Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_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: 3900615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 19
Found at i:1021 original size:23 final size:23
Alignment explanation
Indices: 991--1041 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
981 TTATACGAAA
*
991 ATTTATGCTCATTCTA-AAATATT
1 ATTTATGCCCATTC-AGAAATATT
1014 ATTTATGCCCATTCAGAAATATT
1 ATTTATGCCCATTCAGAAATATT
1037 ATTTA
1 ATTTA
1042 AACTCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (23 bp):
ATTTATGCCCATTCAGAAATATT
Found at i:2002 original size:20 final size:21
Alignment explanation
Indices: 1977--2028 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1967 TTTTCCCAAT
*
1977 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1997 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2018 TCGCAATGCGA
1 TCGCAATGCGA
2029 TACTAACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2041 original size:41 final size:41
Alignment explanation
Indices: 2014--2091 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
2004 GCGAATTGGG
* * *
2014 AAAATCGCAATGCGATACTAACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATAATAA
* *
2055 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATA
2092 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTAACTATCGCAACGCGATAATAA
Found at i:2042 original size:20 final size:20
Alignment explanation
Indices: 2017--2111 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
2007 AATTGGGAAA
*
2017 ATCGCAATGCGATACTAACT
1 ATCGCAACGCGATACTAACT
* * **
2037 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-AACT
* *
2058 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTAACT
* *
2078 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTAACT
*
2098 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2112 ATACATAATC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:2319 original size:22 final size:22
Alignment explanation
Indices: 2291--2334 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2281 CCATCTCTCA
2291 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2313 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2335 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:3988 original size:17 final size:18
Alignment explanation
Indices: 3945--3988 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3935 TCCACTTCGG
3945 GAGCCATCACCTCATCCA
1 GAGCCATCACCTCATCCA
* *
3963 GAGCTATCACCTCA-CTA
1 GAGCCATCACCTCATCCA
3980 GAGCCATCA
1 GAGCCATCA
3989 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.30, C:0.39, G:0.14, T:0.18
Consensus pattern (18 bp):
GAGCCATCACCTCATCCA
Found at i:4474 original size:20 final size:20
Alignment explanation
Indices: 4449--4494 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4439 TAGTTTACTT
4449 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
4469 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
4489 TCGCAA
1 TCGCAA
4495 TGCAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:4541 original size:32 final size:33
Alignment explanation
Indices: 4490--4578 Score: 126
Period size: 32 Copynumber: 2.7 Consensus size: 33
4480 AAATGGCTAT
* * * *
4490 CGCAATGCAAAATAAAAATCGCAACGACAAGAG
1 CGCAACGCGAAATGAAAATCGCAACGACAAAAG
*
4523 CGCAACGCGAAATG-AAATCGCAACGACAAAAT
1 CGCAACGCGAAATGAAAATCGCAACGACAAAAG
4555 CGCAACGCGAAATGAAAATCGCAA
1 CGCAACGCGAAATGAAAATCGCAA
4579 TGCAATTTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
32 30 0.60
33 20 0.40
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.09
Consensus pattern (33 bp):
CGCAACGCGAAATGAAAATCGCAACGACAAAAG
Found at i:4556 original size:14 final size:14
Alignment explanation
Indices: 4504--4561 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
4494 ATGCAAAATA
4504 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* * *
4518 AAGAGCGCAACGCGAA
1 AAAATCGCAA--CGAC
4534 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4550 AAAATCGCAACG
1 AAAATCGCAACG
4562 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.56
16 8 0.24
18 7 0.21
ACGTcount: A:0.47, C:0.26, G:0.21, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4572 original size:19 final size:19
Alignment explanation
Indices: 4523--4578 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 19
4513 ACGACAAGAG
4523 CGCAACGCGAAATG-AAAT
1 CGCAACGCGAAATGAAAAT
*
4541 CGCAA--CG--A-CAAAAT
1 CGCAACGCGAAATGAAAAT
4555 CGCAACGCGAAATGAAAAT
1 CGCAACGCGAAATGAAAAT
4574 CGCAA
1 CGCAA
4579 TGCAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
14 10 0.33
16 4 0.13
18 6 0.20
19 10 0.33
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.09
Consensus pattern (19 bp):
CGCAACGCGAAATGAAAAT
Found at i:4614 original size:14 final size:14
Alignment explanation
Indices: 4595--4652 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
4585 TTGTGTTTCG
4595 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4609 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
* *
4625 CGCGTTGCGCTCTTGT
1 --CGTTGCGATTTTGT
4641 CGTTGCGATTTT
1 CGTTGCGATTTT
4653 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 21 0.62
16 4 0.12
18 9 0.26
ACGTcount: A:0.07, C:0.21, G:0.26, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4631 original size:32 final size:33
Alignment explanation
Indices: 4590--4668 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
4580 GCAATTTGTG
*
4590 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATCTTGTCGTTGCGATTTTCA
*
4622 TTTCGCGTTGCGCTCTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATCTTGTCGTTGCGATTTTCA
*
4655 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
4669 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.09, C:0.22, G:0.24, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATCTTGTCGTTGCGATTTTCA
Found at i:4667 original size:19 final size:19
Alignment explanation
Indices: 4641--4707 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
4631 GCGCTCTTGT
**
4641 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
4660 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
4680 CGTTGCGATAGTCATTTTG
1 CGTTGCGATAGTCATTTCG
4699 CGTTGCGAT
1 CGTTGCGAT
4708 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 23 0.57
20 17 0.43
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:4687 original size:20 final size:19
Alignment explanation
Indices: 4653--4707 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
4643 TTGCGATTTT
*
4653 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
4672 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
4692 CATTTTGCGTTGCGAT
1 CATTTCGCGTTGCGAT
4708 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:6745 original size:19 final size:19
Alignment explanation
Indices: 6723--6809 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
6713 ATCGCAACGA
6723 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6742 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6761 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6780 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
6794 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
6810 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 49 0.75
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:6774 original size:38 final size:33
Alignment explanation
Indices: 6694--6809 Score: 151
Period size: 33 Copynumber: 3.4 Consensus size: 33
6684 AAAACAGACT
* ***
6694 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
6727 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAA
6765 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
6798 ATCGCAATGCGA
1 ATCGCAATGCGA
6810 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 38 0.51
34 1 0.01
35 2 0.03
36 2 0.03
37 1 0.01
38 30 0.41
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:6885 original size:20 final size:20
Alignment explanation
Indices: 6828--6885 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
6818 TCGCATTGCG
* *
6828 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
6848 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
6868 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
6886 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:7963 original size:24 final size:24
Alignment explanation
Indices: 7936--7989 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7926 GTATTCGAAA
