Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold145
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: 2608604
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 28749 characters in sequence are not A, C, G, or T
File 11 of 15
Found at i:1929928 original size:13 final size:13
Alignment explanation
Indices: 1929902--1929940 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1929892 ATATTTATAT
1929902 TTAAATAT--ATA
1 TTAAATATAAATA
1929913 TTAAATATAAATA
1 TTAAATATAAATA
*
1929926 TTAAACATAAATA
1 TTAAATATAAATA
1929939 TT
1 TT
1929941 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
13 17 0.68
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:1929959 original size:16 final size:17
Alignment explanation
Indices: 1929938--1929969 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1929928 AAACATAAAT
1929938 ATTT-AAAAAATAAAAA
1 ATTTAAAAAAATAAAAA
1929954 ATTTAAAAAAATAAAA
1 ATTTAAAAAAATAAAA
1929970 TTAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
ATTTAAAAAAATAAAAA
Found at i:1930616 original size:2 final size:2
Alignment explanation
Indices: 1930609--1930641 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1930599 AACAACGAGC
1930609 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1930642 AAAAACCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1931056 original size:21 final size:21
Alignment explanation
Indices: 1931018--1931060 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1931008 TAAAATATAT
*
1931018 ATTTTTAAGTATTAATTTTAA
1 ATTTTTAAATATTAATTTTAA
1931039 ATTTATTAAATATT-ATTTTAA
1 ATTT-TTAAATATTAATTTTAA
1931060 A
1 A
1931061 AAAATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTAAATATTAATTTTAA
Found at i:1931327 original size:22 final size:20
Alignment explanation
Indices: 1931288--1931332 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
1931278 TTTTAAAAAT
*
1931288 TATTTTTATTAATATTTATA
1 TATTTTTATTAATATTTAAA
*
1931308 TATTTTTATTATAATCTTTAAA
1 TATTTTTA-T-TAATATTTAAA
1931330 TAT
1 TAT
1931333 CTACCACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTATTAATATTTAAA
Found at i:1931771 original size:19 final size:20
Alignment explanation
Indices: 1931732--1931775 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
1931722 AATCAAATAT
1931732 TTATAATTTTTTTATTTTTAAA
1 TTATAATTTTTTTA--TTTAAA
*
1931754 TTATAATTTTTTTATTAAAA
1 TTATAATTTTTTTATTTAAA
1931774 TT
1 TT
1931776 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATAATTTTTTTATTTAAA
Found at i:1933035 original size:2 final size:2
Alignment explanation
Indices: 1933028--1933056 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1933018 TGATTAATGA
1933028 AT AT 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 AT AT A
1933057 AGTTTGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1933811 original size:14 final size:14
Alignment explanation
Indices: 1933776--1933834 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
1933766 TTAATAATTA
1933776 AATTTAAATTAAAAAT
1 AATTTAAATT--AAAT
* *
1933792 ATTTTATATTAAAT
1 AATTTAAATTAAAT
1933806 AATTTAAATTAAAT
1 AATTTAAATTAAAT
* *
1933820 CAAATTAATTTAAAT
1 -AATTTAAATTAAAT
1933835 TAATAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.44
15 12 0.33
16 8 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTTAAATTAAAT
Found at i:1933838 original size:10 final size:10
Alignment explanation
Indices: 1933800--1933838 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1933790 ATATTTTATA
1933800 TTAAA-TAAT
1 TTAAATTAAT
*
1933809 TTAAATTAAA
1 TTAAATTAAT
*
1933819 TCAAATTAAT
1 TTAAATTAAT
1933829 TTAAATTAAT
1 TTAAATTAAT
1933839 AAAATTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:1933844 original size:15 final size:15
Alignment explanation
Indices: 1933770--1933846 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 15
1933760 TTAATATTAA
*
1933770 TAATTAAATTTAAAT
1 TAATAAAATTTAAAT
*
1933785 TAA-AAATATTTTATAT
1 TAATAAA-A-TTTAAAT
*
1933801 TAA-ATAATTTAAAT
1 TAATAAAATTTAAAT
1933815 TAAATCAAATTAATTTAAAT
1 T-AAT--AA--AATTTAAAT
1933835 TAATAAAATTTA
1 TAATAAAATTTA
1933847 TATCTAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
14 9 0.18
15 13 0.27
16 11 0.22
17 2 0.04
18 1 0.02
19 3 0.06
20 10 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAAAATTTAAAT
Found at i:1933845 original size:35 final size:31
Alignment explanation
Indices: 1933770--1933855 Score: 75
Period size: 34 Copynumber: 2.6 Consensus size: 31
1933760 TTAATATTAA
* * *
1933770 TAATTAAATTTAAATTAAAAATATTTTATAT
1 TAATAAAATTTAAATTAAAAATAATTTAAAT
*
1933801 TAA-ATAATTTAAATTAAATCAAATTAATTTAAAT
1 TAATAAAATTTAAATT-AA--AAA-TAATTTAAAT
*
1933835 TAATAAAATTTATATCTAAAA
1 TAATAAAATTTAAAT-TAAAA
1933856 CTTGACATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
30 10 0.23
31 5 0.12
33 5 0.12
34 11 0.26
35 11 0.26
36 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATAAAATTTAAATTAAAAATAATTTAAAT
Found at i:1934821 original size:26 final size:26
Alignment explanation
Indices: 1934772--1934867 Score: 72
Period size: 26 Copynumber: 3.6 Consensus size: 26
1934762 TCAAACACAT
*
1934772 TATAATTATATAATTTATGATAAAAATAA
1 TATAA-TATATAATATAT--TAAAAATAA
* *
1934801 TATAATATATAATATATT-AAATTTA
1 TATAATATATAATATATTAAAAATAA
* * *
1934826 TATAAATATATAATATTTTATATATAA
1 TAT-AATATATAATATATTAAAAATAA
1934853 TTATAATA-A-AATATA
1 -TATAATATATAATATA
1934868 AATTATTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
25 13 0.24
26 16 0.29
27 7 0.13
28 14 0.25
29 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (26 bp):
TATAATATATAATATATTAAAAATAA
Found at i:1934848 original size:31 final size:32
Alignment explanation
Indices: 1934797--1934876 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 32
1934787 TATGATAAAA
1934797 ATAATATAATATATAATA-TATTA-A-AT--TT
1 ATAATA-AATATATAATATTATTATATATAATT
1934825 AT-ATAAATATATAATATT-TTATATATAATT
1 ATAATAAATATATAATATTATTATATATAATT
1934855 ATAATAAA-ATATAA-ATTATTAT
1 ATAATAAATATATAATATTATTAT
1934877 CTATTGAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
26 14 0.31
27 5 0.11
28 4 0.09
29 3 0.07
30 14 0.31
31 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATAAATATATAATATTATTATATATAATT
Found at i:1935842 original size:19 final size:19
Alignment explanation
Indices: 1935786--1935842 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 19
1935776 TTTAAAATAA
*
1935786 ATTAATTTAA-AATTTTAT
1 ATTAATTTAATATTTTTAT
* *
1935804 -TTTATTT-TTATTATTT-T
1 ATTAATTTAATATT-TTTAT
1935821 ATTAATTTAATATTTTTAT
1 ATTAATTTAATATTTTTAT
1935840 ATT
1 ATT
1935843 TTTTATAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 9
0.67 0.12 0.21
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTAATTTAATATTTTTAT
Found at i:1935882 original size:17 final size:18
Alignment explanation
Indices: 1935851--1935885 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1935841 TTTTTTATAA
1935851 TTAAATTTAAATAAAATT
1 TTAAATTTAAATAAAATT
1935869 TTAAATTT-AATAAAATT
1 TTAAATTTAAATAAAATT
1935886 ATTTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAATTTAAATAAAATT
Found at i:1935904 original size:20 final size:20
Alignment explanation
Indices: 1935866--1935902 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1935856 TTTAAATAAA
*
1935866 ATTTTAAATTTAATAAAATT
