 Score: 916
Period size: 262 Copynumber: 2.0 Consensus size: 262
20239421 TTTGGAACCA
* *
20239431 ATGCGAATTAATAAACTGCCAGTTGATAAAATTCACAACTATGGAGCTGAAATATTTAGAGCTAT
1 ATGCAAATTAATAAACTGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
* *
20239496 AGTTGATGATGATCCGAGGAGAATTCTGGTTAAAAAATACTATCAGAGTTTTCGATGAGTTATCT
66 AGTTGATGATGATCCGAGGAGAATTCTGGTTAAAAAATACTATCAGAGTTTTCAACGAGTTATCT
*
20239561 TGTTCATCGCCAGAGTGTGTAAAATGTGTTGTATCTCTATTAAAAGATTCATCTTTGGTTTTAGT
131 TGTTCATCGCCAGAGTGTGTAAAATGTGCTGTATCTCTATTAAAAGATTCATCTTTGGTTTTAGT
*
20239626 TGTGTTGAGGGAGTGTATTTGATACGAACTGGCCCAGGTTGATTGAGTCATTTCACGTAGTTGCT
196 TGTGTTGAGGGAGTGTATTTGATACGAACTGGCCCAGGTTGATCGAGTCATTTCACGTAGTTGCT
20239691 CG
261 CG
*
20239693 ATGCAAATTAATAAACTGCCAGTTGATAAAATTCACAAATATGGAGTTGAAATATTTAGAGCTAT
1 ATGCAAATTAATAAACTGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
20239758 AGTTGATGATGATCCGAGGAGAATTCTGGTTAAAAAATACTAT-ATGAGTTTTCAACGAGTTATC
66 AGTTGATGATGATCCGAGGAGAATTCTGGTTAAAAAATACTATCA-GAGTTTTCAACGAGTTATC
* *
20239822 TTGTTCATCGTCAGAGTGTGTAAAATGTGCTGTATCTCTATTAAAGGATTCATCTTTGGTTTTAG
130 TTGTTCATCGCCAGAGTGTGTAAAATGTGCTGTATCTCTATTAAAAGATTCATCTTTGGTTTTAG
* * *
20239887 TTGTGTTGAGGGAGTGTATTTGATGCGAACTGGCCCGGGTTGATCGAGTCGTTTCACGTAGTTG
195 TTGTGTTGAGGGAGTGTATTTGATACGAACTGGCCCAGGTTGATCGAGTCATTTCACGTAGTTG
20239951 TCTGATCGTC
Statistics
Matches: 245, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
261 1 0.00
262 244 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (262 bp):
ATGCAAATTAATAAACTGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
AGTTGATGATGATCCGAGGAGAATTCTGGTTAAAAAATACTATCAGAGTTTTCAACGAGTTATCT
TGTTCATCGCCAGAGTGTGTAAAATGTGCTGTATCTCTATTAAAAGATTCATCTTTGGTTTTAGT
TGTGTTGAGGGAGTGTATTTGATACGAACTGGCCCAGGTTGATCGAGTCATTTCACGTAGTTGCT
CG
Found at i:20241224 original size:20 final size:20
Alignment explanation
Indices: 20241196--20241240 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20241186 GCTCAATGAG
*
20241196 CTGAATTGAGCTCGTGTGAA
1 CTGAATTGAGCTCGAGTGAA
* *
20241216 CTGACTTGAGCTCGAGTGAG
1 CTGAATTGAGCTCGAGTGAA
20241236 CTGAA
1 CTGAA
20241241 CCACATGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (20 bp):
CTGAATTGAGCTCGAGTGAA
Found at i:20243134 original size:18 final size:18
Alignment explanation
Indices: 20243111--20243145 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20243101 CTCAATCTTT
20243111 TTTTCA-ATTTTCTTTTCG
1 TTTTCACATTTT-TTTTCG
20243129 TTTTCACATTTTTTTTC
1 TTTTCACATTTTTTTTC
20243146 ACTCTCAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.11, C:0.17, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTCACATTTTTTTTCG
Found at i:20244305 original size:16 final size:17
Alignment explanation
Indices: 20244270--20244305 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
20244260 CTCAGTTTTT
20244270 TTTCCTTTTTTTTCGTAA
1 TTTCCTTTTTTTTCG-AA
20244288 TTTCCTTTTTTTTC-AA
1 TTTCCTTTTTTTTCGAA
20244304 TT
1 TT
20244306 ACAATAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
18 14 0.78
ACGTcount: A:0.11, C:0.17, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTCCTTTTTTTTCGAA
Found at i:20244377 original size:14 final size:13
Alignment explanation
Indices: 20244350--20244375 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20244340 TTTTTATGCA
20244350 CGAAATTTTTTTT
1 CGAAATTTTTTTT
20244363 CGAAATTTTTTTT
1 CGAAATTTTTTTT
20244376 TCACAAACCA
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
CGAAATTTTTTTT
Found at i:20245762 original size:20 final size:20
Alignment explanation
Indices: 20245734--20245778 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20245724 GCTCAATGAG
*
20245734 CTGAATTGAGCTCGTGTGAA
1 CTGAATTGAGCTCGAGTGAA
* *
20245754 CTGACTTGAGCTCGAGTGAG
1 CTGAATTGAGCTCGAGTGAA
20245774 CTGAA
1 CTGAA
20245779 CCACATGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (20 bp):
CTGAATTGAGCTCGAGTGAA
Found at i:20249995 original size:24 final size:24
Alignment explanation
Indices: 20249963--20250011 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20249953 TAACTTTAGT
20249963 TAAATTTCTTTGGTAATGACACGG
1 TAAATTTCTTTGGTAATGACACGG
20249987 TAAATTTCTTTGGTAATGACACGG
1 TAAATTTCTTTGGTAATGACACGG
20250011 T
1 T
20250012 TTAGAGGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (24 bp):
TAAATTTCTTTGGTAATGACACGG
Found at i:20260311 original size:92 final size:92
Alignment explanation
Indices: 20260201--20260533 Score: 627
Period size: 92 Copynumber: 3.6 Consensus size: 92
20260191 TTTACCTATC
20260201 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
1 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
20260266 AGTTATAACATGTATATCCATATATAT
66 AGTTATAACATGTATATCCATATATAT
20260293 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
1 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
20260358 AGTTATAACATGTATATCCATATATAT
66 AGTTATAACATGTATATCCATATATAT
20260385 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
1 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
20260450 AGTTATAACATGTATATCCATATATAT
66 AGTTATAACATGTATATCCATATATAT
20260477 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTTGCAA-ATG--ATCAAGTTTGCAA
1 AAATTTCACACTAAAAGTATAGTAGGTCTTAAAG-TTGCAATATGACAT-AAGTTTGCAA
20260534 TTTCACACTT
Statistics
Matches: 239, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
90 2 0.01
91 10 0.04
92 221 0.92
93 6 0.03
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (92 bp):
AAATTTCACACTAAAAGTATAGTAGGTCTTAAAGTTGCAATATGACATAAGTTTGCAAACTGATA
AGTTATAACATGTATATCCATATATAT
Found at i:20261347 original size:25 final size:25
Alignment explanation
Indices: 20261319--20261377 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
20261309 ACGGGCTGCA
* *
20261319 AATCGGTAAACTCATATGAGTTGAG
1 AATCGGTAAACTCATACGAGCTGAG
* *
20261344 AATCGGTAAGCTTATACGAGCTGAG
1 AATCGGTAAACTCATACGAGCTGAG
*
20261369 AATCAGTAA
1 AATCGGTAA
20261378 GCTCTCATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (25 bp):
AATCGGTAAACTCATACGAGCTGAG
Found at i:20261389 original size:25 final size:23
Alignment explanation
Indices: 20261333--20261389 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
20261323 GGTAAACTCA
* *
20261333 TATGAGTTGAGAATCGGTAAGCT
1 TATGAGCTGAGAATCAGTAAGCT
20261356 TATACGAGCTGAGAATCAGTAAGCT
1 TAT--GAGCTGAGAATCAGTAAGCT
20261381 CTCATGAGC
1 -T-ATGAGC
20261390 CGCAATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
25 22 0.79
26 1 0.04
27 2 0.07
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (23 bp):
TATGAGCTGAGAATCAGTAAGCT
Found at i:20268747 original size:41 final size:41
Alignment explanation
Indices: 20268685--20268967 Score: 413
Period size: 41 Copynumber: 6.9 Consensus size: 41
20268675 TAAGTTTTTG
* * *
20268685 GGGCATTTAGTGGCATTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
20268726 GGGCCTTTAGCGGCGATTTTGAAAAAGAGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
20268767 GGGCCTTTAGCGGTGTTTTTGAAAAGGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
20268808 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
20268849 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
20268890 GGGCCTTTAGCAGCGCTTTTGAATAAGCGCCGCTAATGATC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
20268931 AGGCCTTTAGCTGCGTTTTTGAAAAAGCGCCACTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
20268968 AATAATAAAA
Statistics
Matches: 216, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 216 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:20269858 original size:33 final size:32
Alignment explanation
Indices: 20269821--20269907 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 32
20269811 ATTAAATAAT
* * *
20269821 GTTTAGGGGTTATGGATTTAGGGTCGGGTTAGG
1 GTTTAGGGATTA-GGATTTAGGGTCGAGTTAGA
*
20269854 GTTTAAGGATTAGGGATTTAGGGTCGAGTTAGA
1 GTTTAGGGATTA-GGATTTAGGGTCGAGTTAGA
20269887 GTTTA-GGATTTAGGATTTAGG
1 GTTTAGGGA-TTAGGATTTAGG
20269908 ATTTAGATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 12 0.25
33 36 0.75
ACGTcount: A:0.22, C:0.02, G:0.39, T:0.37
Consensus pattern (32 bp):
GTTTAGGGATTAGGATTTAGGGTCGAGTTAGA
Found at i:20269898 original size:7 final size:7
Alignment explanation
Indices: 20269888--20269913 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20269878 CGAGTTAGAG
20269888 TTTAGGA
1 TTTAGGA
20269895 TTTAGGA
1 TTTAGGA
20269902 TTTAGGA
1 TTTAGGA
20269909 TTTAG
1 TTTAG
20269914 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (7 bp):
TTTAGGA
Found at i:20269903 original size:32 final size:33
Alignment explanation
Indices: 20269834--20269907 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
20269824 TAGGGGTTAT
* *
20269834 GGATTTAGGGTCGGGTTAGGGTTTAAGGATTAG
