Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 1 of 253
Found at i:4908 original size:23 final size:23
Alignment explanation
Indices: 4854--4916 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
4844 GAGAACCAAA
*
4854 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
4877 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
4900 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
4917 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:5716 original size:22 final size:22
Alignment explanation
Indices: 5688--5734 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
5678 AGATTATTAT
5688 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
5710 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
5732 TAT
1 TAT
5735 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:10765 original size:23 final size:23
Alignment explanation
Indices: 10711--10773 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
10701 GAGAACCAAA
*
10711 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
10734 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
10757 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
10774 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:11575 original size:22 final size:22
Alignment explanation
Indices: 11547--11593 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
11537 AGATTATTAT
11547 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
11569 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
11591 TAT
1 TAT
11594 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:12034 original size:18 final size:17
Alignment explanation
Indices: 12011--12044 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12001 AATAAATTTC
12011 AAACACACAGCAAAAAAA
1 AAACACA-AGCAAAAAAA
*
12029 AAACACAAGTAAAAAA
1 AAACACAAGCAAAAAA
12045 GCATAATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.18, G:0.06, T:0.03
Consensus pattern (17 bp):
AAACACAAGCAAAAAAA
Found at i:16623 original size:23 final size:23
Alignment explanation
Indices: 16569--16631 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
16559 GAGAACCAAA
*
16569 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
16592 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
16615 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
16632 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:17433 original size:22 final size:22
Alignment explanation
Indices: 17405--17451 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
17395 AGATTATTAT
17405 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
17427 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
17449 TAT
1 TAT
17452 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:20428 original size:23 final size:23
Alignment explanation
Indices: 20388--20695 Score: 117
Period size: 23 Copynumber: 13.8 Consensus size: 23
20378 ATTTTAGACT
* ** *
20388 CATTTATACACCAAAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* * * *
20411 CACTTAAACACTTCAATTTAAAT
1 CATTTAAACACCTCAATTTACAG
*
20434 CATTTAAGCACCTCAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* * *
20457 CAATTAAACACTTTAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* *
20480 CATTTAAACACCTCAACTTACAA
1 CATTTAAACACCTCAATTTACAG
* *
20503 CACTTT-AACATCC-CAATTAACAA
1 CA-TTTAAACA-CCTCAATTTACAG
* * *
20526 CAATTATACACCTCAA-TCACAG
1 CATTTAAACACCTCAATTTACAG
*
20548 CCA--T-AA-A---C-AT-GACAG
1 -CATTTAAACACCTCAATTTACAG
* * * *
20563 CGTTTAAATACTTCAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* * *
20586 CACTTT-AACACTTCAGTTTTCAG
1 CA-TTTAAACACCTCAATTTACAG
* *
20609 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* * * *
20632 CACTTT-AACATCTCAATTAAGAA
1 CA-TTTAAACACCTCAATTTACAG
*
20655 CATTTATAA-ACCTCAA-TCACAG
1 CATTTA-AACACCTCAATTTACAG
* * *
20677 CAATAAAACATCTCAATTT
1 CATTTAAACACCTCAATTT
20696 CTAGCAACTA
Statistics
Matches: 210, Mismatches: 53, Indels: 44
0.68 0.17 0.14
Matches are distributed among these distances:
14 1 0.00
15 5 0.02
16 2 0.01
17 2 0.01
18 1 0.00
19 1 0.00
20 1 0.00
21 4 0.02
22 29 0.14
23 151 0.72
24 13 0.06
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.31
Consensus pattern (23 bp):
CATTTAAACACCTCAATTTACAG
Found at i:20452 original size:46 final size:46
Alignment explanation
Indices: 20388--20501 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
20378 ATTTTAGACT
* ** * * *
20388 CATTTATACACCAAAATTTGCAGCACTTAAACACTTCAATTTAAAT
1 CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
* * *
20434 CATTTAAGCACCTCAATTTACAGCAATTAAACACTTTAATTTACAG
1 CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
*
20480 CATTTAAACACCTCAACTTACA
1 CATTTAAACACCTCAATTTACA
20502 ACACTTTAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (46 bp):
CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
Found at i:20520 original size:69 final size:69
Alignment explanation
Indices: 20402--20536 Score: 159
Period size: 69 Copynumber: 2.0 Consensus size: 69
20392 TATACACCAA
* * * * *
20402 AATTTGCAGCACTTAAACACTTCAATTTAAATCATTTAAGCACCTCAATTTACAGCAATTAAACA
1 AATTTACAGCACTTAAACACCTCAACTTAAATCATTTAAGCACCTCAATTAACAACAATTAAACA
20467 CTTT
66 CTTT
* *
20471 AATTTACAGCATTTAAACACCTCAACTTACAA-CACTTTAA-CATCC-CAATTAACAACAATTAT
1 AATTTACAGCACTTAAACACCTCAACTTA-AATCA-TTTAAGCA-CCTCAATTAACAACAATTAA
20533 ACAC
63 ACAC
20537 CTCAATCACA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
69 47 0.84
70 9 0.16
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.30
Consensus pattern (69 bp):
AATTTACAGCACTTAAACACCTCAACTTAAATCATTTAAGCACCTCAATTAACAACAATTAAACA
CTTT
Found at i:20668 original size:129 final size:129
Alignment explanation
Indices: 20446--20683 Score: 341
Period size: 129 Copynumber: 1.8 Consensus size: 129
20436 TTTAAGCACC
*
20446 TCAATTTACAGCAATTAAACACTTTAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
1 TCAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* *
20511 CATCCCAATTAACAACAATTATACACCTCAATCACAGCCATAAACATGACAGCGTTTAAATACT
66 CATCCCAATTAACAACAATTATAAACCTCAATCACAGCAATAAACATGACAGCGTTTAAATACT
* * * * * * * * *
20575 TCAATTTGCAGCACTTTAACACTTCAGTTTTCAGCATTTAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * *
20640 CATCTCAATTAAGAACATTTATAAACCTCAATCACAGCAATAAA
66 CATCCCAATTAACAACAATTATAAACCTCAATCACAGCAATAAA
20684 ACATCTCAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
129 94 1.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (129 bp):
TCAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
CATCCCAATTAACAACAATTATAAACCTCAATCACAGCAATAAACATGACAGCGTTTAAATACT
Found at i:21451 original size:22 final size:22
Alignment explanation
Indices: 21423--21491 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
21413 AGATTATTAT
21423 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
21445 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
*
21467 TATTTTTTAAAACTAAAGAACA
1 TATTTTTTAAAACTAAAGTACA
21489 TAT
1 TAT
21492 CAAGAAACAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:24669 original size:18 final size:18
Alignment explanation
Indices: 24646--24719 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
24636 CGGGGTCATA
24646 AAAAAACCGAACCGGGGT
1 AAAAAACCGAACCGGGGT
*
24664 AAAAAACCGAACCGGGAT
1 AAAAAACCGAACCGGGGT
*
24682 CAAAAACCGAACCGGGGT
1 AAAAAACCGAACCGGGGT
24700 CCCAAAAAACCGGAACCGGG
1 ---AAAAAACC-GAACCGGG
24720 ATATAAAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 33 0.69
21 7 0.15
22 8 0.17
ACGTcount: A:0.43, C:0.27, G:0.26, T:0.04
Consensus pattern (18 bp):
AAAAAACCGAACCGGGGT
Found at i:24693 original size:36 final size:38
Alignment explanation
Indices: 24647--24721 Score: 118
Period size: 36 Copynumber: 2.0 Consensus size: 38
24637 GGGGTCATAA
24647 AAAAACCGAACCGGGGT-AAAAAACC-GAACCGGGATC
1 AAAAACCGAACCGGGGTCAAAAAACCGGAACCGGGATC
24683 AAAAACCGAACCGGGGTCCCAAAAAACCGGAACCGGGAT
1 AAAAACCGAACCGGGGT--CAAAAAACCGGAACCGGGAT