* *
7936 TTTGATCTTAGTCAATACCCGGAC
1 TTTGATATTAGTCAATACACGGAC
* *
7960 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTAGTCAATACACGGAC
7984 TTTGAT
1 TTTGAT
7990 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATATTAGTCAATACACGGAC
Found at i:10486 original size:19 final size:19
Alignment explanation
Indices: 10444--10651 Score: 212
Period size: 19 Copynumber: 11.7 Consensus size: 19
10434 CTTAATGTCC
* **
10444 ATCGCAATGCGGAAATTACT
1 ATCGCAATGC-GAAATGAAA
10464 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
10483 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
10497 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
10516 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
10530 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
10549 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
10563 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
10582 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
10601 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
10620 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
10639 ATCGCAACGCGAA
1 ATCGCAATGCGAA
10652 TTTAATTTCG
Statistics
Matches: 157, Mismatches: 16, Indels: 31
0.77 0.08 0.15
Matches are distributed among these distances:
14 27 0.17
15 3 0.02
16 6 0.04
17 6 0.04
18 3 0.02
19 102 0.65
20 10 0.06
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:10506 original size:33 final size:33
Alignment explanation
Indices: 10464--10626 Score: 220
Period size: 33 Copynumber: 4.8 Consensus size: 33
10454 GGAAATTACT
10464 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
10497 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
10529 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
10563 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGA
10601 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
10627 TGCGAAATGA
Statistics
Matches: 114, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
32 1 0.01
33 81 0.71
34 1 0.01
35 2 0.02
37 1 0.01
38 28 0.25
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:10571 original size:66 final size:69
Alignment explanation
Indices: 10464--10626 Score: 251
Period size: 66 Copynumber: 2.4 Consensus size: 69
10454 GGAAATTACT
*
10464 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-CG-CT
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAGCGAAT
*
10527 -AAT
66 GAAA
* *
10530 TTCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA-GCG-A
10595 ATGAAA
64 ATGAAA
10601 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
10627 TGCGAAATGA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
66 57 0.66
68 2 0.02
70 1 0.01
71 27 0.31
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (69 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAGCGAAT
GAAA
Found at i:10669 original size:19 final size:20
Alignment explanation
Indices: 10647--10689 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10637 AAATCGCAAC
10647 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
10666 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
10686 GCGA
1 GCGA
10690 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:10669 original size:38 final size:38
Alignment explanation
Indices: 10444--10651 Score: 176
Period size: 33 Copynumber: 5.8 Consensus size: 38
10434 CTTAATGTCC
* ** *
10444 ATCGCAATGCGGAAATTACTATCGCAATGCGAAATGAAA
1 ATCGCAATGC-GAAATGAAAATCGCAACGCGAAATGAAA
* *
10483 ATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
* ** *
10516 ATCGCAA--CG--CT-AATTTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
** *
10549 ATCGCAA--CG--A-GGGAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
*
10582 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
10620 ATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAA
10652 TTTAATTTCG
Statistics
Matches: 147, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
33 82 0.56
34 1 0.01
35 2 0.01
36 1 0.01
37 2 0.01
38 52 0.35
39 7 0.05
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (38 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
Found at i:10669 original size:57 final size:57
Alignment explanation
Indices: 10444--10651 Score: 203
Period size: 52 Copynumber: 3.9 Consensus size: 57
10434 CTTAATGTCC
* ** *
10444 ATCGCAATGCGGAAATTACTATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
* ** *
10497 ATCGCAATGCGAAATGAAAATCGCAA--CG--CT-AATTTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
** *
10549 ATCGCAA--CG--A-GGGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
10601 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAA
10652 TTTAATTTCG
Statistics
Matches: 125, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
47 17 0.14
48 2 0.02
49 4 0.03
50 4 0.03
51 2 0.02
52 50 0.40
53 10 0.08
54 2 0.02
56 1 0.01
57 33 0.26
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (57 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAA
Found at i:10674 original size:14 final size:14
Alignment explanation
Indices: 10675--10708 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10665 TGCGATTTTC
10675 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
10689 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
10703 ATTTTC
1 ATTTTC
10709 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:10849 original size:14 final size:14
Alignment explanation
Indices: 10830--10866 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10820 CATCAATTAA
10830 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
10844 ACAAATCACCTTTT
1 ACAAATCAACTTTT
10858 ACAAATCAA
1 ACAAATCAA
10867 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:11783 original size:20 final size:20
Alignment explanation
Indices: 11690--11783 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
11680 CGCTATGTAA
*
11690 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
11710 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
11730 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
11751 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
11771 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
11784 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:11802 original size:41 final size:41
Alignment explanation
Indices: 11711--11845 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
11701 AAAGTCAGTA
* * * ** *
11711 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
11751 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
11793 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
11834 TCGCGTTGCGAT
1 TCGCGTTGCGAT
11846 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:11816 original size:20 final size:20
Alignment explanation
Indices: 11772--11864 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
11762 ATAGTCAGTA
* **
11772 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
11793 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
11813 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
11834 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
11854 TCGCATTGCGA
1 TCGCATTGCGA
11865 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:11846 original size:41 final size:41
Alignment explanation
Indices: 11772--11867 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
11762 ATAGTCAGTA
*
11772 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
11813 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
11854 TCGCATTGCGAATT
1 TCGCATTGCGAATT
11868 GGGAAAATTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:12193 original size:22 final size:21
Alignment explanation
Indices: 12152--12207 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
12142 CAAGGTAAAA
* * *
12152 ATAATATAATTTTAAATTTTT
1 ATAATTTAATTTTTAATTTTG
*
12173 ATTAATTTAATTTTTATTTTTG
1 A-TAATTTAATTTTTAATTTTG
12195 AT-ATTTAATTTTT
1 ATAATTTAATTTTT
12208 TGAACATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 2 0.07
22 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATAATTTAATTTTTAATTTTG
Found at i:15257 original size:8 final size:8
Alignment explanation
Indices: 15230--15262 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
15220 CGGGATTACA
15230 ATACATGC
1 ATACATGC
*
15238 AT-CATAC
1 ATACATGC
15245 ATACATGC
1 ATACATGC
15253 ATACATGC
1 ATACATGC
15261 AT
1 AT