1 GGATTTAGGGTCGAGTTAGAGTTTAAGGATTAG
20269867 GGATTTAGGGTCGAGTTAGAGTTT-AGGATTTA-
1 GGATTTAGGGTCGAGTTAGAGTTTAAGGA-TTAG
20269899 GGATTTAGG
1 GGATTTAGG
20269908 ATTTAGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 13 0.34
33 25 0.66
ACGTcount: A:0.23, C:0.03, G:0.39, T:0.35
Consensus pattern (33 bp):
GGATTTAGGGTCGAGTTAGAGTTTAAGGATTAG
Found at i:20270954 original size:73 final size:69
Alignment explanation
Indices: 20270873--20271015 Score: 196
Period size: 69 Copynumber: 2.0 Consensus size: 69
20270863 TTTGCTTTAC
* * *
20270873 TTTTAAAAAAATAGCGCCATCTTCTAAAATTCTCTCCCCCCCCCCTCCCCCCGCAATCCCCAACT
1 TTTTAAAAAAATAGCACCATCTTCTAAAA---T-TCCCCACCCCCTCCCCCCGAAATCCCCAACT
20270938 TTCCCACA
62 TTCCCACA
* * *
20270946 TTTTAAAAAAATAGCACCATTTTTTTAAATTCCCCACCCCCTCCCCCCGAAATCCCCAACTTTCC
1 TTTTAAAAAAATAGCACCATCTTCTAAAATTCCCCACCCCCTCCCCCCGAAATCCCCAACTTTCC
20271011 CACA
66 CACA
20271015 T
1 T
20271016 CCAAGAAAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
69 38 0.59
70 1 0.02
73 25 0.39
ACGTcount: A:0.28, C:0.42, G:0.03, T:0.27
Consensus pattern (69 bp):
TTTTAAAAAAATAGCACCATCTTCTAAAATTCCCCACCCCCTCCCCCCGAAATCCCCAACTTTCC
CACA
Found at i:20273838 original size:43 final size:43
Alignment explanation
Indices: 20273687--20274076 Score: 271
Period size: 43 Copynumber: 8.8 Consensus size: 43
20273677 AGGTTATATT
* * * * * *
20273687 TTTAGCGGCATTTTTGTGATAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
20273729 TTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAAGTTCATGATC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCT-AAAGGTCATGGTC
* * *
20273773 TTTAGCAGCGTTTGTG-GAAAAAGCGTCGCTAAAGGTCATAGTC
1 TTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGGTCATGGTC
*
20273816 TTTAGCGGCGTTTGCGAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * * * *
20273859 TATAGCGACATTTTTGGGAAAAGCACTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
20273902 TTTATCGGCGTTTGTGTGTAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGACC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGG----T-------C
* * * * * *
20273956 TTTAGCGGCGTTTGTGGGTAAAGCGACTCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
20273999 TTTAGTGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * ** *
20274042 TTTAGTGGCGTTCTTTTCGAAAAACGCCGCTAAAG
1 TTTAGCGGCGTT-TGTGAGAAAAGCGCCGCTAAAG
20274077 TTAGCGAAGC
Statistics
Matches: 280, Mismatches: 52, Indels: 30
0.77 0.14 0.08
Matches are distributed among these distances:
42 24 0.09
43 168 0.60
44 49 0.17
47 1 0.00
50 1 0.00
54 37 0.13
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:20273969 original size:54 final size:54
Alignment explanation
Indices: 20273901--20274003 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
20273891 AGGTCTTGGT
* * *
20273901 CTTTATCGGCGTTTGTGTGTAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAC
1 CTTTAGCGGCGTTTGTGGGTAAAGCGACGCTAAAGGTCTTGGTCTTTAGCGGAC
* *
20273955 CTTTAGCGGCGTTTGTGGGTAAAGCGACTCTAAAGGTCTTGTTCTTTAG
1 CTTTAGCGGCGTTTGTGGGTAAAGCGACGCTAAAGGTCTTGGTCTTTAG
20274004 TGGCGTTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.35
Consensus pattern (54 bp):
CTTTAGCGGCGTTTGTGGGTAAAGCGACGCTAAAGGTCTTGGTCTTTAGCGGAC
Found at i:20292148 original size:23 final size:23
Alignment explanation
Indices: 20292122--20292169 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
20292112 TTTTAATATC
20292122 TAAATTAATAGATTGAATAAACT
1 TAAATTAATAGATTGAATAAACT
*
20292145 TAAATTAATATATTGAATAAACT
1 TAAATTAATAGATTGAATAAACT
20292168 TA
1 TA
20292170 TTAATTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (23 bp):
TAAATTAATAGATTGAATAAACT
Found at i:20292583 original size:88 final size:87
Alignment explanation
Indices: 20292378--20292633 Score: 214
Period size: 88 Copynumber: 2.9 Consensus size: 87
20292368 ATCAATTAAA
* ** * * ** ** * *
20292378 GAAAAGGGATAGTTTCGACTATCGACTATGAAAGGGGATGGTGATGACCATC-AACTATGAAAAC
1 GAAAAGAGATAGTGACGACCATCAACTATGAAAATGGATGGTGACAACCACCGAA-TATGAAAAG
* *
20292442 GGATGGTGACGACCATCATATAT
65 GGATGGTGAAGACCATCAAATAT
** * * * *
20292465 GAAAAGAGATAGTTTCGGCTATCAACTATGAAAA-GCGATGGTGACAACTACCGATTGATGAAAA
1 GAAAAGAGATAGTGACGACCATCAACTATGAAAATG-GATGGTGACAACCACCGAAT-ATGAAAA
*
20292529 GGGATGGTGAAGACTATCAAATAT
64 GGGATGGTGAAGACCATCAAATAT
* * *
20292553 GAAAA-AGGATGGTGACGACCATCGAA-TATGAAAATGGATGGTGACGACCATCGAATATGAAAA
1 GAAAAGA-GATAGTGACGACCATC-AACTATGAAAATGGATGGTGACAACCACCGAATATGAAAA
* *
20292616 GGGATGGTTACGACCATC
64 GGGATGGTGAAGACCATC
20292634 GTTTAACACA
Statistics
Matches: 138, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
86 1 0.01
87 66 0.48
88 68 0.49
89 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (87 bp):
GAAAAGAGATAGTGACGACCATCAACTATGAAAATGGATGGTGACAACCACCGAATATGAAAAGG
GATGGTGAAGACCATCAAATAT
Found at i:20292612 original size:117 final size:117
Alignment explanation
Indices: 20292405--20292623 Score: 291
Period size: 117 Copynumber: 1.9 Consensus size: 117
20292395 ACTATCGACT
* * * *
20292405 ATGAAAGGGGATGGTGATGACCATCAACTATGAAAACGGATGGTGACGACCATCATATATGAAAA
1 ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAAGGATGGTGACGACCATCATATATGAAAA
** * *
20292470 GAGATAGTTTCGGCTATCAACTATGAAAAGCGATGGTGACAACTACCGATTG
66 GAGATAGTGACGACCATCAACTATGAAAAGCGATGGTGACAACTACCGATTG
*
20292522 ATGAAAAGGGATGGTGAAGACTATCAAATATGAAAAAGGATGGTGACGACCATCGA-ATATGAAA
1 ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAAGGATGGTGACGACCATC-ATATATGAAA
* *
20292586 ATG-GATGGTGACGACCATCGAA-TATGAAAAGGGATGGT
65 A-GAGATAGTGACGACCATC-AACTATGAAAAGCGATGGT
20292624 TACGACCATC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
117 84 0.95
118 4 0.05
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (117 bp):
ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAAGGATGGTGACGACCATCATATATGAAAA
GAGATAGTGACGACCATCAACTATGAAAAGCGATGGTGACAACTACCGATTG
Found at i:20292634 original size:29 final size:29
Alignment explanation
Indices: 20292378--20292634 Score: 232
Period size: 29 Copynumber: 8.8 Consensus size: 29
20292368 ATCAATTAAA
* ** * *
20292378 GAAAAGGGATAGTTTCGACTATCGACTAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *
20292407 GAAAGGGGATGGTGATGACCATC-AACTAT
1 GAAAAGGGATGGTGACGACCATCGAA-TAT
*
20292436 GAAAACGGATGGTGACGACCATC-ATATAT
1 GAAAAGGGATGGTGACGACCATCGA-ATAT
* * ** * *
20292465 GAAAAGAGATAGTTTCGGCTATC-AACTAT
1 GAAAAGGGATGGTGACGACCATCGAA-TAT
* * * * *
20292494 GAAAAGCGATGGTGACAACTACCGATTGAT
1 GAAAAGGGATGGTGACGACCATCGAAT-AT
* * *
20292524 GAAAAGGGATGGTGAAGACTATCAAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
20292553 GAAAAAGGATGGTGACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
20292582 GAAAATGGATGGTGACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
20292611 GAAAAGGGATGGTTACGACCATCG
1 GAAAAGGGATGGTGACGACCATCG
20292635 TTTAACACAC
Statistics
Matches: 185, Mismatches: 38, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
28 2 0.01
29 158 0.85
30 25 0.14
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATCGAATAT
Found at i:20297128 original size:27 final size:27
Alignment explanation
Indices: 20297093--20297171 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
20297083 TATATGATAT
*
20297093 AAATGCCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCA
* * *
20297120 AAATACCCCCATAGGTTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCA
*
20297147 AAATACCCCCATAGGGTAAAGTGAC
1 AAATACCCCCATAGGGTAAAATGAC
20297172 TGTTATACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCA
Found at i:20300411 original size:29 final size:29
Alignment explanation
Indices: 20300375--20300551 Score: 223
Period size: 29 Copynumber: 6.1 Consensus size: 29
20300365 AGTTTCAACT
*
20300375 ATCGACTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
*
20300404 ATC-AACTATGAAAAGCGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* * *
20300433 A-CTGATTGATGAAAAGGTATGGTTACGACC
1 ATC-GAAT-ATGAAAAGGGATGGTGACGACC
20300463 ATCGAATATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* *
20300492 ATCGAATATGAAAAAGGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* * *
20300521 ATCGAATATGGAAAGGGATGGTTACAACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
20300550 AT
1 AT
20300552 TGTTTAGCAC
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.02
29 100 0.79
30 24 0.19
31 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:20300455 original size:59 final size:57
Alignment explanation
Indices: 20300375--20300551 Score: 214
Period size: 59 Copynumber: 3.0 Consensus size: 57
20300365 AGTTTCAACT
* *
20300375 ATCGACTATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAGCGATGGTGACGACC
1 ATCGAATATGAAAA-GGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGACC
* *
