Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002632.1 Hibiscus syriacus cultivar Beakdansim tig00005363_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: 102671
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7050 original size:14 final size:14
Alignment explanation
Indices: 7031--7075 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
7021 TTATTAACCA
*
7031 ATAAACCATAGACT
1 ATAAACCATAGACC
7045 ATAAACCATAGACC
1 ATAAACCATAGACC
*
7059 ATAAACCATAAACC
1 ATAAACCATAGACC
7073 ATA
1 ATA
7076 GCCCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.18
Consensus pattern (14 bp):
ATAAACCATAGACC
Found at i:7061 original size:7 final size:7
Alignment explanation
Indices: 7026--7075 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
7016 ACCATTTATT
7026 AACCAATA
1 AACC-ATA
7034 AACCATA
1 AACCATA
* *
7041 GACTATA
1 AACCATA
7048 AACCATA
1 AACCATA
*
7055 GACCATA
1 AACCATA
7062 AACCATA
1 AACCATA
7069 AACCATA
1 AACCATA
7076 GCCCAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.54, C:0.26, G:0.04, T:0.16
Consensus pattern (7 bp):
AACCATA
Found at i:8102 original size:30 final size:30
Alignment explanation
Indices: 8033--8102 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
8023 CAACCATTCG
* *
8033 TAATTTTTCCAAAATTGTCGAATTGGTCCCC
1 TAATTTTT-CAAAATTGTCAAAATGGTCCCC
*
8064 TAACTTTTCAAAATT-TACAAAATGGT-CCC
1 TAATTTTTCAAAATTGT-CAAAATGGTCCCC
8093 TAAATTTTTC
1 T-AATTTTTC
8103 TAAGGCTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 5 0.15
30 21 0.64
31 7 0.21
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (30 bp):
TAATTTTTCAAAATTGTCAAAATGGTCCCC
Found at i:10996 original size:6 final size:6
Alignment explanation
Indices: 10959--11006 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
10949 CTCTCATCTT
*
10959 TTTTTC TTTTT- TTCTTC TTTTTTC TGTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC T-TTTTC TTTTTC TTTTTC TTTTT
11007 TTTCTTCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 4 0.11
6 22 0.59
7 11 0.30
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:11014 original size:12 final size:11
Alignment explanation
Indices: 10957--11014 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 11
10947 ATCTCTCATC
10957 TTTTTTTCTTT
1 TTTTTTTCTTT
*
10968 TTTTCTTCTTTT
1 TTTTTTTC-TTT
10980 TTCTGTTTTCTTT
1 TT-T-TTTTCTTT
10993 TTCTTTTTCTTT
1 TT-TTTTTCTTT
11005 TTTTTCTTCT
1 TTTTT-TTCT
11015 ACTTTTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.24
12 19 0.46
13 8 0.20
14 4 0.10
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:13772 original size:7 final size:7
Alignment explanation
Indices: 13750--13818 Score: 84
Period size: 7 Copynumber: 9.9 Consensus size: 7
13740 TAACCAATAT
*
13750 ACCATAG
1 ACCATAA
*
13757 ACTATAA
1 ACCATAA
13764 ACCATAA
1 ACCATAA
*
13771 ACCATAG
1 ACCATAA
13778 ACCATAA
1 ACCATAA
13785 ACCATAA
1 ACCATAA
*
13792 ACCATAG
1 ACCATAA
13799 ACCATAA
1 ACCATAA
*
13806 GCCATAA
1 ACCATAA
*
13813 ATCATA
1 ACCATA
13819 GCCCAATTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.51, C:0.26, G:0.06, T:0.17
Consensus pattern (7 bp):
ACCATAA
Found at i:13775 original size:21 final size:21
Alignment explanation
Indices: 13741--13819 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
13731 ACCATTTATT
* *
13741 AACCAATATACCATAGACTATA
1 AACC-ATAAACCATAGACCATA
13763 AACCATAAACCATAGACCATA
1 AACCATAAACCATAGACCATA
13784 AACCATAAACCATAGACCATA
1 AACCATAAACCATAGACCATA
* *
13805 AGCCATAAATCATAG
1 AACCATAAACCATAG
13820 CCCAATTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 49 0.92
22 4 0.08
ACGTcount: A:0.51, C:0.25, G:0.06, T:0.18
Consensus pattern (21 bp):
AACCATAAACCATAGACCATA
Found at i:14001 original size:40 final size:40
Alignment explanation
Indices: 13863--13984 Score: 203
Period size: 40 Copynumber: 3.1 Consensus size: 40
13853 GAGTAATATC
* *
13863 TACACCGTAGTGC--TACATATAAGGTCGTGCCCACCATA
1 TACACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
13901 TACACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
1 TACACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
*
13941 TACACCGAAGTGCATCACACATAAGGTCGTGCCCACCATA
1 TACACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
13981 TACA
1 TACA
13985 TTTAGTGTCC
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 12 0.15
40 67 0.85
