Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007730.1 Hibiscus syriacus cultivar Beakdansim tig00109982_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: 339569
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1734 original size:19 final size:19
Alignment explanation
Indices: 1712--2000 Score: 356
Period size: 19 Copynumber: 16.4 Consensus size: 19
1702 CGGAAAATAC
*
1712 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1731 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1745 AAT-GCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1764 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1778 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1797 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
1815 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
1829 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
1848 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1867 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1886 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1905 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
1923 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1942 AATCGCAA--CG-AA-G--
1 AATCGCAATGCGAAATGAA
1955 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1974 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1993 AATCGCAA
1 AATCGCAA
2001 CGAGATAATC
Statistics
Matches: 238, Mismatches: 8, Indels: 48
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.05
14 26 0.11
15 6 0.03
16 14 0.06
17 5 0.02
18 29 0.12
19 143 0.60
20 4 0.02
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1831 original size:51 final size:53
Alignment explanation
Indices: 1740--1981 Score: 295
Period size: 51 Copynumber: 4.6 Consensus size: 53
1730 AAATCCCAAC
*
1740 ATGAAAAT-GCAATGCGGAAATGAAAATCGCAACGAGAG-AATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGACAGAAATCGCAATGCGAA
1792 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGACAG-AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAAATCGCAATGCGAA
* *
1843 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G-AAATCGCAATGCGAA
* * *
1900 ATGAAAATCGCAATGCGAAATG-AAATCGCAATG-C-GAAAT-GAAAAT-CGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAAATCG-CAATGCGAA
*
1949 ACGAAGAATCGCAATGCGAAATGAAAATCGCAA
1 ATGAA-AATCGCAATGCGAAATGAAAATCGCAA
1982 TGCGAAATGA
Statistics
Matches: 171, Mismatches: 9, Indels: 21
0.85 0.04 0.10
Matches are distributed among these distances:
49 8 0.05
50 24 0.14
51 59 0.35
52 23 0.13
53 7 0.04
54 5 0.03
55 1 0.01
56 9 0.05
57 35 0.20
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAAATCGCAATGCGAA
Found at i:1880 original size:38 final size:38
Alignment explanation
Indices: 1712--2022 Score: 356
Period size: 33 Copynumber: 8.9 Consensus size: 38
1702 CGGAAAATAC
* *
1712 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1745 AAT-GCAATGCGGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
1778 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
1815 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1848 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1886 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1923 AATCGCAATGCGAAATGAAAATCGCAA--CG-AA-G--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1955 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1993 AATCGCAA--CG--A-GATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
2023 TATAAACGCA
Statistics
Matches: 249, Mismatches: 9, Indels: 40
0.84 0.03 0.13
Matches are distributed among these distances:
32 49 0.20
33 68 0.27
34 14 0.06
35 14 0.06
36 4 0.02
37 37 0.15
38 63 0.25
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (38 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1998 original size:51 final size:50
Alignment explanation
Indices: 1712--2022 Score: 292
Period size: 51 Copynumber: 5.9 Consensus size: 50
1702 CGGAAAATAC
*
1712 AATCGCAACGCGAAATGAAAATCCCAACATGAAAAT-GCAATGCGGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--GAAAATCGCAATGC-GAAATGAA
* * * *
1764 AATCGCAACGAGAGAATCG-CAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAACGCGA-AAT-GAAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
* * **
1815 AATCGCAACGAC-AGAATCG-CAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAACG-CGA-AAT-GAAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
*
1867 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAACGCGAAATGAAAATCGCAA--C-----GAAAATCGCAATGCGAAATGAA
*
1923 AATCGCAATGCGAAATGAAAATCGCAACGAAGAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAA-AATCGCAATGCGAAATGAA
*
1974 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAACGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAAT
2023 TATAAACGCA
Statistics
Matches: 228, Mismatches: 13, Indels: 36
0.82 0.05 0.13
Matches are distributed among these distances:
49 3 0.01
50 22 0.10
51 86 0.38
52 52 0.23
53 13 0.06
54 5 0.02
56 28 0.12
57 19 0.08
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (50 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAATCGCAATGCGAAATGAA
Found at i:2137 original size:19 final size:19
Alignment explanation
Indices: 2029--2129 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
2019 AAATTATAAA
2029 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2048 CCGCATTGCGA-TTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2067 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2083 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2100 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2119 CGCATTGCGAT
1 CGCATTGCGAT
2130 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
18 10 0.14
19 34 0.46
20 10 0.14
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2137 original size:38 final size:37
Alignment explanation
Indices: 2029--2129 Score: 140
Period size: 33 Copynumber: 2.8 Consensus size: 37
2019 AAATTATAAA
2029 CGCATTGCGATTTTCATTTCCGCATTGCGATTTCATTT
1 CGCATTGCGATTTTCATTT-CGCATTGCGATTTCATTT
*
2067 CGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATTT
2100 CGCATTGCGATTTTCATTTCGCATTGCGAT
1 CGCATTGCGATTTTCATTTCGCATTGCGAT
2130 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
32 6 0.11
33 18 0.33
34 2 0.04
35 5 0.09
36 7 0.13
37 1 0.02
38 16 0.29
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (37 bp):
CGCATTGCGATTTTCATTTCGCATTGCGATTTCATTT
Found at i:2255 original size:14 final size:13
Alignment explanation
Indices: 2236--2272 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
2226 CATCAATTAC
2236 ACAAATCAACTTTT
1 ACAAATCAA-TTTT
2250 ACAAATC-ATTTT
1 ACAAATCAATTTT
2262 ACAAATCAATT
1 ACAAATCAATT
2273 AAAAATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (13 bp):
ACAAATCAATTTT
Found at i:4222 original size:14 final size:14
Alignment explanation
Indices: 4203--4259 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4193 GCGAAATGAA
*
4203 AATCGCAACGACAG
1 AATCGCAACGAAAG
4217 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4234 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4250 AATCGCAACG
1 AATCGCAACG
4260 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4230 original size:33 final size:33
Alignment explanation
Indices: 4184--4276 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4174 GCGAAACCAA
*
4184 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
4217 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
4250 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4277 TGCGATTTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:4241 original size:19 final size:19
Alignment explanation
Indices: 4147--4281 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4137 ATAGTTACTT
* *
4147 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4167 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4186 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4205 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4219 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4238 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4252 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4271 TCGCAATGCGA
1 TCGCAACGCGA
4282 TTTGGTTTCG
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4322 original size:33 final size:33
Alignment explanation
Indices: 4277--4367 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
4267 AAAATCGCAA
4277 TGCGA-TTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4309 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4342 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4368 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 5 0.09
33 48 0.87
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4330 original size:19 final size:19
Alignment explanation
Indices: 4277--4404 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
4267 AAAATCGCAA
4277 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4295 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4309 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4328 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4342 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4361 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4380 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4400 TGCGA
1 TGCGA
4405 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 7 0.08
19 42 0.47
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4720 original size:93 final size:93
Alignment explanation
