Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004062.1 Hibiscus syriacus cultivar Beakdansim tig00008884_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 153756
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1646 original size:92 final size:93
Alignment explanation
Indices: 1420--1797 Score: 708
Period size: 92 Copynumber: 4.1 Consensus size: 93
1410 TAGATTGCTT
*
1420 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1485 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1513 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1578 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1605 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1670 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1698 AGT-AATTTGTTCAGTTGCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1761 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1789 AGTAAATTT
1 AGTAAATTT
1798 ATCCATTCAA
Statistics
Matches: 279, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
91 59 0.21
92 126 0.45
93 94 0.34
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1881 original size:19 final size:19
Alignment explanation
Indices: 1841--1969 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1831 TAGTTTACTT
* *
1841 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1861 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1880 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1899 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1913 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1932 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1946 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1965 TCGCA
1 TCGCA
1970 TTACGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1920 original size:33 final size:32
Alignment explanation
Indices: 1877--1969 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1867 CGCGAAACCA
**
1877 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1909 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1942 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1970 TTACGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1967 original size:52 final size:52
Alignment explanation
Indices: 1841--1969 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1831 TAGTTTACTT
**
1841 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1893 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1946 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1970 TTACGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1987 original size:19 final size:19
Alignment explanation
Indices: 1973--2099 Score: 121
Period size: 19 Copynumber: 7.2 Consensus size: 19
1963 AATCGCATTA
1973 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
1992 CGA--TTC-TTT--CGTTG
1 CGATTTTCATTTCGCGTTG
*
2006 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCGTTG
*
2025 CGA--TTC-TGT--CGTTG
1 CGATTTTCATTTCGCGTTG
2039 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
**
2058 CGATTTTGGTTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
* *
2077 CGATTTTAAGTTTCGTGTTG
1 CGATTTTCA-TTTCGCGTTG
2097 CGA
1 CGA
2100 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
14 15 0.17
16 11 0.12
17 11 0.12
19 39 0.44
20 12 0.14
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:2006 original size:14 final size:14
Alignment explanation
Indices: 1987--2043 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1977 TTTCATTTCG
1987 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2001 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2018 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2034 CGTTGCGATT
1 CGTTGCGATT
2044 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2015 original size:33 final size:33
Alignment explanation
Indices: 1973--2062 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
1963 AATCGCATTA
*
1973 CGATTTTCATTTCGCGTTGCGATTCTTTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTGTCGTTG
*
2006 CGATTTTCATTTCGCATTGCGATTCTGTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTGTCGTTG
2039 CGATTTTCATTTCGCGTTGCGATT
1 CGATTTTCATTTCGCGTTGCGATT
2063 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTGCGATTCTGTCGTTG
Found at i:4036 original size:14 final size:14
Alignment explanation
Indices: 4017--4052 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4007 ATTGTTTAAT
4017 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4031 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4045 TGATTTGT
1 TGATTTGT
4053 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4187 original size:19 final size:19
Alignment explanation
Indices: 4159--4261 Score: 144
Period size: 19 Copynumber: 5.6 Consensus size: 19
4149 AAAATTGACT
4159 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4178 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4197 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4211 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4230 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4250 ATCGCAATGCGA
1 ATCGCAATGCGA
4262 TTTTAATTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 19 0.26
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4279 original size:19 final size:19
Alignment explanation
Indices: 4251--4418 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
4241 GAAATGAAAA
* *
4251 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
4270 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
4286 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
4303 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
4322 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
4338 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
4355 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
4374 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
4390 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
4407 TCCGCATTGCGA
1 T-CGCATTGCGA
4419 AATGTAATGG
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 18 0.14
16 21 0.17
17 18 0.14
18 2 0.02
19 60 0.48
20 6 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:4304 original size:33 final size:33
Alignment explanation
Indices: 4257--4418 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
