Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009423.1 Hibiscus syriacus cultivar Beakdansim tig00113397_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: 112690
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:75 original size:21 final size:20
Alignment explanation
Indices: 10--146 Score: 80
Period size: 21 Copynumber: 6.8 Consensus size: 20
1 ACGCGAATA
***
10 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* *
30 AGAATCGCAA-TC-ATTTTCC
1 AAAATCGCAACGCGATTTT-C
*
49 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * * *
70 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
91 AAATTCGCATTGCGATTTTC
1 AAAATCGCAACGCGATTTTC
* * *
111 AATAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGATTTTC
132 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
147 ACACTTAAAT
Statistics
Matches: 87, Mismatches: 24, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
18 2 0.02
19 11 0.13
20 27 0.31
21 45 0.52
22 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:175 original size:20 final size:20
Alignment explanation
Indices: 114--498 Score: 453
Period size: 20 Copynumber: 19.4 Consensus size: 20
104 GATTTTCAAT
* ** *
114 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
134 AATCGCAACGCG-AACACTTA
1 AATCGCAACGCGTATC-CGTA
154 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
174 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
194 AATCGCAACGCGTAT-GGTA
1 AATCGCAACGCGTATCCGTA
*
213 AATCGC-ATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
232 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
252 AATCGCAACG-ATAATACATA
1 AATCGCAACGCGT-ATCCGTA
272 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
292 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
312 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
332 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
352 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
372 AATCGC-ACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
391 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
411 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
431 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
451 AATCGCAACG-ATATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
470 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
490 AATCACAAC
1 AATCGCAAC
499 ACTGAAATTT
Statistics
Matches: 315, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.03
19 52 0.17
20 251 0.80
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1208 original size:24 final size:23
Alignment explanation
Indices: 1169--1214 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1159 AAATTTGGTC
1169 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
1193 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
1215 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:3696 original size:19 final size:19
Alignment explanation
Indices: 3674--3945 Score: 336
Period size: 19 Copynumber: 15.4 Consensus size: 19
3664 CGGAAAATAC
*
3674 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3693 AATCCCAA--C---ATG-A
1 AATCGCAATGCGAAATGAA
3706 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
3726 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3740 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3759 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3778 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3792 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3811 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3830 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
3849 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3868 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3887 AATCGCAA--CG-AA-G--
1 AATCGCAATGCGAAATGAA
3900 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3919 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3938 AATCGCAA
1 AATCGCAA
3946 CGAGATAATC
Statistics
Matches: 222, Mismatches: 8, Indels: 46
0.80 0.03 0.17
Matches are distributed among these distances:
13 16 0.07
14 23 0.10
15 6 0.03
16 8 0.04
17 7 0.03
18 3 0.01
19 150 0.68
20 9 0.04
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3725 original size:33 final size:33
Alignment explanation
Indices: 3674--3967 Score: 136
Period size: 33 Copynumber: 8.5 Consensus size: 33
3664 CGGAAAATAC
*
3674 AATCGCAACGCGAAATGAAAATCCCAAC-ATGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAG
*
3706 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAG
* * *
3740 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
* * * * *
3772 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCCCAA--CG--A-GAG
* *
3811 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGG
1 AATCGCAATGCGAAATGAAAATCCCAA--CGAGA--G
* * *
3848 AAATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 -AATCGCAATGCGAAATGAAAATCCCAACGAGAG
* * * * *
3881 AAT-GAAAAT-CGCAACGAAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGAA-AATCCCAA--CG--A-GAG
* *
3919 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
3952 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
3968 TATAAACGCA
Statistics
Matches: 209, Mismatches: 26, Indels: 53
0.73 0.09 0.18
Matches are distributed among these distances:
31 15 0.07
32 31 0.15
33 63 0.30
34 14 0.07
35 2 0.01
36 5 0.02
37 2 0.01
38 55 0.26
39 15 0.07
40 7 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAG
Found at i:3983 original size:52 final size:52
Alignment explanation
Indices: 3705--3967 Score: 447
Period size: 52 Copynumber: 5.0 Consensus size: 52
3695 TCCCAACATG
3705 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
3758 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
3810 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAAATGA
3867 AAATCGCAATGCGAAATGAAAATCGCAACGA-AGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
3918 AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
3968 TATAAACGCA
Statistics
Matches: 202, Mismatches: 2, Indels: 13
0.93 0.01 0.06
Matches are distributed among these distances:
51 49 0.24
52 86 0.43
53 12 0.06
54 5 0.02
55 3 0.01
56 1 0.00
57 46 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
Found at i:4064 original size:19 final size:19
Alignment explanation
Indices: 3974--4056 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
3964 AAATTATAAA
3974 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3993 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
4013 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
4029 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4046 CGCATTGCGAT
1 CGCATTGCGAT
4057 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:4182 original size:14 final size:14
Alignment explanation
Indices: 4163--4199 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4153 CATCAATTAC
4163 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4177 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4191 ACAAATCAA
1 ACAAATCAA
4200 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6166 original size:14 final size:14
Alignment explanation
Indices: 6147--6203 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6137 GCGAAATGAA
*
6147 AATCGCAACGACAG
1 AATCGCAACGAAAG
6161 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
6178 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
6194 AATCGCAACG
1 AATCGCAACG
6204 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:6174 original size:33 final size:33
Alignment explanation
Indices: 6128--6220 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
6118 GCGAAACCAA
*
6128 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
6161 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
6194 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
6221 TGCGATTTTG
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:6185 original size:19 final size:19
Alignment explanation
Indices: 6091--6225 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
6081 TAGTTTACTT
* *
6091 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
6111 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
6130 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6149 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
6163 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
6182 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
6196 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6215 TCGCAATGCGA
1 TCGCAACGCGA
6226 TTTTGGTTTC
