Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009065.1 Hibiscus syriacus cultivar Beakdansim tig00112488_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: 1198333
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2076 original size:19 final size:19
Alignment explanation
Indices: 2054--2358 Score: 342
Period size: 19 Copynumber: 17.4 Consensus size: 19
2044 ACGGAAATAC
*
2054 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2073 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2087 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2107 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2121 AAT-GCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2139 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2158 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2172 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
2190 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2209 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
2223 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
2242 AATCGCAATGCGAAGA-GAA
1 AATCGCAATGCGAA-ATGAA
2261 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2280 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2299 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2313 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2332 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2351 AATCGCAA
1 AATCGCAA
2359 CGAGATAATC
Statistics
Matches: 247, Mismatches: 10, Indels: 58
0.78 0.03 0.18
Matches are distributed among these distances:
13 4 0.02
14 43 0.17
15 4 0.02
16 14 0.06
17 16 0.06
18 21 0.09
19 131 0.53
20 14 0.06
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2299 original size:90 final size:89
Alignment explanation
Indices: 2084--2358 Score: 187
Period size: 90 Copynumber: 3.1 Consensus size: 89
2074 ATCCCAACAT
*
2084 GAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAAT-GCAATGCG-A-AATGAAAATCGCA
1 GAAAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAA-GCGAATAAT-AAAATCGCA
2146 ATGCGAA-ATGAAAATCGCAA--CG--A
63 ATGCGAAGA-GAAAATCGCAATGCGAAA
* * *
2169 GAGAATCGCAATGCG-AATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG----ACAGAATCG
1 GAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAAGCGAATAATAAAATCG
*
2228 CAATGCGAA-ATTAAAATCGCAATGCGAAGA
61 CAATGCGAAGA-GAAAATCGCAATGCGAA-A
*
2258 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG---AA-AGAATCG
1 GAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAAGCGAATAATAAAATCG
2318 CAATGCGAA-ATGAAAATCGCAATGCGAAA
61 CAATGCGAAGA-GAAAATCGCAATGCGAAA
2347 TGAAAATCGCAA
1 -GAAAATCGCAA
2359 CGAGATAATC
Statistics
Matches: 169, Mismatches: 7, Indels: 23
0.85 0.04 0.12
Matches are distributed among these distances:
83 14 0.08
84 28 0.17
85 18 0.11
86 3 0.02
87 2 0.01
88 3 0.02
89 20 0.12
90 80 0.47
91 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (89 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAGCGAATAATAAAATCGCAATG
CGAAGAGAAAATCGCAATGCGAAA
Found at i:2317 original size:52 final size:54
Alignment explanation
Indices: 2054--2380 Score: 285
Period size: 52 Copynumber: 6.3 Consensus size: 54
2044 ACGGAAATAC
* *
2054 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAA-G-A
*
2107 AATCGCAA--CG--A-GAGAAT-GCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAA-G-A
*
2158 AATCGCAA--CG--A-GAGAATCGCAATGCG-AATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAA-G-A
* *
2209 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAGAGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAA-AG-A
2261 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAAG-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAAGA
2313 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG--AGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAAGA
2364 TAATCGCAATGCGAAAT
1 -AATCGCAATGCGAAAT
2381 TATAAACGCA
Statistics
Matches: 252, Mismatches: 5, Indels: 35
0.86 0.02 0.12
Matches are distributed among these distances:
47 3 0.01
48 5 0.02
49 2 0.01
50 2 0.01
51 74 0.29
52 118 0.47
53 11 0.04
54 6 0.02
55 5 0.02
57 26 0.10
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAAGA
Found at i:2369 original size:33 final size:33
Alignment explanation
Indices: 2054--2380 Score: 264
Period size: 33 Copynumber: 9.5 Consensus size: 33
2044 ACGGAAATAC
* *
2054 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
2087 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
2121 AAT-GCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
2158 AATCGCAA--CG--A-GAGAATCGCAATGCGAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG-A-GAA
* *
2190 AATCGCAATGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
*
2223 AATCGCAATGCGAAATTAAAATCGCAATGCGAAGAGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C---GAGAA
2261 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
2299 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
2332 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
2365 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2381 TATAAACGCA
Statistics
Matches: 255, Mismatches: 13, Indels: 52
0.80 0.04 0.16
Matches are distributed among these distances:
32 30 0.12
33 103 0.40
34 28 0.11
35 11 0.04
36 12 0.05
37 16 0.06
38 55 0.22
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:2495 original size:19 final size:19
Alignment explanation
Indices: 2387--2487 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
2377 AAATTATAAA
2387 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2406 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2426 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2442 CG--TTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
2458 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2477 CGCATTGCGAT
1 CGCATTGCGAT
2488 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.08
19 29 0.39
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2614 original size:14 final size:14
Alignment explanation
Indices: 2597--2631 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2587 CAATTACACA
2597 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
2611 AAATCATCTTTTAC
1 AAATCAACTTTTAC
2625 AAATCAA
1 AAATCAA
2632 TAAACAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:4574 original size:19 final size:19
Alignment explanation
Indices: 4529--4592 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
4519 TAGTTTACTT
* *
4529 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
4549 T-GACAACGCGAAACCAAAA
1 TCG-CAACGCGAAACCAAAA
**
4568 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
4587 TCGCAA
1 TCGCAA
4593 TGACAGAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 26 0.68
20 12 0.32
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:4604 original size:33 final size:33
Alignment explanation
Indices: 4566--4660 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
4556 GCGAAACCAA
*
4566 AATCGCAACGCGAAATGAAAATCGCAATGACAG
1 AATCGCAACGCGAAATGAAAATCGCAATGAAAG
* *
4599 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAATGAAAG
4632 AATCGCAACGCGAAATGAAAATCGCAATG
1 AATCGCAACGCGAAATGAAAATCGCAATG
4661 CGATTTTGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAATGAAAG
Found at i:4637 original size:14 final size:14
Alignment explanation
Indices: 4585--4641 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4575 GCGAAATGAA
* *
4585 AATCGCAATGACAG
1 AATCGCAACGAAAG
4599 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4616 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4632 AATCGCAACG
1 AATCGCAACG
4642 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 4 0.11
17 6 0.17
19 8 0.22
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4681 original size:19 final size:19
Alignment explanation
Indices: 4659--4769 Score: 109
Period size: 19 Copynumber: 6.4 Consensus size: 19
4649 AAAATCGCAA
4659 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4678 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4692 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4710 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4724 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4743 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4762 TGCGATTT
1 TGCGATTT
4770 AAGTTCGTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
13 2 0.03
14 20 0.27
16 3 0.04
17 1 0.01
18 10 0.14
19 38 0.51
ACGTcount: A:0.07, C:0.18, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4744 original size:33 final size:34
Alignment explanation
Indices: 4659--4749 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
4649 AAAATCGCAA
4659 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
4692 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
4724 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4750 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:5012 original size:92 final size:93
Alignment explanation
Indices: 4828--5287 Score: 832
Period size: 92 Copynumber: 5.1 Consensus size: 93
4818 TTGAATGGAT