20300433 A-CTGATTGATGAAAAGGTATGGTTACGACCATCGAATATGAAAAGGGATGGTGACGACC
1 ATC-GAAT-ATGAAAAGG-ATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGACC
* * * *
20300492 ATCGAATATGAAAAAGGATGGTGATGACCATCGAATATGGAAAGGGATGGTTACAACC
1 ATCGAATATG-AAAAGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGACC
20300550 AT
1 AT
20300552 TGTTTAGCAC
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
57 1 0.01
58 47 0.45
59 53 0.51
60 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (57 bp):
ATCGAATATGAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGACC
Found at i:20300504 original size:88 final size:87
Alignment explanation
Indices: 20300355--20300551 Score: 256
Period size: 88 Copynumber: 2.3 Consensus size: 87
20300345 ATCGATTAAA
* * * *
20300355 GAAAAGGGATAGTTTCAACTATCGACTATGAAAAGGGATGGTGACGACCATCAACTATG-AAAAG
1 GAAAAGGGATGGTTACAACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAG
*
20300419 CGATGGTGACGACCA-CTGATTGAT
66 -GATGGTGACGACCATC-GAAT-AT
* *
20300443 GAAAAGGTATGGTTACGACCATCGAATATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAA
1 GAAAAGGGATGGTTACAACCATCGAATATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAA
*
20300507 GGATGGTGATGACCATCGAATAT
65 GGATGGTGACGACCATCGAATAT
*
20300530 GGAAAGGGATGGTTACAACCAT
1 GAAAAGGGATGGTTACAACCAT
20300552 TGTTTAGCAC
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 21 0.22
88 66 0.69
89 8 0.08
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (87 bp):
GAAAAGGGATGGTTACAACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAG
GATGGTGACGACCATCGAATAT
Found at i:20310248 original size:16 final size:16
Alignment explanation
Indices: 20310223--20310253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20310213 ACTTCATAGA
20310223 AATCTCATAAAAATAT
1 AATCTCATAAAAATAT
*
20310239 AATCTTATAAAAATA
1 AATCTCATAAAAATA
20310254 GAAGTTCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
AATCTCATAAAAATAT
Found at i:20312511 original size:13 final size:13
Alignment explanation
Indices: 20312493--20312526 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20312483 AATATTATTT
20312493 ATTTAATCAATTA
1 ATTTAATCAATTA
*
20312506 ATTTAATTAATTA
1 ATTTAATCAATTA
*
20312519 AATTAATC
1 ATTTAATC
20312527 TCTCAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:20313881 original size:18 final size:18
Alignment explanation
Indices: 20313838--20313882 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
20313828 AGACTTGGGA
20313838 TTTTAA-AAAATATATTT
1 TTTTAATAAAATATATTT
20313855 TATTT-ATAAAAT-TATTAT
1 T-TTTAATAAAATATATT-T
20313873 TTTTAATAAA
1 TTTTAATAAA
20313883 TAAATTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATAAAATATATTT
Found at i:20315894 original size:5 final size:5
Alignment explanation
Indices: 20315886--20315913 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20315876 CAATCAAAAC
20315886 AAAGT AAAGT AAAGT AAAGT AAAGT AAA
1 AAAGT AAAGT AAAGT AAAGT AAAGT AAA
20315914 AGACTGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAAGT
Found at i:20317001 original size:3 final size:3
Alignment explanation
Indices: 20316995--20317021 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20316985 TTATTAATAC
20316995 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
20317022 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:20323278 original size:27 final size:27
Alignment explanation
Indices: 20323213--20323285 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
20323203 TGGTGGAGGG
*
20323213 CCTGCCACAGGC-AGCACCAGAGGTGCC
1 CCTGCCACAGGCGA-CACCAAAGGTGCC
** * *
20323240 AGTGGCAGAGGCGACACCAAAGGTGCC
1 CCTGCCACAGGCGACACCAAAGGTGCC
*
20323267 CCTGCCACAGGCGGCACCA
1 CCTGCCACAGGCGACACCA
20323286 CCCATTATAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.37, G:0.32, T:0.07
Consensus pattern (27 bp):
CCTGCCACAGGCGACACCAAAGGTGCC
Found at i:20323356 original size:10 final size:10
Alignment explanation
Indices: 20323341--20323397 Score: 78
Period size: 10 Copynumber: 5.7 Consensus size: 10
20323331 AGGAATGGAG
20323341 AAGAAAGAAA
1 AAGAAAGAAA
20323351 AAGAAAGAAA
1 AAGAAAGAAA
* * *
20323361 AGGAAAGGAG
1 AAGAAAGAAA
20323371 AAGAAAGAAA
1 AAGAAAGAAA
20323381 AAGAAAGAAA
1 AAGAAAGAAA
*
20323391 AGGAAAG
1 AAGAAAG
20323398 GAGAAGAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:20323360 original size:30 final size:30
Alignment explanation
Indices: 20323321--20323405 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
20323311 GCTGAAGGAG
* *
20323321 AAGATAGAAAAGGAATGGAGAAGAAAGAAA
1 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
20323351 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
1 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
20323381 AAGAAAGAAAAGGAAAGGAGAAGAA
1 AAGAAAGAAAAGGAAAGGAGAAGAA
20323406 GAAGGAGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (30 bp):
AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
Found at i:20323404 original size:20 final size:20
Alignment explanation
Indices: 20323315--20323421 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 20
20323305 GATTCGGCTG
*
20323315 AAGGAGAAGATAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
* *
20323335 ATGGAGAAGAAAGAAAAAGA
1 AAGGAGAAGAAAGAAAAGGA
* *
20323355 AA-GAAAAGGAAAGGAGAA-GA
1 AAGGAGAA-GAAA-GAAAAGGA
* *
20323375 AAGAAAAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
20323395 AAGGAGAAG-AAG--AAGGA
1 AAGGAGAAGAAAGAAAAGGA
20323412 GAAGGAGAAG
1 -AAGGAGAAG
20323422 GAGGCACAGG
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
17 5 0.07
18 9 0.12
19 11 0.15
20 39 0.54
21 8 0.11
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAGGA
Found at i:20323424 original size:6 final size:6
Alignment explanation
Indices: 20323390--20323460 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
20323380 AAAGAAAGAA
* * *
20323390 AAGGA- AAGGAG AAGAAG AAGGAG AAGGAG AAGGAGG CACAGGAA AAAGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGA-G -A-AGGAG AAGGAG
* *
20323440 AAAGAG AAGGAG AAGAAG AAG
1 AAGGAG AAGGAG AAGGAG AAG
20323461 AGGGAGGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.09
6 43 0.78
7 2 0.04
8 1 0.02
9 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.41, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:20323481 original size:39 final size:43
Alignment explanation
Indices: 20323387--20323481 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 43
20323377 GAAAAAGAAA
* *
20323387 GAAAAGGAAAGGAGAAGAAGAAGGAGAAGGAGAAGGAGGCACAG
1 GAAAAAGAAAGGAGAAGAAGAAGAAGAAGGAG-AGGAGGCACAG
* * *
20323431 GAAAAAGAGAAAGAGAAGGAGAAGAAGAA-GAG-GGAGGGA-AG
1 GAAAAAGA-AAGGAGAAGAAGAAGAAGAAGGAGAGGAGGCACAG
20323472 GAAAAAGAAA
1 GAAAAAGAAA
20323482 CAAAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 2 0.04
41 10 0.22
42 6 0.13
44 10 0.22
45 17 0.38
ACGTcount: A:0.57, C:0.02, G:0.41, T:0.00
Consensus pattern (43 bp):
GAAAAAGAAAGGAGAAGAAGAAGAAGAAGGAGAGGAGGCACAG
Found at i:20323537 original size:19 final size:20
Alignment explanation
Indices: 20323502--20323540 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20323492 CAAGGAAAGG
20323502 TAATTTTGTTGGTATTATTT
1 TAATTTTGTTGGTATTATTT
*
20323522 TAATTTT-TTTGTATTATTT
1 TAATTTTGTTGGTATTATTT
20323541 GTCTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TAATTTTGTTGGTATTATTT
Found at i:20324176 original size:158 final size:159
Alignment explanation
Indices: 20323694--20324268 Score: 926
Period size: 159 Copynumber: 3.6 Consensus size: 159
20323684 TACGAAAAGA
* * ** * *
20323694 AATAAAAAATGAAAATAGTATATTTACTGAAAGTAATAAAATCCGA-AAATAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATACGAA
* *
20323758 CAAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATTTTAAAAAACACACTAAAATAATACATT
66 CAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATT-AAAAACACACTAAATTAATACATT
20323823 TCAAACATAATGTACTAAAATAATATAAAAT
129 TCAAACATAATGTACTAAAATAATATAAAAT
* *
20323854 AATAAAACACGAAAATAGTATATTTTTTGAAAGTAATAAAATTTGAGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATACGAA
* *
20323919 CAAAGTGCCAAAATAAGGGTTTTTTACTAAATTTATA-TAAAACACACACTAAATTAATACATGT
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATTAAAA-ACACACTAAATTAATACATTT
*
20323983 CAAACATTATGTACTAAAATAATATAAAAT
130 CAAACATAATGTACTAAAATAATATAAAAT
20324013 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA-CTTGAGAAAAAAGAAAAATACGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-TGAGAAAAAAGAAAAATACGA
*
20324077 ACAAAGGGCCAAAAGAAGGGTTTTTTACTAAATTTATATTAAAAA-ACACTAAATTAATACATTT
65 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATTAAAAACACACTAAATTAATACATTT
20324141 CAAACATAATGTACTAAAATAATATAAAAT
130 CAAACATAATGTACTAAAATAATATAAAAT
* * *