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:6237 original size:19 final size:19
Alignment explanation
Indices: 6221--6335 Score: 141
Period size: 19 Copynumber: 6.3 Consensus size: 19
6211 AAAATCGCAA
6221 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
6240 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
6254 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
**
6273 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
6292 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6311 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
6331 TGCGA
1 TGCGA
6336 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 54 0.66
20 13 0.16
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:6549 original size:92 final size:93
Alignment explanation
Indices: 6379--6757 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
6369 TTGAATGGAT
6379 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6444 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6472 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6536 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6564 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6628 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6656 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
6721 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
6749 AAATTTACT
1 AAATTTACT
6758 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6708 original size:185 final size:185
Alignment explanation
Indices: 6379--6757 Score: 733
Period size: 185 Copynumber: 2.0 Consensus size: 185
6369 TTGAATGGAT
6379 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6444 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
6509 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
6564 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
6628 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
6693 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
6749 AAATTTACT
1 AAATTTACT
6758 AAGCAATCTA
Statistics
Matches: 192, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 100 0.52
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:8497 original size:19 final size:18
Alignment explanation
Indices: 8473--8570 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
8463 CGCACGAGAG
8473 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
8491 CAATCGCAA--CGAGA-G-
1 -AATCGCAACGCGAGATGA
*
8506 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
8525 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
*
8539 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
*
8558 AATCGCAATGCGA
1 AATCGCAACGCGA
8571 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
14 16 0.25
16 10 0.15
17 11 0.17
19 28 0.43
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:8505 original size:33 final size:33
Alignment explanation
Indices: 8452--8565 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
8442 TCTTTTGGTT
8452 GAAATGAAAATCGC-ACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
8484 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8517 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8550 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
8566 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 12 0.16
33 65 0.84
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:8511 original size:14 final size:14
Alignment explanation
Indices: 8460--8548 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
8450 TTGAAATGAA
8460 AATCGC-ACGAGAG
1 AATCGCAACGAGAG
8473 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
8490 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
8506 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
8525 AATCGCAACGAGAG
1 AATCGCAACGAGAG
8539 AATCGCAACG
1 AATCGCAACG
8549 CGAAATGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 21
0.73 0.02 0.24
Matches are distributed among these distances:
13 6 0.10
14 21 0.33
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:8601 original size:14 final size:14
Alignment explanation
Indices: 8582--8636 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
8572 TTTGGTTTCG
8582 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
8596 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
8615 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
8629 CGTTGCGA
1 CGTTGCGA
8637 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:8614 original size:33 final size:33
Alignment explanation
Indices: 8566--8636 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
8556 AAAATCGCAA
**
8566 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
8599 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
8632 TGCGA
1 TGCGA
8637 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:8644 original size:33 final size:33
Alignment explanation
Indices: 8577--8658 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
8567 GCGATTTTGG
***
8577 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
8610 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
8643 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
8659 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:8663 original size:20 final size:20
Alignment explanation
Indices: 8589--8677 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
8579 TCGCGTTGCG
8589 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
8609 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
8622 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
8642 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
8662 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
8678 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:8799 original size:32 final size:32
Alignment explanation
Indices: 8760--8828 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
8750 ACTAACTTGA
*
8760 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
8792 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
8824 AAATC
1 AAATC
8829 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:8802 original size:18 final size:18
Alignment explanation
Indices: 8779--8828 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
8769 CGAGAGAATA
8779 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
8797 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
8811 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
8829 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:9059 original size:22 final size:22
Alignment explanation
Indices: 9007--9061 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8997 TGGTTGTGAG
**
9007 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
9029 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
9051 GGATTTCTTCG
1 GGATTTCTTCG
9062 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:9232 original size:20 final size:20
Alignment explanation
Indices: 9207--9399 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
9197 CTTTAAATAT
9207 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
9227 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
9249 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
9268 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
9288 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
9308 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
9328 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
9348 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
9368 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
9388 CGCGTTGCGATT
1 CGCGTTGCGATT
9400 ATTGAAAATC
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:9394 original size:60 final size:60
Alignment explanation
Indices: 9207--9399 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
9197 CTTTAAATAT
**
9207 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
9268 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
9328 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
9388 CGCGTTGCGATT
1 CGCGTTGCGATT
9400 ATTGAAAATC
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:11752 original size:2 final size:2
Alignment explanation
Indices: 11747--11772 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11737 TTCTTTTTTG
11747 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
11773 GGTTGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12078 original size:17 final size:17
Alignment explanation
Indices: 12056--12098 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
12046 ATTCGAGTTT
*