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (40 bp):
TACACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
Found at i:14917 original size:30 final size:31
Alignment explanation
Indices: 14860--14920 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
14850 CAGCCATTCA
*** *
14860 TAACTTTTCAAAAATTATCGAATTGGTCCCC
1 TAACTTTTCAAAAATTAAAAAAATGGTCCCC
14891 TAACTTTTC-AAAATTAAAAAAATGGTCCCC
1 TAACTTTTCAAAAATTAAAAAAATGGTCCCC
14921 AAATTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (31 bp):
TAACTTTTCAAAAATTAAAAAAATGGTCCCC
Found at i:21612 original size:27 final size:26
Alignment explanation
Indices: 21574--21625 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
21564 TTGCTTTTGA
21574 TATTAAATTATATAATATATTCATATC
1 TATTAAATTATATAATATATT-ATATC
* *
21601 TATTATATTATATGATATATTATAT
1 TATTAAATTATATAATATATTATAT
21626 GGTGAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTAAATTATATAATATATTATATC
Found at i:21734 original size:2 final size:2
Alignment explanation
Indices: 21727--21765 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
21717 TGTATGGTAT
*
21727 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21766 CATAATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23004 original size:54 final size:54
Alignment explanation
Indices: 22936--23075 Score: 153
Period size: 54 Copynumber: 2.6 Consensus size: 54
22926 TTAATTTACA
** *
22936 TTTTAATTTATTTTTTCTATTTAATTT-TTTTTTTA-ATTTTATTTCTTTTCCTTC
1 TTTTAATTT-TTTTTAATATTT-ATTTATTTTTTTATATTTTATTTATTTTCCTTC
* * *
22990 TTTTAATTATTTTTTAATATTTTTTTATTTTTTTATTTTTTATTTATTTTTCTTC
1 TTTTAATT-TTTTTTAATATTTATTTATTTTTTTATATTTTATTTATTTTCCTTC
23045 TTTT-ATTGTTTTTTAATATATT-TTTATTTTT
1 TTTTAATT-TTTTTTAATAT-TTATTTATTTTT
23076 ATTTTTTCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
53 3 0.04
54 49 0.65
55 23 0.31
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (54 bp):
TTTTAATTTTTTTTAATATTTATTTATTTTTTTATATTTTATTTATTTTCCTTC
Found at i:23005 original size:65 final size:63
Alignment explanation
Indices: 22936--23135 Score: 206
Period size: 56 Copynumber: 3.2 Consensus size: 63
22926 TTAATTTACA
22936 TTTTAATTTATTTTTTCTATTTAATTTTTTTTTTAATTTTATTTCTTTTCCTTCTTTTAATTATT
1 TTTTAATTTATTTTTT-TATTT-ATTTTTTTTTTAATTTTATTTCTTTTCCTTCTTTTAATTATT
*
23001 TTTTAA--TATTTTTTTATTT-TTTTATTTTTT-A-TTTA--T-TTTT-CTTCTTTT-ATTGTT
1 TTTTAATTTATTTTTTTATTTATTTT-TTTTTTAATTTTATTTCTTTTCCTTCTTTTAATTATT
* *
23055 TTTTAATATATTTTTATT-TTTATTTTTTCTTTATATTTTTATTTCTTTTTCCTTCTTTTTGAAT
1 TTTTAATTTATTTTT-TTATTTATTTTTT-TTT-TAATTTTATTTC-TTTTCCTTC-TTTT-AAT
23119 TATT
60 TATT
*
23123 TTTTATTTTATTT
1 TTTTAATTTATTT
23136 CTCTTTTTCT
Statistics
Matches: 113, Mismatches: 5, Indels: 31
0.76 0.03 0.21
Matches are distributed among these distances:
54 11 0.10
55 8 0.07
56 16 0.14
57 10 0.09
58 1 0.01
59 4 0.04
60 9 0.08
61 6 0.05
62 6 0.05
63 8 0.07
64 4 0.04
65 10 0.09
66 4 0.04
68 16 0.14
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (63 bp):
TTTTAATTTATTTTTTTATTTATTTTTTTTTTAATTTTATTTCTTTTCCTTCTTTTAATTATT
Found at i:23010 original size:10 final size:9
Alignment explanation
Indices: 22997--23094 Score: 57
Period size: 8 Copynumber: 10.8 Consensus size: 9
22987 TTCTTTTAAT
22997 TATTTTTTAA
1 TATTTTTT-A
23007 TATTTTTT-
1 TATTTTTTA
23015 TATTTTTT-
1 TATTTTTTA
23023 TATTTTTTA
1 TATTTTTTA
23032 T-TTATTTT-
1 TATT-TTTTA
*
23040 TCTTCTTTTA
1 TATT-TTTTA
*
23050 TTGTTTTTTAA
1 -TATTTTTT-A
23061 TATATTTTTA
1 TAT-TTTTTA
23071 T-TTTTATT-
1 TATTTT-TTA
23079 T-TTTCTTTA
1 TATTT-TTTA
23088 TATTTTT
1 TATTTTT
23095 ATTTCTTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
8 28 0.38
9 18 0.24
10 19 0.26
11 9 0.12
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (9 bp):
TATTTTTTA
Found at i:23020 original size:27 final size:26
Alignment explanation
Indices: 22990--23094 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
22980 CTTTTCCTTC
22990 TTTTAATTATTTTTTAATATTTTTTTA
1 TTTT-ATTATTTTTTAATATTTTTTTA
* * *
23017 TTTTTTTATTTTTTATTTATTTTTCTTC
1 TTTTATTATTTTTTA-ATATTTTT-TTA
* *
23045 TTTTATTGTTTTTTAATATATTTTTA
1 TTTTATTATTTTTTAATATTTTTTTA
*
23071 TTTTTATT-TTTTCTTTATATTTTT
1 -TTTTATTATTTT-TTAATATTTTT
23095 ATTTCTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 16 0.25
27 33 0.52
28 15 0.23
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTTATTATTTTTTAATATTTTTTTA
