Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008549.1 Hibiscus syriacus cultivar Beakdansim tig00111441_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: 316982
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:47 original size:33 final size:33
Alignment explanation
Indices: 1--161 Score: 150
Period size: 33 Copynumber: 4.7 Consensus size: 33
1 TCGC-ATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
34 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
66 T-GAAAAT-CGCAACGATAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
105 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
138 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
162 TTGCGATTCT
Statistics
Matches: 104, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 58 0.56
34 5 0.05
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:56 original size:19 final size:19
Alignment explanation
Indices: 1--167 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
1 TCGC-ATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
20 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
34 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
53 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
72 TCGCAA--CG--AT-AGAA
1 TCGCAATGCGAAATGAAAA
86 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
105 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
124 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
138 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
157 TCGCATTGCGA
1 TCGCAATGCGA
168 TTCTCCCATT
Statistics
Matches: 124, Mismatches: 8, Indels: 32
0.76 0.05 0.20
Matches are distributed among these distances:
14 29 0.23
15 4 0.03
16 6 0.05
17 5 0.04
18 5 0.04
19 74 0.60
20 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:79 original size:52 final size:52
Alignment explanation
Indices: 1--167 Score: 291
Period size: 52 Copynumber: 3.2 Consensus size: 52
1 TCGC-ATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
53 TCGCAATGCGAAATGAAAATCGCAACGATAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
105 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
157 TCGCATTGCGA
1 TCGCAATGCGA
168 TTCTCCCATT
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
52 106 0.96
53 4 0.04
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:270 original size:52 final size:53
Alignment explanation
Indices: 157--273 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
147 GAAATTAAAA
157 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
210 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
262 TCGCATTGCGAT
1 TCGCATTGCGAT
274 AGTCATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:281 original size:19 final size:19
Alignment explanation
Indices: 174--273 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
164 GCGATTCTCC
174 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
194 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
213 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
229 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
246 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
265 CATTGCGAT
1 CATTGCGAT
274 AGTCATTTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:402 original size:14 final size:14
Alignment explanation
Indices: 373--412 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
363 TTCGCATCAA
373 TTACACAATCAACTT
1 TTACA-AATCAACTT
*
388 TTACAAATCATCTT
1 TTACAAATCAACTT
402 TTACAAATCAA
1 TTACAAATCAA
413 TTAAACAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TTACAAATCAACTT
Found at i:2359 original size:19 final size:18
Alignment explanation
Indices: 2319--2438 Score: 95
Period size: 19 Copynumber: 6.6 Consensus size: 18
2309 TAGTTTACTT
*
2319 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
2339 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
*
2358 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
*
2377 TCGCAA--CG--ACAGAA
1 TCGCAACGCGAAACAAAA
* **
2391 TCGCAATGCGAAATGAAA
1 TCGCAACGCGAAACAAAA
*
2409 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
*
2428 TCGCAATGCGA
1 TCGCAACGCGA
2439 TTTTGGTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
14 9 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 15 0.18
19 40 0.49
20 12 0.15
21 1 0.01
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:2456 original size:19 final size:18
Alignment explanation
Indices: 2434--2545 Score: 105
Period size: 19 Copynumber: 6.5 Consensus size: 18
2424 AAAATCGCAA
2434 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
2453 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
2467 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
2486 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
* *
2500 TGCGCTTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
2519 TGCGATTTTGTTTCGCGT
1 TGCGATTTTGTTTCGCGT
2537 TGCGATTTT
1 TGCGATTTT
2546 AAGTTTTCGT
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.28
15 1 0.01
16 2 0.03
17 2 0.03
18 19 0.25
19 30 0.40
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:2476 original size:33 final size:32
Alignment explanation
Indices: 2434--2526 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
2424 AAAATCGCAA
2434 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGAT-TTGTCGT
2467 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
* **
2500 TGCGCTTTTCATTTCGCGTTGCGATTT
1 TGCGATTTTGGTTTCGCGTTGCGATTT
2527 TGTTTCGCGT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.46
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTGTCGT
Found at i:2923 original size:92 final size:93
Alignment explanation
Indices: 2606--3076 Score: 869
Period size: 93 Copynumber: 5.1 Consensus size: 93
2596 TTGAATGGAT
2606 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2671 AGTTTAGCAGAATTGGCAGCAACAGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2699 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2764 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2792 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2857 A-TTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2884 AAATTTACTTTCAAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACA
1 AAATTTACTTTC-AACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACA
2948 CAGTTTAGCAGAATTGGCAGCAACCGAAC
65 CAGTTTAGCAGAATTGGCAGCAACCGAAC
2977 -AATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3040 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3068 AAATTTACT
1 AAATTTACT
3077 AAGCAATCTA
Statistics
Matches: 371, Mismatches: 4, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
91 79 0.21
92 105 0.28
93 187 0.50
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2933 original size:185 final size:186
Alignment explanation
Indices: 2606--3076 Score: 869
Period size: 185 Copynumber: 2.5 Consensus size: 186
2596 TTGAATGGAT
2606 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2671 AGTTTAGCAGAATTGGCAGCAACAGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
2736 TACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
2792 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2857 A-TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAACC-AAAGACAAAACAAAGACAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTC-AACCAAAAGACAAAACAAAGACAA
2920 ATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 ATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2977 -AATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3040 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
3077 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
183 48 0.17
184 49 0.18
185 112 0.40
186 69 0.25
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4792 original size:19 final size:18
Alignment explanation
Indices: 4768--4864 Score: 93
Period size: 14 Copynumber: 5.7 Consensus size: 18
4758 TCGCAACGAG
4768 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
4786 CAATCGCAA--CGAGA-G-
1 -AATCGCAACGCGAGATGA
*
4801 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
4820 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
*
4834 AATCGCAACGCGAAATGA
1 AATCGCAACGCGAGATGA
*
4852 AATCGCAATGCGA
1 AATCGCAACGCGA
4865 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
14 16 0.25
16 10 0.15
17 11 0.17
18 12 0.18
19 16 0.25
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:4806 original size:14 final size:14
Alignment explanation
Indices: 4756--4843 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
4746 TTGAAATGAA
4756 AATCGCAAC--GAG
1 AATCGCAACGAGAG
4768 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
4785 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
4801 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4820 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4834 AATCGCAACG
1 AATCGCAACG
4844 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
12 8 0.13
14 21 0.34
15 1 0.02
16 5 0.08
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4807 original size:33 final size:33
Alignment explanation
Indices: 4748--4859 Score: 185
Period size: 33 Copynumber: 3.5 Consensus size: 33
4738 TCTTTTGGTT
4748 GAAATGAAAATCGCAAC--GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
4779 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4812 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4845 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
4860 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
31 15 0.20
32 9 0.12
33 51 0.68
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4895 original size:14 final size:14
Alignment explanation
Indices: 4876--4932 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4866 TTTGGTTTCG
4876 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4890 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4909 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4923 CGTTGCGATT
