Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold401
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: 1910012
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 13
Found at i:848 original size:16 final size:16
Alignment explanation
Indices: 829--885 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
819 ATTAGTATAT
829 TTTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
** * *
845 TTTTTTATTTAATTTT
1 TTTTAAATTTAAATTA
*
861 TTTTAAAATTTAAGTTA
1 TTTT-AAATTTAAATTA
878 TTTTAAAT
1 TTTTAAAT
886 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTAAATTTAAATTA
Found at i:848 original size:17 final size:17
Alignment explanation
Indices: 826--885 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
816 TTAATTAGTA
826 TATTTTTAAATTTAAAT
1 TATTTTTAAATTTAAAT
*
843 TATTTTT-TATTT-AAT
1 TATTTTTAAATTTAAAT
* *
858 TTTTTTTAAAATTTAAGT
1 TATTTTT-AAATTTAAAT
876 TA-TTTTAAAT
1 TATTTTTAAAT
886 ATATTTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 9 0.26
16 8 0.23
17 15 0.43
18 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTTTAAATTTAAAT
Found at i:892 original size:32 final size:32
Alignment explanation
Indices: 828--893 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
818 AATTAGTATA
** *
828 TTTTTAAATTTAAATTATTTTTTATTTAATTT
1 TTTTTAAATTTAAATTATTTTAAATATAATTT
*
860 TTTTTAAAATTTAAGTTATTTTAAATAT-ATTT
1 TTTTT-AAATTTAAATTATTTTAAATATAATTT
892 TT
1 TT
894 AAATTTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (32 bp):
TTTTTAAATTTAAATTATTTTAAATATAATTT
Found at i:1101 original size:23 final size:21
Alignment explanation
Indices: 1079--1118 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1069 TTTATGTATT
*
1079 TATTTTTT-TTTTA-ATATAA
1 TATTTTTTATTTTATAAATAA
1098 TATTTTTTATTTTATAAATAA
1 TATTTTTTATTTTATAAATAA
1119 AAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTTTATTTTATAAATAA
Found at i:1552 original size:28 final size:27
Alignment explanation
Indices: 1520--1633 Score: 83
Period size: 27 Copynumber: 4.2 Consensus size: 27
1510 TAAAAATAAA
*
1520 AAAAAAAT-TCAGATAATTATAAAAAATT
1 AAAAAAATCT-AGAAAATTAT-AAAAATT
* *
1548 TAAAAAATCTATAAAATTATAAAAATT
1 AAAAAAATCTAGAAAATTATAAAAATT
* * *
1575 AAAAAAAAT-TAAAAAAGTA-AAATAA-A
1 -AAAAAAATCTAGAAAATTATAAA-AATT
*
1601 AATAAAAATCTATAAAATTATAAAAATT
1 AA-AAAAATCTAGAAAATTATAAAAATT
*
1629 TAAAA
1 AAAAA
1634 TAAAAATTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.03
26 9 0.13
27 30 0.44
28 26 0.38
29 1 0.01
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAAAATCTAGAAAATTATAAAAATT
Found at i:1553 original size:10 final size:9
Alignment explanation
Indices: 1520--1590 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
1510 TAAAAATAAA
1520 AAAAAAATT
1 AAAAAAATT
* * *
1529 CAGATAATT
1 AAAAAAATT
1538 ATAAAAAATT
1 A-AAAAAATT
*
1548 TAAAAAATCT
1 AAAAAAAT-T
*
1558 -ATAAAATT
1 AAAAAAATT
*
1566 ATAAAAATT
1 AAAAAAATT
1575 AAAAAAAATT
1 -AAAAAAATT
1585 AAAAAA
1 AAAAAA
1591 GTAAAATAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
8 1 0.02
9 31 0.66
10 15 0.32
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAAAATT
Found at i:1568 original size:8 final size:8
Alignment explanation
Indices: 1551--1715 Score: 59
Period size: 9 Copynumber: 20.5 Consensus size: 8
1541 AAAAATTTAA
1551 AAAATCTAT
1 AAAAT-TAT
1560 AAAATTAT
1 AAAATTAT
*
1568 AAAAATTAAAA
1 -AAAATT--AT
1579 AAAATTA-
1 AAAATTAT
1586 AAAA--AGT
1 AAAATTA-T
1593 AAAA-TA-
1 AAAATTAT
1599 AAAA-TA-
1 AAAATTAT
1605 AAAATCTAT
1 AAAAT-TAT
1614 AAAATTAT
1 AAAATTAT
1622 AAAAATT-T
1 -AAAATTAT
1630 AAAA-TA-
1 AAAATTAT
1636 AAAATTA-
1 AAAATTAT
*
1643 ATAAATTTT
1 A-AAATTAT
1652 AAAATATCTAT
1 -AAA-AT-TAT
1663 AAAATTAT
1 AAAATTAT
1671 AAAAATTAT
1 -AAAATTAT
1680 ATAGAA-TA-
1 A-A-AATTAT
** *
1688 AAAAAAAG
1 AAAATTAT
1696 AAAATTAT
1 AAAATTAT
*
1704 TAAATTAT
1 AAAATTAT
1712 AAAA
1 AAAA
1716 AATGTATAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 45
0.70 0.05 0.25
Matches are distributed among these distances:
5 1 0.01
6 17 0.14
7 17 0.14
8 36 0.29
9 37 0.30
10 14 0.11
11 3 0.02
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATTAT
Found at i:1575 original size:37 final size:35
Alignment explanation
Indices: 1534--1680 Score: 112
Period size: 36 Copynumber: 4.2 Consensus size: 35
1524 AAATTCAGAT
1534 AATTATAAAAAATTTAAAAAATCTATAAAATTATAAA
1 AATTATAAAAAATTTAAAAAATCTATAAAA--ATAAA
* **
1571 AATTA-AAAAAAATTAAAAAAGTAAAATAAAAATAAA
1 AATTATAAAAAATTTAAAAAA-T-CTATAAAAATAAA
1607 AATCTAT--AAAA-TTATAAAAAT-T-T-AAAATAAA
1 AAT-TATAAAAAATTTA-AAAAATCTATAAAAATAAA
* * *
1638 AATTA-ATAAATTTTAAAATATCTATAAAATTATAAA
1 AATTATAAAAAATTTAAAAAATCTATAAAA--ATAAA
1674 AATTATA
1 AATTATA
1681 TAGAATAAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 28
0.73 0.05 0.23
Matches are distributed among these distances:
30 2 0.02
31 19 0.21
32 5 0.06
33 1 0.01
34 3 0.03
35 4 0.04
36 41 0.46
37 9 0.10
38 6 0.07
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (35 bp):
AATTATAAAAAATTTAAAAAATCTATAAAAATAAA
Found at i:1601 original size:19 final size:19
Alignment explanation
Indices: 1558--1608 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1548 TAAAAAATCT
*
1558 ATAAAATTATAAAAATTAAA
1 ATAAAATTA-AAAAAGTAAA
1578 A-AAAATTAAAAAAGTAAA
1 ATAAAATTAAAAAAGTAAA
*
1596 ATAAAAATAAAAA
1 ATAAAATTAAAAA
1609 TCTATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.36
19 17 0.61
20 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAATTAAAAAAGTAAA
Found at i:1601 original size:49 final size:47
Alignment explanation
Indices: 1539--1678 Score: 131
Period size: 54 Copynumber: 2.8 Consensus size: 47
1529 CAGATAATTA
*
1539 TAAAAAAT-TTAAAAAATCTATAAAATTATAAAAATTAAA-AAAAAT
1 TAAAAAATAATAAAAAATCTATAAAATTATAAAAATTAAATAAAAAT
1584 TAAAAAAGTAAAATAAAAATAAAAATCTATAAAATTATAAAAATTTAAAATAAAAAT
1 TAAAAAA-T--AAT----A-AAAAATCTATAAAATTATAAAAA-TT-AAATAAAAAT
* ** *
1641 TAATAAATTTTAAAATATCTATAAAATTATAAAAATTA
1 TAAAAAATAATAAAAAATCTATAAAATTATAAAAATTA
1679 TATAGAATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
45 7 0.09
46 1 0.01
47 1 0.01
48 2 0.03
49 23 0.29
50 1 0.01
53 1 0.01
54 24 0.31
55 2 0.03
56 4 0.05
57 12 0.15
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (47 bp):
TAAAAAATAATAAAAAATCTATAAAATTATAAAAATTAAATAAAAAT
Found at i:1626 original size:9 final size:9
Alignment explanation
Indices: 1534--1680 Score: 84
Period size: 9 Copynumber: 16.8 Consensus size: 9
1524 AAATTCAGAT
1534 AATTATAAAA
1 AATTAT-AAA
1544 AATT-TAAAA
1 AATTAT-AAA
1553 AATCTAT-AA
1 AAT-TATAAA
1562 AATTATAAA
1 AATTATAAA
*
1571 AATTAAAAAA
1 AATT-ATAAA
1581 AATTA-AAA
1 AATTATAAA
*
1589 AAGTA-AAA
1 AATTATAAA
**
1597 TAAAAATAAA
1 -AATTATAAA
1607 AATCTAT-AA
1 AAT-TATAAA
1616 AATTATAAA
1 AATTATAAA
1625 AATT-T--A
1 AATTATAAA
1631 AA--ATAAA
1 AATTATAAA
*
1638 AATTA-ATA
1 AATTATAAA
*
1646 AATTTTAAA
1 AATTATAAA
1655 ATATCTAT-AA
1 A-AT-TATAAA
1665 AATTATAAA
1 AATTATAAA
1674 AATTATA
1 AATTATA
1681 TAGAATAAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 35
0.71 0.06 0.23
Matches are distributed among these distances:
5 1 0.01
6 3 0.03
7 3 0.03
8 26 0.24
9 51 0.46
10 23 0.21
11 3 0.03
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:1642 original size:22 final size:22
Alignment explanation
Indices: 1614--1657 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1604 AAAAATCTAT
1614 AAAATT-ATAAAAATTTAAAATA
1 AAAATTAAT-AAAATTTAAAATA
*
1636 AAAATTAATAAATTTTAAAATA
1 AAAATTAATAAAATTTAAAATA
1658 TCTATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATTAATAAAATTTAAAATA
Found at i:1713 original size:49 final size:47
Alignment explanation
Indices: 1605--1715 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 47