20324171 AATAAAATATGAAAATAGTATA-TTTTTAAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATACGAA
20324235 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
20324269 GTTTTGAAGT
Statistics
Matches: 388, Mismatches: 22, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
157 71 0.18
158 73 0.19
159 147 0.38
160 62 0.16
161 35 0.09
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (159 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATACGAA
CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATTAAAAACACACTAAATTAATACATTTC
AAACATAATGTACTAAAATAATATAAAAT
Found at i:20324195 original size:317 final size:318
Alignment explanation
Indices: 20323694--20324268 Score: 960
Period size: 316 Copynumber: 1.8 Consensus size: 318
20323684 TACGAAAAGA
* *
20323694 AATAAAAAATGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
1 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
* *
20323759 AAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATTTTAAAAAACACACTAAAATAATACATTT
66 AAAGGGCCAAAAGAAGGGTTTTTTTACTAAATTTATATTAAAAAACACACTAAAATAATACATTT
*
20323824 CAAACATAATGTACTAAAATAATATAAAATAATAAAACACGAAAATAGTATATTTTTTGAAAGTA
131 CAAACATAATGTACTAAAATAATATAAAATAATAAAACACGAAAATAGTATA-TTTTTAAAAGTA
* *
20323889 ATAAAATTTGAGAAAAAAGAAAAATACGAACAAAGTGCCAAAATAAGGGTTTTTTACTAAATTTA
195 ATAAAATCTGAGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTA
20323954 TATAAAACACACACTAAATTAATACATGTCAAACATTATGTACTAAAATAATATAAAAT
260 TATAAAACACACACTAAATTAATACATGTCAAACATTATGTACTAAAATAATATAAAAT
* ** *
20324013 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA-CTTGAGAAAAAAGAAAAATACGA
1 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATC-CGA-AAAAAAGAAAAATACGA
*
20324077 ACAAAGGGCCAAAAGAAGGG-TTTTTTACTAAATTTATATT-AAAAA-ACACTAAATTAATACAT
64 ACAAAGGGCCAAAAGAAGGGTTTTTTTACTAAATTTATATTAAAAAACACACTAAAATAATACAT
* *
20324139 TTCAAACATAATGTACTAAAATAATATAAAATAATAAAATATGAAAATAGTATATTTTTAAAAGT
129 TTCAAACATAATGTACTAAAATAATATAAAATAATAAAACACGAAAATAGTATATTTTTAAAAGT
*
20324204 AATAAAATCTGGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
194 AATAAAATCTGAGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
20324269 GTTTTGAAGT
Statistics
Matches: 239, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
316 72 0.30
317 68 0.28
318 6 0.03
319 58 0.24
320 35 0.15
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (318 bp):
AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
AAAGGGCCAAAAGAAGGGTTTTTTTACTAAATTTATATTAAAAAACACACTAAAATAATACATTT
CAAACATAATGTACTAAAATAATATAAAATAATAAAACACGAAAATAGTATATTTTTAAAAGTAA
TAAAATCTGAGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTAT
ATAAAACACACACTAAATTAATACATGTCAAACATTATGTACTAAAATAATATAAAAT
Found at i:20335012 original size:6 final size:6
Alignment explanation
Indices: 20334987--20335027 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
20334977 ATGTATTTAA
* *
20334987 TTGTTT TTGAAT TGTGTAT TTGTAT TTGTAT TTGTAT TTGT
1 TTGTAT TTGTAT T-TGTAT TTGTAT TTGTAT TTGTAT TTGT
20335028 TTATATTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.00, G:0.20, T:0.66
Consensus pattern (6 bp):
TTGTAT
Found at i:20335024 original size:18 final size:19
Alignment explanation
Indices: 20334987--20335027 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20334977 ATGTATTTAA
*
20334987 TTGTTTTTGAATTGTGTAT
1 TTGTATTTGAATTGTGTAT
*
20335006 TTGTATTTGTATT-TGTAT
1 TTGTATTTGAATTGTGTAT
20335024 TTGT
1 TTGT
20335028 TTATATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.20, T:0.66
Consensus pattern (19 bp):
TTGTATTTGAATTGTGTAT
Found at i:20335293 original size:20 final size:21
Alignment explanation
Indices: 20335247--20335302 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
20335237 ATTGTACGGG
20335247 TTTGCACTTTGGTGCTTATAC
1 TTTGCACTTTGGTGCTTATAC
*
20335268 TTTGCACTTCGGTGC-TACTA-
1 TTTGCACTTTGGTGCTTA-TAC
20335288 TTTGCACTTTGGTGC
1 TTTGCACTTTGGTGC
20335303 CCCTGTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.45
Consensus pattern (21 bp):
TTTGCACTTTGGTGCTTATAC
Found at i:20337139 original size:22 final size:22
Alignment explanation
Indices: 20337089--20337140 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
20337079 GAAGGGTATT
*
20337089 CTTAACTAAGGGTAATAAATAA
1 CTTAATTAAGGGTAATAAATAA
* * *
20337111 CTAAATTAAGGGTAATTAATTA
1 CTTAATTAAGGGTAATAAATAA
*
20337133 TTTAATTA
1 CTTAATTA
20337141 GATAATTAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (22 bp):
CTTAATTAAGGGTAATAAATAA
Found at i:20339632 original size:13 final size:13
Alignment explanation
Indices: 20339614--20339644 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20339604 GTTACATGGT
20339614 CGTGTCGCCAAGC
1 CGTGTCGCCAAGC
20339627 CGTGTCGCCAAGC
1 CGTGTCGCCAAGC
*
20339640 TGTGT
1 CGTGT
20339645 AACAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.23
Consensus pattern (13 bp):
CGTGTCGCCAAGC
Found at i:20340319 original size:43 final size:43
Alignment explanation
Indices: 20340254--20340470 Score: 221
Period size: 43 Copynumber: 5.1 Consensus size: 43
20340244 TGCCGCTAAA
* * * *
20340254 TTTAGCGGC-ATTTATGTGAAAAACGCCGCTAAAGATCATGACA
1 TTTAGCGGCTCTTTA-GTCAAAAACGCCGCTAAAGAACATGACC
*
20340297 TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGATCATGACC
1 TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
* * * *
20340340 TTTAGCGACACTTTTGTCACAAACGCCGCTAAAGAACATGACC
1 TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
* * * *
20340383 TTTAGCGGCGTTTTTA-TCACAAACGCAGCTAAAGAACA-AACC
1 TTTAGCGGC-TCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
* *
20340425 TTTAGCGG-TGCTTCTCG-CAAAAACGCCGCTAAA-AACATAACC
1 TTTAGCGGCT-CTT-TAGTCAAAAACGCCGCTAAAGAACATGACC
20340467 TTTA
1 TTTA
20340471 AAAAAATTTA
Statistics
Matches: 150, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.01
41 6 0.04
42 34 0.23
43 102 0.68
44 7 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
Found at i:20340686 original size:12 final size:12
Alignment explanation
Indices: 20340669--20340694 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20340659 TAAAATAATA
20340669 AATTAATAACAC
1 AATTAATAACAC
20340681 AATTAATAACAC
1 AATTAATAACAC
20340693 AA
1 AA
20340695 CCTGAAACAA
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
AATTAATAACAC
Found at i:20341150 original size:13 final size:13
Alignment explanation
Indices: 20341132--20341162 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20341122 GTTACATGGT
20341132 CGTGTCGCCAAGC
1 CGTGTCGCCAAGC
20341145 CGTGTCGCCAAGC
1 CGTGTCGCCAAGC
*
20341158 TGTGT
1 CGTGT
20341163 AACAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.23
Consensus pattern (13 bp):
CGTGTCGCCAAGC
Found at i:20341837 original size:43 final size:43
Alignment explanation
Indices: 20341772--20341988 Score: 221
Period size: 43 Copynumber: 5.1 Consensus size: 43
20341762 TGCCGCTAAA
* * * *
20341772 TTTAGCGGC-ATTTATGTGAAAAACGCCGCTAAAGATCATGACA
1 TTTAGCGGCTCTTTA-GTCAAAAACGCCGCTAAAGAACATGACC
*
20341815 TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGATCATGACC
1 TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
* * * *
20341858 TTTAGCGACACTTTTGTCACAAACGCCGCTAAAGAACATGACC
1 TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
* * * *
20341901 TTTAGCGGCGTTTTTA-TCACAAACGCAGCTAAAGAACA-AACC
1 TTTAGCGGC-TCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
* *
20341943 TTTAGCGG-TGCTTCTCG-CAAAAACGCCGCTAAA-AACATAACC
1 TTTAGCGGCT-CTT-TAGTCAAAAACGCCGCTAAAGAACATGACC
20341985 TTTA
1 TTTA
20341989 AAAAAATTTA
Statistics
Matches: 150, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.01
41 6 0.04
42 34 0.23
43 102 0.68
44 7 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCTCTTTAGTCAAAAACGCCGCTAAAGAACATGACC
Found at i:20342204 original size:12 final size:12
Alignment explanation
Indices: 20342187--20342212 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20342177 TAAAATAATA
20342187 AATTAATAACAC
1 AATTAATAACAC
20342199 AATTAATAACAC
1 AATTAATAACAC
20342211 AA
1 AA
20342213 CCTGAAACAA
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
AATTAATAACAC
Found at i:20345424 original size:19 final size:19
Alignment explanation
Indices: 20345400--20345472 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
20345390 AATCTTCAGG
20345400 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20345419 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
20345438 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20345457 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20345473 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20345498 original size:22 final size:21
Alignment explanation
Indices: 20345400--20345498 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