1 CGTTGCGATT
4933 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:4908 original size:33 final size:33
Alignment explanation
Indices: 4860--4940 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
4850 GAAATCGCAA
**
4860 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4893 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4926 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
4941 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4943 original size:21 final size:21
Alignment explanation
Indices: 4917--4992 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
4907 CGCGTTGCGA
4917 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
4938 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
4958 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
4979 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
4993 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:4973 original size:41 final size:41
Alignment explanation
Indices: 4916--4993 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
4906 TCGCGTTGCG
*
4916 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
4957 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
4994 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:5108 original size:30 final size:32
Alignment explanation
Indices: 5072--5139 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 32
5062 AATACTAACT
*
5072 TGAAAATCGGAACG-AGAATAGTAAC-CGAAA
1 TGAAAATCGCAACGAAGAATAGTAACGCGAAA
*
5102 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGA-AGAATAGTAACGCGAAA
5135 TGAAA
1 TGAAA
5140 TCTAAGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 13 0.39
32 10 0.30
33 10 0.30
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.13
Consensus pattern (32 bp):
TGAAAATCGCAACGAAGAATAGTAACGCGAAA
Found at i:5371 original size:21 final size:22
Alignment explanation
Indices: 5320--5373 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
5310 TGGTTGTGAG
**
5320 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
5342 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
5363 GGATTTCTTCG
1 GGATTTCTTCG
5374 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:5544 original size:20 final size:20
Alignment explanation
Indices: 5519--5692 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
5509 CTTTAAATAT
5519 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5539 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
5561 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5580 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
5600 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
5620 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5640 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5660 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
5680 CGCGTTGCGATTT
1 CGCGTTGCGATTT
5693 TGGAAAATCA
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:5684 original size:60 final size:60
Alignment explanation
Indices: 5521--5692 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
5511 TTAAATATCG
** *
5521 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
5582 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
5642 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
5693 TGGAAAATCA
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:9802 original size:2 final size:2
Alignment explanation
Indices: 9795--9841 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
9785 TAAATTAATT
* *
9795 TA TA TA TA TA TA TA TA CA TA TA TA TA TA AA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9836 TA TA TA
1 TA TA TA
9842 AACATAGACC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:12430 original size:105 final size:108
Alignment explanation
Indices: 12198--12442 Score: 282
Period size: 105 Copynumber: 2.3 Consensus size: 108
12188 AGCCAAGGTT
* *
12198 GAACAAATTCTTCTCATTATGAACTCCTTCTCCCTTATTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACT-CTTCTCCCTTA-TGGACGAGTTCTTCTCATTATGAACTC
* * *
12263 TCAACTGGAAATCTTGAACCAAATCCTTTTGCGGTGGACTTAGAAG
64 T-AACTGGAAATCTTGAACCAAATCCATCTGCGGTGAACTTAGAAG
* *
12309 GAACATGTTTTTCTCATTATGAACT-TTCTCCCTTA-GGACGAGTTCTTCTCATTATGAACTCT-
1 GAACAAGTTCTTCTCATTATGAACTCTTCTCCCTTATGGACGAGTTCTTCTCATTATGAACTCTA
* * *** ** * *
12371 TCTGGAAATGTTGGTTCACCTCCATCTGTGGTGAA-TTTGAAAG
66 ACTGGAAATCTTGAACCAAATCCATCTGCGGTGAACTTAG-AAG
12414 GAACAAGTTCTTCTCATTATGAACTCTTC
1 GAACAAGTTCTTCTCATTATGAACTCTTC
12443 ATTGGAAATG
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
104 3 0.03
105 50 0.44
106 3 0.03
107 26 0.23
109 10 0.09
111 22 0.19
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (108 bp):
GAACAAGTTCTTCTCATTATGAACTCTTCTCCCTTATGGACGAGTTCTTCTCATTATGAACTCTA
ACTGGAAATCTTGAACCAAATCCATCTGCGGTGAACTTAGAAG
Found at i:13702 original size:8 final size:8
Alignment explanation
Indices: 13691--13778 Score: 62
Period size: 8 Copynumber: 11.1 Consensus size: 8
13681 CCTTTTTCTC
13691 TTTTCATT
1 TTTTCATT
13699 TTTTCA--
1 TTTTCATT
13705 -TTTC-TT
1 TTTTCATT
13711 TTTTCA-T
1 TTTTCATT
13718 TTTTCATTT
1 TTTTCA-TT
13727 TTTTCATTTT
1 TTTTCA--TT
13737 TTTTCATT
1 TTTTCATT
**
13745 TTTTTTTCT
1 TTTTCAT-T
13754 TTTTCATT
1 TTTTCATT
*
13762 TTTTTATCT
1 TTTTCAT-T
13771 TTTT-ATT
1 TTTTCATT
13778 T
1 T
13779 GTTCCCTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
5 4 0.06
7 13 0.20
8 22 0.33
9 18 0.27
10 9 0.14
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCATT
Found at i:13713 original size:27 final size:27
Alignment explanation
Indices: 13683--13794 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 27
13673 CAAACCCTCC
13683 TTTTTC-TCTTTTCATTT-TTTCATTTCT
1 TTTTTCAT-TTTTCATTTTTTTCATTT-T
13710 TTTTTCATTTTTCATTTTTTTCA-TTT
1 TTTTTCATTTTTCATTTTTTTCATTTT
**
13736 TTTTTCATTTTTTTTTCTTTTTCATTTT
1 TTTTTCATTTTTCATT-TTTTTCATTTT
* * * *
13764 TTTATC-TTTTT-ATTTGTTCCCTTTT
1 TTTTTCATTTTTCATTTTTTTCATTTT
13789 TTTTTC
1 TTTTTC
13795 TTCAAGCATA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
25 13 0.18
26 17 0.23
27 29 0.40
28 14 0.19
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (27 bp):
TTTTTCATTTTTCATTTTTTTCATTTT
Found at i:13720 original size:26 final size:26
Alignment explanation
Indices: 13682--13746 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
13672 TCAAACCCTC
13682 CTTTTTCTC-TTTTCATTT-TTTCATTT
1 CTTTTT-TCATTTTCATTTTTTTCA-TT
13708 CTTTTTTCATTTTTCATTTTTTTCATT
1 CTTTTTTCA-TTTTCATTTTTTTCATT
13735 -TTTTTTCATTTT
1 CTTTTTTCATTTT
13747 TTTTTCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
25 6 0.17
26 14 0.39
27 11 0.31
28 5 0.14
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.75
Consensus pattern (26 bp):
CTTTTTTCATTTTCATTTTTTTCATT
Found at i:13733 original size:36 final size:34
Alignment explanation
Indices: 13691--13778 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 34
13681 CCTTTTTCTC
13691 TTTTCATTTTTTCATTTCTTTTTTCATTTTTCATTT
1 TTTTCATTTTTTCATTT-TTTTTTC-TTTTTCATTT
13727 TTTTCATTTTTTTTCATTTTTTTTTCTTTTTCATTT
1 TTTTCA--TTTTTTCATTTTTTTTTCTTTTTCATTT
13763 TTTT-ATCTTTTT-ATTT
1 TTTTCAT-TTTTTCATTT
13779 GTTCCCTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
33 5 0.10
34 5 0.10
35 1 0.02
36 20 0.41
37 7 0.14
38 11 0.22
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTCATTTTTTCATTTTTTTTTCTTTTTCATTT
Found at i:25321 original size:2 final size:2
Alignment explanation
Indices: 25314--25363 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
25304 TAAATTAATT
* *
25314 TA TA TA TA TA TA TA TA TA CA TA TA TA TA -A TA AA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
25356 TA TA TA TA
1 TA TA TA TA
25364 AACAACATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:30315 original size:59 final size:60
Alignment explanation
Indices: 30223--30427 Score: 231
Period size: 59 Copynumber: 3.5 Consensus size: 60
30213 AGGAAGATTT
* * *
30223 AAAATTTTGAGGACTAATTTAGAATG-GAGTCATAGTTTGAGGGTGAAATTAGAATGTTC
1 AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTGAGGATGAAATTAGAATGTTC
* * * * *
30282 AAAAG-TTATGTACTAATTTAGAATGAGAGTCATAGATTGAGAATGAAATTGGAATGTTC
1 AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTGAGGATGAAATTAGAATGTTC
* * *
30341 AAAAGTTTAAGGACTAATTTAGAATGAGTA-T-ATAGTTTAAGGATGAAATTAGAATATTA
1 AAAAGTTTAAGGACTAATTTAGAATGAG-AGTCATAGTTTGAGGATGAAATTAGAATGTTC
** *
30400 AAAAAATT-AGAGACCAATTTAGAATGAG
1 AAAAGTTTAAG-GACTAATTTAGAATGAG
30428 GATAATAATT
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
58 19 0.15
59 82 0.67
60 21 0.17
61 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.32
Consensus pattern (60 bp):
AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTGAGGATGAAATTAGAATGTTC
Found at i:34438 original size:3 final size:3
Alignment explanation
Indices: 34418--34476 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
34408 TTTTTCAGTT
* * * *
34418 TTA TTT TTA TTT TTA TTA TTA TTA TTA TAAA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
34464 TATA TTA TTA TTA
1 T-TA TTA TTA TTA
34477 AATAAATATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 41 0.89
4 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34457 original size:19 final size:19
Alignment explanation
Indices: 34430--34476 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
34420 ATTTTTATTT
34430 TTATTATTATTATTATAAA
1 TTATTATTATTATTATAAA
* *
34449 TTTTTATTATTATTATATA
1 TTATTATTATTATTATAAA
34468 TTATTATTA
1 TTATTATTA
34477 AATAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTATTATTATAAA
Found at i:38925 original size:42 final size:41
Alignment explanation
Indices: 38849--38949 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 41
38839 AGGTCTTATG
* * *
38849 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * *
38890 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
38932 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
38950 CAAATCGTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:39098 original size:214 final size:215