1595 AATAAAAATA
* *
1605 AAAATCTATAAAATTATAAAAATTTAAAATAAAAATTAATAAATTTT
1 AAAATCTATAAAATTATAAAAATTTAAAATAAAAATAAAAAAATTTT
1652 AAAATATCTATAAAATTATAAAAATTATATAGAATAAAAA-AAAGAAAATTATT
1 -AAA-ATCTATAAAATTATAAAAATT-TA-A-AATAAAAATAAA-AAAATT-TT
1705 -AAAT-TATAAAA
1 AAAATCTATAAAA
1716 AATGTATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
48 3 0.05
49 28 0.51
50 4 0.07
51 5 0.09
52 13 0.24
53 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (47 bp):
AAAATCTATAAAATTATAAAAATTTAAAATAAAAATAAAAAAATTTT
Found at i:1816 original size:30 final size:29
Alignment explanation
Indices: 1760--1817 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1750 AATTTAATAG
* *
1760 ATTTGTATAGTTTTTTAATTTTAATTTTA
1 ATTTGTATAATTTTTTAATTTAAATTTTA
1789 ATTT-TATAATTTTTTGAAATTTAAATTTT
1 ATTTGTATAATTTTTT--AATTTAAATTTT
1818 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 4 0.16
30 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (29 bp):
ATTTGTATAATTTTTTAATTTAAATTTTA
Found at i:1863 original size:8 final size:8
Alignment explanation
Indices: 1852--1954 Score: 70
Period size: 8 Copynumber: 12.8 Consensus size: 8
1842 TTCTTTTTTT
1852 TTTTTTAA
1 TTTTTTAA
1860 TTTTATATAA
1 TTTT-T-TAA
*
1870 TTTTTATAG
1 TTTTT-TAA
*
1879 TTTTATAGA
1 TTTTTTA-A
1888 TTTTTTAAA
1 TTTTTT-AA
1897 TTTTTTAA
1 TTTTTTAA
*
1905 -ATTTT-A
1 TTTTTTAA
1911 -TTTTTAA
1 TTTTTTAA
*
1918 -ATTTTAA
1 TTTTTTAA
*
1925 TTTTTAAA
1 TTTTTTAA
* *
1933 ATTTTTAT
1 TTTTTTAA
1941 TTTTTTAA
1 TTTTTTAA
1949 TTTTTT
1 TTTTTT
1955 TGAATTTTTG
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
6 5 0.07
7 11 0.15
8 30 0.40
9 21 0.28
10 8 0.11
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTTTTTAA
Found at i:1873 original size:19 final size:18
Alignment explanation
Indices: 1851--1909 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
1841 TTTCTTTTTT
1851 TTTTTTTAATTTTATATAA
1 TTTTTTTAATTTTATA-AA
* * *
1870 TTTTTATAGTTTTATAGA
1 TTTTTTTAATTTTATAAA
* *
1888 TTTTTTAAATTTTTTAAA
1 TTTTTTTAATTTTATAAA
1906 TTTT
1 TTTT
1910 ATTTTTAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTTTAATTTTATAAA
Found at i:1893 original size:11 final size:9
Alignment explanation
Indices: 1851--1963 Score: 50
Period size: 9 Copynumber: 13.6 Consensus size: 9
1841 TTTCTTTTTT
*
1851 TTTTTTTAA
1 TTTTTTAAA
*
1860 TTTTATATAA
1 TTTTTTA-AA
*
1870 -TTTTTATAG
1 TTTTTTA-AA
* *
1879 TTTTATAGA
1 TTTTTTAAA
1888 TTTTTTAAA
1 TTTTTTAAA
1897 TTTTTTAAA
1 TTTTTTAAA
1906 --TTTT--A
1 TTTTTTAAA
1911 -TTTTTAAA
1 TTTTTTAAA
1919 --TTTT-AA
1 TTTTTTAAA
1925 -TTTTTAAA
1 TTTTTTAAA
* *
1933 ATTTTT-AT
1 TTTTTTAAA
*
1941 TTTTTTAAT
1 TTTTTTAAA
*
1950 TTTTTTGAA
1 TTTTTTAAA
1959 TTTTT
1 TTTTT
1964 GGAATTAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 18
0.73 0.12 0.16
Matches are distributed among these distances:
5 1 0.01
6 6 0.07
7 12 0.15
8 9 0.11
9 47 0.57
10 7 0.09
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:1929 original size:15 final size:15
Alignment explanation
Indices: 1890--1952 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
1880 TTTATAGATT
1890 TTTTAAATTTTTTAAA
1 TTTT-AATTTTTTAAA
1906 TTTT-A-TTTTTAAA
1 TTTTAATTTTTTAAA
*
1919 TTTTAATTTTTAAAA
1 TTTTAATTTTTTAAA
* *
1934 TTTTTATTTTTTTAA
1 TTTTAATTTTTTAAA
1949 TTTT
1 TTTT
1953 TTTGAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 12 0.29
14 2 0.05
15 23 0.56
16 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAATTTTTTAAA
Found at i:2630 original size:28 final size:28
Alignment explanation
Indices: 2594--2675 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
2584 TAACTTAAAT
2594 TATT-ATTTATTAATAAAATAATTTTTA
1 TATTAATTTATTAATAAAATAATTTTTA
* *
2621 T-TTAAGTTTAATT-ATAAAATATATATTAA
1 TATTAA-TTT-ATTAATAAAATA-ATTTTTA
* *
2650 TATTAA-ATAATAATAAAATAATTTTT
1 TATTAATTTATTAATAAAATAATTTTT
2676 TAAAATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
26 2 0.05
27 8 0.19
28 20 0.47
29 9 0.21
30 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TATTAATTTATTAATAAAATAATTTTTA
Found at i:3854 original size:20 final size:20
Alignment explanation
Indices: 3829--3871 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3819 CATGACATGT
* *
3829 ATATAAAATATTTAATAAGC
1 ATATAAAATAATTAATAAAC
3849 ATATAAAATAATTAATAAAC
1 ATATAAAATAATTAATAAAC
3869 ATA
1 ATA
3872 GCGTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATAAAATAATTAATAAAC
Found at i:4178 original size:25 final size:25
Alignment explanation
Indices: 4132--4180 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4122 ATAATTATAA
*
4132 TTAAATATTTTTTATTTAATAATTC
1 TTAAATATTTTATATTTAATAATTC
4157 TTAAATA-TTTATATTTACATAATT
1 TTAAATATTTTATATTTA-ATAATT
4181 AATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAAATATTTTATATTTAATAATTC
Found at i:4186 original size:25 final size:25
Alignment explanation
Indices: 4133--4186 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
4123 TAATTATAAT
* **
4133 TAAATATTTTTTATTTAATAATTCT
1 TAAATATTTTATATTTAATAATTAA
4158 TAAATA-TTTATATTTACATAATTAA
1 TAAATATTTTATATTTA-ATAATTAA
4183 TAAA
1 TAAA
4187 ATAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAATATTTTATATTTAATAATTAA
Found at i:5542 original size:7 final size:7
Alignment explanation
Indices: 5525--5557 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
5515 TAAAAGATGT
5525 AATTT-A
1 AATTTAA
5531 AATTTAA
1 AATTTAA
5538 AATTTAA
1 AATTTAA
5545 AATTTAA
1 AATTTAA
*
5552 TATTTA
1 AATTTA
5558 TAATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
AATTTAA
Found at i:6614 original size:23 final size:23
Alignment explanation
Indices: 6559--6633 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
6549 AGAATTAAAG
6559 AATTAATATTTAAATTTTAAATTT
1 AATTAATA-TTAAATTTTAAATTT
*
6583 AA-TAGATATTATATTTTAAA-TT
1 AATTA-ATATTAAATTTTAAATTT
*
6605 AATTTAATA-TAAATTAATTAAATTA
1 AA-TTAATATTAAATT--TTAAATTT
6630 AATT
1 AATT
6634 CAAATTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
22 9 0.21
23 16 0.38
24 14 0.33
25 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
AATTAATATTAAATTTTAAATTT
Found at i:6619 original size:15 final size:14
Alignment explanation
Indices: 6598--6633 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
6588 ATATTATATT
*
6598 TTAAATTAATTTAA
1 TTAAATTAATTAAA
6612 TATAAATTAATTAAA
1 T-TAAATTAATTAAA
6627 TTAAATT
1 TTAAATT
6634 CAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATTAATTAAA
Found at i:7134 original size:2 final size:2
Alignment explanation
Indices: 7129--7158 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7119 AAATTTTTTA
7129 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
7159 GACTTGTATC
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:7541 original size:24 final size:21
Alignment explanation
Indices: 7507--7554 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
7497 ATAAAATAAA
7507 TTATAATTTAAAAATAAAAATT
1 TTATAATTT-AAAATAAAAATT
*
7529 TTATAAATATTAAAATTAAAATT
1 TTAT-AAT-TTAAAATAAAAATT
7552 TTA
1 TTA
7555 ATTTATTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATAATTTAAAATAAAAATT
Found at i:7804 original size:2 final size:2
Alignment explanation
Indices: 7797--7832 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7787 TTCTGAAGTA
7797 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
7833 TGTGGGAGAT
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:8076 original size:26 final size:29
Alignment explanation
Indices: 8047--8099 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
8037 TTAAACTTAC
*
8047 TTGTA-AAAATT-TTTTATT-AATAATGA
1 TTGTATAAAATTGTTTCATTAAATAATGA
8073 TTGTATAAAATTGTTTCATTAAATAAT
1 TTGTATAAAATTGTTTCATTAAATAAT
8100 TTCAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 6 0.26