4247 AAAATCGCAA
*
4257 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
4290 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
4328 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
4361 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
4394 TGCGATTTTCATTTCCGCATTGCGA
1 TGCGATTTTCATTT-CGCATTGCGA
4419 AATGTAATGG
Statistics
Matches: 104, Mismatches: 13, Indels: 23
0.74 0.09 0.16
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 49 0.47
34 10 0.10
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:4329 original size:52 final size:52
Alignment explanation
Indices: 4251--4418 Score: 309
Period size: 52 Copynumber: 3.2 Consensus size: 52
4241 GAAATGAAAA
* *
4251 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
4303 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
4355 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
4407 TCCGCATTGCGA
1 T-CGCATTGCGA
4419 AATGTAATGG
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 103 0.91
53 10 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:4500 original size:19 final size:19
Alignment explanation
Indices: 4476--4573 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
4466 AAAATTGACT
4476 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4495 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4514 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4528 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4547 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4567 ATCGCAA
1 ATCGCAA
4574 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4605 original size:53 final size:53
Alignment explanation
Indices: 4476--4592 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
4466 AAAATTGACT
4476 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4528 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4581 ATCGCAATGCGA
1 ATCGCAATGCGA
4593 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:6714 original size:24 final size:24
Alignment explanation
Indices: 6680--6726 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6670 CTGAAACATC
6680 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
6704 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
6727 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:7437 original size:20 final size:20
Alignment explanation
Indices: 7409--7658 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
7399 AAATTTCAGT
* *
7409 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
7429 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
7449 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
7469 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
7489 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
* *
7509 GTTGCGATTTACGGACTATC
1 GTTGCGATTTACGGATTCTC
* *
7529 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
7549 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
7569 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
7589 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
7609 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
7629 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
7649 GTTGCGATTT
1 GTTGCGATTT
7659 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:7675 original size:21 final size:21
Alignment explanation
Indices: 7645--7727 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
7635 ATTTTCATAT
*
7645 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
7666 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
7687 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
7708 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
7728 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:7718 original size:42 final size:43
Alignment explanation
Indices: 7625--7723 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
7615 ATTTATGTGT
* *
7625 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
7666 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
7708 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
7724 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:9542 original size:10 final size:10
Alignment explanation
Indices: 9527--9551 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9517 ATCCTGGCAA
9527 CACTGCAGCT
1 CACTGCAGCT
9537 CACTGCAGCT
1 CACTGCAGCT
9547 CACTG
1 CACTG
9552 GAGCGTCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (10 bp):
CACTGCAGCT
Found at i:12261 original size:33 final size:33
Alignment explanation
Indices: 12221--12286 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
12211 AAATCACAAA
12221 TTTTAGATGA-ACATAAGTTAAAAAAGGAAGGTT
1 TTTTAGAT-ATACATAAGTTAAAAAAGGAAGGTT
12254 TTTTAGATATACATAAGTTAAAAAAGGAAGGTT
1 TTTTAGATATACATAAGTTAAAAAAGGAAGGTT
12287 GAAGACGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (33 bp):
TTTTAGATATACATAAGTTAAAAAAGGAAGGTT
Found at i:13739 original size:2 final size:2
Alignment explanation
Indices: 13732--13757 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13722 ACATAGACTT
13732 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
13758 ATAAAATTTT
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):
TA
Found at i:14841 original size:17 final size:18
Alignment explanation
Indices: 14819--14852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14809 TCAGCCGGTC
14819 CGGTTC-GAACGGTTCAA
1 CGGTTCTGAACGGTTCAA
*
14836 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
14853 CTAATAGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAA
Found at i:27399 original size:16 final size:16
Alignment explanation
Indices: 27378--27411 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27368 TTACTATTCA
*
27378 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
27394 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
27410 CG
1 CG
27412 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:28182 original size:15 final size:16
Alignment explanation
Indices: 28162--28193 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
28152 TGGCAGATCC
28162 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
28177 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
28193 A
1 A