20345390 AATCTTCAGG
*
20345400 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
20345419 GATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
20345438 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
20345457 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
20345479 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
20345499 TTAATTTGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 45 0.66
22 12 0.18
23 11 0.16
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:20351460 original size:132 final size:132
Alignment explanation
Indices: 20351287--20351916 Score: 1057
Period size: 132 Copynumber: 4.8 Consensus size: 132
20351277 TGACAGCGAC
20351287 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * * *
20351352 CTACTTCCCTGGACAACAGTGGAATAAATTGAAGATTTCAGGTCTTATCTCCTTAAACAGTAGTG
66 CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
20351417 GA
131 GA
*
20351419 GCAGATCGAATATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
20351484 CTACTTCCCTGGATAACAGTGGAACAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
66 CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
20351549 GA
131 GA
*
20351551 GCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
20351616 CTACTTCCCTGGATAACAGTGGAACAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
66 CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
20351681 GA
131 GA
* * *
20351683 GCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCCATTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
*
20351748 CTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
66 CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
20351813 GA
131 GA
* *
20351815 GCCGATCGAAGATGGCGGATTTTACATCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-T
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * *
20351879 CATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 C-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
20351917 GTAAGTCCTA
Statistics
Matches: 473, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
131 3 0.01
132 470 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
CTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
GA
Found at i:20352268 original size:19 final size:19
Alignment explanation
Indices: 20352244--20352392 Score: 208
Period size: 19 Copynumber: 7.8 Consensus size: 19
20352234 AATCTTCAGG
20352244 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20352263 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
20352282 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20352301 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
* *
20352320 GATATGTAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
20352339 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
20352358 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20352377 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20352393 ATATATGATT
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 116 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20352299 original size:38 final size:38
Alignment explanation
Indices: 20352251--20352397 Score: 240
Period size: 38 Copynumber: 3.8 Consensus size: 38
20352241 AGGGATATGC
20352251 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* * *
20352289 AATCTTAGATATGATATGCAATCCTAGATATGATATGT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
20352327 AATCCTAGATATGATATGTAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
20352365 AATCTTAGATATGATATGCAATCTTAGAATATA
1 AATCTTAGATATGATATGCAATCTTAG-ATATA
20352398 TGATTTTGTA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 93 0.95
39 5 0.05
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:20356022 original size:14 final size:14
Alignment explanation
Indices: 20356005--20356056 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
20355995 CCTCTAATAT
*
20356005 CTAACCCCTAACCC
1 CTAACCCTTAACCC
*
20356019 CTAA-TCTTAAACCC
1 CTAACCCTT-AACCC
*
20356033 TTAACCCTTAACCC
1 CTAACCCTTAACCC
*
20356047 CTAAACCTTA
1 CTAACCCTTA
20356057 TTTAATATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 25 0.83
15 3 0.10
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:20356182 original size:81 final size:83
Alignment explanation
Indices: 20356034--20356189 Score: 262
Period size: 81 Copynumber: 1.9 Consensus size: 83
20356024 CTTAAACCCT
20356034 TAACCCTTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
1 TAACCCTTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
*
20356099 AACTCTAACCCGAATCCC
66 AACCCTAACCCGAATCCC
* * *
20356117 TAACCCTTAACCCCTAAACCTTATTT-A-ATATAAATTAAAACACACTAATTACTCTAAACCTTA
1 TAACCCTTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
20356180 AACCCTAACC
66 AACCCTAACC
20356190 TAACATTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 42 0.61
82 1 0.01
83 26 0.38
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.28
Consensus pattern (83 bp):
TAACCCTTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
AACCCTAACCCGAATCCC
Found at i:20356934 original size:40 final size:39
Alignment explanation
Indices: 20356881--20356977 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 39
20356871 TGGGCTTAGG
* * *
20356881 TTTTTTGCAGCGTTTTTCCAAAAAACGCCGCTAATGCTC-A
1 TTTTTAGCGGCGTTTTT--AAAAAACGCCACTAATGCTCGA
** * *
20356921 TTTTTAGCGGCGTTTTATGTAAAGCGTCACTAATGCTCGA
1 TTTTTAGCGGCGTTTT-TAAAAAACGCCACTAATGCTCGA
20356961 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
20356978 TGTCCAAACG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 16 0.33
40 31 0.65
41 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTAAAAAACGCCACTAATGCTCGA
Found at i:20369573 original size:63 final size:62
Alignment explanation
Indices: 20369380--20369600 Score: 246
Period size: 63 Copynumber: 3.5 Consensus size: 62
20369370 CTGAAGAAGA
* * * * *
20369380 TGTTGATGCAAGGAATGATTGCGCGTGCTGTAGCGCTTGTGTAAAATAAATCGGTGCTGAATG
1 TGTTGATGCAGGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAATCAGTGCTG-ATG
* * * * * * *
20369443 TATTGATGTAGGGAATGATTGTGTGTGCTGTGGTACTTGTGTAAAATAAACCAGTGCTTAATA
1 TGTTGATGCAGGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAATCAGTGC-TGATG
* *
20369506 TGTTGATGCAGGGAATGATTGTGCGTGTTGTGGTGCTTGTGTAAAATAAATCAGAGCTGATGG
1 TGTTGATGCAGGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAATCAGTGCTGAT-G
** *
20369569 TGTTGATGGGGGGAATGAGTT-TGCGTGTTGTG
1 TGTTGATGCAGGGAATGA-TTGTGCGTGCTGTG
20369601 ATTCTTGTAA
Statistics
Matches: 132, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
62 3 0.02
63 126 0.95
64 3 0.02
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.34
Consensus pattern (62 bp):
TGTTGATGCAGGGAATGATTGTGCGTGCTGTGGTGCTTGTGTAAAATAAATCAGTGCTGATG
Found at i:20369608 original size:126 final size:126
Alignment explanation
Indices: 20369379--20369608 Score: 302
Period size: 126 Copynumber: 1.8 Consensus size: 126
20369369 CCTGAAGAAG
* *
20369379 ATGTTGATGCAAGGAATGATTGCGCGTGCTGTAGCGCTTGTGTAAAATAAATCGGTGCTGAATGT
1 ATGTTGATGCAAGGAATGATTGCGCGTGCTGTAGCGCTTGTGTAAAATAAATCAGAGCTGAATGT
* * *
20369444 ATTGATGTAGGGAATGATTGTGTGTGCTGTGGTACTTGTGTAAAATAAACCAGTGCTTAAT
66 ATTGATGGAGGGAATGATTGTGCGTGCTGTGATACTTGTGTAAAATAAACCAGTGCTTAAT
* * * * *
20369505 ATGTTGATGCAGGGAATGATTGTGCGTGTTGTGGTGCTTGTGTAAAATAAATCAGAGCTG-ATGG
1 ATGTTGATGCAAGGAATGATTGCGCGTGCTGTAGCGCTTGTGTAAAATAAATCAGAGCTGAAT-G
* * * *
20369569 TGTTGATGGGGGGAATGAGTT-TGCGTGTTGTGATTCTTGT
65 TATTGATGGAGGGAATGA-TTGTGCGTGCTGTGATACTTGT
20369609 AACAAAAAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
125 2 0.02
126 84 0.95
127 2 0.02
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (126 bp):
ATGTTGATGCAAGGAATGATTGCGCGTGCTGTAGCGCTTGTGTAAAATAAATCAGAGCTGAATGT
ATTGATGGAGGGAATGATTGTGCGTGCTGTGATACTTGTGTAAAATAAACCAGTGCTTAAT
Found at i:20370345 original size:41 final size:41
Alignment explanation
Indices: 20370220--20370367 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
20370210 GAGCGTAAAT
* *
20370220 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAC
1 AGGGACACGTATGTGCAATTCAGGGGTACTGAAGTACAAAC
* * ** *
20370261 AGCGACACGCACCTGCAATTCAAGGGTACTGAAGTACAAAC
1 AGGGACACGTATGTGCAATTCAGGGGTACTGAAGTACAAAC
* * *
20370302 AGGGACACATATGTGTAATTCAGGGGTACTGAAATACAAAC
1 AGGGACACGTATGTGCAATTCAGGGGTACTGAAGTACAAAC
* *
20370343 AGGGGCATGTATGTGCAATTCAGGG
1 AGGGACACGTATGTGCAATTCAGGG
20370368 AATAATTAAG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (41 bp):
AGGGACACGTATGTGCAATTCAGGGGTACTGAAGTACAAAC
Found at i:20375696 original size:43 final size:42
Alignment explanation
Indices: 20375613--20375754 Score: 185
Period size: 42 Copynumber: 3.3 Consensus size: 42