15263 GCATTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (8 bp):
ATACATGC
Found at i:15257 original size:12 final size:12
Alignment explanation
Indices: 15230--15266 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
15220 CGGGATTACA
15230 ATACATGCAT-C
1 ATACATGCATGC
*
15241 ATACATACATGC
1 ATACATGCATGC
15253 ATACATGCATGC
1 ATACATGCATGC
15265 AT
1 AT
15267 TCTTAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (12 bp):
ATACATGCATGC
Found at i:15549 original size:21 final size:21
Alignment explanation
Indices: 15506--15549 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15496 TTAAAAGTAT
*
15506 AATTTTTATATTAAATTAGTC
1 AATTTTTATATTAAATTACTC
*
15527 AATTTTT-TTTTAAATTTACTC
1 AATTTTTATATTAAA-TTACTC
15548 AA
1 AA
15550 AACCCTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTTTTATATTAAATTACTC
Found at i:20969 original size:20 final size:20
Alignment explanation
Indices: 20946--20985 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20936 TGATTTTTTT
*
20946 ATAAACTAAAAGTTTTTGGA
1 ATAAACTAAAAGATTTTGGA
*
20966 ATAAACTACAAGATTTTGGA
1 ATAAACTAAAAGATTTTGGA
20986 GAAGGGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (20 bp):
ATAAACTAAAAGATTTTGGA
Found at i:21224 original size:19 final size:19
Alignment explanation
Indices: 21200--21239 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21190 AATTCTGAAG
*
21200 TTGAACGATGATTTATAAA
1 TTGAACAATGATTTATAAA
21219 TTGAACAATGATTTATAAA
1 TTGAACAATGATTTATAAA
21238 TT
1 TT
21240 TGATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (19 bp):
TTGAACAATGATTTATAAA
Found at i:28358 original size:65 final size:64
Alignment explanation
Indices: 28244--28377 Score: 198
Period size: 65 Copynumber: 2.1 Consensus size: 64
28234 ACACTAATTA
** *
28244 CATTCGATGTTTCAAAATAGCCGGAGTGCATCGATGCATGGTCTGTGCATCGGTACACAAAATG
1 CATTCGATGTTTCAAAATAGCAAGAGTGCATCAATGCATGGTCTGTGCATCGGTACACAAAATG
**
28308 CATTCGATGTTTCAAAATATTTAAGAGTGCATCAATGCATGG-CTTGTGCATCGGTACACAAAAT
1 CATTCGATGTTTCAAAATA-GCAAGAGTGCATCAATGCATGGTC-TGTGCATCGGTACACAAAAT
28372 G
64 G
28373 CATTC
1 CATTC
28378 AAAATAGGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 20 0.32
65 43 0.68
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (64 bp):
CATTCGATGTTTCAAAATAGCAAGAGTGCATCAATGCATGGTCTGTGCATCGGTACACAAAATG
Found at i:28802 original size:31 final size:30
Alignment explanation
Indices: 28766--28826 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
28756 ATTCTCCCCA
28766 TTTTTGTTAAATCAAAAAGACTTT-AAAATTT
1 TTTTTGTTAAA--AAAAAGACTTTGAAAATTT
* *
28797 TTTTTGTTCAAAACAAGACTTTGAAAATTT
1 TTTTTGTTAAAAAAAAGACTTTGAAAATTT
28827 AGCCAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 7 0.26
31 10 0.37
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (30 bp):
TTTTTGTTAAAAAAAAGACTTTGAAAATTT
Found at i:30798 original size:20 final size:20
Alignment explanation
Indices: 30773--30813 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30763 GATTTTGTGA
30773 GAGTTTGATGATTCCAACAT
1 GAGTTTGATGATTCCAACAT
30793 GAGTTTGATGATTCCAACAT
1 GAGTTTGATGATTCCAACAT
30813 G
1 G
30814 TTTATAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
GAGTTTGATGATTCCAACAT
Found at i:31064 original size:44 final size:43
Alignment explanation
Indices: 30997--31092 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 43
30987 AGCAGAGTGC
30997 ATCGATGCACATTCAAGGAATGCATCAGTACGCCT-TCATGGTGT
1 ATCGATGCACATTCAAGGAATGCATCAGTACG-CTGTC-TGGTGT
* * *
31041 ATCGATGCACATTCAAGGGATGCATCGGTACGCTGTCTTGTGT
1 ATCGATGCACATTCAAGGAATGCATCAGTACGCTGTCTGGTGT
31084 ATCGATGCA
1 ATCGATGCA
31093 TTTAGCACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 16 0.33
44 32 0.67
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (43 bp):
ATCGATGCACATTCAAGGAATGCATCAGTACGCTGTCTGGTGT
Found at i:31067 original size:23 final size:23
Alignment explanation
Indices: 30994--31067 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
30984 CACAGCAGAG
*
30994 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGGGA
* *
31017 TGCATCAGTACGC-C-TTC-ATGG-
1 TGCATC-G-ATGCACATTCAAGGGA
*
31038 TGTATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAAGGGA
31061 TGCATCG
1 TGCATCG
31068 GTACGCTGTC
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
19 3 0.08
20 2 0.05
21 8 0.21
22 5 0.13
23 15 0.39
24 2 0.05
25 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:44574 original size:65 final size:64
Alignment explanation
Indices: 44487--44641 Score: 195
Period size: 65 Copynumber: 2.4 Consensus size: 64
44477 TACACTAGGG
** * * *
44487 GTGCATCGGTACAGTAATTGCATTCGATGTTTCAAAATAGCCAGGAGTGCATCGATGCATGG-TC
1 GTGCATC-GTACACAAAATGCATTCGATGTTTCAAAATAGCCAAGAGTGCATCAATGCATGGCT-
44551 T
64 T
** *
44552 GTGCATCAGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTTCATCAATGCATGGCTT
1 GTGCATC-GTACACAAAATGCATTCGATGTTTCAAAATAGCCAAGAGTGCATCAATGCATGGCTT
44617 GTGCATCGATACACAAAATGCATTC
1 GTGCATCG-TACACAAAATGCATTC
44642 AAAATAGGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 1 0.01
65 77 0.97
66 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (64 bp):
GTGCATCGTACACAAAATGCATTCGATGTTTCAAAATAGCCAAGAGTGCATCAATGCATGGCTT
Found at i:48457 original size:45 final size:45
Alignment explanation
Indices: 48406--48498 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
48396 ACTTTAATTT
48406 TATTTCTAATTTTCTACTTGTTATTTCATATAAATGATA-AACTAA
1 TATTTCTAATTTTCTACTTGTT-TTTCATATAAATGATAGAACTAA
48451 TATTTCTAATTTTCTACTTGTTTTTCATATAAATGATAGAACTAA
1 TATTTCTAATTTTCTACTTGTTTTTCATATAAATGATAGAACTAA
48496 TAT
1 TAT
48499 GCATATTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 16 0.34
45 31 0.66
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.49
Consensus pattern (45 bp):
TATTTCTAATTTTCTACTTGTTTTTCATATAAATGATAGAACTAA
Found at i:56617 original size:15 final size:16
Alignment explanation
Indices: 56586--56616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56576 AACTTTGACC
56586 AAAAAGTCAAAATTTT
1 AAAAAGTCAAAATTTT
*
56602 AAAAAGTCATAATTT
1 AAAAAGTCAAAATTT
56617 ATGTTTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
AAAAAGTCAAAATTTT
Found at i:66437 original size:23 final size:23
Alignment explanation
Indices: 66407--66454 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
66397 CGCCATTTTT
66407 TACTTCTAGTGGTATTGAGTGCA
1 TACTTCTAGTGGTATTGAGTGCA
66430 TACTTCTAGTGGTATTGAGTGCA
1 TACTTCTAGTGGTATTGAGTGCA
66453 TA
1 TA
66455 TTTGTGGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (23 bp):
TACTTCTAGTGGTATTGAGTGCA
Found at i:76666 original size:15 final size:16
Alignment explanation
Indices: 76648--76677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76638 TTACTTTTCT
76648 TTTTC-AAGTTTTTAC
1 TTTTCAAAGTTTTTAC
76663 TTTTCAAAGTTTTTA
1 TTTTCAAAGTTTTTA
76678 TTTATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (16 bp):
TTTTCAAAGTTTTTAC
Found at i:81068 original size:18 final size:18
Alignment explanation
Indices: 81042--81076 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
81032 TACGATAGGG
81042 TATGCCTTTACTCTTGGA
1 TATGCCTTTACTCTTGGA
*
81060 TATGTCTTTACTCTTGG
1 TATGCCTTTACTCTTGG
81077 TGGAGGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.49
Consensus pattern (18 bp):
TATGCCTTTACTCTTGGA
Found at i:82858 original size:13 final size:13
Alignment explanation
Indices: 82840--82864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82830 GTTTAAATAT
82840 TTTAAGAATTATC
1 TTTAAGAATTATC
82853 TTTAAGAATTAT
1 TTTAAGAATTAT
82865 ATCTTATTTT
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:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAAGAATTATC
Found at i:82876 original size:20 final size:20
Alignment explanation
Indices: 82848--82886 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
82838 ATTTTAAGAA
82848 TTATCTTTAAGAATTATATC
1 TTATCTTTAAGAATTATATC
* *
82868 TTATTTTTAGGAATTATAT
1 TTATCTTTAAGAATTATAT
82887 TTTCCTTGTT
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:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
TTATCTTTAAGAATTATATC
Found at i:83603 original size:87 final size:87
Alignment explanation
Indices: 83493--83666 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
83483 AGAGAGAAAA
83493 ATAAGTTACACGGGTTGGGCCCTGTAGACTGTAACCGGTGAATAACCGAAACAAAAAATTATTCC
1 ATAAGTTACACGGGTTGGGCCCTGTAGACTGTAACCGGTGAATAACCGAAACAAAAAATTATTCC