12056 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCATGAATC
12073 GAGTTCGAGCATGAATC
1 GAGTTCGAGCATGAATC
*
12090 GAGCTCGAG
1 GAGTTCGAG
12099 TCTCGAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (17 bp):
GAGTTCGAGCATGAATC
Found at i:12106 original size:24 final size:23
Alignment explanation
Indices: 12071--12119 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
12061 CGAGCTTGAA
*
12071 TCGAGTTCGAGCATGAATCGAGC
1 TCGAGTTCGAGCATCAATCGAGC
*
12094 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGT-TCGAGCATCAATCGAGC
12118 TC
1 TC
12120 CTAAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
TCGAGTTCGAGCATCAATCGAGC
Found at i:20741 original size:9 final size:9
Alignment explanation
Indices: 20727--20779 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
20717 TTAATATTCT
20727 TTTATTTTA
1 TTTATTTTA
20736 TTTATTTTA
1 TTTATTTTA
20745 -TTATTTT-
1 TTTATTTTA
*
20752 TTTCATTTGA
1 TTT-ATTTTA
20762 TTTATTTAATA
1 TTTATTT--TA
20773 TTTATTT
1 TTTATTT
20780 ATTATTTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 9 0.24
9 17 0.46
10 3 0.08
11 8 0.22
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:20754 original size:25 final size:24
Alignment explanation
Indices: 20716--20782 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
20706 CTTTTAAAAC
* *
20716 TTTAATATTCTTTTATTTTATTTA
1 TTTAATATTTTTTTATTTGATTTA
*
20740 TTTTATTATTTTTTTCATTTGATTTA
1 -TTTAATATTTTTTT-ATTTGATTTA
*
20766 TTTAATATTTATTTATT
1 TTTAATATTTTTTTATT
20783 ATTTCTCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.08
25 24 0.67
26 9 0.25
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (24 bp):
TTTAATATTTTTTTATTTGATTTA
Found at i:24613 original size:23 final size:23
Alignment explanation
Indices: 24578--24625 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
24568 ATCAAGTACA
*
24578 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
24601 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
24624 AT
1 AT
24626 TGACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:25400 original size:112 final size:112
Alignment explanation
Indices: 25260--25551 Score: 476
Period size: 112 Copynumber: 2.6 Consensus size: 112
25250 TGGTATCTCT
* * * *
25260 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAA
1 ACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGA
* * *
25325 CACTTTCAATATATCCGGTAGTGCTTTACTTGTTTTGTCATTTATAG
66 CACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAG
* * *
25372 ATCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATAGATCAATATATTTTTATAAAGTATCGT
1 ACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGA
25437 CACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAG
66 CACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAG
* *
25484 ACCGGTTTTATCATTTGTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGA
25549 CAC
66 CAC
25552 AAACCGACAA
Statistics
Matches: 165, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 165 1.00
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (112 bp):
ACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGA
CACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAG
Found at i:28190 original size:21 final size:22
Alignment explanation
Indices: 28153--28197 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
28143 TAATTATACA
28153 TTTTATCATATATA-TTTAATT
1 TTTTATCATATATATTTTAATT
*
28174 TTTTATCA-ATTTAATTTTAATT
1 TTTTATCATATAT-ATTTTAATT
28196 TT
1 TT
28198 AATTTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.43
22 9 0.43
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATCATATATATTTTAATT
Found at i:30448 original size:21 final size:21
Alignment explanation
Indices: 30422--30472 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
30412 ACCGTATCCT
*
30422 TAAAATTTTATTTTTTTAATA
1 TAAAATTTTATTTCTTTAATA
30443 TAAAATTTTATTTCTTTAATA
1 TAAAATTTTATTTCTTTAATA
30464 TAAAATTTT
1 TAAAATTTT
30473 GTATTCGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TAAAATTTTATTTCTTTAATA
Found at i:30709 original size:3 final size:3
Alignment explanation
Indices: 30701--30725 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30691 GAAACGTACA
30701 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
30726 TCATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33126 original size:20 final size:20
Alignment explanation
Indices: 33101--33151 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
33091 GATTTTCCAG
*
33101 AATCGCAACGCGAATAT-TAA
1 AATCGCAACGCGAACATAT-A
33121 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
33141 AATCGCAACGC
1 AATCGCAACGC
33152 AATTCTGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.16
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:33207 original size:20 final size:20
Alignment explanation
Indices: 33162--33452 Score: 230
Period size: 20 Copynumber: 14.3 Consensus size: 20
33152 AATTCTGACT
*
33162 ATCGCAACGAGTACCCGTAAAA
1 ATCGCAACGAGTATCCGT--AA
*
33184 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
33204 ATCGCAACGAAAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
33225 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
33245 ATCACAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
33265 ATCGCAACGCG-ATTC-TGATT
1 ATCGCAACGAGTATCCGT-A-A
* * *
33285 ATCGCAACGAGAATACGTTA
1 ATCGCAACGAGTATCCGTAA
* *
33305 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
33325 ATCGCAACGAGAATACATAAA
1 ATCGCAACGAGTATCCGT-AA
* * *
33346 ATCGTAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
33366 ATCGCAAAGAGAATCTGTAA
1 ATCGCAACGAGTATCCGTAA
33386 ATCGCAACGA-TAATCCGTAA
1 ATCGCAACGAGT-ATCCGTAA
33406 ATCGCAACGA-TAATCCGTAA
1 ATCGCAACGAGT-ATCCGTAA
* *
33426 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGAGTATCCGTAA
33446 ATCGCAA
1 ATCGCAA
33453 TACTGAAATT
Statistics
Matches: 214, Mismatches: 47, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
18 1 0.00
19 4 0.02
20 159 0.74
21 33 0.15
22 17 0.08
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:33228 original size:123 final size:121
Alignment explanation
Indices: 33101--33452 Score: 327
Period size: 121 Copynumber: 2.9 Consensus size: 121
33091 GATTTTCCAG
* * * *
33101 AATCGCAACGCGAAT-ATTAAAATCGCAACGCGAACATATAAATCGCAACGCAATTCTGACTATC
1 AATCGCAACGCGAATCAGT-AAATCACAACGAGAACACATAAATCGCAACGCAATTCTGACTATC
* * *
33165 GCAACGAGTACCCGTAAAAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACGTAA
65 GCAACGAGAACACGT--AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACATAA
* * * * * *
33224 AATCGCAACGCGTATCCGTAAATCACAACGAGAATACGTAAATCGCAACGCGATTCTGATTATCG
1 AATCGCAACGCGAATCAGTAAATCACAACGAGAACACATAAATCGCAACGCAATTCTGACTATCG
* * * *
33289 CAACGAGAATACGTTAATCGCAATGCGTATCCGTAAATCGCAACGAGAATACATAA
66 CAACGAGAACACGTAAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACATAA
* * * * * ** * * *
33345 AATCGTAACGCGTATCTGTAAATCGCAAAGAGAATC-TGTAAATCGCAACG-ATAATCCGTA-AA
1 AATCGCAACGCGAATCAGTAAATCACAACGAGAA-CACATAAATCGCAACGCA-ATTCTG-ACTA
* * * *
33407 TCGCAACGATAATC-CGTAAATCGCAACGAGAATCTGTAAATCGCAA
63 TCGCAACGAGAA-CACGTAAATCGCAACGCGTATCCGTAAATCGCAA
33453 TACTGAAATT
Statistics
Matches: 190, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
121 124 0.65
122 1 0.01
123 64 0.34
124 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (121 bp):
AATCGCAACGCGAATCAGTAAATCACAACGAGAACACATAAATCGCAACGCAATTCTGACTATCG
CAACGAGAACACGTAAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACATAA
Found at i:33293 original size:40 final size:40
Alignment explanation
Indices: 33182--33452 Score: 316
Period size: 40 Copynumber: 6.7 Consensus size: 40
33172 GTACCCGTAA
*
33182 AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
*
33222 AAAATCGCAACGCGTATCCGTAAATCACAACGAGAATACGT
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
* *
33263 AAATCGCAACGCG-ATTC-TGATTATCGCAACGAGAATACGT
1 AAATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGT
* * *
33303 TAATCGCAATGCGTATCCGTAAATCGCAACGAGAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
* * *
33343 AAAATCGTAACGCGTATCTGTAAATCGCAAAGAGAAT-CTGT
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATAC-GT
* * *
33384 AAATCGCAACG-ATAATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGT-ATCCGTAAATCGCAACGAGAATACGT
* * *
33424 AAATCGCAACGAGAATCTGTAAATCGCAA
1 AAATCGCAACGCGTATCCGTAAATCGCAA
33453 TACTGAAATT
Statistics
Matches: 197, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 5 0.03
40 115 0.58
41 75 0.38
42 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT
Found at i:33348 original size:101 final size:101
Alignment explanation
Indices: 33182--33439 Score: 256
Period size: 101 Copynumber: 2.6 Consensus size: 101
33172 GTACCCGTAA
* * * * * * * * *
33182 AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACGTAAAATCGCAACGCGTATCCGT-AAA
1 AAATCGCAACGAGAATACGTAAATCGCAACGATAATCCGT-AAATCGCAACGAGAATACATAAAA
* * *
33246 TCACAACGAGAATAC-GTAAATCGCAACGCGATTCTG-
65 TCACAACGAGAAT-CTGTAAATCGCAAAGAGAATCTGT
* *
33282 ATTATCGCAACGAGAATACGTTAATCGCAATGCG-T-ATCCGTAAATCGCAACGAGAATACATAA
1 A-AATCGCAACGAGAATACGTAAATCGCAA--CGATAATCCGTAAATCGCAACGAGAATACATAA
** * *
33345 AATCGTAACGCGTATCTGTAAATCGCAAAGAGAATCTGT
63 AATCACAACGAGAATCTGTAAATCGCAAAGAGAATCTGT
* *
33384 AAATCGCAACGATAATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAAT
1 AAATCGCAACGAGAATACGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAAT
33440 CTGTAAATCG
Statistics
Matches: 128, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
99 2 0.02
100 19 0.15
101 104 0.81
102 1 0.01
103 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (101 bp):
AAATCGCAACGAGAATACGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATACATAAAAT
CACAACGAGAATCTGTAAATCGCAAAGAGAATCTGT
Found at i:33358 original size:121 final size:122
Alignment explanation
Indices: 33139--33394 Score: 363
Period size: 121 Copynumber: 2.1 Consensus size: 122
33129 CGCGAACATA
* *
33139 TAAATCGCAACGCAATTCTGACTATCGCAACGAGTACCCGTAAAAATCGCAACGCGTATCCGTAA
1 TAAATCGCAACGCAATTCTGACTATCGCAACGAGAACACGT-AAAATCGCAACGCGTATCCGTAA
* *
33204 ATCGCAACGAAAATACGTAAAATCGCAACGCGTATCCGTAAATCACAACGAGAATAC-G
65 ATCGCAACGAAAATACATAAAATCGCAACGCGTATCCGTAAATCACAAAGAGAAT-CTG
* * * * *
33262 TAAATCGCAACGCGATTCTGATTATCGCAACGAGAATACGT-TAATCGCAATGCGTATCCGTAAA
1 TAAATCGCAACGCAATTCTGACTATCGCAACGAGAACACGTAAAATCGCAACGCGTATCCGTAAA
* * * *
33326 TCGCAACGAGAATACATAAAATCGTAACGCGTATCTGTAAATCGCAAAGAGAATCTG
66 TCGCAACGAAAATACATAAAATCGCAACGCGTATCCGTAAATCACAAAGAGAATCTG
33383 TAAATCGCAACG
1 TAAATCGCAACG
33395 ATAATCCGTA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
120 1 0.01
121 82 0.69
123 36 0.30
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (122 bp):
TAAATCGCAACGCAATTCTGACTATCGCAACGAGAACACGTAAAATCGCAACGCGTATCCGTAAA
TCGCAACGAAAATACATAAAATCGCAACGCGTATCCGTAAATCACAAAGAGAATCTG
Found at i:33410 original size:121 final size:121
Alignment explanation
Indices: 33182--33452 Score: 348
Period size: 121 Copynumber: 2.2 Consensus size: 121
33172 GTACCCGTAA
*
33182 AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACGTAAAATCGCAACGCGTATCCGTAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACATAAAATCGCAACGCGTATCCGTAAAT
* * * * *
33247 CACAACGAGAATACGTAAATCGCAACGCGATTCTGATTATCGCAACGAGAATACGT
66 CACAAAGAGAATACGTAAATCGCAACGAGAATCCGATAATCGCAACGAGAATACGT
* * * * *
33303 TAATCGCAATGCGTATCCGTAAATCGCAACGAGAATACATAAAATCGTAACGCGTATCTGTAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACATAAAATCGCAACGCGTATCCGTAAAT
* * * *
33368 CGCAAAGAGAAT-CTGTAAATCGCAACGATAATCCG-TAAATCGCAACGATAATCCGT
66 CACAAAGAGAATAC-GTAAATCGCAACGAGAATCCGAT-AATCGCAACGAGAATACGT
* * *
33424 AAATCGCAACGAGAATCTGTAAATCGCAA
1 AAATCGCAACGCGTATCCGTAAATCGCAA
33453 TACTGAAATT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
120 2 0.02
121 126 0.98
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (121 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACATAAAATCGCAACGCGTATCCGTAAAT
CACAAAGAGAATACGTAAATCGCAACGAGAATCCGATAATCGCAACGAGAATACGT
Found at i:34289 original size:24 final size:24
Alignment explanation
Indices: 34262--34315 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
34252 GTATTCGAAA
34262 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
34286 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
34310 TTTGAT
1 TTTGAT
34316 GATGTTTCAG
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:36865 original size:14 final size:14
Alignment explanation
Indices: 36846--36944 Score: 54
Period size: 14 Copynumber: 6.4 Consensus size: 14
36836 CGGAAATTAC
*
36846 AATCGCAACGAGAG
1 AATCGCAACGAGAA
36860 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAA
* *
36879 AATCGCAAAGTGAA
1 AATCGCAACGAGAA
* *
36893 AATCGCAACGATAG
1 AATCGCAACGAGAA
36907 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAA
*
36926 AATCGCAACGAGAG
1 AATCGCAACGAGAA
36940 AATCG
1 AATCG
36945 TAATGCGAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
14 36 0.55
15 1 0.02
16 4 0.06
17 3 0.05
18 2 0.03
19 19 0.29
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (14 bp):
AATCGCAACGAGAA
Found at i:36883 original size:33 final size:34
Alignment explanation
Indices: 36827--36900 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
36817 CTTAATGACT
* * * *
36827 ATCGCAAAGCGGAAATTACAATCGCAACGAGAGA
1 ATCGCAAAGCGGAAATGAAAATCGCAAAGAGAAA
* *
36861 ATCGCAATGC-GAAATGAAAATCGCAAAGTGAAA
1 ATCGCAAAGCGGAAATGAAAATCGCAAAGAGAAA
36894 ATCGCAA
1 ATCGCAA
36901 CGATAGAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAAAGCGGAAATGAAAATCGCAAAGAGAAA
Found at i:36926 original size:33 final size:33
Alignment explanation
Indices: 36889--36968 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
36879 AATCGCAAAG
*
36889 TGAAAATCGCAACGATAGAATCGCAATGCGAAA
1 TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
*
36922 TGAAAATCGCAACGAGAGAATCGTAATGCGAAA
1 TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
36955 TGAAAATCGCAACG
1 TGAAAATCGCAACG
36969 CGAATATGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
Found at i:36944 original size:47 final size:47
Alignment explanation
Indices: 36846--37039 Score: 163
Period size: 47 Copynumber: 4.2 Consensus size: 47
36836 CGGAAATTAC
* * * *
36846 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAAGTGAA
1 AATCGCAACGATAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
36893 AATCGCAACGATAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGATAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * * *
36940 AATCGTAATGCGAAATGAAAATCGCAACGCGAATATGAATATCGCAACGCG-G
1 AATCGCAA--CG--AT-AGAATCGCAATGCGAA-ATGAAAATCGCAACGAGAG
* *
36992 AAAT---TAC--T---ATCGCAATGCGAAATGAAAATCGCAACGATAG
1 -AATCGCAACGATAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
37032 AATCGCAA
1 AATCGCAA
37040 TGCGAAATGA
Statistics
Matches: 121, Mismatches: 15, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
39 17 0.14
40 13 0.11
42 1 0.01
44 1 0.01
47 50 0.41
48 1 0.01
49 2 0.02
50 1 0.01
51 2 0.02
52 15 0.12
53 18 0.15
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (47 bp):
AATCGCAACGATAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:36983 original size:20 final size:19
Alignment explanation
Indices: 36907--37093 Score: 125
Period size: 19 Copynumber: 10.5 Consensus size: 19
36897 GCAACGATAG
*
36907 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
36926 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
* *
36940 AATCGTAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
36959 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAA-ATGAA
* * *
36979 TATCGCAACGCGGAAATTAC
1 AATCGCAACGC-GAAATGAA
* *
36999 TATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
37018 AATCGCAA--CG--AT-AG
1 AATCGCAACGCGAAATGAA
*
37032 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
37051 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
* *
37065 AATCACAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
37084 AATCGCAACG
1 AATCGCAACG
37094 AGGGAATCAC
Statistics
Matches: 132, Mismatches: 19, Indels: 34
0.71 0.10 0.18
Matches are distributed among these distances:
14 27 0.20
15 4 0.03
16 6 0.05
17 6 0.05
18 4 0.03
19 54 0.41
20 28 0.21
21 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:37042 original size:33 final size:33
Alignment explanation
Indices: 37004--37126 Score: 201
Period size: 33 Copynumber: 3.7 Consensus size: 33
36994 ATTACTATCG
* *
37004 CAATGCGAAATGAAAATCGCAACGATAGAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
37037 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
*
37070 CAATGCGAAATGAAAATCGCAACGAGGGAATCA
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
* *
37103 CAATGCGAATTTAAAATCGCAACG
1 CAATGCGAAATGAAAATCGCAACG
37127 CGAATTTAGT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.15
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCA
Found at i:37158 original size:19 final size:19
Alignment explanation
Indices: 37136--37201 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
37126 GCGAATTTAG
*