Indices: 4448--4913 Score: 858
Period size: 93 Copynumber: 5.1 Consensus size: 93
4438 TTGAATGGAT
4448 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4512 AGTTTAGCAGAATTGGCAGCAACCGAA-
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4539 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4603 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4631 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4696 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
4724 AAATTTACTTTCAACCAAAAGAC-AAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4785 AG-TTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4812 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4877 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4905 AAATTTACT
1 AAATTTACT
4914 AAGCAATCTA
Statistics
Matches: 364, Mismatches: 3, Indels: 14
0.96 0.01 0.04
Matches are distributed among these distances:
88 48 0.13
89 36 0.10
90 3 0.01
91 78 0.21
92 90 0.25
93 109 0.30
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4870 original size:181 final size:184
Alignment explanation
Indices: 4448--4913 Score: 870
Period size: 181 Copynumber: 2.5 Consensus size: 184
4438 TTGAATGGAT
4448 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4512 AGTTTAGCAGAATTGGCAGCAACCGAAAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
4577 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4631 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4696 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGAC-AA
66 AGTTTAGCAGAATTGGCAGCAACCGAA-AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
4759 -ATATTTCACAGTGTTAAAGAATATACAG-TTAGCAGAATTGGCAGCAACCGAAC
130 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4812 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4877 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAA-AAATTTACT
4914 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
181 126 0.45
182 27 0.10
183 25 0.09
184 78 0.28
185 23 0.08
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (184 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6626 original size:14 final size:14
Alignment explanation
Indices: 6607--6696 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
6597 TTGAAATGAA
6607 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6621 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
6638 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
6654 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6673 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6687 AATCGCAACG
1 AATCGCAACG
6697 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6644 original size:33 final size:33
Alignment explanation
Indices: 6599--6713 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
6589 GTCTTTGGTT
6599 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
6632 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6665 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6698 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6714 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6645 original size:19 final size:18
Alignment explanation
Indices: 6606--6718 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
6596 GTTGAAATGA
6606 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
6621 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
6638 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
6654 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
6671 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
6687 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
6704 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
6719 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:6749 original size:14 final size:14
Alignment explanation
Indices: 6730--6783 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
6720 TTTGGTTTCG
6730 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6744 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
6762 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6776 CGTTGCGA
1 CGTTGCGA
6784 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 18 0.53
15 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6767 original size:18 final size:17
Alignment explanation
Indices: 6725--6771 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
6715 GCGATTTTGG
6725 TTTCGCGTTGCGA-TTC
1 TTTCGCGTTGCGATTTC
*
6741 --TCTCGTTGCGATTTC
1 TTTCGCGTTGCGATTTC
6756 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
6772 CTCTCGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
18 12 0.48
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (17 bp):
TTTCGCGTTGCGATTTC
Found at i:6946 original size:33 final size:33
Alignment explanation
Indices: 6904--6974 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6894 AATACTAACT
*
6904 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
6937 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
6970 TGAAA
1 TGAAA
6975 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:7205 original size:22 final size:22
Alignment explanation
Indices: 7153--7205 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7143 TGGTTGTGAG
**
7153 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
7175 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
7197 GGATTTCTT
1 GGATTTCTT
7206 TGCCGTAGAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.25
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:7374 original size:20 final size:20
Alignment explanation
Indices: 7349--7541 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
7339 CTTTAAATAT
7349 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7369 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7391 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7410 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7430 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7450 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7470 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7490 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7510 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7530 CGCGTTGCGATT
1 CGCGTTGCGATT
7542 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7536 original size:60 final size:60
Alignment explanation
Indices: 7349--7541 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
7339 CTTTAAATAT
**
7349 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
7410 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
7470 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
7530 CGCGTTGCGATT
1 CGCGTTGCGATT
7542 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:7622 original size:20 final size:20
Alignment explanation
Indices: 7597--7648 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7587 AAGAATCGCG
*
7597 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7617 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7637 TTGCGATTCTGG
1 TTGCGATTCTGG
7649 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:11175 original size:19 final size:18
Alignment explanation
Indices: 11138--11176 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11128 TATTTTCTCA
**
11138 TTATTTTTTACTTGGTAT
1 TTATTTTTTACTTCATAT
11156 TTATTTTTTACTTTCATAT
1 TTATTTTTTAC-TTCATAT
11175 TT
1 TT
11177 TTAAAACCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (18 bp):
TTATTTTTTACTTCATAT
Found at i:11585 original size:62 final size:63
Alignment explanation
Indices: 11401--11594 Score: 372
Period size: 63 Copynumber: 3.1 Consensus size: 63
11391 TTCCTTACCG
11401 GCAAAAATCTGAGGTGGAAAGCCAAAATAATAGAATTGTTGGCTGCATCGGTGATTAAGACCA
1 GCAAAAATCTGAGGTGGAAAGCCAAAATAATAGAATTGTTGGCTGCATCGGTGATTAAGACCA
11464 GCAAAAATCTGAGGTGGAAAGCCAAAATAATAGAATTGTTGGCTGCATCGGTGATTAAGACCA
1 GCAAAAATCTGAGGTGGAAAGCCAAAATAATAGAATTGTTGGCTGCATCGGTGATTAAGACCA
*
11527 GCAAAAATCTGAGGTGGAAAGCC-AAATAATAGAATTGTTGGCTGCATCAGTGATTAAGACCA
1 GCAAAAATCTGAGGTGGAAAGCCAAAATAATAGAATTGTTGGCTGCATCGGTGATTAAGACCA
11589 GCAAAA
1 GCAAAA
11595 GTCCCTCTGT
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
62 44 0.34
63 86 0.66
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (63 bp):
GCAAAAATCTGAGGTGGAAAGCCAAAATAATAGAATTGTTGGCTGCATCGGTGATTAAGACCA
Found at i:18932 original size:36 final size:36
Alignment explanation
Indices: 18882--18957 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
18872 TTATAGCAAA
*
18882 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
18918 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
18954 AAAA
1 AAAA
18958 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:20565 original size:60 final size:58
Alignment explanation
Indices: 20470--20600 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 58
20460 ATATTAGGGT
* * *
20470 AAAGTATAC-AAATGGTCTCACGATTATAGGTTGTTGCTTTATTGAGTCTTCAAACTATTA
1 AAAGT-TACAAAATGGTCCCACGACTATAGGATGTTGCTTTATTGAGTC--CAAACTATTA
* * * * **
20530 AAAGTTACAAAATGGTCCCTCGACTATATGATGTTGTTTTGTTGAGTCCCGACTATTA
1 AAAGTTACAAAATGGTCCCACGACTATAGGATGTTGCTTTATTGAGTCCAAACTATTA
20588 AAAGTTACAAAAT
1 AAAGTTACAAAAT
20601 AATCATCCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 21 0.34
59 3 0.05
60 37 0.61
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (58 bp):
AAAGTTACAAAATGGTCCCACGACTATAGGATGTTGCTTTATTGAGTCCAAACTATTA
Found at i:23732 original size:30 final size:30
Alignment explanation
Indices: 23667--23753 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