83558 GAGGATCAATTAGAATTTGAGG
66 GAGGATCAATTAGAATTTGAGG
*
83580 ATAAGTTACACGGGTTGGGCCCTGTAGACTGTAACCGGTGAATAACCGAAACAAAAATTTATTCC
1 ATAAGTTACACGGGTTGGGCCCTGTAGACTGTAACCGGTGAATAACCGAAACAAAAAATTATTCC
83645 GAGGATCAATTAGAATTTGAGG
66 GAGGATCAATTAGAATTTGAGG
83667 CAAAAGCTGA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (87 bp):
ATAAGTTACACGGGTTGGGCCCTGTAGACTGTAACCGGTGAATAACCGAAACAAAAAATTATTCC
GAGGATCAATTAGAATTTGAGG
Found at i:88683 original size:16 final size:18
Alignment explanation
Indices: 88648--88684 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
88638 GTTGTTTACA
*
88648 TTTATATATGTTCGTTAT
1 TTTATATATGTTCATTAT
88666 TTTAT-TAT-TTCATTAT
1 TTTATATATGTTCATTAT
88682 TTT
1 TTT
88685 TGTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATATATGTTCATTAT
Found at i:90485 original size:18 final size:18
Alignment explanation
Indices: 90459--90501 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
90449 TTTAAATTTA
* *
90459 TTTAATTAATTATTCTCT
1 TTTATTTAATTATTATCT
*
90477 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
90495 TTTATTT
1 TTTATTT
90502 TAAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:97021 original size:24 final size:24
Alignment explanation
Indices: 96990--97069 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
96980 GAAACTGTCG
96990 CGTAGAATTTGCACCGAAGTGCCA
1 CGTAGAATTTGCACCGAAGTGCCA
* *
97014 CGTAGAATATGCACTGAAGTGCCA
1 CGTAGAATTTGCACCGAAGTGCCA
* *
97038 CATAG-ATTTGTC-CCGAAG-GACCG
1 CGTAGAATTTG-CACCGAAGTG-CCA
97061 CGTAGAATT
1 CGTAGAATT
97070 GTCCCGAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
22 1 0.02
23 15 0.33
24 30 0.65
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (24 bp):
CGTAGAATTTGCACCGAAGTGCCA
Found at i:97066 original size:23 final size:23
Alignment explanation
Indices: 97040--97113 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
97030 AAGTGCCACA
*
97040 TAGATTTGTCCCGAAGGACCGCG
1 TAGAATTGTCCCGAAGGACCGCG
* * *
97063 TAGAATTGTCCCGAATGACCACA
1 TAGAATTGTCCCGAAGGACCGCG
*
97086 TAGAATTGTCCCAAAGGACCGCG
1 TAGAATTGTCCCGAAGGACCGCG
97109 TAGAA
1 TAGAA
97114 CATTCGACTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (23 bp):
TAGAATTGTCCCGAAGGACCGCG
Found at i:102027 original size:23 final size:23
Alignment explanation
Indices: 101988--102042 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
101978 CATTTTAATA
101988 AAAATATTAGTTATTAAAATGTTT
1 AAAATA-TAGTTATTAAAATGTTT
* * *
102012 AAAATATATTTATTAATATTTTT
1 AAAATATAGTTATTAAAATGTTT
102035 AATAATAT
1 AA-AATAT
102043 GATATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AAAATATAGTTATTAAAATGTTT
Found at i:102047 original size:29 final size:28
Alignment explanation
Indices: 102015--102070 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
102005 AATGTTTAAA
*
102015 ATATATTTATTAATATTTTTAATAATATG
1 ATATATTTATTAATA-TTGTAATAATATG
*
102044 ATATATTTTTTAATATTGTAATAATAT
1 ATATATTTATTAATATTGTAATAATAT
102071 ATTTAGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
ATATATTTATTAATATTGTAATAATATG
Found at i:111305 original size:17 final size:17
Alignment explanation
Indices: 111285--111338 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
111275 TTTTAGATAT
111285 TTACATATATCAAATGA
1 TTACATATATCAAATGA
111302 TTACAGT-TATCAAAT-A
1 TTACA-TATATCAAATGA
*
111318 TTTACATATATCAGATGA
1 -TTACATATATCAAATGA
111336 TTA
1 TTA
111339 AAGTTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 2 0.06
17 28 0.88
18 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (17 bp):
TTACATATATCAAATGA
Found at i:111319 original size:34 final size:34
Alignment explanation
Indices: 111244--111382 Score: 143
Period size: 34 Copynumber: 4.0 Consensus size: 34
111234 GACGAATTCT
* * * * * *
111244 AAATGTTTACATTTATTAGATGATTTTCAGTTTTT
1 AAATATTTACATATATCAGATGA-TTACAGTTATC
* *
111279 AGATATTTACATATATCAAATGATTACAGTTATC
1 AAATATTTACATATATCAGATGATTACAGTTATC
* *
111313 AAATATTTACATATATCAGATGATTAAAGTTATA
1 AAATATTTACATATATCAGATGATTACAGTTATC
* * *
111347 AAATATTTACAGATACCAGATGTTTTACAGTTATC
1 AAATATTTACATATATCAGATG-ATTACAGTTATC
111382 A
1 A
111383 GATACAAATT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
34 58 0.67
35 28 0.33
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (34 bp):
AAATATTTACATATATCAGATGATTACAGTTATC
Found at i:112279 original size:2 final size:2
Alignment explanation
Indices: 112274--112300 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
112264 ATAGGCAATG
112274 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
112301 GTTATAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121426 original size:2 final size:2
Alignment explanation
Indices: 121414--121445 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
121404 CAAAACAAAC
121414 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
121446 CACGTTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:122427 original size:79 final size:76
Alignment explanation
Indices: 122290--122432 Score: 173
Period size: 79 Copynumber: 1.8 Consensus size: 76
122280 CAATAAAATA
* *
122290 TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTGAATTATAATC-TTTAATGT
1 TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGT
122354 TTATTTAAAAC
66 TTATTTAAAAC
* * * *
122365 TTATTTAATT-ATTCCAAATTATATATACCAATTAAAAGAGTTGTAATCTAAATTACATTCTTTT
1 TTATTTAATTAATT-C-AATTAAATATA-C-ATT-AAAGACTTATAATCTAAATTACAATCTTTT
122429 AATG
61 AATG
122433 CGTACTTACT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
74 3 0.05
75 11 0.20
76 10 0.18
77 1 0.02
78 3 0.05
79 21 0.38
80 7 0.12
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (76 bp):
TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGT
TTATTTAAAAC
Found at i:125242 original size:17 final size:17
Alignment explanation
Indices: 125163--125242 Score: 58
Period size: 17 Copynumber: 4.7 Consensus size: 17
125153 TTCAATTTTT
*
125163 AGATATTTACAAATATC
1 AGATATTTACAATTATC
* *
125180 AAAT-TATTACAGTTATC
1 AGATAT-TTACAATTATC
*
125197 AGATATTTATACA-TATC
1 AGATATTTACA-ATTATC
* *
125214 ATATGA-TTACAATTATT
1 AGAT-ATTTACAATTATC
125231 AGATATTTACAA
1 AGATATTTACAA
125243 ATACCATATG
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
16 3 0.06
17 42 0.89
18 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (17 bp):
AGATATTTACAATTATC
Found at i:125251 original size:34 final size:34
Alignment explanation
Indices: 125155--125252 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 34
125145 TGTTGATTTT
* * *
125155 CAATTTTTAGATATTTACAAATATCAAATTATTA
1 CAATTATTAGATATTTACAAATATCATATGATTA
* * * *
125189 CAGTTATCAGATATTTATACATATCATATGATTA
1 CAATTATTAGATATTTACAAATATCATATGATTA
*
125223 CAATTATTAGATATTTACAAATACCATATG
1 CAATTATTAGATATTTACAAATATCATATG
125253 TTTTATAGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (34 bp):
CAATTATTAGATATTTACAAATATCATATGATTA
Found at i:126173 original size:2 final size:2
Alignment explanation
Indices: 126166--126198 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
126156 TTAGGCAATG
126166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126199 GTTATGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:140199 original size:22 final size:19
Alignment explanation
Indices: 140174--140222 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
140164 ATACTTTTGT
140174 TTTATTAATATATAATAAATTA
1 TTTATTAATAT-TAAT--ATTA
*
140196 TTTA-TAAAATTAATATTA
1 TTTATTAATATTAATATTA
140214 TTTATTAAT
1 TTTATTAAT
140223 TCCATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 4 0.17
21 5 0.21
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATTAATATTAATATTA
Found at i:140482 original size:17 final size:17
Alignment explanation
Indices: 140460--140516 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
140450 TAATTTTAAA
140460 TATTTTAATAATATTAT
1 TATTTTAATAATATTAT
*
140477 TATTTTAATAAGTAATTAA
1 TATTTTAATAA-T-ATTAT
*
140496 TATAATTAATAATA-TAT
1 TAT-TTTAATAATATTAT
140513 TATT
1 TATT
140517 CTTATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 16 0.48
18 2 0.06
19 8 0.24
20 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TATTTTAATAATATTAT
Found at i:140505 original size:37 final size:39
Alignment explanation
Indices: 140455--140567 Score: 119
Period size: 42 Copynumber: 2.9 Consensus size: 39
140445 TAAAATAATT
* *
140455 TTAA-ATATTTTAATAATATTA-TTATTTTAATAAGTAA
