Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000175.1 Hibiscus syriacus cultivar Beakdansim tig00000306_pilon, whole genome shotgun sequence
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: 129333
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4797 original size:18 final size:17
Alignment explanation
Indices: 4768--4810 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4758 AAAAGATAAA
4768 ATATTT-TTTAATATATT
1 ATATTTATTTAATAT-TT
4785 ATATTTATTTAATATTT
1 ATATTTATTTAATATTT
4802 A-A-TTATTTA
1 ATATTTATTTA
4811 CGAAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.28
16 1 0.04
17 9 0.36
18 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTATTTAATATTT
Found at i:6429 original size:21 final size:21
Alignment explanation
Indices: 6403--6458 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
6393 TAATTGGGTG
6403 TTATATAAGCTTAAGAAAAGC
1 TTATATAAGCTTAAGAAAAGC
*
6424 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGAAAAGC
6445 TTATATAAGCTTAA
1 TTATATAAGCTTAA
6459 AATAATAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (21 bp):
TTATATAAGCTTAAGAAAAGC
Found at i:7853 original size:25 final size:23
Alignment explanation
Indices: 7825--7881 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
7815 AAGACATGAG
*
7825 ATATATGAAAGAGAAATTATATGT
1 ATATATGAAAGAG-AATCATATGT
* *
7849 AATATGTGAAAGTGAATCATATGT
1 -ATATATGAAAGAGAATCATATGT
*
7873 CTATATGAA
1 ATATATGAA
7882 TATGGGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 7 0.26
24 9 0.33
25 11 0.41
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.33
Consensus pattern (23 bp):
ATATATGAAAGAGAATCATATGT
Found at i:8031 original size:30 final size:30
Alignment explanation
Indices: 7963--8051 Score: 135
Period size: 30 Copynumber: 2.9 Consensus size: 30
7953 AGAGTCGAGG
*
7963 GTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTACCTATGTTC-TTCGGGACATATGGACA
7993 GTTTACCTATGTTCTTCGGGACATATGGACA
1 G-TTACCTATGTTCTTCGGGACATATGGACA
*
8024 GTTACCTATGTTCTTCGGAACATATGGA
1 GTTACCTATGTTCTTCGGGACATATGGA
8052 TAGGTTCTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
30 27 0.49
31 26 0.47
32 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (30 bp):
GTTACCTATGTTCTTCGGGACATATGGACA
Found at i:11049 original size:22 final size:22
Alignment explanation
Indices: 11024--11072 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
11014 ATGTGAAATT
*
11024 TGTCCCGAATGA-TCTATGTATA
1 TGTCCCGAAGGACT-TATGTATA
11046 TGTCCCGAAGGACTTATGTATA
1 TGTCCCGAAGGACTTATGTATA
11068 TGTCC
1 TGTCC
11073 TAAAGGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (22 bp):
TGTCCCGAAGGACTTATGTATA
Found at i:11078 original size:22 final size:22
Alignment explanation
Indices: 11037--11085 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11027 CCCGAATGAT
*
11037 CTATGTATATGTCCCGAAGGAC
1 CTATGTATATGTCCCAAAGGAC
* *
11059 TTATGTATATGTCCTAAAGGAC
1 CTATGTATATGTCCCAAAGGAC
11081 CTATG
1 CTATG
11086 AAACCCTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (22 bp):
CTATGTATATGTCCCAAAGGAC
Found at i:17759 original size:24 final size:24
Alignment explanation
Indices: 17732--17791 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
17722 CTGCGTCTAG
17732 CTAGTAAAGATAAGTGTCTTGACA
1 CTAGTAAAGATAAGTGTCTTGACA
*
17756 CTAGCAAAGATAAGTGTCTTGACA
1 CTAGTAAAGATAAGTGTCTTGACA
17780 CTAGCT-AAGATA
1 CTAG-TAAAGATA
17792 TAACATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (24 bp):
CTAGTAAAGATAAGTGTCTTGACA
Found at i:20675 original size:2 final size:2
Alignment explanation
Indices: 20668--20695 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20658 TTATTTTATC
20668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20696 CTAGTCGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22061 original size:38 final size:32
Alignment explanation
Indices: 21989--22049 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
21979 TCGAATTACA
*
21989 TAGTTCAACATCCAAACATAATTAAAAAATGT
1 TAGTCCAACATCCAAACATAATTAAAAAATGT
22021 TAGTCCAACATCCAAACATAATTAAAAAA
1 TAGTCCAACATCCAAACATAATTAAAAAA
22050 ATGTCATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (32 bp):
TAGTCCAACATCCAAACATAATTAAAAAATGT
Found at i:22311 original size:68 final size:64
Alignment explanation
Indices: 22152--22334 Score: 192
Period size: 63 Copynumber: 2.8 Consensus size: 64
22142 ATCCGTGACC
* * * *
22152 TAAACATAAATTGGATAATATATAAGTGAACAAATATGTAGTTTACCCTAAATAAAAAAATATA
1 TAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTAAATAAAAAAAGATA
* * * * *
22216 TGAA-TTATATTAGATAATATACAAGTGACCAAATAGGTAAG-TTACCCTAAATAATAATCGAAC
1 TAAACATAAATTAGATAATATATAAGTGACCAAATAGGT-AGTTTACCCTAAATAA-AA---AAA
22279 GACTA
61 GA-TA
* *
22284 -AAACATAAATTAGATAATATATAAGTGACCAAATAAGTAGTTTACCATAAA
1 TAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTAAA
22335 AAATCCCTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
63 41 0.43
64 7 0.07
67 7 0.07
68 41 0.43
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.28
Consensus pattern (64 bp):
TAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTAAATAAAAAAAGATA
Found at i:22853 original size:75 final size:77
Alignment explanation
Indices: 22689--22853 Score: 176
Period size: 75 Copynumber: 2.2 Consensus size: 77
22679 TTTTTTAATA
* * * ***
22689 TTTTTGATAAAACATTACTTAAAATATTATTATTTTACCAAAAATGTTAATATTAGTTGCTACCT
1 TTTTTTATAAAACACTACTTAAAATATTATTATTTTACCAAAAATATTAATATTAAACGCTACCT
22754 AAAATATTAAAC
66 AAAATATTAAAC
**
22766 TTTTTTAGTAAAACACTA-TCTAAAATA-T-TT-TTTTACTGAAAATATTAATATTAAACGCTAC
1 TTTTTTA-TAAAACACTACT-TAAAATATTATTATTTTACCAAAAATATTAATATTAAACGCTAC
* **
22827 TTAAAATATTAATTT
64 CTAAAATATTAA-AC
22842 TTTTTTATAAAA
1 TTTTTTATAAAA
22854 AATTAAATAG
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
75 41 0.55
76 9 0.12
77 8 0.11
78 16 0.22
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (77 bp):
TTTTTTATAAAACACTACTTAAAATATTATTATTTTACCAAAAATATTAATATTAAACGCTACCT
AAAATATTAAAC
Found at i:23111 original size:20 final size:21
Alignment explanation
Indices: 23068--23111 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23058 CGATAAAAAA
*
23068 TTACATAAAATATTATTATTT
1 TTACATAAAATATTAATATTT
*
23089 TTACTTAAAATATTAAT-TTT
1 TTACATAAAATATTAATATTT
23109 TTA
1 TTA
23112 ATATTTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTACATAAAATATTAATATTT
Found at i:24249 original size:21 final size:21
Alignment explanation
Indices: 24223--24263 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24213 GTCCTCAGAA
24223 GAAGAGCAAGA-GAGAGAAGAG
1 GAAGAGCAAGAGGA-AGAAGAG
*
24244 GAAGAGGAAGAGGAAGAAGA
1 GAAGAGCAAGAGGAAGAAGA
24264 TGCTATTCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.02, G:0.44, T:0.00
Consensus pattern (21 bp):
GAAGAGCAAGAGGAAGAAGAG
Found at i:26969 original size:19 final size:19
Alignment explanation
Indices: 26921--26962 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
26911 ATTTGTGGAA
26921 AGCTAATTGTAGTTTAATT
1 AGCTAATTGTAGTTTAATT
26940 AGCTAATTGTAGTTTAATT
1 AGCTAATTGTAGTTTAATT
26959 AGCT
1 AGCT
26963 GTTTGTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (19 bp):
AGCTAATTGTAGTTTAATT
Found at i:31619 original size:6 final size:7
Alignment explanation
Indices: 31600--31631 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
31590 GTGTTTCTCA
31600 TTACTCC
1 TTACTCC
31607 TTACTCC
1 TTACTCC
31614 -TACTCC
1 TTACTCC
31620 TTACTCC
1 TTACTCC
31627 -TACTC
1 TTACTC
31632 TTGCTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.46
7 13 0.54
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.41
Consensus pattern (7 bp):
TTACTCC
Found at i:31619 original size:13 final size:13
Alignment explanation
Indices: 31601--31631 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
31591 TGTTTCTCAT
31601 TACTCCTTACTCC
1 TACTCCTTACTCC
31614 TACTCCTTACTCC
1 TACTCCTTACTCC
31627 TACTC
1 TACTC
31632 TTGCTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (13 bp):
TACTCCTTACTCC
Found at i:34325 original size:43 final size:43
Alignment explanation
Indices: 34267--34551 Score: 367
Period size: 43 Copynumber: 6.7 Consensus size: 43
34257 TGCCGCCTTT
* * * *
34267 GGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCACAGAA
1 GGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
*
34310 GGTCGAGATCTATAGCGTCGTTTTTGGAACAAACGCCGCAAAA
1 GGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
* * * * *
34353 TGTCGAGACCTATTGCGGCGTTTTTGGAACAAACGTCACAAAA
1 GGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
* *
34396 GGTCGAGATCTATAGCGACGTTTTTGGAACAAACGTCGCAAAA
1 GGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
* * *
34439 GGTC-AGATCTATAGCGGCGTGTATTGGAACAAACGACGTAAAA
1 GGTCGAGATCTATAGCGGCGT-TTTTGGAACAAACGCCGCAAAA
* * * *
34482 GAT-TAGATCTATAGCGGCGTTTTTTGAGCAAACGCCGCAAAA
1 GGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
*
34524 GGTTGAGATCTATAGCGGCGTTTTTGGA
1 GGTCGAGATCTATAGCGGCGTTTTTGGA
34552 TGTAAACGCC
Statistics
Matches: 210, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
42 34 0.16
43 176 0.84
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
GGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAA
Found at i:38071 original size:41 final size:41
Alignment explanation
Indices: 37914--38296 Score: 383
Period size: 41 Copynumber: 9.2 Consensus size: 41
37904 CTGTAAAATT
* *
37914 GCGGCGTTTGTAAATATAAACGCCACTAAAGTATGAGTC-ATTA
1 GCGGCGTTTGT--ATAAAAACGCCACTAAAGTACGAGTCTA-TA
* * *
37957 GCGGCGCTTGTATTCAAAATGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATA
* * *
37999 GCAGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATA
*
38041 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * * * *
38082 GCGACGTTTATATAAAAATGCTATTAAAGTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * *
38123 GCGGCGTTTGCATTCAAAACGCCACTAAAGTACTAGTATATA
1 GCGGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATA
* * * * *
38165 GCGACATTTGTATAGAAACGCCACTAAAGTACTAGTATATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * *
38206 GCGGCGTTTGTATAAAAATGCCACTAAAGTATGATTATATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * * * *
38247 CCGACTTTTGTATAAAAATGCCACTAAAGTATGTA-CCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACG-AGTCTATA
38288 GCGGCGTTT
1 GCGGCGTTT
38297 ATTGGAAAAA
Statistics
Matches: 286, Mismatches: 50, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
41 172 0.60
42 103 0.36
43 11 0.04
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
Found at i:38137 original size:124 final size:124
Alignment explanation
Indices: 37914--38236 Score: 445
Period size: 124 Copynumber: 2.6 Consensus size: 124
37904 CTGTAAAATT
* *
37914 GCGGCGTTTGTAAATATAAACGCCACTAAAGTA-TGAGTC-ATTAGCGGCGCTTGTAT-TCAAAA
1 GCGGCGTTTGT--ATAAAAACGCCACTAAAGTACT-AGTCTA-TAGCGGCG-TT-TATATAAAAA
*
37976 TGCCACTAAAGTACGAGTCTATAGCAGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTCTATA
60 TGCCACTAAAGTACGAGTCTATAGCAGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTATATA
* * *
38041 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTATAGCGACGTTTATATAAAAATGCTAT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATATAAAAATGCCAC
* * *
38106 TAAAGTACGAGTCTTTAGCGGCGTTTGCATTCAAAACGCCACTAAAGTACTAGTATATA
66 TAAAGTACGAGTCTATAGCAGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTATATA
* * * * *
38165 GCGACATTTGTATAGAAACGCCACTAAAGTACTAGTATATAGCGGCGTTTGTATAAAAATGCCAC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATATAAAAATGCCAC
38230 TAAAGTA
66 TAAAGTA
38237 TGATTATATA
Statistics
Matches: 176, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
123 3 0.02
124 130 0.74
125 30 0.17
126 2 0.01
127 11 0.06
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (124 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATATAAAAATGCCAC
TAAAGTACGAGTCTATAGCAGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTATATA
Found at i:38142 original size:83 final size:82
Alignment explanation
Indices: 37931--38296 Score: 382
Period size: 83 Copynumber: 4.4 Consensus size: 82
37921 TTGTAAATAT
* * * * * *
37931 AAACGCCACTAAAGTATGAGTC-ATTAGCGGCGCTTGTATTCAAAATGCCACTAAAGTACGAGTC
1 AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTACTAGTA
*
37995 TATAGC-AGCGTTTGCAT-TCA
64 TATAGCGA-CGTTT--ATATAA
*
38015 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATA
38080 TAGCGACGTTTATATAA
66 TAGCGACGTTTATATAA
* * * * * *
38097 AAATGCTATTAAAGTACGAGTCTTTAGCGGCGTTTGCATTCAAAACGCCACTAAAGTACTAGTAT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTACTAGTAT
* * *
38162 ATAGCGACATTTGTATAG
65 ATAGCGACGTTTATATAA
* * * *
38180 AAACGCCACTAAAGTACTAGTATATAGCGGCGTTTGTATAAAAATGCCACTAAAGTA-TGATTAT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACT-AGTAT
