Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold144
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: 3311329
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 1 of 21
Found at i:227 original size:14 final size:14
Alignment explanation
Indices: 210--286 Score: 63
Period size: 14 Copynumber: 5.5 Consensus size: 14
200 ATTTTTATAT
210 TAATATAAAAATTA
1 TAATATAAAAATTA
*
224 TAATATTATATAAA-AA
1 TAATA-TA-A-AAATTA
240 TAATAT---AATTA
1 TAATATAAAAATTA
*
251 TAATATTAAAATTA
1 TAATATAAAAATTA
*
265 TATTATAAAAATTA
1 TAATATAAAAATTA
279 TTAATATA
1 -TAATATA
287 TTAATATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
10 2 0.04
11 7 0.14
14 22 0.44
15 9 0.18
16 7 0.14
17 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATATAAAAATTA
Found at i:241 original size:27 final size:28
Alignment explanation
Indices: 211--285 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 28
201 TTTTTATATT
*
211 AATATAAAAATTATAATATT-ATATAAA
1 AATATAAAAATTATAATATTAAAATAAA
* * *
238 AATA-ATATAATTATAATATTAAAATTAT
1 AATATA-AAAATTATAATATTAAAATAAA
*
266 ATTATAAAAATTATTAATAT
1 AATATAAAAATTA-TAATAT
286 ATTAATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.03
27 17 0.45
28 13 0.34
29 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AATATAAAAATTATAATATTAAAATAAA
Found at i:269 original size:19 final size:19
Alignment explanation
Indices: 210--272 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
200 ATTTTTATAT
*
210 TAATATAAAAATTATAATA
1 TAATATAAAAATTATATTA
*
229 TTATATAAAAATAATATAATTA
1 TAATATAAAAAT--TAT-ATTA
*
251 TAATATTAAAATTATATTA
1 TAATATAAAAATTATATTA
270 TAA
1 TAA
273 AAATTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 18 0.49
20 3 0.08
21 3 0.08
22 13 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATATAAAAATTATATTA
Found at i:540 original size:14 final size:15
Alignment explanation
Indices: 521--570 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
511 ATACTTACTT
521 TTAAAAGTT-TTATA
1 TTAAAAGTTATTATA
*
535 TTAAAATTTATTATA
1 TTAAAAGTTATTATA
* *
550 ATAAAATTATATTAT-
1 TTAAAAGT-TATTATA
565 TTAAAA
1 TTAAAA
571 ATATATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.26
15 17 0.55
16 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTAAAAGTTATTATA
Found at i:554 original size:15 final size:16
Alignment explanation
Indices: 530--577 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
520 TTTAAAAGTT
*
530 TTATATTAAAATT-TA
1 TTATAATAAAATTATA
545 TTATAATAAAATTATA
1 TTATAATAAAATTATA
* *
561 TTAT-TTAAAAATATA
1 TTATAATAAAATTATA
576 TT
1 TT
578 TTTTATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 23 0.79
16 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATAATAAAATTATA
Found at i:627 original size:20 final size:20
Alignment explanation
Indices: 592--649 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
582 ATTAATTATT
*
592 TTTTATATT-TAA-TATTTA
1 TTTTATATTAAAATTATTTA
610 TTTTATATTAAAATTATTTA
1 TTTTATATTAAAATTATTTA
** *
630 TTAAATATTAAAATTTTTTA
1 TTTTATATTAAAATTATTTA
650 ATTAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.26
19 2 0.06
20 23 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATATTAAAATTATTTA
Found at i:665 original size:21 final size:20
Alignment explanation
Indices: 604--659 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
594 TTATATTTAA
**
604 TATTTATTTTATATTAAAAT
1 TATTTATTAAATATTAAAAT
624 TATTTATTAAATATTAAAAT
1 TATTTATTAAATATTAAAAT
*
644 TTTTTAATTAAATATT
1 TATTT-ATTAAATATT
660 TTAATTCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 22 0.69
21 10 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTATTAAATATTAAAAT
Found at i:1857 original size:8 final size:7
Alignment explanation
Indices: 1827--2017 Score: 52
Period size: 8 Copynumber: 27.4 Consensus size: 7
1817 TAAATAAATT
1827 TAATA-A
1 TAATATA
*
1833 TAATAAA
1 TAATATA
1840 T-ATGATA
1 TAAT-ATA
1847 TAATTATA
1 TAA-TATA
1855 TAATATAA
1 TAATAT-A
*
1863 AAATATA
1 TAATATA
1870 TAAATAATA
1 T-AAT-ATA
1879 TAATATA
1 TAATATA
1886 TAA-ATA
1 TAATATA
1892 -AA-ATA
1 TAATATA
*
1897 AAATATTTA
1 TAATA--TA
1906 TAAATTATA
1 T-AA-TATA
*
1915 AAATATA
1 TAATATA
1922 TAA-ATA
1 TAATATA
*
1928 T--TTTA
1 TAATATA
*
1933 AAATATA
1 TAATATA
*
1940 TAAATATTT
1 T-AATA-TA
1949 TAA-A-A
1 TAATATA
1954 T-ATATA
1 TAATATA
1960 TAATTATA
1 TAA-TATA
* *
1968 AAATATTT
1 TAATA-TA
1976 TAA-ATA
1 TAATATA
1982 TAATATTA
1 TAATA-TA
*
1990 AAATATA
1 TAATATA
1997 TAA-A-A
1 TAATATA
2002 TAATATA
1 TAATATA
*
2009 -AATAAA
1 TAATATA
2015 TAA
1 TAA
2018 ATTATAATTA
Statistics
Matches: 138, Mismatches: 19, Indels: 55
0.65 0.09 0.26
Matches are distributed among these distances:
4 1 0.01
5 13 0.09
6 29 0.21
7 38 0.28
8 42 0.30
9 11 0.08
10 2 0.01
11 2 0.01
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.39
Consensus pattern (7 bp):
TAATATA
Found at i:1860 original size:13 final size:13
Alignment explanation
Indices: 1827--2013 Score: 65
Period size: 13 Copynumber: 14.6 Consensus size: 13
1817 TAAATAAATT
1827 TAATAATAATAAATA
1 TAAT-ATAAT-AATA
* *
1842 TGATATAATTATA
1 TAATATAATAATA
*
1855 TAATATAAAAATA
1 TAATATAATAATA
1868 T-ATA-AATAATA
1 TAATATAATAATA
1879 TAATAT-ATAAATA
1 TAATATAAT-AATA
* * *
1892 AAATAAAATATTTA
1 TAATATAATA-ATA
1906 TAAATTATAA-AATA
1 T-AA-TATAATAATA
* *
1920 T-ATA-AATATTT
1 TAATATAATAATA
*
1931 TAAAATATATAA-A
1 TAATATA-ATAATA
* *
1944 TATTTTAA-AATA
1 TAATATAATAATA
*
1956 T-ATATAATTATA
1 TAATATAATAATA
* **
1968 AAATATTTTAAATA
1 TAATATAAT-AATA
1982 TAATATTAA-AATA
1 TAATA-TAATAATA
*
1995 T-ATAAAATAATA
1 TAATATAATAATA
2007 TAA-ATAA
1 TAATATAA
2014 ATAAATTATA
Statistics
Matches: 122, Mismatches: 32, Indels: 39
0.63 0.17 0.20
Matches are distributed among these distances:
10 2 0.02
11 20 0.16
12 28 0.23
13 39 0.32
14 22 0.18
15 7 0.06
16 4 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:1876 original size:27 final size:26
Alignment explanation
Indices: 1846--2030 Score: 99
Period size: 26 Copynumber: 7.2 Consensus size: 26
1836 TAAATATGAT
1846 ATAATTATATAATATAAAAATATATAA
1 ATAATTATA-AATATAAAAATATATAA
*
1873 ATAA-TATAATATATAAATAAAATA-AA
1 ATAATTATAA-ATATAAA-AATATATAA
*
1899 ATATTTATAAAT-TATAAAATATATAA
1 ATAATTATAAATATA-AAAATATATAA
* * * *
1925 AT-ATTTTAAAATATATAAATATTTTA
1 ATAATTAT-AAATATAAAAATATATAA
1951 A-AATATATATAAT-TATAAAATAT-T--
1 ATAAT-TATA-AATATA-AAAATATATAA
* * *
1975 TTAAATAT-AATATTAAAATATATAAA
1 ATAATTATAAATATAAAAATATAT-AA
2001 ATAA-TATAAATA-AATAAAT-TATAA
1 ATAATTATAAATATAA-AAATATATAA
*
2025 TTAATT
1 ATAATT
2031 CAAAAATTAA
Statistics
Matches: 122, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
22 10 0.08
23 2 0.02
24 8 0.07
25 21 0.17
26 54 0.44
27 27 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATAATTATAAATATAAAAATATATAA
Found at i:1879 original size:24 final size:25
Alignment explanation
Indices: 1817--2014 Score: 81
Period size: 27 Copynumber: 7.7 Consensus size: 25
1807 TGTCATGACG
*
1817 TAAATAAATTTAATAATAATAAATATGA
1 TAAAT-AATATAAT-ATAA-AAATATGA
*
1845 TATAATTATATAATATAAAAATAT-A
1 TA-AATAATATAATATAAAAATATGA
* **
1870 TAAATAATATAATATATAAATAAAA
1 TAAATAATATAATATAAAAATATGA
*
1895 TAAAATATTTATAA-ATTATAAAATAT-A
1 T-AAATA-ATATAATA-TA-AAAATATGA
* * * **
1922 TAAATATTTTAAAATATATAAATATTT
1 TAAATA--ATATAATATAAAAATATGA
1949 TAAAATATATATAAT-TATAAAATAT--
1 T-AAATA-ATATAATATA-AAAATATGA
** *
1974 TTTA-AATATAATATTAAAATAT-A
1 TAAATAATATAATATAAAAATATGA
1997 TAAAATAATATAA-ATAAA
1 T-AAATAATATAATATAAA
2015 TAAATTATAA
Statistics