23657 AGGCTTGAGA
23667 GCCTACCCAAGAAAGTTCTCAGGGCCACGGG
1 GCCTACCCAAGAAAGTTCTCAGGGCCAC-GG
*
23698 GCCTACCCAAGAAAGATT-TCGGGGCGCA-GG
1 GCCTACCCAAGAAAG-TTCTCAGGGC-CACGG
* *
23728 GCCTACCCAAGAATGATCTCAGGGCC
1 GCCTACCCAAGAAAGTTCTCAGGGCC
23754 GTAGAGCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 22 0.45
31 21 0.43
32 4 0.08
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (30 bp):
GCCTACCCAAGAAAGTTCTCAGGGCCACGG
Found at i:25899 original size:20 final size:20
Alignment explanation
Indices: 25874--25911 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25864 CTTTTTGTTC
25874 AAAGTCAACAGTCAAATTTA
1 AAAGTCAACAGTCAAATTTA
*
25894 AAAGTCAACGGTCAAATT
1 AAAGTCAACAGTCAAATT
25912 CAACGGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (20 bp):
AAAGTCAACAGTCAAATTTA
Found at i:25920 original size:20 final size:20
Alignment explanation
Indices: 25874--25924 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25864 CTTTTTGTTC
* *
25874 AAAGTCAACAGTCAAATTTA
1 AAAGTCAACGGTCAAATTCA
25894 AAAGTCAACGGTCAAATTCA
1 AAAGTCAACGGTCAAATTCA
**
25914 ACGGTCAACGG
1 AAAGTCAACGG
25925 GTTGACTCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAGTCAACGGTCAAATTCA
Found at i:28024 original size:31 final size:31
Alignment explanation
Indices: 27989--28103 Score: 110
Period size: 31 Copynumber: 3.7 Consensus size: 31
27979 GAGCATCTTG
*
27989 GGGCCTAAGAGCCTACCCAAGAAAGTTCTCA
1 GGGCCTAAGAGCCTACCCAAGAAAGATCTCA
* * * *
28020 GGGCC-ACGGGGCCTACCCAAGAAAAATCCCA
1 GGGCCTA-AGAGCCTACCCAAGAAAGATCTCA
*
28051 GGG-CTGCAAG-GCCTACCCAAGAATGATCTCA
1 GGGCCT--AAGAGCCTACCCAAGAAAGATCTCA
**
28082 GGGCCGCAGAGCCTACCCAAGA
1 GGGCCTAAGAGCCTACCCAAGA
28104 GTCACATTAG
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
30 4 0.06
31 60 0.90
32 2 0.03
33 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.11
Consensus pattern (31 bp):
GGGCCTAAGAGCCTACCCAAGAAAGATCTCA
Found at i:35412 original size:21 final size:23
Alignment explanation
Indices: 35364--35412 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
35354 ATTCCCTTGT
35364 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
35387 AGGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
35408 GGGGG
1 GGGGG
35413 ATCAATTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 13 0.54
ACGTcount: A:0.18, C:0.22, G:0.41, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:41623 original size:31 final size:31
Alignment explanation
Indices: 41595--41654 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
41585 TTGGGGCCTG
*
41595 AGAGCCTACCCAAGAAAGTTCTCAGGGCCAC
1 AGAGCCTACCCAAGAAAGATCTCAGGGCCAC
* *
41626 AGGGCCTACCCAATAAAGATCTCAGGGCC
1 AGAGCCTACCCAAGAAAGATCTCAGGGCC
41655 GCAGTGTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAGATCTCAGGGCCAC
Found at i:43229 original size:31 final size:31
Alignment explanation
Indices: 43191--43337 Score: 224
Period size: 31 Copynumber: 4.7 Consensus size: 31
43181 CGAGGGTTAC
*
43191 CTATGTTCTTCGGGACATATGGACTAATTAA
1 CTATGTTCTTCGGGACATATGGACTGATTAA
43222 CTATGTTCTTCGGGACATATGGACTGATT-A
1 CTATGTTCTTCGGGACATATGGACTGATTAA
* *
43252 CCATTGTTCTTCGGGACATATGGACTGATTAC
1 CTA-TGTTCTTCGGGACATATGGACTGATTAA
* *
43284 CTATGTTTTTCGGGACATATGGACTGATTAC
1 CTATGTTCTTCGGGACATATGGACTGATTAA
*
43315 CTATGTTCTTCGAGACATATGGA
1 CTATGTTCTTCGGGACATATGGA
43338 TTGGTCATTC
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 3 0.03
31 102 0.95
32 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (31 bp):
CTATGTTCTTCGGGACATATGGACTGATTAA
Found at i:43265 original size:62 final size:62
Alignment explanation
Indices: 43187--43337 Score: 250
Period size: 62 Copynumber: 2.4 Consensus size: 62
43177 GATTCGAGGG
43187 TTACCTATGTTCTTCGGGACATATGGACTAATTAACTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTAATTAACTATGTTCTTCGGGACATATGGACTGA
* * *
43249 TTACC-ATTGTTCTTCGGGACATATGGACTGATTACCTATGTTTTTCGGGACATATGGACTGA
1 TTACCTA-TGTTCTTCGGGACATATGGACTAATTAACTATGTTCTTCGGGACATATGGACTGA
*
43311 TTACCTATGTTCTTCGAGACATATGGA
1 TTACCTATGTTCTTCGGGACATATGGA
43338 TTGGTCATTC
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
61 1 0.01
62 81 0.98
63 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGGACATATGGACTAATTAACTATGTTCTTCGGGACATATGGACTGA
Found at i:44214 original size:31 final size:31
Alignment explanation
Indices: 44176--44280 Score: 129
Period size: 31 Copynumber: 3.4 Consensus size: 31
44166 TACACGCAGG
*
44176 GCCTACCCAAGAATGATCTCAGGGCCACAAA
1 GCCTACCCAAGAATGATCTCAGGGCCACAGA
** * * *
44207 GCCTACCCAAGAAAAATCCCAGGGCCGCAGG
1 GCCTACCCAAGAATGATCTCAGGGCCACAGA
* * *
44238 GCCTACCCAAGAATGATATCAGGGACTCAGA
1 GCCTACCCAAGAATGATCTCAGGGCCACAGA
44269 GCCTACCCAAGA
1 GCCTACCCAAGA
44281 GTCACATTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.11
Consensus pattern (31 bp):
GCCTACCCAAGAATGATCTCAGGGCCACAGA
Found at i:48907 original size:31 final size:31
Alignment explanation
Indices: 48872--48986 Score: 126
Period size: 31 Copynumber: 3.7 Consensus size: 31
48862 AAACATATTG
*
48872 GGGCCTGAGAGCCTACCCAAGAAAGTTCTCA
1 GGGCCTGAGAGCCTACCCAAGAAAGATCTCA
* *
48903 GGGCCACG-GGGCCTACCCAAGAAAGATCTCA
1 GGGCC-TGAGAGCCTACCCAAGAAAGATCTCA
* * * *
48934 GGGTCTTAGGGCCTACCCAAGAATGATCTCA
1 GGGCCTGAGAGCCTACCCAAGAAAGATCTCA
*
48965 AGG-CTGCAGAGCCTACCCAAGA
1 GGGCCTG-AGAGCCTACCCAAGA
48987 GTCACATTAG
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
30 2 0.03
31 68 0.96
32 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.27, T:0.15
Consensus pattern (31 bp):
GGGCCTGAGAGCCTACCCAAGAAAGATCTCA
Found at i:51575 original size:14 final size:14
Alignment explanation
Indices: 51517--51572 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
51507 AATGTCAACT
*
51517 AGTTGACCCAGT-G
1 AGTTGACTCAGTCG
**
51530 AGTTGACTCAACCG
1 AGTTGACTCAGTCG
*
51544 AGTTAACTCAGCTCG
1 AGTTGACTCAG-TCG
*
51559 GGTTGACTCAGTCG
1 AGTTGACTCAGTCG
51573 GGTAGGCGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 13 0.39
15 11 0.33
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (14 bp):
AGTTGACTCAGTCG
Found at i:53796 original size:16 final size:16
Alignment explanation
Indices: 53775--53805 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
53765 CATACTTAAT
53775 TTTTACTTTTTGTTTG
1 TTTTACTTTTTGTTTG
53791 TTTTACTTTTTGTTT
1 TTTTACTTTTTGTTT
53806 CAGTTAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.77
Consensus pattern (16 bp):
TTTTACTTTTTGTTTG
Found at i:53992 original size:21 final size:21
Alignment explanation
Indices: 53930--54001 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
53920 ATGTAAAAAT
53930 TTTCAATTTAAT--CTCAACA
1 TTTCAATTTAATCACTCAACA
* * * * *
53949 TTT-AAATTATTCATTAAAAA
1 TTTCAATTTAATCACTCAACA
53969 TTTCAATTTAATCACTCAACA
1 TTTCAATTTAATCACTCAACA
*
53990 TTTAAAATTTAA
1 TTT-CAATTTAA
54002 ATTATTCAGG
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
18 6 0.16
19 3 0.08
20 7 0.18
21 15 0.39
22 7 0.18
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTCAATTTAATCACTCAACA
Found at i:57024 original size:60 final size:59
Alignment explanation
Indices: 56919--57091 Score: 172
Period size: 60 Copynumber: 2.9 Consensus size: 59
56909 TATTTGGATG
** * * **
56919 AATTTAGGGATGAAATTGGAAGATTCAAATGTTTGGGGACCAATTTAGAAA-GAG-GATCAT
1 AATTTAGGGATGAAATTAAAAG-TTCAAAAGTTTAGGGATTAATTTA-AAATGAGAG-TCAT
* *
56979 AGTTTAGGGATGAAATTAAAATGTTCAAAAGTTTTGGGATTAATTTAAAATGAGAGTCAT
1 AATTTAGGGATGAAATTAAAA-GTTCAAAAGTTTAGGGATTAATTTAAAATGAGAGTCAT
* * *
57039 AATTTGGGGTTGAAATTAAAACATTCAAAAGTTTAAGGG-TTAATTTAAAATGA
1 AATTTAGGGATGAAATTAAAA-GTTCAAAAGTTT-AGGGATTAATTTAAAATGA
57092 AGGTTATAGT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.03
60 88 0.92
61 5 0.05
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (59 bp):
AATTTAGGGATGAAATTAAAAGTTCAAAAGTTTAGGGATTAATTTAAAATGAGAGTCAT
Found at i:59476 original size:18 final size:18
Alignment explanation
Indices: 59453--59503 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
59443 TTTTATACTA
59453 AAACAACACAACTGAATC
1 AAACAACACAACTGAATC
*
59471 AAACAACACAACCGAATC
1 AAACAACACAACTGAATC
59489 AAACAACACAACTGA
1 AAACAACACAACTGA
59504 TATACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.57, C:0.29, G:0.06, T:0.08
Consensus pattern (18 bp):
AAACAACACAACTGAATC
Found at i:60301 original size:42 final size:41
Alignment explanation
Indices: 60239--60382 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 41
60229 GAGCTATAAT
* * * *
60239 AAAAACGCCTCTAAGGTACATCACTATTGCGACGTTTATTAA
1 AAAAAAGCCACTAAAGTACAT-ACTATTGCGGCGTTTATTAA
* * *
60281 AAAAAAGCCACTAAATTACATGATTATTGCGGCGTTTATTAC
1 AAAAAAGCCACTAAAGTACAT-ACTATTGCGGCGTTTATTAA
**
60323 AAAAGTGCCACTAAAGTACATACCTA-TGCGGCG-TT-TTAA
1 AAAAAAGCCACTAAAGTACATA-CTATTGCGGCGTTTATTAA
60362 AAAAAACGCCACTAAAGTACA
1 AAAAAA-GCCACTAAAGTACA
60383 AGTCTAAGCG
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 7 0.08
40 16 0.19
41 8 0.09
42 54 0.64
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (41 bp):
AAAAAAGCCACTAAAGTACATACTATTGCGGCGTTTATTAA
Found at i:60674 original size:81 final size:81
Alignment explanation
Indices: 60558--60718 Score: 227
Period size: 81 Copynumber: 2.0 Consensus size: 81
60548 TATTCTGTTG
* * *
60558 CGACGTTTGTATACAAACGCAGCTAAGTACTTCTCTGTTGC-AGCGTTTGTTGTAAAAACACCAC
1 CGACATTTGTATACAAACGCAGCTAAGTACTTCTCTGTTGCGA-CATTTGTTGAAAAAACACCAC
60622 TATATATGAACCCTATA
65 TATATATGAACCCTATA
* * **
60639 CGACATTTTTATACAAACGCCGCTAAAGTAC-TCTCTGTTGCGACATTTGTTGAAAAAAGGCCAC
1 CGACATTTGTATACAAACGCAGCT-AAGTACTTCTCTGTTGCGACATTTGTTGAAAAAACACCAC