20375603 ACGTCGCTAA
* * * *
20375613 CTTTTACGGCGCTTACAGAAAAAAACACCGCTAAATATCATGTT
1 CTTTAACGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
*
20375657 CTTTAACGGCGCTTAGGAAGAAAATGCCGCTAAAGATCATGTT
1 CTTTAACGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGTT
* *
20375700 CTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAACGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
20375742 CTTTAGCGGCGCT
1 CTTTAACGGCGCT
20375755 AAAAGTAGTG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 39 0.44
43 37 0.42
44 13 0.15
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTTAACGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:20375741 original size:42 final size:42
Alignment explanation
Indices: 20375615--20375754 Score: 192
Period size: 43 Copynumber: 3.3 Consensus size: 42
20375605 GTCGCTAACT
* * *
20375615 TTTA-CGGCGCTTACAGAAAAAAACACCGCTAAATATCATGTTC
1 TTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTTC
* *
20375658 TTTAACGGCGCTTAGGAAGAAAATGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGTTC
*
20375701 TTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTC
20375743 TTTAGCGGCGCT
1 TTTAGCGGCGCT
20375755 AAAAGTAGTG
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
42 39 0.44
43 41 0.47
44 8 0.09
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTC
Found at i:20375857 original size:43 final size:42
Alignment explanation
Indices: 20375768--20375851 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 42
20375758 AGTAGTGTTC
* * *
20375768 TTTAGCGGCGCTTATTTCACAAACGCCACTATTTGATATGACT
1 TTTAGCGGCGCTTATTTAAAAAACGCCACTATTTGAGAT-ACT
*
20375811 TTTAGCGGCGCTTTTTTAAAAAACGCCACTAATTTTGAGAT
1 TTTAGCGGCGCTTATTTAAAAAACGCCACT-A-TTTGAGAT
20375852 TTTTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 27 0.77
44 1 0.03
45 7 0.20
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (42 bp):
TTTAGCGGCGCTTATTTAAAAAACGCCACTATTTGAGATACT
Found at i:20376241 original size:12 final size:12
Alignment explanation
Indices: 20376220--20376251 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20376210 TGAACCTCTA
*
20376220 CTTCTATCGCTG
1 CTTCTCTCGCTG
20376232 CTTCTCTCGCTG
1 CTTCTCTCGCTG
20376244 CTTCTCTC
1 CTTCTCTC
20376252 ACTGTGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.03, C:0.41, G:0.12, T:0.44
Consensus pattern (12 bp):
CTTCTCTCGCTG
Found at i:20376266 original size:21 final size:21
Alignment explanation
Indices: 20376241--20376309 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
20376231 GCTTCTCTCG
* *
20376241 CTGCTTCTCTCACTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCCT
*
20376262 CTGCTTCTCTCGTTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
* **
20376283 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGTAGCCT
20376304 CTGCTT
1 CTGCTT
20376310 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Found at i:20377958 original size:44 final size:44
Alignment explanation
Indices: 20377894--20377987 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
20377884 CTAGAAGGAG
*
20377894 GAAGGAGGCGATTTAGGGATTT-GGAATTTCAAGAAATTCGACAA
1 GAAGGAGGCGATTTACGGATTTGGGAA-TTCAAGAAATTCGACAA
* *
20377938 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTGGGCAA
1 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTCGACAA
20377982 GAAGGA
1 GAAGGA
20377988 CGCAAGAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.22
Consensus pattern (44 bp):
GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTCGACAA
Found at i:20378756 original size:23 final size:24
Alignment explanation
Indices: 20378730--20378780 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
20378720 TAATTTAAAT
20378730 ATTATCAA-TATTTAAAATTATT-A
1 ATTATCAATTATTT-AAATTATTCA
* *
20378753 ATTATTAATTATTTATATTATTCA
1 ATTATCAATTATTTAAATTATTCA
20378777 ATTA
1 ATTA
20378781 ATGTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATCAATTATTTAAATTATTCA
Found at i:20378764 original size:14 final size:17
Alignment explanation
Indices: 20378745--20378780 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
20378735 CAATATTTAA
20378745 AATTA-TTA-ATTATT-
1 AATTATTTATATTATTC
20378759 AATTATTTATATTATTC
1 AATTATTTATATTATTC
20378776 AATTA
1 AATTA
20378781 ATGTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 6 0.32
17 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTATATTATTC
Found at i:20379203 original size:14 final size:14
Alignment explanation
Indices: 20379158--20379214 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
20379148 TCTAAACCCC
*
20379158 AAACCCCAAA-TCTT
1 AAACCCTAAACTC-T
20379172 AAACCCTAAACTTCT
1 AAACCCTAAAC-TCT
20379187 AAACCCTAAACTCT
1 AAACCCTAAACTCT
*
20379201 AAACACCAAAACTC
1 AAAC-CCTAAACTC
20379215 ACATCATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
14 16 0.42
15 20 0.53
16 2 0.05
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCCTAAACTCT
Found at i:20379735 original size:114 final size:114
Alignment explanation
Indices: 20379528--20379737 Score: 264
Period size: 114 Copynumber: 1.8 Consensus size: 114
20379518 AAAACTGTGC
* * * * *
20379528 GTTTTGGTTAAGATATTTTGCGGCGCTTACCAAAAAGCGCCGCTAATAATATGCTTTAGCGGCGA
1 GTTTCGGTTAAGATATTCTGCGGCGCATACCAAAAAGCACCGCTAATAATATACTTTAGCGGCGA
* *
20379593 TTTATCGTGAACGCCACTAATTCCAATATACATCAAGTTTAAACGTAAT
66 TTTATCATCAACGCCACTAATTCCAATATACATCAAGTTTAAACGTAAT
* * *
20379642 GTTTCGGTTAATATATTCTGCGGCGCAT-CTAAAAACGCACCGCTAATAGTATACTTTAGCGGCG
1 GTTTCGGTTAAGATATTCTGCGGCGCATACCAAAAA-GCACCGCTAATAATATACTTTAGCGGCG
* *
20379706 -TTT-TCCAATCAGCGCCACTAATTCTAATATAC
65 ATTTAT-C-ATCAACGCCACTAATTCCAATATAC
20379738 CTCAGACCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
112 1 0.01
113 10 0.12
114 70 0.86
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (114 bp):
GTTTCGGTTAAGATATTCTGCGGCGCATACCAAAAAGCACCGCTAATAATATACTTTAGCGGCGA
TTTATCATCAACGCCACTAATTCCAATATACATCAAGTTTAAACGTAAT
Found at i:20380069 original size:207 final size:206
Alignment explanation
Indices: 20379695--20380087 Score: 569
Period size: 207 Copynumber: 1.9 Consensus size: 206
20379685 TAATAGTATA
* * *
20379695 CTTTAGCGGCGTTTTCCAATCAGCGCCACTAATTCTAATATACCTCAGACCAAACTCTGCGTTTT
1 CTTTAGCGGCGTTTTACAATAAGCGCCACTAATCCTAATATACCTCAGACCAAACTCTGCGTTTT
* * *
20379760 GGTGTGCATATCTTGCGGCGCTTAACTCAAATCGCCGCTAATACTATTATTTAGCGGCTTTTTCT
66 GGTGTGCATATCTTGCGGCGATT-ACTAAAATCGCCGCTAATACTATGATTTAGCGGCTTTTTCT
*
20379825 CGTAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATTTAG
130 CCTAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATTTAG
20379890 CGGCGCTTCTCT
195 CGGCGCTTCTCT
* *
20379902 CTTTAGCGGTGTTTTACAGTAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTTT
1 CTTTAGCGGCGTTTTACAATAAGCGCCACTAATCCTAATATACCTC-AGACCAAACTCTGCGTTT
*
20379967 TGGTGTGCATATCTTGCGGCGATT-CTAGAAAATCGCCGCTAATA-TGATGCTTTAGCGGCGTTT
65 TGGTGTGCATATCTTGCGGCGATTACT--AAAATCGCCGCTAATACT-ATGATTTAGCGGC-TTT
* * * * *
20380030 TTC-CCTAA-CGCCACTAATTGTATTATACATCAAGACCAAACCGCTGCGTTTTGGTTAA
126 TTCTCCTAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAA
20380088 CATTTTTTGC
Statistics
Matches: 166, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
206 2 0.01
207 87 0.52
208 71 0.43
209 6 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTTAGCGGCGTTTTACAATAAGCGCCACTAATCCTAATATACCTCAGACCAAACTCTGCGTTTT
GGTGTGCATATCTTGCGGCGATTACTAAAATCGCCGCTAATACTATGATTTAGCGGCTTTTTCTC
CTAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATTTAGC
GGCGCTTCTCT
Found at i:20380115 original size:54 final size:54
Alignment explanation
Indices: 20380053--20380158 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
20380043 CTAATTGTAT
* *
20380053 TATACATCAAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCGCTTAA
1 TATACATCAAGACCAAAACGCTGCGTTTTGGTTAACATATTTTGCGGCGCTTAA
* * *
20380107 TATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCGGCGCTT
1 TATACATCAAGACCAAAACGCTGCGTTTTGGTTAACATATTTTGCGGCGCTT
20380159 TCCGTAAGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
TATACATCAAGACCAAAACGCTGCGTTTTGGTTAACATATTTTGCGGCGCTTAA
Found at i:20380283 original size:113 final size:113
Alignment explanation
Indices: 20380104--20380361 Score: 268
Period size: 113 Copynumber: 2.3 Consensus size: 113
20380094 TTGCGGCGCT
* ** * * * * **
20380104 TAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCGGCGCTTTCCGTAAGCG
1 TAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATTTTGCGGCACTTCCCACAAGCG
* * ** *
20380169 CCGCTAAGACTTGTTTTA-CTGGCATTTTTTTGTAAACGCCACTAATTC
66 CCGCTAAGACTTGCTTTAGC-GGCATTTTATCATAAACGCCACTAATTA
* * *
20380217 TAATATACATCGATACCAAAACGATGCGTTTTCGTTAAGAT-TTTTGCGGCACTTCCCACAATGC
1 TAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATTTTGCGGCACTTCCCACAA-GC