1 TTAATATAATTTAATAATATTATTTATTTTAATAAATAA
140492 TTAATATAA-TTAATAATATATTATTCTTATTTTAATAAATAA
1 TTAATATAATTTAAT-A-ATATTA-T-TTATTTTAATAAATAA
* *
140534 TTGATATAATTTAA-AATA-AATTTATTTTAATAAA
1 TTAATATAATTTAATAATATTATTTATTTTAATAAA
140568 ATCTAATAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
37 22 0.34
38 5 0.08
39 7 0.11
40 3 0.05
41 1 0.02
42 23 0.35
43 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (39 bp):
TTAATATAATTTAATAATATTATTTATTTTAATAAATAA
Found at i:142035 original size:21 final size:22
Alignment explanation
Indices: 142009--142066 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
141999 CGAGGGCTTT
142009 ATAGGTCCTTCGGGACA-ACTC
1 ATAGGTCCTTCGGGACATACTC
* *
142030 ATAGGTCCTTCAGGACATATTC
1 ATAGGTCCTTCGGGACATACTC
*
142052 ACAGGTCCTTCGGGA
1 ATAGGTCCTTCGGGA
142067 AAAATTTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (22 bp):
ATAGGTCCTTCGGGACATACTC
Found at i:144194 original size:20 final size:20
Alignment explanation
Indices: 144165--144202 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
144155 AATTCTGTGT
144165 AGGGGCTTTGAAACCTTTAA
1 AGGGGCTTTGAAACCTTTAA
*
144185 AGGGGTTTTGAAACCTTT
1 AGGGGCTTTGAAACCTTT
144203 GACTTGTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (20 bp):
AGGGGCTTTGAAACCTTTAA
Found at i:149258 original size:2 final size:2
Alignment explanation
Indices: 149212--149238 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
149202 AATAAAAATA
149212 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
149239 ATTGTGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:150072 original size:24 final size:25
Alignment explanation
Indices: 150030--150090 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
150020 TTTTTAAATT
* * *
150030 TTATTAGTTTAATTTAATATATAAAA
1 TTATTA-TATAATTAAATATACAAAA
*
150056 TTATTA-ATAATTAAATATACAATA
1 TTATTATATAATTAAATATACAAAA
150080 TTATTATATAA
1 TTATTATATAA
150091 AAAATAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 20 0.67
25 4 0.13
26 6 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TTATTATATAATTAAATATACAAAA
Found at i:150095 original size:24 final size:24
Alignment explanation
Indices: 150045--150096 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
150035 AGTTTAATTT
* *
150045 AATATATAAAATTATTAATAATTA
1 AATATACAAAATTATTAATAATAA
*
150069 AATATACAATATTATTATATAA-AA
1 AATATACAAAATTATTA-ATAATAA
150093 AATA
1 AATA
150097 AATGTAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATACAAAATTATTAATAATAA
Found at i:155499 original size:21 final size:20
Alignment explanation
Indices: 155413--155570 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
155403 AAATGACCAA
**
155413 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
155432 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
155452 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
155472 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
155493 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
155514 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
155534 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
155555 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
155571 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:155599 original size:20 final size:20
Alignment explanation
Indices: 155537--155731 Score: 214
Period size: 20 Copynumber: 9.7 Consensus size: 20
155527 CGATTTTCCA
* ** *
155537 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
155557 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
155577 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
155597 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
155617 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
155637 AAATCGCAATGCGTATCCCGT
1 AAATCGCAACGCGTAT-CCGT
*
155658 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
155678 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
155698 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
155719 AAATCGCAACGCG
1 AAATCGCAACGCG
155732 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
19 2 0.01
20 110 0.75
21 33 0.23
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:155686 original size:61 final size:60
Alignment explanation
Indices: 155537--155731 Score: 230
Period size: 61 Copynumber: 3.2 Consensus size: 60
155527 CGATTTTCCA
* ** * ** *
155537 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAATCGCAACGCGTATCCGT
* * *** *
155597 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-ATGGGTAAATCGCAATGCGTATCCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACATAAATCGCAACGCGTAT-CCGT
*
155658 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT-AAATCGCAACGCGTATCCGT
155719 AAATCGCAACGCG
1 AAATCGCAACGCG
155732 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
60 44 0.40
61 52 0.47
62 15 0.14
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAATCGCAACGCGTATCCGT
Found at i:156093 original size:32 final size:33
Alignment explanation
Indices: 156055--156124 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
156045 TTCACTTAGA
* *
156055 TTTCATTTCGCG-TACGATTCTGTCGTTGCGAT
1 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
* *
156087 TTTCATTTCACGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
156120 TTTCA
1 TTTCA
156125 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (33 bp):
TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
Found at i:156230 original size:21 final size:21
Alignment explanation
Indices: 156204--156261 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
156194 TGCAGAAGAG
156204 TCGCAACGAGATAAAT-GAAAA
1 TCGCAACGAGA-AAATCGAAAA
*
156225 TCGCAACGAG-AGATCGAAAA
1 TCGCAACGAGAAAATCGAAAA
*
156245 TCGCAACGAGAGAATCG
1 TCGCAACGAGAAAATCG
156262 CAACGCGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 14 0.44
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAAAATCGAAAA
Found at i:156245 original size:20 final size:20
Alignment explanation
Indices: 156220--156257 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
156210 CGAGATAAAT
156220 GAAAATCGCAACGAGAGATC
1 GAAAATCGCAACGAGAGATC
156240 GAAAATCGCAACGAGAGA
1 GAAAATCGCAACGAGAGA
156258 ATCGCAACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.26, T:0.08
Consensus pattern (20 bp):
GAAAATCGCAACGAGAGATC
Found at i:156262 original size:14 final size:14
Alignment explanation
Indices: 156243--156298 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
156233 AGAGATCGAA
156243 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
156257 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
156274 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
156289 AATCGCAACG
1 AATCGCAACG
156299 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 18 0.50
15 1 0.03
16 8 0.22
17 1 0.03
18 8 0.22
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:156283 original size:32 final size:34
Alignment explanation
Indices: 156223--156314 Score: 136
Period size: 32 Copynumber: 2.8 Consensus size: 34
156213 GATAAATGAA
* *
156223 AATCGCAACGAGAGATCGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATCGAAAATCGCAACGAGAG
156257 AATCGCAACGCGAAAT-G-AAATCGCAACGAGAG
1 AATCGCAACGCGAAATCGAAAATCGCAACGAGAG
*
156289 AATCGCAACGCGAAA-CCAAAATCGCA
1 AATCGCAACGCGAAATCGAAAATCGCA
156315 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
32 30 0.57
33 9 0.17
34 14 0.26
ACGTcount: A:0.45, C:0.24, G:0.23, T:0.09
Consensus pattern (34 bp):
AATCGCAACGCGAAATCGAAAATCGCAACGAGAG
Found at i:156332 original size:19 final size:19
Alignment explanation
Indices: 156310--156437 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
156300 GAAACCAAAA
*
156310 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
156329 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
156343 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
156362 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
156376 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
156396 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
156416 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
156436 TC
1 TC
156438 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:156351 original size:14 final size:14
Alignment explanation
Indices: 156332--156388 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
156322 TTTCATTTCG