4828 AAATTTACTTTCAACC-AAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4889 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4917 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4982 AG-TTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5009 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGT-TTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5073 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5101 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC-ATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5165 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5193 AAATTTAC-TTCAACCAAAAGACAAAACAAAGACAAATAC--TTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
* *
5255 AGTTTAGTAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5283 AAATT
1 AAATT
5288 ACTAAGCAAT
Statistics
Matches: 363, Mismatches: 2, Indels: 11
0.97 0.01 0.03
Matches are distributed among these distances:
89 16 0.04
90 71 0.20
91 58 0.16
92 191 0.53
93 27 0.07
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6998 original size:14 final size:14
Alignment explanation
Indices: 6979--7068 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
6969 GTTGAAATGA
6979 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6993 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
7010 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
7026 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7045 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7059 AATCGCAACG
1 AATCGCAACG
7069 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7016 original size:33 final size:33
Alignment explanation
Indices: 6972--7085 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
6962 TCTTTTGGTT
6972 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
7004 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7037 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7070 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7086 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 5 0.06
33 72 0.94
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7017 original size:19 final size:18
Alignment explanation
Indices: 6975--7090 Score: 94
Period size: 19 Copynumber: 6.9 Consensus size: 18
6965 TTTGGTTGAA
6975 ATGAAATCGCAA--CGAG
1 ATGAAATCGCAACGCGAG
6991 A-G-AATCGCAACGCGAG
1 ATGAAATCGCAACGCGAG
7007 ATGACAATCGCAA--CGAG
1 ATGA-AATCGCAACGCGAG
*
7024 A-G-AATCGCAACGCGAA
1 ATGAAATCGCAACGCGAG
7040 ATGAAAATCGCAA--CGAG
1 ATG-AAATCGCAACGCGAG
*
7057 A-G-AATCGCAACGCGAA
1 ATGAAATCGCAACGCGAG
*
7073 ATGAAAATCGCAATGCGA
1 ATG-AAATCGCAACGCGA
7091 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 27
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 16 0.20
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
ATGAAATCGCAACGCGAG
Found at i:7121 original size:14 final size:14
Alignment explanation
Indices: 7102--7156 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
7092 TTTGGTTTCG
7102 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7116 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
7135 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7149 CGTTGCGA
1 CGTTGCGA
7157 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7134 original size:33 final size:33
Alignment explanation
Indices: 7086--7156 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
7076 AAAATCGCAA
**
7086 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
7119 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
7152 TGCGA
1 TGCGA
7157 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:7164 original size:33 final size:33
Alignment explanation
Indices: 7097--7178 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
7087 GCGATTTTGG
***
7097 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
7130 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
7163 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
7179 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:7183 original size:20 final size:20
Alignment explanation
Indices: 7109--7197 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
7099 TCGCGTTGCG
7109 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
7129 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
7142 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
7162 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
7182 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
7198 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:7316 original size:33 final size:33
Alignment explanation
Indices: 7274--7344 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
7264 AAATACTACT
*
7274 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
7307 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
7340 TGAAA
1 TGAAA
7345 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:7577 original size:22 final size:22
Alignment explanation
Indices: 7525--7579 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7515 TGGTTGTGAG
**
7525 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
7547 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
7569 GGATTTCTTCG
1 GGATTTCTTCG
7580 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:7749 original size:20 final size:20
Alignment explanation
Indices: 7724--7897 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
7714 CTTTAAATAT
7724 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7744 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7766 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7785 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7805 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7825 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7845 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7865 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
7885 CGCGTTGCGATTT
1 CGCGTTGCGATTT
7898 TCATATTCAC
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 113 0.86
21 15 0.11
22 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7889 original size:60 final size:60
Alignment explanation
Indices: 7726--7916 Score: 247
Period size: 60 Copynumber: 3.2 Consensus size: 60
7716 TTAAATATCG
** *
7726 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
7787 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
* * ** *
7847 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATTCA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
7907 CGTTGCGATT
1 CGTTGCGATT
7917 ATGGAAAATC
Statistics
Matches: 110, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 84 0.76
61 26 0.24
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:7997 original size:20 final size:20
Alignment explanation
Indices: 7972--8023 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7962 AAGAATCGCG
*
7972 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7992 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
8012 TTGCGATTCTGG
1 TTGCGATTCTGG
8024 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:12856 original size:14 final size:14
Alignment explanation
Indices: 12837--12899 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
12827 AAAAAAAATA
12837 ATATTTCTGATAAT
1 ATATTTCTGATAAT
12851 ATATTTCCT--TAACT
1 ATATTT-CTGATAA-T
* * *
12865 ATATAT-TAAAAAT
1 ATATTTCTGATAAT
12878 AATATTTCTGATAAT
1 -ATATTTCTGATAAT
12893 ATATTTC
1 ATATTTC
12900 CTTAACTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
12 1 0.03
13 4 0.11
14 26 0.68
15 7 0.18
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.48
Consensus pattern (14 bp):
ATATTTCTGATAAT
Found at i:12883 original size:42 final size:42
Alignment explanation
Indices: 12830--12916 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
12820 AAATGTTAAA
12830 AAAAATAATATTTCTGATAATATATTTCCTTAACTATATATT
1 AAAAATAATATTTCTGATAATATATTTCCTTAACTATATATT
12872 AAAAATAATATTTCTGATAATATATTTCCTTAACTATATATT
1 AAAAATAATATTTCTGATAATATATTTCCTTAACTATATATT
12914 AAA
1 AAA
12917 CTGTTATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (42 bp):
AAAAATAATATTTCTGATAATATATTTCCTTAACTATATATT
Found at i:13270 original size:21 final size:19
Alignment explanation
Indices: 13223--13260 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13213 ATCTATGTCC
13223 AAAGATCTTAGACAATAGT
1 AAAGATCTTAGACAATAGT
13242 AAAGATCTTAGACAATAGT
1 AAAGATCTTAGACAATAGT
13261 GTAATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
AAAGATCTTAGACAATAGT
Found at i:21729 original size:13 final size:13
Alignment explanation
Indices: 21711--21737 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21701 CATAGTTGAA
21711 CAGTCTTCATATG
1 CAGTCTTCATATG
21724 CAGTCTTCATATG
1 CAGTCTTCATATG
21737 C
1 C
21738 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:33750 original size:21 final size:21
Alignment explanation
Indices: 33724--33775 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
33714 CAACTTAGTC
33724 CAAAAATCAATCATGTAGCTT
1 CAAAAATCAATCATGTAGCTT
33745 CAAAAATCAATCATGTAGCTT
1 CAAAAATCAATCATGTAGCTT
*
33766 TAAAAATCAA
1 CAAAAATCAA
33776 AAATAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (21 bp):
CAAAAATCAATCATGTAGCTT
Found at i:34711 original size:21 final size:21
Alignment explanation
Indices: 34673--34736 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
34663 TTTATTTTAT
*