Matches: 135, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
22 14 0.10
23 3 0.02
24 24 0.18
25 13 0.10
26 25 0.19
27 34 0.25
28 19 0.14
29 3 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.39
Consensus pattern (25 bp):
TAAATAATATAATATAAAAATATGA
Found at i:1922 original size:20 final size:18
Alignment explanation
Indices: 1831--2019 Score: 144
Period size: 18 Copynumber: 10.6 Consensus size: 18
1821 TAAATTTAAT
* *
1831 AATA-ATAAATATGATAT
1 AATATATAAATATTATAA
1848 AAT-TATATAATA-TA-AA
1 AATATATA-AATATTATAA
*
1864 AATATATAAATA--ATAT
1 AATATATAAATATTATAA
**
1880 AATATATAAATAAAATAA
1 AATATATAAATATTATAA
*
1898 AATATTTATAA-ATTATAA
1 AATATATA-AATATTATAA
*
1916 AATATATAAATATTTTAA
1 AATATATAAATATTATAA
*
1934 AATATATAAATATTTTAA
1 AATATATAAATATTATAA
*
1952 AATATATATA-ATTATAA
1 AATATATAAATATTATAA
*
1969 AATATTTTAAATATAATATTAA
1 AATA-TATAAATAT--TA-TAA
*
1991 AATATATAAA-ATAATATA
1 AATATATAAATATTATA-A
*
2009 AATAAATAAAT
1 AATATATAAAT
2020 TATAATTAAT
Statistics
Matches: 141, Mismatches: 16, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.01
16 21 0.15
17 25 0.18
18 74 0.52
19 4 0.03
20 2 0.01
21 7 0.05
22 7 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
AATATATAAATATTATAA
Found at i:1983 original size:26 final size:27
Alignment explanation
Indices: 1897--2024 Score: 113
Period size: 27 Copynumber: 4.7 Consensus size: 27
1887 AAATAAAATA
* *
1897 AAATATTTATAAATTATAAAATA-TAT
1 AAATATATATAAATTATAAAATATTTT
* *
1923 AAATAT-TTTAAAATATATAAATATTTT
1 AAATATATATAAATTATA-AAATATTTT
1950 AAA-ATATATATAATTATAAAATATTTT
1 AAATATATATA-AATTATAAAATATTTT
* *
1977 AAATATAATATTAAAATATATAAAATAATAT
1 AAATAT-ATA-T-AAAT-TATAAAATATTTT
2008 AAATA-A-ATAAATTATAA
1 AAATATATATAAATTATAA
2025 TTAATTCAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
25 14 0.16
26 17 0.20
27 21 0.24
28 9 0.10
29 4 0.05
30 4 0.05
31 17 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAATATATATAAATTATAAAATATTTT
Found at i:2016 original size:10 final size:10
Alignment explanation
Indices: 1854--2018 Score: 80
Period size: 9 Copynumber: 18.0 Consensus size: 10
1844 ATATAATTAT
1854 ATAATAT-AA
1 ATAATATAAA
1863 A-AATATATAA
1 ATAATATA-AA
1873 ATAATAT--A
1 ATAATATAAA
1881 AT-ATAT-AA
1 ATAATATAAA
*
1889 ATAAAATAAA
1 ATAATATAAA
*
1899 AT-ATTTATAA
1 ATAATATA-AA
1909 AT--TATAAA
1 ATAATATAAA
1917 AT-ATAT-AA
1 ATAATATAAA
* *
1925 ATATTTTAAA
1 ATAATATAAA
1935 AT-ATAT-AA
1 ATAATATAAA
* *
1943 ATATTTTAAA
1 ATAATATAAA
*
1953 AT-ATATATA
1 ATAATATAAA
1962 AT--TATAAA
1 ATAATATAAA
* *
1970 ATATTTTAAA
1 ATAATATAAA
1980 TATAATATTAAA
1 -ATAATA-TAAA
1992 AT-ATATAAA
1 ATAATATAAA
2001 ATAATAT-AA
1 ATAATATAAA
2010 ATAA-ATAAA
1 ATAATATAAA
2019 TTATAATTAA
Statistics
Matches: 121, Mismatches: 17, Indels: 36
0.70 0.10 0.21
Matches are distributed among these distances:
7 4 0.03
8 32 0.26
9 39 0.32
10 31 0.26
11 11 0.09
12 4 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATATAAA
Found at i:2024 original size:20 final size:21
Alignment explanation
Indices: 1976--2025 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1966 TAAAATATTT
*
1976 TAAATATAATATTAAAATATA
1 TAAATATAATATTAAAATAAA
1997 TAAA-ATAATA-T-AAATAAA
1 TAAATATAATATTAAAATAAA
2015 TAAATTATAAT
1 TAAA-TATAAT
2026 TAATTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 1 0.04
20 11 0.42
21 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAATATAATATTAAAATAAA
Found at i:2172 original size:17 final size:17
Alignment explanation
Indices: 2150--2184 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2140 AAAATATCAA
* *
2150 AATAAAAGTAAAATAAT
1 AATAAAAATAAAAAAAT
2167 AATAAAAATAAAAAAAT
1 AATAAAAATAAAAAAAT
2184 A
1 A
2185 TTATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AATAAAAATAAAAAAAT
Found at i:3287 original size:21 final size:23
Alignment explanation
Indices: 3263--3309 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
3253 TTCGAAATTC
*
3263 AATTTTAAA-TAACTTTTT-TTT
1 AATTTCAAATTAACTTTTTATTT
*
3284 AA-TTCAAATTAATTTTTTATTT
1 AATTTCAAATTAACTTTTTATTT
3306 AATT
1 AATT
3310 AAAATGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 5 0.24
23 1 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTTCAAATTAACTTTTTATTT
Found at i:3389 original size:34 final size:34
Alignment explanation
Indices: 3340--3404 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
3330 AATTTTATTT
* *
3340 AAATATTTT-TTTTAAATTACAAATTAAAAATTAA
1 AAATATTTTAATTAAAATTA-AAATTAAAAATTAA
3374 AAATATTTTAATTAAAATTAAAATTAAAAAT
1 AAATATTTTAATTAAAATTAAAATTAAAAAT
3405 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (34 bp):
AAATATTTTAATTAAAATTAAAATTAAAAATTAA
Found at i:3411 original size:29 final size:30
Alignment explanation
Indices: 3349--3406 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 30
3339 TAAATATTTT
3349 TTTTAAATTACAAATTAAAAATTAAAAATA
1 TTTTAAATTACAAATTAAAAATTAAAAATA
3379 TTTT-AATTA-AAATT-AAAATTAAAAATA
1 TTTTAAATTACAAATTAAAAATTAAAAATA
3406 T
1 T
3407 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 14 0.50
28 5 0.18
29 5 0.18
30 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTAAATTACAAATTAAAAATTAAAAATA
Found at i:4095 original size:17 final size:17
Alignment explanation
Indices: 4075--4122 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
4065 TATTTTAATT
4075 TATTAAAATTTATATAA
1 TATTAAAATTTATATAA
***
4092 TATTAATGGTTA-AT-A
1 TATTAAAATTTATATAA
4107 TATTAAAATTTATATA
1 TATTAAAATTTATATA
4123 TTATAAATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
15 10 0.43
16 4 0.17
17 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TATTAAAATTTATATAA
Found at i:4133 original size:14 final size:14
Alignment explanation
Indices: 4075--4131 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4065 TATTTTAATT
4075 TATTAAAATTTATA
1 TATTAAAATTTATA
* *
4089 TAATATTAATGGTTAATA
1 TATTA-AAAT--TT-ATA
4107 TATTAAAATTTATA
1 TATTAAAATTTATA
4121 TATTATAAATT
1 TATTA-AAATT
4132 ATTAATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.35
15 10 0.29
17 5 0.15
18 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (14 bp):
TATTAAAATTTATA
Found at i:4137 original size:32 final size:32
Alignment explanation
Indices: 4055--4139 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
4045 TGATTTGAAG
* * *
4055 ATAAAATAAATATTTTAATTTATTAAAATTTAT
1 ATAATATAAAT-TATTAATATATTAAAATTTAT
* **
4088 ATAATATTAATGGTTAATATATTAAAATTTAT
1 ATAATATAAATTATTAATATATTAAAATTTAT
*
4120 ATATTATAAATTATTAATAT
1 ATAATATAAATTATTAATAT
4140 GTTATATTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 34 0.79
33 9 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
ATAATATAAATTATTAATATATTAAAATTTAT
Found at i:4148 original size:16 final size:18
Alignment explanation
Indices: 4120--4164 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
4110 TAAAATTTAT
*
4120 ATAT-TATAAATT-ATTA
1 ATATGTATATATTAATTA
*
4136 ATATGT-TATATTAATTT
1 ATATGTATATATTAATTA
4153 ATATGTATATAT
1 ATATGTATATAT
4165 AAATATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.38
17 10 0.42
18 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
ATATGTATATATTAATTA
Found at i:4163 original size:18 final size:18
Alignment explanation
Indices: 4113--4164 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
4103 AATATATTAA
* *
4113 AATTTATATATTATAAATT
1 AATTTATAT-GTATATATT
*
4132 -ATTAATATGT-TATATT
1 AATTTATATGTATATATT
4148 AATTTATATGTATATAT
1 AATTTATATGTATATAT
4165 AAATATATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.19
17 10 0.37
