Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1812
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: 104251
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Found at i:5537 original size:28 final size:28
Alignment explanation
Indices: 5483--5537 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
5473 GACAAGAAAA
**
5483 ACCTCTTATGCTTTCTATTTGCAAGTAG
1 ACCTCTTATGCTTTCTATTCACAAGTAG
* *
5511 ACCTCTTATGCTTTGTATTCACTAGTA
1 ACCTCTTATGCTTTCTATTCACAAGTA
5538 TTTATACTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (28 bp):
ACCTCTTATGCTTTCTATTCACAAGTAG
Found at i:9020 original size:21 final size:24
Alignment explanation
Indices: 8981--9023 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
8971 ATAATTTTGT
8981 ATATTATTAGTTAATTAAATAATA
1 ATATTATTAGTTAATTAAATAATA
9005 ATATT-TTA-TTAA-TAAATAA
1 ATATTATTAGTTAATTAAATAA
9024 ATATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 3 0.16
24 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATTATTAGTTAATTAAATAATA
Found at i:9029 original size:24 final size:24
Alignment explanation
Indices: 8996--9073 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 24
8986 ATTAGTTAAT
8996 TAAATAATAATA-TTTTATTAATAAA
1 TAAAT-ATAATATTTTTA-TAATAAA
* *
9021 TAAATATAAAATTTTTAAAATAAA
1 TAAATATAATATTTTTATAATAAA
9045 TATAA-ATAAGTATATTTTATAATAAA
1 TA-AATATAA-TAT-TTTTATAATAAA
9071 TAA
1 TAA
9074 TATTATTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 17 0.38
25 15 0.33
26 13 0.29
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
TAAATATAATATTTTTATAATAAA
Found at i:9062 original size:26 final size:25
Alignment explanation
Indices: 8996--9072 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
8986 ATTAGTTAAT
8996 TAAATAATAATATTTTATTAATAAATA
1 TAAATAAT-ATATTTTA-TAATAAATA
* *
9023 -AATATAAAAT-TTTTAAAATAAATA
1 TAA-ATAATATATTTTATAATAAATA
9047 TAAATAAGTATATTTTATAATAAATA
1 TAAATAA-TATATTTTATAATAAATA
9073 ATATTATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
24 12 0.29
25 9 0.21
26 17 0.40
27 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
TAAATAATATATTTTATAATAAATA
Found at i:9141 original size:22 final size:22
Alignment explanation
Indices: 9110--9156 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9100 AAAATTATGT
* *
9110 ATTTATAATATATT-AAATATAA
1 ATTTAAAATAAATTAAAAT-TAA
9132 ATTTAAAATAAATTAAAATTAA
1 ATTTAAAATAAATTAAAATTAA
9154 ATT
1 ATT
9157 ACTTTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTAAAATAAATTAAAATTAA
Found at i:9304 original size:14 final size:14
Alignment explanation
Indices: 9256--9304 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9246 CCTTGAAAAG
9256 GATAAAT-TTTTCTA
1 GATAAATATTTT-TA
* *
9270 GAAAAATATATTTA
1 GATAAATATTTTTA
9284 -A-AAATATTTTTA
1 GATAAATATTTTTA
9296 GATAAATAT
1 GATAAATAT
9305 GTAAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 10 0.34
13 2 0.07
14 14 0.48
15 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (14 bp):
GATAAATATTTTTA
Found at i:10631 original size:20 final size:21
Alignment explanation
Indices: 10606--10645 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10596 TGATTCAATC
10606 TAAATAAT-TATTTATTTAAT
1 TAAATAATATATTTATTTAAT
*
10626 TAAATAATATTTTTATTTAA
1 TAAATAATATATTTATTTAA
10646 AATAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAATAATATATTTATTTAAT
Found at i:10657 original size:22 final size:21
Alignment explanation
Indices: 10606--10657 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
10596 TGATTCAATC
* *
10606 TAAATAAT-TATTTATTTAAT
1 TAAATAATATTTTTATTTAAA
10626 TAAATAATATTTTTATTTAAAA
1 TAAATAATATTTTTATTT-AAA
*
10648 TAAATTATAT
1 TAAATAATAT
10658 AAATATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATAATATTTTTATTTAAA
Found at i:10666 original size:8 final size:8
Alignment explanation
Indices: 10647--10684 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10637 TTTATTTAAA
10647 ATAAATTAT
1 ATAAA-TAT
10656 ATAAATAT
1 ATAAATAT
10664 ATAAATAT
1 ATAAATAT
10672 -T-AATAT
1 ATAAATAT
10678 ATAAATA
1 ATAAATA
10685 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.19
7 2 0.07
8 15 0.56
9 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAAATAT
Found at i:10668 original size:22 final size:22
Alignment explanation
Indices: 10643--10684 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10633 TATTTTTATT
10643 TAAA-ATAAATTATATAAATATA
1 TAAATATAAA-TATATAAATATA
*
10665 TAAATATTAATATATAAATA
1 TAAATATAAATATATAAATA
10685 ATTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATAAATATATAAATATA
Found at i:10671 original size:14 final size:14
Alignment explanation
Indices: 10654--10684 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10644 AAAATAAATT
10654 ATATAAATATATAA
1 ATATAAATATATAA
*
10668 ATATTAATATATAA
1 ATATAAATATATAA
10682 ATA
1 ATA
10685 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAAATATATAA
Found at i:10909 original size:23 final size:22
Alignment explanation
Indices: 10883--10953 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 22
10873 AATCTAATAA
10883 AATATTTAAAATTTTTTTATATT
1 AATATTTAAAA-TTTTTTATATT
10906 AATATTTATATAA-TTTTTA-ATT
1 AATATTTA-A-AATTTTTTATATT
10928 AA-ATTTAAATAATTTTTTATTATT
1 AATATTT-AA-AATTTTTTA-TATT
10952 AA
1 AA
10954 ATAATATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