Alignment explanation
Indices: 38176--39280 Score: 1849
Period size: 215 Copynumber: 5.1 Consensus size: 215
38166 ATCCTGGTGA
* * * *
38176 AAAACATCCTGCCCAAAAGGTCTTATGGATGACCCGAAGGACTTATCATCCTGCTCTAAAGGCTT
1 AAAACATCCTACCC-GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTT
* * * * * *
38241 ACGGATAACCCGAAGGATTTAAGCATCATGCTGGAAAGACTTACTAATGTCCTGAAGGACTTACA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACA
*
38306 AATCATGAAATTTTGAAAATCGCATTCTTCG-TTTCAAAAATTCCATCTTCCTTAAAACATCATT
130 AATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTT-CTTAAAACATCATT
38370 TTTTCATTTTCAAATTCATTTG
194 TTTTCATTTTCAAATTCATTTG
* * *
38392 AAAACATCCTACCCGAAAGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTAAAGGTTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
38457 CAGATAACCCGAAGGATTTAAGCATCATGCTCGAAGGACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
*
38522 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
38587 TTCATTTTCAAATTCATTTG
196 TTCATTTTCAAATTCATTTG
*
38607 AAAACATCCTACCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * *
38672 CAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGGAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
*
38737 ATTGTGAAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
131 ATCGTG-AAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTT
38802 TTTCATTTTCAAATTCATTTG
195 TTTCATTTTCAAATTCATTTG
* *
38823 AAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
38888 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
* *
38953 ATCGTGAAATTTTGAAAATCGCATTATTTGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
39017 TTCATTTTTAAATTCATTTG
196 TTCATTTTCAAATTCATTTG
*
39037 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
39102 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
* * *
39167 ATCGTGAAATTTTGAAAATCGCATTATTTGTTTTCAAAAACTCCATCTTCTTAAAACATCA-TTT
131 ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
*
39231 TTCATTTTTAAATTCATTTG
196 TTCATTTTCAAATTCATTTG
39251 AAAACATCCTA-CCGAAGGTCTTATGGATGG
1 AAAACATCCTACCCGAAGGTCTTATGGATGG
39281 TTTGCTTCAC
Statistics
Matches: 849, Mismatches: 38, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
213 19 0.02
214 245 0.29
215 347 0.41
216 238 0.28
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (215 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAA
ATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
TTCATTTTCAAATTCATTTG
Found at i:39139 original size:42 final size:41
Alignment explanation
Indices: 39063--39163 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 41
39053 AGGTCTTATG
* * *
39063 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGACTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * *
39104 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
39146 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
39164 CAAATCGTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:41430 original size:123 final size:125
Alignment explanation
Indices: 41199--41422 Score: 319
Period size: 123 Copynumber: 1.8 Consensus size: 125
41189 GATGGGTTAT
* * *
41199 TGACAAAGTCACAAGGAAATGTTACAAGTTCTCATTCTTCATCAATTCTGATTTCTTGGACCATA
1 TGACAAAGTCACAAGGAAATATTACAAGTTCTCATTCTTCATCAACTCTGATCTCTTGGACCATA
* *
41264 TGCTTCAACATCGCGAAATGCTTCATGTTCTGGCATCACTTATTCTTCCTGACGGGTTGC
66 TGCTTCAACATCGCGAAATGCTTCATATTCTGGAATCACTTATTCTTCCTGACGGGTTGC
* * *
41324 TGACAACGTCACAAGGAAATATTACAA-TT-TC-TTCCTTCATCCACTCTGATCTCTTGGACCGT
1 TGACAAAGTCACAAGGAAATATTACAAGTTCTCATT-CTTCATCAACTCTGATCTCTTGGACCAT
* * *
41386 CTGCTTCAAGATTGCGAAATGCTTCATATTCTGGAAT
65 ATGCTTCAACATCGCGAAATGCTTCATATTCTGGAAT
41423 TGCTTATTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
122 2 0.02
123 58 0.67
124 2 0.02
125 25 0.29
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (125 bp):
TGACAAAGTCACAAGGAAATATTACAAGTTCTCATTCTTCATCAACTCTGATCTCTTGGACCATA
TGCTTCAACATCGCGAAATGCTTCATATTCTGGAATCACTTATTCTTCCTGACGGGTTGC
Found at i:43098 original size:23 final size:22
Alignment explanation
Indices: 43054--43098 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
43044 AATATAGGAT
*
43054 GATTAATTATCTTTTAGGATTA
1 GATTAATTATCTTTTAGAATTA
* *
43076 GATTTATTATTTTATTAGAATTA
1 GATTAATTATCTT-TTAGAATTA
43099 AGGTTGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.53
Consensus pattern (22 bp):
GATTAATTATCTTTTAGAATTA
Found at i:43973 original size:10 final size:10
Alignment explanation
Indices: 43960--43993 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
43950 AAAAAAATAA
43960 AAAAAAGGCC
1 AAAAAAGGCC
43970 AAAAAAAGGCC
1 -AAAAAAGGCC
43981 AAAAAA-GCC
1 AAAAAAGGCC
43990 AAAA
1 AAAA
43994 TTTCAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.30
10 6 0.26
11 10 0.43
ACGTcount: A:0.68, C:0.18, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAGGCC
Found at i:43973 original size:11 final size:11
Alignment explanation
Indices: 43959--43986 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43949 AAAAAAAATA
43959 AAAAAAAGGCC
1 AAAAAAAGGCC
43970 AAAAAAAGGCC
1 AAAAAAAGGCC
43981 AAAAAA
1 AAAAAA
43987 GCCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAGGCC
Found at i:44239 original size:13 final size:13
Alignment explanation
Indices: 44216--44247 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
44206 GATTGAAACT
44216 TCATATATTGGAGA
1 TCAT-TATTGGAGA
44230 TCATTATTGGAGA
1 TCATTATTGGAGA
44243 TCATT
1 TCATT
44248 CACACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (13 bp):
TCATTATTGGAGA
Found at i:50639 original size:55 final size:53
Alignment explanation
Indices: 50577--50715 Score: 192
Period size: 51 Copynumber: 2.6 Consensus size: 53
50567 CAACTTCTAA
* *
50577 CTTCATTCATCGGATGTCTTTCTTCATGGATCGGTCTTCAATCAGGTTCAAATTT
1 CTTCATTCATCGGATGTC-TTCTTCATGAATCAGTCTTCAATC-GGTTCAAATTT
* *
50632 CTTCATTCTTCGGATGTC--CTTCATGAATCATTCTTCAATCGGTTCAAATTT
1 CTTCATTCATCGGATGTCTTCTTCATGAATCAGTCTTCAATCGGTTCAAATTT
*
50683 CTTCATTCATCGGACGTCCTTCTTCATGAATCA
1 CTTCATTCATCGGATGT-CTTCTTCATGAATCA
50716 CTTGAATGTC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
51 26 0.35
52 20 0.27
54 12 0.16
55 17 0.23
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (53 bp):
CTTCATTCATCGGATGTCTTCTTCATGAATCAGTCTTCAATCGGTTCAAATTT
Found at i:51108 original size:15 final size:15
Alignment explanation
Indices: 51088--51117 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51078 CGAGGGAGTA
51088 GTCTCTCACTCCTAC
1 GTCTCTCACTCCTAC
51103 GTCTCTCACTCCTAC
1 GTCTCTCACTCCTAC
51118 TTAATTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.07, T:0.33
Consensus pattern (15 bp):
GTCTCTCACTCCTAC
Found at i:56149 original size:12 final size:13
Alignment explanation
Indices: 56092--56152 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
56082 AAATTATATA
*
56092 TTTTAATATATAT
1 TTTTAATATATTT
56105 TTTTAAT-TATTT
1 TTTTAATATATTT
* *
56117 TTATAAAAAATATTT
1 TT-T-TAATATATTT
*
56132 TATTAATAT-TTT
1 TTTTAATATATTT
56144 TTTTAATAT
1 TTTTAATAT
56153 CAAAGAAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
12 17 0.45
13 12 0.32
14 3 0.08
15 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATATATTT
Found at i:56736 original size:21 final size:21
Alignment explanation
Indices: 56710--56750 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56700 TTAGAAATTT
56710 AAAATTCATATAT-TTTATTAA
1 AAAATT-ATATATATTTATTAA
56731 AAAATTATATATATTTATTA
1 AAAATTATATATATTTATTA
56751 TTTTCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATTATATATATTTATTAA
Found at i:56780 original size:20 final size:21
Alignment explanation
Indices: 56746--56795 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
56736 TATATATATT
56746 TATTATTTTCATAAT-ATTTA
1 TATTATTTTCATAATGATTTA
*
56766 TATTATTTT-ATTAATGTTTTA
1 TATTATTTTCA-TAATGATTTA
*
56787 TTTTATTTT
1 TATTATTTT
56796 TCAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTATTTTCATAATGATTTA
Found at i:58383 original size:12 final size:13
Alignment explanation
Indices: 58366--58394 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
58356 ACATTCACAT
58366 ATTTACATTT-GC
1 ATTTACATTTAGC
58378 ATTTACATTTAGC
1 ATTTACATTTAGC
58391 ATTT
1 ATTT
58395 TTTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTACATTTAGC
Found at i:65082 original size:22 final size:22
Alignment explanation
Indices: 65056--65130 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
65046 ATCTACACTC
65056 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
65078 TTCAAAGATGAT--ATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
65098 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
65120 TTCAAAGATGA
1 TTCAAAGATGA
65131 AAGCTTTATG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.39
22 30 0.61
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:65905 original size:76 final size:76
Alignment explanation
Indices: 65806--66457 Score: 1137
Period size: 76 Copynumber: 8.6 Consensus size: 76
65796 CTATTTACCA
**
65806 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
65871 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
65882 CATATGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
65947 AGCCTTAGGGT
66 AGCCTTAGGGT
65958 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66023 AGCCTTAGGGT
66 AGCCTTAGGGT
** *
66034 CATCTGTAAGTCCTGTAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66099 AGCCTTAGGGT
66 AGCCTTAGGGT
66110 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66175 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
66186 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66251 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
66262 CATCTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66327 AGCCTTAGGGT
66 AGCCTTAGGGT
66338 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
66403 AACCTTAGGTT
66 AGCCTTAGGGT
* * *
66414 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