18 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
AATTTATATGTATATATT
Found at i:5440 original size:11 final size:11
Alignment explanation
Indices: 5426--5488 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
5416 ATATAAATTT
5426 TAATATATTAA
1 TAATATATTAA
5437 TAATTATATTATA
1 TAA-TATATTA-A
5450 TAA-ATATT-A
1 TAATATATTAA
5459 T-A-ATATT--
1 TAATATATTAA
5466 T-ATATATTAA
1 TAATATATTAA
*
5476 TATTATATTAA
1 TAATATATTAA
5487 TA
1 TA
5489 TTATTTTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
7 2 0.04
8 11 0.24
9 2 0.04
10 1 0.02
11 18 0.40
12 7 0.16
13 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATATATTAA
Found at i:5445 original size:14 final size:14
Alignment explanation
Indices: 5428--5483 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
5418 ATAAATTTTA
5428 ATATATTAATAA-T
1 ATATATTAATAATT
*
5441 -TATATTATATAAAT
1 ATATATTA-ATAATT
*
5455 AT-TA-TAATATTT
1 ATATATTAATAATT
5467 ATATATTAAT-ATT
1 ATATATTAATAATT
5480 ATAT
1 ATAT
5484 TAATATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
12 13 0.37
13 14 0.40
14 7 0.20
15 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATTAATAATT
Found at i:5451 original size:31 final size:32
Alignment explanation
Indices: 5391--5492 Score: 104
Period size: 33 Copynumber: 3.1 Consensus size: 32
5381 TTATTTTATT
*
5391 TTAT-ATATTTTATTATCTTATATTTATATAAAT-
1 TTATAATA-TTTA-TATATTATA-TTATATAAATA
5424 TT-TAATATATTA-ATAATTATATTATATAAATA
1 TTATAATAT-TTATAT-ATTATATTATATAAATA
*
5456 TTATAATATTTATATATTAATATTATATTAATA
1 TTATAATATTTATATATT-ATATTATATAAATA
5489 TTAT
1 TTAT
5493 TTTATATTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
31 12 0.20
32 15 0.25
33 33 0.55
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
TTATAATATTTATATATTATATTATATAAATA
Found at i:5483 original size:27 final size:29
Alignment explanation
Indices: 5453--5506 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
5443 TATTATATAA
5453 ATATT-ATAATA-TTTATATATTAATATT
1 ATATTAATAATATTTTATATATTAATATT
* *
5480 ATATTAATATTATTTTATATTTTAATA
1 ATATTAATAATATTTTATATATTAATA
5507 ACTTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 5 0.22
29 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
ATATTAATAATATTTTATATATTAATATT
Found at i:5488 original size:25 final size:24
Alignment explanation
Indices: 5390--5490 Score: 73
Period size: 25 Copynumber: 4.1 Consensus size: 24
5380 TTTATTTTAT
* *
5390 TTTATATATTTTATTATCTT-ATA
1 TTTATATATTATATTATATTAATA
* *
5413 TTTATATAAATTTTAATATATTAATA
1 TTTATAT--ATTATATTATATTAATA
* *
5439 -AT-TATATTATATAAATATTATAATA
1 TTTATATATTATAT-TATA-T-TAATA
5464 TTTATATATTAATATTATATTAATA
1 TTTATATATT-ATATTATATTAATA
5489 TT
1 TT
5491 ATTTTATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
22 5 0.08
23 10 0.16
24 4 0.07
25 24 0.39
26 5 0.08
27 9 0.15
28 4 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTATATATTATATTATATTAATA
Found at i:5489 original size:11 final size:11
Alignment explanation
Indices: 5442--5492 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
5432 ATTAATAATT
*
5442 ATATTATATAA
1 ATATTATATTA
*
5453 ATATTATAAT-
1 ATATTATATTA
*
5463 ATTTATATATTA
1 ATAT-TATATTA
5475 ATATTATATTA
1 ATATTATATTA
5486 ATATTAT
1 ATATTAT
5493 TTTATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.82
12 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATTATATTA
Found at i:10482 original size:22 final size:21
Alignment explanation
Indices: 10456--10519 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 21
10446 TTATATAATA
10456 TTTATATTCATCATATTTATTT
1 TTTATATT-ATCATATTTATTT
* *
10478 TTTATATAATATAAATATATATTT
1 TTTATAT--TAT-CATATTTATTT
10502 TATTATATTTATCATATT
1 T-TTATA-TTATCATATT
10520 CATATCATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 7 0.21
23 6 0.18
24 14 0.42
25 5 0.15
26 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATATTATCATATTTATTT
Found at i:10532 original size:29 final size:29
Alignment explanation
Indices: 10465--10532 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
10455 ATTTATATTC
*
10465 ATCATATTTATTTTTTATATAATATAAAT
1 ATCATATTTATTTATTATATAATATAAAT
* **
10494 AT-ATATTTTATTATATT-TATCATATTCAT
1 ATCATA-TTTATT-TATTATATAATATAAAT
10523 ATCATATTTA
1 ATCATATTTA
10533 AATTTATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 3 0.09
29 23 0.72
30 6 0.19
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (29 bp):
ATCATATTTATTTATTATATAATATAAAT
Found at i:12563 original size:18 final size:18
Alignment explanation
Indices: 12542--12577 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12532 TAAATCAAAT
12542 TATTTGTTTAA-ATTTAAA
1 TATTT-TTTAATATTTAAA
12560 TATTTTTTAATATTTAAA
1 TATTTTTTAATATTTAAA
12578 AAAATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTTTTTAATATTTAAA
Found at i:13822 original size:14 final size:14
Alignment explanation
Indices: 13805--13847 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13795 AAAGTGAAAA
*
13805 TAAAAAATAATTAT
1 TAAAAAATATTTAT
13819 T-AAAAATATTTAAT
1 TAAAAAATATTT-AT
*
13833 TAAAATATATTTAT
1 TAAAAAATATTTAT
13847 T
1 T
13848 TATATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 9 0.36
14 7 0.28
15 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAAAATATTTAT
Found at i:13825 original size:13 final size:13
Alignment explanation
Indices: 13807--13847 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
13797 AGTGAAAATA
*
13807 AAAAATAATTATT
1 AAAAATATTTATT
13820 AAAAATATTTAATT
1 AAAAATATTT-ATT
13834 AAAATATATTTATT
1 AAAA-ATATTTATT
13848 TATATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 9 0.36
14 10 0.40
15 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATATTTATT
Found at i:13902 original size:35 final size:34
Alignment explanation
Indices: 13833--13932 Score: 118
Period size: 35 Copynumber: 3.0 Consensus size: 34
13823 AATATTTAAT
* *
13833 TAAAA-TATATTTA-TTTATATAAT-AA-ATAAT
1 TAAAATTATATTTATTTTAAATAATAAATATAAA
13863 TAAAATTATATTTATTTTAAATAATAAAATATAAA
1 TAAAATTATATTTATTTTAAATAAT-AAATATAAA
* * *
13898 TAAAATTATATTTATGTTGAATAATAATTATAAA
1 TAAAATTATATTTATTTTAAATAATAAATATAAA
13932 T
1 T
13933 TATTAGAACA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
30 5 0.08
31 8 0.13
32 9 0.15
34 11 0.18
35 27 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (34 bp):
TAAAATTATATTTATTTTAAATAATAAATATAAA
Found at i:14435 original size:20 final size:22
Alignment explanation
Indices: 14393--14437 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
14383 ATAATTTTTT
*
14393 ATTATAATAAAAATAGTATATTA
1 ATTATAATAAAAATA-TAAATTA
14416 ATTATAA-AAAAAT-TAAATTA
1 ATTATAATAAAAATATAAATTA
14436 AT
1 AT
14438 AATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
22 6 0.29
23 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTATAATAAAAATATAAATTA
Found at i:16124 original size:2 final size:2
Alignment explanation
Indices: 16117--16160 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
16107 TGACTCATGC
* *
16117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16159 AT
1 AT
16161 TGTGTTGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16339 original size:2 final size:2
Alignment explanation
Indices: 16332--16368 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
16322 ATAATTTCTC
*
16332 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16369 GTTTTTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16499 original size:18 final size:18
Alignment explanation
Indices: 16478--16515 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16468 TTTTATTATA