21 8 0.19
22 12 0.29
23 14 0.33
24 6 0.14
25 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATATTTAAAATTTTTTATATT
Found at i:10939 original size:21 final size:22
Alignment explanation
Indices: 10883--10949 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
10873 AATCTAATAA
*
10883 AATATTTAAA-ATTTTTTTATATT
1 AATATTTAAATA-ATTTTTA-ATT
*
10906 AATATTTATATAATTTTTAATT
1 AATATTTAAATAATTTTTAATT
*
10928 AA-ATTTAAATAATTTTTTATT
1 AATATTTAAATAATTTTTAATT
10949 A
1 A
10950 TTAAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.46
22 5 0.13
23 15 0.38
24 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATATTTAAATAATTTTTAATT
Found at i:11870 original size:16 final size:17
Alignment explanation
Indices: 11839--11871 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11829 TTTTTAATAT
*
11839 TTTTTTGATATATTTAA
1 TTTTTTAATATATTTAA
11856 TTTTTTAATAT-TTTAA
1 TTTTTTAATATATTTAA
11872 AACTGAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTTAATATATTTAA
Found at i:12589 original size:15 final size:16
Alignment explanation
Indices: 12548--12592 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
12538 TTATTTGATA
*
12548 ATTAAAATTTTTAAAT
1 ATTAAAATTTATAAAT
12564 ATTAAATATTTATAAAT
1 ATTAAA-ATTTATAAAT
12581 -TTAAAATTTATA
1 ATTAAAATTTATA
12593 TTTATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.26
16 11 0.41
17 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAAAATTTATAAAT
Found at i:13433 original size:2 final size:2
Alignment explanation
Indices: 13389--13418 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13379 GTGAATAGAA
13389 AT 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 AT
13419 TTGCAATGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13630 original size:17 final size:17
Alignment explanation
Indices: 13608--13662 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
13598 ATTATCATAA
13608 AATTTTTAATTAATTTT
1 AATTTTTAATTAATTTT
*
13625 AATTTTTACA-TAA-TTA
1 AATTTTTA-ATTAATTTT
*
13641 AATCTTTCTAATTAATTGT
1 AAT-TTT-TAATTAATTTT
13660 AAT
1 AAT
13663 AATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 5 0.17
17 15 0.50
18 6 0.20
19 4 0.13
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTTTTAATTAATTTT
Found at i:13764 original size:21 final size:20
Alignment explanation
Indices: 13723--13765 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13713 GAAAAGATTT
*
13723 ATTTTAATTTTATCAAGTAA
1 ATTTTAATTTTATCAAATAA
13743 ATTTTAATATCTT-TCAAATAA
1 ATTTTAAT-T-TTATCAAATAA
13764 AT
1 AT
13766 AAAAAAGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 10 0.50
22 2 0.10
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTTTAATTTTATCAAATAA
Found at i:14244 original size:23 final size:23
Alignment explanation
Indices: 14200--14242 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14190 ATGTTTTTTT
* *
14200 GGTTTTTTGTATATATTAAAATA
1 GGTTTTTTATATAAATTAAAATA
14223 GGTTTTTTAT-TAAATTAAAA
1 GGTTTTTTATATAAATTAAAA
14243 ATTTGGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (23 bp):
GGTTTTTTATATAAATTAAAATA
Found at i:15136 original size:26 final size:27
Alignment explanation
Indices: 15094--15156 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
15084 AAAATATTAT
*
15094 ATTTAGATTTTAAAATTAATGATC-T-A
1 ATTTAAATTTTAAAATT-ATGATCTTAA
*
15120 ATTTAAATTTTAAAATTATTATCTTAA
1 ATTTAAATTTTAAAATTATGATCTTAA
15147 ATTTAAATTT
1 ATTTAAATTT
15157 ATGCTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 5 0.15
26 17 0.52
27 11 0.33
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTTAAATTTTAAAATTATGATCTTAA
Found at i:21026 original size:2 final size:2
Alignment explanation
Indices: 21013--21042 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21003 TTTCAAATAC
*
21013 AT AT AC 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 AT
21043 TCAATTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22093 original size:30 final size:30
Alignment explanation
Indices: 22059--22124 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
22049 AAAATTACTA
*
22059 AAATTATATGTATATTGAATAATAAAATAT
1 AAATTATATGTATATTAAATAATAAAATAT
*
22089 AAATTATATTTATATTAAATAATAAAATAT
1 AAATTATATGTATATTAAATAATAAAATAT
*
22119 ATATTA
1 AAATTA
22125 AAATTATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTATATGTATATTAAATAATAAAATAT
Found at i:22106 original size:64 final size:63
Alignment explanation
Indices: 22038--22182 Score: 150
Period size: 65 Copynumber: 2.2 Consensus size: 63
22028 TGCATATATA
* * *
22038 ATTAATAATTAAAA-AT-TACTAAAATTATATGTATATTGAATAATAAAATATAAATTATATTTA
1 ATTAATAA-TAAAATATATACTAAAATTATAT-CATACTAAATAATAAAATA-AAATTATATTTA
22101 T
63 T
* * * * *
22102 ATTAAATAATAAAATATATATTAAAATTATATCATGCTAAATAATAAATTAAAATTATTTTTGT
1 ATT-AATAATAAAATATATACTAAAATTATATCATACTAAATAATAAAATAAAATTATATTTAT
22166 ATTAATAAAATAAAATA
1 ATTAAT--AATAAAATA
22183 ACTCGATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
63 3 0.04
64 22 0.32
65 30 0.44
66 13 0.19
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (63 bp):
ATTAATAATAAAATATATACTAAAATTATATCATACTAAATAATAAAATAAAATTATATTTAT
Found at i:22148 original size:35 final size:30
Alignment explanation
Indices: 22059--22182 Score: 97
Period size: 30 Copynumber: 4.0 Consensus size: 30
22049 AAAATTACTA
* * *