24722 ATAAAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 17 0.49
39 8 0.23
40 10 0.29
ACGTcount: A:0.43, C:0.27, G:0.25, T:0.05
Consensus pattern (38 bp):
AAAAACCGAACCGGGGTCAAAAAACCGGAACCGGGATC
Found at i:25104 original size:30 final size:30
Alignment explanation
Indices: 25068--25125 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
25058 ATTAGATAGG
25068 TGTCAACGGTAACATTTATGGTGATTAAGA
1 TGTCAACGGTAACATTTATGGTGATTAAGA
*
25098 TGTCAACGGTAACATTTATTGTGATTAA
1 TGTCAACGGTAACATTTATGGTGATTAA
25126 AACATTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (30 bp):
TGTCAACGGTAACATTTATGGTGATTAAGA
Found at i:27289 original size:14 final size:14
Alignment explanation
Indices: 27272--27302 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
27262 ACTGCAGTTC
27272 TAGGCAGTCCTAAA
1 TAGGCAGTCCTAAA
27286 TAGGCAGTCCTAAA
1 TAGGCAGTCCTAAA
27300 TAG
1 TAG
27303 ATTAATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (14 bp):
TAGGCAGTCCTAAA
Found at i:34243 original size:25 final size:25
Alignment explanation
Indices: 34209--34258 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
34199 TGATCTACAG
34209 ATGTTAACTGAGCTTGTTCCTGTAT
1 ATGTTAACTGAGCTTGTTCCTGTAT
34234 ATGTTAACTGAGCTTGTTCCTGTAT
1 ATGTTAACTGAGCTTGTTCCTGTAT
34259 GTTTTAGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (25 bp):
ATGTTAACTGAGCTTGTTCCTGTAT
Found at i:36098 original size:42 final size:42
Alignment explanation
Indices: 36039--36122 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
36029 ACCAACAAGG
36039 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
1 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
36081 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
1 TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
36123 ATTTTCTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.29
Consensus pattern (42 bp):
TAAAAGATTACAGAATAAGTAGGAAATTATCATGAGTTATAA
Found at i:36232 original size:22 final size:22
Alignment explanation
Indices: 36204--36250 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
36194 AGATTATTAT
36204 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
36226 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
36248 TAT
1 TAT
36251 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:40416 original size:23 final size:22
Alignment explanation
Indices: 40364--40440 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
40354 AACCAAAACT
*
40364 TTTAACACTTCAGTTTACAGCA
1 TTTAACACTTCAATTTACAGCA
*
40386 TTTAAACACTTCAATTTGCAGCA
1 TTT-AACACTTCAATTTACAGCA
* *
40409 CTTTAACA-TCTCAATTAACAACA
1 -TTTAACACT-TCAATTTACAGCA
40432 TTTATACAC
1 TTTA-ACAC
40441 CTCTATCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
22 8 0.18
23 34 0.76
24 3 0.07
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (22 bp):
TTTAACACTTCAATTTACAGCA
Found at i:41223 original size:22 final size:22
Alignment explanation
Indices: 41195--41241 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
41185 AGATTATTAT
41195 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
41217 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
41239 TAT
1 TAT
41242 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:42122 original size:23 final size:23
Alignment explanation
Indices: 42082--42389 Score: 117
Period size: 23 Copynumber: 13.8 Consensus size: 23
42072 ATTTTAGACT
* ** *
42082 CATTTATACACCAAAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* * * *
42105 CACTTAAACACTTCAATTTAAAT
1 CATTTAAACACCTCAATTTACAG
*
42128 CATTTAAGCACCTCAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* * *
42151 CAATTAAACACTTTAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* *
42174 CATTTAAACACCTCAACTTACAA
1 CATTTAAACACCTCAATTTACAG
* *
42197 CACTTT-AACATCC-CAATTAACAA
1 CA-TTTAAACA-CCTCAATTTACAG
* * *
42220 CAATTATACACCTCAA-TCACAG
1 CATTTAAACACCTCAATTTACAG
*
42242 CCA--T-AA-A---C-AT-GACAG
1 -CATTTAAACACCTCAATTTACAG
* * * *
42257 CGTTTAAATACTTCAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* * *
42280 CACTTT-AACACTTCAGTTTTCAG
1 CA-TTTAAACACCTCAATTTACAG
* *
42303 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* * * *
42326 CACTTT-AACATCTCAATTAAGAA
1 CA-TTTAAACACCTCAATTTACAG
*
42349 CATTTATAA-ACCTCAA-TCACAG
1 CATTTA-AACACCTCAATTTACAG
* * *
42371 CAATAAAACATCTCAATTT
1 CATTTAAACACCTCAATTT
42390 CTAGCAACTA
Statistics
Matches: 210, Mismatches: 53, Indels: 44
0.68 0.17 0.14
Matches are distributed among these distances:
14 1 0.00
15 5 0.02
16 2 0.01
17 2 0.01
18 1 0.00
19 1 0.00
20 1 0.00
21 4 0.02
22 29 0.14
23 151 0.72
24 13 0.06
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.31
Consensus pattern (23 bp):
CATTTAAACACCTCAATTTACAG
Found at i:42146 original size:46 final size:46
Alignment explanation
Indices: 42082--42195 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
42072 ATTTTAGACT
* ** * * *
42082 CATTTATACACCAAAATTTGCAGCACTTAAACACTTCAATTTAAAT
1 CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
* * *
42128 CATTTAAGCACCTCAATTTACAGCAATTAAACACTTTAATTTACAG
1 CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
*
42174 CATTTAAACACCTCAACTTACA
1 CATTTAAACACCTCAATTTACA
42196 ACACTTTAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (46 bp):
CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
Found at i:42214 original size:69 final size:69
Alignment explanation
Indices: 42096--42230 Score: 159
Period size: 69 Copynumber: 2.0 Consensus size: 69
42086 TATACACCAA
* * * * *
42096 AATTTGCAGCACTTAAACACTTCAATTTAAATCATTTAAGCACCTCAATTTACAGCAATTAAACA
1 AATTTACAGCACTTAAACACCTCAACTTAAATCATTTAAGCACCTCAATTAACAACAATTAAACA
42161 CTTT
66 CTTT
* *
42165 AATTTACAGCATTTAAACACCTCAACTTACAA-CACTTTAA-CATCC-CAATTAACAACAATTAT
1 AATTTACAGCACTTAAACACCTCAACTTA-AATCA-TTTAAGCA-CCTCAATTAACAACAATTAA
42227 ACAC
63 ACAC
42231 CTCAATCACA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
69 47 0.84
70 9 0.16
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.30
Consensus pattern (69 bp):
AATTTACAGCACTTAAACACCTCAACTTAAATCATTTAAGCACCTCAATTAACAACAATTAAACA
CTTT
Found at i:42362 original size:129 final size:129
Alignment explanation
Indices: 42140--42377 Score: 341
Period size: 129 Copynumber: 1.8 Consensus size: 129
42130 TTTAAGCACC
*
42140 TCAATTTACAGCAATTAAACACTTTAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
1 TCAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* *
42205 CATCCCAATTAACAACAATTATACACCTCAATCACAGCCATAAACATGACAGCGTTTAAATACT
66 CATCCCAATTAACAACAATTATAAACCTCAATCACAGCAATAAACATGACAGCGTTTAAATACT
* * * * * * * * *
42269 TCAATTTGCAGCACTTTAACACTTCAGTTTTCAGCATTTAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * *
42334 CATCTCAATTAAGAACATTTATAAACCTCAATCACAGCAATAAA
66 CATCCCAATTAACAACAATTATAAACCTCAATCACAGCAATAAA
42378 ACATCTCAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
129 94 1.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (129 bp):
TCAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
CATCCCAATTAACAACAATTATAAACCTCAATCACAGCAATAAACATGACAGCGTTTAAATACT
Found at i:43145 original size:22 final size:22
Alignment explanation
Indices: 43117--43185 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
43107 AGATTATTAT
43117 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
43139 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
*
43161 TATTTTTTAAAACTAAAGAACA
1 TATTTTTTAAAACTAAAGTACA
43183 TAT
1 TAT
43186 CAAGAAACAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:48269 original size:23 final size:23
Alignment explanation
Indices: 48215--48277 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
48205 GAGAACCAAA
*
48215 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
48238 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
48261 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
48278 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:49079 original size:22 final size:22