* ** *
20380281 GCCGCTAATACTTGCTTTAGCGGTGTTTTATCATAATCGCCACTAATTA
65 GCCGCTAAGACTTGCTTTAGCGGCATTTTATCATAAACGCCACTAATTA
** *
20380330 TTGTATACATCAAGACAAAAACGATGCGTTTT
1 TAATATACATCAAGACCAAAACGATGCGTTTT
20380362 GGTCTTGAGA
Statistics
Matches: 117, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
112 16 0.14
113 100 0.85
114 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (113 bp):
TAATATACATCAAGACCAAAACGATGCGTTTTCGTTAACATATTTTGCGGCACTTCCCACAAGCG
CCGCTAAGACTTGCTTTAGCGGCATTTTATCATAAACGCCACTAATTA
Found at i:20392548 original size:28 final size:28
Alignment explanation
Indices: 20392512--20392566 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
20392502 CTCACTTGAG
20392512 TTTTGTTTCTCCAAGATTTCAATCTCAA
1 TTTTGTTTCTCCAAGATTTCAATCTCAA
*
20392540 TTTTTTTTCTCCAAGATTTCAATCTCA
1 TTTTGTTTCTCCAAGATTTCAATCTCA
20392567 TTTCGCTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTTGTTTCTCCAAGATTTCAATCTCAA
Found at i:20393794 original size:16 final size:16
Alignment explanation
Indices: 20393773--20393824 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
20393763 AAAACAGGAG
20393773 AAAATTTACTGAGTAA
1 AAAATTTACTGAGTAA
20393789 AAAA-TT-CT-ATGTAA
1 AAAATTTACTGA-GTAA
20393803 AAAATTTACTGAGTAA
1 AAAATTTACTGAGTAA
20393819 AAAATT
1 AAAATT
20393825 CTATGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.03
14 10 0.31
15 4 0.12
16 16 0.50
17 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAATTTACTGAGTAA
Found at i:20393807 original size:30 final size:30
Alignment explanation
Indices: 20393773--20393835 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
20393763 AAAACAGGAG
20393773 AAAATTTACTGAGTAAAAAATTCTATGTAA
1 AAAATTTACTGAGTAAAAAATTCTATGTAA
20393803 AAAATTTACTGAGTAAAAAATTCTATGTAA
1 AAAATTTACTGAGTAAAAAATTCTATGTAA
20393833 AAA
1 AAA
20393836 GGACGATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (30 bp):
AAAATTTACTGAGTAAAAAATTCTATGTAA
Found at i:20393832 original size:14 final size:14
Alignment explanation
Indices: 20393785--20393835 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 14
20393775 AATTTACTGA
20393785 GTAAAAAATTCTAT
1 GTAAAAAATTCTAT
20393799 GTAAAAAATT-TACT
1 GTAAAAAATTCTA-T
20393813 GAGTAAAAAATTCTAT
1 --GTAAAAAATTCTAT
20393829 GTAAAAA
1 GTAAAAA
20393836 GGACGATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.06
14 18 0.55
16 11 0.33
17 2 0.06
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (14 bp):
GTAAAAAATTCTAT
Found at i:20405797 original size:24 final size:25
Alignment explanation
Indices: 20405751--20405798 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
20405741 TATTTTAACT
*
20405751 TTTTATTTAATTTTTTGTTTTTATG
1 TTTTATTTAATTTTGTGTTTTTATG
20405776 TTTT-TTTAA-TTTGTGTTATTTAT
1 TTTTATTTAATTTTGTGTT-TTTAT
20405799 AAAATCACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 10 0.48
25 4 0.19
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (25 bp):
TTTTATTTAATTTTGTGTTTTTATG
Found at i:20413950 original size:28 final size:28
Alignment explanation
Indices: 20413919--20413985 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
20413909 AAAAATGGTC
20413919 AAAATCAAAATTCAATAA-AAAAAGAGAAA
1 AAAATCAAAATTCAA-AAGAAAAA-AGAAA
*
20413948 AAAAT-AAAAGTCAAAAGGAAAAAAG-AA
1 AAAATCAAAATTCAAAA-GAAAAAAGAAA
20413975 AAAATCAAAAT
1 AAAATCAAAAT
20413986 AAAAATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 9 0.27
28 14 0.42
29 10 0.30
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (28 bp):
AAAATCAAAATTCAAAAGAAAAAAGAAA
Found at i:20413968 original size:21 final size:22
Alignment explanation
Indices: 20413938--20413984 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
20413928 ATTCAATAAA
*
20413938 AAAAGAGAAAAAA-ATAAAAGTC
1 AAAAGAGAAAAAAGA-AAAAATC
20413960 AAAAG-GAAAAAAGAAAAAATC
1 AAAAGAGAAAAAAGAAAAAATC
20413981 AAAA
1 AAAA
20413985 TAAAAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (22 bp):
AAAAGAGAAAAAAGAAAAAATC
Found at i:20414011 original size:33 final size:33
Alignment explanation
Indices: 20413897--20413996 Score: 84
Period size: 33 Copynumber: 3.1 Consensus size: 33
20413887 AACAAAAAAG
* *
20413897 AAAGGAAAAAAGAAAAATGGTCAAAATCAAAATTCA
1 AAAGGAAAAAAGAAAAA--ATCAAAAT-AAAAATCA
* * *
20413933 ATA--AAAAAAG-AGAAA--AAAATAAAAGTCA
1 AAAGGAAAAAAGAAAAAATCAAAATAAAAATCA
*
20413961 AAAGGAAAAAAGAAAAAATCAAAATAAAAATGA
1 AAAGGAAAAAAGAAAAAATCAAAATAAAAATCA
20413994 AAA
1 AAA
20413997 TAAAAAGGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
28 9 0.18
29 5 0.10
30 7 0.14
31 4 0.08
33 17 0.33
34 7 0.14
36 2 0.04
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.11
Consensus pattern (33 bp):
AAAGGAAAAAAGAAAAAATCAAAATAAAAATCA
Found at i:20414016 original size:15 final size:15
Alignment explanation
Indices: 20413993--20414022 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20413983 AATAAAAATG
*
20413993 AAAATAAAAAGGAGA
1 AAAAGAAAAAGGAGA
20414008 AAAAGAAAAAGGAGA
1 AAAAGAAAAAGGAGA
20414023 GGCCAAGGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAGGAGA
Found at i:20414898 original size:7 final size:7
Alignment explanation
Indices: 20414886--20414936 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
20414876 TTTGAGTCAA
20414886 AAAAATG
1 AAAAATG
20414893 AAAAATG
1 AAAAATG
*
20414900 -AAAATT
1 AAAAATG
20414906 AAAAATG
1 AAAAATG
20414913 AAAAAAATG
1 --AAAAATG
*
20414922 AAAAAAG
1 AAAAATG
20414929 TAAAAATG
1 -AAAAATG
20414937 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
6 5 0.14
7 18 0.50
8 6 0.17
9 7 0.19
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:20414909 original size:13 final size:13
Alignment explanation
Indices: 20414887--20414916 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20414877 TTGAGTCAAA
20414887 AAAATGAAAAATG
1 AAAATGAAAAATG
*
20414900 AAAATTAAAAATG
1 AAAATGAAAAATG
20414913 AAAA
1 AAAA
20414917 AAATGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:20417366 original size:88 final size:88
Alignment explanation
Indices: 20416178--20417343 Score: 1532
Period size: 88 Copynumber: 13.3 Consensus size: 88
20416168 AACAAATCAG
* * *
20416178 TGAAGATAACAGATCTTGCCTTACTGCATCGAGAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
20416243 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * * *
20416266 TGAAGATAGCAGATCTTGCCTTCTTCCATCG-CAGTGAAGTAGATTGAAAACACAAGCCTTTCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
20416330 CCCTCGGTTGTAGTAGAGTAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
20416353 TGAAGATAGCAGATCTTGCCTTCCCGTATCGAGAGTGAAGCAGATCAAAAACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
20416418 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* *
20416441 TGAAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
20416506 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
20416529 TGAAGATAACAGATCTTGCCTTCCTGTA-CTGACAGTGAAGTAGATCGAAGACACCAGCCTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* ** ** *
20416593 TCCCTGGGTTACAACGGAACAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
*
20416617 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* * * *
20416682 TCCTTGGTTGTAGTGGAGTAGAT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * ** *
20416705 TGAAGACAGCAAATCTTGCCTTCCTGCATTGATGGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
20416770 CCCTCAGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
20416793 TGAAGATAACAGATCTTGCCTTCCTGTA-CTGACAGTGAATCAGATCGAAGACACCAGCCTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* * * * *
20416857 TCCTTAGGTTGCAGCGAAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * * *
20416881 TGAGGACAGCAGATCTTGCCTTCTTGCATCGAC-GACGAAGCAGATCGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAG-TGAAGCAGATCGAAGACACAAGCCTTGCC
*
20416945 TCCCTTGGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * * *
20416969 TGAAGATAACAGATCTTGCCTTCCTGCATCGACGGCGAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
20417034 CCCTCGGTTGTAGTGGAGGAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
20417057 TGAAGATATCAGATCTTGCCTTCATACATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
20417122 CCCACGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
20417145 TGAAGATAGCAGATTTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
20417210 CTCTCGGTTGTAGTAGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
20417233 TGAAGATAGCAGATCTTGCCTTCCTGTA-CTGACAGTAAAGCAGATCGAAGACACCAGCCTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* * *
20417297 TCCCTGGGTTGCAGCGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* *
20417321 TGAAGATACCAGGTCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTC
20417344 TTGTATTAGC
Statistics
Matches: 930, Mismatches: 140, Indels: 16