* * *
38244 ATACCGACTTTTGTATAA
65 ATAGCGACGTTTATATAA
* * *
38262 AAATGCCACTAAAGTATGTA-CCTATAGCGGCGTTT
1 AAACGCCACTAAAGTACG-AGTCTATAGCGGCGTTT
38297 ATTGGAAAAA
Statistics
Matches: 242, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
81 3 0.01
82 99 0.41
83 104 0.43
84 35 0.14
85 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (82 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATA
TAGCGACGTTTATATAA
Found at i:38405 original size:43 final size:44
Alignment explanation
Indices: 38355--38452 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 44
38345 TTTGTTTCAA
* * * * * *
38355 AAACGCCACTAAAGTATTA-CTCTTTAGCGGCGTTTTTGGATAC
1 AAACGCCACTAAAATATCAGATCTATAGCGGCATTTCTGGATAC
*
38398 AAACGCCA-TAAAATGTCAGATCTATAGCGGCATTTCTGGATAC
1 AAACGCCACTAAAATATCAGATCTATAGCGGCATTTCTGGATAC
*
38441 AAACGCCGCTAA
1 AAACGCCACTAA
38453 TTACCTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
42 7 0.16
43 35 0.78
44 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (44 bp):
AAACGCCACTAAAATATCAGATCTATAGCGGCATTTCTGGATAC
Found at i:39764 original size:41 final size:43
Alignment explanation
Indices: 39702--39818 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 43
39692 CGTTTATACA
* **
39702 AAAAAAACGCCACTATTGATT-ACACTATTGTGGCGTTTGT-T
1 AAAAAAACGCCACTATCGATTAACACTATTACGGCGTTTGTCT
*
39743 AAAAAAACGCCACTATCGATTAACATTATTACGGCGTTTGTCT
1 AAAAAAACGCCACTATCGATTAACACTATTACGGCGTTTGTCT
* ** *
39786 --AAAAAGGCCACTATTTATTATCACTATTACGGC
1 AAAAAAACGCCACTATCGATTAACACTATTACGGC
39819 ATTTTAAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 48 0.74
42 16 0.25
43 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (43 bp):
AAAAAAACGCCACTATCGATTAACACTATTACGGCGTTTGTCT
Found at i:39946 original size:40 final size:41
Alignment explanation
Indices: 39828--39960 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 41
39818 CATTTTAAGA
*
39828 ATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGT
1 ATAAACGCCACTATATGT-TAATCTATTGCGGCGTTTGTGGT
* *
39870 ATAAACACCGCTA-AT-TTATCGATCTATTGCGGCGTTT-TGGCT
1 ATAAACGCCACTATATGTTA---ATCTATTGCGGCGTTTGTGG-T
39912 A-AAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGT
1 ATAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGT
39952 ATAAACGCC
1 ATAAACGCC
39961 GCTAATTTAC
Statistics
Matches: 78, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
39 2 0.03
40 19 0.24
41 24 0.31
42 30 0.38
43 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (41 bp):
ATAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGT
Found at i:39988 original size:40 final size:40
Alignment explanation
Indices: 39849--39980 Score: 164
Period size: 40 Copynumber: 3.2 Consensus size: 40
39839 TATATGTGTA
*
39849 ATCTATTGCGGCGTTTGTGGTATAAACACCGCTAATTTATC
1 ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTA-C
*
39890 GATCTATTGCGGCGTTT-TGGCTA-AAACGCCACTATATGTTA-
1 -ATCTATTGCGGCGTTTGTGG-TATAAACGCCGCTA-AT-TTAC
39931 ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACC
1 ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTA-C
39972 A-CTATTGCG
1 ATCTATTGCG
39981 ACATTTGTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
39 3 0.04
40 28 0.35
41 26 0.32
42 20 0.25
43 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTAC
Found at i:40278 original size:17 final size:18
Alignment explanation
Indices: 40249--40287 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
40239 TTATTCTAAT
40249 TTATATAATAAAAAT-AA
1 TTATATAATAAAAATAAA
40266 TTATAATAA-AAAAATAAA
1 TTAT-ATAATAAAAATAAA
40284 TTAT
1 TTAT
40288 TTATCTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTATATAATAAAAATAAA
Found at i:47130 original size:21 final size:21
Alignment explanation
Indices: 47100--47191 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
47090 GGAAGTCCAT
*
47100 CATCTCCTGGGTACAGCCCAA
1 CATCACCTGGGTACAGCCCAA
* * *
47121 CCTCACCTGGTTACAGCCCTA
1 CATCACCTGGGTACAGCCCAA
*
47142 CATCCCCTGGGTACAGCCCAA
1 CATCACCTGGGTACAGCCCAA
* *
47163 CCTCACCTGGGTACAGCCCCA
1 CATCACCTGGGTACAGCCCAA
47184 CATCACCT
1 CATCACCT
47192 ACCTACAGTC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.22, C:0.43, G:0.16, T:0.18
Consensus pattern (21 bp):
CATCACCTGGGTACAGCCCAA
Found at i:47154 original size:42 final size:42
Alignment explanation
Indices: 47100--47187 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
47090 GGAAGTCCAT
* * *
47100 CATCTCCTGGGTACAGCCCAACCTCACCTGGTTACAGCCCTA
1 CATCCCCTGGGTACAGCCCAACCTCACCTGGGTACAGCCCCA
47142 CATCCCCTGGGTACAGCCCAACCTCACCTGGGTACAGCCCCA
1 CATCCCCTGGGTACAGCCCAACCTCACCTGGGTACAGCCCCA
47184 CATC
1 CATC
47188 ACCTACCTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.43, G:0.17, T:0.18
Consensus pattern (42 bp):
CATCCCCTGGGTACAGCCCAACCTCACCTGGGTACAGCCCCA
Found at i:47199 original size:63 final size:63
Alignment explanation
Indices: 47105--47226 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
47095 TCCATCATCT
* ***
47105 CCTGGGTACAGCCCAACCTCACCTGGTTACAGCCCTACATCCCCTGGGTACAGCCCAACCTCA
1 CCTGGGTACAGCCCAACATCACCTACCTACAGCCCTACATCCCCTGGGTACAGCCCAACCTCA
* * ** * *
47168 CCTGGGTACAGCCCCACATCACCTACCTACAGTCCTAGTTCTCCTGGTTACAGCCCAAC
1 CCTGGGTACAGCCCAACATCACCTACCTACAGCCCTACATCCCCTGGGTACAGCCCAAC
47227 AAGTCCAGCC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.22, C:0.42, G:0.16, T:0.20
Consensus pattern (63 bp):
CCTGGGTACAGCCCAACATCACCTACCTACAGCCCTACATCCCCTGGGTACAGCCCAACCTCA
Found at i:47291 original size:21 final size:21
Alignment explanation
Indices: 47267--47331 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
47257 TTATTCTCCA
*
47267 ACCTCCCCGAGCTACAGCCCT
1 ACCTCCCCTAGCTACAGCCCT
47288 ACCTCCCCTAGCTACAGCCCT
1 ACCTCCCCTAGCTACAGCCCT
* *
47309 ACTTCACCTAGCTACAGCCCT
1 ACCTCCCCTAGCTACAGCCCT
47330 AC
1 AC
47332 TTCACCAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.22, C:0.49, G:0.11, T:0.18
Consensus pattern (21 bp):
ACCTCCCCTAGCTACAGCCCT
Found at i:47323 original size:42 final size:42
Alignment explanation
Indices: 47276--47421 Score: 134
Period size: 42 Copynumber: 3.5 Consensus size: 42
47266 AACCTCCCCG
*
47276 AGCTACAGCCCTACCTCCCCTAGC-TACAGCCCTACTTCACCT
1 AGCTACAGCCCTACCTCACC-AGCATACAGCCCTACTTCACCT
* *
47318 AGCTACAGCCCTACTTCACCAGCATATAGCCCTACTTCACCT
1 AGCTACAGCCCTACCTCACCAGCATACAGCCCTACTTCACCT