1 ATTTTAAATATAATAAAATT
1935886 ATTTTAAATAT-ATAAAA
1 ATTTTAAATATAATAAAA
1935903 ATAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAAATATAATAAAATT
Found at i:1936158 original size:22 final size:23
Alignment explanation
Indices: 1936125--1936177 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
1936115 TATATAAATT
*
1936125 TTAATATATTAATA-A-TTTATA
1 TTAATATTTTAATATATTTTATA
1936146 TTATATATTTTAATATATTTTATA
1 TTA-ATATTTTAATATATTTTATA
1936170 TTAATATT
1 TTAATATT
1936178 ATTTTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.11
22 10 0.36
23 6 0.21
24 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAATATTTTAATATATTTTATA
Found at i:1936158 original size:30 final size:32
Alignment explanation
Indices: 1936105--1936164 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
1936095 TATTATATTT
1936105 TAATTTATTATATATAAATTTTAATATATTAA
1 TAATTTATTATATATAAATTTTAATATATTAA
*
1936137 TAATTTA-TAT-TATATATTTTAATATATT
1 TAATTTATTATATATAAATTTTAATATATT
1936165 TTATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 17 0.63
31 3 0.11
32 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TAATTTATTATATATAAATTTTAATATATTAA
Found at i:1936161 original size:15 final size:14
Alignment explanation
Indices: 1936129--1936215 Score: 53
Period size: 13 Copynumber: 6.4 Consensus size: 14
1936119 TAAATTTTAA
*
1936129 TATATTA-ATAATT
1 TATATTATATATTT
1936142 TATATTATATA-TT
1 TATATTATATATTT
1936155 T-TA--ATATATTT
1 TATATTATATATTT
1936166 TATATTAATATTATTTTT
1 TATATT-ATA-TA--TTT
1936184 TATATTATA-ATTT
1 TATATTATATATTT
* * *
1936197 TTTATT-TTTATAT
1 TATATTATATATTT
1936210 TATATT
1 TATATT
1936216 TAAAATAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
10 5 0.08
11 3 0.05
12 5 0.08
13 26 0.43
14 3 0.05
15 4 0.07
16 2 0.03
17 3 0.05
18 9 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATTATATATTT
Found at i:1936164 original size:17 final size:17
Alignment explanation
Indices: 1936083--1936171 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
1936073 TATAATTATT
*
1936083 TTTTTATATCATTATTATA
1 TTTTAATAT-ATTA-TATA
*
1936102 TTTTAATTTATTATATATAAA
1 TTTTAA--TA-TAT-TATATA
1936123 TTTTAATATATTA-ATA
1 TTTTAATATATTATATA
*
1936139 -ATT--TATATTATATA
1 TTTTAATATATTATATA
*
1936153 TTTTAATATATTTTATA
1 TTTTAATATATTATATA
1936170 TT
1 TT
1936172 AATATTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
13 7 0.12
14 3 0.05
15 4 0.07
16 2 0.04
17 14 0.25
18 3 0.05
19 7 0.12
21 13 0.23
22 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAATATATTATATA
Found at i:1936177 original size:30 final size:30
Alignment explanation
Indices: 1936098--1936179 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
1936088 ATATCATTAT
*
1936098 TATATTTTA-ATTTATTATATATAAATTTTAA
1 TATATTTTATA-TTAATAT-TATAAATTTTAA
* * *
1936129 TATA-TTAATAATTTATATTATATATTTTAA
1 TATATTTTAT-ATTAATATTATAAATTTTAA
1936159 TATATTTTATATTAATATTAT
1 TATATTTTATATTAATATTAT
1936180 TTTTTATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 28 0.67
31 13 0.31
32 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TATATTTTATATTAATATTATAAATTTTAA
Found at i:1937727 original size:19 final size:19
Alignment explanation
Indices: 1937678--1937728 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
1937668 TTTTTAATTA
* *
1937678 AATTTAAATAATAATTATT
1 AATTTAAATAATAAATAAT
* **
1937697 ATTTTATTTAATAAATAAT
1 AATTTAAATAATAAATAAT
1937716 AATTTAAATAATA
1 AATTTAAATAATA
1937729 TTAAAATATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTAAATAATAAATAAT
Found at i:1939400 original size:23 final size:22
Alignment explanation
Indices: 1939373--1939416 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1939363 AGATAAAATC
1939373 ATATTTAAATAATAAATTTAAAA
1 ATATTTAAATAAT-AATTTAAAA
* *
1939396 ATATTTTAATCATAATTTAAA
1 ATATTTAAATAATAATTTAAA
1939417 CCTGACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTTAAATAATAATTTAAAA
Found at i:1940042 original size:22 final size:22
Alignment explanation
Indices: 1940017--1940073 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
1940007 TAGGTCATTA
*
1940017 TTATTTATTAAATTTTAATATT
1 TTATTTATTAAATTTAAATATT
* **
1940039 TTA-TAATATAAAAATAAATATT
1 TTATTTAT-TAAATTTAAATATT
1940061 TTATTT-TTAAATT
1 TTATTTATTAAATT
1940074 AATAAAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 5
0.68 0.18 0.13
Matches are distributed among these distances:
21 7 0.27
22 18 0.69
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTTATTAAATTTAAATATT
Found at i:1940683 original size:41 final size:40
Alignment explanation
Indices: 1940638--1940729 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 40
1940628 ATATTATTAT
*
1940638 TTAAAATAATATTAAAAATAT-TTTTA-T-ATTAATATTTATAA
1 TTAAAATAA-A-TAAAAATATATTTTATTAATTAA-A-TAATAA
*
1940679 TTAAATCTAAATAAAAATATATTTTATTAATTAAATAATAA
1 TTAAA-ATAAATAAAAATATATTTTATTAATTAAATAATAA
1940720 TTAAAATAAA
1 TTAAAATAAA
1940730 CTTAAACCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
40 13 0.30
41 21 0.48
42 5 0.11
43 5 0.11
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (40 bp):
TTAAAATAAATAAAAATATATTTTATTAATTAAATAATAA
Found at i:1944520 original size:2 final size:2
Alignment explanation
Indices: 1944513--1944546 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1944503 CCCAAAATTT
1944513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1944547 GTAAACAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1951976 original size:37 final size:33
Alignment explanation
Indices: 1951935--1952017 Score: 87
Period size: 37 Copynumber: 2.3 Consensus size: 33
1951925 AAAATTAAAA
*
1951935 ATAAATATATTTAATT-ATATAATTAAAAAATTATGAT
1 ATAAATATATATAATTAATAT-ATT--AAAATT-T-AT
1951972 ATAAATATTAATATAATTAATATATTAAAATTTAT
1 ATAAATA-T-ATATAATTAATATATTAAAATTTAT
1952007 ATAAATATATA
1 ATAAATATATA
1952018 ATATTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
33 3 0.07
34 1 0.02
35 9 0.21
36 1 0.02
37 13 0.31
38 1 0.02
39 10 0.24
40 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (33 bp):
ATAAATATATATAATTAATATATTAAAATTTAT
Found at i:1952120 original size:22 final size:22
Alignment explanation
Indices: 1952095--1952137 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1952085 TGTACTTTCA
1952095 TATTATGA-AATAAGAAAAATTT
1 TATTATGATAATAA-AAAAATTT
* *
1952117 TATTTTGATAATTAAAAAATT
1 TATTATGATAATAAAAAAATT
1952138 ATTTGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
TATTATGATAATAAAAAAATTT
Found at i:1952503 original size:18 final size:19
Alignment explanation
Indices: 1952473--1952525 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1952463 ATATCTAATT
* *
1952473 TTTTACTTAAAAAA-TTAAG
1 TTTTAC-TAAAAAACTCAAC
*
1952492 TTTTACTAAAAAACTCATC
1 TTTTACTAAAAAACTCAAC
1952511 TTTTACTAAAAAACT
1 TTTTACTAAAAAACT
1952526 TTGCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 7 0.23
19 23 0.77
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTTACTAAAAAACTCAAC
Found at i:1953263 original size:2 final size:2
Alignment explanation
Indices: 1953256--1953282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1953246 CGTAATAAAG
1953256 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1953283 TAGATCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1954101 original size:2 final size:2
Alignment explanation