34673 ATATTTATTTTT-ATAATTCA
1 ATATTTATTTTTAAAAATTCA
*
34693 ATATTTATTTTTAAAAATTAA
1 ATATTTATTTTTAAAAATTCA
* *
34714 ATA-TTAGTATTAAAATATTCA
1 ATATTTATTTTTAAAA-ATTCA
34735 AT
1 AT
34737 TATCAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTTATTTTTAAAAATTCA
Found at i:34940 original size:13 final size:13
Alignment explanation
Indices: 34922--34966 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
34912 TTACAATAAA
34922 TTTAAATAAATAT
1 TTTAAATAAATAT
*
34935 TTTAAATTTAA-A-
1 TTTAAA-TAAATAT
34947 TTTAAATAAATAT
1 TTTAAATAAATAT
34960 TTTAAAT
1 TTTAAAT
34967 TTAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 7 0.26
13 14 0.52
14 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTAAATAAATAT
Found at i:34944 original size:6 final size:6
Alignment explanation
Indices: 34935--34982 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
34925 AAATAAATAT
*
34935 TTTAAA TTTAAA TTTAAA -TAAATA TTTTAAA TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAA-A -TTTAAA TTTAAA TTTAAA TTTAA
34983 GAAAAAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 3 0.08
6 30 0.81
7 1 0.03
8 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:34949 original size:25 final size:25
Alignment explanation
Indices: 34918--34978 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
34908 AGATTTACAA
34918 TAAATTTAAATAAATATTTTAAATT
1 TAAATTTAAATAAATATTTTAAATT
34943 TAAATTTAAATAAATATTTTAAATT
1 TAAATTTAAATAAATATTTTAAATT
34968 TAAATTTAAAT
1 TAAATTTAAAT
34979 TTAAGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAATTTAAATAAATATTTTAAATT
Found at i:36565 original size:20 final size:20
Alignment explanation
Indices: 36540--36579 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
36530 TGAGAATAGA
36540 GCCGATGGATATAGGGGAGG
1 GCCGATGGATATAGGGGAGG
*
36560 GCCGATGGTTATAGGGGAGG
1 GCCGATGGATATAGGGGAGG
36580 ATCCAGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.50, T:0.17
Consensus pattern (20 bp):
GCCGATGGATATAGGGGAGG
Found at i:40548 original size:14 final size:15
Alignment explanation
Indices: 40523--40551 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
40513 CATCTGTTCG
40523 AACATAAAATGAACA
1 AACATAAAATGAACA
40538 AACAT-AAATGAACA
1 AACATAAAATGAACA
40552 TAAACGAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.14, G:0.07, T:0.14
Consensus pattern (15 bp):
AACATAAAATGAACA
Found at i:40564 original size:14 final size:14
Alignment explanation
Indices: 40547--40574 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
40537 AAACATAAAT
40547 GAACATAAACGAAC
1 GAACATAAACGAAC
40561 GAACATAAACGAAC
1 GAACATAAACGAAC
40575 ATATAATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.21, G:0.14, T:0.07
Consensus pattern (14 bp):
GAACATAAACGAAC
Found at i:40597 original size:26 final size:24
Alignment explanation
Indices: 40521--40587 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
40511 GTCATCTGTT
* *
40521 CGAACATAAAATGAACAAACATAAA
1 CGAACAT-AAACGAACGAACATAAA
*
40546 TGAACATAAACGAACGAACATAAA
1 CGAACATAAACGAACGAACATAAA
40570 CGAACATATAATCGAACG
1 CGAACATA-AA-CGAACG
40588 TTCATGAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 22 0.61
25 8 0.22
26 6 0.17
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (24 bp):
CGAACATAAACGAACGAACATAAA
Found at i:40804 original size:43 final size:43
Alignment explanation
Indices: 40741--40827 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
40731 ACTAAATGTT
40741 CAGTTCATTTTTACACGCCTACTGATGCGCAAAGGTCTAACAG
1 CAGTTCATTTTTACACGCCTACTGATGCGCAAAGGTCTAACAG
*
40784 CAGTTCATTTTTACAGGCCTACTGATGCGCAAAGGTCTAACAG
1 CAGTTCATTTTTACACGCCTACTGATGCGCAAAGGTCTAACAG
40827 C
1 C
40828 CAATGTGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
CAGTTCATTTTTACACGCCTACTGATGCGCAAAGGTCTAACAG
Found at i:42241 original size:27 final size:27
Alignment explanation
Indices: 42211--42268 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
42201 ATAAATTGGT
* *
42211 GGTGGAGGTGAATGTGGTAGCGGTGGC
1 GGTGGAGGAGAATGTGGTAGAGGTGGC
* *
42238 GGTGGTGGAGAATGTGGTGGAGGTGGC
1 GGTGGAGGAGAATGTGGTAGAGGTGGC
42265 GGTG
1 GGTG
42269 AATGATGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.05, G:0.59, T:0.22
Consensus pattern (27 bp):
GGTGGAGGAGAATGTGGTAGAGGTGGC
Found at i:42256 original size:21 final size:21
Alignment explanation
Indices: 42232--42272 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42222 ATGTGGTAGC
* *
42232 GGTGGCGGTGGTGGAGAATGT
1 GGTGGAGGTGGCGGAGAATGT
*
42253 GGTGGAGGTGGCGGTGAATG
1 GGTGGAGGTGGCGGAGAATG
42273 ATGTGCTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.59, T:0.22
Consensus pattern (21 bp):
GGTGGAGGTGGCGGAGAATGT
Found at i:42689 original size:36 final size:35
Alignment explanation
Indices: 42602--42698 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
42592 CGGCGGGGGT
* * * *
42602 GATTGTGG-GGGTAAACGGGTGAAGCGGGTGGTGGG
1 GATTGAGGAGGGTAAATGGGTGGAG-GGGTGGCGGG
*
42637 GATTGAGGAGTGTAAATGGGTGGAGGAGGTGGCGGG
1 GATTGAGGAGGGTAAATGGGTGGAGG-GGTGGCGGG
* *
42673 GATTGAGGAGGGTAAATTGCTGGAGG
1 GATTGAGGAGGGTAAATGGGTGGAGG
42699 TGGCGGTGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
35 8 0.15
36 44 0.85
ACGTcount: A:0.22, C:0.04, G:0.54, T:0.21
Consensus pattern (35 bp):
GATTGAGGAGGGTAAATGGGTGGAGGGGTGGCGGG
Found at i:46113 original size:18 final size:18
Alignment explanation
Indices: 46090--46147 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
46080 TTTTCCGTAT
46090 TTTATTTCCTAATTCTTC
1 TTTATTTCCTAATTCTTC
**
46108 TTTATTT-CTTTTTCCGTAT-
1 TTTATTTCCTAATT-C-T-TC
46127 TTTATTTCCTAATTCTTC
1 TTTATTTCCTAATTCTTC
46145 TTT
1 TTT
46148 TTACCTACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.16
18 12 0.39
19 9 0.29
20 5 0.16
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATTTCCTAATTCTTC
Found at i:46124 original size:37 final size:37
Alignment explanation
Indices: 46074--46147 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
46064 ATGAATAATA
46074 ATTTCTTTTTCCGTATTTTATTTCCTAATTCTTCTTT
1 ATTTCTTTTTCCGTATTTTATTTCCTAATTCTTCTTT
46111 ATTTCTTTTTCCGTATTTTATTTCCTAATTCTTCTTT
1 ATTTCTTTTTCCGTATTTTATTTCCTAATTCTTCTTT
46148 TTACCTACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.14, C:0.19, G:0.03, T:0.65
Consensus pattern (37 bp):
ATTTCTTTTTCCGTATTTTATTTCCTAATTCTTCTTT
Found at i:46132 original size:19 final size:19
Alignment explanation
Indices: 46074--46134 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
46064 ATGAATAATA
46074 ATTTCTTTTTCCGTATTTT
1 ATTTCTTTTTCCGTATTTT
**
46093 ATTTCCTAATT-C-T-TCTTT
1 ATTT-CTTTTTCCGTAT-TTT
46111 ATTTCTTTTTCCGTATTTT
1 ATTTCTTTTTCCGTATTTT
46130 ATTTC
1 ATTTC
46135 CTAATTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
17 5 0.15
18 9 0.27
19 14 0.42
20 5 0.15
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTTCTTTTTCCGTATTTT
Found at i:46148 original size:19 final size:19
Alignment explanation
Indices: 46089--46148 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
46079 TTTTTCCGTA
46089 TTTTATTTCCTAATTCTTC
1 TTTTATTTCCTAATTCTTC
** * *
46108 -TTTATTT-CTTTTTCCGTA
1 TTTTATTTCCTAATT-CTTC
46126 TTTTATTTCCTAATTCTTC
1 TTTTATTTCCTAATTCTTC
46145 TTTT
1 TTTT
46149 TACCTACAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
19 13 0.43
20 4 0.13
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATTTCCTAATTCTTC
Found at i:46627 original size:3 final size:3
Alignment explanation
Indices: 46619--46645 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46609 ATGAAGAACA
46619 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
46646 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:48897 original size:20 final size:19
Alignment explanation
Indices: 48872--48920 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
48862 TTTTGGTTAT
48872 ATATATATATAGGTTTGAA
1 ATATATATATAGGTTTGAA
*
48891 A-ATATATATAGTTTTGAA
1 ATATATATATAGGTTTGAA
48909 TATATATATATA
1 -ATATATATATA
48921 TATATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 16 0.59
19 2 0.07
20 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (19 bp):
ATATATATATAGGTTTGAA
Found at i:48913 original size:2 final size:2
Alignment explanation
Indices: 48908--48952 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
48898 ATAGTTTTGA
48908 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
48950 AT A
1 AT A
48953 GTTTTAGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51108 original size:13 final size:13
Alignment explanation
Indices: 51087--51119 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
51077 ATCACATTTT
*
51087 TTATCTTTTAAAA
1 TTATTTTTTAAAA
51100 TTATTTTTTAAAA
1 TTATTTTTTAAAA
51113 TTATTTT
1 TTATTTT
51120 AAAAGGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:51119 original size:12 final size:12
Alignment explanation
Indices: 51087--51134 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
51077 ATCACATTTT
51087 TTATCTTTTAAAA
1 TTAT-TTTTAAAA
51100 TTATTTTTTAAAA
1 TTA-TTTTTAAAA
51113 TTA-TTTTAAAA
1 TTATTTTTAAAA
*
51124 GGTATTTTTAA
1 -TTATTTTTAA
51135 GTATTCAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 8 0.26
12 2 0.06
13 20 0.65
14 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (12 bp):
TTATTTTTAAAA
Found at i:56211 original size:77 final size:76