16478 AATATTT-TTGTAATTAAT
1 AATATTTATT-TAATTAAT
*
16496 AATATTTATTTAATTTAT
1 AATATTTATTTAATTAAT
16514 AA
1 AA
16516 GAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AATATTTATTTAATTAAT
Found at i:16790 original size:18 final size:19
Alignment explanation
Indices: 16767--16807 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
16757 TTTAATATAA
*
16767 TTTACATATGAA-AAAAAT
1 TTTACATATGAACAAAAAC
*
16785 TTTACATATTAACAAAAAC
1 TTTACATATGAACAAAAAC
16804 TTTA
1 TTTA
16808 ATTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (19 bp):
TTTACATATGAACAAAAAC
Found at i:19389 original size:16 final size:16
Alignment explanation
Indices: 19355--19432 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
19345 TAATTTTACG
*
19355 AATAAA-ATGATTATGA
1 AATAAATATGA-TATAA
19371 AATAAATATGATAT--
1 AATAAATATGATATAA
19385 -A-AAATATGATATAA
1 AATAAATATGATATAA
* *
19399 TATAAATATTATATAA
1 AATAAATATGATATAA
19415 ATATATAA-AT-ATATAA
1 A-ATA-AATATGATATAA
19431 AA
1 AA
19433 ATTTATTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
12 11 0.21
13 1 0.02
15 2 0.04
16 28 0.53
17 9 0.17
18 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
AATAAATATGATATAA
Found at i:19391 original size:12 final size:12
Alignment explanation
Indices: 19374--19398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19364 ATTATGAAAT
19374 AAATATGATATA
1 AAATATGATATA
19386 AAATATGATATA
1 AAATATGATATA
19398 A
1 A
19399 TATAAATATT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AAATATGATATA
Found at i:19396 original size:17 final size:17
Alignment explanation
Indices: 19376--19426 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
19366 TATGAAATAA
*
19376 ATATGATATAAAATATG
1 ATATAATATAAAATATG
*
19393 ATATAATAT-AAATATT
1 ATATAATATAAAATATG
19409 ATATAAATATATAAATAT
1 ATAT-AATATA-AAATAT
19427 ATAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 10 0.34
17 13 0.45
19 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
ATATAATATAAAATATG
Found at i:19406 original size:28 final size:25
Alignment explanation
Indices: 19372--19427 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 25
19362 TGATTATGAA
19372 ATAAATATGATATAAAATATGATATAAT
1 ATAAATATGATAT-AAATAT-ATA-AAT
*
19400 ATAAATATTATATAAATATATAAAT
1 ATAAATATGATATAAATATATAAAT
19425 ATA
1 ATA
19428 TAAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.22
26 3 0.11
27 6 0.22
28 12 0.44
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
ATAAATATGATATAAATATATAAAT
Found at i:19421 original size:8 final size:8
Alignment explanation
Indices: 19381--19431 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
19371 AATAAATATG
19381 ATATA-AA
1 ATATATAA
19388 ATATGATATA
1 ATAT-ATA-A
19398 ATATA-AA
1 ATATATAA
19405 TATTATATAA
1 -A-TATATAA
19415 ATATATAA
1 ATATATAA
19423 ATATATAA
1 ATATATAA
19431 A
1 A
19432 AATTTATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
7 5 0.13
8 19 0.50
9 7 0.18
10 7 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (8 bp):
ATATATAA
Found at i:19510 original size:33 final size:33
Alignment explanation
Indices: 19473--19574 Score: 123
Period size: 33 Copynumber: 3.4 Consensus size: 33
19463 AACTTATAAA
* *
19473 ATATATATAAAAAATATTTTAAATTTAATTATG
1 ATATAAATAAATAATATTTTAAATTTAATTATG
19506 ATATAAATAAATAATA--TT-AA--T-A-TA--
1 ATATAAATAAATAATATTTTAAATTTAATTATG
19530 ATATAAATAAATAATATTTTAAATTTAATTATG
1 ATATAAATAAATAATATTTTAAATTTAATTATG
19563 ATATAAATAAAT
1 ATATAAATAAAT
19575 GAACAAATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
24 16 0.28
26 4 0.07
27 3 0.05
28 1 0.02
29 1 0.02
30 3 0.05
31 4 0.07
33 26 0.45
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (33 bp):
ATATAAATAAATAATATTTTAAATTTAATTATG
Found at i:19527 original size:13 final size:13
Alignment explanation
Indices: 19506--19546 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
19496 TTTAATTATG
19506 ATATAAATAAATA
1 ATATAAATAAATA
*
19519 ATATTAAT--ATA
1 ATATAAATAAATA
19530 ATATAAATAAATA
1 ATATAAATAAATA
19543 ATAT
1 ATAT
19547 TTTAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
13 14 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAAATAAATA
Found at i:19538 original size:24 final size:25
Alignment explanation
Indices: 19497--19547 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
19487 TATTTTAAAT
*
19497 TTAATTATGATATAAATAAATAATA
1 TTAATTATAATATAAATAAATAATA
19522 TTAA-TATAATATAAATAAATAATA
1 TTAATTATAATATAAATAAATAATA
19546 TT
1 TT
19548 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TTAATTATAATATAAATAAATAATA
Found at i:19582 original size:29 final size:26
Alignment explanation
Indices: 19493--19594 Score: 73
Period size: 33 Copynumber: 3.6 Consensus size: 26
19483 AAAATATTTT
19493 AAATTTAATTATGATATAAATAAAT-A
1 AAATTTAA-TATGATATAAATAAATAA
* *
19519 ATA-TTAATATAATATAAATAAATAATA
1 AAATTTAATATGATATAAATAAAT-A-A
19546 TTTTAAATTTAATTATGATATAAATAAATGAA
1 ----AAATTTAA-TATGATATAAATAAAT-AA
19578 CAAATTTGAATATGATA
1 -AAATTT-AATATGATA
19595 CAAACTTGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
24 15 0.25
25 4 0.07
26 2 0.03
27 1 0.02
29 13 0.22
30 2 0.03
31 2 0.03
32 5 0.08
33 16 0.27
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (26 bp):
AAATTTAATATGATATAAATAAATAA
Found at i:19590 original size:57 final size:56
Alignment explanation
Indices: 19472--19579 Score: 171
Period size: 57 Copynumber: 1.9 Consensus size: 56
19462 AAACTTATAA
* *
19472 AATATATATAAAAAATATTTTAAATTTAATTATGATATAAATAAATAATATTAATAT
1 AATATAAATAAAAAATATTTTAAATTTAATTATGATATAAATAAATAACA-TAATAT
*
19529 AATATAAATAAATAATATTTTAAATTTAATTATGATATAAATAAATGAACA
1 AATATAAATAAAAAATATTTTAAATTTAATTATGATATAAATAAAT-AACA
19580 AATTTGAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 44 0.94
58 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (56 bp):
AATATAAATAAAAAATATTTTAAATTTAATTATGATATAAATAAATAACATAATAT
Found at i:21093 original size:13 final size:13
Alignment explanation
Indices: 21075--21110 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21065 TAAAAAATAG
*
21075 TTTAATTATTATA
1 TTTAATTATTAAA
*
21088 TTTAATTTTTAAA
1 TTTAATTATTAAA
21101 TTTAATTATT
1 TTTAATTATT
21111 TATGCTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTATTAAA
Found at i:21121 original size:27 final size:25
Alignment explanation
Indices: 21075--21134 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
21065 TAAAAAATAG
21075 TTTAATTATTATATTTAATTTTTAAA
1 TTTAATTATTATATTTAA-TTTTAAA
21101 TTTAATTATT-TATGCTTAATTTTAAA
1 TTTAATTATTATAT--TTAATTTTAAA
21127 TTTGAATT
1 TTT-AATT
21135 GATATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 3 0.10
26 20 0.65
27 8 0.26
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTAATTATTATATTTAATTTTAAA
Found at i:24460 original size:14 final size:14
Alignment explanation
Indices: 24441--24475 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24431 TATATATTTC
*
24441 AATATAATTTTTAA
1 AATATAATCTTTAA
*
24455 AATATAATCTTTCA
1 AATATAATCTTTAA
24469 AATATAA
1 AATATAA
24476 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATAATCTTTAA
Found at i:24554 original size:13 final size:13
Alignment explanation
Indices: 24536--24563 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24526 CCAATTCTTA
24536 AAAACTTCCATTT
1 AAAACTTCCATTT
24549 AAAACTTCCATTT
1 AAAACTTCCATTT
24562 AA
1 AA
24564 CTTTCTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAACTTCCATTT
Found at i:34510 original size:34 final size:34
Alignment explanation