Indices: 1954096--1954122 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1954086 ATATGAAAAC
1954096 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1954123 TTGTTTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1954457 original size:20 final size:20
Alignment explanation
Indices: 1954423--1954465 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1954413 ATTATTTTTA
1954423 TTAAAATATTATAATTAT-T
1 TTAAAATATTATAATTATAT
*
1954442 TTAAAATTTATATAATTATAT
1 TTAAAATAT-TATAATTATAT
1954463 TTA
1 TTA
1954466 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATATTATAATTATAT
Found at i:1956966 original size:33 final size:33
Alignment explanation
Indices: 1956922--1956984 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1956912 TTTCAAAACT
* *
1956922 TTTTATAAAAATTAATTTAATAAAATATTTAAAA
1 TTTTATAAAAATCAAATTAA-AAAATATTTAAAA
*
1956956 TTTTA-AAAAATCAAATTAAGAAATATTTA
1 TTTTATAAAAATCAAATTAAAAAATATTTA
1956985 TGGGATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 9 0.35
33 12 0.46
34 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (33 bp):
TTTTATAAAAATCAAATTAAAAAATATTTAAAA
Found at i:1957624 original size:21 final size:21
Alignment explanation
Indices: 1957585--1957650 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
1957575 TTTGAATTAT
1957585 TATTTATTTAATA-AAAATAA
1 TATTTATTTAATATAAAATAA
1957605 T-TTTATTTAATTATAAAAT-A
1 TATTTATTTAA-TATAAAATAA
*
1957625 TATTAATTTAATATAAAATAA
1 TATTTATTTAATATAAAATAA
1957646 TATTT
1 TATTT
1957651 TAATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.22
20 13 0.32
21 18 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTATTTAATATAAAATAA
Found at i:1958609 original size:25 final size:27
Alignment explanation
Indices: 1958564--1958619 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
1958554 TCAGTTGAAT
*
1958564 AAATAGTATATATAATTATC-ATCAAA
1 AAATAGTATATATAATAATCAATCAAA
*
1958590 AAATA-TATATATTAA-AATCAATCATA
1 AAATAGTATATA-TAATAATCAATCAAA
1958616 AAAT
1 AAAT
1958620 TTAATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (27 bp):
AAATAGTATATATAATAATCAATCAAA
Found at i:1958810 original size:11 final size:10
Alignment explanation
Indices: 1958790--1958858 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 10
1958780 TTAAATAATT
1958790 TATATATTTA
1 TATATATTTA
1958800 TATAGTATTTA
1 TATA-TATTTA
1958811 TATAT-TTTA
1 TATATATTTA
1958820 T-TATA-TTA
1 TATATATTTA
1958828 TAATTATATTT-
1 T-A-TATATTTA
*
1958839 TAAATATTT-
1 TATATATTTA
1958848 TA-A-ATTTA
1 TATATATTTA
1958856 TAT
1 TAT
1958859 TAATTTTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
7 4 0.08
8 10 0.20
9 13 0.26
10 6 0.12
11 15 0.30
12 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (10 bp):
TATATATTTA
Found at i:1958819 original size:28 final size:28
Alignment explanation
Indices: 1958778--1958867 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
1958768 CAATCAATCT
*
1958778 TTTTAAATAATTTATATATTTATATAGTA
1 TTTTAAATATTTTATATATTTATATA-TA
*
1958807 -TTTATATATTTTAT-TATATTATAATTATA
1 TTTTAAATATTTTATATAT-TTAT-A-TATA
1958836 TTTTAAATATTTTA-A-ATTTATAT-TAA
1 TTTTAAATATTTTATATATTTATATAT-A
1958862 TTTTAA
1 TTTTAA
1958868 TAAATTAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
25 1 0.02
26 8 0.15
27 4 0.08
28 20 0.38
29 5 0.10
30 14 0.27
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTTAAATATTTTATATATTTATATATA
Found at i:1958853 original size:21 final size:22
Alignment explanation
Indices: 1958784--1958886 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 22
1958774 ATCTTTTTAA
*
1958784 ATAATTTATATATTT-ATATAGT
1 ATAATTTATAT-TTTAATATATT
*
1958806 AT--TTATATATTTTATTATATT
1 ATAATT-TATATTTTAATATATT
1958827 ATAA-TTATATTTTAA-ATATT
1 ATAATTTATATTTTAATATATT
* *
1958847 TTAAATTTATATTAATTTTAATAAATT
1 AT-AA-TT-TA-T-ATTTTAATATATT
1958874 AATAATTTATATT
1 -ATAATTTATATT
1958887 ATATGAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
20 11 0.17
21 23 0.37
22 3 0.05
23 4 0.06
24 3 0.05
25 3 0.05
26 9 0.14
27 6 0.10
28 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
ATAATTTATATTTTAATATATT
Found at i:1963135 original size:5 final size:5
Alignment explanation
Indices: 1963125--1963184 Score: 75
Period size: 5 Copynumber: 11.6 Consensus size: 5
1963115 AAAATATTCA
* * *
1963125 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TTTTT TAATAT CATATT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT TATA-T
1963177 TATAT TAT
1 TATAT TAT
1963185 TATGTTTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 41 0.87
6 6 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:1963192 original size:26 final size:26
Alignment explanation
Indices: 1963125--1963205 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
1963115 AAAATATTCA
* *
1963125 TATATTATATTAT-ATT-ATATTATAT
1 TATATTATA-TATGTTTAATATCATAT
* *
1963150 TATATTATATTTTTTTAATATCATATT
1 TATATTATATATGTTTAATATCATA-T
1963177 TATATTAT-TATGTTTAATAT--TAT
1 TATATTATATATGTTTAATATCATAT
1963200 TATATT
1 TATATT
1963206 TTTTAAGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 7 0.15
24 4 0.08
25 11 0.23
26 17 0.35
27 9 0.19
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (26 bp):
TATATTATATATGTTTAATATCATAT
Found at i:1963197 original size:12 final size:12
Alignment explanation
Indices: 1963126--1963199 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 12
1963116 AAATATTCAT
1963126 ATATTATA-TT-
1 ATATTATATTTA
1963136 ATATTATA-TT-
1 ATATTATATTTA
1963146 ATATTATA-TT-
1 ATATTATATTTA
*
1963156 ATATT-TTTTTA
1 ATATTATATTTA
*
1963167 ATATCATATTTA
1 ATATTATATTTA
*
1963179 TATTATTATGTTTA
1 -A-TATTATATTTA
1963193 ATATTAT
1 ATATTAT
1963200 TATATTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
9 1 0.02
10 27 0.50
11 4 0.07
12 11 0.20
13 2 0.04
14 9 0.17
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (12 bp):
ATATTATATTTA
Found at i:1964531 original size:2 final size:2
Alignment explanation
Indices: 1964524--1964559 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1964514 GTATCAAATC
1964524 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
1964560 TCTCTTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1964911 original size:2 final size:2
Alignment explanation
Indices: 1964904--1964937 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1964894 AGATTTAAGG
1964904 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
1964938 TTAAGGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1970834 original size:24 final size:25
Alignment explanation
Indices: 1970807--1970859 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
1970797 TATTTAAATT
1970807 TAATTATAAATATTAATATAAA-AA
1 TAATTATAAATATTAATATAAATAA
* * * *
1970831 TAATTTTTAATATTATTTTAAATAA
1 TAATTATAAATATTAATATAAATAA
1970856 TAAT
1 TAAT
1970860 ATGAGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATTATAAATATTAATATAAATAA
Found at i:1972127 original size:17 final size:18
Alignment explanation
Indices: 1972059--1972135 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
1972049 TAATATATTT
*
1972059 TTAAAATTTAAATTT-TA
1 TTAAAATTTAAATTTAAA
1972076 TTAAAATTT--ATTTAAA
1 TTAAAATTTAAATTTAAA
*
1972092 TAAAAAATTTAAAATTTTAAA
1 T-TAAAATTT-AAA-TTTAAA
*
1972113 TTAAAATTT-AATTTAAT
1 TTAAAATTTAAATTTAAA
1972130 TTAAAA
1 TTAAAA