Alignment explanation
Indices: 56052--56212 Score: 218
Period size: 77 Copynumber: 2.1 Consensus size: 76
56042 GTTCCATGTA
* * ** *
56052 AGTTTTTTTTTCTATTTTGTTAAAAATTCTACAAGTTTCATATAATTTTTAACTTCAAAATTTTA
1 AGTTTTTTTTTCAAATTTAATAAAAATTCTAAAAGTTTCATATAATTTTTAACTTCAAAATTTTA
56117 AAATTTTAAAAT
66 AAATTTT-AAAT
* *
56129 A-TTTTTTTTTCAAATTTAATAAAAATTTGTAAAAGTTTCATATTATTTTTAACTTCAAAATTTT
1 AGTTTTTTTTTCAAATTTAATAAAAA-TTCTAAAAGTTTCATATAATTTTTAACTTCAAAATTTT
56193 AAATATTTT-AAT
65 AAA-ATTTTAAAT
56205 AGTTTTTT
1 AGTTTTTT
56213 AAAATTTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
76 24 0.32
77 45 0.61
78 5 0.07
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (76 bp):
AGTTTTTTTTTCAAATTTAATAAAAATTCTAAAAGTTTCATATAATTTTTAACTTCAAAATTTTA
AAATTTTAAAT
Found at i:60206 original size:24 final size:24
Alignment explanation
Indices: 60151--60217 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
60141 CCTAATTAAT
* *
60151 TTTATGTTCGTTTACATTCGTCCG
1 TTTATGTTCGTTTACATTCATCCA
* *
60175 TCTT-TGTTTGTTTACATTCATTCA
1 T-TTATGTTCGTTTACATTCATCCA
*
60199 TTTATGTTCGCTTAACATT
1 TTTATGTTCG-TTTACATT
60218 TTAACGAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 23 0.68
25 9 0.26
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.54
Consensus pattern (24 bp):
TTTATGTTCGTTTACATTCATCCA
Found at i:61073 original size:16 final size:14
Alignment explanation
Indices: 61058--61092 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
61048 CTTAATATTA
*
61058 TAAATATTTATAAT
1 TAAAAATTTATAAT
61072 TAAAAATTTATAA-
1 TAAAAATTTATAAT
61085 TAAAAATT
1 TAAAAATT
61093 AAACATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAAATTTATAAT
Found at i:61590 original size:1 final size:1
Alignment explanation
Indices: 61586--61629 Score: 79
Period size: 1 Copynumber: 44.0 Consensus size: 1
61576 GGAGCATGCG
*
61586 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
61630 TGGTTAGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.98, C:0.00, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:63507 original size:21 final size:22
Alignment explanation
Indices: 63483--63524 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
63473 TTTCAATTTT
63483 ATTTA-TTTTATTTTGAAGAGG
1 ATTTATTTTTATTTTGAAGAGG
63504 ATTTATTTTTATTTTGAAGAG
1 ATTTATTTTTATTTTGAAGAG
63525 TAAAACGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (22 bp):
ATTTATTTTTATTTTGAAGAGG
Found at i:68091 original size:80 final size:81
Alignment explanation
Indices: 67885--68093 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
67875 GACTATCACT
* * * * * * *
67885 TTAGTGGCGTTTTTCAAAACACAC-ATCGCAATAGGTTAAAATATAATGCTTTTTTTATTAAACA
1 TTAGTGGCGTTTTTCAATACAAACGCT-GCAATAGGTTAATATATAGTGATGTTTTTATTAAACA
**
67949 CCGTAAATATTAGTACC
65 CCACAAATATTAGTACC
**
67966 TTAGTGGCGTTTTTCAATACAAACGCTGCAATAGGTTAATATATAGTGATGTTTTTATTAAATGC
1 TTAGTGGCGTTTTTCAATACAAACGCTGCAATAGGTTAATATATAGTGATGTTTTTATTAAACAC
* *
68031 CACAAATTTTAGTACG
66 CACAAATATTAGTACC
* * * *
68047 TTAGTGGTG-TTTTCTATACAAGCTCTGCAATAGGTTAATATATAGTG
1 TTAGTGGCGTTTTTCAATACAAACGCTGCAATAGGTTAATATATAGTG
68094 GCTGCAAATT
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 35 0.32
81 74 0.67
82 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (81 bp):
TTAGTGGCGTTTTTCAATACAAACGCTGCAATAGGTTAATATATAGTGATGTTTTTATTAAACAC
CACAAATATTAGTACC
Found at i:68988 original size:18 final size:18
Alignment explanation
Indices: 68965--69009 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
68955 AGGACTTGCT
68965 TGATGAGGCAATAACAGC
1 TGATGAGGCAATAACAGC
*
68983 TGATGAGGCAATAACGGC
1 TGATGAGGCAATAACAGC
*
69001 TGGTGAGGC
1 TGATGAGGC
69010 TTTCTTCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.18
Consensus pattern (18 bp):
TGATGAGGCAATAACAGC
Found at i:70140 original size:192 final size:192
Alignment explanation
Indices: 69790--70148 Score: 535
Period size: 192 Copynumber: 1.9 Consensus size: 192
69780 TCAATGATAA
*
69790 CTAGTTACGTCACTAAATTATATAAAATTTGTTATTAATAATTTACATCGTCACGAATAATACAT
1 CTAGTTACGTCACTAAATTATATAAAATTTGTTATTAATAATTTACATCGTCACGAATAATACAA
*
69855 TAAAATCAATCTATATGTGACGAAAGAAATATTGTCACATTTTTAGTGACGTAATATAATGTTAC
66 TAAAATCAATCTATATGTGACGAAAGAAATATTGTCACATTTTTAGTGACATAATATAATGTTAC
* *
69920 CTAATATTATTATGATTGACACTTATGCATAACGTCATTTTATAACTTATATTGCATGACAG
131 CTAATAGTATTATGAATGACACTTATGCATAACGTCATTTTATAACTTATATTGCATGACAG
* * * *
69982 CTAGTTACGTCACTAAATTATATAATATTTTTTATTAATAATTTATATTGTCACGAATAATACAA
1 CTAGTTACGTCACTAAATTATATAAAATTTGTTATTAATAATTTACATCGTCACGAATAATACAA
* * *
70047 TAAAATCAA-CATATATGTTACGTAAGAGATATTGTCA-AGTTTTTAGTGACATAATATAATGTT
66 TAAAATCAATC-TATATGTGACGAAAGAAATATTGTCACA-TTTTTAGTGACATAATATAATGTT
** * *
70110 ATGTAATAGTATTTTGAATGATGA-TTATGCATAACGTCA
129 ACCTAATAGTATTATGAATGA-CACTTATGCATAACGTCA
70149 CCTTATACAA
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
191 2 0.01
192 146 0.98
193 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (192 bp):
CTAGTTACGTCACTAAATTATATAAAATTTGTTATTAATAATTTACATCGTCACGAATAATACAA
TAAAATCAATCTATATGTGACGAAAGAAATATTGTCACATTTTTAGTGACATAATATAATGTTAC
CTAATAGTATTATGAATGACACTTATGCATAACGTCATTTTATAACTTATATTGCATGACAG
Found at i:74063 original size:24 final size:24
Alignment explanation
Indices: 74030--74077 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
74020 GGTTACAAAA
*
74030 GCTTGTACTTTTGCAGCAGATGAG
1 GCTTGCACTTTTGCAGCAGATGAG
74054 GCTTGCACTTTTGCAGCAGATGAG
1 GCTTGCACTTTTGCAGCAGATGAG
74078 TCCCCTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (24 bp):
GCTTGCACTTTTGCAGCAGATGAG
Found at i:77731 original size:21 final size:20
Alignment explanation
Indices: 77664--77731 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 20
77654 TTATTGTTAG
*
77664 ATAAAAAAAGGTTAAATTAAA
1 ATAAAAAAA-ATTAAATTAAA
*
77685 GATATAAAAGAAA-TAAATAAAAA
1 -ATA-AAAA-AAATTAAAT-TAAA
77708 ATAAAAAAAATTAAATTAATA
1 ATAAAAAAAATTAAATTAA-A
77729 ATA
1 ATA
77732 TAAATATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 5 0.13
21 13 0.34
22 11 0.29
23 7 0.18
24 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (20 bp):
ATAAAAAAAATTAAATTAAA
Found at i:78564 original size:3 final size:3
Alignment explanation
Indices: 78558--78607 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
78548 AACTGAAAAA
*
78558 AAT AAT ATT AAT AAT AAT -AT AAT -AT AAT AAAT ATAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AAT -AAT
78604 AAT A
1 AAT A
78608 CTATAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 4 0.10
3 27 0.68
4 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:78581 original size:5 final size:5
Alignment explanation
Indices: 78559--78768 Score: 71
Period size: 5 Copynumber: 39.8 Consensus size: 5
78549 ACTGAAAAAA
78559 ATAAT ATTAAT AATAAT ATAAT ATAAT A-AAT AT-AT AATAAT A-AAT
1 ATAAT A-TAAT -ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
* * *
78604 AATACT ATAAAT AAAAT ATAAT AT-AT AAACAT ATACTAT ATAAT ATAGAAT
1 -ATAAT AT-AAT ATAAT ATAAT ATAAT ATA-AT ATA--AT ATAAT AT--AAT
*
78655 ATGAAT A-ACAT A-AAC ATAATGT ATAAT ACT-AT ATACAT AT--T ATAAT
1 AT-AAT ATA-AT ATAAT ATAA--T ATAAT A-TAAT ATA-AT ATAAT ATAAT
* * * *
78701 AT-AT ATGCTAT ATAAT ATCAT ATTAT ATAAT ATACTAT ATAAA ATAAT
1 ATAAT AT--AAT ATAAT ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT
* *
78749 ACATAT ATAAT ATAGT ATAA
1 ATA-AT ATAAT ATAAT ATAA
78769 AAAAACTTAG
Statistics
Matches: 158, Mismatches: 19, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
3 3 0.02
4 20 0.13
5 78 0.49
6 33 0.21
7 24 0.15
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:78591 original size:26 final size:26
Alignment explanation
Indices: 78561--78628 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
78551 TGAAAAAAAT
78561 AATATTAATAATAATATAATA-TAATA
1 AATATTAATAATAATATAATACT-ATA
78587 AATATATAATAATAA-ATAATACTATA
1 AATAT-TAATAATAATATAATACTATA
*
78613 AATA-AAAT-ATAATATA
1 AATATTAATAATAATATA
78629 TAAACATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.11
24 6 0.16
26 18 0.47
27 10 0.26
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATTAATAATAATATAATACTATA
Found at i:78621 original size:31 final size:30
Alignment explanation
Indices: 78557--78648 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 30
78547 AAACTGAAAA
*
78557 AAAT-AATAT-TAATAAT-AAT-ATAATAT
1 AAATAAATATATAATAATAAATAATACTAT
78583 -AATAAATATATAATAATAAATAATACTAT
1 AAATAAATATATAATAATAAATAATACTAT
*
78612 AAATAAA-ATATAATATATAAACATATACTAT
1 AAATAAATATATAATA-ATAAATA-ATACTAT
78643 ATAATA
1 A-AATA
78649 TAGAATATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.05
26 5 0.09
27 7 0.12
28 3 0.05
29 14 0.25
30 12 0.21
31 8 0.14
32 4 0.07
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATAAATATATAATAATAAATAATACTAT
Found at i:78644 original size:7 final size:7
Alignment explanation
Indices: 78568--78762 Score: 92
Period size: 7 Copynumber: 28.1 Consensus size: 7
78558 AATAATATTA
78568 ATAATAAT
1 ATAAT-AT
78576 ATAATAT
1 ATAATAT
78583 AATAA-AT
1 -ATAATAT
78590 AT-ATA-
1 ATAATAT
*
78595 ATAATAA
1 ATAATAT
78602 ATAATACT
1 ATAATA-T
78610 ATAA-AT
1 ATAATAT
78616 A-AA-AT
1 ATAATAT
78621 ATAATAT
1 ATAATAT
*
78628 ATAAACAT
1 AT-AATAT
*
78636 ATACTAT
1 ATAATAT