156332 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
156346 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
156365 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
156379 CGTTGCGATT
1 CGTTGCGATT
156389 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:156357 original size:33 final size:33
Alignment explanation
Indices: 156315--156437 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
156305 CAAAATCGCA
156315 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
156348 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
156381 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
156422 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
156438 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:156399 original size:21 final size:21
Alignment explanation
Indices: 156373--156437 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
156363 CGCGTTGCGA
156373 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
156394 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
156414 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
156435 TTC
1 TTC
156438 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:158286 original size:91 final size:93
Alignment explanation
Indices: 158121--158582 Score: 850
Period size: 91 Copynumber: 5.1 Consensus size: 93
158111 TAGATTGCTT
*
158121 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158186 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
158214 AGT-AA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158277 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
158305 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158369 -TTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
158395 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158460 TTTGTCTTTGTTTTGTCTTTTGG-TGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
158487 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGT-AAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158551 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
158578 AGTAA
1 AGTAA
158583 TGCAATCCAT
Statistics
Matches: 360, Mismatches: 3, Indels: 14
0.95 0.01 0.04
Matches are distributed among these distances:
90 53 0.15
91 161 0.45
92 102 0.28
93 44 0.12
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:158362 original size:183 final size:183
Alignment explanation
Indices: 158121--158583 Score: 846
Period size: 183 Copynumber: 2.5 Consensus size: 183
158111 TAGATTGCTT
*
158121 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158186 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAATTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAATTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
158251 GTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGG-TGAA
158305 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
158369 -TTGTC-TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT-AA-TTGTTCGGTTGCTGCCAATTCTGCTAAACT
158432 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTGAA
129 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTGAA
158487 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGT-AAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
158551 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAAT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAT
158584 GCAATCCATT
Statistics
Matches: 272, Mismatches: 2, Indels: 13
0.95 0.01 0.05
Matches are distributed among these distances:
181 25 0.09
182 53 0.19
183 144 0.53
184 50 0.18
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (183 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAATTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
GTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTGAA
Found at i:158669 original size:19 final size:19
Alignment explanation
Indices: 158629--158756 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
158619 ATAGTTACTT
* *
158629 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
158649 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
158668 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
158686 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
158700 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
158719 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
158733 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
158752 TCGCA
1 TCGCA
158757 TTGCGATTTC
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:158725 original size:33 final size:32
Alignment explanation
Indices: 158665--158756 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
158655 CGCGAAACCA
**
158665 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
158696 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
158729 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
158757 TTGCGATTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:158792 original size:14 final size:14
Alignment explanation
Indices: 158773--158828 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
158763 TTTCATTTCG
158773 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
158787 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
* *
158804 CGCATGCGATTCTGT
1 CG-TTGCGATTCTTT
158819 CGTTGCGATT
1 CGTTGCGATT
158829 TCATTTCGCG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 15 0.43
15 4 0.11
16 6 0.17
17 5 0.14
18 5 0.14
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:158812 original size:32 final size:32
Alignment explanation
Indices: 158757--158846 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
158747 CAAAATCGCA
*
158757 TTGCGATTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTCATTTCGCGTTGCGATTCTGTCG
*
158789 TTGCGATTTTCATTTCGC-ATGCGATTCTGTCG
1 TTGCGA-TTTCATTTCGCGTTGCGATTCTGTCG
158821 TTGCGATTTCATTTCGCGTTGCGATT
1 TTGCGATTTCATTTCGCGTTGCGATT
158847 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 11 0.21
32 31 0.58
33 11 0.21
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCGTTGCGATTCTGTCG
Found at i:158856 original size:19 final size:19
Alignment explanation
Indices: 158752--158921 Score: 123
Period size: 19 Copynumber: 9.6 Consensus size: 19
158742 GAAACCAAAA
* *
158752 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCGTT
158770 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCGTT
*
158786 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCGTT
* *
158803 TCGC-ATGCGA--TTC-TG
1 TCGCGTTGCGATTTTCGTT
*
158818 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCGTT
*
158834 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCGTT
*
158853 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCGTT
* * *
158872 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCGTT
*
158891 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-CGTT
*
158911 TCGTGTTGCGA
1 TCGCGTTGCGA
158922 AAGTAACTAT
Statistics
Matches: 124, Mismatches: 16, Indels: 22
0.77 0.10 0.14
Matches are distributed among these distances:
13 1 0.01
14 13 0.10
15 5 0.04
16 11 0.09
17 6 0.05
18 23 0.19
19 53 0.43
20 12 0.10
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCGTT
Found at i:158893 original size:38 final size:38
Alignment explanation
Indices: 158752--158921 Score: 141
Period size: 38 Copynumber: 4.8 Consensus size: 38
158742 GAAACCAAAA
*
158752 TCGCATTGCGA-TTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
158786 T--CGTTGCGATTTTCATTTCGC-ATGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
158818 T--CGTTGCGA-TTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
158853 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
158891 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
158922 AAGTAACTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
31 11 0.10
32 30 0.27
33 12 0.11
34 2 0.02
35 2 0.02
37 8 0.07
38 35 0.32
39 11 0.10
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:160734 original size:13 final size:14
Alignment explanation
Indices: 160710--160744 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
160700 ATTGTTTAAT
160710 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
160724 TGATTTG-AAAAGT
1 TGATTTGTAAAAGA
160737 TGATTTGT
1 TGATTTGT
160745 GTAATTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:160863 original size:19 final size:19
Alignment explanation