1972136 ATAAATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.08
16 2 0.04
17 27 0.54
18 2 0.04
20 8 0.16
21 7 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATTTAAATTTAAA
Found at i:1972149 original size:38 final size:36
Alignment explanation
Indices: 1972061--1972151 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 36
1972051 ATATATTTTT
*
1972061 AAAATTTAAATTTT--ATTAAAATTTATTTAAATAA
1 AAAATTAAAATTTTAAATTAAAATTTATTTAAATAA
* *
1972095 AAAATTTAAAATTTTAAATTAAAATTTAATTTAATTTA
1 AAAA-TTAAAATTTTAAATTAAAATTT-ATTTAAATAA
1972133 AAAA-TAAATATATTTAAAT
1 AAAATTAAA-AT-TTTAAAT
1972152 CTATGAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
34 4 0.08
35 9 0.19
36 4 0.08
37 12 0.25
38 19 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AAAATTAAAATTTTAAATTAAAATTTATTTAAATAA
Found at i:1972784 original size:21 final size:21
Alignment explanation
Indices: 1972753--1972802 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1972743 TATTTACTCA
1972753 AATTAAATTTAAAGTATAAATC
1 AATT-AATTTAAAGTATAAATC
*
1972775 AATTAATTTAAAGTATCAATC
1 AATTAATTTAAAGTATAAATC
1972796 AA-TAATT
1 AATTAATT
1972803 AATAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (21 bp):
AATTAATTTAAAGTATAAATC
Found at i:1973334 original size:5 final size:5
Alignment explanation
Indices: 1973315--1973382 Score: 75
Period size: 5 Copynumber: 13.4 Consensus size: 5
1973305 AATAATTTGG
* * *
1973315 AATAT AATAAA AATAT AATAT AATAT AATAT AATAT AAAAAT AATAT ATTAT
1 AATAT AAT-AT AATAT AATAT AATAT AATAT AATAT -AATAT AATAT AATAT
*
1973367 AA-AT TATAT AATAT AA
1 AATAT AATAT AATAT AA
1973383 ATTATAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
4 3 0.06
5 41 0.79
6 8 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:1973339 original size:21 final size:21
Alignment explanation
Indices: 1973315--1973398 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
1973305 AATAATTTGG
1973315 AATATAATAAAAATATAATAT
1 AATATAATAAAAATATAATAT
* *
1973336 AATATAAT-ATAATATAAAAAT
1 AATATAATAAAAATAT-AATAT
*
1973357 AATATATTATAAATTATATAATAT
1 AATATA--ATAAA-AATATAATAT
*
1973381 AA-ATTATAAAAAATATAA
1 AATATAAT-AAAAATATAA
1973399 AAATAATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
20 6 0.12
21 26 0.52
22 3 0.06
23 4 0.08
24 7 0.14
25 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATAATAAAAATATAATAT
Found at i:1973344 original size:26 final size:26
Alignment explanation
Indices: 1973315--1973405 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
1973305 AATAATTTGG
1973315 AATATAATA-AAAATATAATATAATAT
1 AATATAATATAAAA-ATAATATAATAT
*
1973341 AATATAATATAAAAATAATATATTAT
1 AATATAATATAAAAATAATATAATAT
* *
1973367 AA-ATTATAT-AATATAA-AT--TAT
1 AATATAATATAAAAATAATATAATAT
*
1973388 AA-AAAATATAAAAATAAT
1 AATATAATATAAAAATAAT
1973406 TTTATTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
21 10 0.18
22 6 0.11
23 2 0.04
24 6 0.11
25 6 0.11
26 22 0.39
27 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATAATATAAAAATAATATAATAT
Found at i:1973352 original size:28 final size:30
Alignment explanation
Indices: 1973315--1973383 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
1973305 AATAATTTGG
*
1973315 AATATAATAAA-AATATAATATAATATAATAT
1 AATATAA-AAATAATATATTATAA-ATAATAT
*
1973346 AATATAAAAATAATATATTATAAATTATAT
1 AATATAAAAATAATATATTATAAATAATAT
1973376 AATATAAA
1 AATATAAA
1973384 TTATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AATATAAAAATAATATATTATAAATAATAT
Found at i:1973375 original size:14 final size:14
Alignment explanation
Indices: 1973316--1973388 Score: 71
Period size: 14 Copynumber: 5.2 Consensus size: 14
1973306 ATAATTTGGA
1973316 ATATAATA-AAA--
1 ATATAATATAAATT
*
1973327 ATATAATATAATATA
1 ATATAATATAA-ATT
*
1973342 ATATAATATAAAAATA
1 ATATAATAT--AAATT
*
1973358 ATATATTATAAATT
1 ATATAATATAAATT
1973372 ATATAATATAAATT
1 ATATAATATAAATT
1973386 ATA
1 ATA
1973389 AAAAATATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 1 0.02
14 20 0.38
15 9 0.17
16 11 0.21
17 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATAATATAAATT
Found at i:1973406 original size:21 final size:21
Alignment explanation
Indices: 1973323--1973406 Score: 64
Period size: 23 Copynumber: 3.9 Consensus size: 21
1973313 GGAATATAAT
*
1973323 AAAAATAT-AATATAA-TATA
1 AAAAATATAAAAATAATTATA
*
1973342 ATATAATATAAAAATAATATATTA
1 A-AAAATATAAAAATAAT-TA-TA
* * *
1973366 TAAATTATATAATATAAATTATA
1 AAAAATATA-AAAAT-AATTATA
1973389 AAAAATATAAAAATAATT
1 AAAAATATAAAAATAATT
1973407 TTATTAAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 1 0.02
20 6 0.12
21 10 0.20
22 4 0.08
23 17 0.35
24 8 0.16
25 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATATAAAAATAATTATA
Found at i:1973415 original size:21 final size:20
Alignment explanation
Indices: 1973346--1973416 Score: 52
Period size: 24 Copynumber: 3.2 Consensus size: 20
1973336 AATATAATAT
1973346 AATATAAAAATAATATATTATA
1 AATATAAAAATAAT-T-TTATA
* * *
1973368 AATTATATAATATAAATTATAAAA
1 AA-TATA-AAAAT-AATT-TTATA
1973392 AATATAAAAATAATTTTATTA
1 AATATAAAAATAATTTTA-TA
1973413 AATA
1 AATA
1973417 AGATATATCT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 2 0.05
21 9 0.23
22 6 0.15
23 8 0.21
24 11 0.28
25 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAAAAATAATTTTATA
Found at i:1973597 original size:4 final size:4
Alignment explanation
Indices: 1973588--1973618 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
1973578 CTCTCCATCA
1973588 ATTT ATTT ATTT ATTT ATTT ATTT A-TT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1973619 TAATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:1979391 original size:20 final size:19
Alignment explanation
Indices: 1979368--1979413 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
1979358 AATTGATATT
* *
1979368 TAAATTTTATATTTATTAAA
1 TAAATATTATATTTA-AAAA
*
1979388 TAAATATTATTTTTAAAAA
1 TAAATATTATATTTAAAAA
1979407 TAAATAT
1 TAAATAT
1979414 GACTTAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATATTATATTTAAAAA
Found at i:1979513 original size:2 final size:2
Alignment explanation
Indices: 1979506--1979537 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1979496 TTACATTAAC
1979506 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1979538 ATTGAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1979970 original size:22 final size:23
Alignment explanation
Indices: 1979928--1979973 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
1979918 ATATTAAAAT
1979928 TTATATAAAAAAATTTAAATATAA
1 TTATATAAAAAAA-TTAAATATAA
1979952 TTATAATAAAAAAA-T-AATATAA
1 TTAT-ATAAAAAAATTAAATATAA
1979974 AATATGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 4 0.19
25 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TTATATAAAAAAATTAAATATAA
Found at i:1982004 original size:2 final size:2
Alignment explanation
Indices: 1981997--1982045 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1981987 ACACTAATTA
1981997 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
1982039 AT AT AT A
1 AT AT AT A
1982046 CCCACACACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1982598 original size:7 final size:7
Alignment explanation
Indices: 1982588--1982629 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
1982578 TATTATAATT
1982588 TATATAA
1 TATATAA
1982595 TATATAA