66458 TCATCTGTAA
Statistics
Matches: 551, Mismatches: 25, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
74 8 0.01
75 4 0.01
76 539 0.98
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:66513 original size:46 final size:46
Alignment explanation
Indices: 66391--66584 Score: 313
Period size: 45 Copynumber: 4.3 Consensus size: 46
66381 GGGAGCTTTT
* * *
66391 TGATGTTTTC-AAAACCTTAGGTTCATCTGTAAGTCCTTCAGTGCT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
66436 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
66481 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCATTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
66527 TGATGTTTTCAAAAACCTTC-GGTCATCTGTAAGACCATCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
66572 TGATGTTTTCAAA
1 TGATGTTTTCAAA
66585 CATTTCCATC
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 87 0.62
46 54 0.38
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (46 bp):
TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
Found at i:66551 original size:91 final size:91
Alignment explanation
Indices: 66391--66584 Score: 311
Period size: 91 Copynumber: 2.1 Consensus size: 91
66381 GGGAGCTTTT
* * *
66391 TGATGTTTTC-AAAACCTTAGGTTCATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTC
1 TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCATTCAGTGCATGATGTTTTCAAAACCTTC
* *
66455 GGGTCATCTGTAAGTCCTTCAGTGCA
66 GGGTCATCTGTAAGACCATCAGTGCA
*
66481 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCATTCAGTGCATGATGTTTTCAAAAACCTT
1 TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCATTCAGTGCATGATGTTTTC-AAAACCTT
66546 C-GGTCATCTGTAAGACCATCAGTGCA
65 CGGGTCATCTGTAAGACCATCAGTGCA
66572 TGATGTTTTCAAA
1 TGATGTTTTCAAA
66585 CATTTCCATC
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
90 10 0.10
91 77 0.80
92 9 0.09
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (91 bp):
TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCATTCAGTGCATGATGTTTTCAAAACCTTC
GGGTCATCTGTAAGACCATCAGTGCA
Found at i:66719 original size:3 final size:3
Alignment explanation
Indices: 66699--66749 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
66689 CAGTTTGTTT
* * *
66699 TTA TTT TTA TTT TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
66747 TTA
1 TTA
66750 AATAAATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67999 original size:12 final size:12
Alignment explanation
Indices: 67982--68006 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67972 TAATTAATAT
67982 AGGTTAAATCAC
1 AGGTTAAATCAC
67994 AGGTTAAATCAC
1 AGGTTAAATCAC
68006 A
1 A
68007 CTGTTAGCAC
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AGGTTAAATCAC
Found at i:69807 original size:11 final size:10
Alignment explanation
Indices: 69790--69831 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
69780 GAAATGCTTT
69790 TATTTTTTAA
1 TATTTTTTAA
*
69800 TAATTTTTAA
1 TATTTTTTAA
*
69810 T-TTTTATAA
1 TATTTTTTAA
69819 TATTTGTTTAA
1 TATTT-TTTAA
69830 TA
1 TA
69832 ACGTGTCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.27
10 13 0.50
11 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:69819 original size:19 final size:18
Alignment explanation
Indices: 69787--69830 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
69777 AAGGAAATGC
69787 TTTT-ATTTTTTAATAAT
1 TTTTAATTTTTTAATAAT
*
69804 TTTTAATTTTTATAATATT
1 TTTTAATTTTT-TAATAAT
69823 TGTTTAAT
1 T-TTTAAT
69831 AACGTGTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 6 0.26
19 7 0.30
20 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTAATTTTTTAATAAT
Found at i:70738 original size:4 final size:4
Alignment explanation
Indices: 70729--70754 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
70719 CTTTTTCCAC
70729 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
70755 TTTTGTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:71462 original size:20 final size:20
Alignment explanation
Indices: 71437--71476 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
71427 AGCAACAGAA
*
71437 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
71457 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
71477 AACTAATAGA
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:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:71519 original size:20 final size:21
Alignment explanation
Indices: 71490--71529 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
71480 TAATAGAATA
*
71490 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
71511 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
71530 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:71568 original size:20 final size:20
Alignment explanation
Indices: 71543--71581 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
71533 TAATAGAATA
*
71543 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
71563 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
71582 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:71572 original size:52 final size:52
Alignment explanation
Indices: 71433--71582 Score: 275
Period size: 53 Copynumber: 2.9 Consensus size: 52
71423 AATTAGCAAC
71433 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
71484 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
71537 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
71583 TTTAATTTAG
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 5 0.05
52 45 0.47
53 46 0.48
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:76178 original size:20 final size:20
Alignment explanation
Indices: 76153--76192 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
76143 AGCAACAGAA
*
76153 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
76173 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
76193 AACTAATAAA
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:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:76235 original size:20 final size:21
Alignment explanation
Indices: 76206--76245 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
76196 TAATAAAATA
*
76206 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
76227 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
76246 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:76284 original size:20 final size:20
Alignment explanation
Indices: 76259--76297 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
76249 TAATAGAATA
*
76259 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
76279 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
76298 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:76288 original size:52 final size:52
Alignment explanation
Indices: 76149--76298 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
76139 AATTAGCAAC
76149 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
76200 AAAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
76253 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
76299 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 4 0.04
52 45 0.48
53 45 0.48
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:77059 original size:45 final size:45
Alignment explanation
Indices: 76995--77088 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
76985 TTCTGTATCT
76995 TGGTTTTGCAGATCCAAACATAATGAAAAAGTTTCAAGTGGATCG
1 TGGTTTTGCAGATCCAAACATAATGAAAAAGTTTCAAGTGGATCG
77040 TGGTTTTGCAGATCCAAACATAATGAAAAAGTTTCAAGTGGATCG
1 TGGTTTTGCAGATCCAAACATAATGAAAAAGTTTCAAGTGGATCG
77085 TGGT
1 TGGT
77089 GCGATAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (45 bp):
TGGTTTTGCAGATCCAAACATAATGAAAAAGTTTCAAGTGGATCG
Found at i:80215 original size:9 final size:10
Alignment explanation
Indices: 80184--80216 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
80174 TTTGTTTCAC
80184 ATTGATCTTT
1 ATTGATCTTT
*
80194 GTTGATCTTT
1 ATTGATCTTT
80204 ATTGAT-TTT
1 ATTGATCTTT
80213 ATTG
1 ATTG
80217 GCGTTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (10 bp):
ATTGATCTTT
Found at i:84322 original size:22 final size:19
Alignment explanation
Indices: 84279--84328 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
84269 CATTAATCTC
84279 TAATGTTTCATTTTAAGGT
1 TAATGTTTCATTTTAAGGT
*
84298 TAATGATTTTATTTTGAAGTGT
1 TAATG-TTTCATTTT-AAG-GT
84320 TAATCGTTT
1 TAAT-GTTT
84329 GTTAGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 8 0.31
21 3 0.12
22 9 0.35
23 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (19 bp):
TAATGTTTCATTTTAAGGT
Found at i:84573 original size:28 final size:28
Alignment explanation
Indices: 84529--84595 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
84519 AACAAAGATT
*
84529 ACCAACCCTACAGCATAGAAAAATGATG
1 ACCAACCCTACAACATAGAAAAATGATG
*
84557 ACCAACCCTACAACATAGAAGAATGATG
1 ACCAACCCTACAACATAGAAAAATGATG
84585 ACCAACCCTAC
1 ACCAACCCTAC
84596 TTTGCCAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.45, C:0.30, G:0.12, T:0.13
Consensus pattern (28 bp):
ACCAACCCTACAACATAGAAAAATGATG
Found at i:95670 original size:2 final size:2
Alignment explanation
Indices: 95663--95698 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
95653 GCCAATTGAT
95663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95699 GCTTAAGCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97852 original size:44 final size:44
Alignment explanation
Indices: 97771--97872 Score: 145
Period size: 43 Copynumber: 2.3 Consensus size: 44
97761 AAATCCGACA
* * *
97771 GATGCATCGATGCATGACCATGTGCATCGATGCACATTC-AAGG
1 GATGCATCGATGCATCAACATGTGAATCGATGCACATTCAAAGG
97814 CG-TGCATCGATGCATCAACATGATGAATCGATGCACATTCAAAGG
1 -GATGCATCGATGCATCAACATG-TGAATCGATGCACATTCAAAGG
97859 GATGCATCGATGCA
1 GATGCATCGATGCA
97873 CTAAGCACAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
43 18 0.35
44 18 0.35
45 16 0.31
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (44 bp):
GATGCATCGATGCATCAACATGTGAATCGATGCACATTCAAAGG
Found at i:97862 original size:24 final size:24
Alignment explanation