Alignment explanation
Indices: 49051--49097 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
49041 AGATTATTAT
49051 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
49073 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
49095 TAT
1 TAT
49098 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:49538 original size:18 final size:17
Alignment explanation
Indices: 49515--49548 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49505 AATAAATTTC
49515 AAACACACAGCAAAAAAA
1 AAACACA-AGCAAAAAAA
*
49533 AAACACAAGTAAAAAA
1 AAACACAAGCAAAAAA
49549 GCATAATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.18, G:0.06, T:0.03
Consensus pattern (17 bp):
AAACACAAGCAAAAAAA
Found at i:54128 original size:23 final size:23
Alignment explanation
Indices: 54074--54136 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
54064 GAGAACCAAA
*
54074 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
54097 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
54120 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
54137 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:54937 original size:22 final size:22
Alignment explanation
Indices: 54909--54955 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
54899 AGATTATTAT
54909 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
54931 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
54953 TAT
1 TAT
54956 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:55396 original size:18 final size:17
Alignment explanation
Indices: 55373--55406 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
55363 AATAAATTTC
55373 AAACACACAGCAAAAAAA
1 AAACACA-AGCAAAAAAA
*
55391 AAACACAAGTAAAAAA
1 AAACACAAGCAAAAAA
55407 GCATAATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.18, G:0.06, T:0.03
Consensus pattern (17 bp):
AAACACAAGCAAAAAAA
Found at i:59985 original size:23 final size:23
Alignment explanation
Indices: 59931--59993 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
59921 GAGAACCAAA
*
59931 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
59954 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
59977 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
59994 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:60795 original size:22 final size:22
Alignment explanation
Indices: 60767--60813 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
60757 AGATTATTAT
60767 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
60789 TATTTTTTAAAACTAAAGTACA
1 TATTTTTTAAAACTAAAGTACA
60811 TAT
1 TAT
60814 CAAGAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
TATTTTTTAAAACTAAAGTACA
Found at i:69666 original size:50 final size:50
Alignment explanation
Indices: 69575--69746 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
69565 CCATGGCAAC
69575 AAGTGATAAGTGATAGCTTC-G----ACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
69620 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
69670 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
69720 CAAGTGAAAAGTGATAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
69747 CTGATCAGTG
Statistics
Matches: 117, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
45 20 0.17
46 1 0.01
50 73 0.62
51 23 0.20
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:69757 original size:31 final size:31
Alignment explanation
Indices: 69722--69963 Score: 331
Period size: 31 Copynumber: 7.8 Consensus size: 31
69712 ACAAATGACA
* *
69722 AGTGAAAAGTGATAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
69753 AGTGAAAAGTGGTAGCTTCGATTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** *
69784 AGTGAAAAGTGGTAGCTTTTGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69815 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69846 AGTGAAAAGTAGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69877 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69908 AGTGAAAATTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
69939 AGTGAATTGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
69964 AAGTGACAAG
Statistics
Matches: 185, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 185 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:70042 original size:42 final size:42
Alignment explanation
Indices: 69985--70078 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
69975 GATTTCCGTA
* * *
69985 TAAGATCATATCTGGGCTATGGCATCGA-TATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGATGTG
*
70027 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCATTATATGAAGATGTG
70069 TAAGACCATA
1 TAAGACCATA
70079 ATTGAACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCATTATATGAAGATGTG
Found at i:70089 original size:42 final size:42
Alignment explanation
Indices: 70001--70098 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
69991 CATATCTGGG
* * **
70001 CTATGGCATCGATATATGAATATGTGTAAGACCATAGCTGGG
1 CTATGGCATCGATATATGAAGATGTGTAAGACCATAACTGAA
* *
70043 CTATGGCATC-ATTATGTGAAGATGTGTAAGACCATAATTGAA
1 CTATGGCATCGA-TATATGAAGATGTGTAAGACCATAACTGAA
*
70085 CTATGACATCGATA
1 CTATGGCATCGATA
70099 AAACGAAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.96
43 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (42 bp):
CTATGGCATCGATATATGAAGATGTGTAAGACCATAACTGAA
Found at i:72545 original size:27 final size:27
Alignment explanation
Indices: 72515--72572 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
72505 AGATAATTAA
72515 AATAA-AATCCTAAAATTAAATAATCCT
1 AATAATAATCCTAAAATT-AATAATCCT
* * * *
72542 AATAATTATCTTAATATTAATTATCCT
1 AATAATAATCCTAAAATTAATAATCCT
72569 AATA
1 AATA
72573 TAAAAATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAATAATCCTAAAATTAATAATCCT
Found at i:72564 original size:15 final size:15
Alignment explanation
Indices: 72544--72573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72534 ATAATCCTAA
*
72544 TAATTATCTTAATAT
1 TAATTATCCTAATAT
72559 TAATTATCCTAATAT
1 TAATTATCCTAATAT
72574 AAAAATAGAG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:79148 original size:15 final size:15
Alignment explanation
Indices: 79130--79166 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
79120 ACACAATATC
*
79130 AATGAAAAGCCCCTA
1 AATGAAAAGCCCCCA
79145 AATGAAAAGCCCCCA
1 AATGAAAAGCCCCCA
79160 AAT-AAAA
1 AATGAAAA
79167 TTCACAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (15 bp):
AATGAAAAGCCCCCA
Found at i:85138 original size:23 final size:23
Alignment explanation
Indices: 85084--85146 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
85074 GAGAACCAAA
*
85084 ACTTTAACACTTCAGTTTACAGC
1 ACTTTAACACTTCAATTTACAGC
*
85107 A-TTTAAACACTTCAATTTGCAGC
1 ACTTT-AACACTTCAATTTACAGC
85130 ACTTTAACA-TCTCAATT
1 ACTTTAACACT-TCAATT
85147 AACAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 28 0.80
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:87967 original size:50 final size:50
Alignment explanation
Indices: 87843--88141 Score: 348
Period size: 50 Copynumber: 5.8 Consensus size: 50
87833 GATAATAACA
* * * ** * *
87843 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
87894 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
87944 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
87994 TGCCCATGCCATGTCCCAGACATTGTTTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
88044 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
88099 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
88142 TTACCCAAAT
Statistics
Matches: 215, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.00
50 137 0.64
51 32 0.15
53 3 0.01
54 1 0.00
55 2 0.01
56 39 0.18
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:88501 original size:30 final size:30
Alignment explanation
Indices: 88466--88523 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
88456 CCTCGACTCT
*
88466 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