60703 TATATATGAACCCTAT
65 TATATATGAACCCTAT
60719 TGCGGCGTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
81 64 0.90
82 7 0.10
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (81 bp):
CGACATTTGTATACAAACGCAGCTAAGTACTTCTCTGTTGCGACATTTGTTGAAAAAACACCACT
ATATATGAACCCTATA
Found at i:65658 original size:2 final size:2
Alignment explanation
Indices: 65651--65684 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
65641 AAATCACAAA
65651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65685 TAAAAGTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69015 original size:32 final size:32
Alignment explanation
Indices: 68925--69051 Score: 114
Period size: 32 Copynumber: 4.0 Consensus size: 32
68915 CCAACCTAAG
*
68925 GGAGTATCTTGGGG-CTTGAGAGCCTACCCAAT
1 GGAGTACCTTGGGGCCTT-AGAGCCTACCCAAT
** ** * * *
68957 ATAGTACCTTAAGGCCTAAAAACCTACCCAAT
1 GGAGTACCTTGGGGCCTTAGAGCCTACCCAAT
*
68989 GGAGTACCTTGGGGCCTTAGAGCCTACTCAA-
1 GGAGTACCTTGGGGCCTTAGAGCCTACCCAAT
* * *
69020 GTAAGTGCCTTGGGGCCTCAGAGCCTACCCAA
1 G-GAGTACCTTGGGGCCTTAGAGCCTACCCAA
69052 GGTCACCTTA
Statistics
Matches: 73, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
31 1 0.01
32 70 0.96
33 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (32 bp):
GGAGTACCTTGGGGCCTTAGAGCCTACCCAAT
Found at i:72541 original size:35 final size:35
Alignment explanation
Indices: 72485--72568 Score: 125
Period size: 35 Copynumber: 2.3 Consensus size: 35
72475 AAAACTTGCA
*
72485 AAAATAATCCTCAATTTCATTCTAAATCCT-AAATTCT
1 AAAATAAT--TCAATTACATTCTAAA-CCTCAAATTCT
72522 AAAATAATTCAATTACATTCTAAACCTCAAATTCT
1 AAAATAATTCAATTACATTCTAAACCTCAAATTCT
72557 AAAATAATTCAA
1 AAAATAATTCAA
72569 AATAATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
34 3 0.07
35 34 0.76
37 8 0.18
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAATAATTCAATTACATTCTAAACCTCAAATTCT
Found at i:73780 original size:18 final size:18
Alignment explanation
Indices: 73737--73786 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
73727 AACATCAACC
*
73737 ATTTTATCTTTTTGTAAG
1 ATTTTATATTTTTGTAAG
*
73755 TTTCTTATATTTTT-TATAG
1 ATT-TTATATTTTTGTA-AG
73774 ATTTTATATTTTT
1 ATTTTATATTTTT
73787 ATGACCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.68
Consensus pattern (18 bp):
ATTTTATATTTTTGTAAG
Found at i:73842 original size:9 final size:9
Alignment explanation
Indices: 73828--73855 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
73818 ATTATTCTTA
73828 TATTTTAAT
1 TATTTTAAT
73837 TATTTTAAT
1 TATTTTAAT
73846 TATTTTAAT
1 TATTTTAAT
73855 T
1 T
73856 TATATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTAAT
Found at i:74197 original size:24 final size:26
Alignment explanation
Indices: 74158--74211 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
74148 ATAAACTTCT
*
74158 TTTTACTTATAAA-TTTTATAATTTA
1 TTTTACTTATAAATTTTTAAAATTTA
*
74183 TTTT-CTTATATATTTTTAAAATTTA
1 TTTTACTTATAAATTTTTAAAATTTA
74208 TTTT
1 TTTT
74212 GATATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTACTTATAAATTTTTAAAATTTA
Found at i:74737 original size:13 final size:13
Alignment explanation
Indices: 74719--74745 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74709 CATAGTTGAA
74719 CAGTCTTCATATG
1 CAGTCTTCATATG
74732 CAGTCTTCATATG
1 CAGTCTTCATATG
74745 C
1 C
74746 GCGTCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:74986 original size:25 final size:25
Alignment explanation
Indices: 74861--74988 Score: 71
Period size: 25 Copynumber: 5.0 Consensus size: 25
74851 GAAGTCAGCG
* * *
74861 ATAACTTATTTAAAAATTAAATATA
1 ATAAATTATTAAAAAATTAAAAATA
* * * **
74886 A-AATATTATTAAAATATCAAACAGG
1 ATAA-ATTATTAAAAAATTAAAAATA
* *
74911 AT-AATTATTAAAAAAATCAAAATA
1 ATAAATTATTAAAAAATTAAAAATA
* * * *
74935 AAAAATAAAATATCAAAAGTTATAAAATA
1 ATAAAT--TAT-TAAAAAATTA-AAAATA
74964 ATAAATTATTAAAAAATTAAAAATA
1 ATAAATTATTAAAAAATTAAAAATA
74989 TTTATAAAAT
Statistics
Matches: 72, Mismatches: 24, Indels: 14
0.65 0.22 0.13
Matches are distributed among these distances:
24 17 0.24
25 26 0.36
26 8 0.11
27 4 0.06
28 6 0.08
29 11 0.15
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAAATTATTAAAAAATTAAAAATA
Found at i:74997 original size:18 final size:19
Alignment explanation
Indices: 74954--74998 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
74944 ATATCAAAAG
74954 TTATAAAA-TAATAAATTA
1 TTATAAAATTAATAAATTA
*
74972 TTAAAAAATTAA-AAA-TA
1 TTATAAAATTAATAAATTA
74989 TTTATAAAAT
1 -TTATAAAAT
74999 CTTTATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTATAAAATTAATAAATTA
Found at i:75510 original size:77 final size:80
Alignment explanation
Indices: 75357--75510 Score: 190
Period size: 77 Copynumber: 1.9 Consensus size: 80
75347 TAGAAAAAAT
* * * * *
75357 AACATTTTAGTTAGCGTCCAATATTAATATTTTCGATAGAAAAAAAATAATATTTTAAGTAGCGT
1 AACATTTTAGTTAACGCCCAATATTAATATTTTC-ATAGAAAAAAAATAATATTTTAAATAACAT
*
75422 TTTACCGAAAATGTTA
65 TTTACCAAAAATGTTA
*
75438 AACATTTTA-TATAACGCCCAATATTAATA-TTTC-T-GAAAAAAAATTATATTTTAAATAACAT
1 AACATTTTAGT-TAACGCCCAATATTAATATTTTCATAGAAAAAAAATAATATTTTAAATAACAT
*
75499 TTTATCAAAAAT
65 TTTACCAAAAAT
75511 ATTACAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 33 0.52
78 1 0.02
80 5 0.08
81 25 0.39
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (80 bp):
AACATTTTAGTTAACGCCCAATATTAATATTTTCATAGAAAAAAAATAATATTTTAAATAACATT
TTACCAAAAATGTTA
Found at i:75745 original size:20 final size:21
Alignment explanation
Indices: 75720--75760 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
75710 CAGCGCGAAT
*
75720 TTTGGAATT-GCAATACAGAA
1 TTTGGAATTCGCAACACAGAA
75740 TTTGGAATTCGCAACACAGAA
1 TTTGGAATTCGCAACACAGAA
75761 GTCAAATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (21 bp):
TTTGGAATTCGCAACACAGAA
Found at i:75803 original size:61 final size:61
Alignment explanation
Indices: 75702--75818 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 61
75692 ACACAGTTTC
* * * * *
75702 CAAATTCGCAGCGCGAATTTTGGAATTGCAATACAGAATTTGGAATTCGCAACACAGAAGT
1 CAAATTCGCAACGCGAATTTTGCAATTGCAACACAGAATTTGAAATTCACAACACAGAAGT
* *
75763 CAAATTCGCAACTCG-ATTTTGACAATTTGCAACACA-AATTTTAAATTCACAACACA
1 CAAATTCGCAACGCGAATTTTG-CAA-TTGCAACACAGAATTTGAAATTCACAACACA
75819 AGTTTCCTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 6 0.13
61 32 0.68
62 9 0.19
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (61 bp):
CAAATTCGCAACGCGAATTTTGCAATTGCAACACAGAATTTGAAATTCACAACACAGAAGT
Found at i:76119 original size:16 final size:16
Alignment explanation
Indices: 76098--76128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76088 ATCTCTAATT
76098 TTTTTACATAATTTTA
1 TTTTTACATAATTTTA
*
76114 TTTTTATATAATTTT
1 TTTTTACATAATTTT
76129 TCAATGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTACATAATTTTA
Found at i:76723 original size:12 final size:12
Alignment explanation
Indices: 76702--76731 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
76692 ACCACTTTTT
*
76702 CAATACCAAACA
1 CAATATCAAACA
76714 CAATATCAAACA
1 CAATATCAAACA
76726 CAATAT
1 CAATAT
76732 AAAAATCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:76874 original size:24 final size:24
Alignment explanation
Indices: 76856--76902 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
76846 AGTCAGTATT
76856 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
* *
76880 CGGACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
76903 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:76907 original size:24 final size:24
Alignment explanation
Indices: 76861--76914 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
76851 GTATTCGAAA
76861 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
76885 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
76909 TTTGAT
1 TTTGAT
76915 GATGTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:79499 original size:20 final size:21
Alignment explanation
Indices: 79474--79537 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
79464 ATTCGCAACT
*
79474 CAAATTCAAAACTCGAATT-G
1 CAAATTCAAAACTCAAATTCG
*
79494 CAAATTCGAAACTCAAATTCG
1 CAAATTCAAAACTCAAATTCG
*
79515 C-AACTCGAAAA-TCAAATTCG
1 CAAATTC-AAAACTCAAATTCG
79535 CAA
1 CAA
79538 CACGAAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 31 0.84
21 6 0.16
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.22
Consensus pattern (21 bp):
CAAATTCAAAACTCAAATTCG
Found at i:79531 original size:33 final size:33
Alignment explanation
Indices: 79464--79574 Score: 107
Period size: 33 Copynumber: 3.2 Consensus size: 33
79454 ACTTCTCCAG
* * *
79464 ATTCGCAACTCAAATTCAAAACTCG-AATTGCAA
1 ATTCGAAACTCAAATTCACAACTCGAAAAT-CAA
*
79497 ATTCGAAACTCAAATTCGCAACTCGAAAATCAA
1 ATTCGAAACTCAAATTCACAACTCGAAAATCAA
79530 ATTCGCAACACGAAAATCAAATTCACAACTCGAAAATCAA
1 ATTCG-AA-AC-----TCAAATTCACAACTCGAAAATCAA
79570 ATTCG
1 ATTCG
79575 CATTGCAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
33 30 0.46
34 5 0.08
35 2 0.03
40 28 0.43
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (33 bp):
ATTCGAAACTCAAATTCACAACTCGAAAATCAA
Found at i:79538 original size:20 final size:20
Alignment explanation
Indices: 79499--79576 Score: 129
Period size: 20 Copynumber: 3.9 Consensus size: 20
79489 AATTGCAAAT
*
79499 TCGAAACTCAAATTCGCAAC
1 TCGAAAATCAAATTCGCAAC
79519 TCGAAAATCAAATTCGCAAC
1 TCGAAAATCAAATTCGCAAC
* *
79539 ACGAAAATCAAATTCACAAC
1 TCGAAAATCAAATTCGCAAC
79559 TCGAAAATCAAATTCGCA
1 TCGAAAATCAAATTCGCA
79577 TTGCAAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.19
Consensus pattern (20 bp):