78643 ATAATAT
1 ATAATAT
*
78650 AGAATAT
1 ATAATAT
* *
78657 -GAATAAC
1 ATAAT-AT
*
78664 ATAA-AC
1 ATAATAT
*
78670 ATAATGT
1 ATAATAT
78677 ATAATACT
1 ATAATA-T
*
78685 AT-ATAC
1 ATAATAT
78691 AT-AT-T
1 ATAATAT
78696 ATAATAT
1 ATAATAT
*
78703 ATATGCTAT
1 ATA--ATAT
78712 ATAATAT
1 ATAATAT
*
78719 CATATTAT
1 -ATAATAT
78727 ATAATAT
1 ATAATAT
78734 ACT-ATAT
1 A-TAATAT
*
78741 AAAATA-
1 ATAATAT
78747 ATACATAT
1 ATA-ATAT
78755 ATAATAT
1 ATAATAT
78762 A
1 A
78763 GTATAAAAAA
Statistics
Matches: 147, Mismatches: 19, Indels: 43
0.70 0.09 0.21
Matches are distributed among these distances:
5 10 0.07
6 28 0.19
7 69 0.47
8 34 0.23
9 6 0.04
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:82560 original size:71 final size:71
Alignment explanation
Indices: 82444--82586 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
82434 CTTCATAATC
82444 CATTTCAATTCTATTACAACCTAAAAAATTCTACTTCAACAATAATGCATTAGCCCTCAAGTTAT
1 CATTTCAATTCTATTACAACCTAAAAAATTCTACTTCAACAATAATGCATTAGCCCTCAAGTTAT
82509 GCACAA
66 GCACAA
*
82515 CATTTCAATTCTATTGCAACCTAAAAAATTCTACTTCAACAATAATGCATTAGCCCTCAAGTTAT
1 CATTTCAATTCTATTACAACCTAAAAAATTCTACTTCAACAATAATGCATTAGCCCTCAAGTTAT
82580 GCACAA
66 GCACAA
82586 C
1 C
82587 CATAGTTAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (71 bp):
CATTTCAATTCTATTACAACCTAAAAAATTCTACTTCAACAATAATGCATTAGCCCTCAAGTTAT
GCACAA
Found at i:84851 original size:18 final size:18
Alignment explanation
Indices: 84802--84855 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
84792 AAAATAGAAA
*
84802 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
84823 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
84842 AATA-TAATATAAAA
1 AATAGTAATATAAAA
84856 AAACCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:84856 original size:18 final size:19
Alignment explanation
Indices: 84806--84856 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
84796 TAGAAAAATA
*
84806 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
84826 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
84845 ATAATATAAAAA
1 ATAATATAAAAA
84857 AACCAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:84895 original size:21 final size:22
Alignment explanation
Indices: 84863--84904 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
84853 AAAAAACCAA
84863 AAACCAAAATATATAAA-TATAT
1 AAACCAAAATATA-AAAGTATAT
84885 AAACC-AAATATAAAAGTATA
1 AAACCAAAATATAAAAGTATA
84905 CATATAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 11 0.58
22 5 0.26
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACCAAAATATAAAAGTATAT
Found at i:85059 original size:19 final size:18
Alignment explanation
Indices: 85032--85086 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
85022 TATAAGTGAA
* *
85032 ATATTTAAAAAAAGTATAT
1 ATATATAAAAAAA-TAAAT
85051 ATATATAAAAATAATAAAT
1 ATATATAAAAA-AATAAAT
*
85070 ATAGTATTAAAAAATAA
1 ATA-TATAAAAAAATAA
85087 CCAAATGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 22 0.71
20 9 0.29
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
ATATATAAAAAAATAAAT
Found at i:85611 original size:37 final size:37
Alignment explanation
Indices: 85570--85674 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
85560 GTGCTTGTGG
* * *
85570 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
85607 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
85644 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
85675 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:86571 original size:106 final size:106
Alignment explanation
Indices: 86386--88072 Score: 2734
Period size: 106 Copynumber: 15.9 Consensus size: 106
86376 GCATTGTTCT
* * * * * *
86386 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * * * *
86451 CCAGCCGTCCCTTCGTTGCGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
86492 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
86557 CCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
86598 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
86663 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
86704 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTG-GAAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTGTTGACA
*
86768 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
86810 GAGTCCAATATCTTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
86875 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
86916 GAGTATAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
86981 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
87022 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
87087 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
87128 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
87193 CCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
87234 GAGTACAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * * *
87299 CCAGCGGTCCTTTTGTCGTGAAGTTGAACTTGCGTTATCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
87340 GAGTCCAATAT-CTTACGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GTAAATTGTTTATTGAC
1 GAGTCCAATATCCTT-CGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTGTTGAC
87403 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
87446 GGGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTTAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
87511 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
87552 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-AGGAAGTTATTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAGTTGTTTGTTGACA
* * * *
87616 ACCAGAGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGCCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
87658 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
87723 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
87764 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
87829 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
87870 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
87935 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
87976 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
88041 CCAGCGGTCACTTCGTTGTGAAGTTGAACTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
88073 TGTTATCTTG
Statistics
Matches: 1466, Mismatches: 107, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
105 6 0.00
106 1454 0.99
107 6 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:88915 original size:22 final size:22
Alignment explanation
Indices: 88893--89009 Score: 189
Period size: 22 Copynumber: 5.3 Consensus size: 22
88883 GTTTGGTCAA
* * *
88893 AGGTTTGGTATTTAATGCTCAA
1 AGGTTTGGCATTTGATGCTCAT
* *
88915 AGGTTTGGCAATTAATGCTCAT
1 AGGTTTGGCATTTGATGCTCAT
88937 AGGTTTGGCATTTGATGCTCAT
1 AGGTTTGGCATTTGATGCTCAT
88959 AGGTTTGGCATTTGATGCTCAT
1 AGGTTTGGCATTTGATGCTCAT
88981 AGGTTTGGCATTTGATGCTCAT
1 AGGTTTGGCATTTGATGCTCAT
89003 AGGTTTG
1 AGGTTTG
89010 ATGGGGTAGT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 90 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.40
Consensus pattern (22 bp):
AGGTTTGGCATTTGATGCTCAT
Found at i:89707 original size:172 final size:173
Alignment explanation
Indices: 89404--89750 Score: 583
Period size: 172 Copynumber: 2.0 Consensus size: 173
89394 TAAATAGGCC
*
89404 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAA-CA-GTCCTG
* *
89469 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATG
64 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCAAGTGAAGTGATTCAATGATTCGAGAATG
89534 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGACATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGACATTT
*
89579 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTGCT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
*
89641 CAAAATGTTTCTCTCTCTTGATGCTCTATGATCTTCAAGTGAAGTGATTCAATGATTCGGGAATG
66 CAAAATG--TCTCTCTCTTGATGCTCTATGATCTTCAAGTGAAGTGATTCAATGATTCGAGAATG
*
89706 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGACATTT
89751 GTCTTTAGGG
Statistics
Matches: 164, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
170 14 0.09
172 98 0.60
174 1 0.01
175 51 0.31
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
CAAAATGTCTCTCTCTTGATGCTCTATGATCTTCAAGTGAAGTGATTCAATGATTCGAGAATGAT
TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGACATTT
Found at i:94328 original size:2 final size:2
Alignment explanation
Indices: 94321--94352 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94311 AATAAATGAA
94321 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
94353 GAGTAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94416 original size:18 final size:18
Alignment explanation
Indices: 94367--94420 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
94357 AAAATAGAAA
*
94367 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
94388 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
94407 AATA-TAATATAAAA
1 AATAGTAATATAAAA
94421 AAAAACCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:94421 original size:18 final size:19
Alignment explanation
Indices: 94371--94421 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
94361 TAGAAAAATA
*
94371 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
94391 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