37136 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
37155 TTTCGCATTACGA--TTC-
1 TTTCGCATTGCGATTTTCA
* *
37171 TCTCG--TTGCGATTTTTA
1 TTTCGCATTGCGATTTTCA
37188 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
37202 AGTCATTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
14 5 0.14
16 6 0.17
17 7 0.19
19 18 0.50
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:39316 original size:33 final size:35
Alignment explanation
Indices: 39239--39337 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 35
39229 AAAAATGACT
*
39239 ATCGCAACGCGAAATGAAAATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAAC--G-AATCAAA
39277 ATCGCAACGCGAAATGAAAATCGCAACG-A-CAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAATCAAA
**
39310 ATCGCAACGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
39338 CGAAACTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
33 29 0.50
34 1 0.02
36 1 0.02
38 27 0.47
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.09
Consensus pattern (35 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAATCAAA
Found at i:39343 original size:19 final size:19
Alignment explanation
Indices: 39215--39342 Score: 140
Period size: 19 Copynumber: 6.9 Consensus size: 19
39205 TACGAAACTT
*
39215 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
39236 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
39255 AAAATCGCAACGAGAAATG
1 AAAATCGCAACGCGAAATG
39274 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
39293 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAATG
**
39307 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
39326 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
39343 CTATAATTGC
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 67 0.71
21 11 0.12
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:39403 original size:33 final size:33
Alignment explanation
Indices: 39352--39415 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
39342 ACTATAATTG
**
39352 CATTGCGATTTTGGTTTCGCGTTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCGTTGCGATTTTGT
* *
39385 CATTTCGATTTTCATTTCGTGTTGCGATTTT
1 CATTGCGATTTTCATTTCGCGTTGCGATTTT
39416 CATTTCTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.11, C:0.16, G:0.22, T:0.52
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTTTGT
Found at i:39414 original size:19 final size:19
Alignment explanation
Indices: 39390--39490 Score: 96
Period size: 19 Copynumber: 5.2 Consensus size: 19
39380 TTTGTCATTT
39390 CGATTTTCATTTCGTGTTG
1 CGATTTTCATTTCGTGTTG
39409 CGATTTTCATTTC-TCGTTG
1 CGATTTTCATTTCGT-GTTG
* *
39428 TGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGTGTTG
** **
39447 CGATAGTCATTTTTCACGTTG
1 CGATTTTCA--TTTCGTGTTG
*
39468 CGATTTTAAGTTTCGTGTTG
1 CGATTTTCA-TTTCGTGTTG
39488 CGA
1 CGA
39491 AAGTAAACTA
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.02
19 39 0.59
20 11 0.17
21 15 0.23
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.49
Consensus pattern (19 bp):
CGATTTTCATTTCGTGTTG
Found at i:39457 original size:38 final size:39
Alignment explanation
Indices: 39390--39490 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 39
39380 TTTGTCATTT
** *
39390 CGATTTTCATTTCGTGTTGCGATTTTCA-TTTCTCGTTG
1 CGATTTTCATTTCGTGTTGCGATAGTCATTTTCACGTTG
* *
39428 TGATTTTCATTTCGCGTTGCGATAGTCATTTTTCACGTTG
1 CGATTTTCATTTCGTGTTGCGATAGTCA-TTTTCACGTTG
*
39468 CGATTTTAAGTTTCGTGTTGCGA
1 CGATTTTCA-TTTCGTGTTGCGA
39491 AAGTAAACTA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
38 24 0.46
40 16 0.31
41 12 0.23
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.49
Consensus pattern (39 bp):
CGATTTTCATTTCGTGTTGCGATAGTCATTTTCACGTTG
Found at i:39707 original size:93 final size:93
Alignment explanation
Indices: 39538--39823 Score: 475
Period size: 93 Copynumber: 3.1 Consensus size: 93
39528 ATGGATTGCA
* * *
39538 TTACTTCAACCAAAAGACAAAACAAAAACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
39603 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
*
39631 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ATTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
39695 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
* *
39724 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGCGTTAAAGAATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
39789 TTAGCAGAAATTGGCAGCAACCGAATAAAT
65 TTAGCAG-AATTGGCAGCAACCGAATAAAT
39819 TTACT
1 TTACT
39824 AAGCAATCTA
Statistics
Matches: 181, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
92 19 0.10
93 73 0.40
94 62 0.34
95 27 0.15
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:41548 original size:20 final size:20
Alignment explanation
Indices: 41518--41580 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
41508 TTTTGGTTGA
41518 AATGAAAATCGCAACGAAAG
1 AATGAAAATCGCAACGAAAG
** *
41538 AATGACTATCGCAACGCGAA-
1 AATGAAAATCGCAACG-AAAG
*
41558 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAAAG
41578 AAT
1 AAT
41581 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.91
21 2 0.06
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAAAG
Found at i:41583 original size:34 final size:37
Alignment explanation
Indices: 41516--41604 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 37
41506 TCTTTTGGTT
41516 GAAATGAAAATCGCAACGAAAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACG-AAGAATGAC-ATCGCAACGC
41555 GAAAATGAAAATCGCAACG-AG-A-GA-ATCGCAACGC
1 G-AAATGAAAATCGCAACGAAGAATGACATCGCAACGC
41589 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
41605 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
33 15 0.31
34 11 0.22
36 2 0.04
37 1 0.02
38 2 0.04
39 1 0.02
40 17 0.35
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.11
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGAAGAATGACATCGCAACGC
Found at i:41656 original size:21 final size:20
Alignment explanation
Indices: 41616--41666 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
41606 GCGATTTTGG
**
41616 TTTCTCGTTGCGATTTTCAT
1 TTTCTCGTTGCGATAGTCAT
41636 TTCTCTCGTTGCGATAGTCAT
1 TT-TCTCGTTGCGATAGTCAT
*
41657 TTTCGCGTTG
1 TTTCTCGTTG
41667 AGATTCTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.49
Consensus pattern (20 bp):
TTTCTCGTTGCGATAGTCAT
Found at i:42283 original size:41 final size:41
Alignment explanation
Indices: 42226--42419 Score: 203
Period size: 41 Copynumber: 4.7 Consensus size: 41
42216 TTAAAAATCG
* * *
42226 CGTTGCGATTTACGGATACGCGTTGCGATTTTTCGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATTCT
42267 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATTCT
* * * * *
42308 CGTTGCGATTTACGTATTCTCGTTGCGA-TTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATTCT
* *** * *
42348 CGTTGCGATTTTACGTATTTTCGTTGCGA-TTTACGGATACG
1 CGTTGCGA-TTTACGGATACGCGTTGCGATTTTACGGATTCT
* *
42389 CGTTGCGATTTTTACGGGTACTCGTTGCGAT
1 CGTTGCGA--TTTACGGATACGCGTTGCGAT
42420 AGTCAGAATC
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 18 0.13
41 102 0.74
42 17 0.12
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATTCT
Found at i:42331 original size:61 final size:61
Alignment explanation
Indices: 42224--42419 Score: 259
Period size: 61 Copynumber: 3.2 Consensus size: 61
42214 CTTTAAAAAT
* * * *
42224 CGCGTTGCGA-TTTACGGATACGCGTTGCGATTTTTCGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGGATTCTCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
42285 CGCGTTGCGATTTTACGGATTCTCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGGATTCTCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
* * * * * *
42346 CGCGTTGCGATTTTACGTATTTTCGTTGCGATTTACGGATACGCGTTGCGATTTTTACGGGTA
1 CGCGTTGCGATTTTACGGATTCTCGTTGCGATTTACGTATTCTCGTTGCGA--TTTACGGATA
*
42409 CTCGTTGCGAT
1 CGCGTTGCGAT
42420 AGTCAGAATC
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
61 84 0.69
62 18 0.15
63 19 0.16
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.39
Consensus pattern (61 bp):
CGCGTTGCGATTTTACGGATTCTCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:43835 original size:19 final size:18
Alignment explanation
Indices: 43809--43859 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
43799 CCAGAATGTT
43809 TAAAAGTATCGATACTTG
1 TAAAAGTATCGATACTTG
* *
43827 TAGAAAGTATCGAAACTTT
1 TA-AAAGTATCGATACTTG
*
43846 TACAAGTATCGATA
1 TAAAAGTATCGATA
43860 ATTTTGTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (18 bp):
TAAAAGTATCGATACTTG
Found at i:43864 original size:18 final size:18
Alignment explanation
Indices: 43807--43864 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