TCGAAAATCAAATTCGCAAC
Found at i:79626 original size:20 final size:20
Alignment explanation
Indices: 79600--79758 Score: 133
Period size: 20 Copynumber: 8.0 Consensus size: 20
79590 TATCCTGTTG
*
79600 CGATTTTCGTGTTGCGAATT
1 CGATTTTCGAGTTGCGAATT
* * * * *
79620 TGATTTTTGAATTGTGAAAT
1 CGATTTTCGAGTTGCGAATT
* *
79640 CGATTTTCGCA-ATGCAAATT
1 CGATTTTCG-AGTTGCGAATT
*
79660 CGA-TTTCGAGTTGCAAATT
1 CGATTTTCGAGTTGCGAATT
* * * *
79679 TGATTTTTGAATTGCGAAAT
1 CGATTTTCGAGTTGCGAATT
* *
79699 CAATTTTCGCGTTGCGAATT
1 CGATTTTCGAGTTGCGAATT
* *
79719 CGATTTTCGAGTTACAAATT
1 CGATTTTCGAGTTGCGAATT
*
79739 CGATTTTCGAGTTGCAAATT
1 CGATTTTCGAGTTGCGAATT
79759 TGAATACCGT
Statistics
Matches: 107, Mismatches: 29, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
18 1 0.01
19 15 0.14
20 90 0.84
21 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (20 bp):
CGATTTTCGAGTTGCGAATT
Found at i:79698 original size:59 final size:60
Alignment explanation
Indices: 79600--79745 Score: 204
Period size: 59 Copynumber: 2.5 Consensus size: 60
79590 TATCCTGTTG
* * * *
79600 CGATTTTCGTGTTGCGAATTTGATTTTTGAATTGTGAAATCGATTTTCGCAATGCAAATT
1 CGATTTTCGAGTTGCAAATTTGATTTTTGAATTGCGAAATCAATTTTCGCAATGCAAATT
** *
79660 CGA-TTTCGAGTTGCAAATTTGATTTTTGAATTGCGAAATCAATTTTCGCGTTGCGAATT
1 CGATTTTCGAGTTGCAAATTTGATTTTTGAATTGCGAAATCAATTTTCGCAATGCAAATT
* *
79719 CGATTTTCGAGTTACAAATTCGATTTT
1 CGATTTTCGAGTTGCAAATTTGATTTT
79746 CGAGTTGCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
59 52 0.68
60 24 0.32
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (60 bp):
CGATTTTCGAGTTGCAAATTTGATTTTTGAATTGCGAAATCAATTTTCGCAATGCAAATT
Found at i:81617 original size:21 final size:21
Alignment explanation
Indices: 81593--81648 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
81583 ATGTGGATCC
*
81593 TGAATGATGGGAGGGGCCTCT
1 TGAATGATGAGAGGGGCCTCT
*
81614 TGAACGATGAGAGGGGCCTCT
1 TGAATGATGAGAGGGGCCTCT
81635 TGAATGATGAGAGG
1 TGAATGATGAGAGG
81649 TGAATCCTGA
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:0.25, C:0.12, G:0.41, T:0.21
Consensus pattern (21 bp):
TGAATGATGAGAGGGGCCTCT
Found at i:81659 original size:21 final size:21
Alignment explanation
Indices: 81589--81701 Score: 75
Period size: 21 Copynumber: 5.4 Consensus size: 21
81579 TGGAATGTGG
* * *
81589 ATCCTGAATGATGGGAGGGGC
1 ATCCTGAACGATGAGAGGTGC
* * *
81610 CTCTTGAACGATGAGAGGGGC
1 ATCCTGAACGATGAGAGGTGC
* * * *
81631 CTCTTGAATGATGAGAGGTGA
1 ATCCTGAACGATGAGAGGTGC
* * *
81652 ATCCTGAACAATGGGAGGTGG
1 ATCCTGAACGATGAGAGGTGC
* *
81673 ATCCTGAACAATG-GTAGGTGG
1 ATCCTGAACGATGAG-AGGTGC
81694 ATCCTGAA
1 ATCCTGAA
81702 TAATGGTAGG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 1 0.01
21 77 0.99
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.22
Consensus pattern (21 bp):
ATCCTGAACGATGAGAGGTGC
Found at i:81706 original size:21 final size:21
Alignment explanation
Indices: 81646--81717 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
81636 GAATGATGAG
* *
81646 AGGTGAATCCTGAACAATGGG
1 AGGTGGATCCTGAACAATGGT
81667 AGGTGGATCCTGAACAATGGT
1 AGGTGGATCCTGAACAATGGT
*
81688 AGGTGGATCCTGAATAATGGT
1 AGGTGGATCCTGAACAATGGT
81709 AGGTGGATC
1 AGGTGGATC
81718 AGGCTTCTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (21 bp):
AGGTGGATCCTGAACAATGGT
Found at i:82047 original size:21 final size:21
Alignment explanation
Indices: 82023--82094 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
82013 TCTATCTTAT
82023 CACGTAAAGCAGCTACCTCAC
1 CACGTAAAGCAGCTACCTCAC
* ** *
82044 CACGTAAAGCA-CCATTGTCAT
1 CACGTAAAGCAGCTA-CCTCAC
* *
82065 CATGTAAAACAGCTACCTCAC
1 CACGTAAAGCAGCTACCTCAC
*
82086 CATGTAAAG
1 CACGTAAAG
82095 ACCCTACGTC
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (21 bp):
CACGTAAAGCAGCTACCTCAC
Found at i:82106 original size:42 final size:42
Alignment explanation
Indices: 82021--82110 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
82011 CATCTATCTT
* *
82021 ATCACGTAAAGCAGCTACCTCACCACGTAAAGCACCATTGTC
1 ATCACGTAAAACAGCTACCTCACCACGTAAAGCACCATCGTC
* * *
82063 ATCATGTAAAACAGCTACCTCACCATGTAAAG-ACCCTACGTC
1 ATCACGTAAAACAGCTACCTCACCACGTAAAGCACCAT-CGTC
82105 ATCACG
1 ATCACG
82111 CCATGCACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 4 0.10
42 37 0.90
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.20
Consensus pattern (42 bp):
ATCACGTAAAACAGCTACCTCACCACGTAAAGCACCATCGTC
Found at i:82145 original size:63 final size:62
Alignment explanation
Indices: 82052--82173 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 62
82042 ACCACGTAAA
* * * *
82052 GCACCATTGTCATCATGTAAAACAGCTACCTCACCATGTAAAGACCCT-ACGTCATCACGCCAT
1 GCACCATTGTCATCACGTAAAACA-CTACCTCACCACGTAAA-ACACTGACCTCATCACGCCAT
*
82115 GCACCATTGTCATCACGTAAAGA-ACATACCTCATCACGTAAAACACTGACCTCATCACG
1 GCACCATTGTCATCACGTAAA-ACAC-TACCTCACCACGTAAAACACTGACCTCATCACG
82174 TAAAGCATCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
62 5 0.10
63 45 0.88
64 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.21
Consensus pattern (62 bp):
GCACCATTGTCATCACGTAAAACACTACCTCACCACGTAAAACACTGACCTCATCACGCCAT
Found at i:82148 original size:21 final size:23
Alignment explanation
Indices: 82124--82178 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 23
82114 TGCACCATTG
82124 TCATCACGTAAAGAACA-T-ACC
1 TCATCACGTAAAGAACACTGACC
82145 TCATCACGT-AA-AACACTGACC
1 TCATCACGTAAAGAACACTGACC
82166 TCATCACGTAAAG
1 TCATCACGTAAAG
82179 CATCTAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 21 0.70
22 2 0.07
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (23 bp):
TCATCACGTAAAGAACACTGACC
Found at i:82316 original size:21 final size:21
Alignment explanation
Indices: 82292--82356 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
82282 GTGATGAAAT
82292 AGGTGATGGATCTCGGTGTCG
1 AGGTGATGGATCTCGGTGTCG
* * ** *
82313 AGGTG-TAGA-GTC-GAATAG
1 AGGTGATGGATCTCGGTGTCG
*
82331 AGGTGATGGCTCTCGGTGTCG
1 AGGTGATGGATCTCGGTGTCG
82352 AGGTG
1 AGGTG
82357 TAAAATCGGC
Statistics
Matches: 30, Mismatches: 11, Indels: 6
0.64 0.23 0.13
Matches are distributed among these distances:
18 8 0.27
19 4 0.13
20 5 0.17
21 13 0.43
ACGTcount: A:0.18, C:0.12, G:0.43, T:0.26
Consensus pattern (21 bp):
AGGTGATGGATCTCGGTGTCG
Found at i:82400 original size:42 final size:42
Alignment explanation
Indices: 82331--82434 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
82321 AGTCGAATAG
*
82331 AGGTGATGGCTCTCGGTGTCGAGGTGTAAAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTAAAATCAGCTCGATC
* * * *
82373 ATGTGATGGCTCTCGGTGTTGATGTGTAGAATCAGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTAAAATCAGCTCGATC
* *
82415 AGGTGATGGATCTCAGTGTC
1 AGGTGATGGCTCTCGGTGTC
82435 AAAATGGAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGGTGTAAAATCAGCTCGATC
Found at i:82474 original size:41 final size:42
Alignment explanation
Indices: 82400--82496 Score: 126
Period size: 41 Copynumber: 2.3 Consensus size: 42
82390 GTTGATGTGT
**
82400 AGAATC-AGCTCGATCAGGTGATGGATCTCAGTGTCAAAATGG
1 AGAATCGA-CTCGATCAGGTGATGGATCTCAGTGTCAAAATAA
* * *
82442 AGAATCGACTCGATCA-GTGATGGATCTTAGTGTCGAAGTAA
1 AGAATCGACTCGATCAGGTGATGGATCTCAGTGTCAAAATAA
82483 AGAATCGACTCGAT
1 AGAATCGACTCGAT
82497 GAAAAAGTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 34 0.69
42 14 0.29
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (42 bp):
AGAATCGACTCGATCAGGTGATGGATCTCAGTGTCAAAATAA
Found at i:84021 original size:15 final size:15
Alignment explanation
Indices: 84003--84069 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 15
83993 CAAGAAACTT
*
84003 AAATTCGTAACACGA
1 AAATTCGCAACACGA
84018 AAA-TCGCAACACGAAAA
1 AAATTCGCAACACG---A
84035 TGAAATTCGCAACACGA
1 --AAATTCGCAACACGA
*
84052 AAA-TCGCAACTCGA
1 AAATTCGCAACACGA
84066 AAAT
1 AAAT
84070 GAACTTCGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
14 22 0.51
15 6 0.14
17 2 0.05
19 3 0.07
20 10 0.23
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.15
Consensus pattern (15 bp):
AAATTCGCAACACGA
Found at i:84044 original size:20 final size:20
Alignment explanation
Indices: 84016--84055 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
84006 TTCGTAACAC
84016 GAAAATCGCAACACGAAAAT
1 GAAAATCGCAACACGAAAAT
*
84036 GAAATTCGCAACACGAAAAT
1 GAAAATCGCAACACGAAAAT
84056 CGCAACTCGA
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:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (20 bp):
GAAAATCGCAACACGAAAAT
Found at i:84049 original size:34 final size:34
Alignment explanation
Indices: 84003--84081 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
83993 CAAGAAACTT
*
84003 AAATTCGTAACACGAAAATCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATCGCAACACGAAAATG
*
84037 AAATTCGCAACACGAAAATCGCAACTCGAAAATG
1 AAATTCGCAACACGAAAATCGCAACACGAAAATG
*
84071 AACTTCGCAAC
1 AAATTCGCAAC
84082 GCGCTTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.15
Consensus pattern (34 bp):
AAATTCGCAACACGAAAATCGCAACACGAAAATG
Found at i:84115 original size:20 final size:21
Alignment explanation
Indices: 84086--84124 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
84076 CGCAACGCGC
84086 TTTTAGTTTTCGCGTTGCGAA
1 TTTTAGTTTTCGCGTTGCGAA
*
84107 TTTTA-TTTTCGTGTTGCG
1 TTTTAGTTTTCGCGTTGCG
84125 CTTTTCGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.54
Consensus pattern (21 bp):
TTTTAGTTTTCGCGTTGCGAA
Found at i:84131 original size:14 final size:14
Alignment explanation
Indices: 84111--84143 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
84101 TGCGAATTTT
84111 ATTTTCGTGTTGCG
1 ATTTTCGTGTTGCG