* * * * * * * *
47360 -GCATATAGCCCCACTTCTCCATCATACAGCCCAACATCTCCT
1 AGC-TACAGCCCTACCTCACCAGCATACAGCCCTACTTCACCT
** *
47402 TCCTACAGCCCAACCTCACC
1 AGCTACAGCCCTACCTCACC
47422 CTCCTACAGC
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 5 0.06
42 79 0.93
43 1 0.01
ACGTcount: A:0.25, C:0.45, G:0.08, T:0.22
Consensus pattern (42 bp):
AGCTACAGCCCTACCTCACCAGCATACAGCCCTACTTCACCT
Found at i:47347 original size:27 final size:21
Alignment explanation
Indices: 47276--47376 Score: 125
Period size: 21 Copynumber: 4.8 Consensus size: 21
47266 AACCTCCCCG
* *
47276 AGCTACAGCCCTACCTCCCCT
1 AGCTACAGCCCTACTTCACCT
47297 AGCTACAGCCCTACTTCACCT
1 AGCTACAGCCCTACTTCACCT
47318 AGCTACAGCCCTACTTCACC-
1 AGCTACAGCCCTACTTCACCT
*
47338 AGCATATAGCCCTACTTCACCT
1 AGC-TACAGCCCTACTTCACCT
* *
47360 -GCATATAGCCCCACTTC
1 AGC-TACAGCCCTACTTC
47377 TCCATCATAC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 71 0.96
ACGTcount: A:0.24, C:0.44, G:0.10, T:0.23
Consensus pattern (21 bp):
AGCTACAGCCCTACTTCACCT
Found at i:47385 original size:21 final size:21
Alignment explanation
Indices: 47303--47391 Score: 92
Period size: 21 Copynumber: 4.2 Consensus size: 21
47293 CCCTAGCTAC
* *
47303 AGCCCTACTTCACCTAGC-TAC
1 AGCCCTACTTCACC-ATCATAT
*
47324 AGCCCTACTTCACCAGCATAT
1 AGCCCTACTTCACCATCATAT
47345 AGCCCTACTTCACC-TGCATAT
1 AGCCCTACTTCACCAT-CATAT
* * *
47366 AGCCCCACTTCTCCATCATAC
1 AGCCCTACTTCACCATCATAT
47387 AGCCC
1 AGCCC
47392 AACATCTCCT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
20 3 0.05
21 56 0.93
22 1 0.02
ACGTcount: A:0.25, C:0.43, G:0.09, T:0.24
Consensus pattern (21 bp):
AGCCCTACTTCACCATCATAT
Found at i:47399 original size:21 final size:21
Alignment explanation
Indices: 47366--47520 Score: 175
Period size: 21 Copynumber: 7.4 Consensus size: 21
47356 ACCTGCATAT
* * * *
47366 AGCCCCACTTCTCCATCATAC
1 AGCCCAACATCTCCTTCCTAC
47387 AGCCCAACATCTCCTTCCTAC
1 AGCCCAACATCTCCTTCCTAC
* * *
47408 AGCCCAACCTCACCCTCCTAC
1 AGCCCAACATCTCCTTCCTAC
**
47429 AGCCCGGCATCTCCTTCCTAC
1 AGCCCAACATCTCCTTCCTAC
* * *
47450 AGCCCAACCTCACCCTCCTAC
1 AGCCCAACATCTCCTTCCTAC
* *
47471 AGTCCGACATCTCCTTCCTAC
1 AGCCCAACATCTCCTTCCTAC
*
47492 AGCCCGACATCTCCTTCCTAC
1 AGCCCAACATCTCCTTCCTAC
47513 AGCCCAAC
1 AGCCCAAC
47521 TTCACCGGCT
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 110 1.00
ACGTcount: A:0.22, C:0.50, G:0.08, T:0.21
Consensus pattern (21 bp):
AGCCCAACATCTCCTTCCTAC
Found at i:47430 original size:42 final size:42
Alignment explanation
Indices: 47384--47520 Score: 202
Period size: 42 Copynumber: 3.3 Consensus size: 42
47374 TTCTCCATCA
47384 TACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCC
1 TACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCC
**
47426 TACAGCCCGGCATCTCCTTCCTACAGCCCAACCTCACCCTCC
1 TACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCC
* * * * * *
47468 TACAGTCCGACATCTCCTTCCTACAGCCCGACATCTCCTTCC
1 TACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCC
47510 TACAGCCCAAC
1 TACAGCCCAAC
47521 TTCACCGGCT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.22, C:0.50, G:0.08, T:0.20
Consensus pattern (42 bp):
TACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCC
Found at i:47433 original size:63 final size:63
Alignment explanation
Indices: 47366--47526 Score: 196
Period size: 63 Copynumber: 2.6 Consensus size: 63
47356 ACCTGCATAT
* * * * * * *
47366 AGCCCCACTTCTCCATCATACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCCTAC
1 AGCCCGACATCTCCTTCCTACAGCCCAACATCACCCTCCTACAGCCCAACATCACCCTCCTAC
* * * * * *
47429 AGCCCGGCATCTCCTTCCTACAGCCCAACCTCACCCTCCTACAGTCCGACATCTCCTTCCTAC
1 AGCCCGACATCTCCTTCCTACAGCCCAACATCACCCTCCTACAGCCCAACATCACCCTCCTAC
*
47492 AGCCCGACATCTCCTTCCTACAGCCCAACTTCACC
1 AGCCCGACATCTCCTTCCTACAGCCCAACATCACC
47527 GGCTTATAGC
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.21
Consensus pattern (63 bp):
AGCCCGACATCTCCTTCCTACAGCCCAACATCACCCTCCTACAGCCCAACATCACCCTCCTAC
Found at i:47547 original size:63 final size:63
Alignment explanation
Indices: 47320--47544 Score: 189
Period size: 63 Copynumber: 3.6 Consensus size: 63
47310 CTTCACCTAG
* * * * * * * * * *
47320 CTACAGCCCTACTTCACCAGCATATAGCCCTACTTCACCTGCATATAGCCCCACTTCTCCATC
1 CTACAGCCCAACTTCACCAGCCTACAGCCCAACTTCACCTTCCTACAGCCCGACATCTCCTTC
* * * ** * * *
47383 ATACAGCCCAACATCTCCTTCCTACAGCCCAACCTCACCCTCCTACAGCCCGGCATCTCCTTC
1 CTACAGCCCAACTTCACCAGCCTACAGCCCAACTTCACCTTCCTACAGCCCGACATCTCCTTC
* ** * * * *
47446 CTACAGCCCAACCTCACCCTCCTACAGTCCGACATCTCCTTCCTACAGCCCGACATCTCCTTC
1 CTACAGCCCAACTTCACCAGCCTACAGCCCAACTTCACCTTCCTACAGCCCGACATCTCCTTC
* * * *
47509 CTACAGCCCAACTTCACCGGCTTATAGCCCCACTTC
1 CTACAGCCCAACTTCACCAGCCTACAGCCCAACTTC
47545 TCCAGGGTAC
Statistics
Matches: 126, Mismatches: 36, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
63 126 1.00
ACGTcount: A:0.22, C:0.47, G:0.08, T:0.23
Consensus pattern (63 bp):
CTACAGCCCAACTTCACCAGCCTACAGCCCAACTTCACCTTCCTACAGCCCGACATCTCCTTC
Found at i:47588 original size:21 final size:21
Alignment explanation
Indices: 47555--47616 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
47545 TCCAGGGTAC
*
47555 AGTCCAACCTCACCAAGTTAT
1 AGTCCCACCTCACCAAGTTAT
* *
47576 AGTCCCACATCACCTAGTTAT
1 AGTCCCACCTCACCAAGTTAT
*
47597 AG-CCCTACCTCTCCAAGTTA
1 AGTCCC-ACCTCACCAAGTTA
47617 CAATCCACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (21 bp):
AGTCCCACCTCACCAAGTTAT
Found at i:47952 original size:21 final size:21
Alignment explanation
Indices: 47909--47954 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47899 CCGACATCAG
*
47909 CATCTTATTCACCTGCATCTC
1 CATCTTATTCACCTGCAACTC
* * *
47930 CATCTTATTCCCCTTCAAGTC
1 CATCTTATTCACCTGCAACTC
47951 CATC
1 CATC
47955 CTTCAGTCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (21 bp):
CATCTTATTCACCTGCAACTC
Found at i:50900 original size:20 final size:20
Alignment explanation
Indices: 50877--50915 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50867 GTATCGATAT
50877 CACATGAACAATATCGGTAC
1 CACATGAACAATATCGGTAC
50897 CACATGAACAATATCGGTA
1 CACATGAACAATATCGGTA
50916 TTGTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (20 bp):
CACATGAACAATATCGGTAC
Found at i:58076 original size:33 final size:33
Alignment explanation
Indices: 58014--58078 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
58004 ATTAAAATAG
* *