1 TATATAA
*
1982602 AATATAA
1 TATATAA
*
1982609 -AAATAA
1 TATATAA
*
1982615 TATATAT
1 TATATAA
1982622 TATATAA
1 TATATAA
1982629 T
1 T
1982630 TAAAAATTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TATATAA
Found at i:1983787 original size:2 final size:2
Alignment explanation
Indices: 1983780--1983811 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1983770 ACTCACTCTT
1983780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1983812 GATCAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1984087 original size:16 final size:16
Alignment explanation
Indices: 1984068--1984105 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1984058 TTAATTTTTT
1984068 ATTAATA-ATATTAATA
1 ATTAATATATA-TAATA
*
1984084 ATTAATATTTATAATA
1 ATTAATATATATAATA
1984100 ATTAAT
1 ATTAAT
1984106 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATATATATAATA
Found at i:1984138 original size:30 final size:30
Alignment explanation
Indices: 1984084--1984140 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1984074 AATATTAATA
1984084 ATTAATATTTATAATAATTAATTTAAAAAT
1 ATTAATATTTATAATAATTAATTTAAAAAT
* *
1984114 ATTATTATATTATAATTA-TAATTTAAA
1 ATTAATAT-TTATAATAATTAATTTAAA
1984141 TTTATGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTAATATTTATAATAATTAATTTAAAAAT
Found at i:1984799 original size:23 final size:22
Alignment explanation
Indices: 1984750--1984799 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1984740 TACATTTAAT
*
1984750 AAATATTTTGAATTTAAAATTT
1 AAATATTTTGAATTTAAAATTA
* * *
1984772 TAATATTTTTTAATTTTAAATTA
1 AAATA-TTTTGAATTTAAAATTA
1984795 AAATA
1 AAATA
1984800 AAACTTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATATTTTGAATTTAAAATTA
Found at i:1985260 original size:32 final size:33
Alignment explanation
Indices: 1985217--1985292 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 33
1985207 AAAATATTTT
*
1985217 TTTAT-TTATATAAATTTTGATAT-TTTAGTA-A
1 TTTATATTATATAAATTTTAATATATTTA-TATA
1985248 TTTATATTATATAAATTTTAATATATTTATATA
1 TTTATATTATATAAATTTTAATATATTTATATA
1985281 TTTATATTATAT
1 TTTATATTATAT
1985293 CATATTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 5 0.12
32 19 0.46
33 17 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (33 bp):
TTTATATTATATAAATTTTAATATATTTATATA
Found at i:1985291 original size:19 final size:19
Alignment explanation
Indices: 1985249--1985297 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1985239 TTTTAGTAAT
1985249 TTATATTATATAAATTTTA
1 TTATATTATATAAATTTTA
* *
1985268 ATATATT-TATATATTTATA
1 TTATATTATATAAATTT-TA
*
1985287 TTATATCATAT
1 TTATATTATAT
1985298 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 8 0.33
19 13 0.54
20 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATTATATAAATTTTA
Found at i:1988178 original size:2 final size:2
Alignment explanation
Indices: 1988173--1988210 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1988163 CATATATATG
1988173 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1988211 ATGAAGATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1989273 original size:15 final size:15
Alignment explanation
Indices: 1989253--1989283 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1989243 ATAAAGGAAG
*
1989253 AAGAAGAAGCTGAAA
1 AAGAAGAAGCAGAAA
1989268 AAGAAGAAGCAGAAA
1 AAGAAGAAGCAGAAA
1989283 A
1 A
1989284 GTTTAAATGT
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:0.65, C:0.06, G:0.26, T:0.03
Consensus pattern (15 bp):
AAGAAGAAGCAGAAA
Found at i:1990584 original size:22 final size:21
Alignment explanation
Indices: 1990520--1990587 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 21
1990510 ATAAAATATA
*
1990520 TTTATAT-AAATTTTAATATATT
1 TTTATATCATATTTT-AT-TATT
* *
1990542 TATATATTCGTATTTATATTATT
1 TTTATA-TCATATTT-TATTATT
1990565 TTTATATCATATTTTGATTATT
1 TTTATATCATATTTT-ATTATT
1990587 T
1 T
1990588 CTTCGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.03
22 19 0.51
23 10 0.27
24 6 0.16
25 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTATATCATATTTTATTATT
Found at i:1991502 original size:15 final size:17
Alignment explanation
Indices: 1991474--1991509 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1991464 ATGCGTTCAA
1991474 ATTTTAAAATAATAAAT
1 ATTTTAAAATAATAAAT
1991491 ATTTTAAAAATAA-AAAT
1 ATTTT-AAAATAATAAAT
1991508 AT
1 AT
1991510 AATATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTTAAAATAATAAAT
Found at i:1991897 original size:2 final size:2
Alignment explanation
Indices: 1991890--1991925 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1991880 GCCAACAGTG
1991890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1991926 AGGGGCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1994524 original size:2 final size:2
Alignment explanation
Indices: 1994517--1994542 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1994507 AGTTAGCGAA
1994517 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
1994543 TACAATTACT
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:1995685 original size:17 final size:19
Alignment explanation
Indices: 1995655--1995689 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1995645 AAATTTTAAT
1995655 ATATTTAATAATTTATATC
1 ATATTTAATAATTTATATC
1995674 ATATTT-AT-ATTTATAT
1 ATATTTAATAATTTATAT
1995690 TATTGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTAATAATTTATATC
Found at i:1995949 original size:2 final size:2
Alignment explanation
Indices: 1995942--1995967 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1995932 ATAAACTTTC
1995942 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
1995968 GAGAAAAATA
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:2003525 original size:19 final size:18
Alignment explanation
Indices: 2003498--2003537 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2003488 TATAATTGAT
2003498 TATAAATATTGAATATAAA
1 TATAAATATTGAATA-AAA
* *
2003517 TATATATATTTAATAAAA
1 TATAAATATTGAATAAAA
2003535 TAT
1 TAT
2003538 TTTTAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATAAATATTGAATAAAA
Found at i:2003559 original size:10 final size:10
Alignment explanation
Indices: 2003532--2003572 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
2003522 ATATTTAATA
2003532 AAATATTTTT
1 AAATATTTTT
2003542 -AATATTTTT
1 AAATATTTTT
2003551 AAAT-TTTTT
1 AAATATTTTT
* *
2003560 ATATATTTAT
1 AAATATTTTT
2003570 AAA
1 AAA
2003573 ATTCATGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AAATATTTTT
Found at i:2003559 original size:19 final size:19
Alignment explanation
Indices: 2003519--2003575 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
2003509 AATATAAATA
2003519 TATATATTTAATAAAATATTT
1 TATATATTT-ATAAAAT-TTT
* *
2003540 T-TAATATTTTTAAATTTTT
1 TAT-ATATTTATAAAATTTT
2003559 TATATATTTATAAAATT
1 TATATATTTATAAAATT
2003576 CATGTATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 16 0.53
20 7 0.23
21 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATATTTATAAAATTTT
Found at i:2005860 original size:7 final size:7
Alignment explanation
Indices: 2005848--2005884 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
2005838 ATCAAAAGTA
2005848 TATTTTT
1 TATTTTT
2005855 TATTTTT
1 TATTTTT
2005862 TATTTTT
1 TATTTTT
2005869 TAATTTTT
1 T-ATTTTT
*
2005877 AATTTTT
1 TATTTTT
2005884 T