*
84125 CTTTTCGTGTTGCG
1 ATTTTCGTGTTGCG
84139 ATTTT
1 ATTTT
84144 AAGTTTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (14 bp):
ATTTTCGTGTTGCG
Found at i:86178 original size:14 final size:14
Alignment explanation
Indices: 86161--86190 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
86151 TAAGATAAAG
86161 TTGATAATGCTATT
1 TTGATAATGCTATT
86175 TTGATAATGCTATT
1 TTGATAATGCTATT
86189 TT
1 TT
86191 ATTTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTGATAATGCTATT
Found at i:86241 original size:42 final size:42
Alignment explanation
Indices: 86182--86267 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
86172 ATTTTGATAA
86182 TGCTATTTTATTTTAATTTTATGACCCTTAAAGTCAAAATAT
1 TGCTATTTTATTTTAATTTTATGACCCTTAAAGTCAAAATAT
* *
86224 TGCTATTTTATTTTAATTTTGTGATCCTTAAAGTCAAAATAT
1 TGCTATTTTATTTTAATTTTATGACCCTTAAAGTCAAAATAT
86266 TG
1 TG
86268 TTAAACAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.49
Consensus pattern (42 bp):
TGCTATTTTATTTTAATTTTATGACCCTTAAAGTCAAAATAT
Found at i:86527 original size:28 final size:29
Alignment explanation
Indices: 86485--86581 Score: 74
Period size: 31 Copynumber: 3.3 Consensus size: 29
86475 TCATTCATTA
* *
86485 AAAAATAATTATTAAACTTTCAACCAATT
1 AAAAATAATCATTAAACTTTCAAACAATT
* * *
86514 AAAAAT-ATCATT-AATTTTTAAACTATT
1 AAAAATAATCATTAAACTTTCAAACAATT
* *
86541 ATAAAATGATCATTAAACCTATCAAA-ATATT
1 A-AAAATAATCATTAAA-CTTTCAAACA-ATT
86572 ATAAAATAAT
1 A-AAAATAAT
86582 TCTTAAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
27 12 0.23
28 10 0.19
29 12 0.23
30 2 0.04
31 17 0.32
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAAATAATCATTAAACTTTCAAACAATT
Found at i:86600 original size:18 final size:18
Alignment explanation
Indices: 86577--86617 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
86567 ATATTATAAA
86577 ATAATTCTTAAATT-TATT
1 ATAATT-TTAAATTATATT
*
86595 ATAATTTTAAATTATTTT
1 ATAATTTTAAATTATATT
86613 ATAAT
1 ATAAT
86618 ATACAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATAATTTTAAATTATATT
Found at i:87602 original size:60 final size:60
Alignment explanation
Indices: 87488--87603 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
87478 TAAATTTATA
* * ** * *
87488 GATGAAATTGCAATATTCAAAAGTTTTGGGACCAATTTAGAAAGAGGGTCATAGTTAATG
1 GATGAAATTACAATATTAAAAAGTTTAAGGACCAATTTAGAAAAAGAGTCATAGTTAATG
* *
87548 GATGAAATTATAATATTAAAAAGTTTAAGGACCAATTTA-AAATAAGAGTTATAGTT
1 GATGAAATTACAATATTAAAAAGTTTAAGGACCAATTTAGAAA-AAGAGTCATAGTT
87604 TGGGTAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 3 0.06
60 44 0.94
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (60 bp):
GATGAAATTACAATATTAAAAAGTTTAAGGACCAATTTAGAAAAAGAGTCATAGTTAATG
Found at i:88772 original size:24 final size:24
Alignment explanation
Indices: 88721--88774 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
88711 GTATTCGAAA
*
88721 TTTGATCTTGGTAAATACCCGGAC
1 TTTGATCTTGGTAAATACCCAGAC
* * *
88745 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTAAATACCCAGAC
88769 TTTGAT
1 TTTGAT
88775 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTAAATACCCAGAC
Found at i:91276 original size:140 final size:140
Alignment explanation
Indices: 91023--91305 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
91013 TGCAACGTTG
91023 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
91088 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATAACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTCTTATCACTTATAACACATTCATTTGAATATCGCAACG
91153 CGAATTTGAC
131 CGAATTTGAC
91163 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
91228 TTGAACATTGCTATGATCTGTTCAGTTCTTATCACTTATTACATATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTCTTATCACTTATAACACATTCATTTGAATATCGCAACG
91293 CGAATTTGAC
131 CGAATTTGAC
91303 TAT
1 TAT
91306 CGCAACACGA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTCTTATCACTTATAACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:91301 original size:20 final size:20
Alignment explanation
Indices: 91276--91426 Score: 188
Period size: 20 Copynumber: 7.8 Consensus size: 20
91266 TTACATATTC
*
91276 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
91296 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
91316 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
91335 A----A-AATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
91350 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
91370 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
91390 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
91410 ATTTGACTATCGAAACG
1 ATTTGACTATCGCAACG
91427 AGAAAATTGC
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
14 10 0.09
15 3 0.03
19 3 0.03
20 98 0.86
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:91343 original size:14 final size:14
Alignment explanation
Indices: 91324--91350 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91314 GAATTTGACT
91324 ATCGCAACGCAAAA
1 ATCGCAACGCAAAA
91338 ATCGCAACGCAAA
1 ATCGCAACGCAAA
91351 TTTGACTATC
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):
ATCGCAACGCAAAA
Found at i:91371 original size:54 final size:54
Alignment explanation
Indices: 91284--91386 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
91274 TCATTTGAAT
*
91284 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAA
1 ATCGCAACGCAAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAA
*
91338 ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
1 ATCGCAACGCAAATTTGACTATCGCAACACGAATTTGACTATCGCAACG
91387 TGAATTTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.21
Consensus pattern (54 bp):
ATCGCAACGCAAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAA
Found at i:91452 original size:94 final size:94
Alignment explanation
Indices: 91276--91475 Score: 260
Period size: 94 Copynumber: 2.1 Consensus size: 94
91266 TTACATATTC
* *
91276 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAAATC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGAAACGCAAAAATC
* * *
91341 GCAACGCAAATTTGACTATCGCAACGCGA
66 GCAAAGCAAATTAGACTATCGCAACACGA
* * **
91370 ATTTGACTATCGCAACGTGAATTTGATTATCGCAACGGGAATTTGACTATCGAAACG-AGAAAAT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGAAACGCA-AAAAT
* **
91434 TGCAAAGCGTATTAGACTATCGCAACACGA
65 CGCAAAGCAAATTAGACTATCGCAACACGA
*
91464 A-TTGACTTTCGC
1 ATTTGACTATCGC
91476 GTTGCGATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 11 0.12
94 81 0.88
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (94 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGAAACGCAAAAATC
GCAAAGCAAATTAGACTATCGCAACACGA
Found at i:91490 original size:20 final size:20
Alignment explanation
Indices: 91465--91522 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
91455 GCAACACGAA
91465 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
91485 TTGACTTTCGCATTACGATT
1 TTGACTTTCGCGTTGCGATT
* *
91505 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
91523 AAGTGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.16, C:0.17, G:0.24, T:0.43
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:93061 original size:21 final size:21
Alignment explanation
Indices: 93035--93197 Score: 132
Period size: 21 Copynumber: 7.7 Consensus size: 21
93025 GGTGGGAGAA
* *
93035 CCTCTTCAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
93056 CCTCTTGAATGATGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* ** *
93077 ACTCTTGAGGGATGATAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
93098 CCTCTTGAAACGAT-AGGAGAGG
1 CCTCTTG-AACGATGA-GAGGGG
* *
93120 CCTCTTGAATGATGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* ** *
93141 ACTCTTGAGGGATGATAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
93162 CCTCTTGAACGAT-AGGAGAGG
1 CCTCTTGAACGATGA-GAGGGG
*
93183 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
93198 CATATGAGTC
Statistics
Matches: 109, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.01
21 92 0.84
22 16 0.15
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:93122 original size:64 final size:63
Alignment explanation
Indices: 93054--93196 Score: 277
Period size: 64 Copynumber: 2.3 Consensus size: 63
93044 CGATGACAGG
93054 GGCCTCTTGAATGATGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAAACGATAGGAGA
1 GGCCTCTTGAATGATGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTG-AACGATAGGAGA
93118 GGCCTCTTGAATGATGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAGGAGA
1 GGCCTCTTGAATGATGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAGGAGA
93181 GGCCTCTTGAATGATG
1 GGCCTCTTGAATGATG
93197 ACATATGAGT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 28 0.35
64 51 0.65
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.23
Consensus pattern (63 bp):
GGCCTCTTGAATGATGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAGGAGA
Found at i:93688 original size:20 final size:20
Alignment explanation
Indices: 93663--93701 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
93653 GAATAGTTTC
93663 TGAAACTTAAAATCGCAACA
1 TGAAACTTAAAATCGCAACA
93683 TGAAACTTAAAATCGCAAC
1 TGAAACTTAAAATCGCAAC
93702 GCGAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (20 bp):
TGAAACTTAAAATCGCAACA
Found at i:93707 original size:20 final size:20
Alignment explanation
Indices: 93664--93707 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
93654 AATAGTTTCT
*
93664 GAAACTTAAAATCGCAACAT
1 GAAACTTAAAATCGCAACAC
*
93684 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
93704 GAAA
1 GAAA