94410 ATAATATAAAAA
1 ATAATATAAAAA
94422 AAAACCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:94455 original size:21 final size:22
Alignment explanation
Indices: 94423--94464 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
94413 ATATAAAAAA
94423 AAACCAAAATATATAAA-TATAT
1 AAACCAAAATATA-AAAGTATAT
94445 AAACC-AAATATAAAAGTATA
1 AAACCAAAATATAAAAGTATA
94465 CATATAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 11 0.58
22 5 0.26
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACCAAAATATAAAAGTATAT
Found at i:95230 original size:37 final size:37
Alignment explanation
Indices: 95132--95232 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
95122 GTGCTTGTGG
* * * * *
95132 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
95169 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
95206 ATCCTATTTTTAGGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
95233 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:95405 original size:23 final size:25
Alignment explanation
Indices: 95375--95428 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
95365 GAATTAGATT
*
95375 TAAAATAATTACTAT-AT-TTATTA
1 TAAAATAATTACTATAATGTTATAA
95398 TAAAATAATTACTATAATGTTATAA
1 TAAAATAATTACTATAATGTTATAA
95423 TAAAAT
1 TAAAAT
95429 CATAGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 15 0.54
24 2 0.07
25 11 0.39
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAAATAATTACTATAATGTTATAA
Found at i:97466 original size:20 final size:20
Alignment explanation
Indices: 97421--97470 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
97411 TTTGATCCAA
97421 CATTTTTACTTATTTCTTTT
1 CATTTTTACTTATTTCTTTT
*
97441 -ATTTTTTATTTATTT-TTATT
1 CA-TTTTTACTTATTTCTT-TT
97461 CA-TTTTACTT
1 CATTTTTACTT
97471 TCTTTGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 10 0.40
20 14 0.56
21 1 0.04
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (20 bp):
CATTTTTACTTATTTCTTTT
Found at i:103336 original size:46 final size:46
Alignment explanation
Indices: 103267--103354 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
103257 ACCGCTATAT
*
103267 ATTTTCATTTGTGGCATCATTTCATGCCAATTATGCACTGTTACAC
1 ATTTTCATTTATGGCATCATTTCATGCCAATTATGCACTGTTACAC
*
103313 ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCACTGTT
1 ATTTTCATTTATGGCATCATTTCATGCCAATTATGCACTGTT
103355 CTTTATCTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCATTTCATGCCAATTATGCACTGTTACAC
Found at i:103846 original size:45 final size:45
Alignment explanation
Indices: 103751--103885 Score: 182
Period size: 45 Copynumber: 3.0 Consensus size: 45
103741 ATTCAAGCTT
* *
103751 ATAATGCAC-CATTATGCATTTTTATTTATGGCATCCTTTCATGCCA
1 ATAATGCACACA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCA
* * * *
103797 ATAATGCATACATATGCATTTCAATTATGGCATCCTTTTATGTCG
1 ATAATGCACACATATGCATTTCAATTATGGCATCCTTTCATGCCA
*
103842 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCC
1 ATAATGCACACATATGCATTTCAATTATGGCATCCTTTCATGCC
103886 TTTTATATAC
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
45 62 0.79
46 14 0.18
47 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (45 bp):
ATAATGCACACATATGCATTTCAATTATGGCATCCTTTCATGCCA
Found at i:103907 original size:45 final size:45
Alignment explanation
Indices: 103774--104086 Score: 378
Period size: 45 Copynumber: 7.0 Consensus size: 45
103764 ATGCATTTTT
** * * * *
103774 ATTTATGGCATCCTTTCATGCCAATAATGCA-TACATATGCATTTC
1 ATTTATGGCATCCTTTCATGCCTTTTATACACTA-TTATACATTTC
* * * ** * * * *
103819 AATTATGGCATCCTTTTATGTCGATAATGCACCCA-TATGCATTTC
1 ATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATACATTTC
* *
103864 AATTATGGCATCCTTTCATGCCTTTTATATACTATTATACATTTC
1 ATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
* *
103909 ATTTATGTCATCCTTTCATGTCTTTTATACACTATTATACATTTC
1 ATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
* *
103954 ATTTATGGCATCATTTCATGCCTTTTATACACTATTATACATTTT
1 ATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
* *
103999 ATTTATGACATCCTTTCATGCCTTTTATACACTATTATACATTTT
1 ATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
*
104044 ATTTATGGCATCATTTCATGCCTTTTATACACTATTATACATT
1 ATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATT
104087 GTTATACATC
Statistics
Matches: 239, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
44 2 0.01
45 236 0.99
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (45 bp):
ATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTC
Found at i:104229 original size:81 final size:81
Alignment explanation
Indices: 104100--104349 Score: 401
Period size: 81 Copynumber: 3.1 Consensus size: 81
104090 ATACATCTAG
* * * * *
104100 TCTTTTACTCAAAAGCATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
* **
104165 ACATCTATACCATTAA
66 ACAACTAGGCCATTAA
*
104181 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCGAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
* *
104246 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
104262 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
104327 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
104343 TCTTTTA
1 TCTTTTA
104350 AATTAGAACA
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 156 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAATGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAA
Found at i:109537 original size:11 final size:11
Alignment explanation
Indices: 109521--109580 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
109511 ATAGATAGTT
109521 TTTTGAAAATA
1 TTTTGAAAATA
*
109532 TTTTGAAAGTA
1 TTTTGAAAATA
*
109543 TATAT-AATATATA
1 T-TTTGAA-A-ATA
109556 GTTTTTGAAAATA
1 --TTTTGAAAATA
109569 TTTTGAAAATA
1 TTTTGAAAATA
109580 T
1 T
109581 ACATATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 25 0.64
12 3 0.08
13 5 0.13
14 3 0.08
15 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:109570 original size:37 final size:37
Alignment explanation
Indices: 109461--109603 Score: 171
Period size: 37 Copynumber: 3.7 Consensus size: 37
109451 TTTATTTAGT
*
109461 ATATATATATATAATATAGTTTTTTATAAA-ATTTTGAAAA
1 ATATATATA-AT-ATATAGTTTTTGA-AAATATTTTG-AAA
*
109501 CATATATATAATAGATAGTTTTTTGAAAATATTTTGAAA
1 -ATATATATAATATATAG-TTTTTGAAAATATTTTGAAA
*
109540 GTATATATAATATATAGTTTTTGAAAATATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAATATTTTGAAA
* * *
109577 ATATACATATTATATAGTTTTTAAAAA
1 ATATATATAATATATAGTTTTTGAAAA
109604 ATATATATGT
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
37 43 0.47
38 15 0.16
39 11 0.12
40 14 0.15
41 9 0.10
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTGAAAATATTTTGAAA
Found at i:109594 original size:75 final size:79
Alignment explanation
Indices: 109462--109607 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 79
109452 TTATTTAGTA
* * **
109462 TATATATATATAATATAGTTTTTTATAAAATTTTGAAAACATATATATAATAGATAGTTTTTTGA
1 TATATATATATAATATAGTTTTTGATAAAATTTTGAAAACATATACATAATAGATAGTTTTTAAA
109527 AAATATTTTGAAAG
66 AAATATTTTGAAAG
* *
109541 TATATATA-AT-ATATAGTTTTTGA-AAATATTTTG-AAA-ATATACATATTATATAGTTTTTAA
1 TATATATATATAATATAGTTTTTGATAAA-ATTTTGAAAACATATACATAATAGATAGTTTTTAA
109601 AAAATAT
65 AAAATAT
109608 ATATGTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
75 26 0.43
76 6 0.10
77 18 0.30
78 2 0.03
79 8 0.13
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (79 bp):
TATATATATATAATATAGTTTTTGATAAAATTTTGAAAACATATACATAATAGATAGTTTTTAAA
AAATATTTTGAAAG
Found at i:109611 original size:25 final size:26
Alignment explanation
Indices: 109569--109618 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
109559 TTTGAAAATA
*
109569 TTTTGAAAATATACATAT-TATATAG
1 TTTTGAAAAAATACATATGTATATAG
* *
109594 TTTTTAAAAAATATATATGTATATA
1 TTTTGAAAAAATACATATGTATATA
109619 TTATATAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (26 bp):
TTTTGAAAAAATACATATGTATATAG
Found at i:109624 original size:77 final size:77
Alignment explanation
Indices: 109459--109630 Score: 183
Period size: 77 Copynumber: 2.2 Consensus size: 77
109449 GTTTTATTTA
* *
109459 GTATATATATAT-ATAATATAGTTTTTTATAAAATTTTGAAAACATATATATAATAGATAGTTTT
1 GTATATATATATAAT-ATATAGTTTTTGATAAAATTTTGAAAACATATACATAATAGATAGTTTT
** *
109523 TTGAAAATATTTT
65 TAAAAAATATTAT
* * *
109536 G-AAAGTATATATAATATATAGTTTTTGA-AAATATTTTG-AAA-ATATACATATTATATAGTTT
1 GTATA-TATATATAATATATAGTTTTTGATAAA-ATTTTGAAAACATATACATAATAGATAGTTT
109597 TTAAAAAATATATAT
64 TTAAAAAATAT-TAT
*
109612 GTATATATTATATAGTATA
1 GTATATA-TATATAATATA
109631 GTATTATATA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
75 26 0.33
76 13 0.16
77 38 0.48
78 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (77 bp):
GTATATATATATAATATATAGTTTTTGATAAAATTTTGAAAACATATACATAATAGATAGTTTTT
AAAAAATATTAT
Found at i:109625 original size:15 final size:16
Alignment explanation
Indices: 109605--109641 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
109595 TTTTAAAAAA
109605 TATATATGTATA-TAT
1 TATATATGTATAGTAT
109620 TATATA-GTATAGTAT
1 TATATATGTATAGTAT
109635 TATATAT
1 TATATAT
109642 TATTTATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
TATATATGTATAGTAT
Found at i:109631 original size:75 final size:76
Alignment explanation
Indices: 109459--109632 Score: 187