Indices: 34467--34534 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
34457 CTCGTTGGAG
34467 TCCTACCTTGCAATGACAAAATAAAAGAAACTTT
1 TCCTACCTTGCAATGACAAAATAAAAGAAACTTT
* *
34501 TCCTACCTTGCTATGACACAATAAAAGAAACTTT
1 TCCTACCTTGCAATGACAAAATAAAAGAAACTTT
34535 CACCGAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (34 bp):
TCCTACCTTGCAATGACAAAATAAAAGAAACTTT
Found at i:36904 original size:2 final size:2
Alignment explanation
Indices: 36899--36930 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36889 AATTAAATTT
36899 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
36931 ACAAACTCAT
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:37861 original size:16 final size:16
Alignment explanation
Indices: 37840--37961 Score: 78
Period size: 16 Copynumber: 7.8 Consensus size: 16
37830 CAATATATAA
37840 AAAATAATATAAATAT
1 AAAATAATATAAATAT
37856 AAAAT-ATA-AATATATT
1 AAAATAATATAA-ATA-T
37872 AAAAT-ATAT-AATAT
1 AAAATAATATAAATAT
*
37886 -AAATCAT-TAATATATT
1 AAAATAATATAA-ATA-T
*
37902 AAAATTTATATAAATAT
1 AAAA-TAATATAAATAT
* * *
37919 ATAATATTTTAAATAT
1 AAAATAATATAAATAT
* *
37935 AAAATAATAAAAAAAT
1 AAAATAATATAAATAT
*
37951 CAAATAA-ATAA
1 AAAATAATATAA
37962 TTTCATATGC
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
13 5 0.06
14 6 0.07
15 15 0.18
16 42 0.50
17 7 0.08
18 6 0.07
19 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATATAAATAT
Found at i:37884 original size:23 final size:23
Alignment explanation
Indices: 37824--37889 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
37814 TATAAAGAAC
*
37824 ATATTACAATATATAA-A-AAAT
1 ATATTAAAATATATAATATAAAT
*
37845 A-A-TATAAATATAAAATATAAAT
1 ATATTA-AAATATATAATATAAAT
37867 ATATTAAAATATATAATATAAAT
1 ATATTAAAATATATAATATAAAT
37890 CATTAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.05
20 9 0.24
21 2 0.05
22 5 0.14
23 17 0.46
24 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATTAAAATATATAATATAAAT
Found at i:37887 original size:30 final size:29
Alignment explanation
Indices: 37845--37945 Score: 104
Period size: 30 Copynumber: 3.5 Consensus size: 29
37835 TATAAAAAAT
37845 AATATA-AATATAAAATATAAATATATTAA
1 AATATATAATAT-AAATATAAATATATTAA
*
37874 AATATATAATATAAATCATTAATATATTAA
1 AATATATAATATAAAT-ATAAATATATTAA
*
37904 AAT-T-T-ATATAAATATATAATAT-TTTA
1 AATATATAATATAAATATA-AATATATTAA
*
37930 AATATAAAATAATAAA
1 AATATATAAT-ATAAA
37946 AAAATCAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
26 8 0.13
27 14 0.23
28 1 0.02
29 13 0.21
30 25 0.41
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AATATATAATATAAATATAAATATATTAA
Found at i:37896 original size:13 final size:13
Alignment explanation
Indices: 37834--37925 Score: 79
Period size: 13 Copynumber: 7.3 Consensus size: 13
37824 ATATTACAAT
*
37834 ATATAAA-AAATA
1 ATATAAATATATA
*
37846 ATATAAATATAAA
1 ATATAAATATATA
37859 ATATAAATATAT-
1 ATATAAATATATA
37871 -TA-AAATATATA
1 ATATAAATATATA
37882 ATATAAATCAT-TA
1 ATATAAAT-ATATA
* *
37895 ATATATTAAAAT-TT
1 ATATA--AATATATA
37909 ATATAAATATATA
1 ATATAAATATATA
37922 ATAT
1 ATAT
37926 TTTAAATATA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
10 8 0.12
11 2 0.03
12 13 0.20
13 30 0.46
14 10 0.15
15 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAAATATATA
Found at i:37938 original size:63 final size:61
Alignment explanation
Indices: 37831--37952 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 61
37821 AACATATTAC
*
37831 AATATATAAAAAATAATATAAATATAAAATATAAATATATTAAAATATATAATATAAATCATT
1 AATATATAAAAAATAATATAAATATAAAATATAAATATATTAAAATA-ATAA-AAAAATCATT
* * * * *
37894 AATATATTAAAATTTATATAAATATATAATATTTTAA-ATA-TAAAATAATAAAAAAATCA
1 AATATATAAAAAATAATATAAATATA-AA-ATATAAATATATTAAAATAATAAAAAAATCA
37953 AATAAATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
61 7 0.14
62 4 0.08
63 30 0.59
64 5 0.10
65 5 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (61 bp):
AATATATAAAAAATAATATAAATATAAAATATAAATATATTAAAATAATAAAAAAATCATT
Found at i:37941 original size:27 final size:28
Alignment explanation
Indices: 37845--37941 Score: 94
Period size: 27 Copynumber: 3.5 Consensus size: 28
37835 TATAAAAAAT
*
37845 AATATAAATATAAA-ATATAAATATATTAA
1 AATATAAATATAAATATAT-AATAT-TTTA
*
37874 AATATATAATATAAATCAT-TAATATATTA
1 AATATA-AATATAAAT-ATATAATATTTTA
**
37903 AA-ATTTATATAAATATATAATATTTTA
1 AATATAAATATAAATATATAATATTTTA
37930 AATATAAA-ATAA
1 AATATAAATATAA
37942 TAAAAAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.04
27 23 0.41
28 5 0.09
29 10 0.18
30 13 0.23
31 1 0.02
32 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AATATAAATATAAATATATAATATTTTA
Found at i:38593 original size:20 final size:19
Alignment explanation
Indices: 38565--38603 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
38555 ATTATTAAAT
38565 TTAAATAAAAAATGTATTTA
1 TTAAATAAAAAATG-ATTTA
* *
38585 TTAATTAAACAATGATTTA
1 TTAAATAAAAAATGATTTA
38604 ATATTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
TTAAATAAAAAATGATTTA
Found at i:39329 original size:14 final size:15
Alignment explanation
Indices: 39303--39331 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39293 ATTTTTATAA
39303 AAAATTATAAATATT
1 AAAATTATAAATATT
39318 AAAATT-TAAATATT
1 AAAATTATAAATATT
39332 GAATTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:40191 original size:19 final size:18
Alignment explanation
Indices: 40167--40211 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
40157 AAATCATAAA
*
40167 ATTTTATATATAAATTTAT
1 ATTTTATATA-AAACTTAT
*
40186 ATTTTA-ATAATACTTAT
1 ATTTTATATAAAACTTAT
40203 ATTTTATAT
1 ATTTTATAT
40212 TGTTAAGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATATAAAACTTAT
Found at i:40993 original size:2 final size:2
Alignment explanation
Indices: 40988--41030 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
40978 TCTCTCTCTC
40988 TA TA TA 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 TA TA TA
41030 T
1 T
41031 GAAACTGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41199 original size:24 final size:24
Alignment explanation
Indices: 41169--41216 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
41159 TATAAAATTA
*
41169 AAATAAT-TTTTATTATTTTATTTT
1 AAATAATATTTCA-TATTTTATTTT
41193 AAATAATATTTCATATTTTATTTT
1 AAATAATATTTCATATTTTATTTT
41217 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
AAATAATATTTCATATTTTATTTT
Found at i:45156 original size:12 final size:12
Alignment explanation
Indices: 45139--45163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45129 TAAGAAATAA
45139 AATATATTTTTT
1 AATATATTTTTT
45151 AATATATTTTTT
1 AATATATTTTTT
45163 A
1 A
45164 TTTTTTTATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATATTTTTT
Found at i:48664 original size:2 final size:2
Alignment explanation
Indices: 48653--48691 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
48643 TTGAAGCATG
*
48653 AT AT -T AT AT AT AC 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
48692 GTAAAGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49433 original size:15 final size:15
Alignment explanation
Indices: 49410--49471 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
49400 ACGTAAATCT
*
49410 TTTCTTCTTCTTTTA
1 TTTCCTCTTCTTTTA
*
49425 TTTCCTCTTCTTTCTTT
1 TTTCCTCTTC-TT-TTA
*
49442 TTTCCT-TTCCTTTA
1 TTTCCTCTTCTTTTA
49456 CTTTCCTCTTTCTTTT
1 -TTTCCTC-TTCTTTT
49472 GTTCTCTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
14 2 0.05
15 16 0.43
16 5 0.14
17 14 0.38
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCCTCTTCTTTTA
Found at i:49440 original size:22 final size:23
Alignment explanation
Indices: 49414--49466 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
49404 AAATCTTTTC
49414 TTCTTCTTTT-ATTTCCTCTT-CT
1 TTCTTCTTTTCATTTCCT-TTACT
*
49436 TTCTT-TTTTCCTTTCCTTTACT
1 TTCTTCTTTTCATTTCCTTTACT
*
49458 TTCCTCTTT
1 TTCTTCTTT
49467 CTTTTGTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.23
22 17 0.65
23 3 0.12
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (23 bp):
TTCTTCTTTTCATTTCCTTTACT
Found at i:50171 original size:5 final size:5
Alignment explanation
Indices: 50151--50201 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
50141 TATCTCATAT
50151 TTATA TTAT- TT-T- TTATA TTATAA TTATA TT-TA TTATA TTATA -TA-A
1 TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA
50196 TTATA T
1 TTATA T
50202 AAATTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
3 4 0.10
4 11 0.28
5 20 0.50
6 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:50214 original size:22 final size:22
Alignment explanation
Indices: 50151--50232 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 22
50141 TATCTCATAT
* *
50151 TTATATTATTTTTTATATTATAA
1 TTATATTAATTTTAATA-TATAA
* * *
50174 TTATATTTATTATATTATATAA
1 TTATATTAATTTTAATATATAA
*
50196 TTATATAAATTTTAATATATCAA
1 TTATATTAATTTTAATATAT-AA
*
50219 TAAT-TTATATTTTA
1 TTATATTA-ATTTTA
50233 TAAATTTTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 23 0.50
23 23 0.50
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATTAATTTTAATATATAA
Found at i:50286 original size:39 final size:38
Alignment explanation
Indices: 50243--50320 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
50233 TAAATTTTAA
**
50243 TATATCCATATCATATTTATTTTATTTTTTATATAATAT
1 TATATCCATATCATATTTAAATTATTTTTT-TATAATAT
*** *
50282 TATATTTTTATCATATTTAAATTATTTTTTTATATTAT
1 TATATCCATATCATATTTAAATTATTTTTTTATAATAT
50320 T
1 T
50321 TGATTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 8 0.24
39 25 0.76
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (38 bp):
TATATCCATATCATATTTAAATTATTTTTTTATAATAT
Found at i:50317 original size:19 final size:21
Alignment explanation
Indices: 50260--50317 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
50250 ATATCATATT
*
50260 TATTTTATTTTTTATA--TAA
1 TATTATATTTTTTATATTTAA
50279 TATTATATTTTTATCATATTTAA
1 TATTATATTTTT-T-ATATTTAA
50302 -ATTAT-TTTTTTATATT
1 TATTATATTTTTTATATT
50318 ATTTGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 16 0.47
20 2 0.06
21 8 0.24
22 5 0.15
23 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATATTTTTTATATTTAA
Found at i:50320 original size:22 final size:23
Alignment explanation
Indices: 50259--50321 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
50249 CATATCATAT
*
50259 TTATTTTATTT-T-TTATATAATA
1 TTATTTT-TTTATATTATTTAATA
*
50281 TTATATTTTTATCA-TATTTAA-A
1 TTATTTTTTTAT-ATTATTTAATA
50303 TTATTTTTTTATATTATTT
1 TTATTTTTTTATATTATTT
50322 GATTAATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 4 0.12
22 24 0.71
23 6 0.18
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTATTTTTTTATATTATTTAATA
Found at i:50801 original size:7 final size:7
Alignment explanation
Indices: 50768--50804 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
50758 CTTGCTTTTA
50768 AAAATTT
1 AAAATTT
*
50775 AAATTTT
1 AAAATTT
50782 AAAA-TT
1 AAAATTT
50788 -AAATTT
1 AAAATTT
50794 AAAATTT
1 AAAATTT
50801 AAAA
1 AAAA
50805 ATAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
5 3 0.12
6 4 0.15
7 19 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:50802 original size:13 final size:14
Alignment explanation
Indices: 50763--50803 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
50753 CGTTACTTGC
50763 TTTTAAAAATTTAAA
1 TTTT-AAAATTTAAA
50778 TTTTAAAA-TTAAA
1 TTTTAAAATTTAAA
50791 -TTTAAAATTTAAA
1 TTTTAAAATTTAAA
50804 AATAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.28
13 10 0.40
14 4 0.16
15 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTTAAAATTTAAA
Found at i:50824 original size:14 final size:15
Alignment explanation
Indices: 50805--50842 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
50795 AAATTTAAAA
50805 ATAATATAAAT-TAT
1 ATAATATAAATATAT
50819 ATAATA-AAATATAT
1 ATAATATAAATATAT
50833 ATAAATATAA
1 AT-AATATAA
50843 TATTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 11 0.52
15 4 0.19
16 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATAAATATAT
Found at i:50955 original size:16 final size:17
Alignment explanation
Indices: 50930--50984 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 17
50920 ATTAATTTAA
*
50930 AATTTAAAATTTT-ATT
1 AATTTTAAATTTTAATT
50946 AATTTTAAATATTTAATT
1 AATTTTAAAT-TTTAATT
* *
50964 -ATATTGAATTTTAATT
1 AATTTTAAATTTTAATT
50980 AATTT
1 AATTT
50985 GTATAATGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 16 0.50
17 13 0.41
18 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
AATTTTAAATTTTAATT
Found at i:50963 original size:23 final size:23
Alignment explanation
Indices: 50917--50977 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
50907 ACTTAAAGTA
50917 TTTATTAA-TTTAAAATTTAAAAT
1 TTTATTAATTTTAAAATTT-AAAT
50940 TTTATTAATTTTAAATATTT-AAT
1 TTTATTAATTTTAAA-ATTTAAAT
*
50963 TATATTGAATTTTAA
1 TTTATT-AATTTTAA
50978 TTAATTTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 16 0.47
24 14 0.41
25 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATTAATTTTAAAATTTAAAT
Found at i:51747 original size:17 final size:16
Alignment explanation
Indices: 51720--51769 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
51710 ATAAAAATTT
51720 AATTAATTAAATAATA
1 AATTAATTAAATAATA
*
51736 AATTACATTAAATTAT-
1 AATTA-ATTAAATAATA
51752 AA-TAATTCAAATAA-A
1 AATTAATT-AAATAATA
51767 AAT
1 AAT
51770 AACTTACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
16 7 0.25
17 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAATTAAATAATA
Found at i:52751 original size:18 final size:18
Alignment explanation
Indices: 52728--52763 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52718 TTCAAATTTG
52728 TTTATATATATATATATT
1 TTTATATATATATATATT
52746 TTTATATATATATATATT
1 TTTATATATATATATATT
52764 ATTTTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATATATATATATT
Found at i:56211 original size:6 final size:6
Alignment explanation
Indices: 56200--56233 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
56190 TTTATTATTT
56200 AAATAA AAATAA AAATAA AAATAA AAAGTAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA-TAA AAA
56234 AATTATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:58921 original size:43 final size:43
Alignment explanation
Indices: 58873--58960 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
58863 AATGATGTCC
58873 CTTCCTCTTTCTTTCATATCTAGTTAGATATGCACTTTTTTAA
1 CTTCCTCTTTCTTTCATATCTAGTTAGATATGCACTTTTTTAA
*
58916 CTTCCTCTTTCTTTCATATCTGGTTAGATATGCACTTTTTTAA
1 CTTCCTCTTTCTTTCATATCTAGTTAGATATGCACTTTTTTAA
58959 CT
1 CT
58961 GAGGCTTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (43 bp):
CTTCCTCTTTCTTTCATATCTAGTTAGATATGCACTTTTTTAA
Found at i:60488 original size:17 final size:17
Alignment explanation
Indices: 60466--60499 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60456 AGTTTTGAGT
60466 CATGCATAAGCCAGTTA
1 CATGCATAAGCCAGTTA
60483 CATGCATAAGCCAGTTA
1 CATGCATAAGCCAGTTA
60500 TTAATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
CATGCATAAGCCAGTTA
Found at i:72174 original size:23 final size:23
Alignment explanation