58014 ACTTAACTCGAGTTCTTAATGAACCAAAACAAT
1 ACTTAACTCAAGTTATTAATGAACCAAAACAAT
* * *
58047 ACTTGACTCAAGTTATTAATGAGCTAAAACAA
1 ACTTAACTCAAGTTATTAATGAACCAAAACAA
58079 ACTATTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (33 bp):
ACTTAACTCAAGTTATTAATGAACCAAAACAAT
Found at i:61234 original size:18 final size:18
Alignment explanation
Indices: 61180--61235 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
61170 TGTTCGGGTT
*
61180 GATTTGAGAGAAGGCTTG
1 GATTTGGGAGAAGGCTTG
*
61198 CATTTGGGAGAAGGCTTG
1 GATTTGGGAGAAGGCTTG
*
61216 GATTTGGGGGAAGGCTTG
1 GATTTGGGAGAAGGCTTG
61234 GA
1 GA
61236 GGACCTCCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.23, C:0.07, G:0.43, T:0.27
Consensus pattern (18 bp):
GATTTGGGAGAAGGCTTG
Found at i:62033 original size:37 final size:36
Alignment explanation
Indices: 61988--62107 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 36
61978 TGGTAATTAA
*
61988 CTTTGAAAAAATGGTTTTTAAAGTTTGTTAAATGTTT
1 CTTTG-AAAAATGGTTTTTAAAGTTTGGTAAATGTTT
*
62025 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTTAAAGTTTGGTAAATGTTT
* *
62060 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTT-AAAGTTTGGTAAATGTTT
*
62097 -GTTGAAAAATG
1 CTTTGAAAAATG
62108 ATAATGTGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 33 0.45
36 19 0.26
37 22 0.30
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTTAAAGTTTGGTAAATGTTT
Found at i:62102 original size:36 final size:36
Alignment explanation
Indices: 61968--62107 Score: 157
Period size: 35 Copynumber: 4.0 Consensus size: 36
61958 ATTAAAATAG
**
61968 TTTTC-AAGTTTGGT-AAT-TAACTTTGAAAAAATGGT
1 TTTTCAAAGTTTGGTAAATGTTTCTTTG-AAAAAT-GT
* *
62003 TTTT-AAAGTTTGTTAAATGTTTCTTTG-AAAATGG
1 TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATGT
62037 TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATAGT
1 TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAAT-GT
* *
62074 TTTTCAAAGTTTGGTAGATGTTT-GTTGAAAAATG
1 TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATG
62108 ATAATGTGAT
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
34 5 0.05
35 40 0.44
36 17 0.19
37 29 0.32
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (36 bp):
TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATGT
Found at i:62536 original size:16 final size:16
Alignment explanation
Indices: 62510--62548 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62500 TCGGTTTACT
62510 ATTTACGTGAATAGTGA
1 ATTT-CGTGAATAGTGA
62527 ATTTCGTGAATAGTGA
1 ATTTCGTGAATAGTGA
*
62543 AATTCG
1 ATTTCG
62549 GTCGGCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (16 bp):
ATTTCGTGAATAGTGA
Found at i:62546 original size:17 final size:17
Alignment explanation
Indices: 62510--62543 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
62500 TCGGTTTACT
62510 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTGA
62527 ATTT-CGTGAATAGTGA
1 ATTTACGTGAATAGTGA
62543 A
1 A
62544 ATTCGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTGA
Found at i:66648 original size:21 final size:20
Alignment explanation
Indices: 66624--66687 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
66614 AACTTTGAAA
66624 AAATAGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
*
66645 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
66659 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
66680 AAATGTTT
1 AAATGTTT
66688 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 8 0.24
21 9 0.26
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:66715 original size:37 final size:36
Alignment explanation
Indices: 66616--66734 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
66606 TGGTAACCAA
66616 CTTTGAAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
66653 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
66688 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAG-TTTTCAAAGTTTGGTAAATGTTT
*
66725 -GTTGAAAAAT
1 CTTTGAAAAAT
66735 GATAATGGGA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 34 0.45
36 15 0.20
37 27 0.36
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:67431 original size:3 final size:3
Alignment explanation
Indices: 67423--67502 Score: 97
Period size: 3 Copynumber: 25.7 Consensus size: 3
67413 ATTTTATTTA
* *
67423 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT AAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
67471 TAT TAA TAT ATAT TATT TATT TAT TAA TAT TA
1 TAT TAT TAT -TAT TA-T TA-T TAT TAT TAT TA
67503 CAAAACCCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
3 57 0.85
4 10 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:67957 original size:15 final size:15
Alignment explanation
Indices: 67937--67978 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
67927 ACAACACAGC
67937 AAAGAAACAGAAAA-G
1 AAAGAAA-AGAAAATG
67952 AAAGAAAAGAAAATG
1 AAAGAAAAGAAAATG
*
67967 AAAGAAGAGAAA
1 AAAGAAAAGAAA
67979 CTTACTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAATG
Found at i:67969 original size:20 final size:20
Alignment explanation
Indices: 67937--67978 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
67927 ACAACACAGC
67937 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAACAG-AAAGAAGAGA
67957 AAAGAAA-ATGAAAGAAGAGA
1 AAAGAAACA-GAAAGAAGAGA
67977 AA
1 AA
67979 CTTACTCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAAACAGAAAGAAGAGA
Found at i:80282 original size:16 final size:16
Alignment explanation
Indices: 80261--80313 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
80251 CTTGAAGAAA
80261 AAAAGAAAAAAAAGAG
1 AAAAGAAAAAAAAGAG
80277 AAAAGAAAAAAAAAGAG
1 AAAAG-AAAAAAAAGAG
*
80294 AAAAAAAAAAAAAGAG
1 AAAAGAAAAAAAAGAG
80310 AAAA
1 AAAA
80314 AAGAAGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 20 0.57
17 15 0.43
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAG
Found at i:80297 original size:26 final size:25
Alignment explanation
Indices: 80258--80324 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
80248 ATGCTTGAAG
*
80258 AAAAAAAGA-AAAAAAAGAGAAAAGAA
1 AAAAAAAGAGAAAAAAA-AAAAAAG-A
80284 AAAAAAAGAGAAAAAAAAAAAAAGA
1 AAAAAAAGAGAAAAAAAAAAAAAGA
*
80309 GAAAAAAGAAGAAAAA
1 AAAAAAAG-AGAAAAA
80325 GGGGGGGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 8 0.22
26 22 0.59
27 7 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (25 bp):
AAAAAAAGAGAAAAAAAAAAAAAGA