93708 ATGACTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:93927 original size:20 final size:19
Alignment explanation
Indices: 93862--93928 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
93852 GATTATCCCG
* *
93862 TTTGCGATAGTCAAATTCGA
1 TTTGCGATAGTC-ATTTCGC
* *
93882 ATTGCGATAGTCATTCCGC
1 TTTGCGATAGTCATTTCGC
*
93901 GTTGCGATAGTCATTTTCGC
1 TTTGCGATAGTCA-TTTCGC
93921 TTTGCGAT
1 TTTGCGAT
93929 TTAAGTTTCG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.41
20 23 0.59
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (19 bp):
TTTGCGATAGTCATTTCGC
Found at i:95837 original size:20 final size:20
Alignment explanation
Indices: 95812--95850 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95802 TATGAAACTT
*
95812 AAAATCGCAACACAAAAATA
1 AAAATCGAAACACAAAAATA
*
95832 AAAATCGAAACACGAAAAT
1 AAAATCGAAACACAAAAAT
95851 GACTATCGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.18, G:0.08, T:0.10
Consensus pattern (20 bp):
AAAATCGAAACACAAAAATA
Found at i:95897 original size:33 final size:33
Alignment explanation
Indices: 95855--95928 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
95845 GAAAATGACT
** ** *
95855 ATCGCAACGCGATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
*
95888 ATCGCAACGCGAAATGAAAATCGCAATGAGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
95921 ATCGCAAC
1 ATCGCAAC
95929 ATGAAACTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
Found at i:96662 original size:20 final size:19
Alignment explanation
Indices: 96639--96684 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
96629 GGAAACTGAT
* *
96639 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
96659 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
96678 TTGCGAT
1 TTGCGAT
96685 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:96674 original size:19 final size:19
Alignment explanation
Indices: 96650--96686 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
96640 TGCGATACTG
*
96650 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
96669 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
96687 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:97121 original size:2 final size:2
Alignment explanation
Indices: 97114--97149 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
97104 CTTGTTATTC
*
97114 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97150 TCTTGGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:98328 original size:24 final size:23
Alignment explanation
Indices: 98293--98340 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
98283 TCATTAACAC
*
98293 TTTTTTTGTTAGATCGGTAAATG
1 TTTTTTTATTAGATCGGTAAATG
*
98316 TTTTTTTAATTAGATGGGTAAATG
1 TTTTTTT-ATTAGATCGGTAAATG
98340 T
1 T
98341 GAATGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (23 bp):
TTTTTTTATTAGATCGGTAAATG
Found at i:101867 original size:683 final size:694
Alignment explanation
Indices: 99519--102546 Score: 2986
Period size: 705 Copynumber: 4.4 Consensus size: 694
99509 ATGATCTTTC
* * * * * * *
99519 ATCAAA-GATCTCAACGGTTGA-GAGCAACATCAATACCACGGATCTAAACTATAATTGCGATC-
1 ATCAAAGGGTCTCAACGGTTGATGAGC-ACACCAGTACCAC-AATCTAAATTATGATTGCGGTCA
** * *
99581 GTTTTTCGGTTACGTACGTTTATCGTAATTGCGGACATAATAGATGCTATTGT-AATGATTGC-A
64 CATTTTCGGTTACGTACGTTTATCGCAATTGCGGACATAATAGACGCTATT-TCAATGATTGCGA
* * * * *
99644 GGTATTGCAGTTATACAGA-AACGGTT-CGGAAGACACTGTTATTGCTATATAACGACGATATTA
128 -GTATTGCGGTTATACA-ATAACGGTTGCGGAAGACACCGCTATCGCTATATAACGACGCTATTA
* *
99707 CGATCGGGACCGCTATTTAAAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAACTCTAC
191 CGATCGTGACCGCTATTT-AAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAACCCTAC
* * ** *
99772 ATGTTAGACATAATGCTCTGAA-TCCTAGAAAGCTTATCATAAACCACC--AGTGTAGATATC-A
255 ATGTTAGAAATAATGCTCTGAATTCCTAGACAGCTTATCACGAACCACCATAGTGTAAATATCAA
* **
99833 AAGTATATCCCCCAACCTGAAAATCCAAAGAAGAT---AG-AAGGGAAGAGGTGGAAAAGTTGAC
320 AAGTATATCCCCCAACCTGTAAATCCAAAGAAGATAGAAGTAAGGGAAGAGGTGGAAAAGCAGAC
*
99894 CAAACAGATTGAAGAGTTGAGAGCTATGTTGGTAGCTAA-TACGGGTGTTCTGCTTCACGGTAGC
385 CAAACAAATTGAAGAGTT----G-TA-----GTAGCTAAGTA---G-GTTCTGCTTCACGGTAGC
* **
99958 TTAATTTCAAGTTAATTTAAGAGGTTTTCAAA---AAAATATTATCCTGTTCAACATAGCTCTCA
436 TTAATTTAAAGTTAATTTAAGA-CATTT-AAACCTAAAATATTA---TGTTCAACATAGCTCTCA
*
100020 ACCTT-AAA-ATGCCTTGCATACACCACTTCTACCAATTTTGCTCCAAACATTTTGCTC-CAGTG
496 ACCTTAAAATATG-CTTGCATACACCACTTCTACCAA--------C--AC--TTTGCTCAAAGTG
* *
100082 TTGTAGTTAAACTCAAC-TCTTTTTCTAGTCTCAGCGAAAAAACCCATAAGCATAAACATATGAT
548 TTGTAGTTAAATTCAACATATTTTTCTAGTCTCAGCG-AAAAACCCATAAGCATAAACATATGAT
* * * * *
100146 CTTTCATTGAAATCCTTG-GAAAAAACTATCCAAGAGTTTTTATTGGCTCAATATTCTACTAGGA
612 CTTTCATCGAAATCCATGAAAAAAAACTATCCAAGAGTTATTATTGGCTCAATATTCCACTAGGA
* *
100210 GACGAC-AAATCAAAATT
677 GACGACAAAATGAAAATG
* * * ** * * * ***
100227 ATCAAAAGGTCTCAATGGTTGATGAACACATTAGTATCAATAATCTAAATTATGATTGCGATTGT
1 ATCAAAGGGTCTCAACGGTTGATGAGCACACCAGTA-CCACAATCTAAATTATGATTGCGGTCAC
* * * * *
100292 GTTTT-GGTTAC-TACGTTAATCACAATTGCGTACATAATAGA--CTATTT-AATGA-TGCGGGT
65 ATTTTCGGTTACGTACGTTTATCGCAATTGCGGACATAATAGACGCTATTTCAATGATTGCGAGT
** * * * *
100351 ATTGCGACTATACAATAACGGTTGCAGAAGATACCGATATCGCTATATAACGGACGCTATTGCGA
130 ATTGCGGTTATACAATAACGGTTGCGGAAGACACCGCTATCGCTATATAAC-GACGCTATTACGA
* * * *
100416 TTGGTGACCGCTATTTAAATCCATGACTAGTATAATGTTCATTAT-AAATATG-AACCC-ACATG
194 -TCGTGACCGCTATTTAAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAACCCTACATG
* * * *
100478 TTAGAAATAATGCTCTGAATTTCTAGACAGATTAGCACGAACTACCATAGTGTAAATATCAAAAG
258 TTAGAAATAATGCTCTGAATTCCTAGACAGCTTATCACGAACCACCATAGTGTAAATATCAAAAG
* * * *
100543 TATATCCCCCAACTTGTAAATCCAATGAAGATAGAAGTAAGGGAAGAGGAGGAAAAGCTGA-CAA
323 TATATCCCCCAACCTGTAAATCCAAAGAAGATAGAAGTAAGGGAAGAGGTGGAAAAGCAGACCAA
* * * **
100607 ACAGATTGAAGAGTTATGTTGGTAGCTAA-TACAGGTAATCTGCTTTACGGTAGCTTCTTTTAAA
388 ACAAATTGAAGAG-T-TG-TAGTAGCTAAGT--AGGT--TCTGCTTCACGGTAGCTTAATTTAAA
* * * *
100671 TTTAATTTAAGA-AGGTTTTCAACCTAAAATATTATCCTGT-AACATTGCTCTCAACCTTAAAAT
446 GTTAATTTAAGACA---TTTAAACCTAAAATATTAT-GT-TCAACATAGCTCTCAACCTTAAAAT
* * *
100734 ATGTCTTGCATACACCACTTCTACCAACACTTTGCTCCAAGTGTTGTAGTGAAATTCAACTCTAT
506 ATG-CTTGCATACACCACTTCTACCAACACTTTGCTCAAAGTGTTGTAGTTAAATTCAAC-ATA-
* * * * *
100799 TTTTTCTAGTCTCAACCAAAAACCCATAATC-TAAA-AAATGA----TCATCGTAATCCATGGAA
568 TTTTTCTAGTCTCAGCGAAAAACCCATAAGCATAAACATATGATCTTTCATCGAAATCCAT-GAA
* * *
100858 AAAAAACTATCCAAGAGTTGTTATTGGCTCAATATTCCACTAGGAGACGACAAATTGAAAATA
632 AAAAAACTATCCAAGAGTTATTATTGGCTCAATATTCCACTAGGAGACGACAAAATGAAAATG
* * * *
100921 ATCAAAGGGTCT-AAAGGTTGAT----A-AGCAGTACCACATATCT-AATTATGATTGCAGTCGC
1 ATCAAAGGGTCTCAACGGTTGATGAGCACACCAGTACCACA-ATCTAAATTATGATTGCGGTCAC
* * * * * *
100979 GTTTTCGGTTATGT--GTTTATCGAAATTGCAGACATAATAAACGCTATTGCAATGATT-CTG-G
65 ATTTTCGGTTACGTACGTTTATCGCAATTGCGGACATAATAGACGCTATTTCAATGATTGC-GAG
* * ** * * * * *** *
101040 ATATAGTGGTTATACAATAACAATTGTGGAAGATACCGTTATCGCTATATAATGGATATTATTGC
129 -TATTGCGGTTATACAATAACGGTTGCGGAAGACACCGCTATCGCTATATAA-CGACGCTATTAC
* *
101105 GGTCAGTGACCGCTATTTAAATCCATGACTAGTGT-ATGTTCATCAGGAAAGATGAAACCCTACA
192 GATC-GTGACCGCTATTTAAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAACCCTACA
* * *
101169 TGTTAGGAATAATGCTCTGAATTTCTAGACATCTTATCA-GAACCACCATAGTGTAAATATCAAA
256 TGTTAGAAATAATGCTCTGAATTCCTAGACAGCTTATCACGAACCACCATAGTGTAAATATCAAA
* * *
101233 AGTATATCCTCCAACCTGTAAATCCAAAGAAGATAGAAGTAAGGAAAGTGGTGGAAAAG-AGACC
321 AGTATATCCCCCAACCTGTAAATCCAAAGAAGATAGAAGTAAGGGAAGAGGTGGAAAAGCAGACC
*
101297 AAACAAATTGAAGAGTTG-AGTA-C-AAGTA-GTTCTGCTTCACGGGAGCTTAATTTAAAGTTAA
386 AAACAAATTGAAGAGTTGTAGTAGCTAAGTAGGTTCTGCTTCACGGTAGCTTAATTTAAAGTTAA
* *
101358 -TT-AGACAATTAAACCTAAAATATTATGTTC-ACATAGCTCTCAACCTTAAAATATG-TTCCAT
451 TTTAAGACATTTAAACCTAAAATATTATGTTCAACATAGCTCTCAACCTTAAAATATGCTTGCAT
* *
101419 ACACCAC-TCTGCCAACACTTCGCTCAAAGTGTTGTAGTTAAATTCAAC-T-TTTTTCTAGTCTC
516 ACACCACTTCTACCAACACTTTGCTCAAAGTGTTGTAGTTAAATTCAACATATTTTTCTAGTCTC
* *
101481 AGCGAAGAACCCATAAACATAAACATATGATCTTTCATCGAAATCCATGAAAAAAAAACTATCCA
581 AGCGAAAAACCCATAAGCATAAACATATGATCTTTCATCGAAATCCATG-AAAAAAAACTATCCA
* *
101546 AGAGTTCTTATTGGCTCAATATTCCACGAGGAGACGACAAAATGAAAATG
645 AGAGTTATTATTGGCTCAATATTCCACTAGGAGACGACAAAATGAAAATG
* *
101596 ATCAAAGGGTCTCAACGGTTGATGAGCAACACCAGTACCACAATC-AAATTATGGTTACGGTCAC
1 ATCAAAGGGTCTCAACGGTTGATGAGC-ACACCAGTACCACAATCTAAATTATGATTGCGGTCAC
* * **
101660 ATTTTCGCTTACGTACGTTTATCGCAATTACGGACATAATAGACTTTATTTCAATGATTGCGAGT
65 ATTTTCGGTTACGTACGTTTATCGCAATTGCGGACATAATAGACGCTATTTCAATGATTGCGAGT
* * * *
101725 ATTGTGGTTATGCAATAACGGTTGCGAAAGACACCGCTATTGCTATATAACAGACGCTATTACGA
130 ATTGCGGTTATACAATAACGGTTGCGGAAGACACCGCTATCGCTATATAAC-GACGCTATTACGA
** * *
101790 TCGTGACCTTTATTTAAATCCATGACTAGTGTAATGTTTATCATAAAAGATGAAACCCTACATGT
194 TCGTGACCGCTATTTAAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAACCCTACATGT
101855 TAGAAATAATGCTCTGAATTCCTAGACAGCTTATCACGAACCACCATAGTGTAAATATCAAAAG-
259 TAGAAATAATGCTCTGAATTCCTAGACAGCTTATCACGAACCACCATAGTGTAAATATCAAAAGT
* * * *
101919 -TATCCCCCAACCTGTAAATCCAAATAAGATAGAAGGAAGGGAAGAGGTGGAAAAACTGACCAAA
324 ATATCCCCCAACCTGTAAATCCAAAGAAGATAGAAGTAAGGGAAGAGGTGGAAAAGCAGACCAAA
* * *
101983 CAGAGAGAGTTG-AGCTATGTTGGTAGCTA-ATACAGGTA-GTTCCT-CTTCA-TGTAACTTAAT
389 C--A-A-A-TTGAAG--A-GTT-GTAG-TAGCTA-A-GTAGGTT-CTGCTTCACGGTAGCTTAAT
* * * * *
102043 TTAAAGTTAATTTAAGACGATTTCAACCTAAAATATATCCTGTTCAACGTAGCTCTTAGCCTTAA
441 TTAAAGTTAATTTAAGAC-ATTTAAACCTAAAATAT-T-ATGTTCAACATAGCTCTCAACCTTAA
*
102108 AAAATGTCTTGCATACACCACTTCTACCAACACTTTGCTCAAAGTGTTGTAGTT-AATTCAACTA