22059 AAATTATATGTATATTGAATAATAAAATAT
1 AAATTAAATTTATATTAAATAATAAAATAT
*
22089 AAATTATATTTATATTAAATAATAAAATAT
1 AAATTAAATTTATATTAAATAATAAAATAT
* *
22119 ATATTAAAATTATATCATGCTAAATAATAAATTA-
1 AAATT-AAATT-TAT-AT--TAAATAATAAAATAT
** * *
22153 AAATTATTTTTGTATTAATAAAATAAAATA
1 AAATTAAATTTATATTAA-ATAATAAAATA
22183 ACTCGATAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
29 3 0.04
30 41 0.53
31 6 0.08
32 5 0.06
33 5 0.06
34 4 0.05
35 13 0.17
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTAAATTTATATTAAATAATAAAATAT
Found at i:23058 original size:13 final size:13
Alignment explanation
Indices: 23040--23064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23030 TTTTTTATAA
23040 TTAGATTGATTAG
1 TTAGATTGATTAG
23053 TTAGATTGATTA
1 TTAGATTGATTA
23065 AATAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TTAGATTGATTAG
Found at i:23525 original size:2 final size:2
Alignment explanation
Indices: 23520--23547 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23510 CTTAAAAAAA
23520 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
23548 TTTGGAGGAA
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:24084 original size:18 final size:17
Alignment explanation
Indices: 24022--24085 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
24012 GATTTCAATT
24022 AATATTTAA-ATAATAAA
1 AATATTTAATATAA-AAA
* * *
24039 AATATTTTAAAATATATA
1 AATA-TTTAATATAAAAA
24057 AATA-TTAATATAAAAA
1 AATATTTAATATAAAAA
24073 ATATATTTAATAT
1 A-ATATTTAATAT
24086 TTTAAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 10 0.26
17 7 0.18
18 18 0.47
19 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTTAATATAAAAA
Found at i:24091 original size:21 final size:21
Alignment explanation
Indices: 24029--24100 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
24019 ATTAATATTT
24029 AAATAATAAA-AATATTTTAAA
1 AAAT-ATAAATAATATTTTAAA
* * * *
24050 ATATATAAATATTAATATAAA
1 AAATATAAATAATATTTTAAA
**
24071 AAATATATTTAATATTTTAAA
1 AAATATAAATAATATTTTAAA
*
24092 TAAAAATAA
1 -AAATATAA
24101 TTTTTTAAAT
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
20 5 0.14
21 26 0.70
22 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATAAATAATATTTTAAA
Found at i:24763 original size:23 final size:22
Alignment explanation
Indices: 24731--24790 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
24721 ATATTATTAA
24731 AATA-TTATATTATTTT-TAAATT
1 AATATTTATA-TATTTTGT-AATT
24753 AATATTTATATATTTTGTAATT
1 AATATTTATATATTTTGTAATT
* *
24775 AA-ATTTAAATAATTTG
1 AATATTTATATATTTTG
24791 AGCTAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 12 0.35
22 16 0.47
23 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATATTTATATATTTTGTAATT
Found at i:24766 original size:22 final size:23
Alignment explanation
Indices: 24731--24781 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
24721 ATATTATTAA
24731 AATA-TTATATTATTTT-TAAATT
1 AATATTTATATTATTTTGT-AATT
24753 AATATTTATA-TATTTTGTAATT
1 AATATTTATATTATTTTGTAATT
24775 AA-ATTTA
1 AATATTTA
24782 AATAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.19
22 16 0.59
23 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATATTTATATTATTTTGTAATT
Found at i:24780 original size:21 final size:22
Alignment explanation
Indices: 24730--24790 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 22
24720 TATATTATTA
24730 AAATATTATATTATTTT-TAAATT
1 AAAT-TTATA-TATTTTGTAAATT
24753 AATATTTATATATTTTGT-AATT
1 AA-ATTTATATATTTTGTAAATT
* *
24775 AAATTTAAATAATTTG
1 AAATTTATATATTTTG
24791 AGCTAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.35
22 12 0.35
23 8 0.24
24 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
AAATTTATATATTTTGTAAATT
Found at i:25142 original size:16 final size:16
Alignment explanation
Indices: 25116--25166 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
25106 CAAAATAATA
25116 AAAATTTAATTAATT-TT
1 AAAA-TTAATT-ATTATT
25133 AAAATTAATTATTATT
1 AAAATTAATTATTATT
*
25149 -AAATTAAATTATAATT
1 AAAATT-AATTATTATT
25165 AA
1 AA
25167 TTTATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 8 0.27
16 17 0.57
17 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTAATTATTATT
Found at i:25179 original size:16 final size:16
Alignment explanation
Indices: 25134--25180 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
25124 ATTAATTTTA
*
25134 AAATT-AATTATTATT
1 AAATTAAATTATAATT
25149 AAATTAAATTATAATT
1 AAATTAAATTATAATT
* * *
25165 AATTTATATTTTAATT
1 AAATTAAATTATAATT
25181 TTGGAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTAAATTATAATT
Found at i:29104 original size:2 final size:2
Alignment explanation
Indices: 29097--29121 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29087 TAAATGTCAG
29097 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29122 AGTCATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30877 original size:2 final size:2
Alignment explanation
Indices: 30870--30895 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30860 TTAAAAGCAC
30870 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
30896 GATTTCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38790 original size:15 final size:15
Alignment explanation
Indices: 38770--38799 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38760 CTAATCCTAA
38770 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