Found at i:80314 original size:16 final size:16
Alignment explanation
Indices: 80255--80325 Score: 97
Period size: 17 Copynumber: 4.2 Consensus size: 16
80245 ATTATGCTTG
*
80255 AAGAAAAAAAGAAAAAA
1 AAGAGAAAAA-AAAAAA
80272 AAGAGAAAAGAAAAAAA
1 AAGAGAAAA-AAAAAAA
80289 AAGAGAAAAAAAAAAA
1 AAGAGAAAAAAAAAAA
80305 AAGAGAAAAAAGAAGAAA
1 AAGAGAAAAAA-AA-AAA
80323 AAG
1 AAG
80326 GGGGGGTCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
16 18 0.36
17 25 0.50
18 7 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAGAGAAAAAAAAAAA
Found at i:81688 original size:83 final size:83
Alignment explanation
Indices: 81463--81897 Score: 710
Period size: 83 Copynumber: 5.2 Consensus size: 83
81453 ATTAGCTGGA
* *
81463 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGGTAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
81528 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
*
81546 AAGA-GTAATGTGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 AAGATG-AATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
*
81610 GAACTAATCATTGAATTTGG
64 GAACCAATCATTGAATTTGG
*
81630 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
* **
81695 ACCAATCATTGGATTTAA
66 ACCAATCATTGAATTTGG
* *
81713 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
81778 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
*
81796 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
* **
81861 ACCAATCATTGGATTTAA
66 ACCAATCATTGAATTTGG
*
81879 AAGATGAATTTGCTCATAG
1 AAGATGAATGTGCTCATAG
81898 TAAAAATAAG
Statistics
Matches: 328, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
82 1 0.00
83 249 0.76
84 77 0.23
85 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (83 bp):
AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCATTGAATTTGG
Found at i:82877 original size:113 final size:113
Alignment explanation
Indices: 82714--82981 Score: 455
Period size: 113 Copynumber: 2.4 Consensus size: 113
82704 TTTCCAGTTC
* *
82714 AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
*
82779 CAACCTTTCGCTCAAATCCATCATTTGATGGATTAGCTTTGCCAGAGA
66 CAACCTTTCGCTCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGA
*
82827 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
* ** * *
82892 CAACTTTTCGCTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAGA
66 CAACCTTTCGCTCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGA
82940 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
82982 CTTGTTCAAC
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 146 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
CAACCTTTCGCTCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGA
Found at i:83205 original size:99 final size:99
Alignment explanation
Indices: 82879--83374 Score: 810
Period size: 99 Copynumber: 5.1 Consensus size: 99
82869 GTTCATAATG
* * * * *
82879 AGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAG-AAAG
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAG-GTAGAG
82943 TTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
65 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
* * * * *
82975 AGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCAGCTTTTCCAGAG-AAAG
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAG-GTAGAG
83039 TTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
65 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
*
83071 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAGGTAGAGT
83136 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
66 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
*
83170 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAGGTAGAGT
83235 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
66 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
83269 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAGGTAGAGT
83334 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
66 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
83368 AGAAGAA
1 AGAAGAA
83375 GTTCATAATG
Statistics
Matches: 389, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
95 1 0.00
96 168 0.43
98 1 0.00
99 219 0.56
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (99 bp):
AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAGGTAGAGT
TCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
Found at i:83497 original size:17 final size:17
Alignment explanation
Indices: 83443--83498 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
83433 GCTTTTCCAG
*
83443 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATAAGA
* *
83460 AGAA-CTCATCTAAAGAAGA
1 AGAAGTTCA--T-AATAAGA
83479 AGAAGTTCATAATAAGA
1 AGAAGTTCATAATAAGA
83496 AGA
1 AGA
83499 GCTTGTTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 3 0.10
17 13 0.43
18 2 0.07
19 9 0.30
20 3 0.10
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.20
Consensus pattern (17 bp):
AGAAGTTCATAATAAGA
Found at i:83529 original size:108 final size:113
Alignment explanation
Indices: 83268--83529 Score: 306
Period size: 116 Copynumber: 2.3 Consensus size: 113
83258 CTGAAGAAGG
* * * *
83268 AAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACTTTGCCAGGTAGAG
1 AAGAAGAACTTGTTCAACTTTTTG-CTCAATTCATCACTTGATGGAGCAACTTTGCCAGGTAGAG
83333 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
65 TTCATAATGAGAAGAAC-CGTCATCT-AAGAAGGAAGAAGAAGTTCATAAT
* * * * * *
83384 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAGCAGCTTTTCCA-G-AGAA
1 AAGAAGAACTTGTTCAACTTTTTGCTC-AATTCATCACTTGATGGAGCAACTTTGCCAGGTAG-A
83447 GTTCATAATGAGAAGAA-C-TCATCT-A-AA-GAAGAAGAAGTTCATAAT
64 GTTCATAATGAGAAGAACCGTCATCTAAGAAGGAAGAAGAAGTTCATAAT
*
83492 AAGAAGAGCTTGTTCAACTTTTTGCAT-AATTCTATCAC
1 AAGAAGAACTTGTTCAACTTTTTGC-TCAATTC-ATCAC
83530 AGAAGGAGAT
Statistics
Matches: 127, Mismatches: 15, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
107 4 0.03
108 44 0.35
109 3 0.02
110 1 0.01
112 6 0.05
113 1 0.01
114 2 0.02
115 20 0.16
116 46 0.36
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (113 bp):
AAGAAGAACTTGTTCAACTTTTTGCTCAATTCATCACTTGATGGAGCAACTTTGCCAGGTAGAGT
TCATAATGAGAAGAACCGTCATCTAAGAAGGAAGAAGAAGTTCATAAT
Found at i:83635 original size:84 final size:82
Alignment explanation
Indices: 83481--83664 Score: 181
Period size: 84 Copynumber: 2.2 Consensus size: 82
83471 AAAGAAGAAG
* * * * * * * * *