28194 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:32905 original size:31 final size:31
Alignment explanation
Indices: 32867--33022 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
32857 CCCGAAGGAC
* * *
32867 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
32898 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
32929 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
32960 CAGTCCATATGTCCCGAAGAACATATGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
32991 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
33022 C
1 C
33023 CCTCGACCCT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:35077 original size:30 final size:30
Alignment explanation
Indices: 35043--35103 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
35033 ACATAGTCAA
35043 TACATTAATATCAAGTATTATATCTATTCC
1 TACATTAATATCAAGTATTATATCTATTCC
*
35073 TACATTAATATCAAGTATTATATCTCTTCC
1 TACATTAATATCAAGTATTATATCTATTCC
35103 T
1 T
35104 TGTTTAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.44
Consensus pattern (30 bp):
TACATTAATATCAAGTATTATATCTATTCC
Found at i:38177 original size:29 final size:30
Alignment explanation
Indices: 38114--38188 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
38104 TTTTGATAAT
* *
38114 ATTTGAATTTGAAT-CT-AAATTTAATTAAA
1 ATTTCAATTT-AATCCTCAAATTTAATCAAA
* *
38143 ATTTCACTTTGATCCTCAAATTTAATCAAA
1 ATTTCAATTTAATCCTCAAATTTAATCAAA
38173 A-TTCAATTTAATCCTC
1 ATTTCAATTTAATCCTC
38189 TAAAATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 2 0.05
29 23 0.61
30 13 0.34
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.43
Consensus pattern (30 bp):
ATTTCAATTTAATCCTCAAATTTAATCAAA
Found at i:39610 original size:44 final size:44
Alignment explanation
Indices: 39517--39610 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 44
39507 TTCCTTGGAA
* * *
39517 ATTGATACGGTCATTTAATACTATAACCATTTCGATCCATAAAT
1 ATTGATACGGTCATTTAATACTATAACAATTTCGATCAAGAAAT
* ** * * **
39561 TTTGATATTGTCATTTAATATTATAATAATTTCGATCAAGCTAT
1 ATTGATACGGTCATTTAATACTATAACAATTTCGATCAAGAAAT
39605 ATTGAT
1 ATTGAT
39611 TAATATTTTA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (44 bp):
ATTGATACGGTCATTTAATACTATAACAATTTCGATCAAGAAAT
Found at i:41683 original size:33 final size:33
Alignment explanation
Indices: 41646--41743 Score: 169
Period size: 33 Copynumber: 3.0 Consensus size: 33
41636 GTTGCAAGAA
**
41646 AGGAGGAGAGGCAACGGTTGGGAGCAAGAGAGG
1 AGGAGGAGAGGCGGCGGTTGGGAGCAAGAGAGG
41679 AGGAGGAGAGGCGGCGGTTGGGAGCAAGAGAGG
1 AGGAGGAGAGGCGGCGGTTGGGAGCAAGAGAGG
*
41712 AGGAGGAGAGGCGGCGGTAGGGAGCAAGAGAG
1 AGGAGGAGAGGCGGCGGTTGGGAGCAAGAGAG
41744 TTTATACGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.31, C:0.09, G:0.55, T:0.05
Consensus pattern (33 bp):
AGGAGGAGAGGCGGCGGTTGGGAGCAAGAGAGG
Found at i:46967 original size:80 final size:80
Alignment explanation
Indices: 46834--46991 Score: 271
Period size: 80 Copynumber: 2.0 Consensus size: 80
46824 GACCTTTCGC
* *
46834 GTTCCTCTGGTTTTTGCTGCATATCTGTTTCAGATTTTCATCATTTACTGGCTGGGGGTAGCACT
1 GTTCCTCTGGTTTTTGCTGCACAGCTGTTTCAGATTTTCATCATTTACTGGCTGGGGGTAGCACT
46899 TATGCTCTTCCTCTG
66 TATGCTCTTCCTCTG
* *
46914 GTTCCTCTGGTTTTTGCTTCACAGCTGTTTCAGATTTTCATCATTTTCTGGCTGGGGGTAGCACT
1 GTTCCTCTGGTTTTTGCTGCACAGCTGTTTCAGATTTTCATCATTTACTGGCTGGGGGTAGCACT
*
46979 TCTGCTCTTCCTC
66 TATGCTCTTCCTC
46992 GCTGAAACTG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (80 bp):
GTTCCTCTGGTTTTTGCTGCACAGCTGTTTCAGATTTTCATCATTTACTGGCTGGGGGTAGCACT
TATGCTCTTCCTCTG
Found at i:53584 original size:2 final size:2
Alignment explanation
Indices: 53577--53623 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
53567 AGATTGTACA
53577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53619 AT AT A
1 AT AT A
53624 ATTGAGTATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57844 original size:18 final size:18
Alignment explanation
Indices: 57823--57858 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
57813 ATTTTTTTAA
57823 CGGTTCGAGTTT-TCGGTT
1 CGGTTCG-GTTTATCGGTT
57841 CGGTTCGGTTTATCGGTT
1 CGGTTCGGTTTATCGGTT
57859 TTTCAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.06, C:0.17, G:0.33, T:0.44
Consensus pattern (18 bp):
CGGTTCGGTTTATCGGTT
Found at i:58134 original size:14 final size:14
Alignment explanation
Indices: 58111--58177 Score: 116
Period size: 14 Copynumber: 4.8 Consensus size: 14
58101 TTCGCCCATC
58111 ATACACTTACTCTT
1 ATACACTTACTCTT
*
58125 ATATACTTACTCTT
1 ATACACTTACTCTT
58139 ATACACTTACTCTT
1 ATACACTTACTCTT
58153 ATACACTTACTCTT
1 ATACACTTACTCTT
*
58167 ATACATTTACT
1 ATACACTTACT
58178 GTTGTTTCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (14 bp):
ATACACTTACTCTT
Found at i:59890 original size:5 final size:5
Alignment explanation
Indices: 59880--59905 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59870 TGACTTAGAA
59880 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
59906 AATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:61555 original size:22 final size:22
Alignment explanation
Indices: 61530--61580 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
61520 TGGTTCGAGG
61530 AAATGTATAATTTGAATAAT-TA-
1 AAATGTATAATTT-AA-AATATAT
61552 AAAT-TGATAATTTAAAATATAT
1 AAATGT-ATAATTTAAAATATAT
61574 AAATGTA
1 AAATGTA
61581 AGATTTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 16 0.64
23 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (22 bp):
AAATGTATAATTTAAAATATAT
Found at i:66021 original size:18 final size:20
Alignment explanation
Indices: 66000--66046 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
65990 ATTTAAGATT
66000 TTATTTTA-A-ATATTTTAA
1 TTATTTTATATATATTTTAA
* *
66018 TTATTTTATATATCTTTTAG
1 TTATTTTATATATATTTTAA
66038 TTATTTTAT
1 TTATTTTAT
66047 CTTTTAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTATATATATTTTAA
Found at i:71308 original size:81 final size:81
Alignment explanation
Indices: 71173--71329 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
71163 ACAATGAGCA
* * * * * *
71173 GACTCTTTTCCTCAACGTCGTCTCCTATTAGTCTTCCCGGCTTCTCTCCCTCATCATCCGA-TGA
1 GACTCTCTTCCTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTCTCCCTCATCATCAGATTG-
71237 TTTTTCACCAGCAATTG
65 TTTTTCACCAGCAATTG
* *
71254 GACTCTCTTCTTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTC-CCTTTCATCATCAGATTG