38785 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
38800 TTTTCACCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAACC
Found at i:39867 original size:27 final size:27
Alignment explanation
Indices: 39816--40475 Score: 1023
Period size: 27 Copynumber: 24.1 Consensus size: 27
39806 TAGTACTGTG
*
39816 ACCCTTTTAAAGTCCACAACGCCGTGGC
1 ACCCTTTT-AAGTCCACAACTCCGTGGC
* *
39844 ACCCTTTTAAGTCTATAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
* *
39871 ATCTCTTTTAAGTCCACAACTCTGTGGC
1 A-CCCTTTTAAGTCCACAACTCCGTGGC
*
39899 ACCCTTTTAAAGTCCACAACTCCATGGC
1 ACCCTTTT-AAGTCCACAACTCCGTGGC
*
39927 ACCCTTTTTAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
39954 ACCCTTTTAAGTCCACAACTTCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
39981 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
40008 ACCCTTTTAAAGACCACAACTCCGTGGC
1 ACCCTTTT-AAGTCCACAACTCCGTGGC
40036 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
40063 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
40090 ACCCTTTTAAGTCCATAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
* *
40117 ATCTCTTTTAAGTCCACAACTCTGTGGC
1 A-CCCTTTTAAGTCCACAACTCCGTGGC
40145 ACCCTTTTAAAGTCCACAACTCCGTGGC
1 ACCCTTTT-AAGTCCACAACTCCGTGGC
* *
40173 ACCCTTTTTAGTCCACAACTCTGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
40200 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
40227 ACCCTTTTAAGACCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
40254 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
40281 ACCCTTTTAAGTCCATAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
* *
40308 ATCTCTTTTAAGTCCACAACTCTGTGGC
1 A-CCCTTTTAAGTCCACAACTCCGTGGC
40336 ACCCTTTTAAAGTCCACAACTCCGTGGC
1 ACCCTTTT-AAGTCCACAACTCCGTGGC
* *
40364 ACCCTTTTTAGTCCACAACTCTGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
40391 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
40418 ACCCTTTTAACTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
** * *
40445 GTCCTTTTAAATCCACAACTCTGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
40472 ACCC
1 ACCC
40476 ATTTCAAAGC
Statistics
Matches: 579, Mismatches: 46, Indels: 15
0.90 0.07 0.02
Matches are distributed among these distances:
27 397 0.69
28 182 0.31
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
ACCCTTTTAAGTCCACAACTCCGTGGC
Found at i:40127 original size:164 final size:163
Alignment explanation
Indices: 39816--40490 Score: 1032
Period size: 164 Copynumber: 4.1 Consensus size: 163
39806 TAGTACTGTG
* * * *
39816 ACCCTTTTAAAGTCCACAACGCCGTGGCACCCTTTTAAGTCTATAACTCCGTGGCATCTCTTTTA
1 ACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTA
* * *
39881 AGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTTAGTCCACAAC
65 AGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
39946 TCCGTGGCACCCTTTTAAGTCCACAACT-TCGTGGC
129 TCCGTGGCACCCTTTTAAGTCCACAACTCT-GTGGC
*
39981 ACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACCCTTTTA
1 ACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTA
*
40045 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACT
65 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACT
*
40110 CCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGC
130 CCGTGGCA-CCCTTTTAAGTCCACAACTCTGTGGC
* *
40145 ACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAA
1 ACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAA
*
40210 GTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
66 GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
* *
40275 CGTGGCACCCTTTTAAGTCCATAACTCCGTGGC
131 CGTGGCACCCTTTTAAGTCCACAACTCTGTGGC
* *
40308 ATCTCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
1 A-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT
* * *
40372 TAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAACTCCACAAC
64 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
** *
40437 TCCGTGGCGTCCTTTTAAATCCACAACTCTGTGGC
129 TCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGC
* *
40472 ACCCATTTCAAAGCCCACA
1 ACCC-TTTTAAAGTCCACA
40491 CAAGTCGGTG
Statistics
Matches: 468, Mismatches: 34, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
163 96 0.21
164 311 0.66
165 61 0.13
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (163 bp):
ACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAA
GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
CGTGGCACCCTTTTAAGTCCACAACTCTGTGGC
Found at i:40146 original size:191 final size:191
Alignment explanation
Indices: 39816--40475 Score: 1090
Period size: 191 Copynumber: 3.4 Consensus size: 191
39806 TAGTACTGTG
* * * *
39816 ACCCTTTTAAAGTCCACAACGCCGTGGCACCCTTTTAAGTCTATAACTCCGTGGCATCTCTTTTA
1 ACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTA
* * * * *
39881 AGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCATGGCA-CCCTTTTTAGTCCACAA
64 AGTCCACAACTCCGTGGCACCCTTTT-AAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAA
* * * *
39945 CTCCGTGGCACCCTTTT-AAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGC
128 CTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGC
*
40008 ACCCTTTTAAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAA
1 ACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAA
40073 GTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACT
65 GTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACT
40138 CTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGC
130 CTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGC
*
40200 ACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAG
1 ACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
40265 TCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTC
66 TCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTC
40330 TGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGC
131 TGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGC
* ** *
40391 ACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAACTCCACAACTCCGTGGCGTCCTTTTAAA
1 ACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
*
40456 TCCACAACTCTGTGGCACCC
66 TCCACAACTCCGTGGCACCC
40476 ATTTCAAAGC
Statistics
Matches: 444, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
190 18 0.04
191 323 0.73
192 103 0.23
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (191 bp):
ACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
TCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTC
TGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGC
Found at i:40516 original size:32 final size:32
Alignment explanation
Indices: 40458--40964 Score: 865
Period size: 32 Copynumber: 15.8 Consensus size: 32
40448 CTTTTAAATC
* *
40458 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
40489 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40521 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40553 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40585 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40617 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40649 CACAAGTCGGTGGCAACCCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
40682 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40714 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
40746 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
40778 CACAGGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
40810 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
40842 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
40874 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
40906 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
40938 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
40965 TCACCATTTT
Statistics
Matches: 455, Mismatches: 17, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
31 15 0.03
32 405 0.89
33 35 0.08
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:42231 original size:17 final size:17
Alignment explanation
Indices: 42211--42246 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
42201 AAGGAAGATG
* *
42211 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
42228 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
42245 AA
1 AA
42247 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:45148 original size:2 final size:2
Alignment explanation
Indices: 45141--45187 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
45131 TCTTCAAAGA
45141 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
45183 AT AT A
1 AT AT A
45188 CATTTCACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46410 original size:27 final size:27
Alignment explanation
Indices: 46380--46459 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
46370 AATAAAAATT
**
46380 AACCACTAAATTTGACAAACACAAAGG
1 AACCACTATTTTTGACAAACACAAAGG
*
46407 AACCACTATTTTTGACAAACACAAAAG
1 AACCACTATTTTTGACAAACACAAAGG
*
46434 AAACACTATTTTTGACAAACACAAAG
1 AACCACTATTTTTGACAAACACAAAG
46460 AGTGGCTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.20
Consensus pattern (27 bp):
AACCACTATTTTTGACAAACACAAAGG
Found at i:47091 original size:16 final size:16
Alignment explanation
Indices: 47070--47101 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47060 ACCTAACATC
47070 CATTGTATTAGGGATG
1 CATTGTATTAGGGATG
47086 CATTGTATTAGGGATG
1 CATTGTATTAGGGATG
47102 TATCGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
CATTGTATTAGGGATG
Found at i:50896 original size:27 final size:27
Alignment explanation
Indices: 50864--50942 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
50854 AAATAACAAG
*
50864 CCACCATTTTTGACAAACATAAAAGAA
1 CCACCATTTTTGACAAACACAAAAGAA
* *
50891 CTACCATTTTTTACAAACACAAAAGAA
1 CCACCATTTTTGACAAACACAAAAGAA
50918 CCACCATTTTTGACAAACACAAAAG
1 CCACCATTTTTGACAAACACAAAAG
50943 GTGGCTTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGACAAACACAAAAGAA
Found at i:51104 original size:12 final size:14
Alignment explanation
Indices: 51073--51102 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51063 AAAATTAATT
*
51073 ATATAAATATATAA
1 ATATCAATATATAA
51087 ATATCAATATATAA
1 ATATCAATATATAA
51101 AT
1 AT
51103 CATTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATCAATATATAA
Found at i:51374 original size:20 final size:21
Alignment explanation
Indices: 51339--51383 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
51329 CCTTTTTCAT
*
51339 ATTAATATTTAGATATTTTTA
1 ATTAATATTTAAATATTTTTA
*
51360 ATTAA-ATTTAAATATTTTTT
1 ATTAATATTTAAATATTTTTA
51380 ATTA
1 ATTA
51384 TTAAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTAATATTTAAATATTTTTA
Found at i:52390 original size:23 final size:23