28 6 0.26
29 6 0.26
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (29 bp):
TTGTATAAAATTGTTTCATTAAATAATGA
Found at i:8602 original size:13 final size:13
Alignment explanation
Indices: 8584--8618 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8574 TTAAGAATGC
8584 AAAAATTATCTTT
1 AAAAATTATCTTT
*
8597 AAAAATTATTTTT
1 AAAAATTATCTTT
*
8610 TAAAATTAT
1 AAAAATTAT
8619 ATTTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
AAAAATTATCTTT
Found at i:8623 original size:13 final size:13
Alignment explanation
Indices: 8585--8623 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
8575 TAAGAATGCA
* *
8585 AAAATTATCTTTA
1 AAAATTATATTTT
*
8598 AAAATTATTTTTT
1 AAAATTATATTTT
8611 AAAATTATATTTT
1 AAAATTATATTTT
8624 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATTATATTTT
Found at i:8623 original size:15 final size:14
Alignment explanation
Indices: 8584--8635 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 14
8574 TTAAGAATGC
*
8584 AAAAATTA-TCTTT
1 AAAAATTATTTTTT
8597 AAAAATTATTTTTT
1 AAAAATTATTTTTT
*
8611 AAAATTATATTTTTTTT
1 AAAA--AT-TATTTTTT
8628 AAAAATTA
1 AAAAATTA
8636 GATATTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 2 0.06
16 2 0.06
17 11 0.34
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAAATTATTTTTT
Found at i:8882 original size:24 final size:23
Alignment explanation
Indices: 8855--8943 Score: 66
Period size: 24 Copynumber: 4.0 Consensus size: 23
8845 AATTGAATCG
8855 AATTTA-TTAATATTTTGATATTTA
1 AATTTATTTAATATTTT--TATTTA
*
8879 AA-TTATTTAGTATTTTTATTTA
1 AATTTATTTAATATTTTTATTTA
*
8901 AATTTAATTTAA-A--TTAATTT-
1 AATTT-ATTTAATATTTTTATTTA
* *
8921 AATTTA-TTAACATTTTTACTTA
1 AATTTATTTAATATTTTTATTTA
8943 A
1 A
8944 TTGCATAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
18 4 0.08
19 2 0.04
20 5 0.09
21 11 0.21
22 9 0.17
23 6 0.11
24 16 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTTATTTAATATTTTTATTTA
Found at i:10695 original size:28 final size:31
Alignment explanation
Indices: 10659--10724 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 31
10649 CGTCTCATTT
* * *
10659 TTAAGATCAAAATT-TTTAAATA-TT-TAAA
1 TTAATATCAAAATTATTGAAAAACTTGTAAA
10687 TTAATATCAAAATTATTGAAAAACTTGTAAA
1 TTAATATCAAAATTATTGAAAAACTTGTAAA
10718 TTAATAT
1 TTAATAT
10725 ATTATAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.41
29 6 0.19
30 2 0.06
31 11 0.34
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAATATCAAAATTATTGAAAAACTTGTAAA
Found at i:12027 original size:2 final size:2
Alignment explanation
Indices: 12020--12057 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
12010 AATGAGTTCC
12020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12058 GCCTTTCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14270 original size:11 final size:11
Alignment explanation
Indices: 14256--14297 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
14246 TTTTATTAAT
14256 TTTTAAAATAA
1 TTTTAAAATAA
14267 TTTT-AAAT-A
1 TTTTAAAATAA
*
14276 TTTTAAAATTA
1 TTTTAAAATAA
*
14287 TTTTTAAATAA
1 TTTTAAAATAA
14298 ACAATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 5 0.19
10 8 0.30
11 14 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:14281 original size:20 final size:21
Alignment explanation
Indices: 14256--14296 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14246 TTTTATTAAT
14256 TTTTAAAA-TAATTTTAAATA
1 TTTTAAAATTAATTTTAAATA
*
14276 TTTTAAAATTATTTTTAAATA
1 TTTTAAAATTAATTTTAAATA
14297 AACAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTAAAATTAATTTTAAATA
Found at i:14843 original size:2 final size:2
Alignment explanation
Indices: 14838--14863 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14828 ACTTTTTTCA
14838 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
14864 GATGAAATCG
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:15573 original size:3 final size:3
Alignment explanation
Indices: 15567--15600 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
15557 CAAAAAAATA
*
15567 AAT AAT AAT AAT AAT AAT AAT AAA AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15601 AAAGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:16447 original size:190 final size:190
Alignment explanation
Indices: 16063--16448 Score: 544
Period size: 190 Copynumber: 2.0 Consensus size: 190
16053 ACTTAATTTG
*
16063 TAACTTCAAACTCAAACACATTACAAACAATATAAATAATGTCTAAAAGTTTATATTTATTCTTT
1 TAACTTCAAACTCAAACACATTACAAACAATATAAATAATGTCCAAAAGTTTATATTTATTCTTT
* * *
16128 CATCAAATAATAATTAGATATAAATATGAATTTTTTTTTGTTTGGTAAAATTATAAAATGAGTTA
66 CATCAAATAATAATTAGATATAAATAAGAATATTTTTTTGGTTGGTAAAATTATAAAATGAGTTA
* * **** **
16193 ATCTCTTAAAAATATTTATAATATAAAGTGATTATAATTAATACTTTTTTTTTTAATTTT
131 ATCACTTAAAAATATTTATAATATAAAGTGATTATAATTAATACTTTTATAAAAAAAATT
* * * *
16253 TAACTTCAAACTCAAACACATTATAAATAGTATAAATAATGTCCAAAAGTTTATATTTATTTTTT
1 TAACTTCAAACTCAAACACATTACAAACAATATAAATAATGTCCAAAAGTTTATATTTATTCTTT
* *
16318 CATCAAATAATAATTATATATAAATAAG-ATATTTTTTTGGTTGGTAAAATTATAAAATGAGTTG
66 CATCAAATAATAATTAGATATAAATAAGAATATTTTTTTGGTTGGTAAAATTATAAAATGAGTTA
* *
16382 ATCACTTAAAAATATTTATAATTTATAGTGATTATAA-TAATGA-TTATTAATAAAAAAAATT
131 ATCACTTAAAAATATTTATAATATAAAGTGATTATAATTAAT-ACTT-TT-ATAAAAAAAATT
16443 TAACTT
1 TAACTT
16449 TTGTGAGTGG
Statistics
Matches: 173, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
188 6 0.03
189 70 0.40
190 97 0.56
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (190 bp):
TAACTTCAAACTCAAACACATTACAAACAATATAAATAATGTCCAAAAGTTTATATTTATTCTTT
CATCAAATAATAATTAGATATAAATAAGAATATTTTTTTGGTTGGTAAAATTATAAAATGAGTTA
ATCACTTAAAAATATTTATAATATAAAGTGATTATAATTAATACTTTTATAAAAAAAATT
Found at i:16552 original size:13 final size:14
Alignment explanation
Indices: 16521--16553 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
16511 GTTCTTGTTA
16521 ATTTAAATATTACAT
1 ATTTAAATATTA-AT
16536 ATTTAAATATT-AT
1 ATTTAAATATTAAT
16549 ATTTA
1 ATTTA
16554 CTATTTACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
15 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATATTAAT
Found at i:17898 original size:22 final size:22
Alignment explanation
Indices: 17868--17919 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
17858 CTTTCTGCCA
*
17868 TTTTGAAACAAGTTCGTTTATT
1 TTTTTAAACAAGTTCGTTTATT
17890 TTTTTAAACAAGTTCGTTTATT
1 TTTTTAAACAAGTTCGTTTATT
17912 TTTTTAAA
1 TTTTTAAA
17920 TGTTGTTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.54
Consensus pattern (22 bp):
TTTTTAAACAAGTTCGTTTATT
Found at i:18355 original size:72 final size:72
Alignment explanation
Indices: 18077--18353 Score: 383
Period size: 72 Copynumber: 3.8 Consensus size: 72
18067 TATTTTTTTC
** * ** *
18077 CCAAGTTTTACCGTGAATCTTGATTCTTTCAGTGTTCCTTTCTTCCATTTGTTCTATTTCTCTTA
1 CCAAGTTTTACTATGAATCTTGATTCTTTCACTGTTTATTTCTTCCATTTGTTGTATTTCTCTTA
*
18142 CATGTCT
66 CATGTTT
* * *
18149 CCAAGTTTTACTATAAATCTTGATTCTTTCACTGTTTATTTCTTTCATTTCTTGTATTTCTCTTA
1 CCAAGTTTTACTATGAATCTTGATTCTTTCACTGTTTATTTCTTCCATTTGTTGTATTTCTCTTA
*
18214 TATGTTT
66 CATGTTT
* ** *
18221 CCAGGTTTTACTATGAATCTTGATTCTTTCGGTGTTTATTTCTTCCATTTGTTGTATTTCTTTTA
1 CCAAGTTTTACTATGAATCTTGATTCTTTCACTGTTTATTTCTTCCATTTGTTGTATTTCTCTTA
*
18286 CATTTTT
66 CATGTTT
* * *
18293 CCAAGTTTTATTATGAATCTTGATTCTTTCACTGTTTATTTCTCCCATTTGTTTTATTTCT
1 CCAAGTTTTACTATGAATCTTGATTCTTTCACTGTTTATTTCTTCCATTTGTTGTATTTCT
18354 TTCACATAAT
Statistics
Matches: 179, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 179 1.00
ACGTcount: A:0.17, C:0.18, G:0.10, T:0.55
Consensus pattern (72 bp):
CCAAGTTTTACTATGAATCTTGATTCTTTCACTGTTTATTTCTTCCATTTGTTGTATTTCTCTTA
CATGTTT
Found at i:20482 original size:2 final size:2