1 GACTCTCTTCCTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTCTCC-CTCATCATCAGATTG
71318 TTTTTCACCAGC
65 TTTTTCACCAGC
71330 GAAATAACTC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.94
82 2 0.03
ACGTcount: A:0.17, C:0.34, G:0.11, T:0.37
Consensus pattern (81 bp):
GACTCTCTTCCTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTCTCCCTCATCATCAGATTGT
TTTTCACCAGCAATTG
Found at i:71340 original size:81 final size:81
Alignment explanation
Indices: 71174--71347 Score: 201
Period size: 81 Copynumber: 2.1 Consensus size: 81
71164 CAATGAGCAG
* * * * * * *
71174 ACTCTTTTCCTCAACGTCGTCTCCTATTAGTCTTCCCGGCTTCTCTCCCTCATCATCCGATGATT
1 ACTCTCTTCTTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTCTCCCTCATCATCAGATGATT
* *
71239 TTTCACCAGCAATTGG
66 TTTCACCAGCAAATGA
*
71255 ACTCTCTTCTTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTC-CCTTTCATCATCAGATTG-
1 ACTCTCTTCTTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTCTCC-CTCATCATCAGA-TGA
71318 TTTTTCACCAGCGAAAT-A
64 TTTTTCACCAGC-AAATGA
*
71336 ACTCTCTACTTC
1 ACTCTCTTCTTC
71348 GACTTCCCCT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
80 2 0.03
81 72 0.91
82 5 0.06
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.37
Consensus pattern (81 bp):
ACTCTCTTCTTCAACGTCGTCTCCCAATAATCTTACCGGCTTCTCTCCCTCATCATCAGATGATT
TTTCACCAGCAAATGA
Found at i:73465 original size:84 final size:84
Alignment explanation
Indices: 73286--73468 Score: 188
Period size: 84 Copynumber: 2.2 Consensus size: 84
73276 TCAACATCAT
* * **
73286 CATCAGATGGTTTTTCAC-ATGCAGATTAACTTTCTAATTCAACATCATCTTATAATAATATTCT
1 CATCAGATGGTTTTTGACTA-GCGGACAAACTTTCTAATTCAACATCATCTTATAATAATATTCT
** * * *
73350 TTTAGGCTTCTCTCCCTTAT
65 AATAGGCTTCTCACCCTCAA
* * * * * *
73370 CATCATATGGTTTTTGACTAGCGGACAAACTTTCTGATTCAACATCGTCTTCTAGTAATCTTCTA
1 CATCAGATGGTTTTTGACTAGCGGACAAACTTTCTAATTCAACATCATCTTATAATAATATTCTA
*
73435 ATCGGCTTCTCACCCTCAA
66 ATAGGCTTCTCACCCTCAA
* *
73454 CATTAGGTGGTTTTT
1 CATCAGATGGTTTTT
73469 CACCAACAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
84 78 0.99
85 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (84 bp):
CATCAGATGGTTTTTGACTAGCGGACAAACTTTCTAATTCAACATCATCTTATAATAATATTCTA
ATAGGCTTCTCACCCTCAA
Found at i:73646 original size:84 final size:83
Alignment explanation
Indices: 73530--73708 Score: 200
Period size: 83 Copynumber: 2.1 Consensus size: 83
73520 CATCTCCCAA
* * * * * **
73530 CAATCTTATTTTGGGCTTTTCTCCCTCTTCATCATATGGTTTTTCA-CCGCTAGGCGGACTTTCG
1 CAATCTTTTTTTCGGCTTTTCTCCCTCATCATCAGAT-GTTTTTCATCCGC-AGACAAACTTTCG
* *
73594 GATTCAACATTGTCTTCTAG
64 AATTCAACATCGTCTTCTAG
** *
73614 CAATCTTTTTTTCGG-TTTATCTCCCTCATCATCAGATGTTTTTCATTGGCAGACAAACTTTCTA
1 CAATCTTTTTTTCGGCTTT-TCTCCCTCATCATCAGATGTTTTTCATCCGCAGACAAACTTTCGA
73678 ATTCAACATCGTCTTCTAG
65 ATTCAACATCGTCTTCTAG
*
73697 TAATCTTTTTTT
1 CAATCTTTTTTT
73709 TGCTTCTCCC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
83 49 0.61
84 31 0.39
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (83 bp):
CAATCTTTTTTTCGGCTTTTCTCCCTCATCATCAGATGTTTTTCATCCGCAGACAAACTTTCGAA
TTCAACATCGTCTTCTAG
Found at i:74046 original size:167 final size:168
Alignment explanation
Indices: 73724--74194 Score: 518
Period size: 167 Copynumber: 2.8 Consensus size: 168
73714 CTCCCCTTAT
* * *
73724 CTTCTAGTAATCTTCTTTTCAGCTTTTCTC-CCTCATCATCATATGGTTTTTCACTGGCCGACAG
1 CTTCTAGTAATCTTCTTTTCAGCTTATCTCTCC-CATCATTAGATGGTTTTTCACTGGCCGACAG
* * * * * *
73788 ACGTTTTGGTTTAACACAGTCTTCTCA-TAATCTTCTTTACGACTGCTCCCCCTCATCATCATAT
65 ACTTTTTGATTTAACACATTCTTCT-AGTAATCTTCTTTTCG-CTTCTCTCCCTCATCATCATAT
**
73852 GGTTTTT--ACCGACCAATGGAATTTCTGAT-TAAACATCGT-C
128 GGTTTTTCAACCGACCAATCAAATTTCTGATCT-AACA-C-TAC
* * *
73892 C-TCTAGTAATCTTCTTTTCAGCTTCTCTCTCCCATCATTAGATGGTTTTTCACTGGCCTAAAGA
1 CTTCTAGTAATCTTCTTTTCAGCTTATCTCTCCCATCATTAGATGGTTTTTCACTGGCCGACAGA
* *
73956 CTTTTTGATTTAACACCTTCTTCTAGTAAACTTCTTTTCGCTTCTCTCCCTCATCATCATATGGT
66 CTTTTTGATTTAACACATTCTTCTAGTAATCTTCTTTTCGCTTCTCTCCCTCATCATCATATGGT
**
74021 TTTTCAACCG-CGGA-CAAACTTTCTGATCTAACACTAC
131 TTTTCAACCGACCAATCAAA-TTTCTGATCTAACACTAC
* *
74058 CTTCTAGTAATCTTCTTTTC-GACTTATCTCTCTCAT-ATTCAGATGGTTTTTCACTGGTCGACA
1 CTTCTAGTAATCTTCTTTTCAG-CTTATCTCTCCCATCATT-AGATGGTTTTTCACTGGCCGACA
* * * * *
74121 GACTTTCTGATTCAACA-TTGTCTTCTAGTAATCTTCTTTTCAGCTT-TGCTCTCTCATCATCAG
64 GACTTTTTGATTTAACACAT-TCTTCTAGTAATCTTCTTTTC-GCTTCT-CTCCCTCATCATCAT
74184 ATGGTTTTTCA
126 ATGGTTTTTCA
74195 CCTATCGAAG
Statistics
Matches: 262, Mismatches: 28, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
165 1 0.00
166 38 0.15
167 187 0.71
168 36 0.14
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (168 bp):
CTTCTAGTAATCTTCTTTTCAGCTTATCTCTCCCATCATTAGATGGTTTTTCACTGGCCGACAGA
CTTTTTGATTTAACACATTCTTCTAGTAATCTTCTTTTCGCTTCTCTCCCTCATCATCATATGGT
TTTTCAACCGACCAATCAAATTTCTGATCTAACACTAC
Found at i:74210 original size:84 final size:84
Alignment explanation
Indices: 73723--74244 Score: 450
Period size: 84 Copynumber: 6.2 Consensus size: 84
73713 TCTCCCCTTA
* *
73723 TCTTCTAGTAATCTTCTTTTCAGCTTTTCTCCCTCATCATCATATGGTTTTTCACTGGCCGACAG
1 TCTTCTAGTAATCTTCTTTTC-GCTTCTCTCCCTCATCATCAGATGGTTTTTCACTGGCCGACAG
* * *
73788 -ACGTTT-TGGTTTAACACAG
65 AAC-TTTCTGATTCAACACTG
* * * * * * * **
73807 TCTTCTCA-TAATCTTCTTTACGACTGCTCCCCCTCATCATCATATGGTTTTT-ACCGACCAATG
1 TCTTCT-AGTAATCTTCTTTTCG-CTTCTCTCCCTCATCATCAGATGGTTTTTCACTGGCCGACA
*
73870 GAA-TTTCTGATTAAACA-TCG
64 GAACTTTCTGATTCAACACT-G
* * * *
73890 TCCTCTAGTAATCTTCTTTTCAGCTTCTCTCTCC-CATCATTAGATGGTTTTTCACTGGCCTAAA
1 TCTTCTAGTAATCTTCTTTTC-GCTTCTCTC-CCTCATCATCAGATGGTTTTTCACTGGCCGACA
* *
73954 G-ACTTTTTGATTTAACACCT-
64 GAACTTTCTGATTCAACA-CTG
* * * *
73974 TCTTCTAGTAAACTTCTTTTCGCTTCTCTCCCTCATCATCATATGGTTTTTCAAC-CGCGGACA-
1 TCTTCTAGTAATCTTCTTTTCGCTTCTCTCCCTCATCATCAGATGGTTTTTC-ACTGGCCGACAG
*
74037 AACTTTCTGA-TCTAACACTA
65 AACTTTCTGATTC-AACACTG
* * * *
74057 CCTTCTAGTAATCTTCTTTTCGACTTATCTCTCTCAT-ATTCAGATGGTTTTTCACTGGTCGACA
1 TCTTCTAGTAATCTTCTTTTCG-CTTCTCTCCCTCATCA-TCAGATGGTTTTTCACTGGCCGACA
*
74121 G-ACTTTCTGATTCAACATTG
64 GAACTTTCTGATTCAACACTG
* **
74141 TCTTCTAGTAATCTTCTTTTCAGCTT-TGCTCTCTCATCATCAGATGGTTTTTCACCT-ATCGA-
1 TCTTCTAGTAATCTTCTTTTC-GCTTCT-CTCCCTCATCATCAGATGGTTTTTCA-CTGGCCGAC
* *