Indices: 72128--72174 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
72118 ATTATTATTA
**
72128 TAAATTATTTTTAATTTTTTTAT
1 TAAATTATTTTTAATTTTCATAT
72151 TAAATTATTTTTCAA-TTTCATAT
1 TAAATTATTTTT-AATTTTCATAT
72174 T
1 T
72175 CATTATATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TAAATTATTTTTAATTTTCATAT
Found at i:72665 original size:9 final size:10
Alignment explanation
Indices: 72649--72674 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
72639 TATCTTGCTA
72649 TAAAAAAATT
1 TAAAAAAATT
72659 TAAAAAAATT
1 TAAAAAAATT
72669 TAAAAA
1 TAAAAA
72675 TTAAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:73080 original size:26 final size:27
Alignment explanation
Indices: 73035--73087 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
73025 AAAATTAAAT
73035 TAATTATAGATAAAATATTTATATTTA
1 TAATTATAGATAAAATATTTATATTTA
73062 TAATTATA-ATAATAA-ATTTATATTTA
1 TAATTATAGATAA-AATATTTATATTTA
73088 GTGTTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TAATTATAGATAAAATATTTATATTTA
Found at i:73132 original size:18 final size:19
Alignment explanation
Indices: 73103--73139 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
73093 TTATCATTAT
*
73103 ATAAATTTATATAGTTTTA
1 ATAAATTTATATAATTTTA
73122 ATAAA-TTATATAATTTTA
1 ATAAATTTATATAATTTTA
73140 TTTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATAAATTTATATAATTTTA
Found at i:73179 original size:16 final size:16
Alignment explanation
Indices: 73158--73214 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
73148 AAAATAAGTT
73158 ATTTAT-TTATTTTATA
1 ATTTATATT-TTTTATA
73174 ATTTATATTTTTTATTA
1 ATTTATATTTTTTA-TA
**
73191 ATAAGATATTTTTATATA
1 AT-TTATATTTTT-TATA
73209 ATTTAT
1 ATTTAT
73215 TAATAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 11 0.33
17 8 0.24
18 12 0.36
19 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTATATTTTTTATA
Found at i:73179 original size:20 final size:21
Alignment explanation
Indices: 73151--73189 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
73141 TTATTAAAAA
73151 ATAAGTTAT-TTATTTATTTT
1 ATAAGTTATATTATTTATTTT
* *
73171 ATAATTTATATTTTTTATT
1 ATAAGTTATATTATTTATT
73190 AATAAGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
ATAAGTTATATTATTTATTTT
Found at i:76145 original size:27 final size:27
Alignment explanation
Indices: 76107--76169 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
76097 AGCTTTAGAT
* *
76107 GAGGATGCTCTTGGTATCATAACACTG
1 GAGGATGTTCTTCGTATCATAACACTG
*
76134 GAGGATGTTCTTCGTATCATTACACTG
1 GAGGATGTTCTTCGTATCATAACACTG
76161 GAGGATGTT
1 GAGGATGTT
76170 ATGGAGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (27 bp):
GAGGATGTTCTTCGTATCATAACACTG
Found at i:77646 original size:26 final size:27
Alignment explanation
Indices: 77592--77646 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
77582 CCCTTTCTTT
* * *
77592 AAATGTAATGATCATAAATTATGTGTA
1 AAATGTAATGAACATAAATTATATATA
*
77619 AAAT-TAATGAACATAAATTTTATATA
1 AAATGTAATGAACATAAATTATATATA
77645 AA
1 AA
77647 CAAATAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (27 bp):
AAATGTAATGAACATAAATTATATATA
Found at i:77725 original size:27 final size:28
Alignment explanation
Indices: 77678--77730 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
77668 CATTACTAAA
77678 ATTTTTAAAAATTAAAATTT-ATTTATT
1 ATTTTTAAAAATTAAAATTTAATTTATT
* *
77705 ATTTTTTAAAA-TAAATTTTTAATTTA
1 ATTTTTAAAAATTAAA-ATTTAATTTA
77731 ATTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
27 13 0.59
28 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTTTAAAAATTAAAATTTAATTTATT
Found at i:79211 original size:15 final size:15
Alignment explanation
Indices: 79181--79230 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
79171 TTCTGCTGGC
* *
79181 TTCTTCGGCTCCTCT
1 TTCTTGGGCTCTTCT
*
79196 TTCTTGGGTTCTTCT
1 TTCTTGGGCTCTTCT
79211 TTCTTGGGCTCTTCT
1 TTCTTGGGCTCTTCT
79226 TTCTT
1 TTCTT
79231 CTTCTCTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (15 bp):
TTCTTGGGCTCTTCT
Found at i:81320 original size:12 final size:12
Alignment explanation
Indices: 81295--81374 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 12
81285 TATTTTAATA
81295 TATTTTA-ATATT
1 TATTTTATAT-TT
81307 TATTTTATATTT
1 TATTTTATATTT
*
81319 TATGTTAT-TTT
1 TATTTTATATTT
* *
81330 TATATTATTTTT
1 TATTTTATATTT
*
81342 TAAATATTTAAATTT
1 T--AT-TTTATATTT
* *
81357 AAATTTATATTT
1 TATTTTATATTT
81369 TATTTT
1 TATTTT
81375 TAAATGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
11 10 0.19
12 32 0.60
13 3 0.06
14 2 0.04
15 6 0.11
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:81506 original size:15 final size:16
Alignment explanation
Indices: 81486--81515 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
81476 TATTAATAAT
81486 TTTAATT-TTTTTAAG
1 TTTAATTATTTTTAAG
81501 TTTAATTATTTTTAA
1 TTTAATTATTTTTAA
81516 ATGATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTAATTATTTTTAAG
Found at i:81611 original size:18 final size:19
Alignment explanation
Indices: 81590--81645 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 19
81580 TATTTAAAAA
81590 ATTTTAAATAAA-ATTTTT
1 ATTTTAAATAAATATTTTT
81608 ATTTT--ATAAATTATTTTT
1 ATTTTAAATAAA-TATTTTT
81626 ATTTTTAAATAATATATTTT
1 A-TTTTAAATAA-ATATTTT
81646 AAAATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.16
18 12 0.38
19 4 0.12
21 10 0.31
22 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTAAATAAATATTTTT
Found at i:84156 original size:23 final size:23
Alignment explanation
Indices: 84126--84170 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
84116 AATAATAGTT
*
84126 ATTATTATT-TATTATATTTTTAA
1 ATTATTATTATA-AATATTTTTAA
84149 ATTATTATTATAAATATTTTTA
1 ATTATTATTATAAATATTTTTA
84171 TGCAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTATTATTATAAATATTTTTAA
Found at i:84896 original size:15 final size:15
Alignment explanation
Indices: 84872--84907 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
84862 TTCTGCTGGC
84872 TTCTTCGGCTCCTCT
1 TTCTTCGGCTCCTCT
* *
84887 TTCTTGGGCTCTTCT
1 TTCTTCGGCTCCTCT
84902 TTCTTC
1 TTCTTC
84908 TTCTCTGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.33, G:0.14, T:0.53
Consensus pattern (15 bp):
TTCTTCGGCTCCTCT
Found at i:86072 original size:18 final size:17
Alignment explanation
Indices: 86030--86076 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
86020 AAATATATTT
86030 TTAAAATTTATATAATA
1 TTAAAATTTATATAATA
*
86047 TT--AA-TTATTTACATA
1 TTAAAATTTATATA-ATA
86062 TTAAAATTTATATAA
1 TTAAAATTTATATAA
86077 AAATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
17 5 0.21
18 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAATTTATATAATA
Found at i:86296 original size:30 final size:31
Alignment explanation
Indices: 86257--86365 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 31
86247 ATTTATAAAT
86257 TTTATTATAATTTTAATTTAAATATTA-TATA
1 TTTA-TATAATTTTAATTTAAATATTATTATA
* * * *
86288 TTTATATAAATTTAA-ATATGATATTATTTTA
1 TTTATATAATTTTAATTTA-AATATTATTATA
*
86319 TTTATAT-ATTTT--TTAAAATATATATTCATA
1 TTTATATAATTTTAATTTAAATAT-TATT-ATA
86349 TTTAT-TATATTTTAATT
1 TTTATATA-ATTTTAATT
86366 ATTTTATAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
28 4 0.07
29 8 0.13
30 27 0.45
31 19 0.32
33 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
TTTATATAATTTTAATTTAAATATTATTATA
Found at i:86300 original size:31 final size:30
Alignment explanation
Indices: 86257--86364 Score: 76
Period size: 31 Copynumber: 3.5 Consensus size: 30
86247 ATTTATAAAT
*