1 T
2005885 TCCAATGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:2005865 original size:14 final size:15
Alignment explanation
Indices: 2005848--2005884 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2005838 ATCAAAAGTA
2005848 TATTTTTT-ATTTTT
1 TATTTTTTAATTTTT
2005862 TATTTTTTAATTTTT
1 TATTTTTTAATTTTT
*
2005877 AATTTTTT
1 TATTTTTT
2005885 TCCAATGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTTTAATTTTT
Found at i:2007336 original size:12 final size:12
Alignment explanation
Indices: 2007319--2007343 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2007309 TAAATAAATT
2007319 TAAAATATCAAA
1 TAAAATATCAAA
2007331 TAAAATATCAAA
1 TAAAATATCAAA
2007343 T
1 T
2007344 TAATAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAATATCAAA
Found at i:2008056 original size:10 final size:10
Alignment explanation
Indices: 2008031--2008063 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2008021 ATTAATGAAT
2008031 ATAAA-TTTA
1 ATAAATTTTA
2008040 A-AAATTTTA
1 ATAAATTTTA
2008049 ATAAATTTTA
1 ATAAATTTTA
2008059 ATAAA
1 ATAAA
2008064 ATAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 6 0.27
10 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAATTTTA
Found at i:2008060 original size:34 final size:36
Alignment explanation
Indices: 2008022--2008102 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 36
2008012 AAAATTTATA
* *
2008022 TTAATGAATATAAATTTAAAAAT-TTTAAT-AAATT
1 TTAATGAAAATAAATTTAAAAATAATTAATAAAATT
* *
2008056 TTAAT-AAAATAATTTTTAAAATAATTAATAAAAATT
1 TTAATGAAAATAAATTTAAAAATAATTAAT-AAAATT
2008092 TTAATGAAAAT
1 TTAATGAAAAT
2008103 TATTCAGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
33 14 0.36
34 10 0.26
36 10 0.26
37 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (36 bp):
TTAATGAAAATAAATTTAAAAATAATTAATAAAATT
Found at i:2008069 original size:24 final size:23
Alignment explanation
Indices: 2008038--2008104 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
2008028 AATATAAATT
*
2008038 TAAAAATTTTAATAAAT-TTTAA
1 TAAAAATTTTAATAAATAATTAA
*
2008060 TAAAATAATTTTTA-AAATAATTAA
1 T-AAA-AATTTTAATAAATAATTAA
*
2008084 TAAAAATTTTAATGAA-AATTA
1 TAAAAATTTTAATAAATAATTA
2008105 TTCAGACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 13 0.35
23 12 0.32
24 12 0.32
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (23 bp):
TAAAAATTTTAATAAATAATTAA
Found at i:2008095 original size:12 final size:12
Alignment explanation
Indices: 2008038--2008103 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 12
2008028 AATATAAATT
2008038 TAAAAATTTTAA
1 TAAAAATTTTAA
2008050 T--AAATTTTAA
1 TAAAAATTTTAA
2008060 TAAAATAATTTT--
1 T-AAA-AATTTTAA
*
2008072 T-AAAATAATTAA
1 TAAAAAT-TTTAA
2008084 TAAAAATTTTAA
1 TAAAAATTTTAA
*
2008096 TGAAAATT
1 TAAAAATT
2008104 ATTCAGACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
9 3 0.07
10 14 0.33
12 14 0.33
13 6 0.14
14 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
TAAAAATTTTAA
Found at i:2010464 original size:41 final size:43
Alignment explanation
Indices: 2010397--2010478 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 43
2010387 TTAAAATAAT
2010397 ATTTAAAAAATAAAATAATATATTTTT-A-AAAAATTATTAAA
1 ATTTAAAAAATAAAATAATATATTTTTAATAAAAATTATTAAA
* * *
2010438 ATTTATAAATTAAATATAA-ATTTTTTTGAATAAAAATTATT
1 ATTTAAAAAATAAA-ATAATATATTTTT-AATAAAAATTATT
2010479 CTTTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 19 0.56
42 4 0.12
43 1 0.03
44 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (43 bp):
ATTTAAAAAATAAAATAATATATTTTTAATAAAAATTATTAAA
Found at i:2010850 original size:21 final size:20
Alignment explanation
Indices: 2010821--2010885 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
2010811 TTCGCTTAAC
*
2010821 TTTACATAATTTAAATTATT
1 TTTATATAATTTAAATTATT
* *
2010841 ATTTATATAA-TAAAAATATT
1 -TTTATATAATTTAAATTATT
* *
2010861 TTTATTAAAATTTAATTTATT
1 TTTA-TATAATTTAAATTATT
2010882 TTTA
1 TTTA
2010886 ATTTTTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.11
20 12 0.34
21 19 0.54
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATATAATTTAAATTATT
Found at i:2011397 original size:17 final size:17
Alignment explanation
Indices: 2011353--2011399 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
2011343 TCATCTTTCA
* *
2011353 TAATTAATTAATTTTAT
1 TAATAAATTAAATTTAT
*
2011370 TAATATA-TAAATTTAT
1 TAATAAATTAAATTTAT
*
2011386 TTATAAATTAAATT
1 TAATAAATTAAATT
2011400 AAATTAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATAAATTAAATTTAT
Found at i:2011403 original size:22 final size:22
Alignment explanation
Indices: 2011354--2011421 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
2011344 CATCTTTCAT
2011354 AATT-AATTAATTT-T--ATTA
1 AATTAAATTAATTTATAAATTA
*
2011372 ATATATAAATTTATTTATAAATTA
1 A-AT-TAAATTAATTTATAAATTA
* *
2011396 AATTAAATTAATTTATGAAGTA
1 AATTAAATTAATTTATAAATTA
2011418 AATT
1 AATT
2011422 TTGTTATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 2 0.05
20 1 0.03
21 8 0.20
22 21 0.52
23 2 0.05
24 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
AATTAAATTAATTTATAAATTA
Found at i:2011707 original size:18 final size:18
Alignment explanation
Indices: 2011686--2011741 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
2011676 AATTAAAATT
2011686 TATAATTTAATATTTTTA
1 TATAATTTAATATTTTTA
2011704 TATAATTTAA-A-TTTTA
1 TATAATTTAATATTTTTA
*
2011720 -ATATTTATAAT-TTTTTA
1 TATAATT-TAATATTTTTA
2011737 TATAA
1 TATAA
2011742 AAATTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 6 0.19
18 13 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATAATTTAATATTTTTA
Found at i:2011716 original size:31 final size:33
Alignment explanation
Indices: 2011674--2011741 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 33
2011664 AAGTTGACTA
2011674 ATAATTAAAATTTATAAT-TTAAT-A-TTTTTAT
1 ATAATTAAAATTT-TAATATTAATAATTTTTTAT
* *
2011705 ATAATTTAAATTTTAATATTTATAATTTTTTAT
1 ATAATTAAAATTTTAATATTAATAATTTTTTAT
2011738 ATAA
1 ATAA
2011742 AAATTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 4 0.12
31 16 0.50
32 1 0.03
33 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
ATAATTAAAATTTTAATATTAATAATTTTTTAT
Found at i:2011739 original size:16 final size:16
Alignment explanation
Indices: 2011684--2011738 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
2011674 ATAATTAAAA
2011684 TTTATAATTTAATATTT
1 TTTATAATTTAA-ATTT
2011701 TTATATAATTTAAA-TT
1 TT-TATAATTTAAATTT
*
2011717 TTAAT-ATTTATAATTT
1 TTTATAATTTA-AATTT
2011733 TTTATA
1 TTTATA
2011739 TAAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 5 0.16
15 4 0.12
16 10 0.31
17 3 0.09
18 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATAATTTAAATTT
Found at i:2012363 original size:11 final size:11
Alignment explanation
Indices: 2012347--2012439 Score: 59
Period size: 11 Copynumber: 8.2 Consensus size: 11
2012337 TAAGTATGTT
2012347 TATTATATTTA
1 TATTATATTTA
*
2012358 TATTAT-TATA
1 TATTATATTTA
* *
2012368 TAATATTTTTA
1 TATTATATTTA
*
2012379 -ATTAATTTTTTA
1 TATT-A-TATTTA
2012391 TATTATATTTA
1 TATTATATTTA
2012402 TATTATGTATTTA
1 TATTA--TATTTA
2012415 T-TTATTTATTTA
1 TATTA--TATTTA
2012427 T-TTATAATTTA
1 TATTAT-ATTTA
2012438 TA
1 TA
2012440 ATCATGATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
10 11 0.16
11 26 0.38
12 21 0.31
13 10 0.15