Period size: 75 Copynumber: 2.3 Consensus size: 76
109449 GTTTTATTTA
* *
109459 GTATATATATATATAATATAGTTTTTTATAAAATTTTGAAAACATATATATAATAGATAGTTTTT
1 GTATATATATATAT-ATATAGTTTTTGATAAAATTTTGAAAACATATACATAATAGATAGTTTTT
** *
109524 TGAAAATATTTT
65 AAAAAATATTAT
* * *
109536 G-AAAGTATATATAATATATAGTTTTTGA-AAATATTTTG-AAA-ATATACATATTATATAGTTT
1 GTATA-TATATAT-ATATATAGTTTTTGATAAA-ATTTTGAAAACATATACATAATAGATAGTTT
109597 TTAAAAAATATATAT
63 TTAAAAAATAT-TAT
109612 GTATATAT-TATATAGTATAGT
1 GTATATATATATATA-TATAGT
109633 ATTATATATT
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
74 3 0.04
75 35 0.43
76 14 0.17
77 28 0.34
78 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (76 bp):
GTATATATATATATATATAGTTTTTGATAAAATTTTGAAAACATATACATAATAGATAGTTTTTA
AAAAATATTAT
Found at i:109673 original size:26 final size:26
Alignment explanation
Indices: 109644--109698 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
109634 TTATATATTA
*
109644 TTTATCATAT-TTTATTTATTTTCTTT
1 TTTAT-ATATATTTATTTATTTTCATT
* *
109670 TTTATTTTTATTTATTTATTTTCATT
1 TTTATATATATTTATTTATTTTCATT
109696 TTT
1 TTT
109699 CTTTCTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTATATATATTTATTTATTTTCATT
Found at i:112062 original size:28 final size:27
Alignment explanation
Indices: 111975--112063 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 27
111965 AACATCACTT
* *
111975 TTTAAAATTAACGTAAAACT-TTTTAAAA
1 TTTAAAATTAA-TTAAAA-TATTTTAAAG
* * * *
112003 TTTAATAATTGATTAGAATAATATTATAG
1 TTTAA-AATTAATTAAAAT-ATTTTAAAG
112032 TTTAAAATTAATATAAAATATTTTAAAG
1 TTTAAAATTAAT-TAAAATATTTTAAAG
112060 TTTA
1 TTTA
112064 GAGATAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
27 1 0.02
28 26 0.55
29 20 0.43
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (27 bp):
TTTAAAATTAATTAAAATATTTTAAAG
Found at i:112983 original size:39 final size:39
Alignment explanation
Indices: 112938--113029 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
112928 TTTAAAAAAT
112938 AATTTAGAATGTTAATATGA-AATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAATATGACAA-AATTTAAGAAATTAAG
* * *
112977 AATTTAGAATGTTATTGTGACAAAATTTAAGAAATTATG
1 AATTTAGAATGTTAATATGACAAAATTTAAGAAATTAAG
113016 AATTTAGAATGTTA
1 AATTTAGAATGTTA
113030 GAGTGATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 47 0.96
40 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.14, T:0.38
Consensus pattern (39 bp):
AATTTAGAATGTTAATATGACAAAATTTAAGAAATTAAG
Found at i:113043 original size:39 final size:38
Alignment explanation
Indices: 112938--113043 Score: 133
Period size: 39 Copynumber: 2.7 Consensus size: 38
112928 TTTAAAAAAT
*
112938 AATTTAGAATGTTAATATGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAA-GTGAAATAATTTAAGAAATTAAG
* *
112977 AATTTAGAATGTTATTGTGACAA-AATTTAAGAAATTATG
1 AATTTAGAATGTTA-AGTGA-AATAATTTAAGAAATTAAG
*
113016 AATTTAGAATGTTAGAGTGATATAATTT
1 AATTTAGAATGTTA-AGTGAAATAATTT
113044 GTGAATTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 55 0.95
40 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (38 bp):
AATTTAGAATGTTAAGTGAAATAATTTAAGAAATTAAG
Found at i:113073 original size:2 final size:2
Alignment explanation
Indices: 113066--113096 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113056 TAAAAGTGTA
113066 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 A
113097 AACTTGGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114820 original size:4 final size:4
Alignment explanation
Indices: 114805--114873 Score: 75
Period size: 4 Copynumber: 17.2 Consensus size: 4
114795 GTGGGGGAGG
* * * * *
114805 GAGA GGGA GAGG GAGG GAGA GAGA GAGA GAGA GAGG GAGG GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* *
114853 GAGA GAGG GGGA GAGA GAGA G
1 GAGA GAGA GAGA GAGA GAGA G
114874 CAATTGAAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:114828 original size:20 final size:20
Alignment explanation
Indices: 114799--114873 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
114789 AGTGGGGTGG
* *
114799 GGGAGGGAGAGGGAGAGGGA
1 GGGAGGGAGAGAGAGAGAGA
*
114819 GGGAGAGAGAGAGAGAGAGA
1 GGGAGGGAGAGAGAGAGAGA
114839 GGGAGGGAGAGAGAGAGAGA
1 GGGAGGGAGAGAGAGAGAGA
114859 -GG-GGGAGAGAGAGAG
1 GGGAGGGAGAGAGAGAG
114874 CAATTGAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.25
19 2 0.04
20 36 0.71
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (20 bp):
GGGAGGGAGAGAGAGAGAGA
Found at i:114866 original size:10 final size:10
Alignment explanation
Indices: 114799--114869 Score: 88
Period size: 10 Copynumber: 7.1 Consensus size: 10
114789 AGTGGGGTGG
*
114799 GGGAGGGAGA
1 GGGAGAGAGA
*
114809 GGGAGAGGGA
1 GGGAGAGAGA
114819 GGGAGAGAGA
1 GGGAGAGAGA
*
114829 GAGAGAGAGA
1 GGGAGAGAGA
*
114839 GGGAGGGAGA
1 GGGAGAGAGA
*
114849 GAGAGAGAGA
1 GGGAGAGAGA
*
114859 GGGGGAGAGA
1 GGGAGAGAGA
114869 G
1 G
114870 AGAGCAATTG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 51 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (10 bp):
GGGAGAGAGA
Found at i:114866 original size:16 final size:16
Alignment explanation
Indices: 114797--114873 Score: 77
Period size: 16 Copynumber: 4.9 Consensus size: 16
114787 GAAGTGGGGT
* *
114797 GGGGGAGGGAGAGGGA
1 GGGGGAGAGAGAGAGA
*
114813 GAGGGAG-G-GAGAGA
1 GGGGGAGAGAGAGAGA
* * *
114827 GAGAGAGAGAGAGGGA
1 GGGGGAGAGAGAGAGA
*
114843 GGGAGAGAGAGAGAGA
1 GGGGGAGAGAGAGAGA
114859 GGGGGAGAGAGAGAG
1 GGGGGAGAGAGAGAG
114874 CAATTGAAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 39 0.75
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (16 bp):
GGGGGAGAGAGAGAGA
Found at i:123643 original size:20 final size:20
Alignment explanation
Indices: 123618--123655 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
123608 CAATTTATTC
123618 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
123638 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
123656 TCCTTTGAAA
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:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:132248 original size:20 final size:20
Alignment explanation
Indices: 132223--132260 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
132213 TAATTTATTC
132223 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
132243 ATTGGTGCATCGATGCAT
1 ATTGGTGCATCGATGCAT
132261 TCATTTGAAA
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:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:132805 original size:20 final size:20
Alignment explanation
Indices: 132757--132818 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
132747 AACTTAAATC
*
132757 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
132777 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
132795 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
132814 AAAAT
1 AAAAT
132819 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:132845 original size:28 final size:28
Alignment explanation
Indices: 132814--132928 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 28
132804 TATATGATAT
132814 AAAATTAAATATCTATAATATAATATT-A
1 AAAATT-AATATCTATAATATAATATTAA
*
132842 AAAATTAATAT-T-TAAT-TTAT-TTAA
1 AAAATTAATATCTATAATATAATATTAA
132866 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATATCTATAATATAATATTAA
*
132894 AAAATTAATAT-T-TAAT-TTAT-TTAA
1 AAAATTAATATCTATAATATAATATTAA
132918 AAAATTAATAT
1 AAAATTAATAT
132929 TAAAATTAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.03
24 30 0.38
25 8 0.10
26 9 0.11
27 9 0.11
28 21 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAATTAATATCTATAATATAATATTAA
Found at i:132886 original size:51 final size:52
Alignment explanation
Indices: 132814--132928 Score: 214
Period size: 52 Copynumber: 2.2 Consensus size: 52
132804 TATATGATAT
132814 AAAATTAAATATCTATAATATAATATT-AAAAATTAATATTTAATTTATTTAA
1 AAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
132866 AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
1 AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
132918 AAAATTAATAT
1 AAAATTAATAT
132929 TAAAATTAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 20 0.32
52 42 0.68
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (52 bp):
AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
Found at i:132963 original size:12 final size:12
Alignment explanation
Indices: 132918--132968 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
132908 ATTTATTTAA
132918 AAAATT-AATATT
1 AAAATTAAATA-T
132930 AAAATTAAA-AT
1 AAAATTAAATAT
*
132941 CAAA-TATAATAT
1 AAAATTA-AATAT
132953 AAAATTAAATAT
1 AAAATTAAATAT
132965 AAAA
1 AAAA
132969 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:140899 original size:12 final size:12
Alignment explanation
Indices: 140882--140908 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
140872 TTCTTGTTAC
140882 TTTGATTTTTAT
1 TTTGATTTTTAT
140894 TTTGATTTTTAT
1 TTTGATTTTTAT
140906 TTT
1 TTT
140909 ATTCGAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTGATTTTTAT
Found at i:145498 original size:54 final size:54
Alignment explanation
Indices: 145406--145763 Score: 533
Period size: 54 Copynumber: 6.6 Consensus size: 54
145396 CTATGTGTAC
* * * *
145406 TATAAGCACTAAGAGTGTAACCCACGAAATTCAACATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