88496 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
88524 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:89660 original size:46 final size:46
Alignment explanation
Indices: 89596--89709 Score: 156
Period size: 46 Copynumber: 2.5 Consensus size: 46
89586 ATTTTAGACT
* ** *
89596 CATTTATACACCAAAATTTACAGCAATTAAACACTTCAATTTAAAT
1 CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
* * *
89642 CATTTAAGCACCTCAATTTACAGCAATTAAACACTTTAATTTACAG
1 CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
*
89688 CATTTAAACACCTCAACTTACA
1 CATTTAAACACCTCAATTTACA
89710 ATACTTAACA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.32
Consensus pattern (46 bp):
CATTTAAACACCTCAATTTACAGCAATTAAACACTTCAATTTAAAG
Found at i:89749 original size:23 final size:23
Alignment explanation
Indices: 89596--89902 Score: 131
Period size: 23 Copynumber: 13.8 Consensus size: 23
89586 ATTTTAGACT
* **
89596 CATTTATACACCAAAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* * * *
89619 CAATTAAACACTTCAATTTAAAT
1 CATTTAAACACCTCAATTTACAG
*
89642 CATTTAAGCACCTCAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* * *
89665 CAATTAAACACTTTAATTTACAG
1 CATTTAAACACCTCAATTTACAG
* *
89688 CATTTAAACACCTCAACTTACAA
1 CATTTAAACACCTCAATTTACAG
* * * *
89711 TACTT-AACATCC-CAATTAACAA
1 CATTTAAACA-CCTCAATTTACAG
* *
89733 CATTTATACACCTCAA-TCACAG
1 CATTTAAACACCTCAATTTACAG
*
89755 CCA--T-AA-A---C-AT-GACAG
1 -CATTTAAACACCTCAATTTACAG
* * ** *
89770 CGTTTAAATAGTTCAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* *
89793 CACTTT-AACACTTCAGTTTACAG
1 CA-TTTAAACACCTCAATTTACAG
* *
89816 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACCTCAATTTACAG
* ** * *
89839 CACTTAAACATATCAATTAACAA
1 CATTTAAACACCTCAATTTACAG
*
89862 CATTTATAA-ACCTCAA-TCACAG
1 CATTTA-AACACCTCAATTTACAG
* * *
89884 CAATAAAACATCTCAATTT
1 CATTTAAACACCTCAATTT
89903 CTAGCAACTA
Statistics
Matches: 208, Mismatches: 57, Indels: 38
0.69 0.19 0.13
Matches are distributed among these distances:
14 1 0.00
15 5 0.02
16 2 0.01
17 2 0.01
18 1 0.00
19 1 0.00
20 1 0.00
21 4 0.02
22 40 0.19
23 146 0.70
24 5 0.02
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (23 bp):
CATTTAAACACCTCAATTTACAG
Found at i:101772 original size:53 final size:53
Alignment explanation
Indices: 101711--101839 Score: 179
Period size: 53 Copynumber: 2.4 Consensus size: 53
101701 TGCGCCCATT
* *
101711 TAAGACCATAGTTGGGCTATGGGATCAGTGCAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGTTGGGCTATGGCATCAGTACAATGTGATAATGTGATTCCGTA
* * * *
101764 TAAGACCATAGCTGGGCTATGGCTTCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGTTGGGCTATGGCATCAGTACAATGTGATAATGTGATTCCGTA
*
101817 TAAGACCAT-GTCTGGGATATGGC
1 TAAGACCATAGT-TGGGCTATGGC
101840 TTCGGTATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.01
53 66 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
TAAGACCATAGTTGGGCTATGGCATCAGTACAATGTGATAATGTGATTCCGTA
Found at i:101840 original size:53 final size:54
Alignment explanation
Indices: 101742--101856 Score: 189
Period size: 53 Copynumber: 2.1 Consensus size: 54
101732 GGATCAGTGC
*
101742 AATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTAT-
1 AATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCTTCGGTATG
101795 AATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATG
1 AATGTGATAATGTGATTCCGTATAAGACCATAG-CTGGGATATGGCTTCGGTATG
101849 ATATGTGA
1 A-ATGTGA
101857 ACCGTCTAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
52 1 0.02
53 50 0.86
54 1 0.02
55 6 0.10
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (54 bp):
AATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCTTCGGTATG
Found at i:101868 original size:46 final size:49
Alignment explanation
Indices: 101745--101891 Score: 158
Period size: 53 Copynumber: 3.0 Consensus size: 49
101735 TCAGTGCAAT
*
101745 GTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGTATAA
1 GTGATAATGTGATACCGTATAAGACCAT-GCTGGGCTATGGCTTCGG--TAA
* *
101797 TGTGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTCGGT-A
1 -GTGATAATGTGATACCGTATAAGACCATG-CTGGGCTATGGCTTCGGTAA
* **
101847 -TGAT-ATGTGA-ACCGTCTAAGACCATGGCAAGGCTATGGCTTCGGT
1 GTGATAATGTGATACCGTATAAGACCAT-GCTGGGCTATGGCTTCGGT
101892 GTGTGATGCG
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
46 28 0.33
47 7 0.08
48 4 0.05
50 1 0.01
51 1 0.01
52 1 0.01
53 44 0.51
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
GTGATAATGTGATACCGTATAAGACCATGCTGGGCTATGGCTTCGGTAA
Found at i:109332 original size:53 final size:53
Alignment explanation
Indices: 109214--109356 Score: 180
Period size: 53 Copynumber: 2.7 Consensus size: 53
109204 GCCCGTTTAT
* * * * **
109214 GACCATATTTGGGCTATGACATTGGTGCAATGTGATAATGTGATTCCGTATAA
1 GACCATGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTATAA
109267 GACCATAG-CTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTATAA
1 GACCAT-GTCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTATAA
* *
109320 GACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 GACCATGTCTGGGCTATGGCATCGGTAT-A-ATGTGA
109357 ACCGTCTAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
52 1 0.01
53 70 0.90
54 1 0.01
55 6 0.08
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (53 bp):
GACCATGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTATAA
Found at i:110933 original size:50 final size:49
Alignment explanation
Indices: 110842--111007 Score: 250
Period size: 50 Copynumber: 3.4 Consensus size: 49
110832 CCATGGCAAC
110842 AAGTGATAAGTGATAGCTTC-G---ACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGTACACTTATCTGATCAAGGACAAATGA
110887 AAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGG-TACACTTATCTGATCAAGGACAAATGA
*
110937 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAACGACAAATGA
1 AAGTGATAAGTGATAGCTTCGG-TACACTTATCTGATCAAGGACAAATGA
* *
110987 CAAGTGAAAAGTGGTAGCTTC
1 -AAGTGATAAGTGATAGCTTC
111008 TGCTACCTGA
Statistics
Matches: 111, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
45 20 0.18
46 1 0.01
50 72 0.65
51 18 0.16
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGTACACTTATCTGATCAAGGACAAATGA
Found at i:111027 original size:31 final size:31
Alignment explanation
Indices: 110989--111231 Score: 335
Period size: 31 Copynumber: 7.8 Consensus size: 31
110979 ACAAATGACA
*
110989 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
111020 AGTGAAAAGTGATAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** *
111051 AGTGAAAAGTGGTAGCTTTTGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
111082 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
111113 AGTGAAAAGTGGTAGC-GCGAAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCG--GCTACCTGATC
* *
111145 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
111176 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
111207 AGTGAATTGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
111232 AAGTGACAAG
Statistics
Matches: 192, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.01
31 162 0.84
32 26 0.14
33 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:111174 original size:94 final size:93
Alignment explanation
Indices: 110989--111223 Score: 337
Period size: 94 Copynumber: 2.5 Consensus size: 93
110979 ACAAATGACA
* * * *
110989 AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGATAGCTTCTGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTGCAGCTACCTGATCAGT
***
111054 GAAAAGTGGTAGCTTTTGCTACCTAATC
66 GAAAAGTGGTAGCTCCGGCTACCTAATC
* *
111082 AGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAAGTGGTAGC-GCGAAGCTACCTGATCA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTGC--AGCTACCTGATCA
111146 GTGAAAAGTGGTAGCTCCGGCTACCTAATC
64 GTGAAAAGTGGTAGCTCCGGCTACCTAATC
* **
111176 AGTGAAAAATGGTAGCTTCGGCTACCTGATCAGTGAATTGTGGTAGCT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCT
111224 TCGGCTACAA
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 43 0.34