86257 TTTATTATAATTTTAATTTAAATATTATATA
1 TTTATTA-AATTTTAATATAAATATTATATA
* * *
86288 TTTATATAAATTTAAATAT-GATATTATTTTA
1 TTTAT-TAAATTTTAATATAAATATTA-TATA
** * * *
86319 TTTATATATTTTTTAAAATATATATT-CATA
1 TTTAT-TAAATTTTAATATAAATATTATATA
*
86349 TTTATTATATTTTAAT
1 TTTATTAAATTTTAAT
86365 TATTTTATAA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
29 9 0.15
30 13 0.21
31 32 0.52
32 7 0.11
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTATTAAATTTTAATATAAATATTATATA
Found at i:86371 original size:38 final size:39
Alignment explanation
Indices: 86248--86401 Score: 104
Period size: 39 Copynumber: 3.9 Consensus size: 39
86238 TCGCATTATA
* * *
86248 TTTATAAATTTTATTATAAT-TTTAATTTAAATATTATATATT
1 TTTATAAATTATATT-TAATATTT-A-TTATATTTTATAT-TT
* * * * *
86290 TATATAAATTTAAATATGATA-TTATTTTATTTATATATTT
1 TTTATAAA-TTATATTTAATATTTATTATATTT-TATATTT
*
86330 TTTA-AAA-TATATATTCATATTTATTATATTTTA-ATTAT
1 TTTATAAATTATAT-TTAATATTTATTATATTTTATATT-T
*
86368 TTTATAAATTATATTTAATATTT-TTAAATTTTAT
1 TTTATAAATTATATTTAATATTTATTATATTTTAT
86402 TAGGTTACGT
Statistics
Matches: 88, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
37 7 0.08
38 20 0.23
39 24 0.27
40 15 0.17
41 6 0.07
42 12 0.14
43 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.59
Consensus pattern (39 bp):
TTTATAAATTATATTTAATATTTATTATATTTTATATTT
Found at i:86401 original size:22 final size:23
Alignment explanation
Indices: 86352--86402 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 23
86342 ATTCATATTT
86352 ATTATATTTTAATTATTTTATAA
1 ATTATATTTTAATTATTTTATAA
86375 ATTATA-TTTAA-TATTTT-TAA
1 ATTATATTTTAATTATTTTATAA
*
86395 ATTTTATT
1 ATTATATT
86403 AGGTTACGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 5 0.19
23 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTATATTTTAATTATTTTATAA
Found at i:88020 original size:15 final size:14
Alignment explanation
Indices: 87977--88020 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
87967 ATATATTATT
*
87977 ATTTAATTAAATAA
1 ATTTATTTAAATAA
* *
87991 ATTTATTTTATTAA
1 ATTTATTTAAATAA
88005 ATTATATTTAAATAA
1 ATT-TATTTAAATAA
88020 A
1 A
88021 AATAATTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTATTTAAATAA
Found at i:88199 original size:3 final size:3
Alignment explanation
Indices: 88191--88225 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
88181 AGGCTGATGC
88191 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
88226 CATCATCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:88753 original size:16 final size:17
Alignment explanation
Indices: 88720--88758 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
88710 AATTATTAAT
* *
88720 TTATTTATATTTTGATA
1 TTATTTATATATTCATA
88737 -TATTTATATATTCATA
1 TTATTTATATATTCATA
88753 TTATTT
1 TTATTT
88759 TTTATTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATTTATATATTCATA
Found at i:88868 original size:16 final size:15
Alignment explanation
Indices: 88836--88878 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
88826 GTTGGAGGTT
*
88836 TTAATAAAATTTTTAA
1 TTAATAAAA-TTATAA
88852 TTAAATAAAATTATAA
1 TT-AATAAAATTATAA
88868 TTAATAAAATT
1 TTAATAAAATT
88879 TATTTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 9 0.36
17 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAAAATTATAA
Found at i:88881 original size:16 final size:16
Alignment explanation
Indices: 88836--88881 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
88826 GTTGGAGGTT
*
88836 TTAATAAAATTTTTAA
1 TTAATAAAATTTATAA
88852 TTAAATAAAA-TTATAA
1 TT-AATAAAATTTATAA
88868 TTAATAAAATTTAT
1 TTAATAAAATTTAT
88882 TTAGAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 7 0.26
16 13 0.48
17 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAATAAAATTTATAA
Found at i:89076 original size:18 final size:18
Alignment explanation
Indices: 89050--89088 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
89040 AACATGTAAA
*
89050 TATTTATATA-AAACTAAT
1 TATTAATATATAAA-TAAT
89068 TATTAATATATAAATAAT
1 TATTAATATATAAATAAT
89086 TAT
1 TAT
89089 ATAAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAATATATAAATAAT
Found at i:89328 original size:19 final size:20
Alignment explanation
Indices: 89304--89347 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
89294 ATTAAAATAA
* *
89304 TATTTTTTTATTTTTA-TTT
1 TATTTTTTAACTTTTAGTTT
89323 TA-TTTTTAACTTTTAGTTT
1 TATTTTTTAACTTTTAGTTT
89342 TATTTT
1 TATTTT
89348 AAAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 11 0.52
19 7 0.33
20 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TATTTTTTAACTTTTAGTTT
Found at i:92104 original size:17 final size:19
Alignment explanation
Indices: 92075--92113 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
92065 AATTTATTCA
92075 TAAATTATATTATTTG-TT
1 TAAATTATATTATTTGATT
92093 TAAATT-TATTATTTGATT
1 TAAATTATATTATTTGATT
92111 TAA
1 TAA
92114 TAAGTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TAAATTATATTATTTGATT
Found at i:92977 original size:15 final size:15
Alignment explanation
Indices: 92940--92979 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
92930 ATATATTTAT
*
92940 ATTATTAATAATTAA
1 ATTATTTATAATTAA
*
92955 ATTTATTTATGATTAA
1 A-TTATTTATAATTAA
92971 ATTATTTAT
1 ATTATTTAT
92980 TAAGATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTATTTATAATTAA
Found at i:93035 original size:21 final size:21
Alignment explanation
Indices: 93011--93083 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
93001 ATTTTTTTAA
* *
93011 ATTTAAATAATTTAAATAATT
1 ATTTAAATAAATTAAATAAAT
* *
93032 ATTTAATTAAATTATATAAAT
1 ATTTAAATAAATTAAATAAAT
** * *
93053 ATTTTTA-AAATTATTATTAAT
1 ATTTAAATAAATTA-AATAAAT
93074 ATTTAAATAA
1 ATTTAAATAA
93084 TAATTTAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
20 6 0.15
21 32 0.80
22 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAAATAAATTAAATAAAT
Found at i:93037 original size:12 final size:12
Alignment explanation
Indices: 93020--93094 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 12
93010 AATTTAAATA
93020 ATTTAAATAATT
1 ATTTAAATAATT
*
93032 ATTTAATTAAATT
1 ATTTAAAT-AATT
*
93045 ATATAAAT-ATT
1 ATTTAAATAATT
93056 -TTT-AA-AATT
1 ATTTAAATAATT
*
93065 A-TT-ATTAA-T
1 ATTTAAATAATT
*
93074 ATTTAAATAATA
1 ATTTAAATAATT
93086 ATTTAAATA
1 ATTTAAATA
93095 TAAAAAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
9 10 0.20
10 6 0.12
11 7 0.14
12 16 0.33
13 10 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTAAATAATT
Found at i:93064 original size:25 final size:26
Alignment explanation
Indices: 93004--93065 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
92994 AGATGTAATT
* *
93004 TTTTTAAATTTAAATAATTTAAATAA
1 TTTTTAAAATTAAATAATATAAATAA
*
93030 TTATTT--AATTAAATTATATAAAT-A
1 TT-TTTAAAATTAAATAATATAAATAA
93054 TTTTTAAAATTA
1 TTTTTAAAATTA
93066 TTATTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
23 3 0.10
24 3 0.10
25 19 0.63
26 2 0.07
27 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTTAAAATTAAATAATATAAATAA
Found at i:93828 original size:24 final size:24
Alignment explanation
Indices: 93764--93828 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
93754 TTTAATGTTT
*
93764 ATTAAAAA-TATTTTATAAATAAA
1 ATTAAAAATTATTTAATAAATAAA
** *
93787 ATTTTAAATTCATCTAAT-AATAAA
1 ATTAAAAATT-ATTTAATAAATAAA
93811 ATTAAAAATTAATTTAAT
1 ATTAAAAATT-ATTTAAT
93829 TGACTACTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
23 6 0.19
24 21 0.66
25 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTAAAAATTATTTAATAAATAAA
Done.