Alignment explanation
Indices: 20475--20511 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
20465 TATTAGGCAA
20475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20512 TGATATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20914 original size:21 final size:21
Alignment explanation
Indices: 20890--20958 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
20880 TATTTTATTT
20890 TTATAAGAATTTAATTTTAAC
1 TTATAAGAATTTAATTTTAAC
* **
20911 TTAT-A-AATTAATATTTTATTT
1 TTATAAGAATTTA-ATTTTA-AC
*
20932 TTATAAGAGTTTAATTTTAAC
1 TTATAAGAATTTAATTTTAAC
20953 TTATAA
1 TTATAA
20959 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 5 0.14
20 7 0.19
21 14 0.38
22 7 0.19
23 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (21 bp):
TTATAAGAATTTAATTTTAAC
Found at i:20931 original size:42 final size:42
Alignment explanation
Indices: 20880--20963 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
20870 GAATAATTTT
20880 TATTTTATTTTTATAAGAATTTAATTTTAACTTATAAATTAA
1 TATTTTATTTTTATAAGAATTTAATTTTAACTTATAAATTAA
*
20922 TATTTTATTTTTATAAGAGTTTAATTTTAACTTATAAATTAA
1 TATTTTATTTTTATAAGAATTTAATTTTAACTTATAAATTAA
20964 AAAATGTGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (42 bp):
TATTTTATTTTTATAAGAATTTAATTTTAACTTATAAATTAA
Found at i:22478 original size:38 final size:38
Alignment explanation
Indices: 22435--22508 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
22425 AATAAAAATT
22435 AATTTA-AAAATATTTAATATAATTAAT-TATTTTATTTA
1 AATTTATAAAATATTTAAT-T-ATTAATATATTTTATTTA
* *
22473 AATTTATAAAATTTTTAATTATTATTATATTTTATT
1 AATTTATAAAATATTTAATTATTAATATATTTTATT
22509 ATACTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 5 0.16
38 16 0.50
39 11 0.34
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (38 bp):
AATTTATAAAATATTTAATTATTAATATATTTTATTTA
Found at i:27035 original size:25 final size:25
Alignment explanation
Indices: 27001--27064 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
26991 CTTTAGTCCT
*
27001 TAATTTCTTTTATAACCTATTCTGA
1 TAATTTCTTTTACAACCTATTCTGA
27026 TAATTTCTTTTACAACCTATTCTGA
1 TAATTTCTTTTACAACCTATTCTGA
*
27051 TAATTTTTTTTACA
1 TAATTTCTTTTACA
27065 TTCACATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.03, T:0.53
Consensus pattern (25 bp):
TAATTTCTTTTACAACCTATTCTGA
Found at i:30685 original size:6 final size:7
Alignment explanation
Indices: 30652--30688 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
30642 ATAATCACCT
30652 TTAAAAA
1 TTAAAAA
* *
30659 ATAATAA
1 TTAAAAA
30666 TTAAAAA
1 TTAAAAA
30673 TTAAAAA
1 TTAAAAA
30680 TTAAAAA
1 TTAAAAA
30687 TT
1 TT
30689 TTAATATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:31065 original size:2 final size:2
Alignment explanation
Indices: 31058--31089 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31048 GATATTAAGG
31058 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
31090 GAAAGCTGTG
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):
AT
Found at i:31796 original size:16 final size:17
Alignment explanation
Indices: 31775--31807 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31765 TATGTCCTTA
31775 ATTAATGATTT-TTTAT
1 ATTAATGATTTATTTAT
*
31791 ATTAATGTTTTATTTAT
1 ATTAATGATTTATTTAT
31808 TCTCTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTAATGATTTATTTAT
Found at i:32718 original size:2 final size:2
Alignment explanation
Indices: 32711--32738 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32701 TTGTTAGTAA
32711 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
32739 GAACCCTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33237 original size:2 final size:2
Alignment explanation
Indices: 33221--33271 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
33211 CTTCAAACAA
* * * *
33221 AG AG AG GG AG CG AG AG A- AG -G GG AG AG AG AG AG AC AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33261 AG AG AG AG AG A
1 AG AG AG AG AG A
33272 ATTAAACAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.45, C:0.04, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38030 original size:42 final size:42
Alignment explanation
Indices: 37940--38031 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
37930 TTATTTAAAT
*
37940 AATAAAAATATTTTTATTTAAATTTAATTATTATAAATATTAA
1 AATAAAAATATTTTTATTTAAA-TTAATTATTATAAATAATAA
* * *
37983 TATAAAAATATTTTTAATTTTTAA-T-ATTATTTTAAATAATAA
1 AATAAAAATATTTTT-A-TTTAAATTAATTATTATAAATAATAA
38025 AATAAAA
1 AATAAAA
38032 TTTGAATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 21 0.50
43 15 0.36
44 1 0.02
45 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (42 bp):
AATAAAAATATTTTTATTTAAATTAATTATTATAAATAATAA
Found at i:40280 original size:20 final size:20
Alignment explanation
Indices: 40257--40294 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40247 AAAATATAGG
*
40257 TATTATAATATATAAATATA
1 TATTAAAATATATAAATATA
*
40277 TATTAAAATATTTAAATA
1 TATTAAAATATATAAATA
40295 GCTAATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTAAAATATATAAATATA
Found at i:40826 original size:18 final size:19
Alignment explanation
Indices: 40805--40842 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
40795 AGTTTATAAA
40805 AAAAT-TAATTTAGTTTTT
1 AAAATGTAATTTAGTTTTT
* *
40823 AAAATGTATTTTATTTTTT
1 AAAATGTAATTTAGTTTTT
40842 A
1 A
40843 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AAAATGTAATTTAGTTTTT
Found at i:41112 original size:2 final size:2
Alignment explanation
Indices: 41105--41141 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
41095 TCAAAAACTT
*
41105 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41142 AATTATATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:41754 original size:3 final size:3
Alignment explanation
Indices: 41746--41773 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
41736 TCACTATTCC
41746 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
41774 GCAAACGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:42881 original size:25 final size:25
Alignment explanation
Indices: 42847--42895 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
42837 TATGAAAATT
*
42847 AATTATAAGATTCATTAGATTTATA
1 AATTATAAGATTCATAAGATTTATA
42872 AATTATAAGATTCATAAGATTTAT
1 AATTATAAGATTCATAAGATTTAT
42896 GATAAGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (25 bp):
AATTATAAGATTCATAAGATTTATA
Found at i:42882 original size:16 final size:18
Alignment explanation
Indices: 42849--42892 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
42839 TGAAAATTAA
*
42849 TTATAAGATTCATTAGAT
1 TTATAAGATTCATAAGAT
42867 TTATAA-ATT-ATAAGAT
1 TTATAAGATTCATAAGAT
*
42883 TCATAAGATT
1 TTATAAGATT
42893 TATGATAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 6 0.26
18 6 0.26
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (18 bp):
TTATAAGATTCATAAGAT
Found at i:42890 original size:9 final size:9
Alignment explanation
Indices: 42851--42892 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
42841 AAAATTAATT
42851 ATAAGATTC
1 ATAAGATTC
* *
42860 ATTAGATTT
1 ATAAGATTC
42869 ATAA-ATT-
1 ATAAGATTC
42876 ATAAGATTC
1 ATAAGATTC
42885 ATAAGATT
1 ATAAGATT
42893 TATGATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 4 0.14
8 6 0.21
9 18 0.64
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (9 bp):
ATAAGATTC
Found at i:43028 original size:21 final size:21
Alignment explanation
Indices: 42984--43028 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
42974 CTTTTATTTC
* *
42984 AAATAAAAAATCATTTCTGAA
1 AAATAAAAAATAATTTCAGAA
43005 AAATAAAAAATAATTT-AGATA
1 AAATAAAAAATAATTTCAGA-A
43026 AAA
1 AAA
43029 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAATAAAAAATAATTTCAGAA
Found at i:43145 original size:20 final size:20
Alignment explanation
Indices: 43120--43157 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43110 GGTTAATAAT
43120 AAAAAT-ATATAAATTTAACC
1 AAAAATGATA-AAATTTAACC
43140 AAAAATGATAAAATTTAA
1 AAAAATGATAAAATTTAA
43158 AGACTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATGATAAAATTTAACC
Found at i:43823 original size:14 final size:12
Alignment explanation
Indices: 43795--43846 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
43785 TATAAATTTA
43795 ATAATTATAAAT
1 ATAATTATAAAT
43807 ATAATTATATTAAT
1 ATAATTATA--AAT
43821 ATAA-TATAAAT
1 ATAATTATAAAT
* *
43832 AAAATTATTAAT
1 ATAATTATAAAT
43844 ATA
1 ATA
43847 TAACATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.18
12 17 0.50
13 4 0.12
14 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATTATAAAT
Found at i:43840 original size:23 final size:26
Alignment explanation
Indices: 43795--43846 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
43785 TATAAATTTA
*
43795 ATAATTATAAATATAATTATATTAAT
1 ATAATTATAAATATAAATATATTAAT
43821 ATAA-TATAAATA-AAAT-TATTAAT
1 ATAATTATAAATATAAATATATTAAT
43844 ATA
1 ATA
43847 TAACATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 10 0.40
24 3 0.12
25 8 0.32
26 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATTATAAATATAAATATATTAAT
Found at i:43847 original size:25 final size:25
Alignment explanation
Indices: 43795--43854 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
43785 TATAAATTTA
* *
43795 ATAATTATAAATATAATTATATTAAT
1 ATAA-TATAAATAAAATTATAATAAT
43821 ATAATATAAATAAAATTATTAAT-AT
1 ATAATATAAATAAAATTA-TAATAAT
*
43846 ATAACATAA
1 ATAATATAA
43855 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATAAATAAAATTATAATAAT
Found at i:43935 original size:14 final size:14
Alignment explanation
Indices: 43916--43986 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
43906 AAAATTTATA
43916 TAAATATAAATATT
1 TAAATATAAATATT
*
43930 TAAATATAATATAAT
1 TAAATATAA-ATATT
*
43945 AAAATA-AAATATAT
1 TAAATATAAATAT-T
* *
43959 AAAATATAACATATA
1 TAAATATAA-ATATT
* *
43974 TATATATATATAT
1 TAAATATAAATAT
43987 ATACATAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
13 3 0.07
14 22 0.48
15 17 0.37
16 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATATAAATATT
Found at i:43955 original size:15 final size:14
Alignment explanation
Indices: 43905--43975 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 14
43895 ATTAATTTAT
*
43905 TAAAATTTATATAAA
1 TAAAATATATA-AAA
*
43920 TATAAATAT-TTAAA
1 TA-AAATATATAAAA
*
43934 TATAATATAATAAAA
1 TAAAATAT-ATAAAA
43949 TAAAATATATAAAA
1 TAAAATATATAAAA
43963 TATAACATATATA
1 TA-AA-ATATATA
43976 TATATATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.11
14 13 0.28
15 16 0.35
16 12 0.26
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATATATAAAA
Found at i:43974 original size:9 final size:8
Alignment explanation
Indices: 43919--43989 Score: 62
Period size: 8 Copynumber: 9.4 Consensus size: 8
43909 ATTTATATAA
43919 ATATAAAT
1 ATATAAAT
*
43927 ATTTAAAT
1 ATATAAAT
*
43935 ATA-ATAT
1 ATATAAAT
43942 A-ATAAA-
1 ATATAAAT
43948 ATA-AAAT
1 ATATAAAT
43955 ATATAAA-
1 ATATAAAT
43962 ATATAACAT
1 ATATAA-AT
*
43971 ATATATAT
1 ATATAAAT
*
43979 ATATATAT
1 ATATAAAT
43987 ATA
1 ATA
43990 CATAAATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
6 5 0.10
7 16 0.31
8 26 0.50
9 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:43978 original size:22 final size:21
Alignment explanation
Indices: 43912--43981 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
43902 TATTAAAATT
*
43912 TATAT-AAATATAAATATTTA
1 TATATAAAATATAAATATATA
* * *
43932 AATATAATATAATAAA-ATAAAA
1 TATATAAAAT-ATAAATAT-ATA
43954 TATATAAAATATAACATATATA
1 TATATAAAATATAA-ATATATA
43976 TATATA
1 TATATA
43982 TATATATACA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 23 0.61
23 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TATATAAAATATAAATATATA
Found at i:44012 original size:118 final size:117
Alignment explanation
Indices: 43779--44004 Score: 264
Period size: 120 Copynumber: 1.9 Consensus size: 117
43769 TAAAAAAATA
* * *
43779 AATTTTTATAAATTTAATAATTATAAATATAATTATATTAATATAATATAAATAAAATTATTAAT
1 AATTTTTATAAATTTAATAAATATAAATAT-ATTAAATTAATATAATATAAATAAAATTATTAAA
* ** *
43844 ATATAACATAATTTAATAAATATATATTTAAAATTTTACATAAAATAAATTATT
65 ATATAACATAATATAATAAATATATACATAAAATTTTAAATAAAATAAATT-TT
43898 AATTTATTA-AAATTTATATAAATATAAATAT-TTAAATATAATATAATA-AAATAAAA-TATAT
1 AATTT-TTATAAATTTA-ATAAATATAAATATATTAAAT-TAATATAATATAAATAAAATTAT-T
*
43959 AAAATATAACATATATATATATATATATATACAT-AAATTATTAAAT
62 AAAATATAACATA-ATATA-ATAAATATATACATAAAATT-TTAAAT
44005 TTAAAATTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
117 3 0.03
118 26 0.28
119 31 0.34
120 32 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (117 bp):
AATTTTTATAAATTTAATAAATATAAATATATTAAATTAATATAATATAAATAAAATTATTAAAA
TATAACATAATATAATAAATATATACATAAAATTTTAAATAAAATAAATTTT
Found at i:49173 original size:22 final size:22
Alignment explanation
Indices: 49148--49189 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
49138 GACGGCTATG
* *
49148 ATTTAAGAAGGATTTGTAAAGA
1 ATTTAAGAAGAATTTATAAAGA
*
49170 ATTTATGAAGAATTTATAAA
1 ATTTAAGAAGAATTTATAAA
49190 ATCAAAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.36
Consensus pattern (22 bp):
ATTTAAGAAGAATTTATAAAGA
Found at i:55160 original size:24 final size:23
Alignment explanation
Indices: 55119--55168 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
55109 AAAAATTAAA
55119 AAATTGAATGTAAAAATTAATTTT
1 AAATTGAATGTAAAAATT-ATTTT
* *
55143 AAATTGAAT-TATATAATTTTTTT
1 AAATTGAATGTA-AAAATTATTTT
55166 AAA
1 AAA
55169 ATATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (23 bp):
AAATTGAATGTAAAAATTATTTT
Found at i:57668 original size:15 final size:15
Alignment explanation
Indices: 57644--57676 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
57634 ACTCACTCAA
57644 TAAATTAAATT-ATT
1 TAAATTAAATTAATT
57658 TAAATTTAAATTAATT
1 TAAA-TTAAATTAATT
57674 TAA
1 TAA
57677 TAATAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 7 0.41
16 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATTAAATTAATT
Found at i:58734 original size:16 final size:16
Alignment explanation
Indices: 58666--58790 Score: 77
Period size: 16 Copynumber: 8.1 Consensus size: 16
58656 TTAATAAAAT
* *
58666 AATTTAAAAT-ACTCA
1 AATTTAAAATAATTTA
* *
58681 AATTTATAATGATTTA
1 AATTTAAAATAATTTA
*
58697 AATTT-AAATAA--AA
1 AATTTAAAATAATTTA
*
58710 AAATTAAAATAATTTA
1 AATTTAAAATAATTTA
58726 AATTTAAAACTTAA-TT-
1 AATTTAAAA--TAATTTA
* *
58742 CA-TAAAAAT-ATTTA
1 AATTTAAAATAATTTA
58756 AATTTAAAATAATTTA
1 AATTTAAAATAATTTA
* *
58772 AATTAAAAAATATTTTA
1 AATT-TAAAATAATTTA
58789 AA
1 AA
58791 AAATTTAATA
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 8 0.10
14 7 0.08
15 24 0.29
16 27 0.32
17 14 0.17
18 3 0.04
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (16 bp):
AATTTAAAATAATTTA
Found at i:58783 original size:17 final size:16
Alignment explanation
Indices: 58710--58790 Score: 64
Period size: 17 Copynumber: 5.2 Consensus size: 16
58700 TTAAATAAAA
58710 AAATT-AAAATAATTT
1 AAATTAAAAATAATTT
*
58725 AAATTTAAAACTTAA-TT
1 AAA-TTAAAA-ATAATTT
*
58742 -CA-TAAAAAT-ATTT
1 AAATTAAAAATAATTT
*
58755 AAATTTAAAATAATTT
1 AAATTAAAAATAATTT
*
58771 AAATTAAAAAATATTTT
1 AAATT-AAAAATAATTT
58788 AAA
1 AAA
58791 AAATTTAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 6 0.12
15 9 0.18
16 12 0.24
17 17 0.33
18 3 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAAAATAATTT
Found at i:64002 original size:11 final size:12
Alignment explanation
Indices: 63984--64013 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