Found at i:23035 original size:11 final size:11
Alignment explanation
Indices: 22990--23135 Score: 59
Period size: 11 Copynumber: 13.1 Consensus size: 11
22980 CTTTTCCTTC
*
22990 TTTTAATTATT
1 TTTTATTTATT
*
23001 TTTTA-ATATTT
1 TTTTATTTA-TT
23012 TTTTATTT-TT
1 TTTTATTTATT
*
23022 TTATTTTTTATT
1 TT-TTATTTATT
* *
23034 TATT-TTTCTT
1 TTTTATTTATT
23044 CTTTTATTGT-TT
1 -TTTTATT-TATT
* *
23056 TTTAATATATT
1 TTTTATTTATT
*
23067 TTTATTTTTATT
1 TTT-TATTTATT
*
23079 TTTTCTTTATAT
1 TTTTATTTAT-T
*
23091 TTTTATTT-CT
1 TTTTATTTATT
** *
23101 TTTTCCTTCTT
1 TTTTATTTATT
* *
23112 TTTGAATTATT
1 TTTTATTTATT
23123 TTTTATTTTATT
1 TTTTA-TTTATT
23135 T
1 T
23136 CTCTTTTTCT
Statistics
Matches: 100, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
10 19 0.19
11 50 0.50
12 30 0.30
13 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:23040 original size:18 final size:18
Alignment explanation
Indices: 22930--23096 Score: 96
Period size: 18 Copynumber: 9.3 Consensus size: 18
22920 GTTTATTTAA
*
22930 TTTACATTTTAATTTATTT
1 TTTATATTTT-ATTTATTT
* * *
22949 TTTCTATTTAATTTTTTT
1 TTTATATTTTATTTATTT
*
22967 TTTA-ATTTTATTTCTTT
1 TTTATATTTTATTTATTT
* * *
22984 TCCT-TCTTTTAATTATTT
1 T-TTATATTTTATTTATTT
23002 TTTAATATTTT-TTTATTTT
1 TTT-ATATTTTATTTA-TTT
*
23021 TTTATTTTTTATTTATTT
1 TTTATATTTTATTTATTT
*
23039 TTCT-TCTTTTATTGT-TTT
1 TT-TATATTTTATT-TATTT
* *
23057 TTAATATATT-TTTA-TT
1 TTTATATTTTATTTATTT
* *
23073 TTTATTTTTTCTTTATATT
1 TTTATATTTTATTTAT-TT
23092 TTTAT
1 TTTAT
23097 TTCTTTTTCC
Statistics
Matches: 113, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
16 10 0.09
17 19 0.17
18 53 0.47
19 31 0.27
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (18 bp):
TTTATATTTTATTTATTT
Found at i:23089 original size:25 final size:24
Alignment explanation
Indices: 22996--23098 Score: 84
Period size: 25 Copynumber: 4.0 Consensus size: 24
22986 CTTCTTTTAA
** *
22996 TTATTTTTTAATATTTTTTTATTTTT
1 TTATTTTTTTTTATATTTTTA--TTT
23022 TTATTTTTTATTTAT-TTTTCT-TCTT
1 TTATTTTTT-TTTATATTTT-TAT-TT
23047 TTATTGTTTTTTAATATATTTTTATTT
1 TTATT-TTTTTT--TATATTTTTATTT
23074 TTATTTTTTCTTTATATTTTTATTT
1 TTATTTTTT-TTTATATTTTTATTT
23099 CTTTTTCCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
24 1 0.02
25 22 0.33
26 21 0.32
27 17 0.26
28 5 0.08
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (24 bp):
TTATTTTTTTTTATATTTTTATTT
Found at i:23092 original size:54 final size:55
Alignment explanation
Indices: 22963--23103 Score: 155
Period size: 54 Copynumber: 2.6 Consensus size: 55
22953 TATTTAATTT
* * * * *
22963 TTTTTTTA-ATTTTATTTCTTTTCCTTCTTTTAATTATTTTTTAATATTTTTTTA
1 TTTTTTTATTTTTTATATATTTTTCTTCTTTTAATTATTTTTTAATATATTTTTA
* *
23017 TTTTTTTATTTTTTATTTATTTTTCTTCTTTT-ATTGTTTTTTAATATATTTTTA
1 TTTTTTTATTTTTTATATATTTTTCTTCTTTTAATTATTTTTTAATATATTTTTA
*
23071 TTTTTATT-TTTTCTT-TATATTTTTATTTCTTTT
1 TTTTT-TTATTTT-TTATATATTTTT-CTTCTTTT
23104 TCCTTCTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
54 45 0.59
55 31 0.41
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (55 bp):
TTTTTTTATTTTTTATATATTTTTCTTCTTTTAATTATTTTTTAATATATTTTTA
Found at i:23114 original size:56 final size:55
Alignment explanation
Indices: 22959--23135 Score: 141
Period size: 54 Copynumber: 3.2 Consensus size: 55
22949 TTTCTATTTA
* * * ** *
22959 ATTTTT-TTTTTAATTTTATTTCTTTTCCTTCTTTTAATTATTTTTTAATATTTTTTT
1 ATTTTTATTTTT--TTTTATTTATTTTTCTTC-TTTCATTGCTTTTTAATATATTTTT
* * *
23016 ATTTTT-TTATTTTTTATTTATTTTTCTTCTTTTATTGTTTTTTAATATATTTTT
1 ATTTTTATTTTTTTTTATTTATTTTTCTTCTTTCATTGCTTTTTAATATATTTTT
* *
23070 ATTTTTATTTTTTCTTTATATTTTTATTTCTT-TTTCCTT-CTTTTTGAAT-TATTTTT
1 ATTTTTATTTTTT-TTTAT-TTATT-TTTCTTCTTTCATTGCTTTTT-AATATATTTTT
23126 -TATTTTATTT
1 AT-TTTTATTT
23136 CTCTTTTTCT
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
54 28 0.27
55 22 0.21
56 25 0.24
57 22 0.21
58 6 0.06
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (55 bp):
ATTTTTATTTTTTTTTATTTATTTTTCTTCTTTCATTGCTTTTTAATATATTTTT
Found at i:23143 original size:68 final size:62
Alignment explanation
Indices: 23007--23143 Score: 150
Period size: 68 Copynumber: 2.1 Consensus size: 62
22997 TATTTTTTAA
* *
23007 TATTTTTTTATTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTGTTTTTTAATATATTTT
1 TATTTTTTTATTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTATTTTTTAATATATTTC
* * *
23069 TATTTTTATT-TTTTCTTTATATTTTTATTTCTTTTTCCTTCTTTTTGAATTATTTTTTATTTTA
1 TATTTTT-TTATTTT-TTTAT-TTTTTATTTATTTTT-CTTC-TTTT--ATTATTTTTTAATATA
23133 TTTC
59 TTTC
*
23137 TCTTTTT
1 TATTTTT
23144 CTAATTTTAG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
62 11 0.18
63 7 0.11
64 14 0.23
65 4 0.06
66 4 0.06
68 22 0.35
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (62 bp):
TATTTTTTTATTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTATTTTTTAATATATTTC
Found at i:33385 original size:43 final size:43
Alignment explanation
Indices: 33333--33645 Score: 326
Period size: 43 Copynumber: 7.3 Consensus size: 43
33323 AACAAAAAAT
*** * **
33333 GCCGCAATAGGTAACGATATATAGCGGCGTTTGTT-GGACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TTCCAACAAAC
33376 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
* *
33419 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCCACAAAT
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
* * * *
33462 GCCGTAATAGGTGTTGAGATTTAGCGGCGTTTTCCCCACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
* *
33505 GCCGCAATAGGTGTTGAGATTTAGTGGCGTTTTTTCC-ACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTTCCAACAAAC
* * * *
33548 GCCGCAATAGGTCTTGAGATTTAGCGGTGTTTTTCCCACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
* * * * * * * **
33591 ACCGTAAAAGAT-CTGGTATATAGCGGCGTTTTTTAGAACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTTCCAACAAAC
*
33634 GCCGCAAAAGGT
1 GCCGCAATAGGT
33646 CATATCTATA
Statistics
Matches: 233, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
42 20 0.09
43 207 0.89
44 6 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
Found at i:33471 original size:129 final size:128
Alignment explanation
Indices: 33329--33645 Score: 379
Period size: 129 Copynumber: 2.5 Consensus size: 128
33319 TGGTAACAAA
* * * *
33329 AAATGCCGCAATAGGTAACGATATATAGCGGCGTTTGTTGGACAAACGCCGCAATAGGTGTTGAT
1 AAATGCCGTAATAGGTATCGATATATAGCGGCGTTT-TTGAACAAACGCCGCAATAGGTGTTGAG
* *
33394 ATTTAGCGGCG-TTTTTCCAACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCCAC
65 ATTTAGCGGCGTTTTTTCC-ACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
* * * * ***
33458 AAATGCCGTAATAGGTGTTGAGATTTAGCGGCGTTTTCCCCACAAACGCCGCAATAGGTGTTGAG
1 AAATGCCGTAATAGGTATCGATATATAGCGGCGTTTT-TGAACAAACGCCGCAATAGGTGTTGAG
* *
33523 ATTTAGTGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGTGTTTTTCCCAC
65 ATTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
** * * *
33587 AAACACCGTAA-AAG-ATCTGGTATATAGCGGCGTTTTTTAGAACAAACGCCGCAAAAGGT
1 AAATGCCGTAATAGGTATC-GATATATAGCGGCG-TTTTT-GAACAAACGCCGCAATAGGT
33646 CATATCTATA
Statistics
Matches: 157, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
127 1 0.01
128 14 0.09
129 135 0.86
130 7 0.04
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (128 bp):
AAATGCCGTAATAGGTATCGATATATAGCGGCGTTTTTGAACAAACGCCGCAATAGGTGTTGAGA
TTTAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
Found at i:33819 original size:21 final size:21
Alignment explanation
Indices: 33793--33851 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
33783 ATTTTCCAAT
*
33793 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
33814 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
33835 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
33852 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:36947 original size:81 final size:83
Alignment explanation
Indices: 36713--37094 Score: 445
Period size: 82 Copynumber: 4.7 Consensus size: 83
36703 ATATACCAAA
* * * * * * * *
36713 CTATTGCGGCGTTTGTAAAAAAATGCCTCTACAGTACTATTATGTTGCGGCGTTTG-TAAAAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAA
* *
36777 CGTCACTGTAGATGAAAC
66 CGCCACTATAGATGAAAC
* *
36795 CTATTGCGGCGTTTGTA-AAAAACGCCGCTAAAAGTACTACTATTTTGCGGCGTTTGTTG-AAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCT-AAAGTACTACTCTATTGCGGCGTTTGTTGAAAAA
*
36858 ACGCCACTATAGATTAAAC
65 ACGCCACTATAGATGAAAC
* ** ** *
36877 CTATTACGGCGTTTGTA-AAAAACGCCGCTAAAGTACTACTCTATAACAACGTTTGTT-AAGAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAA
*
36940 CGCCACTATGGATG-AAC
66 CGCCACTATAGATGAAAC
*
36957 CTATTGTC-GCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAAAA
1 CTATTG-CGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAA
* *