Indices: 97793--97873 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
97783 CATGACCATG
97793 TGCATCGATGCACATTC-AAGGCG-
1 TGCATCGATGCACATTCAAAGG-GA
*
97816 TGCATCGATG--CA-TCAACA-TGA
1 TGCATCGATGCACATTCAA-AGGGA
*
97837 TGAATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTCAAAGGGA
97861 TGCATCGATGCAC
1 TGCATCGATGCAC
97874 TAAGCACAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
20 3 0.06
21 12 0.26
22 1 0.02
23 13 0.28
24 18 0.38
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAAGGGA
Found at i:101696 original size:22 final size:21
Alignment explanation
Indices: 101654--101693 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
101644 GAGTTTATTT
*
101654 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
101675 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
101694 ACAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:107324 original size:15 final size:16
Alignment explanation
Indices: 107286--107326 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
107276 TCAGAGCCTC
*
107286 TGAATCATTCAACATT
1 TGAATCATTCAACACT
107302 TGAATCATTCAACACT
1 TGAATCATTCAACACT
107318 T-AATCATTC
1 TGAATCATTC
107327 TGAAGTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:107849 original size:60 final size:60
Alignment explanation
Indices: 107735--107872 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
107725 ATGAGTGACC
* * *
107735 ATTTTATAACTTTTAATAATTTGAGAACTCAACAAAGTACCACGTTATAGTTGAGAAATT
1 ATTTTATAACTTTTAATAATTTGAGAACACAACAAAATACCACGTTATAATTGAGAAATT
* * * * *
107795 ATTTTATAACTTTTAGTAATTTGGGGACACAGA-AAAATACTAC-TCTATAATTGAGAGATT
1 ATTTTATAACTTTTAATAATTTGAGAACACA-ACAAAATACCACGT-TATAATTGAGAAATT
* *
107855 ATTTTGTAATTTTTAATA
1 ATTTTATAACTTTTAATA
107873 GTCAGGAGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 1 0.02
60 63 0.97
61 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAATTTGAGAACACAACAAAATACCACGTTATAATTGAGAAATT
Found at i:116207 original size:22 final size:23
Alignment explanation
Indices: 116163--116206 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
116153 AAATGGTAAA
*
116163 ATAAAATTAAATAGATACAAAAT
1 ATAAAATTAAATAAATACAAAAT
* *
116186 ATAAATTTAATTAAATACAAA
1 ATAAAATTAAATAAATACAAA
116207 TTTAAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
ATAAAATTAAATAAATACAAAAT
Found at i:117584 original size:20 final size:20
Alignment explanation
Indices: 117561--117695 Score: 191
Period size: 20 Copynumber: 6.7 Consensus size: 20
117551 TGCGAACACA
117561 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
117581 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
117601 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
117621 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
117641 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
117661 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
117682 TAAATCGCAACGCG
1 TAAATCGCAACGCG
117696 ATTTTTAAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
20 83 0.83
21 17 0.17
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:117663 original size:60 final size:61
Alignment explanation
Indices: 117541--117695 Score: 206
Period size: 60 Copynumber: 2.6 Consensus size: 61
117531 CGCGAATATG
* * *** *
117541 AAAATCGCAATGCG-AACACATAAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGT
1 AAAATCGCAATGCGTATC-CGTAAATCGCAACGCGTATCCGTAAACCGCAACGACAATACGT
* *
117602 -AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
1 AAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTAAACCGCAACGACAATACGT
*
117662 AAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAAATCGCAATGCGTATCCGTAAATCGCAACGCG
117696 ATTTTTAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
60 49 0.60
61 33 0.40
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (61 bp):
AAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTAAACCGCAACGACAATACGT
Found at i:118112 original size:33 final size:33
Alignment explanation
Indices: 118073--118143 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
118063 TTCACTTAGA
118073 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
118106 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
118139 TTTCA
1 TTTCA
118144 AGTTAGTATT
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:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:118249 original size:21 final size:21
Alignment explanation
Indices: 118223--118299 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
118213 TGCAGAAGAG
118223 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
118244 TCGCAACGTGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
*
118264 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
118286 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
118300 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.19
21 29 0.62
22 9 0.19
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:118321 original size:18 final size:19
Alignment explanation
Indices: 118298--118341 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
118288 GCAACGAGAG
*
118298 AATCGCAACGCGAAA-GAA
1 AATCGCAACGCGAAACCAA
118316 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
118335 AATCGCA
1 AATCGCA
118342 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.48, C:0.27, G:0.18, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:118359 original size:19 final size:19
Alignment explanation
Indices: 118337--118464 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
118327 GAAACCAAAA
*
118337 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
118356 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
118370 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
118389 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
118403 TCTCGTTACGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
118423 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
118443 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
118463 TC
1 TC
118465 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.22
16 6 0.07
17 6 0.07
19 22 0.26
20 19 0.22
21 13 0.15
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:118378 original size:14 final size:14
Alignment explanation
Indices: 118359--118415 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
118349 TTTCATTTCG
118359 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
118373 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
118392 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
118406 CGTTACGATT
1 CGTTGCGATT
118416 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:118384 original size:33 final size:33
Alignment explanation
Indices: 118342--118464 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
118332 CAAAATCGCA
118342 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
118375 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
118408 TTACGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
118449 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
118465 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 44 0.56
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 20 0.25
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:118426 original size:21 final size:21
Alignment explanation
Indices: 118400--118464 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
118390 CGCGTTGCGA
*
118400 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
118421 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
118441 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
118462 TTC
1 TTC
118465 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:119707 original size:50 final size:49
Alignment explanation
Indices: 119632--119730 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 49
119622 ACGGAGGAAG
119632 AGCTTGCCACTGATTGGTGGCAAGCTAGTCAGAGTTTTTTTGATGGCACA
1 AGCTTGCCACTGATTGGTGGCAAGCTAGTCAGAG-TTTTTTGATGGCACA
119682 AGCTTGCCACTGATTGGTGGCAAGCTAGTCAGAGTTTTTTGATGGCACA
1 AGCTTGCCACTGATTGGTGGCAAGCTAGTCAGAGTTTTTTGATGGCACA
119731 GATGATGAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 15 0.31
50 34 0.69
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (49 bp):
AGCTTGCCACTGATTGGTGGCAAGCTAGTCAGAGTTTTTTGATGGCACA
Found at i:120358 original size:92 final size:93
Alignment explanation
Indices: 120183--120403 Score: 419
Period size: 92 Copynumber: 2.4 Consensus size: 93
120173 TAGATTGCTT
*
120183 AGTAAA-TTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
120247 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
120275 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
120339 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
120367 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
120404 AATACCCTGA
Statistics
Matches: 127, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
92 78 0.61
93 49 0.39
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:120587 original size:19 final size:19
Alignment explanation
Indices: 120563--120621 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
120553 CAAACGACAG
120563 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
120582 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
120596 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
120615 AATCGCA
1 AATCGCA
120622 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.51
ACGTcount: A:0.47, C:0.31, G:0.15, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:120598 original size:14 final size:14
Alignment explanation
Indices: 120579--120605 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
120569 AACGCGAAAC
120579 CAAAATCGCAACGA
1 CAAAATCGCAACGA
120593 CAAAATCGCAACG
1 CAAAATCGCAACG
120606 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:120600 original size:33 final size:33
Alignment explanation
Indices: 120497--120621 Score: 169
Period size: 34 Copynumber: 3.7 Consensus size: 33
120487 TAGTTTACTT
* * *