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (11 bp):
TATTATATTTA
Found at i:2012384 original size:13 final size:14
Alignment explanation
Indices: 2012349--2012400 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 14
2012339 AGTATGTTTA
* *
2012349 TTATATTTATATTA
1 TTATATTAATATTT
2012363 TTATA-TAATATTT
1 TTATATTAATATTT
2012376 TTA-ATTAAT-TTT
1 TTATATTAATATTT
2012388 TTATATT-ATATTT
1 TTATATTAATATTT
2012401 ATATTATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 9 0.27
13 19 0.58
14 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATATTAATATTT
Found at i:2012397 original size:30 final size:30
Alignment explanation
Indices: 2012323--2012398 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
2012313 TTATTTATCT
2012323 TATTTTTATA-TATATAAGTATGTTTATTA
1 TATTTTTATATTATATAAGTATGTTTATTA
* *
2012352 TATTTATATTATTATATAA-TATTTTTAATTA
1 TATTTTTA-TATTATATAAGTATGTTT-ATTA
2012383 -ATTTTTTATATTATAT
1 TA-TTTTTATATTATAT
2012399 TTATATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 7 0.17
30 17 0.43
31 16 0.40
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TATTTTTATATTATATAAGTATGTTTATTA
Found at i:2012418 original size:4 final size:4
Alignment explanation
Indices: 2012345--2012431 Score: 59
Period size: 4 Copynumber: 20.2 Consensus size: 4
2012335 TATAAGTATG
* * * *
2012345 TTTA TTATA TTTA TATTA TTATA TAATA TTT- TTAA TTAA TTTT TTATA
1 TTTA TT-TA TTTA T-TTA TT-TA T-TTA TTTA TTTA TTTA TTTA TT-TA
*
2012393 TTATA TTTA TATTA TGTA TTTA TTTA TTTA TTTA TTTA T
1 TT-TA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA T
2012432 AATTTATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
3 2 0.03
4 40 0.59
5 26 0.38
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:2012450 original size:36 final size:36
Alignment explanation
Indices: 2012375--2012455 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 36
2012365 ATATAATATT
* *
2012375 TTTAATTAATTTTTTATATTATATTTATATTATGTA
1 TTTAATTTATTTTTTATATTATATTTATATCATGTA
2012411 TTT-ATTTATTTATTTAT-TTATAATTTATAATCATG-A
1 TTTAATTTATTT-TTTATATTAT-ATTTAT-ATCATGTA
2012447 TTTAATTTA
1 TTTAATTTA
2012456 AAAATTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 11 0.28
36 18 0.46
37 10 0.26
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (36 bp):
TTTAATTTATTTTTTATATTATATTTATATCATGTA
Found at i:2012640 original size:31 final size:31
Alignment explanation
Indices: 2012576--2012642 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
2012566 AGTTTTTTAA
* *
2012576 ATTTATATAAATTTTTATATCTTAATTATTT
1 ATTTATATAAATTTTGATATCGTAATTATTT
2012607 ATTTATATAAATTTTGATA-CGTACA-TATATT
1 ATTTATATAAATTTTGATATCGTA-ATTAT-TT
2012638 ATTTA
1 ATTTA
2012643 ATTTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.55
Consensus pattern (31 bp):
ATTTATATAAATTTTGATATCGTAATTATTT
Found at i:2013151 original size:23 final size:23
Alignment explanation
Indices: 2013103--2013152 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2013093 TCTGTATATT
* *
2013103 ATTATATTCAATAAAAATAATCA
1 ATTAAATTCAATAAAAATAATAA
*
2013126 ATTAAATTCAA-AAAAATTATTAA
1 ATTAAATTCAATAAAAA-TAATAA
2013149 ATTA
1 ATTA
2013153 GTAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAATTCAATAAAAATAATAA
Found at i:2014847 original size:12 final size:11
Alignment explanation
Indices: 2014825--2014900 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2014815 AGAGAAAGAA
*
2014825 GAGAGAGGAGG
1 GAGATAGGAGG
2014836 GATGATAGGAGG
1 GA-GATAGGAGG
*
2014848 AGAGACAGGA--
1 -GAGATAGGAGG
*
2014858 GAGATAGTA--
1 GAGATAGGAGG
2014867 GAGATAGGAGG
1 GAGATAGGAGG
2014878 GATGATAGGAGG
1 GA-GATAGGAGG
*
2014890 AGAGACAGGAG
1 -GAGATAGGAG
2014901 AGATAACAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2014876 original size:42 final size:42
Alignment explanation
Indices: 2014815--2014933 Score: 186
Period size: 42 Copynumber: 2.8 Consensus size: 42
2014805 TAGCCCTCAA
*
2014815 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2014857 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2014899 AGAGATA-ACAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGA-AGAGAGAGGAGGGATGATAGGAGGAG
2014934 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2014917 original size:18 final size:18
Alignment explanation
Indices: 2014890--2014939 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2014880 TGATAGGAGG
*
2014890 AGAGACAGGAGAGATAAC
1 AGAGAGAGGAGAGATAAC
* *
2014908 AGAGAGAGGAGGGATGAC
1 AGAGAGAGGAGAGATAAC
2014926 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
2014940 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.06, G:0.46, T:0.04
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAC
Found at i:2020321 original size:22 final size:23
Alignment explanation
Indices: 2020288--2020359 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
2020278 GACACTAATA
2020288 AAAAATTATTTATTTAGAAATTT
1 AAAAATTATTTATTTAGAAATTT
*
2020311 AAAAATT-TTTA---AGACACTAATT
1 AAAAATTATTTATTTAGA-A--ATTT
*
2020333 AAAAATTATTTATTTAGTAATTT
1 AAAAATTATTTATTTAGAAATTT
2020356 AAAA
1 AAAA
2020360 TTTTCTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
22 14 0.36
23 18 0.46
25 1 0.03
26 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAAATTATTTATTTAGAAATTT
Found at i:2020339 original size:45 final size:44
Alignment explanation
Indices: 2020275--2020363 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 44
2020265 AATTGATATA
2020275 TAAGACACTAATAAAAAATTATTTATTTAGAAATTTAAAAATTTT
1 TAAGACACTAATAAAAAATTATTTATTTAGAAATTT-AAAATTTT
* *
2020320 TAAGACACTAATTAAAAATTATTTATTTAGTAATTTAAAATTTT
1 TAAGACACTAATAAAAAATTATTTATTTAGAAATTTAAAATTTT
2020364 CTATAATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 8 0.19
45 34 0.81
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (44 bp):
TAAGACACTAATAAAAAATTATTTATTTAGAAATTTAAAATTTT
Found at i:2020360 original size:22 final size:22
Alignment explanation
Indices: 2020289--2020361 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
2020279 ACACTAATAA
*
2020289 AAAATTATTTATTTAGAAATTT
1 AAAATTATTTATTTAGTAATTT
*** * *
2020311 AAAAATT-TTTAAGACACTAATTA
1 -AAAATTATTT-ATTTAGTAATTT
2020334 AAAATTATTTATTTAGTAATTT
1 AAAATTATTTATTTAGTAATTT
2020356 AAAATT
1 AAAATT
2020362 TTCTATAATT
Statistics
Matches: 37, Mismatches: 11, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
22 22 0.59
23 15 0.41
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAATTATTTATTTAGTAATTT
Found at i:2021116 original size:43 final size:44
Alignment explanation
Indices: 2021055--2021146 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 44
2021045 TAAATTATTG
* *
2021055 TAATTTAATTAGAAATAAGGAATGATAATTTGTAAGTT-GAGTT
1 TAATTTAATTAGAAATAAGGAATGATAATTTGTAAATTAAAGTT
* * *
2021098 TAATTTAATTAGAAATAAGGAGTGATCATTTTTAAATTAAAGTT
1 TAATTTAATTAGAAATAAGGAATGATAATTTGTAAATTAAAGTT
2021142 TAATT
1 TAATT
2021147 GAATGATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 34 0.79
44 9 0.21
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.41
Consensus pattern (44 bp):
TAATTTAATTAGAAATAAGGAATGATAATTTGTAAATTAAAGTT
Found at i:2023056 original size:16 final size:16
Alignment explanation
Indices: 2023017--2023061 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
2023007 TTAAGATGAA
* *
2023017 ATAATTTTACTATCTTT