Indices: 160847--160942 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
160837 AAAAATGACT
160847 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
160866 ATCGC-ATGCG-AATGAAA
1 ATCGCAATGCGAAATGAAA
*
160883 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
160897 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
160916 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
160936 ATCGCAA
1 ATCGCAA
160943 CGAGAGAATC
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 4 0.06
17 12 0.18
18 7 0.10
19 18 0.26
20 16 0.24
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:160953 original size:53 final size:50
Alignment explanation
Indices: 160847--160961 Score: 203
Period size: 53 Copynumber: 2.2 Consensus size: 50
160837 AAAAATGACT
160847 ATCGCAATGCGAAATGAAAATCGCATGCGAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCATGCGAATGAAAATCGCAACGAGAGA
160897 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGC-ATGC-G-AATGAAAATCGCAACGAGAGA
160950 ATCGCAATGCGA
1 ATCGCAATGCGA
160962 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 24 0.39
51 4 0.06
52 1 0.02
53 33 0.53
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (50 bp):
ATCGCAATGCGAAATGAAAATCGCATGCGAATGAAAATCGCAACGAGAGA
Found at i:161030 original size:52 final size:52
Alignment explanation
Indices: 160951--161071 Score: 192
Period size: 52 Copynumber: 2.3 Consensus size: 52
160941 AACGAGAGAA
* *
160951 TCGCAATGCGA-TTTAATTTCGCATTGCGATTCTCTCGTTTGC-AATTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG-TTGCGAATTTCATT
*
161002 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGAATTTCATT
161054 TCGCATTGCGATTTTCAT
1 TCGCATTGCGATTTTCAT
161072 GTTGGGATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 14 0.22
52 51 0.78
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGAATTTCATT
Found at i:161044 original size:33 final size:33
Alignment explanation
Indices: 161007--161112 Score: 171
Period size: 33 Copynumber: 3.2 Consensus size: 33
160997 TCATTTCGCA
161007 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
161040 TTGCGATTTTCATTTCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCG
*
161073 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
161106 -TGCGATT
1 TTGCGATT
161113 GTAATTTCCG
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
32 7 0.10
33 59 0.88
34 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:163383 original size:12 final size:12
Alignment explanation
Indices: 163366--163390 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
163356 TCTTCGGGGA
163366 CTTTTTCTTCTT
1 CTTTTTCTTCTT
163378 CTTTTTCTTCTT
1 CTTTTTCTTCTT
163390 C
1 C
163391 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:163595 original size:24 final size:24
Alignment explanation
Indices: 163561--163607 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
163551 CTGAAACATC
163561 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
163585 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
163608 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:164324 original size:20 final size:20
Alignment explanation
Indices: 164296--164517 Score: 230
Period size: 20 Copynumber: 11.1 Consensus size: 20
164286 AGTGTTGTGA
* *
164296 TTACAGATTCTCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
**
164316 TTACGGATTATCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
* *
164336 TTACAGATTCTCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
**
164356 TTACGGATTATCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
*
164376 TTACGGATACGCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
* * *
164396 ATACGGATACGCATTGCGAT
1 TTACGGATTCGCGTTGCGAT
** *
164416 TTACCCATACGCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
* *
164436 TTACGGATACACGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
*
164456 TTACGGATACGCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
*
164476 TTATGTG-TTCGCGTTGCGAT
1 TTACG-GATTCGCGTTGCGAT
* **
164496 TTTCATATTCGCGTTGCGAT
1 TTACGGATTCGCGTTGCGAT
164516 TT
1 TT
164518 TGGAAAATCG
Statistics
Matches: 175, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 174 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
TTACGGATTCGCGTTGCGAT
Found at i:164534 original size:21 final size:21
Alignment explanation
Indices: 164504--164586 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
164494 ATTTTCATAT
*
164504 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
164525 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
* *
164546 TCGCATTACGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
164567 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
164587 CTGATTTGCG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 1 0.02
21 42 0.93
22 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:165112 original size:14 final size:14
Alignment explanation
Indices: 165066--165123 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
165056 TCAATTTATG
165066 AAAAATA-AAAATTT
1 AAAAATATAAAA-TT
* *
165080 AAGAAT-T-AAATG
1 AAAAATATAAAATT
165092 AACAAATATAAAATT
1 AA-AAATATAAAATT
*
165107 AAAAATAAAAAATT
1 AAAAATATAAAATT
165121 AAA
1 AAA
165124 TAAATTAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 3 0.09
13 6 0.17
14 20 0.57
15 6 0.17
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (14 bp):
AAAAATATAAAATT
Found at i:165492 original size:11 final size:11
Alignment explanation
Indices: 165458--165637 Score: 55
Period size: 11 Copynumber: 15.6 Consensus size: 11
165448 AACAACTATA
165458 ATATATAAA-T
1 ATATATAAATT
*
165468 ATATAT-AGTGT
1 ATATATAAAT-T
165479 ATATATAAATT
1 ATATATAAATT
*
165490 ATATATGAATT
1 ATATATAAATT
* *
165501 TTATATGCAATTT
1 ATATAT--AAATT
**
165514 ATATATAGTTT
1 ATATATAAATT
*
165525 ATATTTATATATT
1 ATA--TATAAATT
*
165538 ATGTAT-AATT
1 ATATATAAATT
*
165548 ATAAATAATATAT
1 ATATATAA-AT-T
165561 ACTATGTATAAATT
1 A-TA--TATAAATT
**
165575 ATATAGTTTATT
1 ATATA-TAAATT
*
165587 A-ATATAAACT
1 ATATATAAATT
* **
165597 CTATATAAACA
1 ATATATAAATT
*
165608 ATATATACTAACT
1 ATATATA--AATT
*
165621 -TATATAAACT
1 ATATATAAATT
165631 ATATATA
1 ATATATA
165638 GGGATGGCAA
Statistics
Matches: 128, Mismatches: 24, Indels: 35
0.68 0.13 0.19
Matches are distributed among these distances:
9 1 0.01
10 20 0.16
11 59 0.46
12 15 0.12
13 23 0.18
14 4 0.03
15 2 0.02
16 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (11 bp):
ATATATAAATT
Found at i:165525 original size:22 final size:22
Alignment explanation
Indices: 165458--165528 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 22
165448 AACAACTATA
* *
165458 ATATATAAA-TATATATAGTGT
1 ATATACAAATTATATATAGTTT
* *
165479 ATATATAAATTATATATGAATTTT
1 ATATACAAATTATATAT--AGTTT
* *
165503 ATATGCAATTTATATATAGTTT
1 ATATACAAATTATATATAGTTT
165525 ATAT
1 ATAT
165529 TTATATATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 9 0.22
22 15 0.37
24 17 0.41
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (22 bp):
ATATACAAATTATATATAGTTT
Found at i:165627 original size:23 final size:24
Alignment explanation
Indices: 165593--165637 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
165583 TATTAATATA
165593 AACTCTATATAAACAATATATACT
1 AACTCTATATAAACAATATATACT
*
165617 AACT-TATATAAACTATATATA
1 AACTCTATATAAACAATATATA
165638 GGGATGGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (24 bp):
AACTCTATATAAACAATATATACT
Found at i:166675 original size:15 final size:15
Alignment explanation
Indices: 166655--166688 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
166645 ACATATGAAT
166655 TATATGTATAAACTA
1 TATATGTATAAACTA
166670 TATATGTATAAACTA
1 TATATGTATAAACTA
166685 TATA
1 TATA
166689 AACTATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TATATGTATAAACTA
Found at i:166748 original size:32 final size:33
Alignment explanation
Indices: 166707--166806 Score: 109
Period size: 32 Copynumber: 3.1 Consensus size: 33
166697 AAACTATATA
** *
166707 ATATATATAGTTTAGTAATTTAC-ATATGAACT
1 ATATATATAGTTTAGTAATGAACTATATAAACT
*
166739 ATATATATAGTTTATTAATGAACTATATAAACT
1 ATATATATAGTTTAGTAATGAACTATATAAACT
* *
166772 ATATATATAGTATA-TACT-ATA-TATATAAACT
1 ATATATATAGTTTAGTAATGA-ACTATATAAACT
166803 ATAT
1 ATAT
166807 TTTATATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
31 15 0.25
32 24 0.40
33 21 0.35
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (33 bp):