120497 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
** *
120531 TCGCAACGCGAAATGAAAATCACAAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGC-AACGACAGAA
*
120565 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
120598 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
120622 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
33 40 0.49
34 41 0.51
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:120639 original size:19 final size:19
Alignment explanation
Indices: 120617--120789 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
120607 GAAACCAAAA
*
120617 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
120636 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
120650 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
120669 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
120685 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
120702 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
120721 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
120740 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
120759 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
120779 TCGTGTTGCGA
1 TCGCGTTGCGA
120790 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:120658 original size:14 final size:14
Alignment explanation
Indices: 120639--120695 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
120629 TTTCATTTCG
120639 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
120653 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
120670 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
120686 CGTTGCGATT
1 CGTTGCGATT
120696 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:120747 original size:38 final size:38
Alignment explanation
Indices: 120617--120789 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
120607 GAAACCAAAA
*
120617 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
120652 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
120685 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
120721 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
120759 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
120790 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:121247 original size:44 final size:44
Alignment explanation
Indices: 121184--121269 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
121174 GCCCGACTCG
* * *
121184 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
* * *
121228 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
121270 ACTGTCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.22
Consensus pattern (44 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
Found at i:122772 original size:14 final size:14
Alignment explanation
Indices: 122753--122788 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
122743 ATTGTTTAAT
122753 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
122767 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
122781 TGATTTGT
1 TGATTTGT
122789 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:122963 original size:20 final size:19
Alignment explanation
Indices: 122895--122973 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
122885 AAAAATGACT
122895 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
122914 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
122928 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
122947 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
122967 ATCGCAA
1 ATCGCAA
122974 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 20 0.38
20 16 0.31
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:123122 original size:53 final size:53
Alignment explanation
Indices: 122988--123257 Score: 403
Period size: 53 Copynumber: 5.1 Consensus size: 53
122978 AGAATCGCAA
122988 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
123041 T-CGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTATCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
123093 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
123146 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCT-CG--T
*
123204 TGCGATTTTCA--T-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
123251 TGCGATT
1 TGCGATT
123258 GTAATTTCCG
Statistics
Matches: 205, Mismatches: 5, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 2 0.01
51 3 0.01
52 61 0.30
53 108 0.53
54 3 0.01
55 3 0.01
56 3 0.01
58 12 0.06
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:123130 original size:105 final size:109
Alignment explanation
Indices: 122988--123257 Score: 418
Period size: 105 Copynumber: 2.6 Consensus size: 109
122978 AGAATCGCAA
122988 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTT-CGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
123052 TTCGCATTGCGATTTTCATTTCCGCATTGCGA-TTC-TAT-CG-T
66 TTCGCATTGCGATTTTCATTT-CGCATTGCGATTTCATATCCGAT
123093 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
123158 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
66 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATATCCG-AT
*
123204 TGCGATTTTCA--T-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATT
123258 GTAATTTCCG
Statistics
Matches: 156, Mismatches: 2, Indels: 14
0.91 0.01 0.08
Matches are distributed among these distances:
105 90 0.58
106 45 0.29
107 3 0.02
108 3 0.02
109 3 0.02
111 12 0.08
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (109 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATATCCGAT
Found at i:123225 original size:72 final size:72
Alignment explanation
Indices: 123010--123243 Score: 272
Period size: 72 Copynumber: 3.3 Consensus size: 72
123000 TTCGCATTGC
*
123010 GATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TT-CGATTTTCATTT-CGCATTGCGATTTT
1 GATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTT
*
123068 CAT-TTCCG
65 CATGTT-GG
* * ** * *
123076 CA-TTGCGATTCTATCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTC
1 GATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
*
123140 TC-TCGTTGC
64 TCAT-GTTGG
123149 GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1 GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
123214 ATGTTGG
66 ATGTTGG
123221 GATTTTCATTTCGCATTGCGATT
1 GATTTTCATTTCGCATTGCGATT
123244 CTCTCGTTGC
Statistics
Matches: 139, Mismatches: 16, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
65 3 0.02
66 11 0.08
67 1 0.01
68 3 0.02
69 4 0.03
71 2 0.01
72 91 0.65
73 19 0.14
74 5 0.04
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (72 bp):
GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
ATGTTGG
Found at i:125767 original size:24 final size:24
Alignment explanation
Indices: 125733--125779 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
125723 TCTGAACATC
125733 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
125757 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
125780 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:126499 original size:20 final size:20
Alignment explanation
Indices: 126471--126540 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
126461 AAATTTCAGT
*
126471 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
* *
126491 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCTC
126511 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
126531 GTTGCGATTT
1 GTTGCGATTT
126541 CGTTGTGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.43
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCTC
Found at i:126544 original size:31 final size:32
Alignment explanation
Indices: 126504--126569 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
126494 GCGATTTACG
* *
126504 GATTATCGTTGCGATTTACAGATTCTCGTTGC
1 GATTATCGTTGCGATTTACAGATACGCGTTGC
* *
126536 GATT-TCGTTGTGATTTACGGATACGCGTTGC
1 GATTATCGTTGCGATTTACAGATACGCGTTGC
126567 GAT
1 GAT
126570 ATACGGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (32 bp):
GATTATCGTTGCGATTTACAGATACGCGTTGC
Found at i:126565 original size:71 final size:70
Alignment explanation
Indices: 126471--126611 Score: 176
Period size: 71 Copynumber: 2.0 Consensus size: 70
126461 AAATTTCAGT
* * * * *
126471 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATCG-TTGCGATTTACAGATTCTCGTTG
1 GTTGTGATTTACAGATACGCGTTGCGATATACGGA-TA-CGATTGCGATTTACAGATACGCGTTG
126535 CGATTTC
64 CGATTTC
* * *
126542 GTTGTGATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGGTTTACGGATACGCGTTGC
1 GTTGTGATTTACAGATACGCGTTGCGATATACGGATACG-ATTGCGATTTACAGATACGCGTTGC
126607 GATTT
65 GATTT
126612 ATGTGTTCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
69 2 0.03
70 2 0.03
71 56 0.93
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (70 bp):
GTTGTGATTTACAGATACGCGTTGCGATATACGGATACGATTGCGATTTACAGATACGCGTTGCG
ATTTC
Found at i:126574 original size:20 final size:20
Alignment explanation
Indices: 126541--126690 Score: 124
Period size: 20 Copynumber: 7.5 Consensus size: 20
126531 GTTGCGATTT
*
126541 CGTTGTGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
126561 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* *
126581 CATTGCGGTTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
126601 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
126621 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
* *
126641 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
126661 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
126681 CGTTGCGATT
1 CGTTGCGATT
126691 CTGGAAAATC
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
20 104 0.99
21 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:126587 original size:51 final size:52
Alignment explanation
Indices: 126484--126587 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 52
126474 GTGATTTACA
* * * * *
126484 GATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGC
1 GATTCTCGTTGCGATTTACGGATTAGCGTTGCGATATACAGATACGCATTGC
* *
126536 GATT-TCGTTGTGATTTACGGA-TACGCGTTGCGATATACGGATACGCATTGC