43797 GTCCAGAATG
*
43807 TTTAAAAGTATCGATACT
1 TTTAAAAGTATCGATAAT
*
43825 TGTAGAAAGTATCGA-AACT
1 TTTA-AAAGTATCGATAA-T
*
43844 TTTACAAGTATCGATAAT
1 TTTAAAAGTATCGATAAT
43862 TTT
1 TTT
43865 GTAGGAGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
TTTAAAAGTATCGATAAT
Found at i:56529 original size:20 final size:21
Alignment explanation
Indices: 56493--56535 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
56483 AAGATGCCAC
*
56493 ATAAAATTTATATTTTAAAAA
1 ATAAAAATTATATTTTAAAAA
56514 ATAAAAATTA-ATTTTAAAAA
1 ATAAAAATTATATTTTAAAAA
56534 AT
1 AT
56536 TAATGATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAATTATATTTTAAAAA
Found at i:59788 original size:42 final size:43
Alignment explanation
Indices: 59724--59804 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
59714 GAACTCAAAC
59724 ATTTTTCGCCTTAGCAACTTTTATTTACTTACTCTTGCAATTA
1 ATTTTTCGCCTTAGCAACTTTTATTTACTTACTCTTGCAATTA
* **
59767 ATTTTT-GCCTTAGCAATTTTTATTTGTTTACTCTTGCA
1 ATTTTTCGCCTTAGCAACTTTTATTTACTTACTCTTGCA
59805 TATTTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 29 0.83
43 6 0.17
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.52
Consensus pattern (43 bp):
ATTTTTCGCCTTAGCAACTTTTATTTACTTACTCTTGCAATTA
Found at i:59817 original size:42 final size:41
Alignment explanation
Indices: 59724--59817 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
59714 GAACTCAAAC
59724 ATTTTTC--GCCTTAGCAACTTTTATTTACTTACTCTTGCA
1 ATTTTTCTTGCCTTAGCAACTTTTATTTACTTACTCTTGCA
* **
59763 ATTAATTT-TTGCCTTAGCAATTTTTATTTGTTTACTCTTGCA
1 ATT--TTTCTTGCCTTAGCAACTTTTATTTACTTACTCTTGCA
59805 TATTTTTCTTGCC
1 -ATTTTTCTTGCC
59818 ACGACAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
39 3 0.07
41 6 0.13
42 34 0.74
43 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (41 bp):
ATTTTTCTTGCCTTAGCAACTTTTATTTACTTACTCTTGCA
Found at i:63445 original size:26 final size:26
Alignment explanation
Indices: 63415--63466 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
63405 AAAATGTTGT
63415 TTACAATTGATAATGTTATATTGTGG
1 TTACAATTGATAATGTTATATTGTGG
63441 TTACAATTGATAATGTTATATTGTGG
1 TTACAATTGATAATGTTATATTGTGG
63467 GGTTTTAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (26 bp):
TTACAATTGATAATGTTATATTGTGG
Found at i:70592 original size:34 final size:30
Alignment explanation
Indices: 70554--70622 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
70544 TTGATATAAC
70554 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
70588 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
70617 AATTTA
1 AATTTA
70623 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:70633 original size:29 final size:30
Alignment explanation
Indices: 70563--70622 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
70553 CAATTTAAGG
70563 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
70594 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
70623 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:70813 original size:19 final size:18
Alignment explanation
Indices: 70761--70813 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
70751 TTGCTCGGAT
*
70761 GGTATCTATACCCCCAGG
1 GGTATCTATACCCCTAGG
* *
70779 GGTATCCATAAACCCTAGG
1 GGTATCTAT-ACCCCTAGG
70798 GGTATCTATACTCCCT
1 GGTATCTATAC-CCCT
70814 GGATGCAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (18 bp):
GGTATCTATACCCCTAGG
Found at i:72100 original size:19 final size:20
Alignment explanation
Indices: 72076--72123 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
72066 AATGATTTTC
*
72076 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
72095 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
72115 TTTTGAAAA
1 TTTTGAAAA
72124 ATGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:73320 original size:20 final size:19
Alignment explanation
Indices: 73262--73319 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
73252 CCAACAATTG
73262 GTAACAATTGGTTATCTTTT
1 GTAACAATTGG-TATCTTTT
*
73282 -TAACAATTAGTATCCTTTT
1 GTAACAATTGGTAT-CTTTT
*
73301 GTAATAATTGGTATCTTTT
1 GTAACAATTGGTATCTTTT
73320 TCATTAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
GTAACAATTGGTATCTTTT
Found at i:73501 original size:29 final size:30
Alignment explanation
Indices: 73431--73490 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
73421 CAATTTAAGG
73431 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
*
73462 CAAAATATTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
73491 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:73667 original size:15 final size:15
Alignment explanation
Indices: 73647--73676 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73637 TACCCCCCAG
73647 GGGTATCCATACCCC
1 GGGTATCCATACCCC
*
73662 GGGTATCGATACCCC
1 GGGTATCCATACCCC
73677 CTGGCTGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (15 bp):
GGGTATCCATACCCC
Found at i:73816 original size:20 final size:22
Alignment explanation
Indices: 73778--73817 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
73768 TTTGAGTAGA
73778 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
73800 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
73818 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:81215 original size:16 final size:16
Alignment explanation
Indices: 81194--81226 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
81184 TAATAAATAA
81194 ATGAACATAAACGAAC
1 ATGAACATAAACGAAC
81210 ATGAACATAAACGAAC
1 ATGAACATAAACGAAC
81226 A
1 A
81227 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAACATAAACGAAC
Found at i:81245 original size:71 final size:71
Alignment explanation
Indices: 81166--81297 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 71
81156 AACGGAGGTA
* *
81166 TGTTCATGTTCGTTCATTTAATAAATAAATGAACATAAACGAACATGAACATAAACGAACAAATT
1 TGTTCATGTTCGTTCATTTAATAAATAAACGAACATAAACGAACACGAACATAAACGAACAAATT
81231 TTTTTT
66 TTTTTT
**
81237 TGTTCATGTTCGTTCATTTAATAAATAAACGAACATAAACGCGCACGAACATAAACGAACA
1 TGTTCATGTTCGTTCATTTAATAAATAAACGAACATAAACGAACACGAACATAAACGAACA
81298 CGAACATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (71 bp):
TGTTCATGTTCGTTCATTTAATAAATAAACGAACATAAACGAACACGAACATAAACGAACAAATT
TTTTTT
Found at i:81286 original size:16 final size:16
Alignment explanation
Indices: 81265--81325 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
81255 TAATAAATAA
**
81265 ACGAACATAAACGCGC
1 ACGAACATAAACGAAC
81281 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
81297 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
81313 ACGAACATAAACG
1 ACGAACATAAACG
81326 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.52, C:0.25, G:0.15, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:82396 original size:14 final size:14
Alignment explanation
Indices: 82379--82424 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
82369 AATGAACATA
*
82379 AACGAACATAACCG
1 AACGAACATAAACG
82393 AACGAACATAAACG
1 AACGAACATAAACG
*
82407 AACGAACATAATCG
1 AACGAACATAAACG
82421 AACG
1 AACG
82425 TTCACAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.52, C:0.24, G:0.15, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:82422 original size:24 final size:24
Alignment explanation
Indices: 82372--82423 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
82362 ATAAATGAAT
* *
82372 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACAGAACAGAAC
*
82396 GAACATAAACGAAC-GAACATAATC
1 GAACATAAACGAACAGAACAGAA-C
82420 GAAC
1 GAAC
82424 GTTCACAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.54, C:0.23, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACAGAACAGAAC
Found at i:82433 original size:28 final size:28
Alignment explanation
Indices: 82379--82434 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
82369 AATGAACATA
*
82379 AACGAACATAACCGAACGAACATAAACG
1 AACGAACATAACCGAACGAACACAAACG
* **
82407 AACGAACATAATCGAACGTTCACAAACG
1 AACGAACATAACCGAACGAACACAAACG
82435 TAAATGAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.14, T:0.11
Consensus pattern (28 bp):
AACGAACATAACCGAACGAACACAAACG
Found at i:84402 original size:42 final size:42
Alignment explanation
Indices: 84343--84425 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
84333 ATAAGTCTAT
84343 CTTCATCACATATTCCACCTCATATCACCCTACCTTCATCAG
1 CTTCATCACATATTCCACCTCATATCACCCTACCTTCATCAG
84385 CTTCATCACATATTCCACCTCATATCACCCTACCTTCATCA
1 CTTCATCACATATTCCACCTCATATCACCCTACCTTCATCA
84426 CCATCAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.41, G:0.01, T:0.31
Consensus pattern (42 bp):