83481 AAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAAAAGATCA
* * *
83546 GCATCAGTCTTTCTAG-AGA
66 ACATCA-TC--CCCAGCAGA
* * * *
83565 AAGTTCATAATGAGAAGAGCTTATTTATCCTTTTGAATGACTCTATCACAGAAAGAAAAAGGTCA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAAAAGATCA
*
83630 ACATCATCCCCAGCGGA
66 ACATCATCCCCAGCAGA
83647 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
83665 ACTCACCTGA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
81 3 0.04
82 20 0.24
83 2 0.02
84 57 0.70
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAAAAGATCA
ACATCATCCCCAGCAGA
Found at i:83836 original size:3 final size:3
Alignment explanation
Indices: 83828--83915 Score: 86
Period size: 3 Copynumber: 28.7 Consensus size: 3
83818 ATTTTATTTA
* *
83828 TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
83876 AAT AAT AAT AAT TAT TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
83916 CAAAACCCGG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 67 0.92
4 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:84360 original size:15 final size:15
Alignment explanation
Indices: 84340--84381 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
84330 ACAACACAGC
84340 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
84355 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
84370 AAAGAAGAGAAA
1 AAAGAAAAGAAA
84382 CTTACTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:84365 original size:20 final size:20
Alignment explanation
Indices: 84340--84381 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
84330 ACAACACAGC
*
84340 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
84360 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
84380 AA
1 AA
84382 CTTACTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:89737 original size:49 final size:49
Alignment explanation
Indices: 89680--89855 Score: 183
Period size: 49 Copynumber: 3.6 Consensus size: 49
89670 AGTGTCCTAT
*
89680 CAAACCCTCTTAGTCGCAATGAAAAGGCAAACTCGATAAATGACTCTCA
1 CAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATGACTCTCA
* ** * * * * * *
89729 CTAACCCTCCTAGTCGTGATGAAAAGACAAA-TAGATAGATAAGTGTCCTA
1 CAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATGACTCT-C-A
* *
89779 TCAAATCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATGACTCTAA
1 -CAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATGACTCTCA
* * *
89829 CCAACCCTCATAGTCGCGATGAAAAGG
1 CAAACCCTCCTAGTCGCAATGAAAAGG
89856 TAAATTGGAG
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
48 10 0.10
49 50 0.51
50 2 0.02
51 26 0.27
52 10 0.10
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.21
Consensus pattern (49 bp):
CAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATGACTCTCA
Found at i:89793 original size:51 final size:51
Alignment explanation
Indices: 89657--89810 Score: 179
Period size: 51 Copynumber: 3.1 Consensus size: 51
89647 GATTTATGAA
*
89657 AAATAGATAGATAAGTGTCCTATCAAACCCTCTTAGTCGCAATGAAAAGGC
1 AAATAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGC
* * * * * * ** *
89708 AAACTCGATAAATGACTCT-C-A-CTAACCCTCCTAGTCGTGATGAAAAGAC
1 AAA-TAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGC
*
89757 AAATAGATAGATAAGTGTCCTATCAAATCCTCCTAGTCGCAATGAAAAGGC
1 AAATAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGC
89808 AAA
1 AAA
89811 CTCGATAAAT
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
48 10 0.13
49 27 0.34
50 2 0.03
51 30 0.38
52 10 0.13
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (51 bp):
AAATAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGC
Found at i:89835 original size:100 final size:100
Alignment explanation
Indices: 89657--89854 Score: 342
Period size: 100 Copynumber: 2.0 Consensus size: 100
89647 GATTTATGAA
*
89657 AAATAGATAGATAAGTGTCCTATCAAACCCTCTTAGTCGCAATGAAAAGGCAAACTCGATAAATG
1 AAATAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATG
* * * *
89722 ACTCTCACTAACCCTCCTAGTCGTGATGAAAAGAC
66 ACTCTAACCAACCCTCATAGTCGCGATGAAAAGAC
*
89757 AAATAGATAGATAAGTGTCCTATCAAATCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATG
1 AAATAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATG
89822 ACTCTAACCAACCCTCATAGTCGCGATGAAAAG
66 ACTCTAACCAACCCTCATAGTCGCGATGAAAAG
89855 GTAAATTGGA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (100 bp):
AAATAGATAGATAAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAAATG
ACTCTAACCAACCCTCATAGTCGCGATGAAAAGAC
Found at i:93701 original size:23 final size:23
Alignment explanation
Indices: 93675--93762 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
93665 AACTTGTATA
93675 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
93698 AATTTGTC-TCGAA-TGACCGCGTAG
1 AA-TTG-CACCGAAGTG-CCACGTAG
* *
93722 AAATGCACCGAAGTGCTACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
93745 AATTACACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
93763 TATAAAATTG
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
22 1 0.02
23 30 0.60
24 18 0.36
25 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:93910 original size:23 final size:23
Alignment explanation
Indices: 93876--93942 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
93866 AATACATATA
*
93876 TGTCCCGTAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
93899 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
93922 TGTCCCGAAGGACCACGTAGA
1 TGTCCCGAAGGACCACGTAGA
93943 CCCTCTGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:94099 original size:32 final size:31
Alignment explanation
Indices: 94018--94101 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
94008 TCACATAGTG
*
94018 TATCTCATAGACAT-T-ATTTT-CATACCTT
1 TATCACATAGACATATAATTTTCCATACCTT
*
94046 TATCACATAGACATATCATTTTCCATACCTT
1 TATCACATAGACATATAATTTTCCATACCTT
*
94077 TATCACATAGCTCATATAATTTTCC
1 TATCACATAG-ACATATAATTTTCC
94102 TGCATATTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 13 0.27
29 1 0.02
30 5 0.10
31 18 0.37
32 12 0.24
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.42
Consensus pattern (31 bp):
TATCACATAGACATATAATTTTCCATACCTT
Found at i:102841 original size:29 final size:29
Alignment explanation
Indices: 102805--102906 Score: 143
Period size: 29 Copynumber: 3.5 Consensus size: 29
102795 CCGTCTTATC
*
102805 CTTTATTGTAATTTATAAATAGTTTTTTA
1 CTTTATTGTAATTTATAAATAGTTTTGTA
*