37021 ATGCCACTATAGATGAACC
65 ACGCCACTATAGATGAAAC
* * * * *
37040 CTATTGCGGCATTTTTATACAAACGCCGCTAAAGTATTACTATATTGCGGCGTTT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCGTTT
37095 TGTATAAAAA
Statistics
Matches: 257, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
80 17 0.07
81 84 0.33
82 106 0.41
83 50 0.19
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (83 bp):
CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCGTTTGTTGAAAAAA
CGCCACTATAGATGAAAC
Found at i:37012 original size:41 final size:40
Alignment explanation
Indices: 36713--37113 Score: 230
Period size: 41 Copynumber: 9.8 Consensus size: 40
36703 ATATACCAAA
* * * * *
36713 CTATTGCGGCGTTTGTAAAAAAATGCCTCTACAGTACTATT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTA-TACT
* * * * * ** *
36754 ATGTTGCGGCGTTTGTAAAAAAACGTCACTGTAGATGAAAC-
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAG-T-ATACT
36795 CTATTGCGGCGTTTGTA-AAAAACGCCGCTAAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCT-AAAGTA-TACT
* * * * *
36836 ATTTTGCGGCGTTTGT-TGAAAAACGCCACTATAGATTAAAC-
1 CTATTGCGGCGTTTGTAT-AAAAACGCCGCTA-A-AGTATACT
*
36877 CTATTACGGCGTTTGTA-AAAAACGCCGCTAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTA-TACT
** ** * * *
36917 CTATAACAACGTTTGT-TAAGAAACGCCACT-ATGGATGAAC-
1 CTATTGCGGCGTTTGTATAA-AAACGCCGCTAAAGTAT--ACT
36957 CTATTGTC-GCGTTTGTATAAAAACGCCGCTAAAGTACTACT
1 CTATTG-CGGCGTTTGTATAAAAACGCCGCTAAAGTA-TACT
* * * * *
36998 CTGTTGCGGCGTTTGT-TGAAAAAATGCCACTATAG-ATGAACC
1 CTATTGCGGCGTTTGTAT--AAAAACGCCGCTAAAGTAT--ACT
* * *
37040 CTATTGCGGCATTTTTATACAAACGCCGCTAAAGTATTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTA-TACT
*
37081 ATATTGCGGCGTTTTGTATAAAAACGCCGCTAA
1 CTATTGCGGCG-TTTGTATAAAAACGCCGCTAA
37114 CGTTACCATT
Statistics
Matches: 274, Mismatches: 56, Indels: 59
0.70 0.14 0.15
Matches are distributed among these distances:
38 3 0.01
39 5 0.02
40 68 0.25
41 127 0.46
42 65 0.24
43 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (40 bp):
CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTATACT
Found at i:44829 original size:33 final size:33
Alignment explanation
Indices: 44792--44871 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
44782 AATTTGACAA
*
44792 ATTAAAAAATTCATCTTGGTTGGTGACCAACAT
1 ATTAAAAAATTCATCTTGGTTGGTGACAAACAT
* *
44825 ATTAAAAATTTCATCTTGGTTGGTGACAAACTT
1 ATTAAAAAATTCATCTTGGTTGGTGACAAACAT
**
44858 ATTGGAAAATTCAT
1 ATTAAAAAATTCAT
44872 TTTTGGTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (33 bp):
ATTAAAAAATTCATCTTGGTTGGTGACAAACAT
Found at i:51651 original size:18 final size:18
Alignment explanation
Indices: 51628--51664 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
51618 TAGTATTGAT
51628 TTTATGAAGTGGTCAAAG
1 TTTATGAAGTGGTCAAAG
51646 TTTATGAAGTGGTCAAAG
1 TTTATGAAGTGGTCAAAG
51664 T
1 T
51665 AAATTCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (18 bp):
TTTATGAAGTGGTCAAAG
Found at i:56776 original size:76 final size:77
Alignment explanation
Indices: 56647--56838 Score: 264
Period size: 76 Copynumber: 2.5 Consensus size: 77
56637 CCGTTGTACA
* * * *
56647 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCAGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGAG
**
56711 -CAAAACTGTTT
66 CCAAAACCATTT
* * *
56722 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGAG
56787 CCAAAACCATTT
66 CCAAAACCATTT
**
56799 AGGGGGG-ATCGGTTCCTCCTAAAGGGGGAATCGGTTCCCT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCT
56839 TTGAGCAATC
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 19 0.18
76 69 0.66
77 16 0.15
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGAG
CCAAAACCATTT
Found at i:59434 original size:21 final size:21
Alignment explanation
Indices: 59408--59447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59398 CAGAACCCCA
*
59408 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
59429 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
59448 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:59483 original size:21 final size:21
Alignment explanation
Indices: 59429--59491 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
59419 ATTCCCCTGT
59429 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
59452 AGGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
* *
59473 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