74203 AGAACTTTTTGATTCAACACCG
63 AGAACTTTCTGATTCAACACTG
74225 TCATT-TAGTAATCTTCTTTT
1 TC-TTCTAGTAATCTTCTTTT
74245 TGGCTTCCCC
Statistics
Matches: 360, Mismatches: 50, Indels: 56
0.77 0.11 0.12
Matches are distributed among these distances:
82 9 0.03
83 125 0.35
84 216 0.60
85 9 0.03
86 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (84 bp):
TCTTCTAGTAATCTTCTTTTCGCTTCTCTCCCTCATCATCAGATGGTTTTTCACTGGCCGACAGA
ACTTTCTGATTCAACACTG
Found at i:74212 original size:251 final size:251
Alignment explanation
Indices: 73723--74244 Score: 605
Period size: 251 Copynumber: 2.1 Consensus size: 251
73713 TCTCCCCTTA
* * *
73723 TCTTCTAGTAATCTTCTTTTCAGCTTTTCTCCCTCATCATCATATGGTTTTTCACTGGCCGACAG
1 TCTTCTAGTAATCTTCTTTTCAGCTTCTCTCCCTCATCATCATATGGTTTTTCACTCGCCGACAA
* * * * *
73788 ACGTTTTGGTTTAACACAGTCTTCTCATAATCTTCTTTACGACTGCTCCCCCTCATCATCATATG
66 ACGTTTTGATCTAACACAGCCTTCTCATAATCTTCTTTACGACTGATCCCCCTCATCATCAGATG
**
73853 GTTTTTACCGACCAATGGAATTTCTGATTAAACATCGTCCTCTAGTAATCTTCTTTTCAGCTTCT
131 GTTTTTACCGACCAACAGAATTTCTGATTAAACATCGTCCTCTAGTAATCTTCTTTTCAGCTTCT
* * * * *
73918 CTCTCCCATCATTAGATGGTTTTTCACTGGCCTAAAGACTTTTTGATTTAACACCT
196 CTCTCCCATCATCAGATGGTTTTTCACTGACCGAAAGACTTTTTGATTCAACACCG
* *
73974 TCTTCTAGTAAACTTCTTTTC-GCTTCTCTCCCTCATCATCATATGGTTTTTCAAC-CGCGGACA
1 TCTTCTAGTAATCTTCTTTTCAGCTTCTCTCCCTCATCATCATATGGTTTTTC-ACTCGCCGACA
* * * *
74037 AAC-TTTCTGATCTAACACTA-CCTTCT-AGTAATCTTCTTTTCGACTTATCTCTCTCAT-ATTC
65 AACGTTT-TGATCTAACAC-AGCCTTCTCA-TAATCTTCTTTACGACTGATCCCCCTCATCA-TC
* ** * * * * *
74098 AGATGGTTTTTCACTGGTCGACAGACTTTCTGATTCAACATTGTCTTCTAGTAATCTTCTTTTCA
126 AGATGGTTTTT-ACCGACCAACAGAATTTCTGATTAAACATCGTCCTCTAGTAATCTTCTTTTCA
* *
74163 GCTT-TGCTCTCTCATCATCAGATGGTTTTTCACCT-ATCG-AAGAACTTTTTGATTCAACACCG
190 GCTTCT-CTCTCCCATCATCAGATGGTTTTTCA-CTGACCGAAAG-ACTTTTTGATTCAACACCG
74225 TCATT-TAGTAATCTTCTTTT
1 TC-TTCTAGTAATCTTCTTTT
74245 TGGCTTCCCC
Statistics
Matches: 229, Mismatches: 32, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
249 5 0.02
250 92 0.40
251 128 0.56
252 4 0.02
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (251 bp):
TCTTCTAGTAATCTTCTTTTCAGCTTCTCTCCCTCATCATCATATGGTTTTTCACTCGCCGACAA
ACGTTTTGATCTAACACAGCCTTCTCATAATCTTCTTTACGACTGATCCCCCTCATCATCAGATG
GTTTTTACCGACCAACAGAATTTCTGATTAAACATCGTCCTCTAGTAATCTTCTTTTCAGCTTCT
CTCTCCCATCATCAGATGGTTTTTCACTGACCGAAAGACTTTTTGATTCAACACCG
Found at i:81586 original size:111 final size:111
Alignment explanation
Indices: 81403--82184 Score: 972
Period size: 111 Copynumber: 7.3 Consensus size: 111
81393 AATCACAATC
* * * *
81403 TCTCC-AGTAATCTTCTTTTCGGTTTCTCTCCCTCATCATCATCATTAAGTGGTTTTTCACCGGC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
* * *
81467 GAACGGACTCTCTTCCTCGACATCTAGACTATTCGCTTCAACATCG
66 GAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
* *
81513 TCTCCTAGTAAACTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAAC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
* * * *
81578 AAAAGGACTCTCTTCCTCAACATCTGGACTTTTAGCTTCAACGTCG
66 GAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
* * *
81624 TCTCCTAGTAATATTCTTTTCGTCTTCTCTCCCTCATCATCATCATCATCATCAAGTGGTTTTTC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCT--C-C--C-TCATCATCATCATCAAGTGGTTTTTC
* *
81689 ACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAATGTCT
60 ACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
*
81741 TCTCCTAGTAATCTTCTTTTCGGCTTCTCTCCCTCATCATCATCATCATCAAGTGGTTTTTCACC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCT-CC-C-TCATCATCATCATCAAGTGGTTTTTCACC
*
81806 AGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCA
63 AGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
*
81855 TCT-C-------C-TA---TCGGCTTCTCTCCCTCATCAT------CAAGTGGTTTCTCACCAGC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
*
81902 AAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
66 GAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
81948 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
* *
82013 GAACGGGCTCTCTTCCTCGACATCTGGACTTTTTGCTTCAACGTCG
66 GAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
82059 TCT-C-------C-TA---TCGGCTTCTCTCCCTCATCAT------CAAGTGGTTTTTCACCAGC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
* *
82106 GAACGGACTCTCTTCCTCGACTTCTGGACTTTTCGCTTGAACGTCG
66 GAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
* *
82152 TCTCCTAGTAATCTTCTTTTCGCCTTCTCTCCC
1 TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCC
82185 CCTTGTAGAA
Statistics
Matches: 593, Mismatches: 42, Indels: 79
0.83 0.06 0.11
Matches are distributed among these distances:
93 129 0.22
94 2 0.00
99 28 0.05
100 1 0.00
101 4 0.01
102 16 0.03
103 1 0.00
105 35 0.06
106 1 0.00
110 6 0.01
111 182 0.31
113 2 0.00
114 83 0.14
115 1 0.00
116 3 0.01
117 99 0.17
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (111 bp):
TCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTCATCATCATCATCAAGTGGTTTTTCACCAGC
GAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCG
Found at i:81887 original size:93 final size:93
Alignment explanation
Indices: 81783--82158 Score: 527
Period size: 93 Copynumber: 3.8 Consensus size: 93
81773 CTCATCATCA
81783 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
1 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
*
81848 AACGTCATCTCCTATCGGCTTCTCTCCC
66 AACGTCGTCTCCTATCGGCTTCTCTCCC
* *
81876 TCATCATCAAGTGGTTTCTCACCAGCAAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
1 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
81941 AACGTCGTCTCCTAGTAATCTTATTTTCGGCTTCTCTCCCTC
66 AACGTCGTCT-C-------C-TA---TCGGCTTCTCT-CC-C
* *
81983 ATCATCATCATCAAGTGGTTTTTCACCAGCGAACGGGCTCTCTTCCTCGACATCTGGACTTTTTG
1 ----TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCG
82048 CTTCAACGTCGTCTCCTATCGGCTTCTCTCCC
62 CTTCAACGTCGTCTCCTATCGGCTTCTCTCCC
* *
82080 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACTTCTGGACTTTTCGCTTG
1 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
82145 AACGTCGTCTCCTA
66 AACGTCGTCTCCTA
82159 GTAATCTTCT
Statistics
Matches: 254, Mismatches: 11, Indels: 36
0.84 0.04 0.12
Matches are distributed among these distances:
93 147 0.58
94 1 0.00
97 1 0.00
98 2 0.01
99 11 0.04
101 1 0.00
102 4 0.02
103 1 0.00