503 AATATG-CTTGCATACACCACTTCTACCAACACTTTGCTCAAAGTGTTGTAGTTAAATTCAAC-A
* * * *
102172 TATTTTTCTAGTCTCACCGAAAAACCCATAAGCATAAACATATGATCCTTCATTGAAATCCATGG
566 TATTTTTCTAGTCTCAGCGAAAAACCCATAAGCATAAACATATGATCTTTCATCGAAATCCATGA
102237 AAAAAAACTATCCAAGAGTTATTATTGGCTCAATATTCCACTAGGAGACG--AAAATGAAAATG
631 AAAAAAACTATCCAAGAGTTATTATTGGCTCAATATTCCACTAGGAGACGACAAAATGAAAATG
** * * * * *
102299 ATCAAAGGGTCTCAACATTTGATAAGCAGCACTAGTACCACGGATCTAAATTATGTTTGTGGTCA
1 ATCAAAGGGTCTCAACGGTTGATGAGCA-CACCAGTACCAC-AATCTAAATTATGATTGCGGTCA
* * * * * * *
102364 CATTTTCGGTTACATACATTTATCACGATTGCGTACATAATAGACGCTATTACAATGATTTC-AG
64 CATTTTCGGTTACGTACGTTTATCGCAATTGCGGACATAATAGACGCTATTTCAATGATTGCGA-
* * ** * *
102428 GTATAGCGG-TATACAATAACGATTATGGAAGACACCGCTATCGCTATCTAACG--GCGATTAC-
128 GTATTGCGGTTATACAATAACGGTTGCGGAAGACACCGCTATCGCTATATAACGACGCTATTACG
* *
102489 ATTCGGTAACCGCTATTTAAATCCATGACTAGTGTAATTTTCATCATGAAAGATGAAA
193 A-TC-GTGACCGCTATTTAAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAA
102547 TCTTTGATGG
Statistics
Matches: 1951, Mismatches: 255, Indels: 234
0.80 0.10 0.10
Matches are distributed among these distances:
669 27 0.01
670 4 0.00
671 6 0.00
673 37 0.02
674 13 0.01
675 86 0.04
676 34 0.02
677 1 0.00
678 17 0.01
680 3 0.00
681 32 0.02
682 114 0.06
683 159 0.08
684 31 0.02
685 2 0.00
686 3 0.00
687 48 0.02
688 20 0.01
689 8 0.00
690 22 0.01
691 103 0.05
692 100 0.05
693 98 0.05
694 27 0.01
695 43 0.02
696 19 0.01
697 20 0.01
698 31 0.02
699 1 0.00
700 6 0.00
701 32 0.02
702 49 0.03
703 137 0.07
704 137 0.07
705 161 0.08
706 146 0.07
707 46 0.02
708 34 0.02
709 44 0.02
710 27 0.01
711 22 0.01
712 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (694 bp):
ATCAAAGGGTCTCAACGGTTGATGAGCACACCAGTACCACAATCTAAATTATGATTGCGGTCACA
TTTTCGGTTACGTACGTTTATCGCAATTGCGGACATAATAGACGCTATTTCAATGATTGCGAGTA
TTGCGGTTATACAATAACGGTTGCGGAAGACACCGCTATCGCTATATAACGACGCTATTACGATC
GTGACCGCTATTTAAATCCATGACTAGTGTAATGTTCATCATGAAAGATGAAACCCTACATGTTA
GAAATAATGCTCTGAATTCCTAGACAGCTTATCACGAACCACCATAGTGTAAATATCAAAAGTAT
ATCCCCCAACCTGTAAATCCAAAGAAGATAGAAGTAAGGGAAGAGGTGGAAAAGCAGACCAAACA
AATTGAAGAGTTGTAGTAGCTAAGTAGGTTCTGCTTCACGGTAGCTTAATTTAAAGTTAATTTAA
GACATTTAAACCTAAAATATTATGTTCAACATAGCTCTCAACCTTAAAATATGCTTGCATACACC
ACTTCTACCAACACTTTGCTCAAAGTGTTGTAGTTAAATTCAACATATTTTTCTAGTCTCAGCGA
AAAACCCATAAGCATAAACATATGATCTTTCATCGAAATCCATGAAAAAAAACTATCCAAGAGTT
ATTATTGGCTCAATATTCCACTAGGAGACGACAAAATGAAAATG
Found at i:102902 original size:12 final size:12
Alignment explanation
Indices: 102885--102912 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
102875 TCACTACGGC
102885 TGTGCTTACAGT
1 TGTGCTTACAGT
102897 TGTGCTTACAGT
1 TGTGCTTACAGT
102909 TGTG
1 TGTG
102913 ATCGTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (12 bp):
TGTGCTTACAGT
Found at i:103560 original size:50 final size:52
Alignment explanation
Indices: 103450--103560 Score: 120
Period size: 50 Copynumber: 2.2 Consensus size: 52
103440 GTACTTGTTC
* **
103450 AGATTTTAGTTTATTAAATTCCCATCGTTCAACAGAAATTAGTTATGTTTCG
1 AGATTTTAATTTATTAAATTCCCATCGTTCAACAGAAAGCAGTTATGTTTCG
* * * * * *
103502 AGA-ATTAATTT-TTAAATTCTCGTCGTTCAACAGAAAGCGGTTCTGTTTTG
1 AGATTTTAATTTATTAAATTCCCATCGTTCAACAGAAAGCAGTTATGTTTCG
103552 -GATTTTAAT
1 AGATTTTAAT
103561 CATTGTCCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
49 2 0.04
50 37 0.77
51 6 0.12
52 3 0.06
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (52 bp):
AGATTTTAATTTATTAAATTCCCATCGTTCAACAGAAAGCAGTTATGTTTCG
Found at i:105436 original size:13 final size:13
Alignment explanation
Indices: 105418--105447 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105408 ATTCTTAGAA
*
105418 ACAACTTTGAGAT
1 ACAACTTTGAGAC
105431 ACAACTTTGAGAC
1 ACAACTTTGAGAC
105444 ACAA
1 ACAA
105448 TTCACAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (13 bp):
ACAACTTTGAGAC
Found at i:106122 original size:53 final size:55
Alignment explanation
Indices: 106064--106172 Score: 204
Period size: 53 Copynumber: 2.0 Consensus size: 55
106054 ACAACCTAAA
106064 ATGTTATCCTTTTCAACTTCAAAGA-TATATAAATTTGTAACC-TTTTTTATTGC
1 ATGTTATCCTTTTCAACTTCAAAGATTATATAAATTTGTAACCTTTTTTTATTGC
106117 ATGTTATCCTTTTCAACTTCAAAGATTATATAAATTTGTAACCTTTTTTTATTGC
1 ATGTTATCCTTTTCAACTTCAAAGATTATATAAATTTGTAACCTTTTTTTATTGC
106172 A
1 A
106173 CCTGAAAAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 25 0.46
54 17 0.31
55 12 0.22
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (55 bp):
ATGTTATCCTTTTCAACTTCAAAGATTATATAAATTTGTAACCTTTTTTTATTGC
Found at i:124600 original size:20 final size:20
Alignment explanation
Indices: 124577--124619 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
124567 AATCCACCAC
*
124577 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
124597 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
124617 ATG
1 ATG
124620 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:126986 original size:22 final size:21
Alignment explanation
Indices: 126944--126983 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
126934 GTGTTTATTT
*
126944 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
126965 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
126984 ACAATTTCTC
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:129433 original size:19 final size:19
Alignment explanation
Indices: 129411--129464 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
129401 TTTCACGCGG
129411 AGGATGACTTCTCTCGTAA
1 AGGATGACTTCTCTCGTAA
* * *
129430 AGGATAACATT-TCACATAA
1 AGGATGAC-TTCTCTCGTAA
129449 AGGATGACTTCTCTCG
1 AGGATGACTTCTCTCG
129465 GGGAGGATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.07
19 23 0.85
20 2 0.07
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (19 bp):
AGGATGACTTCTCTCGTAA
Found at i:129491 original size:38 final size:38
Alignment explanation
Indices: 129357--129491 Score: 128
Period size: 38 Copynumber: 3.6 Consensus size: 38
129347 CTCACTAAGA
* * * **
129357 ATAACATCTCACGTAGG-GGTTGACTTATCTCACAAAGG
1 ATAACATTTCACGT-GGAGGATGACTTCTCTCGGAAAGG
* *
129395 ATAACATTTCACGCGGAGGATGACTTCTCTCGTAAAGG
1 ATAACATTTCACGTGGAGGATGACTTCTCTCGGAAAGG
* ** **
129433 ATAACATTTCACATAAAGGATGACTTCTCTCGGGGAGG
1 ATAACATTTCACGTGGAGGATGACTTCTCTCGGAAAGG
* *
129471 ATAGCATCTCACGTGGAGGAT
1 ATAACATTTCACGTGGAGGAT
129492 AAGAGAAATT
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
37 2 0.03
38 76 0.97
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (38 bp):
ATAACATTTCACGTGGAGGATGACTTCTCTCGGAAAGG
Found at i:139488 original size:22 final size:22
Alignment explanation
Indices: 139463--139504 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
139453 CAATTCATTT
139463 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
139485 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
139505 CCAGCACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:139857 original size:12 final size:12
Alignment explanation
Indices: 139842--139895 Score: 78
Period size: 11 Copynumber: 4.8 Consensus size: 12
139832 CAAAAACAAA
139842 ACAAAAAAAGGC
1 ACAAAAAAAGGC
139854 AC-AAAAAAGGC
1 ACAAAAAAAGGC
139865 AC-AAAAAAGGC
1 ACAAAAAAAGGC
*
139876 ACAAAAAAAAGC
1 ACAAAAAAAGGC
139888 A-AAAAAAA
1 ACAAAAAAA
139896 AACCAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
11 29 0.73
12 11 0.28
ACGTcount: A:0.72, C:0.15, G:0.13, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAGGC
Found at i:139892 original size:11 final size:11
Alignment explanation
Indices: 139832--139896 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
139822 CTATTTTTTT
139832 CAAAAACAAAA-
1 CAAAAA-AAAAG
*
139843 C-AAAAAAAGG
1 CAAAAAAAAAG
* *
139853 CACAAAAAAGG
1 CAAAAAAAAAG
* *
139864 CACAAAAAAGG
1 CAAAAAAAAAG
139875 CACAAAAAAAAG
1 CA-AAAAAAAAG
139887 CAAAAAAAAA
1 CAAAAAAAAA
139897 ACCAAAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
9 3 0.06
10 5 0.11
11 30 0.64
12 9 0.19
ACGTcount: A:0.74, C:0.15, G:0.11, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAG
Found at i:139892 original size:22 final size:22
Alignment explanation
Indices: 139832--139894 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 22
139822 CTATTTTTTT
*
139832 CAAAAACAAAACAAAAAAAGGCA
1 CAAAAA-AAAGCAAAAAAAGGCA
*
139855 C-AAAAAAGGCACAAAAAAGGCA
1 CAAAAAAAAGCA-AAAAAAGGCA
139877 CAAAAAAAAGCAAAAAAA
1 CAAAAAAAAGCAAAAAAA
139895 AAACCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 4 0.11
22 21 0.60
23 10 0.29
ACGTcount: A:0.73, C:0.16, G:0.11, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAGCAAAAAAAGGCA
Found at i:145668 original size:22 final size:22
Alignment explanation
Indices: 145643--145684 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
145633 CAATTCATTT
145643 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
145665 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
145685 CCAGCACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:147801 original size:9 final size:9
Alignment explanation
Indices: 147787--147813 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
147777 AATATATTAT
147787 TTTTTATAA
1 TTTTTATAA
147796 TTTTTATAA
1 TTTTTATAA
147805 TTTTTATAA
1 TTTTTATAA
147814 ATAAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:148223 original size:3 final size:3
Alignment explanation
Indices: 148166--148204 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
148156 TATATGACTA
148166 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
148205 TAAACATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.