59492 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 19 0.54
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:63341 original size:22 final size:21
Alignment explanation
Indices: 63299--63338 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63289 GAGTTTGTTT
*
63299 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
63320 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
63339 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:64272 original size:27 final size:26
Alignment explanation
Indices: 64234--64285 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
64224 TTGCTTTTGA
64234 TATTACATTATATAATATATTCATATC
1 TATTACATTATATAATATATT-ATATC
* *
64261 TATTATATTATATGATATATTATAT
1 TATTACATTATATAATATATTATAT
64286 GGTGAATACG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTACATTATATAATATATTATATC
Found at i:65588 original size:16 final size:16
Alignment explanation
Indices: 65562--65606 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
65552 TTAATTTACA
*
65562 TTTTAATTTAATTGTT
1 TTTTAATTTAATTATT
65578 TTTCT-ATTTAATTATT
1 TTT-TAATTTAATTATT
65594 TTTTAATTTAATT
1 TTTTAATTTAATT
65607 TAATTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTAATTTAATTATT
Found at i:65649 original size:24 final size:24
Alignment explanation
Indices: 65592--65649 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
65582 TATTTAATTA
65592 TTTTTTAATTTAATTTAATTTTAC
1 TTTTTTAATTTAATTTAATTTTAC
* * * *
65616 TTTTTCAATTTTATTT-CTTTTCC
1 TTTTTTAATTTAATTTAATTTTAC
65639 TTCTTTTAATT
1 TT-TTTTAATT
65650 GTTTTTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTTAATTTAATTTAATTTTAC
Found at i:65690 original size:35 final size:36
Alignment explanation
Indices: 65639--65708 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
65629 TTTCTTTTCC
* *
65639 TTCTTTTAATTGTTTTTTAATTTAAAATTATTTTTT
1 TTCTTTTAATTATTTTTTAATATAAAATTATTTTTT
**
65675 TTCTTTT-ATTATTTTTTAATATAATTTTATTTTT
1 TTCTTTTAATTATTTTTTAATATAAAATTATTTTT
65709 ATTTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (36 bp):
TTCTTTTAATTATTTTTTAATATAAAATTATTTTTT
Found at i:65700 original size:94 final size:100
Alignment explanation
Indices: 65576--65762 Score: 253
Period size: 95 Copynumber: 1.9 Consensus size: 100
65566 AATTTAATTG
*
65576 TTTTTCTATTTAATTATTTTTTAATTTAA-TTTAATTTTACTTTTTC-A-ATTTTATTTCTTTTC
1 TTTTTCTATTTAATTATTTTTTAATATAATTTTAATTTTACTTTTTCTATATTTTATTT-TTTTC
*
65638 CTTC-TTTT-AATTGTTTTTTAATTTAAAATTATTT
65 CTTCTTTTTGAATTATTTTTTAATTTAAAATTATTT
* *
65672 TTTTTCT-TTT-ATTATTTTTTAATATAATTTTATTTTTATTTTTTCTTTATATTTTATTTTTTT
1 TTTTTCTATTTAATTATTTTTTAATATAATTTTAATTTTACTTTTTC--TATATTTTATTTTTTT
*
65735 CCTTCTTTTTGAATTATTTTTTATTTTA
64 CCTTCTTTTTGAATTATTTTTTAATTTA
65763 TTTCTCTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
94 16 0.20
95 18 0.23
96 7 0.09
98 10 0.13
99 13 0.16
100 15 0.19
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.71
Consensus pattern (100 bp):
TTTTTCTATTTAATTATTTTTTAATATAATTTTAATTTTACTTTTTCTATATTTTATTTTTTTCC
TTCTTTTTGAATTATTTTTTAATTTAAAATTATTT
Found at i:65715 original size:24 final size:24
Alignment explanation
Indices: 65683--65732 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
65673 TTTTCTTTTA
65683 TTATTTTTTA-ATATAATTTTATTT
1 TTATTTTTTATATAT-ATTTTATTT
* *
65707 TTATTTTTTCTTTATATTTTATTT
1 TTATTTTTTATATATATTTTATTT
65731 TT
1 TT
65733 TTCCTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (24 bp):
TTATTTTTTATATATATTTTATTT
Found at i:65744 original size:18 final size:17
Alignment explanation
Indices: 65701--65744 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
65691 TAATATAATT
*
65701 TTATTTTTATTTTTTCT
1 TTATTTTTATTTTTTCC
65718 TTATATTTTATTTTTTTCC
1 TTAT-TTTTA-TTTTTTCC
*
65737 TTCTTTTT
1 TTATTTTT
65745 GAATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 10 0.43
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATTTTTATTTTTTCC
Found at i:73337 original size:14 final size:14
Alignment explanation
Indices: 73318--73362 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
73308 TTATTAACCA
*
73318 ATAAACCATAGACT
1 ATAAACCATAGACC
73332 ATAAACCATAGACC
1 ATAAACCATAGACC
*
73346 ATAAACCATAAACC
1 ATAAACCATAGACC
73360 ATA
1 ATA
73363 GCCCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.18
Consensus pattern (14 bp):