105 11 0.04
106 2 0.01
107 1 0.00
110 1 0.00
111 71 0.28
ACGTcount: A:0.17, C:0.33, G:0.16, T:0.34
Consensus pattern (93 bp):
TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
AACGTCGTCTCCTATCGGCTTCTCTCCC
Found at i:82095 original size:204 final size:205
Alignment explanation
Indices: 81669--82184 Score: 908
Period size: 204 Copynumber: 2.5 Consensus size: 205
81659 ATCATCATCA
81669 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
1 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
* *
81734 AATGTCTTCTCCTAGTAATCTTCTTTTCGGCTTCTCTCCCTCATCATCATCATCATCAAGTGGTT
66 AACGTCGTCTCCTAGTAATCTTCTTTTCGGCTTCTCT-CC-CATCATCATCATCATCAAGTGGTT
81799 TTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCATCTCCTATC
129 TTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCATCTCCTATC
81864 GGCTTCTCTCCC
194 GGCTTCTCTCCC
* *
81876 TCATCATCAAGTGGTTTCTCACCAGCAAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
1 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
*
81941 AACGTCGTCTCCTAGTAATCTTATTTTCGGCTTCTCTCCC-TCATCATCATCATCAAGTGGTTTT
66 AACGTCGTCTCCTAGTAATCTTCTTTTCGGCTTCTCTCCCATCATCATCATCATCAAGTGGTTTT
* * *
82005 TCACCAGCGAACGGGCTCTCTTCCTCGACATCTGGACTTTTTGCTTCAACGTCGTCTCCTATCGG
131 TCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCATCTCCTATCGG
82070 CTTCTCTCCC
196 CTTCTCTCCC
* *
82080 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACTTCTGGACTTTTCGCTTG
1 TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
*
82145 AACGTCGTCTCCTAGTAATCTTCTTTTCGCCTTCTCTCCC
66 AACGTCGTCTCCTAGTAATCTTCTTTTCGGCTTCTCTCCC
82185 CCTTGTAGAA
Statistics
Matches: 295, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
204 195 0.66
205 1 0.00
206 2 0.01
207 97 0.33
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.36
Consensus pattern (205 bp):
TCATCATCAAGTGGTTTTTCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTC
AACGTCGTCTCCTAGTAATCTTCTTTTCGGCTTCTCTCCCATCATCATCATCATCAAGTGGTTTT
TCACCAGCGAACGGACTCTCTTCCTCGACATCTGGACTTTTCGCTTCAACGTCATCTCCTATCGG
CTTCTCTCCC
Found at i:94070 original size:4 final size:4
Alignment explanation
Indices: 94048--94086 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
94038 TCTCACCAAA
* * *
94048 ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
94087 ATAAAAACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:105138 original size:20 final size:20
Alignment explanation
Indices: 105113--105302 Score: 143
Period size: 20 Copynumber: 9.3 Consensus size: 20
105103 GTTTCCAGAT
* *
105113 TCGCAACACGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
105133 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
* *
105153 TCGCAACGTGATTCTGACTA
1 TCGCAACGCGATTATGACTA
* *
105173 TCGCAACGTGATAAT-ACGTAA
1 TCGCAACGCGATTATGAC-T-A
*
105194 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
* * *
105214 TCGCAACGCGATAATAAGTAA
1 TCGCAACGCGATTATGACT-A
* *
105235 TCGCAACGCGATTCTAACTA
1 TCGCAACGCGATTATGACTA
* *
105255 TCGCAATGCGATAAT-ACGTAA
1 TCGCAACGCGATTATGAC-T-A
*
105276 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
105296 TCGCAAC
1 TCGCAAC
105303 ACTGAATTTC
Statistics
Matches: 133, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.04
20 78 0.59
21 46 0.35
22 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:105207 original size:41 final size:41
Alignment explanation
Indices: 105113--105302 Score: 276
Period size: 41 Copynumber: 4.7 Consensus size: 41
105103 GTTTCCAGAT
* * * *
105113 TCGCAACACGATTTTGACTATCGCAATGCG--AATATGTAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACGT-AA
* *
105153 TCGCAACGTGATTCTGACTATCGCAACGTGATAATACGTAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTAA
*
105194 TCGCAACGCGATTCTGACTATCGCAACGCGATAATAAGTAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTAA
* *
105235 TCGCAACGCGATTCTAACTATCGCAATGCGATAATACGTAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTAA
105276 TCGCAACGCGATTCTGACTATCGCAAC
1 TCGCAACGCGATTCTGACTATCGCAAC
105303 ACTGAATTTC
Statistics
Matches: 134, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 25 0.19
41 103 0.77
42 6 0.04
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTAA
Found at i:105286 original size:21 final size:21
Alignment explanation
Indices: 105172--105287 Score: 123
Period size: 21 Copynumber: 5.6 Consensus size: 21
105162 GATTCTGACT
*
105172 ATCGCAACGTGATAATACGTA
1 ATCGCAACGCGATAATACGTA
**
105193 ATCGCAACGCGATTCTGAC-T-
1 ATCGCAACGCGATAAT-ACGTA
*
105213 ATCGCAACGCGATAATAAGTA
1 ATCGCAACGCGATAATACGTA
**
105234 ATCGCAACGCGATTCTAAC-T-
1 ATCGCAACGCGATAAT-ACGTA
*
105254 ATCGCAATGCGATAATACGTA
1 ATCGCAACGCGATAATACGTA
105275 ATCGCAACGCGAT
1 ATCGCAACGCGAT
105288 TCTGACTATC
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
19 3 0.04
20 29 0.38
21 41 0.54
22 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATAATACGTA
Found at i:106374 original size:12 final size:13
Alignment explanation
Indices: 106357--106389 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
106347 CCCTGAATAA
106357 GAAGAAA-TCCCC
1 GAAGAAAGTCCCC
106369 GAAGAAAAGTCCCC
1 GAAG-AAAGTCCCC
106383 GAAGAAA
1 GAAGAAA
106390 ATGCCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.06
Consensus pattern (13 bp):
GAAGAAAGTCCCC
Found at i:106383 original size:14 final size:14
Alignment explanation
Indices: 106364--106390 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106354 TAAGAAGAAA
106364 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
106378 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
106391 TGCCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:108772 original size:140 final size:140
Alignment explanation
Indices: 108501--108919 Score: 738
Period size: 140 Copynumber: 3.0 Consensus size: 140
108491 GCAAACGTTG
108501 TATTATGTGTA-TTT-TATGT--ACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
108562 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTGTTACACATTCATTTGAATATCGCAACA
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTGTTACACATTCATTTGAATATCGCAACG
108627 CGAATTTGAC
131 CGAATTTGAC
108637 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* * * *
108702 TTGAACATTGCTATGATATATTCAGTTGTTATCATTTGTTACATATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTGTTACACATTCATTTGAATATCGCAACG