1 ATAATTTTA-AATTTTT
2023034 ATAATTTTAAATTTTT
1 ATAATTTTAAATTTTT
*
2023050 ATTATTTTAAAT
1 ATAATTTTAAAT
2023062 ATATTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
ATAATTTTAAATTTTT
Found at i:2023542 original size:2 final size:2
Alignment explanation
Indices: 2023535--2023642 Score: 53
Period size: 2 Copynumber: 54.5 Consensus size: 2
2023525 TAAATATTTG
* * * * *
2023535 AT AT AT AT AT AT AT AT AT GAT AG GT GT AT AT TT A- AT TT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
2023577 AT AT AT AA AA AT AT AT TT AT AT AT CAT TT A- AT TT AA AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
2023619 AT -T GA- AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT A
2023643 CATCAAATAT
Statistics
Matches: 80, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
1 4 0.05
2 72 0.90
3 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2024026 original size:20 final size:20
Alignment explanation
Indices: 2024001--2024049 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
2023991 ATAACATGTG
2024001 AAATAATTAAATTGACTGTA
1 AAATAATTAAATTGACTGTA
*
2024021 AAATAATTAAATTGACTGTT
1 AAATAATTAAATTGACTGTA
2024041 AAAT-ATTAA
1 AAATAATTAA
2024050 TATTTAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (20 bp):
AAATAATTAAATTGACTGTA
Found at i:2027255 original size:32 final size:32
Alignment explanation
Indices: 2027214--2027309 Score: 183
Period size: 32 Copynumber: 3.0 Consensus size: 32
2027204 TATGTGAATT
2027214 CCAAGCAATTTTTAAAGAAATACTAGTTGATC
1 CCAAGCAATTTTTAAAGAAATACTAGTTGATC
2027246 CCAAGCAATTTTTAAAGAAATACTAGTTGATC
1 CCAAGCAATTTTTAAAGAAATACTAGTTGATC
*
2027278 CCAAGCAATTTTTAAAGAAATATTAGTTGATC
1 CCAAGCAATTTTTAAAGAAATACTAGTTGATC
2027310 TTTCTTCGGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (32 bp):
CCAAGCAATTTTTAAAGAAATACTAGTTGATC
Found at i:2030347 original size:9 final size:9
Alignment explanation
Indices: 2030324--2030363 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
2030314 CGCCCTTAGG
2030324 GAAA-AAAA
1 GAAAGAAAA
2030332 -AAA-AAAA
1 GAAAGAAAA
2030339 GAAAGAAAA
1 GAAAGAAAA
2030348 GAAAG-AAA
1 GAAAGAAAA
2030356 GAAAGAAA
1 GAAAGAAA
2030364 CAATTACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.24
8 11 0.38
9 11 0.38
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:2030352 original size:13 final size:13
Alignment explanation
Indices: 2030331--2030363 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2030321 AGGGAAAAAA
*
2030331 AAAAAAAAGAAAG
1 AAAAGAAAGAAAG
2030344 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
2030357 -AAAGAAA
1 AAAAGAAA
2030364 CAATTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:2034795 original size:2 final size:2
Alignment explanation
Indices: 2034790--2034816 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2034780 TATTTATTTC
2034790 AT 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 AT A
2034817 CACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2036012 original size:14 final size:14
Alignment explanation
Indices: 2035973--2036012 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2035963 TATTTATTTA
*
2035973 TATATTTAAATAAT
1 TATATTTATATAAT
2035987 TATATTCT-TATAAT
1 TATATT-TATATAAT
2036001 TATATTTATATA
1 TATATTTATATA
2036013 TATAAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTTATATAAT
Found at i:2040168 original size:3 final size:3
Alignment explanation
Indices: 2040160--2040190 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2040150 GCCATCTCTA
*
2040160 GTT GTT GTT GTT GTT GTT GTT GTT GCT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT G
2040191 CTGTAGATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.35, T:0.61
Consensus pattern (3 bp):
GTT
Found at i:2042187 original size:3 final size:3
Alignment explanation
Indices: 2042179--2042209 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2042169 TCGGTGACGA
*
2042179 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2042210 GTCAACAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2043763 original size:2 final size:2
Alignment explanation
Indices: 2043756--2043785 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2043746 CATTTCATGC
2043756 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
2043786 GGAGTCGCAT
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:2044113 original size:23 final size:22
Alignment explanation
Indices: 2044078--2044125 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2044068 ATTTAAATTG
* *
2044078 ATTTAATCGAATTAATTATAATA
1 ATTTAATCAAATTAATT-TAAAA
*
2044101 ATTTAATTAAATTAATTTAAAA
1 ATTTAATCAAATTAATTTAAAA
2044123 ATT
1 ATT
2044126 ACTTATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTAATCAAATTAATTTAAAA
Found at i:2045159 original size:133 final size:133
Alignment explanation
Indices: 2045013--2045413 Score: 651
Period size: 133 Copynumber: 3.0 Consensus size: 133
2045003 TTCATTACTG
* * * *
2045013 ATATTTTAATATATATCTATATATAAATTTATATTTTTAAATTTATTTGATGTAGGAGATTTACT
1 ATATTTTAATATATATTTATATATAAATATATATTTTTAAATTTATTCGATGTAGGAGATTTATT
*
2045078 CAAAATTTATTAAGAAAGATAATTAAAAACTTTGAAATAAAATAACTTATTCTTAGCATTCATTT
66 CAAAATTTATTAAGAAAGATAATTAAAAACTTTGAAATAAAATAATTTATTCTTAGCATTCATTT
2045143 TAT
131 TAT
* * * *
2045146 ATATTTTAATATATATTTATAGATAAATATAAATTTTTAAATTTATTCGATGCAGGAAATTTATT
1 ATATTTTAATATATATTTATATATAAATATATATTTTTAAATTTATTCGATGTAGGAGATTTATT
* *
2045211 TAAAATTTATTAAGAAAGATAATTAAAAGCTTTGAAATAAAATAATTTATTCTTAGCATGT-ATT
66 CAAAATTTATTAAGAAAGATAATTAAAAACTTTGAAATAAAATAATTTATTCTTAGCAT-TCATT
2045275 TTAT
130 TTAT
* * *
2045279 ATATTTTAATGTATATTTATATATAAATATATATTTTTAAATTTATTCAATGTACGAGATTTATT
1 ATATTTTAATATATATTTATATATAAATATATATTTTTAAATTTATTCGATGTAGGAGATTTATT
*
2045344 CAAAATTTATTAAGAAAGATAATTAAAAACTTTGAAATAAAATAATTTATTCTTAGCATGCATTT
66 CAAAATTTATTAAGAAAGATAATTAAAAACTTTGAAATAAAATAATTTATTCTTAGCATTCATTT
2045409 TAT
131 TAT
2045412 AT
1 AT
2045414 TTTATTTTGG
Statistics
Matches: 245, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
133 244 1.00
134 1 0.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (133 bp):
ATATTTTAATATATATTTATATATAAATATATATTTTTAAATTTATTCGATGTAGGAGATTTATT
CAAAATTTATTAAGAAAGATAATTAAAAACTTTGAAATAAAATAATTTATTCTTAGCATTCATTT
TAT
Found at i:2045552 original size:14 final size:14
Alignment explanation
Indices: 2045514--2045605 Score: 57
Period size: 14 Copynumber: 6.7 Consensus size: 14
2045504 AAATTAAATT
**
2045514 TATAAATTTAGAAA
1 TATAAATTTTTAAA
2045528 TCATAAA-TTTTAAA
1 T-ATAAATTTTTAAA
2045542 TATAAATTTTTAAAA
1 TATAAATTTTT-AAA
*
2045557 TTTAAA--TTTAAA
1 TATAAATTTTTAAA
* *
2045569 TTTAATTTTTTAAA
1 TATAAATTTTTAAA
** * *
2045583 CGTAACTTTTTATA
1 TATAAATTTTTAAA
2045597 -ATAAATTTT
1 TATAAATTTT
2045606 ATTTATCAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
12 8 0.13
13 15 0.24
14 27 0.43
15 13 0.21
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (14 bp):
TATAAATTTTTAAA
Found at i:2045560 original size:21 final size:21
Alignment explanation
Indices: 2045531--2045571 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2045521 TTAGAAATCA
*
2045531 TAAATTTTAAATATAAATTTT
1 TAAAATTTAAATATAAATTTT
*
2045552 TAAAATTTAAATTTAAATTT
1 TAAAATTTAAATATAAATTT
2045572 AATTTTTTAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAAATTTAAATATAAATTTT
Done.