63974 TATCTAGTTA
63984 TATATTTAATTT
1 TATATTTAATTT
63996 T-TATTTAATTT
1 TATATTTAATTT
64007 TATATTT
1 TATATTT
64014 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATATTTAATTT
Found at i:67711 original size:3 final size:3
Alignment explanation
Indices: 67703--67735 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
67693 TAGAATAACA
67703 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67736 AATTCAATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67865 original size:19 final size:21
Alignment explanation
Indices: 67841--67883 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
67831 CGATATTTTT
67841 TTAATTATATA-ATA-ATATA
1 TTAATTATATATATATATATA
67860 TTAATTATATATATATATATA
1 TTAATTATATATATATATATA
67881 TTA
1 TTA
67884 TATAATGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.50
20 3 0.14
21 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATTATATATATATATATA
Found at i:68400 original size:16 final size:17
Alignment explanation
Indices: 68374--68405 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
68364 TTATTTAAAT
68374 TTAATTATAAAAATATA
1 TTAATTATAAAAATATA
68391 TTAA-TATAAAAATAT
1 TTAATTATAAAAATAT
68406 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAATTATAAAAATATA
Found at i:69795 original size:13 final size:13
Alignment explanation
Indices: 69779--69803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69769 AAATTAGTAT
69779 TTAAACTATATTC
1 TTAAACTATATTC
69792 TTAAACTATATT
1 TTAAACTATATT
69804 ATGTTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAACTATATTC
Found at i:70412 original size:23 final size:24
Alignment explanation
Indices: 70386--70444 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
70376 AGATTAAAAT
70386 ATTTTTAAATTTATTGTAATAT-A
1 ATTTTTAAATTTATTGTAATATAA
* * *
70409 A-TTTTAATTTTGATTTTTATATAA
1 ATTTTTAAATTT-ATTGTAATATAA
70433 ATTTTT-AATTTA
1 ATTTTTAAATTTA
70445 ATTGATGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 9 0.31
23 10 0.34
24 6 0.21
25 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (24 bp):
ATTTTTAAATTTATTGTAATATAA
Found at i:79089 original size:20 final size:20
Alignment explanation
Indices: 79064--79102 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
79054 TATATCAAAC
79064 TATTTTTTAAAATTTTTATT
1 TATTTTTTAAAATTTTTATT
**
79084 TATTTTTTATTATTTTTAT
1 TATTTTTTAAAATTTTTAT
79103 CAATTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTTTTAAAATTTTTATT
Found at i:79108 original size:20 final size:20
Alignment explanation
Indices: 79065--79108 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
79055 ATATCAAACT
**
79065 ATTTTTTAAAATTTTTATTT
1 ATTTTTTAAAATTTTTATCA
**
79085 ATTTTTTATTATTTTTATCA
1 ATTTTTTAAAATTTTTATCA
79105 ATTT
1 ATTT
79109 AATAAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTTAAAATTTTTATCA
Found at i:79541 original size:20 final size:21
Alignment explanation
Indices: 79518--79589 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 21
79508 TTATATAATA
79518 TTATA-TATATTAATATATTT
1 TTATATTATATTAATATATTT
79538 TTATATTTATATTATATTTATATTTT
1 TTATA-TTATATTA-A--TATA-TTT
**
79564 TTATATTATATTTTTAT-TTT
1 TTATATTATATTAATATATTT
79584 TTATAT
1 TTATAT
79590 ATTTAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
20 14 0.32
22 10 0.23
23 1 0.02
25 11 0.25
26 8 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATTATATTAATATATTT
Found at i:81829 original size:19 final size:19
Alignment explanation
Indices: 81805--81865 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
81795 TTAATTTTAT
81805 TAATTTTTCTTTTTAAATA
1 TAATTTTTCTTTTTAAATA
**
81824 TAA--TTT-TTTAAAAAT-
1 TAATTTTTCTTTTTAAATA
*
81839 TTATTTTTCTTTTTAAATA
1 TAATTTTTCTTTTTAAATA
81858 TAATTTTT
1 TAATTTTT
81866 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 2 0.06
16 7 0.22
17 6 0.19
18 7 0.22
19 10 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTTCTTTTTAAATA
Found at i:81850 original size:34 final size:36
Alignment explanation
Indices: 81807--81879 Score: 132
Period size: 34 Copynumber: 2.1 Consensus size: 36
81797 AATTTTATTA
81807 ATTTTTCTTTTTAAATATAA-TTTTTT-AAAAATTT
1 ATTTTTCTTTTTAAATATAATTTTTTTAAAAAATTT
81841 ATTTTTCTTTTTAAATATAATTTTTTTAAAAAATTT
1 ATTTTTCTTTTTAAATATAATTTTTTTAAAAAATTT
81877 ATT
1 ATT
81880 CACATATTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 20 0.54
35 6 0.16
36 11 0.30
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (36 bp):
ATTTTTCTTTTTAAATATAATTTTTTTAAAAAATTT
Found at i:81864 original size:18 final size:18
Alignment explanation
Indices: 81809--81864 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
81799 TTTTATTAAT
81809 TTTTCTTTTTAAATATAA
1 TTTTCTTTTTAAATATAA
** * *
81827 -TTT-TTTAAAAATTTAT
1 TTTTCTTTTTAAATATAA
81843 TTTTCTTTTTAAATATAA
1 TTTTCTTTTTAAATATAA
81861 TTTT
1 TTTT
81865 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
16 9 0.32
17 6 0.21
18 13 0.46
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTCTTTTTAAATATAA
Found at i:81874 original size:18 final size:17
Alignment explanation
Indices: 81819--81872 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 17
81809 TTTTCTTTTT
81819 AAATATAA-TTTTTTAA
1 AAATATAATTTTTTTAA
* * **
81835 AAATTTATTTTTCTTTTT
1 AAATATAATTTT-TTTAA
81853 AAATATAATTTTTTTAA
1 AAATATAATTTTTTTAA
81870 AAA
1 AAA
81873 ATTTATTCAC
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
16 6 0.21
17 9 0.32
18 13 0.46
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATAATTTTTTTAA
Found at i:81876 original size:13 final size:15
Alignment explanation
Indices: 81814--81870 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
81804 TTAATTTTTC
81814 TTTTTAAATATAATT
1 TTTTTAAATATAATT
* **
81829 TTTTAAAAATTTATTTTT
1 TTTT-TAAA--TATAATT
81847 CTTTTTAAATATAATT
1 -TTTTTAAATATAATT
81863 TTTTTAAA
1 TTTTTAAA
81871 AAATTTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 12 0.38
16 8 0.25
18 8 0.25
19 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTAAATATAATT
Found at i:81893 original size:35 final size:34
Alignment explanation
Indices: 81817--81893 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
81807 ATTTTTCTTT
** * *
81817 TTAAATATAATTTTTTAAAAATTTATTTTTCTTT
1 TTAAATATAATTTTTTAAAAATTTATTTCACATA
81851 TTAAATATAATTTTTTTAAAAAATTTA-TTCACATA
1 TTAAATATAA-TTTTTT-AAAAATTTATTTCACATA
*
81886 TTGAATAT
1 TTAAATAT
81894 GATAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 10 0.28
35 17 0.47
36 9 0.25
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (34 bp):
TTAAATATAATTTTTTAAAAATTTATTTCACATA
Found at i:82636 original size:27 final size:27
Alignment explanation
Indices: 82595--82651 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
82585 AAGCATGATT
82595 TAATTTAACAGGGGGTGTATTTAATTA
1 TAATTTAACAGGGGGTGTATTTAATTA
* *
82622 TAATTTAACATGGGGTGTTTTTAATTA
1 TAATTTAACAGGGGGTGTATTTAATTA
82649 TAA
1 TAA
82652 AATGAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (27 bp):
TAATTTAACAGGGGGTGTATTTAATTA
Found at i:82775 original size:27 final size:27
Alignment explanation
Indices: 82736--82798 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
82726 GAAAATCTCT
82736 AACCAATACATACGCCAAACCAACCACC
1 AACCAA-ACATACGCCAAACCAACCACC
* *
82764 AACCAAACATACGCTAACCCAACCACC
1 AACCAAACATACGCCAAACCAACCACC
82791 AACCAAAC
1 AACCAAAC
82799 CATTCTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.48, C:0.43, G:0.03, T:0.06
Consensus pattern (27 bp):
AACCAAACATACGCCAAACCAACCACC
Found at i:85304 original size:13 final size:14
Alignment explanation
Indices: 85259--85301 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
85249 AATTAAATAT
* * *
85259 TTAAATTTTTTTAT
1 TTAAAATTTTTAAA