0.86 0.13 0.01
Matches are distributed among these distances:
87 79 0.08
88 848 0.91
89 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:20420909 original size:21 final size:21
Alignment explanation
Indices: 20420867--20420917 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
20420857 TTTTGAATTA
* *
20420867 AAATTAAA-T-TAAAATAATT
1 AAATTAAATTATAAAAAAACT
*
20420886 AAATTAGATTATAAAAAAACT
1 AAATTAAATTATAAAAAAACT
20420907 AAATTAAATTA
1 AAATTAAATTA
20420918 ATATCTAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 7 0.27
20 1 0.04
21 18 0.69
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATTAAATTATAAAAAAACT
Found at i:20429593 original size:23 final size:24
Alignment explanation
Indices: 20429565--20429611 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
20429555 ATATATATAT
20429565 GAAAATATTCA-TTTAAAAAAAAG
1 GAAAATATTCATTTTAAAAAAAAG
20429588 GAAAATATTCATTTTTAAAAAAAA
1 GAAAATATTCA-TTTTAAAAAAAA
20429612 CTATATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 11 0.50
25 11 0.50
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (24 bp):
GAAAATATTCATTTTAAAAAAAAG
Found at i:20430233 original size:21 final size:21
Alignment explanation
Indices: 20430207--20430282 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
20430197 AATCATATCT
20430207 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
20430228 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
**
20430249 TCTTGGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
20430268 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
20430283 CCTCAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.35
21 32 0.65
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:20430242 original size:19 final size:20
Alignment explanation
Indices: 20430184--20430283 Score: 105
Period size: 21 Copynumber: 4.8 Consensus size: 20
20430174 AAATTAAATC
* *
20430184 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
20430204 TCTTCTAAGATTGCATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
20430228 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
**
20430249 TCTTGGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
20430268 TCTAAGATTGC-ATATC
1 TCTAAGATTGCAATATC
20430284 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
19 22 0.31
21 30 0.43
23 11 0.16
24 7 0.10
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:20430550 original size:45 final size:44
Alignment explanation
Indices: 20430497--20430614 Score: 170
Period size: 44 Copynumber: 2.7 Consensus size: 44
20430487 CTTCAATCTA
20430497 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCCTT-AGTCTG
*
20430542 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATCCTTAGTCTG
20430586 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
20430615 AGATGCGATC
Statistics
Matches: 67, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
44 35 0.52
45 32 0.48
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCCTTAGTCTG
Found at i:20430599 original size:44 final size:45
Alignment explanation
Indices: 20430487--20430614 Score: 174
Period size: 45 Copynumber: 2.9 Consensus size: 45
20430477 GGAATTAGTG
* *
20430487 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
*
20430532 CTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTT
1 CTTCAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT
20430576 CCTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 -CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
20430615 AGATGCGATC
Statistics
Matches: 75, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
44 35 0.47
45 40 0.53
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT
Found at i:20430795 original size:44 final size:44
Alignment explanation
Indices: 20430746--20431218 Score: 202
Period size: 44 Copynumber: 10.8 Consensus size: 44
20430736 ATGATTTGTC
*
20430746 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * ** * * * * * **
20430790 ATCTTCAACCTACTCTGCTGCTGCTCAGGGAAACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * *
20430832 GTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTACC
1 GT--CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACA
*
20430878 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * * **
20430922 ATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * *
20430964 GTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTACC
1 GT--CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACA
*
20431010 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * * **
20431054 ATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * *
20431096 GTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCC
1 GT--CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACA
*
20431142 GTCTTCAATCTGCTCCACTACTGCCTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * *
20431186 ATCTTCAACCTTCTCCGCTGCTGCTTAGGGAGA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
20431219 CAAGGCTTGG
Statistics
Matches: 297, Mismatches: 102, Indels: 60
0.65 0.22 0.13
Matches are distributed among these distances:
42 21 0.07
43 16 0.05
44 228 0.77
45 15 0.05
46 17 0.06
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
Found at i:20430874 original size:132 final size:132
Alignment explanation
Indices: 20430709--20431244 Score: 928
Period size: 132 Copynumber: 4.1 Consensus size: 132
20430699 GTCGACTTTG
* * **
20430709 ATCTGCTTCCCACTATCTTGGAAATATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
* * * *
20430774 GGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCTT
66 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
20430839 AA
131 AA
20430841 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
20430906 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
66 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
20430971 AA
131 AA
20430973 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
20431038 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
66 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
20431103 AA
131 AA
* * *
20431105 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCCTAG
1 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
* * *
20431170 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGTCTT
66 GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
**
20431235 CG
131 AA
20431237 ATCTGCTT
1 ATCTGCTT
20431245 TGCTGTCGGC
Statistics
Matches: 388, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 388 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (132 bp):
ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
AA
Found at i:20437010 original size:98 final size:98
Alignment explanation
Indices: 20436836--20437032 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
20436826 GTACAATAAA
*
20436836 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
20436901 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
20436934 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
20436999 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
20437032 A
1 A
20437033 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:20437698 original size:23 final size:23
Alignment explanation
Indices: 20437670--20437713 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20437660 ATATATATAT
20437670 GAAAATATTCATTTAAAAAAAAG
1 GAAAATATTCATTTAAAAAAAAG
* *
20437693 GAAAATATTCGTTTTAAAAAA
1 GAAAATATTCATTTAAAAAAA
20437714 TATATATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
GAAAATATTCATTTAAAAAAAAG
Found at i:20438357 original size:23 final size:22
Alignment explanation
Indices: 20438314--20438371 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
20438304 AAAGGGTATC
* *
20438314 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
20438335 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
20438358 TACATATCATATCT
1 TACAAATCATATCT
20438372 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:20438374 original size:19 final size:19
Alignment explanation
Indices: 20438327--20438445 Score: 103
Period size: 19 Copynumber: 5.8 Consensus size: 19
20438317 AAATTAAATC
*
20438327 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
20438347 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
20438369 TCTAAGATTGCATTTATCATA
1 TCTAAGATTACA--TATCATA
*
20438390 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
** *
20438411 TCTTGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
20438430 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
20438446 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
19 33 0.40
21 30 0.37
22 7 0.09
23 12 0.15
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Done.