1 GATTCTCGTTGCGATTTACGGATTA-GCGTTGCGATATACAGATACGCATTGC
126587 G
1 G
126588 GTTTACGGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
50 2 0.05
51 38 0.86
52 4 0.09
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (52 bp):
GATTCTCGTTGCGATTTACGGATTAGCGTTGCGATATACAGATACGCATTGC
Found at i:126627 original size:40 final size:40
Alignment explanation
Indices: 126541--126690 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 40
126531 GTTGCGATTT
* * * * *
126541 CGTTGTGATTTACGGATACGCGTTGCGATATACG-GATACG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTATGTG-TTCG
* * *
126581 CATTGCGGTTTACGGATACGCGTTGCGATTTATGTGTTCG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTATGTGTTCG
* * *
126621 CGTTGCGATTTTCATATTCGCGTTGCGATTTATGTGTTCG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTATGTGTTCG
* * *
126661 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACAGATACGCGTTGCGATT
126691 CTGGAAAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 96 0.99
41 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.39
Consensus pattern (40 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTATGTGTTCG
Found at i:128067 original size:22 final size:21
Alignment explanation
Indices: 128032--128072 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
128022 ATAATTAGTA
128032 TTATTATTTCTATTATTTTATT
1 TTATTATTTCTATT-TTTTATT
128054 TTATTATTAT-TATTTTTTA
1 TTATTATT-TCTATTTTTTA
128073 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 12 0.67
23 1 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTATTTCTATTTTTTATT
Found at i:138095 original size:84 final size:83
Alignment explanation
Indices: 137953--139068 Score: 875
Period size: 84 Copynumber: 13.5 Consensus size: 83
137943 AAAGAAATTG
* * * * * * * *
137953 TTTGCAACATAACTCAAGGCTAGAATGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAAGACCTTCGAGTTCGACTACAC
*
138018 TCAGCTCAAAGGCACAAT-A
65 TCAGCTCCAAGGCAC-ATCA
* * * *
138037 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGACTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTT-CAACCAAAGACCTTCGAGTTCGACTACAC
** * *
138102 TCAGCTTTGAGGGCATATCA
65 TCAGC-TCCAAGGCACATCA
* * * *
138122 TTTGTAGCATAACTCAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAAGACCTTCGAGTTCGACTACAC
138187 TCAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * * *
138206 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC-T--GCCAAAGACCCTCGAGTTCGATTACACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
* *
138268 CAGCTTCGAGGGCACATCA
66 CAGC-TCCAAGGCACATCA
** * * * * * *
138287 TTTATAACATAACTCAA-TGCTAGAATGGTTATC-TGAGACCAAAAGACATTCGAGTTCGACTAC
1 TTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTTCA-ACC-AAAGACCTTCGAGTTCGACTAC
* *
138350 GCTCAGCTCCAAGGCATATCA
63 ACTCAGCTCCAAGGCACATCA
*
138371 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTTGACTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTT-CAACCAAAGACCTTCGAGTTCGACTACAC
*
138436 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * * * * *
138455 TTTGCAGCATAGCTTAAGTCGAGATGGGCTAT-TT--GCCAAAGACCCTT-GAGTTCAATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGA-CCTTCGAGTTCGACTACAC
*
138516 TCAGCTTCAAGGGCACATCA
65 TCAGCTCCAA-GGCACATCA
** * * * * * *
138536 TTTATAGCATAACTCAAGGCTAGAAGGGTTAT-TGT-GACCAAAAGACCTTCGAGTTCAACTACG
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACC-AAAGACCTTCGAGTTCGACTACA
138599 CTCAGCTCCAAGGCACATCA
64 CTCAGCTCCAAGGCACATCA
* * * * * * * *
138619 TTTGCA--A-CAC-AAAGTCAAGAAGGGATATC-T--GCCAAAGACCCTCGAGTTTGATTACACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
* * *
138677 CAGCTTCGAGGGCATATCA
66 CAGC-TCCAAGGCACATCA
* * * * * * * **
138696 TTTACAACATAACTCAAGGCTATATGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTATG
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACC-AAAGACCTTCGAGTTCGACTACA
* *
138760 CTCAGCTTCAAGGCATATCA
64 CTCAGCTCCAAGGCACATCA
** * * * * *
138780 TTTGTTGCATAACTTAAGTAGAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAAGACCTTCGAGTTCGACTACAC
*
138845 TCAGCTCCAAGACACATCA
65 TCAGCTCCAAGGCACATCA
* * * * * *
138864 TTTGCAGTATAGCTTAAGTCGAGAA-GGTCTATC-T--GCCAAAGACCCTCGAGTTTGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGT-TATCTTCAACCAAAGACCTTCGAGTTCGACTACAC
* *
138925 TCAGCTCAAAGACACCATCA
65 TCAGCTCCAAGGCA-CATCA
* * * * * * * *
138945 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATC-T--GCTAAAGACCTTCGAGTTTGATTCCACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
139007 CAGC-CCAAAGGCACATCA
66 CAGCTCC-AAGGCACATCA
* * * * * * *
139025 TTTACAACATAGCTCAAGGCAAGAAGGGTTATCTATCAGCCAAA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAA
139069 TTTTTGAGTT
Statistics
Matches: 834, Mismatches: 160, Indels: 76
0.78 0.15 0.07
Matches are distributed among these distances:
76 24 0.03
77 18 0.02
78 1 0.00
79 15 0.02
80 128 0.15
81 155 0.19
82 5 0.01
83 25 0.03
84 338 0.41
85 123 0.15
86 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (83 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
CAGCTCCAAGGCACATCA
Found at i:138432 original size:249 final size:245
Alignment explanation
Indices: 137994--139058 Score: 1051
Period size: 249 Copynumber: 4.3 Consensus size: 245
137984 TCTGCCAACA
* * * ** * * * *
137994 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACAAT-ATTTGCAGCATAGCTTAAGTC
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCAC-ATCATTTATAACATAACTCAAGGC
* * * * * * ** * *
138057 GAGAAGGGCTATCTTCCA-ACC-AAAGACCTTCGACTTCGATTACACTCAGCTTTGAGGGCATAT
65 TAGAAGGGTTATC-T-GAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACAT
* * *
138120 CATTTGTAGCATAACTCAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTTGACTAC
127 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--T--ACCAAAGACCCTCGAGTTTGACTAC
* *
138185 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
188 ACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * *
138243 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATAACATAACTCAATGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
* * *
138308 AGAATGGTTATCTGAGACCAAAAGACATTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
66 AGAAGGGTTATCTGAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
138373 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTTGACTACACTC
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATC-T---ACCAAAGACCCTCGAGTTTGACTACACTC
* * *
138438 AGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGATGGGCTATTTGCC
192 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * * *
138492 AAAGACCCTTGAGTTCAATTACACTCAGCTTCAAGGGCACATCATTTATAGCATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
* *
138557 AGAAGGGTTAT-TGTGACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATT
66 AGAAGGGTTATCTGAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * *
138621 TGCA--A-CAC-AAAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCT
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTCGAGTTTGACTACACTCAGC-
* * * * * * * * * * * *
138682 TCGAGGGCATATCATTTACAACATAACTCAAGGCTATATGGGTTATCTGTCACC
195 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CC
* * ** * * ** * **
138736 AAAAGACCTTCGAGTTCGACTATGCTCAGCTTC-AAGGCATATCATTTGTTGCATAACTTAAGTA
1 -AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGC
* * * *
138800 GAGAAGGGTTATCTGCCA-ATC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACACATC
65 TAGAAGGGTTATCTG--AGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
138863 ATTTGCAGTATAGCTTAAGTCGAGAA-GGTCTATCTGCCAAAGACCCTCGAGTTTGATTACACTC
128 ATTTGCAGCATAACTTAAGTCGAGAAGGGT-TATCTACCAAAGACCCTCGAGTTTGACTACACTC
* * * *
138927 AGCTCAAAGACACCATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCT
192 AGCTCCAAGGCA-CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * * * * * *
138982 AAAGACCTTCGAGTTTGATTCCACTCAGC-CCAAAGGCACATCATTTACAACATAGCTCAAGGCA
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
139046 AGAAGGGTTATCT
66 AGAAGGGTTATCT
139059 ATCAGCCAAA
Statistics
Matches: 683, Mismatches: 113, Indels: 44
0.81 0.13 0.05
Matches are distributed among these distances:
240 29 0.04
241 38 0.06
243 1 0.00
244 54 0.08
245 135 0.20
246 4 0.01
247 1 0.00
248 64 0.09
249 300 0.44
250 57 0.08
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (245 bp):
AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
AGAAGGGTTATCTGAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTCGAGTTTGACTACACTCAGCT
CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
Found at i:138728 original size:409 final size:410
Alignment explanation
Indices: 137953--139058 Score: 1420
Period size: 409 Copynumber: 2.7 Consensus size: 410
137943 AAAGAAATTG
* * * * * * *
137953 TTTGCAACATAACTCAAGGCTAGAATGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* *
138018 TCAGCTCAAAGGCACAAT-ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAG
66 TCAGCTCCAAGGCA-AATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-TT---GCCAAAG
* ** * *
138082 A-CCTTCGACTTCGATTACACTCAGCTTTGAGGGCATATCATTTGTAGCATAACTCAAGTCGAGA
126 ACCCTT-GAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGTAGCATAACTCAAGTCAAGA
*
138146 AGGGTTATCTGTCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGC
190 AGGGTTAT-TGT-GACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGC
* * * *
138211 AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCG
253 A--ACAGCTAAAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCG
* * *
138276 AGGGCACATCATTTATAACATAACTCAATGCTAGAATGGTTATCTGAGACCAAAAGACATTCGAG
316 AGGGCACATCATTTACAACATAACTCAAGGCTAGAATGGTTATCTGACACCAAAAGACATTCGAG
138341 TTCGACTACGCTCAGCTCCAAGGCATATCA
381 TTCGACTACGCTCAGCTCCAAGGCATATCA
* *
138371 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTTGACTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* *
138436 TCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGATGGGCTATTTGCCAAAGACCCT