94 81 0.65
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (93 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTGCAGCTACCTGATCAGT
GAAAAGTGGTAGCTCCGGCTACCTAATC
Found at i:111312 original size:42 final size:42
Alignment explanation
Indices: 111265--111346 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
111255 AGATCATATT
* *
111265 TGGGCTGTGGCATCGA-TATATGAATATGTGTAAGACCATAGC
1 TGGGCTATGGCATC-ATTATATGAAGATGTGTAAGACCATAGC
*
111307 TGGGCTATGGCATCATTATGTGAAGATGTGTAAGACCATA
1 TGGGCTATGGCATCATTATATGAAGATGTGTAAGACCATA
111347 ATTGAACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (42 bp):
TGGGCTATGGCATCATTATATGAAGATGTGTAAGACCATAGC
Found at i:111357 original size:42 final size:42
Alignment explanation
Indices: 111272--111364 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
111262 ATTTGGGCTG
* * **
111272 TGGCATCGATATATGAATATGTGTAAGACCATAGCTGGGCTA
1 TGGCATCGATATATGAAGATGTGTAAGACCATAACTGAACTA
* *
111314 TGGCATC-ATTATGTGAAGATGTGTAAGACCATAATTGAACTA
1 TGGCATCGA-TATATGAAGATGTGTAAGACCATAACTGAACTA
*
111356 TGACATCGA
1 TGGCATCGA
111365 GAAAACGAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 40 0.95
43 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (42 bp):
TGGCATCGATATATGAAGATGTGTAAGACCATAACTGAACTA
Found at i:113791 original size:10 final size:10
Alignment explanation
Indices: 113776--113807 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
113766 TAAATATATT
113776 TAATTAAAGA
1 TAATTAAAGA
113786 TAATTAAAGA
1 TAATTAAAGA
113796 TAATTAAA-A
1 TAATTAAAGA
113805 TAA
1 TAA
113808 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:113833 original size:27 final size:27
Alignment explanation
Indices: 113803--113860 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
113793 AGATAATTAA
113803 AATAA-AATCCTAAAATTAAATAATCCT
1 AATAATAATCCTAAAATT-AATAATCCT
* * * *
113830 AATAATTATCTTAATATTAATTATCCT
1 AATAATAATCCTAAAATTAATAATCCT
113857 AATA
1 AATA
113861 TAAAAATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAATAATCCTAAAATTAATAATCCT
Found at i:113852 original size:15 final size:15
Alignment explanation
Indices: 113832--113861 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113822 ATAATCCTAA
*
113832 TAATTATCTTAATAT
1 TAATTATCCTAATAT
113847 TAATTATCCTAATAT
1 TAATTATCCTAATAT
113862 AAAAATAGAG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:116898 original size:21 final size:21
Alignment explanation
Indices: 116874--116938 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
116864 AAGTCTAGCT
116874 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
116895 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
116913 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
116934 GAAGC
1 GAAGC
116939 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:116915 original size:39 final size:39
Alignment explanation
Indices: 116856--116956 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
116846 ATCATGATCT
* *
116856 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
116895 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
116934 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
116957 TCACCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:120382 original size:6 final size:6
Alignment explanation
Indices: 120371--120412 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
120361 GTTAATAATC
120371 AATAAA AATAAA AATAAA AAT--A AATAAA TAATAAA TAATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA -AATAAA
120413 CAAATTAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.12
6 16 0.48
7 13 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:120403 original size:11 final size:11
Alignment explanation
Indices: 120376--120408 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
120366 TAATCAATAA
120376 AAATAA-AAAT
1 AAATAATAAAT
120386 AAA-AATAAAT
1 AAATAATAAAT
120396 AAATAATAAAT
1 AAATAATAAAT
120407 AA
1 AA
120409 TAAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.10
10 10 0.48
11 9 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:120409 original size:7 final size:7
Alignment explanation
Indices: 120364--120412 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
120354 AAAATAAGTT
*
120364 AATAATC
1 AATAATA
120371 AATAA-A
1 AATAATA
120377 AATAA-A
1 AATAATA
120383 AATAA-A
1 AATAATA
120389 AATAAATA
1 AAT-AATA
120397 AATAATA
1 AATAATA
120404 AATAATA
1 AATAATA
120411 AA
1 AA
120413 CAAATTAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 15 0.38
7 20 0.51
8 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
AATAATA
Found at i:131935 original size:19 final size:19
Alignment explanation
Indices: 131911--131948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
131901 TAATTTGACT
131911 TACATTCTAA-AAAGATAAA
1 TACATT-TAATAAAGATAAA
131930 TACATTTAATTAAAGATAA
1 TACATTTAA-TAAAGATAA
131949 TTAAAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 6 0.35
20 8 0.47
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
TACATTTAATAAAGATAAA
Found at i:131970 original size:10 final size:10
Alignment explanation
Indices: 131936--131967 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
131926 TAAATACATT
131936 TAATTAAAGA
1 TAATTAAAGA
131946 TAATTAAAGA
1 TAATTAAAGA
131956 TAATTAAA-A
1 TAATTAAAGA
131965 TAA
1 TAA
131968 ATTCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:131993 original size:27 final size:27
Alignment explanation
Indices: 131963--132020 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
131953 AGATAATTAA
131963 AATAAAT-TCCTAAAATTAAATAATCCT
1 AATAAATATCCTAAAATT-AATAATCCT
* * * *
131990 AATAATTATCTTAATATTAATTATCCT
1 AATAAATATCCTAAAATTAATAATCCT
132017 AATA
1 AATA
132021 TAAAAATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAATATCCTAAAATTAATAATCCT
Found at i:132012 original size:15 final size:15
Alignment explanation
Indices: 131992--132021 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
131982 ATAATCCTAA
*
131992 TAATTATCTTAATAT
1 TAATTATCCTAATAT
132007 TAATTATCCTAATAT
1 TAATTATCCTAATAT
132022 AAAAATAGAG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:135654 original size:24 final size:24
Alignment explanation
Indices: 135626--135737 Score: 136
Period size: 24 Copynumber: 4.7 Consensus size: 24
135616 TTGTTCTTTG
* *
135626 GTAAACGATGAATTGACGGAAAAT
1 GTAAAGGATGAATTGACGAAAAAT
* * *
135650 GTAAAGGAAGAATTGATGGAAAAT
1 GTAAAGGATGAATTGACGAAAAAT
135674 GTAAAGGATGAATTGACGAAAAAT
1 GTAAAGGATGAATTGACGAAAAAT
* **
135698 ATAAATAATGAATTGAC-AAAAAT
1 GTAAAGGATGAATTGACGAAAAAT
*
135721 ATAAAGGATGAATTGAC
1 GTAAAGGATGAATTGAC
135738 AGCCATTACC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
23 21 0.27
24 56 0.73
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.22
Consensus pattern (24 bp):
GTAAAGGATGAATTGACGAAAAAT
Found at i:135981 original size:13 final size:13
Alignment explanation
Indices: 135963--135987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
135953 CCAATTTACA
135963 ATTATATACATAG
1 ATTATATACATAG
135976 ATTATATACATA
1 ATTATATACATA
135988 TATGATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTATATACATAG
Found at i:137188 original size:48 final size:48
Alignment explanation
Indices: 137125--137220 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
137115 ATTTGACCAA
137125 CACCATCCTTTCAGACTATTTGTCATAATTTTACCAATTTCAACATAT
1 CACCATCCTTTCAGACTATTTGTCATAATTTTACCAATTTCAACATAT
137173 CACCATCCTTTCAGACTATTTGTCATAATTTTACCAATTTCAACATAT
1 CACCATCCTTTCAGACTATTTGTCATAATTTTACCAATTTCAACATAT
137221 TTTCACCTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (48 bp):
CACCATCCTTTCAGACTATTTGTCATAATTTTACCAATTTCAACATAT
Found at i:142507 original size:39 final size:39
Alignment explanation
Indices: 142427--142509 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
142417 GAGATTGACG
* **
142427 GGTGAACCGATGGTGACTACCTGACTGATGAACGATGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACGACAAT
* * *
142466 GGTGGACCGGTGGTGACTGCCTGACTCG-TGAACGGCAAT
1 GGTGGACCGATGGTGACTACCTGACT-GATGAACGACAAT
142505 GGTGG
1 GGTGG
142510 CGGCCGTAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCTGACTGATGAACGACAAT
Found at i:143804 original size:19 final size:19
Alignment explanation
Indices: 143776--143815 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
143766 AGGCTGAAGA
143776 AAACGAACAGCTTTCTCCT
1 AAACGAACAGCTTTCTCCT
*
143795 AAACGGACAGCTTTCTCCT
1 AAACGAACAGCTTTCTCCT
143814 AA
1 AA
143816 GAGATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (19 bp):
AAACGAACAGCTTTCTCCT
Found at i:143858 original size:21 final size:19
Alignment explanation
Indices: 143823--143865 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
143813 TAAGAGATTT
*
143823 TTAACATATATTATTTATA
1 TTAACATATATTATTGATA
143842 TTAACATAATAATTATTGATA
1 TTAACAT-AT-ATTATTGATA
143863 TTA
1 TTA
143866 TATGAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 2 0.10
21 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAACATATATTATTGATA
Found at i:170170 original size:46 final size:44
Alignment explanation
Indices: 170111--170225 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
170101 ACAGGACAGA
* *
170111 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
170157 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
170201 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
170226 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:170206 original size:44 final size:45
Alignment explanation
Indices: 170111--170244 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
170101 ACAGGACAGA
* *
170111 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
170157 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
170201 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
170245 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:173015 original size:29 final size:30
Alignment explanation
Indices: 172962--173018 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
172952 TCCGAGCCTT
172962 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGTAAAAGTTTA
* *
172992 GGGGCAAAATTGTAATTTTG-AAAAGTT
1 GGGGCAAAAATGTAATTATGTAAAAGTT
173019 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAGTTTA
Found at i:173247 original size:13 final size:13
Alignment explanation
Indices: 173229--173260 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
173219 TTTCCAGCAA
173229 TTATGAATTTATT
1 TTATGAATTTATT
173242 TTATGAATTTATT
1 TTATGAATTTATT
*
173255 TGATGA
1 TTATGA
173261 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:173468 original size:50 final size:50
Alignment explanation
Indices: 173355--173596 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
173345 ATTTGGGTAA
* * *
173355 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
173411 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
173461 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
173511 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
173561 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
173597 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:173544 original size:100 final size:103
Alignment explanation
Indices: 173355--173604 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
173345 ATTTGGGTAA
173355 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
173420 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
173461 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
173523 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
173561 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
173605 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:179353 original size:45 final size:45
Alignment explanation
Indices: 179168--179509 Score: 172
Period size: 45 Copynumber: 7.6 Consensus size: 45
179158 TATCATCAGC
179168 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-A-ACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* * * * * *** **
179211 CTTATCTTCACTGTGTAGGAGTGAAGCAGATCGAATTTTGATGA-AT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAAACAT-ACCAGAT
* * * * * * *
179257 CTTATCTCCAC-GTACCGACGA-TGGAGCAGATTCCAATCAT--CAG-C
1 CTTATCTTCACTG-AGC-AGGAGTGGAGCAG--GCTAAACATACCAGAT
179301 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* * ** **
179346 CTTATCTTCACTGAGCAGGAGTGAAGCA-GATCAAATTTTGGCA-AGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-CATACCAGA-T
* * * * ** * * * *
179392 CTTATCTCCA-TGTATC-GGCAATAGAGCAGATTTCAGC-CACCAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAG-GCTAAACATACCAGAT
179436 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
*
179481 CTTATCTTCACTGAGCAGGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
179510 ATCAAATTTT
Statistics
Matches: 215, Mismatches: 59, Indels: 48
0.67 0.18 0.15
Matches are distributed among these distances:
42 6 0.03
43 32 0.15
44 53 0.25
45 71 0.33
46 40 0.19
47 12 0.06
48 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
Found at i:179399 original size:135 final size:135
Alignment explanation
Indices: 179164--179651 Score: 736
Period size: 135 Copynumber: 3.6 Consensus size: 135
179154 TAGATATCAT
* *
179164 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-A-ACCAGATCTTATCTTCACTGTGT
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
* * * * * *
179227 AGGAGTGAAGCAGATCGAATTTTGATG-AA-TCTTATCTCCACGTACCGACGATGGAGCAGATTC
66 AGGAGTGAAGCAGATCAAATTTTG--GCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* *
179290 CAATCAT
129 CAACCAC
179297 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
*
179362 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATAGAGCAGATTTCA
66 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
*
179427 GCCAC
131 ACCAC
179432 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
* *
179497 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGTAGATTTTA
66 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
*
179562 GCCAC
131 ACCAC
* * **
179567 CAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATA-CAGATCTTATCTTCGCTGATT
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
179631 AGGAGT-AGAGCAGATCAAATT
66 AGGAGTGA-AGCAGATCAAATT
179652 ACAGCAGACC
Statistics
Matches: 331, Mismatches: 19, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
133 41 0.12
134 40 0.12
135 250 0.76
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (135 bp):
CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
ACCAC
Found at i:180990 original size:7 final size:8
Alignment explanation
Indices: 180978--181027 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 8
180968 TTTCTTCCAC
180978 TATTAT-T
1 TATTATAT
180985 TATTATACT
1 TATTATA-T
180994 TATTATAT
1 TATTATAT
181002 CATATTAT-T
1 --TATTATAT
181011 TATTATACT
1 TATTATA-T
181020 TATTATAT
1 TATTATAT
181028 CATTTTCGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
7 12 0.32
8 2 0.05
9 17 0.46
10 6 0.16
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:180998 original size:9 final size:9
Alignment explanation
Indices: 180984--181026 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
180974 CCACTATTAT
180984 TTATTATAC
1 TTATTATAC
180993 TTATTATATC
1 TTATTATA-C
*
181003 ATATTAT--
1 TTATTATAC
181010 TTATTATAC
1 TTATTATAC
181019 TTATTATA
1 TTATTATA
181027 TCATTTTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 6 0.21
9 16 0.55
10 7 0.24
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATTATAC
Found at i:181009 original size:26 final size:26
Alignment explanation
Indices: 180978--181030 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
180968 TTTCTTCCAC
180978 TATTATTTATTATACTTATTATATCA
1 TATTATTTATTATACTTATTATATCA
181004 TATTATTTATTATACTTATTATATCA
1 TATTATTTATTATACTTATTATATCA
181030 T
1 T
181031 TTTCGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTATTTATTATACTTATTATATCA
Found at i:181039 original size:26 final size:26
Alignment explanation
Indices: 180978--181040 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
180968 TTTCTTCCAC
*
180978 TATTATTTATTATACTTATTATATCA
1 TATTAGTTATTATACTTATTATATCA
*
181004 TATTATTTATTATACTTATTATATCA
1 TATTAGTTATTATACTTATTATATCA
* *
181030 TTTTCGTTATT
1 TATTAGTTATT
181041 TTTATCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTAGTTATTATACTTATTATATCA
Found at i:181268 original size:22 final size:22
Alignment explanation
Indices: 181243--181295 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
181233 TTTTATTTCC
*
181243 TTTTATATATATTTTATAATAA
1 TTTTATATATAGTTTATAATAA
* * *
181265 TTTTAAATATAGTTTATTATAC
1 TTTTATATATAGTTTATAATAA
181287 TTATTATAT
1 TT-TTATAT
181296 TTTATTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTATATATAGTTTATAATAA
Found at i:181304 original size:14 final size:14
Alignment explanation
Indices: 181287--181319 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
181277 TTTATTATAC
181287 TTATTATATTTTAT
1 TTATTATATTTTAT
181301 TTATTATATTTTAT
1 TTATTATATTTTAT
181315 TTATT
1 TTATT
181320 TTTTCCTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTATATTTTAT
Found at i:181304 original size:23 final size:23
Alignment explanation
Indices: 181277--181321 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
181267 TTAAATATAG
181277 TTTATTATA-CTTATTATATTTTA
1 TTTATTATATCTTATT-TATTTTA
*
181300 TTTATTATATTTTATTTATTTT
1 TTTATTATATCTTATTTATTTT
181322 TTCCTACCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATATCTTATTTATTTTA
Found at i:181323 original size:11 final size:10
Alignment explanation
Indices: 181243--181316 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 10
181233 TTTTATTTCC
181243 TTTTATATATA
1 TTTTAT-TATA
*
181254 TTTTATAATAA
1 TTTTATTAT-A
*
181265 TTTTAAATATA
1 TTTT-ATTATA
*
181276 GTTTATTATA
1 TTTTATTATA
*
181286 -CTTATTATA
1 TTTTATTATA
181295 TTTTATT-TA
1 TTTTATTATA
* *
181304 TTATATTTTA
1 TTTTATTATA
181314 TTT
1 TTT
181317 ATTTTTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
9 16 0.32
10 16 0.32
11 15 0.30
12 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATTATA
Found at i:182342 original size:17 final size:18
Alignment explanation
Indices: 182320--182357 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
182310 TTTCATGAAT
182320 TAATAATAAT-TAAAAAA
1 TAATAATAATATAAAAAA
*
182337 TAATAATGATATAAAAAA
1 TAATAATAATATAAAAAA
182355 TAA
1 TAA
182358 AAAAAAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAATAATAATATAAAAAA
Found at i:185987 original size:25 final size:25
Alignment explanation
Indices: 185954--186004 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
185944 TGTTTCCACC
185954 AATAATTTCCT-ATAAAGTTATTCAT
1 AATAATTT-CTAATAAAGTTATTCAT
* **
185979 AATAGTTTCTAATAATTTTATTCAT
1 AATAATTTCTAATAAAGTTATTCAT
186004 A
1 A
186005 TAACTCAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (25 bp):
AATAATTTCTAATAAAGTTATTCAT
Found at i:186964 original size:70 final size:70
Alignment explanation
Indices: 186881--187014 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
186871 TTTATTTATT
* *
186881 TATAATGTTAAAAATTAATTTGGCTAATGTATCTTATTTTATGTATGTTATATAAAATATGTGAT
1 TATAATGTTAAAAACTAATGTGGCTAATGTATCTTATTTTATGTATGTTATATAAAATATGTGAT
186946 CCAAA
66 CCAAA
186951 TATAATGTTAAAAACTAATGTGGCTAATGTATCTTATTTTATGTATGTTATATAAAATATGTGA
1 TATAATGTTAAAAACTAATGTGGCTAATGTATCTTATTTTATGTATGTTATATAAAATATGTGA
187015 GCTAAAAAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (70 bp):
TATAATGTTAAAAACTAATGTGGCTAATGTATCTTATTTTATGTATGTTATATAAAATATGTGAT
CCAAA
Found at i:188925 original size:17 final size:16
Alignment explanation
Indices: 188894--188927 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
188884 ATTTATTCTC
*
188894 TTAAAAATAATATATA
1 TTAAAAATAAAATATA
188910 TTAAATAATAAAATATA
1 TTAAA-AATAAAATATA
188927 T
1 T
188928 GATTTGAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAAATAAAATATA
Found at i:189993 original size:28 final size:28
Alignment explanation
Indices: 189953--190008 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
189943 ATTTTTGGAA
189953 GTTAAAATATCTATTTTAGATATGATGT
1 GTTAAAATATCTATTTTAGATATGATGT
189981 GTTAAAATATCTATTTTAGATATGATGT
1 GTTAAAATATCTATTTTAGATATGATGT
190009 TGCAAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (28 bp):
GTTAAAATATCTATTTTAGATATGATGT
Found at i:190015 original size:28 final size:28
Alignment explanation
Indices: 189956--190017 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
189946 TTTGGAAGTT
*
189956 AAAATATCTATTTTAGATATGATGTGTT
1 AAAATATCTATTTTAGATATGATGTGTC
189984 AAAATATCTATTTTAGATATGATGT-TGC
1 AAAATATCTATTTTAGATATGATGTGT-C
190012 AAAATA
1 AAAATA
190018 GAAGATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (28 bp):
AAAATATCTATTTTAGATATGATGTGTC
Found at i:197286 original size:5 final size:6
Alignment explanation
Indices: 197264--197293 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
197254 AGGTTCCGTT
197264 TTTTGTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT
197294 GAGATAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:210824 original size:21 final size:21
Alignment explanation
Indices: 210800--210859 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
210790 ACAAACTGTG
*
210800 GCTAAGGTCGCGACATTAGAA
1 GCTAAGGTCGCAACATTAGAA
* * *
210821 GCTAGGAGTCACAACATTGGAA
1 GCTAAG-GTCGCAACATTAGAA
* *
210843 GCTAAAGTCGCAGCATT
1 GCTAAGGTCGCAACATT
210860 CAACACTTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (21 bp):
GCTAAGGTCGCAACATTAGAA
Found at i:215117 original size:33 final size:34
Alignment explanation
Indices: 215075--215144 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
215065 CTTCTTTGAC
*
215075 TATTTATCACTA-TTTTTATTTAATATATTTGGG
1 TATTTATCACTATTTTTTAGTTAATATATTTGGG
215108 TATTTATCACTATTTTTTAGTTAATATATTTGGG
1 TATTTATCACTATTTTTTAGTTAATATATTTGGG
215142 TAT
1 TAT
215145 ACTAGTATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 12 0.34
34 23 0.66
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (34 bp):
TATTTATCACTATTTTTTAGTTAATATATTTGGG
Found at i:217440 original size:35 final size:35
Alignment explanation
Indices: 217400--217470 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
217390 TATGAGAAAG
*
217400 AACTTTAACAAGAAAAATATAAATCCTTCTATGAC
1 AACTTTAACAAGAAAAAGATAAATCCTTCTATGAC
217435 AACTTTAACAAGAAAAAGATAAATCCTTCTATGAC
1 AACTTTAACAAGAAAAAGATAAATCCTTCTATGAC
217470 A
1 A
217471 TCACAGGTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (35 bp):
AACTTTAACAAGAAAAAGATAAATCCTTCTATGAC
Found at i:222853 original size:39 final size:39
Alignment explanation
Indices: 222764--222869 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 39
222754 TGAGATACTG
* * * *
222764 ATTCTATTGGAAGTATGCTCAATCTAACCATACCCACTG
1 ATTCTATTGAAAGTATGCTCAATCGAGCCATACCCACTA
* * * *
222803 GTTTTATTGAAAGTATGCTCAATCGAGTCATACCCATTA
1 ATTCTATTGAAAGTATGCTCAATCGAGCCATACCCACTA
* * *
222842 ATTCTACTGAAAGTATACTCAAACGAGC
1 ATTCTATTGAAAGTATGCTCAATCGAGC
222870 AATATCTATT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (39 bp):
ATTCTATTGAAAGTATGCTCAATCGAGCCATACCCACTA
Found at i:223261 original size:2 final size:2
Alignment explanation
Indices: 223254--223285 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
223244 TGTGGTATCT
223254 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
223286 AAGTGCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:232446 original size:21 final size:21
Alignment explanation
Indices: 232420--232460 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
232410 ATCTGCTCAA
* *
232420 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
232441 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
232461 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:252834 original size:4 final size:4
Alignment explanation