ATATATATAGTTTAGTAATGAACTATATAAACT
Found at i:166776 original size:2 final size:2
Alignment explanation
Indices: 166771--166888 Score: 64
Period size: 2 Copynumber: 56.0 Consensus size: 2
166761 CTATATAAAC
* *
166771 TA TA TA TA TA GTA TA TA CTA TA TA TA TA AA CTA TA T- TT TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
166813 TT TA TA TA CTA CA TA CTA TA GT- TGA TA TT TA TA TA CTA TA T- TA
1 TA TA TA TA -TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA
*
166856 TA TA TA TA TA AA CTA TA TA TA -A TA TA TA GTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
166889 GTTTACATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
1 4 0.04
2 71 0.78
3 16 0.18
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:166805 original size:20 final size:20
Alignment explanation
Indices: 166759--166883 Score: 71
Period size: 20 Copynumber: 6.0 Consensus size: 20
166749 TTTATTAATG
166759 AACTATATAAACTATATATAT-
1 AACTATAT--ACTATATATATA
*
166780 -AGTATATACTATATATATA
1 AACTATATACTATATATATA
** *
166799 AACTATATTTTATATTTATA
1 AACTATATACTATATATATA
* *
166819 TACTACATACTATAGTTGATATTTA
1 AACTATATACTATA--T-ATA--TA
166844 TATACTATATTA-TATATATATA
1 -A-ACTATA-TACTATATATATA
166866 AACTATATA-TA-ATATATA
1 AACTATATACTATATATATA
166884 GTATAGTTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
18 18 0.22
19 4 0.05
20 37 0.45
21 1 0.01
22 3 0.04
23 2 0.02
24 3 0.04
25 3 0.04
27 9 0.11
28 2 0.02
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (20 bp):
AACTATATACTATATATATA
Found at i:166872 original size:27 final size:27
Alignment explanation
Indices: 166842--167007 Score: 72
Period size: 27 Copynumber: 6.4 Consensus size: 27
166832 AGTTGATATT
166842 TATATACTATATTATATATATATAAAC
1 TATATACTATATTATATATATATAAAC
**
166869 TATATA-TA-A-TATATAGTATAGTTTAC
1 TATATACTATATTATATA-TATA-TAAAC
* *
166895 -ATAT--GA-ATTATATATA-A-AATC
1 TATATACTATATTATATATATATAAAC
* *
166916 TATATAAACTATAGT-T-TATATATAAAT
1 TATAT--ACTATATTATATATATATAAAC
*
166943 TATATACTATAGTTGATAT-T-TATATAC
1 TATATACTATA-TT-ATATATATATAAAC
* * *
166970 TATGTACTATAGTTA-ATATTTATATAC
1 TATATACTATA-TTATATATATATAAAC
*
166997 TATATAATATA
1 TATATACTATA
167008 ATTTATACTT
Statistics
Matches: 106, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
21 1 0.01
22 4 0.04
23 1 0.01
24 10 0.09
25 27 0.25
26 11 0.10
27 49 0.46
28 2 0.02
29 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (27 bp):
TATATACTATATTATATATATATAAAC
Found at i:166889 original size:56 final size:58
Alignment explanation
Indices: 166815--166972 Score: 142
Period size: 56 Copynumber: 2.6 Consensus size: 58
166805 ATTTTATATT
* * *
166815 TATATACTACATACTATAGTTGATATTTATATACTATAT-TATATATA-TATAAACTA
1 TATATAATATATACTATAGTTGATATTTATATACTATATCTATATAAACTATAAACTA
* * * ***
166871 TATATAATATATAGTATAGTTTACATATGAATTATATA-TAAAATCTATATAAACTATAGTTTA
1 TATATAATATATACTATAG-TT-GATAT---TTATATACT-ATATCTATATAAACTATAAACTA
166934 TATATAAATTATATACTATAGTTGATATTTATATACTAT
1 TATAT-AA-TATATACTATAGTTGATATTTATATACTAT
166973 GTACTATAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
56 16 0.20
57 2 0.03
58 4 0.05
60 9 0.11
61 11 0.14
62 7 0.09
63 15 0.19
64 4 0.05
65 11 0.14
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (58 bp):
TATATAATATATACTATAGTTGATATTTATATACTATATCTATATAAACTATAAACTA
Found at i:167023 original size:15 final size:15
Alignment explanation
Indices: 167003--167031 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
166993 ATACTATATA
167003 ATATAATTTATACTT
1 ATATAATTTATACTT
167018 ATATAATTTATACT
1 ATATAATTTATACT
167032 ATAAAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATAATTTATACTT
Found at i:167035 original size:27 final size:27
Alignment explanation
Indices: 166917--167034 Score: 116
Period size: 27 Copynumber: 4.4 Consensus size: 27
166907 TATAAAATCT
*
166917 ATATAAACTATAGTTTATA--TATA-A
1 ATATATACTATAGTTTATATTTATATA
*
166941 ATTATATACTATAGTTGATATTTATATA
1 A-TATATACTATAGTTTATATTTATATA
* * *
166969 CTATGTACTATAGTTAATATTTATATA
1 ATATATACTATAGTTTATATTTATATA
* * * *
166996 CTATATAATATAATTTATACTTATATA
1 ATATATACTATAGTTTATATTTATATA
*
167023 ATTTATACTATA
1 ATATATACTATA
167035 AAAATTCAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.01
25 16 0.21
27 59 0.77
28 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
ATATATACTATAGTTTATATTTATATA
Found at i:167145 original size:18 final size:18
Alignment explanation
Indices: 167100--167152 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
167090 AATAAACTAT
* *
167100 TTATATAGTATATACTACA
1 TTATATAGTTTATA-TATA
167119 -TATATAGTTTATATATA
1 TTATATAGTTTATATATA
*
167136 TTATATAGTTTACATAT
1 TTATATAGTTTATATAT
167153 GAACTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (18 bp):
TTATATAGTTTATATATA
Found at i:167206 original size:13 final size:13
Alignment explanation
Indices: 167149--167187 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
167139 TATAGTTTAC
*
167149 ATATGAACTATAT
1 ATATAAACTATAT
*
167162 ATAAAAACTATAT
1 ATATAAACTATAT
*
167175 ATATAAAGTATAT
1 ATATAAACTATAT
167188 GGTATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:167880 original size:105 final size:104
Alignment explanation
Indices: 167639--167974 Score: 443
Period size: 101 Copynumber: 3.3 Consensus size: 104
167629 TTCATATTTT
* * * *
167639 TTCATCCATGTTCATCCCAAAACCCTCATCTGATCTTCAC-AA-ACCAAAACCCAAACTATTTCA
1 TTCATCCGTGTTCATCCCAAAACCCTTATATGATCTTCACAAACACCAAAACCCAAACCATTTCA
* *
167702 TGTTTTTTTTCGATCAAACACCC-AAATTTCAACCCTTG
66 TGTTTTTTTTCGATCAAACACCCAAAAATTCAACACTTG
* *
167740 TTCATTCGTATTCATCCCAAAAACCCTTATATGATCTTCACAAACACCAAAACCCAAACCATTTC
1 TTCATCCGTGTTCATCCC-AAAACCCTTATATGATCTTCACAAACACCAAAACCCAAACCATTTC
*
167805 ATGTTTTTTTTTCGATCAAACACCCAAAAATTCAACATTTG
65 ATG-TTTTTTTTCGATCAAACACCCAAAAATTCAACACTTG
* * * *
167846 TTCATCCGTGTTCATCCCAAAACCATTATTTGATCTTCACAAACACCAAAACCTAAACTC-GTTC
1 TTCATCCGTGTTCATCCCAAAACCCTTATATGATCTTCACAAACACCAAAACCCAAAC-CATTTC
* *
167910 ATG---TTTTTCGATCAAACACCCAAAAATTAAACCCTTG
65 ATGTTTTTTTTCGATCAAACACCCAAAAATTCAACACTTG
* *
167947 TTCATCCGTGTTCTTCCCCAAACCCTTA
1 TTCATCCGTGTTCATCCCAAAACCCTTA
167975 CAAACACCTA
Statistics
Matches: 208, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
101 71 0.34
102 20 0.10
103 2 0.01
104 22 0.11
105 64 0.31
106 29 0.14
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.32
Consensus pattern (104 bp):
TTCATCCGTGTTCATCCCAAAACCCTTATATGATCTTCACAAACACCAAAACCCAAACCATTTCA
TGTTTTTTTTCGATCAAACACCCAAAAATTCAACACTTG
Found at i:168233 original size:24 final size:23
Alignment explanation
Indices: 168191--168238 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
168181 AAACCTGAAA
* * *
168191 CTGATCCCGAACTCGATCCCAAAC
1 CTGAACCCGAACCCAAT-CCAAAC
168215 CTGAACCCGAACCCAATCCAAAC
1 CTGAACCCGAACCCAATCCAAAC
168238 C
1 C
168239 CAAATTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.33, C:0.44, G:0.10, T:0.12
Consensus pattern (23 bp):
CTGAACCCGAACCCAATCCAAAC
Found at i:168471 original size:25 final size:25
Alignment explanation
Indices: 168439--168489 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
168429 TTTGTAGGAG
168439 AAAACCCAACAGATTAGAATGATGA
1 AAAACCCAACAGATTAGAATGATGA
168464 AAAACCCAACAGATTAGAATGATGA
1 AAAACCCAACAGATTAGAATGATGA
168489 A
1 A
168490 CATTCTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (25 bp):
AAAACCCAACAGATTAGAATGATGA
Found at i:170854 original size:20 final size:20
Alignment explanation
Indices: 170829--170907 Score: 85
Period size: 20 Copynumber: 4.0 Consensus size: 20
170819 CAATAGTTGG
*
170829 TGCTTGATTCTTCTTGATAT
1 TGCTTGATTCTTTTTGATAT
170849 TGCTTGATTCTGTTTTG-TAT
1 TGCTTGATTCT-TTTTGATAT
170869 TG-TT--TTCTTATTTGATAT
1 TGCTTGATTCTT-TTTGATAT
**
170887 TGCTTGATTCTAATTGATAT
1 TGCTTGATTCTTTTTGATAT
170907 T
1 T
170908 TGTAAGGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.02
17 8 0.16
18 5 0.10
19 4 0.08
20 24 0.48
21 8 0.16
ACGTcount: A:0.16, C:0.10, G:0.15, T:0.58
Consensus pattern (20 bp):
TGCTTGATTCTTTTTGATAT
Found at i:171628 original size:13 final size:13
Alignment explanation
Indices: 171609--171646 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
171599 TAATTTAATG
171609 ATTATAAATAA-A
1 ATTATAAATAAGA
171621 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
171636 ATTATAAATAA
1 ATTATAAATAA
171647 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Done.