145460 TATAGGCACTAAGTGTGCAACCCAC-ATAATTCATCATATGTTGATGAACAATCT
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
145514 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
** *
145568 TATAGTAACTAAGTGTGCAACCCAC-AGAATTCATCATATATTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
* *
145622 TATAAGCACTAAGTGTGCAACCCAC-ATAATTTATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
* * *
145676 TATAGGAACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
*
145730 TATAGGCACTAAGTGTGTAACCCACGAAATTCAT
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCAT
145764 AATGAGCTTA
Statistics
Matches: 276, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 272 0.99
55 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
Found at i:151060 original size:20 final size:20
Alignment explanation
Indices: 151035--151123 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
151025 ATTAAGGCAA
151035 TATCGATACTCTAGGATGAG
1 TATCGATACTCTAGGATGAG
151055 TATCGATACTCTAGGATGAG
1 TATCGATACTCTAGGATGAG
* *
151075 TATCGATACTCTAGTGTAGGGG
1 TATCGATACTCTAG-G-ATGAG
151097 TATCGATA--CTA-GACTGAG
1 TATCGATACTCTAGGA-TGAG
151115 TATCGATAC
1 TATCGATAC
151124 CAAATTGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
17 1 0.02
18 11 0.18
20 37 0.61
21 1 0.02
22 11 0.18
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (20 bp):
TATCGATACTCTAGGATGAG
Found at i:153231 original size:50 final size:52
Alignment explanation
Indices: 153172--153479 Score: 149
Period size: 60 Copynumber: 5.4 Consensus size: 52
153162 CTCTAAAATA
153172 AAGTTAGATGAAAAGTAAAATAACAGTGCA-TTTGGTAGAAA-CACTAATGC
1 AAGTTAGATGAAAAGTAAAATAACAGTGCATTTTGGTAGAAAGCACTAATGC
* *
153222 AAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGTCACTAATGC
1 AAGTTAGATGAAAAG-TAAA---ATAACAGTGCATTTTGGTAGAAA---G-CACTAATGC
* ** * *
153282 AAGTTAGATGAAAAGTTAAATGCCTAATGGTGCA-TTT-GCAAAAAGGTGCAACTAATGC
1 AAGTTAGATGAAAAG-TAAA---ATAACAGTGCATTTTGGTAGAAA---GC-ACTAATGC
* * * * *
153340 AAGTTAGATGAAAAGTTAAATGCCTAACGGTGTA-TTTGGAATAAATGTGGCACTAATGC
1 AAGTTAGATGAAAAG-TAAA---ATAACAGTGCATTTTGGTAGAAA----GCACTAATGC
* * *
153399 AAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGCCACTAAAGC
1 AAGTTAGATGAAAAG-TAAA---ATAACAGTGCATTTTGGTAGAAA---G-CACTAATGC
*
153459 AAGTTAGATGAAAAGTTAAAT
1 AAGTTAGATGAAAAGTAAAAT
153480 GCATAATGGT
Statistics
Matches: 224, Mismatches: 19, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
50 15 0.07
51 4 0.02
54 9 0.04
55 11 0.05
56 1 0.00
57 1 0.00
58 52 0.23
59 54 0.24
60 77 0.34
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.27
Consensus pattern (52 bp):
AAGTTAGATGAAAAGTAAAATAACAGTGCATTTTGGTAGAAAGCACTAATGC
Found at i:153284 original size:60 final size:60
Alignment explanation
Indices: 153213--153534 Score: 443
Period size: 60 Copynumber: 5.4 Consensus size: 60
153203 TTGGTAGAAA
*
153213 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGT
1 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGC
* * *
153273 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAATGGTGCA-TTT-GCAAAAAGGTGC
1 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGC
* * * * * *
153331 AACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGTA-TTTGGAATAAATGTGG
1 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGC
153390 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGC
1 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGC
* * * * *
153450 CACTAAAGCAAGTTAGATGAAAAGTTAAATGCATAATGGTTCATTTTGGCAGAGAAAGGTGC
1 CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGG--TAGAAAGGTGC
* * *
153512 CACAAACGCAAGTTAAATGAAAA
1 CACTAATGCAAGTTAGATGAAAA
153535 ATAGTGGATT
Statistics
Matches: 233, Mismatches: 25, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
58 52 0.22
59 52 0.22
60 99 0.42
62 30 0.13
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (60 bp):
CACTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGTAGAAAGGTGC
Found at i:158354 original size:17 final size:17
Alignment explanation
Indices: 158296--158348 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
158286 TGAATAAAGT
158296 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
158313 TAGTTCATTCATGAAAC
1 TAGTTCATTAATTAAAC
*
158330 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
158347 TA
1 TA
158349 ACTCATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:162105 original size:59 final size:60
Alignment explanation
Indices: 161970--162451 Score: 655
Period size: 59 Copynumber: 8.2 Consensus size: 60
161960 TAAATAAAAT
* *
161970 TTAGATGAAAAGTTAAATGCCTAATGGTGCATTTTGGCATAAAGGTGCCACTAATGCAAG
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
* *
162030 TTAGATGAAAAGTTAAATG-CTAACGATGCATTTTGGCA-TAAGGTGCCACTAATGCAAG
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
* * *
162088 TTAGATGAAAAGTTTAAATGCCTAAC-GTGTATTTTGGTAGAAAGGTGTCACTAATGCAAG
1 TTAGATGAAAAG-TTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
* *
162148 TTAGATG-AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTACCACTAAAGC-AG
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
* * * *
162206 -TAGATG-AAAGTTAAATGCCTAACGGTGTATTTTGGCAGAAAGGTGTCACAAATGGAA-
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
* * * *
162263 TTAGCTGAAACGTTAAATGCCTAACGGTGTATTTTGGCAGAAACGTGCCACT-ATGCAAG
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
* * *
162322 TTAGATGAAAAGTTAAATGCCTAA-GGTGCATATTTGGAAG-AAGGTGCCATTAATCCAAG
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCAT-TTTGGCAGAAAGGTGCCACTAATGCAAG
* *
162381 TTAGATGAAAAGTTAAATGCATAAC-GTGCATTTCTGGTAGAAAGGTGCCACTAATGCAAG
1 TTAGATGAAAAGTTAAATGCCTAACGGTGCATTT-TGGCAGAAAGGTGCCACTAATGCAAG
162441 TTAGATGAAAA
1 TTAGATGAAAA
162452 CAATGCATTT
Statistics
Matches: 373, Mismatches: 36, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
57 49 0.13
58 74 0.20
59 173 0.46
60 77 0.21
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (60 bp):
TTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAG
Found at i:163559 original size:33 final size:34
Alignment explanation
Indices: 163529--163595 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
163519 TGACCCCATC
163529 TTTCTTCTT-ACAATAAGACTCGTGCTCCCCAAA
1 TTTCTTCTTAACAATAAGACTCGTGCTCCCCAAA
163562 TTTCTTCTTAACAATAAGACTCGTGCTCCCCAAA
1 TTTCTTCTTAACAATAAGACTCGTGCTCCCCAAA
163596 GAGAGATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 9 0.27
34 24 0.73
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (34 bp):
TTTCTTCTTAACAATAAGACTCGTGCTCCCCAAA
Found at i:165585 original size:21 final size:22
Alignment explanation
Indices: 165545--165585 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
165535 CGTAGGAACG
*
165545 ACTAAATCTAGACACTCTAACC
1 ACTAAATCTAGACACCCTAACC
*
165567 ACTAAATGTA-ACACCCTAA
1 ACTAAATCTAGACACCCTAA
165586 TCCTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.29, G:0.05, T:0.22
Consensus pattern (22 bp):
ACTAAATCTAGACACCCTAACC
Found at i:166053 original size:94 final size:91
Alignment explanation
Indices: 165895--166079 Score: 343
Period size: 94 Copynumber: 2.0 Consensus size: 91
165885 TGGAAATCTC
165895 CTGATGATAACTCCCATGATCTGCCTCTATGAGCTGTGCTGGAAAAATATTCCGAACGCTGAGCT
1 CTGATGATAACTCCCATGATCTGCCTCTATGAGCTGTGCTGGAAAAATATTCCGAACGCTGAGCT
165960 TACGAGCTCAGTTTCTCACTAATTAT
66 TACGAGCTCAGTTTCTCACTAATTAT
165986 CTGATGATAACTCCCCATGATCTGCCTCTATGAGCCTGTGCATGGAAAAATATTCCGAACGCTGA
1 CTGATGATAACT-CCCATGATCTGCCTCTATGAG-CTGTGC-TGGAAAAATATTCCGAACGCTGA
166051 GCTTACGAGCTCAGTTTCTCACTAATTAT
63 GCTTACGAGCTCAGTTTCTCACTAATTAT
166080 TGTATTATAT
Statistics
Matches: 91, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
91 12 0.13
92 21 0.23
93 6 0.07
94 52 0.57
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (91 bp):
CTGATGATAACTCCCATGATCTGCCTCTATGAGCTGTGCTGGAAAAATATTCCGAACGCTGAGCT
TACGAGCTCAGTTTCTCACTAATTAT
Found at i:167144 original size:19 final size:19
Alignment explanation
Indices: 167120--167159 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
167110 ATTGAGGGCT
167120 CAAATGAAAGCTCTAAAGA
1 CAAATGAAAGCTCTAAAGA
167139 CAAATGAAAGCTCTAAAGA
1 CAAATGAAAGCTCTAAAGA
167158 CA
1 CA
167160 CTGAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (19 bp):
CAAATGAAAGCTCTAAAGA
Found at i:174206 original size:59 final size:59
Alignment explanation
Indices: 174111--174227 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
174101 AATAGATGGA
* * *
174111 TAAGTGTCCTATCAAACCCTCCTAGTTGCAACGAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCATATCAAACCCTCCTAGTCGCAACGAAAAGGCAAACTCAATAATATGGCTC
* * *
174170 TAAGTTTCATATCGAACCCTCCTAGTCGCAATGAAAAGGCAAACTCAATAATATGGCT
1 TAAGTGTCATATCAAACCCTCCTAGTCGCAACGAAAAGGCAAACTCAATAATATGGCT
174228 ATAACCAACC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (59 bp):
TAAGTGTCATATCAAACCCTCCTAGTCGCAACGAAAAGGCAAACTCAATAATATGGCTC
Found at i:175591 original size:22 final size:22
Alignment explanation
Indices: 175547--175592 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
175537 ATTTTTCTAC
*
175547 TTCCCTCCAAATAAAATTTATA
1 TTCCCTCCAAATAAAATTAATA
*
175569 TTCCCT-CTAATAAAATTGAATA
1 TTCCCTCCAAATAAAATT-AATA
175591 TT
1 TT
175593 TCTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (22 bp):
TTCCCTCCAAATAAAATTAATA
Done.