85273 TTAAAATTTTTAAA
1 TTAAAATTTTTAAA
85287 TTAAAATTTTTAAA
1 TTAAAATTTTTAAA
85301 T
1 T
85302 AAATATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAAAATTTTTAAA
Found at i:85400 original size:19 final size:19
Alignment explanation
Indices: 85369--85407 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
85359 ACATAAAGAA
85369 TTTTAAAATTTTTTAATTTT
1 TTTTAAAATTTTTT-ATTTT
85389 TTTTAAAA-TTTTTATTTT
1 TTTTAAAATTTTTTATTTT
85407 T
1 T
85408 ATAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTAAAATTTTTTATTTT
Found at i:85786 original size:11 final size:11
Alignment explanation
Indices: 85770--85981 Score: 90
Period size: 11 Copynumber: 20.9 Consensus size: 11
85760 TTTTTAAATT
85770 TTATAATTATA
1 TTATAATTATA
85781 TTATAATTATA
1 TTATAATTATA
**
85792 TTATTTTTATA
1 TTATAATTATA
*
85803 TAATAATTATA
1 TTATAATTATA
*
85814 TTAAAATTAT-
1 TTATAATTATA
*
85824 TATATATTTATA
1 T-TATAATTATA
*
85836 -TA-AATTTTA
1 TTATAATTATA
*
85845 ATA-AATTGATAA
1 TTATAATT-AT-A
*
85857 TTAT-TTTATA
1 TTATAATTATA
*
85867 -TA-AATTTTA
1 TTATAATTATA
85876 -TAT-ATT-TA
1 TTATAATTATA
*
85884 TT-TATTTATA
1 TTATAATTATA
*
85894 TTATATTTATA
1 TTATAATTATA
*
85905 TT-T--TTAAAA
1 TTATAATT-ATA
85914 TTAT-ATTATA
1 TTATAATTATA
*
85924 TTTTAA-TA-A
1 TTATAATTATA
*
85933 TT-TATTTATA
1 TTATAATTATA
*
85943 TTATATTTATA
1 TTATAATTATA
85954 TTA-AA-TA-A
1 TTATAATTATA
85962 TTAT-ATTATA
1 TTATAATTATA
*
85972 TTAAAATTAT
1 TTATAATTAT
85982 TATATTTAAT
Statistics
Matches: 155, Mismatches: 23, Indels: 46
0.69 0.10 0.21
Matches are distributed among these distances:
8 12 0.08
9 32 0.21
10 31 0.20
11 75 0.48
12 5 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTATAATTATA
Found at i:85941 original size:19 final size:17
Alignment explanation
Indices: 85897--85944 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
85887 ATTTATATTA
85897 TATTTATATTTTTAAAAT
1 TATTTATA-TTTTAAAAT
85915 TATATTATATTTTAATAATT
1 TAT-TTATATTTTAA-AA-T
85935 TATTTATATT
1 TATTTATATT
85945 ATATTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.33
19 14 0.52
20 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTATATTTTAAAAT
Found at i:85980 original size:24 final size:25
Alignment explanation
Indices: 85889--85993 Score: 90
Period size: 24 Copynumber: 4.3 Consensus size: 25
85879 ATTTATTTAT
* ** *
85889 TTATATTATATTTATATTTTTAAAA
1 TTATATTATATTTAAATTAATATAA
* * *
85914 TTATATTATATTTTAA-TAATTTAT
1 TTATATTATATTTAAATTAATATAA
*
85938 TTATATTATATTTATATTAA-ATAA
1 TTATATTATATTTAAATTAATATAA
* * *
85962 TTATATTATATTAAAATTATTATAT
1 TTATATTATATTTAAATTAATATAA
85987 TTA-ATTA
1 TTATATTA
85994 ATAATATTTA
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
24 40 0.63
25 23 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATATTATATTTAAATTAATATAA
Found at i:86001 original size:19 final size:19
Alignment explanation
Indices: 85940--86001 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
85930 TAATTTATTT
85940 ATATTATATTTATATT-AA
1 ATATTATATTTATATTAAA
85958 ATAATTATA-TTATATTAAA
1 AT-ATTATATTTATATTAAA
85977 ATTATTATATTTA-ATTAATA
1 A-TATTATATTTATATTAA-A
85997 ATATT
1 ATATT
86002 TAAATAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.23
19 24 0.62
20 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTATATTTATATTAAA
Found at i:86120 original size:34 final size:33
Alignment explanation
Indices: 86085--86165 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 33
86075 AATATTATAT
86085 TTTATTTTAAAAATTATTAAAAATTTT-ATATTA
1 TTTATTTTAAAAATTATTAAAAATTTTAAT-TTA
* * **
86118 TTTATTATAATAATTTATTTTAAATTTTAATTTAA
1 TTTATTTTAA-AAATTATTAAAAATTTTAATTT-A
*
86153 TTAATTTTAAAAA
1 TTTATTTTAAAAA
86166 ATAAATTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
33 9 0.24
34 18 0.47
35 11 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TTTATTTTAAAAATTATTAAAAATTTTAATTTA
Found at i:86769 original size:28 final size:29
Alignment explanation
Indices: 86711--86782 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
86701 CTTCCTTTTT
* * *
86711 TTTTTATATA-TTTAATTTTTTAATTATA
1 TTTTTATAAATTTTAATTATATAATTATA
*
86739 TTTTTATAAATTTTAATTATATATTTA-A
1 TTTTTATAAATTTTAATTATATAATTATA
*
86767 TTTTT-TAATTTTTAAT
1 TTTTTATAAATTTTAAT
86783 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 10 0.26
28 15 0.39
29 13 0.34
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTTATAAATTTTAATTATATAATTATA
Found at i:86774 original size:20 final size:20
Alignment explanation
Indices: 86714--86776 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
86704 CCTTTTTTTT
86714 TTATATATTTAATTTTTTAA
1 TTATATATTTAATTTTTTAA
* **
86734 TTATATTTTTATAAATTTTAA
1 TTATATATTTA-ATTTTTTAA
86755 TTATATATTTAATTTTTTAA
1 TTATATATTTAATTTTTTAA
86775 TT
1 TT
86777 TTTAATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTTAATTTTTTAA
Found at i:86794 original size:29 final size:29
Alignment explanation
Indices: 86710--86794 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 29
86700 TCTTCCTTTT
* * * *
86710 TTTTTTATATATTTAATTTTTTAATTAT-A
1 TTTTTTA-ATTTTTAATATTTTATTTTTAA
* * *
86739 TTTTTATAAATTTT-A-ATTATATATTTAA
1 TTTTT-TAATTTTTAATATTTTATTTTTAA
86767 TTTTTTAATTTTTAATATTTTATTTTTA
1 TTTTTTAATTTTTAATATTTTATTTTTA
86795 TATATATTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
27 13 0.31
28 8 0.19
29 19 0.45
30 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTTAATTTTTAATATTTTATTTTTAA
Found at i:86797 original size:35 final size:35
Alignment explanation
Indices: 86738--86805 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
86728 TTTTAATTAT
*
86738 ATTTTTATAAATTTTAATTATATATTTAATTTTTTA
1 ATTTTTATAAATTTTAATTATATATAT-ATTTTTTA
* * *
86774 ATTTTTA-ATATTTTATTTTTATATATATTTTT
1 ATTTTTATAAATTTTAATTATATATATATTTTT
86806 AAAATGGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 6 0.21
35 15 0.54
36 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (35 bp):
ATTTTTATAAATTTTAATTATATATATATTTTTTA
Found at i:86799 original size:15 final size:15
Alignment explanation
Indices: 86706--86799 Score: 59
Period size: 15 Copynumber: 6.1 Consensus size: 15
86696 TCTTTCTTCC
*
86706 TTTTTTTTTTATATA
1 TTTTATTTTTATATA
*
86721 TTTAATTTTT-TA-A
1 TTTTATTTTTATATA
* *
86734 TTATATTTTTATAAA
1 TTTTATTTTTATATA
* *
86749 TTTTAATTATATATTTAATT
1 TTTT-ATT-T-T-TAT-ATA
86769 TTTTAATTTTTA-ATA
1 TTTT-ATTTTTATATA
86784 TTTTATTTTTATATA
1 TTTTATTTTTATATA
86799 T
1 T
86800 ATTTTTAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
13 9 0.15
14 11 0.18
15 22 0.36
16 3 0.05
17 2 0.03
18 2 0.03
19 3 0.05
20 9 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATTTTTATATA
Found at i:86854 original size:9 final size:9
Alignment explanation
Indices: 86840--86910 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
86830 TTTAAAATAC
86840 TTTTTAATT
1 TTTTTAATT
**
86849 TTTTTAAAG
1 TTTTTAATT
86858 TTTTTAGATT
1 TTTTTA-ATT
*
86868 TTTATAATTT
1 TTTTTAA-TT
*
86878 TTTTCATAAAT
1 TTTT--TAATT
*
86889 TTTTAAATT
1 TTTTTAATT
*
86898 TTTTAAATT
1 TTTTTAATT
86907 TTTT
1 TTTT
86911 CTTATTTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 30 0.61
10 11 0.22
11 5 0.10
12 3 0.06
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTTTAATT
Found at i:86881 original size:30 final size:29
Alignment explanation
Indices: 86840--86911 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
86830 TTTAAAATAC
*
86840 TTTTT-AATTTTTT--TAAAGTTTTTAGAT
1 TTTTTAAATTTTTTCATAAA-TTTTTAAAT
*
86867 TTTTATAATTTTTTTCATAAATTTTTAAAT
1 TTTT-TAAATTTTTTCATAAATTTTTAAAT
86897 TTTTTAAATTTTTTC
1 TTTTTAAATTTTTTC
86912 TTATTTTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.11
28 1 0.03
29 17 0.45
30 12 0.32