Alignment explanation
Indices: 52368--52410 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
52358 CATATTTATA
52368 ATTAAAT-TTTAAATAATAATAT
1 ATTAAATATTTAAATAATAATAT
* *
52390 ATTAATTATTTAAATACTAAT
1 ATTAAATATTTAAATAATAAT
52411 CGAATTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAAATATTTAAATAATAATAT
Found at i:53398 original size:21 final size:21
Alignment explanation
Indices: 53374--53414 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53364 AGACAAATAG
* *
53374 TACTCCACAATAGGTGGAGTA
1 TACTCCAAAACAGGTGGAGTA
53395 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
53415 TTCAACAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTA
Found at i:54970 original size:13 final size:13
Alignment explanation
Indices: 54952--54976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54942 TTCAATGATT
54952 TGTATCGATACAA
1 TGTATCGATACAA
54965 TGTATCGATACA
1 TGTATCGATACA
54977 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:55115 original size:52 final size:52
Alignment explanation
Indices: 55078--55206 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
55068 CACTGATCTT
* *
55078 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
55130 TGTATCGATATATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
55182 TGTATCGATACATACAGGTAAATTT
1 TGTATCGATACATACAGGCAAATTT
55207 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:58104 original size:27 final size:27
Alignment explanation
Indices: 58073--58154 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58063 AGCCACAATT
* *
58073 TGTTTGTCAAAATTGGTGGTTACTTTG
1 TGTTTGTAAAAATTAGTGGTTACTTTG
* *
58100 TGTTTGTAAAAATTAGTGGCTT-TTTTT
1 TGTTTGTAAAAATTAGTGG-TTACTTTG
*
58127 TGTTTGTAAAAAATAGTGGTTACTTTG
1 TGTTTGTAAAAATTAGTGGTTACTTTG
58154 T
1 T
58155 TGAAAGCTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 42 0.91
28 2 0.04
ACGTcount: A:0.23, C:0.05, G:0.22, T:0.50
Consensus pattern (27 bp):
TGTTTGTAAAAATTAGTGGTTACTTTG
Found at i:58925 original size:13 final size:13
Alignment explanation
Indices: 58907--58932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58897 CAATTTTTTG
58907 TGTATCGATACAT
1 TGTATCGATACAT
58920 TGTATCGATACAT
1 TGTATCGATACAT
58933 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59671 original size:21 final size:21
Alignment explanation
Indices: 59630--59673 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59620 CTCCCCTTTA
* *
59630 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
59651 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
59672 TC
1 TC
59674 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:61493 original size:13 final size:13
Alignment explanation
Indices: 61475--61500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61465 ATAATCACCC
61475 TGTATCGATACAA
1 TGTATCGATACAA
61488 TGTATCGATACAA
1 TGTATCGATACAA
61501 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:63600 original size:15 final size:15
Alignment explanation
Indices: 63580--63610 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63570 ATTTCGTTTG
*
63580 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
63595 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
63610 G
1 G
63611 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:65462 original size:21 final size:21
Alignment explanation
Indices: 65415--65459 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
65405 AAGTTTTCAT
65415 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
65435 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
65457 TTT
1 TTT
65460 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:67695 original size:13 final size:13
Alignment explanation
Indices: 67677--67702 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67667 CAATTTTTTG
67677 TGTATCGATACAT
1 TGTATCGATACAT
67690 TGTATCGATACAT
1 TGTATCGATACAT
67703 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:68441 original size:21 final size:21
Alignment explanation
Indices: 68400--68443 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
68390 CTCCCCTTTA
* *
68400 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
68421 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
68442 TC
1 TC
68444 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:70263 original size:13 final size:13
Alignment explanation
Indices: 70245--70270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70235 ATAATCACCC
70245 TGTATCGATACAA
1 TGTATCGATACAA
70258 TGTATCGATACAA
1 TGTATCGATACAA
70271 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:71049 original size:16 final size:17
Alignment explanation
Indices: 71030--71074 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
71020 TTATTTAATA
71030 ATTAAAAATTT-TAAAT
1 ATTAAAAATTTATAAAT
*
71046 ATTAAATATTTATAAAT
1 ATTAAAAATTTATAAAT
71063 -TT-AAAATTTATA
1 ATTAAAAATTTATA
71075 TTTACATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 12 0.46
17 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAAATTTATAAAT
Found at i:71053 original size:24 final size:24
Alignment explanation
Indices: 71021--71069 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
71011 TATACTTATT
* *
71021 TATTTAATAATTAAAAATTTTAAA
1 TATTAAATAATTAAAAATTTAAAA
* *
71045 TATTAAATATTTATAAATTTAAAA
1 TATTAAATAATTAAAAATTTAAAA
71069 T
1 T