CTTCATCACATATTCCACCTCATATCACCCTACCTTCATCAG
Found at i:90991 original size:20 final size:21
Alignment explanation
Indices: 90966--91058 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
90956 TTTTCCCAAT
*
90966 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
90986 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
91007 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
91027 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
91048 TCGCAATGCGA
1 TCGCAATGCGA
91059 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:91072 original size:20 final size:20
Alignment explanation
Indices: 91047--91160 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
91037 AATTGGGAAA
*
91047 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
91067 ATCGCAATGCGATAATAAAA
1 ATCGCAACGCGATACTGACT
* *
91087 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
91107 TTCTCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
91127 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
91147 TTCGCAACGCGATA
1 ATCGCAACGCGATA
91161 ATACATAATC
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:91073 original size:41 final size:41
Alignment explanation
Indices: 90966--91058 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
90956 TTTTCCCAAT
90966 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
91007 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
91048 TCGCAATGCGA
1 TCGCAATGCGA
91059 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:91101 original size:40 final size:40
Alignment explanation
Indices: 91044--91174 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
91034 GCGAATTGGG
* * *
91044 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATA
* * * * *
91084 AAAATCGCAACGAGATACTTACTTTCTCAACGCGATACTG
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATA
*** *
91124 ACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATA
*
91164 CATAATCGCAA
1 -AAAATCGCAA
91175 TACGATTTTC
Statistics
Matches: 70, Mismatches: 20, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
40 63 0.90
41 7 0.10
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (40 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATA
Found at i:91376 original size:22 final size:22
Alignment explanation
Indices: 91348--91391 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
91338 CACTCTCTCA
91348 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
91370 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
91392 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:91693 original size:20 final size:20
Alignment explanation
Indices: 91670--91712 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
91660 GATAGTCGAA
91670 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
91690 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
91710 TTC
1 TTC
91713 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:93051 original size:18 final size:18
Alignment explanation
Indices: 93030--93074 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
93020 TCCACTTCGG
*
93030 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
93048 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
93066 GAGCCATCA
1 GAGCCATCA
93075 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:93590 original size:20 final size:20
Alignment explanation
Indices: 93567--93643 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
93557 CACAACACGA
93567 AAATGACTATCGCAACGAGG
1 AAATGACTATCGCAACGAGG
93587 AAATGACTATCGCAACGAGG
1 AAATGACTATCGCAACGAGG
* * *
93607 AAATGGCTATCGCAATG-CG
1 AAATGACTATCGCAACGAGG
**
93626 AAATGAAAATCGCAACGA
1 AAATGACTATCGCAACGA
93644 CAAAATCGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.29
20 35 0.71
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGAGG
Found at i:93650 original size:14 final size:14
Alignment explanation
Indices: 93631--93688 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
93621 ATGCGAAATG
93631 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
93645 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
93661 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
93677 AAAATCGCAACG
1 AAAATCGCAACG
93689 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:93673 original size:32 final size:33
Alignment explanation
Indices: 93615--93705 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
93605 GGAAATGGCT
93615 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
93648 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
93680 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
93706 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:93744 original size:14 final size:14
Alignment explanation
Indices: 93722--93779 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
93712 TTGTGTTTCG
*
93722 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
93736 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
93752 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
93768 CGTTGCGATTTT
1 CGTTGCGATTTT
93780 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:93751 original size:19 final size:18
Alignment explanation
Indices: 93736--93816 Score: 89
Period size: 19 Copynumber: 4.6 Consensus size: 18
93726 ACGATTTTGT
93736 CGTTGCGATTTCATTTCG
1 CGTTGCGATTTCATTTCG
*
93754 CGTTGCGATTT--TGT--
1 CGTTGCGATTTCATTTCG
93768 CGTTGCGATTTTCATTTCG
1 CGTTGCGA-TTTCATTTCG
* *
93787 CATTGCGATAGTCATTTCG
1 CGTTGCGAT-TTCATTTCG
93806 CGTTGCGATTT
1 CGTTGCGATTT
93817 TAAGTTTCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 8 0.16
15 3 0.06
16 2 0.04
17 2 0.04
18 13 0.25
19 23 0.45
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.44
Consensus pattern (18 bp):
CGTTGCGATTTCATTTCG
Found at i:93786 original size:33 final size:32
Alignment explanation
Indices: 93717--93795 Score: 131
Period size: 32 Copynumber: 2.4 Consensus size: 32
93707 GCGATTTGTG
*
93717 TTTCGCGTTACGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
93749 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
93782 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
93796 AGTCATTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:95692 original size:14 final size:14
Alignment explanation
Indices: 95673--95708 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
95663 ATTGTTTAAT
95673 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
95687 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
95701 TGATTTGT
1 TGATTTGT
95709 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:95830 original size:14 final size:14
Alignment explanation
Indices: 95811--95863 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
95801 CGAAATGGCT
95811 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
95825 ATCGCAATGCGAAATGAA
1 ATCGCAA--CGAGA--AA
95843 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
95857 ATCGCAA
1 ATCGCAA
95864 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 16 0.48
16 8 0.24
18 9 0.27
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:95846 original size:18 final size:16
Alignment explanation
Indices: 95822--95868 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
95812 TCGCAACGAG
95822 AAAATCGCAATGCGAA
1 AAAATCGCAATGCGAA
*
95838 ATGAAATCGCAA--CGAG
1 A--AAATCGCAATGCGAA
95854 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
95869 TTTTCATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 9 0.35
16 8 0.31
18 9 0.35
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (16 bp):
AAAATCGCAATGCGAA
Found at i:95852 original size:32 final size:33
Alignment explanation
Indices: 95792--95868 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 33
95782 AAAATAGACT
* **
95792 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGGAAATCGCAACGAGAAA
95825 ATCGCAATGCGAAAT-GAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGGAAATCGCAACGAGAAA
95857 ATCGCAATGCGA
1 ATCGCAATGCGA
95869 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 27 0.66
33 14 0.34
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGGAAATCGCAACGAGAAA
Found at i:95943 original size:20 final size:20
Alignment explanation
Indices: 95888--95943 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
95878 CGCATTGCGA
* *
95888 TTTCTCGTTGCGATAACCAT
1 TTTCGCGTTGCGATAGCCAT
95908 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
95928 TTTCGCGTTGCGATAG
1 TTTCGCGTTGCGATAG
95944 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:97024 original size:24 final size:24
Alignment explanation