108767 CGAATTTGAC
131 CGAATTTGAC
*
108777 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
108842 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTGTTACACATTCATTTGAATATCGCAACG
*
108907 TGAATTTGAC
131 CGAATTTGAC
108917 TAT
1 TAT
108920 CACAATGCGA
Statistics
Matches: 267, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
136 11 0.04
137 3 0.01
138 5 0.02
140 248 0.93
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTGTTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:108915 original size:20 final size:20
Alignment explanation
Indices: 108890--109061 Score: 142
Period size: 20 Copynumber: 8.9 Consensus size: 20
108880 TTACACATTC
*
108890 ATTTGAATATCGCAACGTGA
1 ATTTGACTATCGCAACGTGA
* * *
108910 ATTTGACTATCACAATGCGA
1 ATTTGACTATCGCAACGTGA
108930 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGTGA
*
108950 ATTTGACTATTGCAA--T-A
1 ATTTGACTATCGCAACGTGA
** *
108967 CA----AAAATCGCAACGCGA
1 -ATTTGACTATCGCAACGTGA
*
108984 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGTGA
** * **
109004 ATTTGAAAATTGCAACACGA
1 ATTTGACTATCGCAACGTGA
109024 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGTGA
* *
109044 ATTTGATTATTGCAACGT
1 ATTTGACTATCGCAACGT
109062 TGCAAAAGTG
Statistics
Matches: 119, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
14 7 0.06
16 1 0.01
17 2 0.02
18 2 0.02
20 107 0.90
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (20 bp):
ATTTGACTATCGCAACGTGA
Found at i:108945 original size:40 final size:40
Alignment explanation
Indices: 108890--109061 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 40
108880 TTACACATTC
* *
108890 ATTTGAATATCGCAACGTGAATTTGACTATCACAATGCGA
1 ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCGA
* * **
108930 ATTTGACTATCGCAACGTGAATTTGACTATTGCAATAC-A
1 ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCGA
*
108969 A----AA-ATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCGA
* * ** *
109004 ATTTGAAAATTGCAACACGAATTTGACTATCGCAACGTGA
1 ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCGA
* *
109044 ATTTGATTATTGCAACGT
1 ATTTGAATATCGCAACGT
109062 TGCAAAAGTG
Statistics
Matches: 110, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
34 26 0.24
35 3 0.03
39 4 0.04
40 77 0.70
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (40 bp):
ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCGA
Found at i:109019 original size:74 final size:74
Alignment explanation
Indices: 108898--109038 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 74
108888 TCATTTGAAT
* * ** ** *
108898 ATCGCAACGTGAATTTGACTATCACAATGCGAATTTGACTATCGCAACGTGAATTTGACTATTGC
1 ATCGCAACGCGAATTTGACTATCACAACGCGAATTTGAAAATCGCAACACGAATTTGACTATCGC
108963 AATACAAAA
66 AATACAAAA
* *
108972 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGAAAATTGCAACACGAATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCACAACGCGAATTTGAAAATCGCAACACGAATTTGACTATCGC
109037 AA
66 AA
109039 CGTGAATTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 58 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCACAACGCGAATTTGAAAATCGCAACACGAATTTGACTATCGC
AATACAAAA
Found at i:109230 original size:67 final size:69
Alignment explanation
Indices: 109114--109296 Score: 193
Period size: 72 Copynumber: 2.7 Consensus size: 69
109104 TGCAAATTGA
*
109114 AATT-AACAAATCAACTTTTACATTTCAATCAATTAAACAAGC---ACAAATAAGAA-TTA-TTT
1 AATTAAACAAATCAACTTTTACA--T-AATCAATTAAACAAGCAAAAAAAATAAGAATTTATTTT
109173 ACACATC
63 ACACATC
*
109180 AATTAAACAAATCAACTTTTACA-AATCAATTAAACAAGCAAAAAATAATAATAATTCTTATTTT
1 AATTAAACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAA-AATAAGAA-T-TTATTTT
* *
109244 CCTCATC
63 ACACATC
* *
109251 AATTAAACAAATCAGACTTTTA-AGAATCAATTAAACAATCAAAAAA
1 AATTAAACAAATCA-ACTTTTACATAATCAATTAAACAAGCAAAAAA
109297 GTGTACCTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
63 16 0.16
66 6 0.06
67 25 0.25
70 3 0.03
71 23 0.23
72 28 0.28
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (69 bp):
AATTAAACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAAAATAAGAATTTATTTTACA
CATC
Found at i:110707 original size:42 final size:42
Alignment explanation
Indices: 110609--110709 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
110599 GTGGGAGGGA
* * * *
110609 CCTCTTCAACGATGACAAGGGCATCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAAGGGCATCTTGAACGATAGGAGAGG
* ** * * *
110651 ACTCTTGAGGGATGATAGGGGCATCTTGAATGATAGGAGAGG
1 CCTCTTGAACGATGACAAGGGCATCTTGAACGATAGGAGAGG
*
110693 CCTCTTGAATGATGACA
1 CCTCTTGAACGATGACA
110710 GGTGAGTCGG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.17, G:0.34, T:0.23
Consensus pattern (42 bp):
CCTCTTGAACGATGACAAGGGCATCTTGAACGATAGGAGAGG
Found at i:111294 original size:19 final size:20
Alignment explanation
Indices: 111270--111308 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
111260 GCAACAGGAT
*
111270 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACTAAA
111289 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAACTAAA
111309 TTCGCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAAACTAAA
Found at i:111386 original size:33 final size:33
Alignment explanation
Indices: 111313--111388 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
111303 ACTAAATTCG
*
111313 CGTTGCGATTTTCATTTTCGTATTGCGATTTTCA
1 CGTTGCGATTTT-ATTTTCGTATTGCGATTATCA
* *
111347 CATTGCGATTTT-TGTTTC-TCATTGCGATTATCC
1 CGTTGCGATTTTAT-TTTCGT-ATTGCGATTATCA
111380 CGTTGCGAT
1 CGTTGCGAT
111389 AGTCATTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 2 0.06
33 23 0.64
34 11 0.31
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTATTTTCGTATTGCGATTATCA
Found at i:113365 original size:20 final size:20
Alignment explanation
Indices: 113322--113395 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
113312 GAAACTTAAA
**
113322 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
113342 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* * **
113362 ATCGTAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
113382 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
113396 CTAAAATCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:114021 original size:20 final size:21
Alignment explanation