71070 TTATATTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTAAATAATTAAAAATTTAAAA
Found at i:71071 original size:15 final size:15
Alignment explanation
Indices: 71029--71074 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
71019 TTTATTTAAT
*
71029 AATTAAAAATTT-TA
1 AATTTAAAATTTATA
71043 AATATTAAATATTTATA
1 AAT-TTAAA-ATTTATA
71060 AATTTAAAATTTATA
1 AATTTAAAATTTATA
71075 TTTACATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 3 0.11
15 11 0.39
16 9 0.32
17 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTAAAATTTATA
Found at i:71173 original size:19 final size:20
Alignment explanation
Indices: 71141--71178 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
71131 AAAAGGTATT
71141 TAAAAAATATTGAT-AAATC
1 TAAAAAATATTGATGAAATC
71160 TAAAATAATA-TGATGAAAT
1 TAAAA-AATATTGATGAAAT
71179 ATACTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAAAATATTGATGAAATC
Found at i:72520 original size:3 final size:3
Alignment explanation
Indices: 72512--72556 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
72502 AAGTTTGGCA
72512 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72557 TAAAAAATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:72839 original size:17 final size:16
Alignment explanation
Indices: 72817--72869 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
72807 ATAATATTAA
72817 ATTAAATGTATATTTTT
1 ATTAAAT-TATATTTTT
* *
72834 ATTAAA-TATA-ATAT
1 ATTAAATTATATTTTT
72848 ATTAAATATATATTTTT
1 ATTAAAT-TATATTTTT
72865 ATTAA
1 ATTAA
72870 TAATTAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 4 0.14
17 13 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTAAATTATATTTTT
Found at i:73723 original size:24 final size:24
Alignment explanation
Indices: 73695--73740 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
73685 AATAAAAATT
73695 AGCCACCAA-TTTTGACAAACAACA
1 AGCCA-CAATTTTTGACAAACAACA
*
73719 AGCCATAATTTTTGACAAACAA
1 AGCCACAATTTTTGACAAACAA
73741 AAAAGGATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.22
Consensus pattern (24 bp):
AGCCACAATTTTTGACAAACAACA
Found at i:73752 original size:28 final size:28
Alignment explanation
Indices: 73721--73774 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
73711 AAACAACAAG
73721 CCATAATTTTTGACAAACAAAAAAGGAT
1 CCATAATTTTTGACAAACAAAAAAGGAT
* * *
73749 CCATCATTTTTGACAAATACAAAAGG
1 CCATAATTTTTGACAAACAAAAAAGG
73775 TGGTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (28 bp):
CCATAATTTTTGACAAACAAAAAAGGAT
Found at i:79332 original size:18 final size:18
Alignment explanation
Indices: 79311--79352 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
79301 TAATAATTTT
79311 ATTAAATCAATCAATTCA
1 ATTAAATCAATCAATTCA
* * *
79329 ATTAATTCAATCGATTGA
1 ATTAAATCAATCAATTCA
79347 ATTAAA
1 ATTAAA
79353 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (18 bp):
ATTAAATCAATCAATTCA
Found at i:81228 original size:2 final size:2
Alignment explanation
Indices: 81223--81266 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
81213 AAAACAACTA
81223 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
81265 AT
1 AT
81267 CTTACCTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83169 original size:3 final size:3
Alignment explanation
Indices: 83161--83213 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
83151 GATTTGTAAA
83161 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83209 -AT AAT
1 AAT AAT
83214 TTTAAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:83514 original size:22 final size:22
Alignment explanation
Indices: 83489--83534 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
83479 TTTTAAAAAT
*
83489 TATTTTTGT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
83511 TATTTTTATAATTAAATTTATA
1 TATTTTTATAATTAAATTTATA
83533 TA
1 TA
83535 AAATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:83541 original size:22 final size:23
Alignment explanation
Indices: 83498--83542 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
83488 TTATTTTTGT
***
83498 ATTAATATTTATATATTTTTATA
1 ATTAATATTTATATAAAATTATA
83521 ATTAA-ATTTATATAAAATTATA
1 ATTAATATTTATATAAAATTATA
83543 TTTTAGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTAATATTTATATAAAATTATA
Found at i:84882 original size:2 final size:2
Alignment explanation
Indices: 84875--84931 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
84865 GCATTTTCAA
* * * *
84875 AT AT AT AT AT AT AT AT AA AC AT AT AT AT AT AT AT AT AT AA AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84917 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
84932 AGGACTGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:84903 original size:22 final size:22
Alignment explanation
Indices: 84875--84931 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
84865 GCATTTTCAA
84875 ATATATATATATATATAAACAT
1 ATATATATATATATATAAACAT
84897 ATATATATATATATATAAACAT
1 ATATATATATATATATAAACAT
84919 ATATATATATATA
1 ATATATATATATA
84932 AGGACTGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATATATATATATATAAACAT
Found at i:85878 original size:28 final size:29
Alignment explanation
Indices: 85847--85907 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
85837 CATATATATG
85847 ATTAATA-ATATTAAATAATAAAATATAA
1 ATTAATACATATTAAATAATAAAATATAA
*