Indices: 96997--97050 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
96987 GTATTCGAAA
* *
96997 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
97021 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
97045 TTTGAT
1 TTTGAT
97051 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:97242 original size:12 final size:12
Alignment explanation
Indices: 97225--97249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97215 ATATAATCCT
97225 GAAGAAGAAAAA
1 GAAGAAGAAAAA
97237 GAAGAAGAAAAA
1 GAAGAAGAAAAA
97249 G
1 G
97250 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:99524 original size:20 final size:19
Alignment explanation
Indices: 99494--99549 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
99484 CAATCATCTT
*
99494 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
* *
99514 AATTACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
99533 AATGAAAATCGCAACGC
1 AATGACTATCGCAACGC
99550 TAATTTGCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:99565 original size:32 final size:32
Alignment explanation
Indices: 99524--99620 Score: 142
Period size: 32 Copynumber: 3.0 Consensus size: 32
99514 AATTACTATC
*
99524 GCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGCGAATTT
* *
99556 GCAATGCGAAATGAAAATCGCAACGAGGGAA-TC
1 GCAATGCGAAATGAAAATCGCAAC--GCGAATTT
99589 GCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGCGAATTT
99621 AATTTCGCGT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
31 4 0.07
32 25 0.44
33 25 0.44
34 3 0.05
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (32 bp):
GCAATGCGAAATGAAAATCGCAACGCGAATTT
Found at i:99635 original size:19 final size:20
Alignment explanation
Indices: 99613--99655 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
99603 AAATCGCAAC
99613 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
99632 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
99652 GCGA
1 GCGA
99656 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:99640 original size:14 final size:14
Alignment explanation
Indices: 99641--99674 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99631 TGCGATTTTC
99641 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
99655 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
99669 ATTTTC
1 ATTTTC
99675 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:99813 original size:14 final size:14
Alignment explanation
Indices: 99794--99830 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
99784 CATCAATTAA
99794 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
99808 ACAAATCACCTTTT
1 ACAAATCAACTTTT
99822 ACAAATCAA
1 ACAAATCAA
99831 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:103289 original size:20 final size:19
Alignment explanation
Indices: 103244--103304 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
103234 TCTTTTGGTT
103244 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
103263 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
103284 GAAATGACTATCACAACGA
1 GAAATGAAAATCGCAACGA
103303 GA
1 GA
103305 TCGCAACGCG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.12
20 28 0.82
21 2 0.06
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:103346 original size:33 final size:30
Alignment explanation
Indices: 103272--103350 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 30
103262 AGATAATGAG
103272 AATCGCAACGCGGAAATGACTATCACAACGA
1 AATCGCAACGC-GAAATGACTATCACAACGA
* * *
103303 GATCGCAACGCGAAATGACTATCGCGACCAGA
1 AATCGCAACGCGAAATGACTATCAC-AAC-GA
103335 CAATCGCAACGCGAAA
1 -AATCGCAACGCGAAA
103351 GAAAATCGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 13 0.32
31 12 0.29
32 2 0.05
33 14 0.34
ACGTcount: A:0.39, C:0.28, G:0.22, T:0.11
Consensus pattern (30 bp):
AATCGCAACGCGAAATGACTATCACAACGA
Found at i:103366 original size:19 final size:19
Alignment explanation
Indices: 103336--103422 Score: 126
Period size: 19 Copynumber: 4.7 Consensus size: 19
103326 GCGACCAGAC
103336 AATCGCAACGCGAAA-GAA
1 AATCGCAACGCGAAATGAA
103354 AATCGCAACCGCGAAA--AA
1 AATCGCAA-CGCGAAATGAA
103372 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
103391 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
103410 AATCGCAATGCGA
1 AATCGCAACGCGA
103423 TTTTTTGTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
17 7 0.11
18 18 0.28
19 39 0.61
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:103383 original size:36 final size:38
Alignment explanation
Indices: 103336--103422 Score: 135
Period size: 36 Copynumber: 2.3 Consensus size: 38
103326 GCGACCAGAC
103336 AATCGCAACGCGAAA-GAAAATCGCAACCGCG-AA-AAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
103372 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
103410 AATCGCAATGCGA
1 AATCGCAACGCGA
103423 TTTTTTGTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 19 0.40
37 13 0.28
38 15 0.32
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:103449 original size:16 final size:16
Alignment explanation
Indices: 103424--103454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103414 GCAATGCGAT
*
103424 TTTTTGTTTCGCGTTA
1 TTTTTATTTCGCGTTA
103440 TTTTTATTTCGCGTT
1 TTTTTATTTCGCGTT
103455 GCGATAGTTA
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:0.06, C:0.13, G:0.16, T:0.65
Consensus pattern (16 bp):
TTTTTATTTCGCGTTA
Found at i:104062 original size:20 final size:20
Alignment explanation
Indices: 104039--104088 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
104029 TTTGTATTAT
104039 GCATTGCGATAGTAAGTATC
1 GCATTGCGATAGTAAGTATC
*
104059 GCATTGCGATAGTCAGTATC
1 GCATTGCGATAGTAAGTATC
104079 GCATTGCGAT
1 GCATTGCGAT
104089 TTTCCCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (20 bp):
GCATTGCGATAGTAAGTATC
Found at i:104712 original size:19 final size:19
Alignment explanation
Indices: 104675--104714 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
104665 TCCTACCATT
*
104675 ATATTTTTATAAATAAAAA
1 ATATTTTTATAAAAAAAAA
104694 ATATTTTTA-AAAAAGAAAA
1 ATATTTTTATAAAAA-AAAA
104713 AT
1 AT
104715 TAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATATTTTTATAAAAAAAAA
Found at i:104719 original size:13 final size:13
Alignment explanation
Indices: 104700--104730 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
104690 AAAAATATTT
104700 TTAAAAAAGAAAAA
1 TTAAAAAA-AAAAA
104714 TTAAAAAAAAAAA
1 TTAAAAAAAAAAA
104727 TTAA
1 TTAA
104731 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
TTAAAAAAAAAAA
Found at i:105415 original size:2 final size:2
Alignment explanation
Indices: 105403--105436 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
105393 GAATAAGGTT
105403 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105437 CTTATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:109082 original size:26 final size:26
Alignment explanation
Indices: 109034--109083 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
109024 TCTGACGTGA
* *
109034 CAGTTTCTAGAAGGTCCAGTCAGCTG
1 CAGTTTCTAGAAGATCCACTCAGCTG
*
109060 CAGTTTCTAGAAGATCTACTCAGC
1 CAGTTTCTAGAAGATCCACTCAGC
109084 GCGCCTTCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
CAGTTTCTAGAAGATCCACTCAGCTG
Found at i:110409 original size:17 final size:18
Alignment explanation
Indices: 110384--110425 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
110374 CGATCCAGTT
*
110384 CGACTCGACCCGTTGA-C
1 CGACCCGACCCGTTGACC
110401 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
110419 CGACCCG
1 CGACCCG
110426 GTGACATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.17, C:0.48, G:0.24, T:0.12
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:110467 original size:29 final size:29
Alignment explanation
Indices: 110425--110614 Score: 208
Period size: 29 Copynumber: 6.6 Consensus size: 29
110415 GACCCGACCC
110425 GGTGACATTTTGGAAATTATTTTGAAAAA
1 GGTGACATTTTGGAAATTATTTTGAAAAA
* * *
110454 GGTGATATTCTGGAAATTATTTTGGAAAA
1 GGTGACATTTTGGAAATTATTTTGAAAAA
*
110483 TGTGACATTTTGGGAAATTATTTT-AAAAA
1 GGTGACATTTT-GGAAATTATTTTGAAAAA
** *
110512 AATGACATTATGG-AATTATTTTGAAAAA
1 GGTGACATTTTGGAAATTATTTTGAAAAA
* * * *
110540 -GTAACATTTTGGGATTTTTTTTGAAAAA
1 GGTGACATTTTGGAAATTATTTTGAAAAA
*
110568 AGTGACATTCTTGG-AATTATTTTGAAAAA
1 GGTGACATT-TTGGAAATTATTTTGAAAAA
* *
110597 GATGACATTTTGGGAATT
1 GGTGACATTTTGGAAATT
110615 TTCAAATATG
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
27 18 0.13
28 24 0.18
29 77 0.57
30 16 0.12
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.39
Consensus pattern (29 bp):
GGTGACATTTTGGAAATTATTTTGAAAAA
Done.