102834 -TTTCATTGTAATTTATAAATTGTTTTGTA
1 CTTT-ATTGTAATTTATAAATAGTTTTGTA
* *
102863 CTTTATTATAATTTATAAATAGTTTTGTG
1 CTTTATTGTAATTTATAAATAGTTTTGTA
*
102892 CTTTATTGCAATTTA
1 CTTTATTGTAATTTA
102907 AACAATTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.91
30 3 0.05
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (29 bp):
CTTTATTGTAATTTATAAATAGTTTTGTA
Found at i:104183 original size:188 final size:181
Alignment explanation
Indices: 103857--104218 Score: 645
Period size: 188 Copynumber: 2.0 Consensus size: 181
103847 TGTGTTAAAG
103857 GGAGTGAATTATCTACATTAATATGATAGAACAATACATTTTGATTTTATTGTATTAGAAAAATG
1 GGAGTGAATTATCTACATTAATATGATAGAACAATACATTTTGATTTTATTGTATTAGAAAAATG
103922 TATGAAATTATAATATACACATATGATTATATTATTTTTTTGATTTTGATTATCGATCTATTAAT
66 TATGAAATTATAATATACACATATGATTATATTATTTTTTTGATTTTGATTATCGATCTATTAAT
103987 TTTATCAGTTAATTATTTAAATG-TATCAATCTAGTCATCTCTTTAAAGGT
131 TTTATCAGTTAATTATTTAAATGTTATCAATCTAGTCATCTCTTTAAAGGT
104037 GGAGTGAATTATCTACATTAATATGATAGAACAATACAAGTTTTGATTTTATTGTAGTTATAGGA
1 GGAGTGAATTATCTACATTAATATGATAGAACAATAC-A-TTTTGATTTTATTGTA--T-TA-GA
104102 AAAATGTATGAAATTATAATATAACACATATGATTATATTATTATTTTTGATTTTGATTATCGAT
60 AAAATGTATGAAATTATAATAT-ACACATATGATTATATTATT-TTTTTGATTTTGATTATCGAT
104167 CTATTAATTTTATCAGTTAATTATTTAAATGTTATCAATCTAGTCATCTCTT
123 CTATTAATTTTATCAGTTAATTATTTAAATGTTATCAATCTAGTCATCTCTT
104219 ATCATATTTA
Statistics
Matches: 173, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
180 37 0.21
181 1 0.01
182 16 0.09
184 1 0.01
185 2 0.01
186 24 0.14
187 20 0.12
188 52 0.30
189 20 0.12
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (181 bp):
GGAGTGAATTATCTACATTAATATGATAGAACAATACATTTTGATTTTATTGTATTAGAAAAATG
TATGAAATTATAATATACACATATGATTATATTATTTTTTTGATTTTGATTATCGATCTATTAAT
TTTATCAGTTAATTATTTAAATGTTATCAATCTAGTCATCTCTTTAAAGGT
Found at i:107474 original size:8 final size:8
Alignment explanation
Indices: 107461--107501 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
107451 CTCATTTTCA
107461 GAGAATTT
1 GAGAATTT
107469 GAGAATTT
1 GAGAATTT
*
107477 -AGAGTTT
1 GAGAATTT
*
107484 GGGAATTT
1 GAGAATTT
107492 GAGAATTT
1 GAGAATTT
107500 GA
1 GA
107502 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:107810 original size:128 final size:127
Alignment explanation
Indices: 107582--108177 Score: 1025
Period size: 128 Copynumber: 4.7 Consensus size: 127
107572 ACTATTCACA
*
107582 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTA
1 TGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
107647 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTTATTTCTCA-GGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTA-TTATTTCTCAGGGGACT
107710 TGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGG-CGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
107775 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
107838 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCA-AGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
107902 TTATGTCACTCATGTCCCT----GATACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
107961 T-AAGGCGCGTTCCCGAGGGCGCCCCTTCCATTATTTTGTC--AGAACATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCG-GGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
108023 TTATGTCACTCATGT-CCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
108085 TGAAGG-GCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
108149 TATGTCACTCATGTCCCTCGGGGACACTA
66 TATGTCACTCATGTCCCTCGGGGACACTA
108178 GATGGATTGT
Statistics
Matches: 448, Mismatches: 8, Indels: 26
0.93 0.02 0.05
Matches are distributed among these distances:
120 3 0.01
121 37 0.08
122 36 0.08
123 62 0.14
124 49 0.11
125 40 0.09
126 14 0.03
127 55 0.12
128 148 0.33
129 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (127 bp):
TGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:108641 original size:32 final size:34
Alignment explanation
Indices: 108568--108656 Score: 121
Period size: 32 Copynumber: 2.7 Consensus size: 34
108558 TAAGTTGAAA
* *
108568 TTTAATGTT-AATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* *
108601 TTTAATTTTAAATTTTGAATAATATTATTTAT-T
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
108634 TTT-ATTTTAAATTTCGAATAATA
1 TTTAATTTTAAATTTCGAATAATA
108657 ATTTGTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 19 0.38
33 12 0.24
34 19 0.38
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:109221 original size:21 final size:20
Alignment explanation
Indices: 109197--109280 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 20
109187 AACCCTACGT
*
109197 GCTAGGCATGTAACCTGGCGG
1 GCTAGGAATGTAACCT-GCGG
109218 GCTAGGAATGTAACCCTGCGG
1 GCTAGGAATGTAA-CCTGCGG
* *
109239 GCTCGGAATGTAACCCTACGG
1 GCTAGGAATGTAA-CCTGCGG
*
109260 GCTCGGAATGTAACCCTGCGG
1 GCTAGGAATGTAA-CCTGCGG
109281 AGATGGCATA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
21 55 0.95
22 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.19
Consensus pattern (20 bp):
GCTAGGAATGTAACCTGCGG
Found at i:111046 original size:23 final size:23
Alignment explanation
Indices: 111020--111070 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
111010 TAGACAAAAC
111020 AATATAAT-TAGAACAAAAAAATT
1 AATATAATCTA-AACAAAAAAATT
* *
111043 AATA-ATTCTAAATAAAAAAATT
1 AATATAATCTAAACAAAAAAATT
111065 -ATATAA
1 AATATAA
111071 ATATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
21 3 0.13
22 14 0.61
23 6 0.26
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AATATAATCTAAACAAAAAAATT
Found at i:122204 original size:55 final size:56
Alignment explanation
Indices: 122136--122290 Score: 126
Period size: 55 Copynumber: 2.8 Consensus size: 56
122126 ATGTGTGATT
122136 TGAATG-A-AATATGAGCTATGTGATGAGATATATGAAAGAGAAAATACATAT-GA
1 TGAATGAATAATATGAGCTATGTGATGAGATATATGAAAGAGAAAATACATATAGA
* * ** * * * * *
122189 T-AGGTGAATCATATGAAAATAT-TCTACGTG-TA-AGTGAAAGAGAAAGTACATATAGG
1 TGA-ATGAATAATATG-AGCTATGT-GATGAGATATA-TGAAAGAGAAAATACATATAGA
122245 TGAATGAATAATATGAGCTATGTGATATGAGATATATGAAAGAGAA
1 TGAATGAATAATATGAGCTATGTG--ATGAGATATATGAAAGAGAA
122291 TACACGTGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
52 1 0.01
53 3 0.04
54 2 0.03
55 30 0.41
56 20 0.27
57 4 0.05
58 12 0.16
59 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (56 bp):
TGAATGAATAATATGAGCTATGTGATGAGATATATGAAAGAGAAAATACATATAGA
Done.