31 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTTAAATTTTTTCATAAATTTTTAAAT
Found at i:88698 original size:16 final size:14
Alignment explanation
Indices: 88652--88699 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
88642 ATTATTCCAA
* *
88652 AAATTTCAATAAA-
1 AAATTTTAAAAAAT
88665 AAATTTTAAAAAAT
1 AAATTTTAAAAAAT
88679 AAATTTTAAATAACAT
1 AAATTTTAAA-AA-AT
88695 AAATT
1 AAATT
88700 AAGACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 11 0.37
14 10 0.33
15 2 0.07
16 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTTTAAAAAAT
Found at i:90202 original size:15 final size:15
Alignment explanation
Indices: 90184--90241 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
90174 AAATCTATAC
90184 TATATAAATTATTAA
1 TATATAAATTATTAA
*
90199 TATATAAA-AATTTATA
1 TATATAAATTA-TTA-A
90215 TAATATAAATTATTAA
1 T-ATATAAATTATTAA
*
90231 AATATTAAATT
1 TATA-TAAATT
90242 CATAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 1 0.03
15 14 0.40
16 9 0.26
17 10 0.29
18 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATTATTAA
Found at i:90204 original size:17 final size:17
Alignment explanation
Indices: 90184--90267 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 17
90174 AAATCTATAC
90184 TATATAAATTATT--AA
1 TATATAAATTATTAAAA
* * *
90199 TATATAAA-AATTTATA
1 TATATAAATTATTAAAA
90215 TAATATAAATTATTAAAA
1 T-ATATAAATTATTAAAA
*
90233 TAT-TAAATTCATAAAAA
1 TATATAAATT-ATTAAAA
90250 TATATAAAGTT-TTAAAA
1 TATATAAA-TTATTAAAA
90267 T
1 T
90268 GATTATGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 3 0.05
15 8 0.15
16 8 0.15
17 24 0.44
18 10 0.18
19 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (17 bp):
TATATAAATTATTAAAA
Found at i:90209 original size:32 final size:32
Alignment explanation
Indices: 90163--90235 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 32
90153 TACAAATATA
*
90163 TAAACATATCAAAATCTATACT-ATATAAATTAT
1 TAAA-ATATAAAAATCTATA-TAATATAAATTAT
* *
90196 TAATATATAAAAATTTATATAATATAAATTAT
1 TAAAATATAAAAATCTATATAATATAAATTAT
90228 TAAAATAT
1 TAAAATAT
90236 TAAATTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 31 0.89
33 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TAAAATATAAAAATCTATATAATATAAATTAT
Found at i:90252 original size:32 final size:32
Alignment explanation
Indices: 90185--90253 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
90175 AATCTATACT
* * *
90185 ATATAAATTATTAATATATAAAAATTTATATA
1 ATATAAATTATTAAAATATAAAAATTCATAAA
*
90217 ATATAAATTATTAAAATAT-TAAATTCATAAAA
1 ATATAAATTATTAAAATATAAAAATTCAT-AAA
90249 ATATA
1 ATATA
90254 TAAAGTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 7 0.22
32 25 0.78
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
ATATAAATTATTAAAATATAAAAATTCATAAA
Found at i:91001 original size:81 final size:82
Alignment explanation
Indices: 90832--91001 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 82
90822 GTACAGAAAT
* * *
90832 CAAAGCCTTGCCCTTGAGCCTACTCACAGCCCATTGAAACTCCCACTCCCAATTCAGCAGCTCAT
1 CAAAACCTTACCCTTGAGCCTACTCACAGCCCATTGAAACTCCCACT-CCAATTCAGCAGCCCAT
90897 TGACAAATATGCAAGCCA
65 TGACAAATATGCAAGCCA
90915 CAAAACCTTACCCTTGAGCCTACTCACAGCCCATTGAAACTCCCACT-CAATTCAGCAGCCCATT
1 CAAAACCTTACCCTTGAGCCTACTCACAGCCCATTGAAACTCCCACTCCAATTCAGCAGCCCATT
*
90979 GACAAGTATGCAAGCCA
66 GACAAATATGCAAGCCA
90996 CAAAAC
1 CAAAAC
91002 GGTAGTATGC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
81 38 0.46
83 45 0.54
ACGTcount: A:0.32, C:0.36, G:0.12, T:0.19
Consensus pattern (82 bp):
CAAAACCTTACCCTTGAGCCTACTCACAGCCCATTGAAACTCCCACTCCAATTCAGCAGCCCATT
GACAAATATGCAAGCCA
Found at i:91024 original size:81 final size:81
Alignment explanation
Indices: 90843--91001 Score: 266
Period size: 81 Copynumber: 2.0 Consensus size: 81
90833 AAAGCCTTGC
*
90843 CCTTGAGCCTACTCACAGCCCATTGAAACTCCCACTCCCAATTCAGCAGCTCATTGACAAATATG
1 CCTTGAGCCTACTCACAGCCCATTGAAACTCCCACT-CCAATTCAGCAGCCCATTGACAAATATG
*
90908 CAAGCCACAAAACCTTA
65 CAAGCCACAAAACCGTA
*
90925 CCCTTGAGCCTACTCACAGCCCATTGAAACTCCCACT-CAATTCAGCAGCCCATTGACAAGTATG
1 -CCTTGAGCCTACTCACAGCCCATTGAAACTCCCACTCCAATTCAGCAGCCCATTGACAAATATG
90989 CAAGCCACAAAAC
65 CAAGCCACAAAAC
91002 GGTAGTATGC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
81 38 0.51
83 36 0.49
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.19
Consensus pattern (81 bp):
CCTTGAGCCTACTCACAGCCCATTGAAACTCCCACTCCAATTCAGCAGCCCATTGACAAATATGC
AAGCCACAAAACCGTA
Found at i:95043 original size:155 final size:157
Alignment explanation
Indices: 94756--95054 Score: 422
Period size: 156 Copynumber: 1.9 Consensus size: 157
94746 AATATCACTT
* * * * *
94756 AGACTCCCACTTAATTCATCTGTTAACCTACCATATTTCCATAGAACATTTAACCAACCCTAAAA
1 AGACTCCCACTAAATTCATCCGTTAACCTACCATATCTCCACAGAACATTTAAACAACCCTAAAA
* * **
94821 AAACTTATTTCATGAATAAAAATCATAAAACTTCCATTTACTGACAAATATGAACTTAAAAATGT
66 AAACTTATTTCATGAATAAAAAGCACAAAACTTCCATTTACAAACAAATATGAACTTAAAAATGT
94886 CCA-TCTTTCTTAAAAATATTAATGAA
131 CCACTCTTTCTTAAAAATATTAATGAA
* *
94912 AGACTCCCACTAAATTCATCCGTTCACCTACCATATCTCCACAGAACATTTAAACAACCTTAAAA
1 AGACTCCCACTAAATTCATCCGTTAACCTACCATATCTCCACAGAACATTTAAACAACCCTAAAA
* * * * * *
94977 ATAC-TATTTCATTAATAAAAGGCACAGAACTTCCATTTACAAACAATTATGAACTTCAAAATGT
66 AAACTTATTTCATGAATAAAAAGCACAAAACTTCCATTTACAAACAAATATGAACTTAAAAATGT
95041 CCACCTCTTTCTTA
131 CCA-CTCTTTCTTA
95055 TTTTCTCCAC
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
155 54 0.44
156 61 0.49
157 9 0.07
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.31
Consensus pattern (157 bp):
AGACTCCCACTAAATTCATCCGTTAACCTACCATATCTCCACAGAACATTTAAACAACCCTAAAA
AAACTTATTTCATGAATAAAAAGCACAAAACTTCCATTTACAAACAAATATGAACTTAAAAATGT
CCACTCTTTCTTAAAAATATTAATGAA
Found at i:96950 original size:20 final size:20
Alignment explanation
Indices: 96925--96964 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
96915 CACTCTGAAT
96925 GCAATTAAGGAAAACCAAGC
1 GCAATTAAGGAAAACCAAGC
96945 GCAATTAAGGAAAACCAAGC
1 GCAATTAAGGAAAACCAAGC
96965 AAACATGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.10
Consensus pattern (20 bp):
GCAATTAAGGAAAACCAAGC
Found at i:103516 original size:45 final size:45
Alignment explanation
Indices: 103452--103540 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
103442 GGTCCAAAGT
*
103452 TTGTTTCTCAATACTCAAATATTGAGAAGTAGAGAGTTTCATATA
1 TTGTTTCTCAATACTCAAATATTGAGAAGTAGAAAGTTTCATATA
103497 TTGTTTCTCAATACTCAAATATTGAGAAGTAGAAAGTTTCATAT
1 TTGTTTCTCAATACTCAAATATTGAGAAGTAGAAAGTTTCATAT
103541 TTTAACCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (45 bp):
TTGTTTCTCAATACTCAAATATTGAGAAGTAGAAAGTTTCATATA
Found at i:109290 original size:2 final size:2
Alignment explanation
Indices: 109283--109314 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
109273 CTTTATTATC
*
109283 CT CT CT CT TT 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
109315 TTGGAGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:113432 original size:21 final size:20
Alignment explanation
Indices: 113397--113436 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
113387 ATTCTTAATC
113397 TTAAATTCAATGTAATTATG
1 TTAAATTCAATGTAATTATG
*
113417 TTAAATTTATATGTAATTAT
1 TTAAATTCA-ATGTAATTAT
113437 AATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (20 bp):
TTAAATTCAATGTAATTATG
Found at i:119872 original size:16 final size:17
Alignment explanation
Indices: 119853--119894 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
119843 AATATAATAC
119853 AATATTAATAAAT-AAA
1 AATATTAATAAATAAAA
119869 AATATT-A-AAATAAAA
1 AATATTAATAAATAAAA
119884 AATTATTAATA
1 AA-TATTAATA
119895 TATTACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 10 0.45
17 1 0.05
18 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATTAATAAATAAAA
Done.