ATAAACCATAGACC
Found at i:73348 original size:7 final size:7
Alignment explanation
Indices: 73313--73362 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
73303 ACCATTTATT
73313 AACCAATA
1 AACC-ATA
73321 AACCATA
1 AACCATA
* *
73328 GACTATA
1 AACCATA
73335 AACCATA
1 AACCATA
*
73342 GACCATA
1 AACCATA
73349 AACCATA
1 AACCATA
73356 AACCATA
1 AACCATA
73363 GCCCAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.54, C:0.26, G:0.04, T:0.16
Consensus pattern (7 bp):
AACCATA
Found at i:77266 original size:10 final size:10
Alignment explanation
Indices: 77251--77324 Score: 75
Period size: 10 Copynumber: 7.6 Consensus size: 10
77241 TCTCTCATCT
77251 TTTTTTCTTC
1 TTTTTTCTTC
77261 TTTTTTC-T-
1 TTTTTTCTTC
77269 TTTTTTCTTC
1 TTTTTTCTTC
77279 TTTTTTCTGT-
1 TTTTTTCT-TC
*
77289 TTTTTTTTTC
1 TTTTTTCTTC
*
77299 TTTTTCCTT-
1 TTTTTTCTTC
*
77308 TTTTCTTCTAC
1 TTTT-TTCTTC
77319 TTTTTT
1 TTTTTT
77325 AACTCTTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.13
9 7 0.13
10 34 0.64
11 5 0.09
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:77268 original size:7 final size:7
Alignment explanation
Indices: 77251--77314 Score: 62
Period size: 7 Copynumber: 9.3 Consensus size: 7
77241 TCTCTCATCT
77251 TTTTTTC
1 TTTTTTC
77258 TTCTTTT-
1 TT-TTTTC
77265 TTCTTTT-
1 TT-TTTTC
*
77272 TTTCTTC
1 TTTTTTC
77279 TTTTTTC
1 TTTTTTC
*
77286 TGTTTT-
1 TTTTTTC
77292 TTTTTTC
1 TTTTTTC
*
77299 TTTTTCC
1 TTTTTTC
77306 TTTTTTC
1 TTTTTTC
77313 TT
1 TT
77315 CTACTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 8 0.17
7 36 0.75
8 4 0.08
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:77269 original size:18 final size:18
Alignment explanation
Indices: 77248--77316 Score: 95
Period size: 18 Copynumber: 3.8 Consensus size: 18
77238 GCATCTCTCA
77248 TCTTTTTTTCTTCTTTTT
1 TCTTTTTTTCTTCTTTTT
77266 TCTTTTTTTCTTCTTTTT
1 TCTTTTTTTCTTCTTTTT
*
77284 TCTGTTTTTT-TTTTCTTTT
1 TCT-TTTTTTCTTCT-TTTT
*
77303 TCCTTTTTTCTTCT
1 TCTTTTTTTCTTCT
77317 ACTTTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 30 0.67
19 15 0.33
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.81
Consensus pattern (18 bp):
TCTTTTTTTCTTCTTTTT
Found at i:80072 original size:7 final size:7
Alignment explanation
Indices: 80050--80118 Score: 84
Period size: 7 Copynumber: 9.9 Consensus size: 7
80040 TAACCAATAT
*
80050 ACCATAG
1 ACCATAA
*
80057 ACTATAA
1 ACCATAA
80064 ACCATAA
1 ACCATAA
*
80071 ACCATAG
1 ACCATAA
80078 ACCATAA
1 ACCATAA
80085 ACCATAA
1 ACCATAA
*
80092 ACCATAG
1 ACCATAA
80099 ACCATAA
1 ACCATAA
*
80106 GCCATAA
1 ACCATAA
*
80113 ATCATA
1 ACCATA
80119 GCCCAATTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.51, C:0.26, G:0.06, T:0.17
Consensus pattern (7 bp):
ACCATAA
Found at i:80075 original size:21 final size:21
Alignment explanation
Indices: 80041--80119 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
80031 ACCATTTATT
* *
80041 AACCAATATACCATAGACTATA
1 AACC-ATAAACCATAGACCATA
80063 AACCATAAACCATAGACCATA
1 AACCATAAACCATAGACCATA
80084 AACCATAAACCATAGACCATA
1 AACCATAAACCATAGACCATA
* *
80105 AGCCATAAATCATAG
1 AACCATAAACCATAG
80120 CCCAATTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 49 0.92
22 4 0.08
ACGTcount: A:0.51, C:0.25, G:0.06, T:0.18
Consensus pattern (21 bp):
AACCATAAACCATAGACCATA
Found at i:80301 original size:40 final size:40
Alignment explanation
Indices: 80176--80284 Score: 191
Period size: 40 Copynumber: 2.7 Consensus size: 40
80166 ACCGTAGTGC
*
80176 TACATATAAGGTCGTGCCCACCATATACACCAAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGCAT
*
80216 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGCAT
*
80256 CACACATAAGGTCGTGCCCACCATATACA
1 TACACATAAGGTCGTGCCCACCATATACA
80285 TTTAGTGTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGCAT
Found at i:89361 original size:8 final size:8
Alignment explanation
Indices: 89331--89438 Score: 51
Period size: 8 Copynumber: 12.2 Consensus size: 8
89321 CTTCTTTTAA
89331 TTATTTTT
1 TTATTTTT
*
89339 TAATATTTTA
1 T--TATTTTT
*
89349 ATATTTTT
1 TTATTTTT
89357 TTA-TTTT
1 TTATTTTT
89364 TTATTTATT
1 TTATTT-TT
89373 TT-TCTTCTT
1 TTAT-TT-TT
89382 TTATTGTTTT
1 TTA-T-TTTT
89392 TTAATATATTT
1 TT-AT-T-TTT
89403 TTATTTTT
1 TTATTTTT
89411 ATT-TTTTCT
1 -TTATTTT-T
*
89420 TTATATTT
1 TTATTTTT
89428 TTATTTCTT
1 TTATTT-TT
89437 TT
1 TT