Indices: 252825--252859 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
252815 TCTAAATTTC
252825 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
252860 TTTGCTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:256018 original size:38 final size:38
Alignment explanation
Indices: 255967--256047 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
255957 CTTTACATTC
* * *
255967 TTTCATTAGGGACCCTATACTTCCTATTTGTAACATAA
1 TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
256005 TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
1 TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
256043 TTTCA
1 TTTCA
256048 CAATAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (38 bp):
TTTCATTAAGGACCCTATACTTCCTATCTATAACATAA
Found at i:256870 original size:20 final size:19
Alignment explanation
Indices: 256845--256882 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
256835 AGAAATCACA
256845 ATTCTTAGAAAATAGAATTT
1 ATTCTTAGAAAATA-AATTT
256865 ATTCTTAGAAAATAAATT
1 ATTCTTAGAAAATAAATT
256883 ATCACTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (19 bp):
ATTCTTAGAAAATAAATTT
Found at i:257280 original size:16 final size:18
Alignment explanation
Indices: 257256--257289 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
257246 TTAAATTAAA
257256 TTAATTAATTTCC-CAAT
1 TTAATTAATTTCCTCAAT
257273 TTAA-TAATTTCCTCAAT
1 TTAATTAATTTCCTCAAT
257290 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAATTTCCTCAAT
Found at i:258685 original size:12 final size:12
Alignment explanation
Indices: 258668--258692 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
258658 TCATTTTTAA
258668 ATATTTATAAAT
1 ATATTTATAAAT
258680 ATATTTATAAAT
1 ATATTTATAAAT
258692 A
1 A
258693 AAAATAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTATAAAT
Found at i:264951 original size:22 final size:23
Alignment explanation
Indices: 264907--264951 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
264897 ATATCTAGAA
* *
264907 AAAACTAAATTATTCATTCATAT
1 AAAACTAAATTATTCAATAATAT
*
264930 AAAA-TAAATTATTGAATAATAT
1 AAAACTAAATTATTCAATAATAT
264952 TTTTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAACTAAATTATTCAATAATAT
Found at i:268701 original size:18 final size:17
Alignment explanation
Indices: 268655--268701 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 17
268645 TAGAAAACTG
268655 TTAATACAATTATTTATT
1 TTAATACAA-TATTTATT
268673 TT-A-A-AATATTTATT
1 TTAATACAATATTTATT
268687 TTAATACAATGATTT
1 TTAATACAAT-ATTT
268702 TAAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 2 0.08
17 4 0.16
18 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAATACAATATTTATT
Found at i:271640 original size:2 final size:2
Alignment explanation
Indices: 271633--271674 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
271623 CCCTCTAATT
271633 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
271674 T
1 T
271675 ACTTGTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:275356 original size:24 final size:24
Alignment explanation
Indices: 275328--275375 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
275318 TTTTGGTTCT
275328 CTTCGAGTTGATTGTATGTTTTAG
1 CTTCGAGTTGATTGTATGTTTTAG
275352 CTTCGAGTTGATTGTATGTTTTAG
1 CTTCGAGTTGATTGTATGTTTTAG
275376 TTTCAATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (24 bp):
CTTCGAGTTGATTGTATGTTTTAG
Found at i:296987 original size:18 final size:18
Alignment explanation
Indices: 296960--297052 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
296950 TACGACCGTT
296960 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
296978 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
* *
296996 TACAGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
297014 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
297032 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
297050 TAC
1 TAC
297053 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:306159 original size:29 final size:30
Alignment explanation
Indices: 306100--306157 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
306090 TCCGAGCCTT
*
306100 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
306130 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
306158 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:306387 original size:13 final size:13
Alignment explanation
Indices: 306369--306400 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
306359 TTTCCAGCAA
306369 TTATGAATTTATT
1 TTATGAATTTATT
306382 TTATGAATTTATT
1 TTATGAATTTATT
*
306395 TGATGA
1 TTATGA
306401 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:306608 original size:50 final size:50
Alignment explanation
Indices: 306495--306736 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
306485 ATTTGGGTAA
* * *
306495 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
306551 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
306601 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
306651 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
306701 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
306737 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:306684 original size:100 final size:103
Alignment explanation
Indices: 306495--306744 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
306485 ATTTGGGTAA
306495 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
306560 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
306601 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
306663 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
306701 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
306745 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:313924 original size:29 final size:30
Alignment explanation
Indices: 313865--313922 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
313855 TCCGAGCCTT
*
313865 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
313895 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
313923 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:314152 original size:13 final size:13
Alignment explanation
Indices: 314134--314165 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
314124 TTTCCAGCAA
314134 TTATGAATTTATT
1 TTATGAATTTATT
314147 TTATGAATTTATT
1 TTATGAATTTATT
*
314160 TGATGA
1 TTATGA
314166 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:314418 original size:50 final size:51
Alignment explanation
Indices: 314260--314507 Score: 288
Period size: 50 Copynumber: 4.8 Consensus size: 51
314250 ATTTGGGTAA
* *
314260 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCACG
* * *
314316 AGAGGTCCCCTGTAAGACCATGTCT-GGACATGGCATGGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * *
314365 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * *
314415 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
** *
314465 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
314508 TGTTATTATC
Statistics
Matches: 168, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 27 0.16
50 67 0.40
51 34 0.20
54 2 0.01
55 15 0.09
56 23 0.14
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
Found at i:314453 original size:105 final size:102
Alignment explanation
Indices: 314260--314508 Score: 353
Period size: 105 Copynumber: 2.4 Consensus size: 102
314250 ATTTGGGTAA
314260 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
314325 CTGTAAGACCATGTCTGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGACATGGCATGGGCACC-ATCACG
* * *
314365 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
314427 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCT-GGACATGGCATGGGCACCATCACG
* *
314465 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
314509 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 28 0.21
100 25 0.19
101 37 0.28
104 2 0.02
105 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGACATGGCATGGGCACCATCACG
Done.