Indices: 113998--114049 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
113988 ATAGTCAGAA
*
113998 TCGCGTTGCGA-TTTACATAT
1 TCGCGTTGCGATTTTACAAAT
* *
114018 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTACAAAT
114039 TCGCGTTGCGA
1 TCGCGTTGCGA
114050 ATCTGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATTTTACAAAT
Found at i:115077 original size:158 final size:158
Alignment explanation
Indices: 114789--115110 Score: 626
Period size: 158 Copynumber: 2.0 Consensus size: 158
114779 CAATCATCTT
*
114789 ATATTTGATTTAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
1 ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
114854 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGTTTTCAATTAATTTATGTGTTTGTA
66 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGTTTTCAATTAATTTATGTGTTTGTA
114919 GAATTAGAAAGTGGGAGCATACGTCGAA
131 GAATTAGAAAGTGGGAGCATACGTCGAA
*
114947 ATATTTGATTCAGAAGTTTGCTCGATCTTTCTTTATAAGGTAATTTTGTTATAATATTTATTTTA
1 ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
115012 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGTTTTCAATTAATTTATGTGTTTGTA
66 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGTTTTCAATTAATTTATGTGTTTGTA
115077 GAATTAGAAAGTGGGAGCATACGTCGAA
131 GAATTAGAAAGTGGGAGCATACGTCGAA
115105 ATATTT
1 ATATTT
115111 TAGCGGTGCA
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 162 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (158 bp):
ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGTTTTCAATTAATTTATGTGTTTGTA
GAATTAGAAAGTGGGAGCATACGTCGAA
Found at i:117382 original size:28 final size:25
Alignment explanation
Indices: 117337--117412 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 25
117327 TATGTCTGCA
*
117337 AAAAAATTAATTA-AATAAAATATT
1 AAAAAATTAAATATAATAAAATATT
* * * *
117361 TAACAATTAAAATATTTAATAAATTACT
1 AAAAAATT-AAATA--TAATAAAATATT
117389 AAAAAATTAAATATAATAAAATAT
1 AAAAAATTAAATATAATAAAATAT
117413 AACTTAATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
24 6 0.15
25 13 0.33
27 5 0.13
28 15 0.38
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAAAATTAAATATAATAAAATATT
Found at i:119746 original size:2 final size:2
Alignment explanation
Indices: 119741--119791 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
119731 ATACATTGAA
119741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119783 AT AT AT AT A
1 AT AT AT AT A
119792 ATGCCGTGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:121396 original size:29 final size:29
Alignment explanation
Indices: 121354--121409 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
121344 GTTATCGTAA
121354 CTCTGCATCATGAGCCATGCCGACTATAC
1 CTCTGCATCATGAGCCATGCCGACTATAC
121383 CTCTGCATCATGAGCCATGCCGACTAT
1 CTCTGCATCATGAGCCATGCCGACTAT
121410 CACTTTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (29 bp):
CTCTGCATCATGAGCCATGCCGACTATAC
Found at i:137569 original size:31 final size:30
Alignment explanation
Indices: 137525--137686 Score: 118
Period size: 31 Copynumber: 5.3 Consensus size: 30
137515 AATGATTATT
137525 AAATTATTATAAAATAATTATTAAATCTATC
1 AAATT-TTATAAAATAATTATTAAATCTATC
* *
137556 AAACTTTTATAAAATTATTATCGT-GA-C-AT-
1 AAA-TTTTATAAAATAATTAT--TAAATCTATC
* * * ** *
137585 AGATTTTATATAATTATCGTTAAATTTATC
1 AAATTTTATAAAATAATTATTAAATCTATC
*
137615 AAATTATTATAAAATAATTATTAAATCAATC
1 AAATT-TTATAAAATAATTATTAAATCTATC
* *
137646 AAATTTTAATAAAATAATTTCTTAAAT-TAAAC
1 AAATTTT-ATAAAATAA-TTATTAAATCT-ATC
137678 AAATTTTAT
1 AAATTTTAT
137687 GACTATAAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 14 0.14
29 4 0.04
30 8 0.08
31 53 0.52
32 20 0.20
33 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (30 bp):
AAATTTTATAAAATAATTATTAAATCTATC
Found at i:141025 original size:60 final size:60
Alignment explanation
Indices: 140922--141083 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 60
140912 GTTTAAAATG
* ** * *
140922 ATCCTTATACTTTTAAATATTAT-AATTTCATCCTTAAATTATGA-TTATCATTCTAAATTA
1 ATCCTTAAACTTTTAAATATT-TCAATTTCATCCCCAAACTATGACCT-TCATTCTAAATTA
* *
140982 GTCCTTAAACTTTTAAACATTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATTA
1 ATCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATTA
* * * * *
141042 ACCCCTAAACTTTTTGAATATTCCAACTTCAT-CCCAAACTAT
1 ATCCTTAAAC-TTTTAAATATTTCAATTTCATCCCCAAACTAT
141084 ATGTATATAC
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
59 1 0.01
60 66 0.78
61 18 0.21
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (60 bp):
ATCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATTA
Found at i:142238 original size:207 final size:204
Alignment explanation
Indices: 141891--142298 Score: 699
Period size: 207 Copynumber: 2.0 Consensus size: 204
141881 ATAATTTTAC
* * *
141891 TTTATATATTTAGGAATAATTACAATAATACCCCTATGTATATTATTTTTTTCAATTAAGTCACT
1 TTTATATATTTAGGAATAATTACAATAATACCCCTATATATATTATTTTATCCAATTAAGTCACT
**
141956 GTTTTTATTGAATAAAAATATTTTATTATTATTTTGGATCGGGTTTTTAAGTTATATATCGGTCG
66 GTTTTTATTGAATAAAAATATTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGGTCG
*
142021 AGTGAAAACTTGTTTTGGTCGGGTCGAATCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAGTCG
131 AGTAAAAACTTGTTTTGGTCGGGTCGAATCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAGTCG
142086 GGTGGATAT
196 GGTGGATAT
* * *
142095 TTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTATCCAATTAAGTTATT
1 TTTATATATTTAGGAATAATTACAATAATACCCCTATATATATTATTTTATCCAATTAAGTCACT
142160 GTTTTTATTGAATAAAAATATTTTTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGG
66 GTTTTTATTGAATAAAAATA---TTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGG
*
142225 TCGAGTAAAAACTTGTTTTGGTCGGGTCGAGTCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAG
128 TCGAGTAAAAACTTGTTTTGGTCGGGTCGAATCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAG
142290 TCGGGTGGA
193 TCGGGTGGA
142299 CCAAACACTC
Statistics
Matches: 191, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
204 79 0.41
207 112 0.59
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (204 bp):
TTTATATATTTAGGAATAATTACAATAATACCCCTATATATATTATTTTATCCAATTAAGTCACT
GTTTTTATTGAATAAAAATATTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGGTCG
AGTAAAAACTTGTTTTGGTCGGGTCGAATCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAGTCG
GGTGGATAT
Done.