89439 TCCTTCTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 25
0.70 0.08 0.22
Matches are distributed among these distances:
7 7 0.09
8 27 0.35
9 21 0.27
10 14 0.18
11 9 0.12
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.77
Consensus pattern (8 bp):
TTATTTTT
Found at i:89365 original size:18 final size:19
Alignment explanation
Indices: 89325--89375 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
89315 CTTTTCCTTC
89325 TTTTAATTATTTTTTAATA
1 TTTTAATTATTTTTTAATA
* *
89344 TTTTAA-TATTTTTTTATT
1 TTTTAATTATTTTTTAATA
*
89362 TTTTATTTATTTTT
1 TTTTAATTATTTTT
89376 CTTCTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTAATTATTTTTTAATA
Found at i:89392 original size:18 final size:16
Alignment explanation
Indices: 89279--89417 Score: 61
Period size: 18 Copynumber: 8.2 Consensus size: 16
89269 TACATTTTAA
*
89279 TTTATTTTTTCTA--T
1 TTTATTTTTTTTATTT
* *
89293 TTAATTTTTTTTA-AT
1 TTTATTTTTTTTATTT
**
89308 TTTATTTCTTTTCCTTCT
1 TTTATTT-TTTTTATT-T
89326 TTTAATTATTTTTTAATATT
1 TTT-ATT-TTTTTT-AT-TT
*
89346 TTAATATTTTTTTATTT
1 TTTAT-TTTTTTTATTT
*
89363 TTTATTTATTTTTCTTCT
1 TTTATTT-TTTTTATT-T
*
89381 TTTATTGTTTTTTAATATA
1 TTTATT-TTTTTT-AT-TT
*
89400 TTT-TTATTTTTATTT
1 TTTATTTTTTTTATTT
89415 TTT
1 TTT
89418 CTTTATATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 27
0.70 0.11 0.20
Matches are distributed among these distances:
14 11 0.11
15 11 0.11
16 8 0.08
17 18 0.19
18 20 0.21
19 20 0.21
20 7 0.07
21 1 0.01
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTATTTTTTTTATTT
Found at i:89395 original size:54 final size:55
Alignment explanation
Indices: 89290--89428 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 55
89280 TTATTTTTTC
* * *
89290 TATTTAATTTTTTTTA-ATTTTATTTCTTTTCCTTCTTTTAATTATTTTTTAATA
1 TATTTAATTTTTTTTATTTTTTATTTATTTTTCTTCTTTTAATTATTTTTTAATA
*
89344 T-TTTAATATTTTTTTATTTTTTATTTATTTTTCTTCTTTT-ATTGTTTTTTAATA
1 TATTTAAT-TTTTTTTATTTTTTATTTATTTTTCTTCTTTTAATTATTTTTTAATA
* *
89398 TATTT--TTATTTTTATTTTTTCTTTATATTTT
1 TATTTAATTTTTTTTATTTTTTATTTAT-TTTT
89429 TATTTCTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
52 18 0.24
53 11 0.15
54 23 0.31
55 23 0.31
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (55 bp):
TATTTAATTTTTTTTATTTTTTATTTATTTTTCTTCTTTTAATTATTTTTTAATA
Found at i:89424 original size:25 final size:24
Alignment explanation
Indices: 89354--89433 Score: 83
Period size: 25 Copynumber: 3.1 Consensus size: 24
89344 TTTTAATATT
89354 TTTTTATTTTTTATTTAT-TTTTCT-
1 TTTTTATTTTTT-TTTATATTTT-TA
89378 TCTTTTATTGTTTTTTAATATATTTTTA
1 T-TTTTATT-TTTTTT--TATATTTTTA
89406 TTTTTATTTTTTCTTTATATTTTTA
1 TTTTTATTTTTT-TTTATATTTTTA
89431 TTT
1 TTT
89434 CTTTTTCCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
24 1 0.02
25 22 0.45
26 8 0.16
27 13 0.27
28 5 0.10
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (24 bp):
TTTTTATTTTTTTTTATATTTTTA
Found at i:89439 original size:46 final size:46
Alignment explanation
Indices: 89344--89432 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
89334 TTTTTTAATA
* *
89344 TTTTAATATTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTGTT
1 TTTTAATATATTTTTATTTTTTATTTATTTTTATTCTTTTATTGTT
*
89390 TTTTAATATATTTTTA-TTTTTATTTTTTCTTTATAT-TTTTATT
1 TTTTAATATATTTTTATTTTTTATTTATT-TTTAT-TCTTTTATT
89433 TCTTTTTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 11 0.29
46 26 0.68
47 1 0.03
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (46 bp):
TTTTAATATATTTTTATTTTTTATTTATTTTTATTCTTTTATTGTT
Found at i:89478 original size:68 final size:62
Alignment explanation
Indices: 89342--89478 Score: 148
Period size: 68 Copynumber: 2.1 Consensus size: 62
89332 TATTTTTTAA
* * * *
89342 TATTTTAATATTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTGTTTTTTAATATATTTT
1 TATTTTTATTTTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTATTTTTTAATATATTTC
* * *
89404 TATTTTTATTTTTTCTTTATATTTTTATTTCTTTTTCCTTCTTTTTGAATTATTTTTTATTTTAT
1 TATTTTTATTTTTT-TTTAT-TTTTTATTTATTTTT-CTTC-TTTT--ATTATTTTTTAATATAT
89469 TTC
60 TTC
*
89472 TCTTTTT
1 TATTTTT
89479 CTAATTTTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 12 0.20
63 5 0.08
64 14 0.23
65 4 0.07
66 4 0.07
68 22 0.36
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (62 bp):
TATTTTTATTTTTTTTTATTTTTTATTTATTTTTCTTCTTTTATTATTTTTTAATATATTTC
Done.