66 TCAGCTCCAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCT
* * * *
138501 TGAGTTCAATTACACTCAGCTTCAAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTT
131 TGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGTAGCATAACTCAAGTCAAGAAGGGTT
**
138566 ATTGTGACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAACA-C-
196 ATTGTGACC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACAGCT
* *
138629 AAAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCATAT
260 AAAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *
138694 CATTTACAACATAACTCAAGGCTA-TATGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTA
325 CATTTACAACATAACTCAAGGCTAGAAT-GGTTATCTGACACCAAAAGACATTCGAGTTCGACTA
* *
138758 TGCTCAGCTTCAAGGCATATCA
389 CGCTCAGCTCCAAGGCATATCA
** * *
138780 TTTGTTGCATAACTTAAGTAGAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* * * * *
138845 TCAGCTCCAAGACACATCATTTGCAGTATAGCTTAAGTCGAGAAGGTCTATCTGCCAAAGACCCT
66 TCAGCTCCAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCT
* * * * * * * *
138910 CGAGTTTGATTACACTCAGC-TCAAAGACACCATCATTTGCAGCATAGCTTAAGTCAAGAAGGGC
131 TGAGTTCGATTACACTCAGCTTCAAGGGCA-CATCATTTGTAGCATAACTCAAGTCAAGAAGGGT
* * * * * *
138974 TA-TCTG-CTAAAGACCTTCGAGTTTGATTCCACTCAGC-CCAAAGGCACATCATTTACAACATA
195 TATTGTGACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCC-AAGGCACATCATTTGCAAC--A
* * *
139036 GCTCAAGGCAAGAAGGGTTATCT
257 GCTAAAGTCAAGAAGGGATATCT
139059 ATCAGCCAAA
Statistics
Matches: 605, Mismatches: 73, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
405 2 0.00
406 42 0.07
407 1 0.00
408 13 0.02
409 300 0.50
410 18 0.03
411 2 0.00
412 3 0.00
413 50 0.08
414 65 0.11
415 4 0.01
417 4 0.01
418 101 0.17
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (410 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
TCAGCTCCAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCT
TGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGTAGCATAACTCAAGTCAAGAAGGGTT
ATTGTGACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACAGCTA
AAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
ATTTACAACATAACTCAAGGCTAGAATGGTTATCTGACACCAAAAGACATTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATCA
Found at i:140450 original size:3 final size:3
Alignment explanation
Indices: 140437--140482 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
140427 AGGTTAGACA
*
140437 ATT AAT ATT ATT ATT -TCT ATT ATT -TT ATT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
140480 ATT
1 ATT
140483 TTAATTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 31 0.84
4 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:140469 original size:22 final size:22
Alignment explanation
Indices: 140444--140485 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
140434 ACAATTAATA
140444 TTATTATT-TCTATTATTTTATT
1 TTATTATTAT-TATTATTTTATT
140466 TTATTATTATTATTATTTTA
1 TTATTATTATTATTATTTTA
140486 ATTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTATTATTATTATTATTTTATT
Found at i:146486 original size:16 final size:16
Alignment explanation
Indices: 146465--146503 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
146455 CATTTAATAA
146465 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
146481 ATAAACAAACACGAAC
1 ATAAACGAACACGAAC
146497 ATAAACG
1 ATAAACG
146504 TTGGAGACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.59, C:0.23, G:0.10, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:147606 original size:10 final size:10
Alignment explanation
Indices: 147591--147638 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
147581 ATAAATGAAT
147591 GAACATAAAC
1 GAACATAAAC
147601 GAACATAACCGAAC
1 GAACAT-A---AAC
147615 GAACATAAAC
1 GAACATAAAC
*
147625 GAACATAACC
1 GAACATAAAC
147635 GAAC
1 GAAC
147639 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:147615 original size:14 final size:14
Alignment explanation
Indices: 147598--147639 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
147588 AATGAACATA
147598 AACGAACATAACCG
1 AACGAACATAACCG
147612 AACGAACAT-A---
1 AACGAACATAACCG
147622 AACGAACATAACCG
1 AACGAACATAACCG
147636 AACG
1 AACG
147640 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:147618 original size:24 final size:24
Alignment explanation
Indices: 147591--147639 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
147581 ATAAATGAAT
147591 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
147615 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
147639 G
1 G
147640 TTCACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:154534 original size:32 final size:32
Alignment explanation
Indices: 154484--154554 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
154474 TCTCATGATT
**
154484 TACCCAAATGAGTATCTTGGGGCCT-GAGAGCC
1 TACCCAAAAAAGTATCTTGGGGCCTCG-GAGCC
*
154516 TACCCAAAAAAGTTTCTTGGGGCCTCGGAGCC
1 TACCCAAAAAAGTATCTTGGGGCCTCGGAGCC
*
154548 AACCCAA
1 TACCCAA
154555 GGGTTACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (32 bp):
TACCCAAAAAAGTATCTTGGGGCCTCGGAGCC
Found at i:161854 original size:24 final size:24
Alignment explanation
Indices: 161820--161867 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
161810 CGTCTTCTTG
*
161820 ATGATGCATAAAACATTTATGTAC
1 ATGATGCATAAAACATCTATGTAC
*
161844 ATGATGTATAAAACATCTATGTAC
1 ATGATGCATAAAACATCTATGTAC
161868 CATGTCATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGCATAAAACATCTATGTAC
Found at i:164437 original size:81 final size:81
Alignment explanation
Indices: 164302--164874 Score: 817
Period size: 81 Copynumber: 7.1 Consensus size: 81
164292 AAGCATTTAG
* * * * * * *
164302 TCTTTTACCCAAAGGCATTTATA-CTTTCATCTACCTTGCATGATTGACACCTTTCTGCCAAATA
1 TCTTTTACTCAAAGGTATTTA-ACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
*
164366 CACAACTAGGCTATTAA
65 CACAACTAGGCCATTAA
* * * *
164383 TCTTTTACTCAAAGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
164448 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * *
164464 TCTTTTACTCAAAGGTATTTAACCTTTCATCTGACTGGCATAATTGACACATTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
164529 ACACCTA-GCCATTAA
66 ACAACTAGGCCATTAA
* *
164544 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATCGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
164609 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * * *
164625 TATTTTACTCAAATGTATTTAACCTTTCATCTAACTGTCATAATTAACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
164690 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
164706 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
164771 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * **
164787 TCTTTTACTCAAAGGTATTTAACCTTTCGTCTAACTGGAATAATTAACACCTTTCTAACAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
164852 ACAACTATGCCATTAA
66 ACAACTAGGCCATTAA
164868 TCTTTTA
1 TCTTTTA
164875 TTTTATAATA
Statistics
Matches: 451, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
80 75 0.17
81 376 0.83
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAA
Found at i:164727 original size:242 final size:243
Alignment explanation
Indices: 164302--164874 Score: 853
Period size: 242 Copynumber: 2.4 Consensus size: 243
164292 AAGCATTTAG
* * * * * * *
164302 TCTTTTACCCAAAGGCATTTATA-CTTTCATCTACCTTGCATGATTGACACCTTTCTGCCAAATA
1 TCTTTTACTCAAAGGTATTTA-ACCTTTCATCTAACTGGCATAATTGACACCTTTCTGACAAATG
* *
164366 CACAACTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTAACTGACATAATTGAC
65 CACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTAACTGACATAATTAAC
* * *
164431 ACCTTTCTGCCAAATACATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
130 ACATTTCTGCCAAATACACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
* *
164496 GACTGGCATAATTGACACATTTCTGTCAAATACACACCTA-GCCATTAA
195 AACTGGCATAATTAACACATTTCTGTCAAATACACACCTAGGCCATTAA
* * *
164544 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATCGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGACAAATGC
* * * *
164609 ACAACTAGGCCATTAATATTTTACTCAAATGTATTTAACCTTTCATCTAACTGTCATAATTAACA
66 ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTAACTGACATAATTAACA
* *
164674 CATTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
131 CATTTCTGCCAAATACACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
164739 ACTGGCATAATTAACACATTTCTGTCAAATGCACAGCTAGGCCATTAA
196 ACTGGCATAATTAACACATTTCTGTCAAATACACACCTAGGCCATTAA
* * * *
164787 TCTTTTACTCAAAGGTATTTAACCTTTCGTCTAACTGGAATAATTAACACCTTTCTAACAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGACAAATGC
*
164852 ACAACTATGCCATTAATCTTTTA
66 ACAACTAGGCCATTAATCTTTTA
164875 TTTTATAATA
Statistics
Matches: 296, Mismatches: 33, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
241 1 0.00
242 208 0.70
243 87 0.29
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (243 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGACAAATGC
ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTAACTGACATAATTAACA
CATTTCTGCCAAATACACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
ACTGGCATAATTAACACATTTCTGTCAAATACACACCTAGGCCATTAA
Found at i:164970 original size:33 final size:33
Alignment explanation
Indices: 164892--164957 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
164882 ATAGTTTCTA
* *
164892 CTCTAATAATTATTCATAATATTAATTAACTCT
1 CTCTAACAATTATTCATAATATCAATTAACTCT
164925 CTCTAACAATTATTCATAATATCAATTAACTCT
1 CTCTAACAATTATTCATAATATCAATTAACTCT
164958 TTCAATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (33 bp):
CTCTAACAATTATTCATAATATCAATTAACTCT
Found at i:169487 original size:21 final size:21
Alignment explanation
Indices: 169463--169518 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
169453 AAGCACAAAC
169463 AAAATAATGTTATTAGTTAAA
1 AAAATAATGTTATTAGTTAAA
169484 AAAATAATGTTATTAGTTAAA
1 AAAATAATGTTATTAGTTAAA
* * *
169505 TAATTATTGTTATT
1 AAAATAATGTTATT
169519 TTTTTTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
AAAATAATGTTATTAGTTAAA
Done.