85875 ATT-ATACATATTAAATAATAAAATATAT
1 ATTAATACATATTAAATAATAAAATATAA
85903 ATTAA
1 ATTAA
85908 AATTATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 3 0.10
28 26 0.87
29 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
ATTAATACATATTAAATAATAAAATATAA
Found at i:85889 original size:21 final size:20
Alignment explanation
Indices: 85865--85910 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
85855 TATTAAATAA
85865 TAAAAT-ATAAATTATACATAT
1 TAAAATAATAAA--ATACATAT
*
85886 T-AAATAATAAAATATATAT
1 TAAAATAATAAAATACATAT
85905 TAAAAT
1 TAAAAT
85911 TATATCATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATAAAATACATAT
Found at i:88607 original size:26 final size:26
Alignment explanation
Indices: 88544--88612 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
88534 ATATTATTAA
* *
88544 AATA-TTAAATATTATT-TTTAAATT
1 AATATTTATATATTATTAATTAAATT
*
88568 AATATTTATATATTTTTAATTAAATTT
1 AATATTTATATATTATTAATTAAA-TT
88595 AAATATTT-T-TATTATTAA
1 -AATATTTATATATTATTAA
88613 ATAATAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 4 0.11
25 10 0.27
26 13 0.35
27 3 0.08
28 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
AATATTTATATATTATTAATTAAATT
Found at i:88611 original size:22 final size:22
Alignment explanation
Indices: 88535--88614 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 22
88525 CTTAGTTATA
88535 TATTATTAAAATATTAAATATTATT
1 TATTATT-AAAT-TTAAATATT-TT
*
88560 T-TTAAATTAATATTTATATATTTT
1 TATT--ATTAA-ATTTAAATATTTT
88584 TA--ATTAAATTTAAATATTTT
1 TATTATTAAATTTAAATATTTT
88604 TATTATTAAAT
1 TATTATTAAAT
88615 AATAATTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
20 14 0.30
21 5 0.11
22 7 0.15
24 5 0.11
25 11 0.23
26 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTAAATTTAAATATTTT
Found at i:88977 original size:16 final size:15
Alignment explanation
Indices: 88956--89005 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
88946 TAATAAAAAT
*
88956 TTAATTAATTTTTAAA
1 TTAATT-ATTATTAAA
88972 TTAATTATTATTAAA
1 TTAATTATTATTAAA
*
88987 TTAAATTATAATTAAA
1 TT-AATTATTATTAAA
89003 TTA
1 TTA
89006 TATTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATTATTATTAAA
Found at i:89014 original size:16 final size:15
Alignment explanation
Indices: 88967--89015 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
88957 TAATTAATTT
88967 TTAAATTAATTATT-A
1 TTAAATTAATT-TTAA
*
88982 TTAAATTAAATTATAA
1 TTAAATT-AATTTTAA
88998 TTAAATTATATTTTAA
1 TTAAATTA-ATTTTAA
89014 TT
1 TT
89016 CTAGTATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATTAATTTTAA
Found at i:97013 original size:2 final size:2
Alignment explanation
Indices: 97008--97038 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96998 ATGTGTGGCG
97008 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
97039 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:97373 original size:11 final size:11
Alignment explanation
Indices: 97357--97391 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
97347 TATAGGATTG
97357 TATAAATATAA
1 TATAAATATAA
*
97368 TATAAAAATAA
1 TATAAATATAA
*
97379 TAAAAATATAA
1 TATAAATATAA
97390 TA
1 TA
97392 ATATATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TATAAATATAA
Found at i:97386 original size:17 final size:18
Alignment explanation
Indices: 97366--97400 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97356 GTATAAATAT
97366 AATATAAAAATA-ATAAA
1 AATATAAAAATATATAAA
*
97383 AATATAATAATATATAAA
1 AATATAAAAATATATAAA
97401 TATTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAAAAATATATAAA
Found at i:97466 original size:20 final size:21
Alignment explanation
Indices: 97416--97482 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 21
97406 CAAAATTTAT
97416 ATAATTTGAATTATAAATATAATA
1 ATAATTT-AA-TATAAATATAA-A
97440 A-AATTT-ATATAAATATAAA
1 ATAATTTAATATAAATATAAA
* *
97459 ATATTTTAAATATAATTATAAA
1 ATAATTT-AATATAAATATAAA
97481 AT
1 AT
97483 CTTAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 1 0.03
22 14 0.37
23 5 0.13
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATTTAATATAAATATAAA
Found at i:97492 original size:21 final size:22
Alignment explanation
Indices: 97446--97493 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
97436 AATAAAATTT
* *
97446 ATATAAATATAAAATATTTTAA
1 ATATAAATATAAAATACTTAAA
*
97468 ATATAATTATAAAAT-CTTAAA
1 ATATAAATATAAAATACTTAAA
97489 ATATA
1 ATATA
97494 TGATAAGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAATATAAAATACTTAAA
Found at i:97840 original size:21 final size:22
Alignment explanation
Indices: 97803--97846 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
97793 TTTTTATTAG
*
97803 ATCAATTCGAAATTAAAT-TTT
1 ATCAATTCGAAAGTAAATATTT
97824 ATCAATTC-ATAAGTAAATATTT
1 ATCAATTCGA-AAGTAAATATTT
97846 A
1 A
97847 CGTTAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 15 0.75
22 4 0.20
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (22 bp):
ATCAATTCGAAAGTAAATATTT
Found at i:102271 original size:17 final size:18
Alignment explanation
Indices: 102246--102281 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
102236 TTGCCATCAA
*
102246 AGGAGAAAAAGA-AAAAG
1 AGGAAAAAAAGAGAAAAG
102263 AGGAAAAAAAGAGAAAAG
1 AGGAAAAAAAGAGAAAAG
102281 A
1 A
102282 AAGACCGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AGGAAAAAAAGAGAAAAG
Done.