Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004567.1 Hibiscus syriacus cultivar Beakdansim tig00010152_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: 70474
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2400 original size:57 final size:56
Alignment explanation
Indices: 2337--2447 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
2327 GATGCACTTA
* * *
2337 CCATGCACCGATGCATTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGCATCAG
1 CCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATGCATCAG
* * *
2394 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATC
1 CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCATC
2448 GATGCACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 24 0.51
57 20 0.43
58 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (56 bp):
CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCATCAG
Found at i:4663 original size:51 final size:50
Alignment explanation
Indices: 4565--4663 Score: 114
Period size: 51 Copynumber: 1.9 Consensus size: 50
4555 TTTAATTTAG
* *
4565 TCACTGTTAGTTTCTGATTTAGTTACTGTTATTTTAATTTTTTTATTTTGA
1 TCACTGTTAGTTTCTCATTTAGTTAC-GTAATTTTAATTTTTTTATTTTGA
4616 TCACTGTTTA-TTTCTCATTTAGTTAC-TAACTTTT-ATTTTCTTGTATTT
1 TCACTG-TTAGTTTCTCATTTAGTTACGTAA-TTTTAATTTT-TT-TATTT
4664 AGTAATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
49 7 0.17
50 6 0.14
51 26 0.62
52 3 0.07
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (50 bp):
TCACTGTTAGTTTCTCATTTAGTTACGTAATTTTAATTTTTTTATTTTGA
Found at i:4842 original size:15 final size:16
Alignment explanation
Indices: 4822--4851 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4812 GTACTGTTTT
4822 TATTTTTTTT-TTTAG
1 TATTTTTTTTATTTAG
4837 TATTTTTTTTATTTA
1 TATTTTTTTTATTTA
4852 AGTTTATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (16 bp):
TATTTTTTTTATTTAG
Found at i:4846 original size:36 final size:36
Alignment explanation
Indices: 4774--4846 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
4764 AATTAGGTCC
*
4774 TTGTACTTATTTTATTTTTTTATTCTATGTTGTTTT
1 TTGTACTTATTTTATTTTTTTATTCTATATTGTTTT
*
4810 TTGTACTGT-TTTTATTTTTTT-TTTTAGTATT-TTTT
1 TTGTACT-TATTTTATTTTTTTATTCTA-TATTGTTTT
4845 TT
1 TT
4847 ATTTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 10 0.30
36 22 0.67
37 1 0.03
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.75
Consensus pattern (36 bp):
TTGTACTTATTTTATTTTTTTATTCTATATTGTTTT
Found at i:6766 original size:27 final size:27
Alignment explanation
Indices: 6735--6817 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
6725 CATAAACTCG
6735 AACCCGACCCGAACATCACAATTAAAA
1 AACCCGACCCGAACATCACAATTAAAA
* *
6762 CACCCGGCCCGAACATCACAATTAAAA
1 AACCCGACCCGAACATCACAATTAAAA
*
6789 AACCCGACCCAAACATCACAATTAAAA
1 AACCCGACCCGAACATCACAATTAAAA
6816 AA
1 AA
6818 TCCAATCCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.48, C:0.34, G:0.07, T:0.11
Consensus pattern (27 bp):
AACCCGACCCGAACATCACAATTAAAA
Found at i:7102 original size:17 final size:16
Alignment explanation
Indices: 7051--7102 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
7041 ATTATTTTCT
*
7051 TTATATTTTAAAATAAA
1 TTAT-TTTTAAAATTAA
*
7068 TTATTTTTATAATT--
1 TTATTTTTAAAATTAA
7082 TTATTATTTAAAATTAA
1 TTATT-TTTAAAATTAA
7099 TTAT
1 TTAT
7103 AAAATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 5 0.17
15 8 0.28
16 8 0.28
17 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTTTTAAAATTAA
Found at i:7345 original size:27 final size:30
Alignment explanation
Indices: 7290--7349 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
7280 CTACTGGAGA
*
7290 ATCTTTAATTAAAGTTATATCATATTTTTAT
1 ATCTTTAATTAAAGTTATA-CATACTTTTAT
7321 ATCTTTAATTAAA-TT-TA-ATACTTTTAT
1 ATCTTTAATTAAAGTTATACATACTTTTAT
7348 AT
1 AT
7350 AAAAGATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 11 0.39
29 2 0.07
30 2 0.07
31 13 0.46
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (30 bp):
ATCTTTAATTAAAGTTATACATACTTTTAT
Found at i:10608 original size:13 final size:13
Alignment explanation
Indices: 10592--10618 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10582 TCTTAATTTT
10592 TAGTCCTTTGGTC
1 TAGTCCTTTGGTC
10605 TAGTCCTTTGGTC
1 TAGTCCTTTGGTC
10618 T
1 T
10619 TTCACCTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (13 bp):
TAGTCCTTTGGTC
Found at i:13836 original size:22 final size:21
Alignment explanation
Indices: 13797--13837 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13787 GGTGAAAAAA
**
13797 CCGGATCGATTTTTATCCGAT
1 CCGGATCGATTTAAATCCGAT
13818 CCGGATCGGATTTAAATCCG
1 CCGGATC-GATTTAAATCCG
13838 GCTATGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
CCGGATCGATTTAAATCCGAT
Found at i:19332 original size:15 final size:15
Alignment explanation
Indices: 19302--19426 Score: 71
Period size: 15 Copynumber: 7.9 Consensus size: 15
19292 AGATTGTAAA
19302 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
*
19317 AA-AAAAATTAATAAT
1 AATAAAAA-TAAAAAT
*
19332 AATAAAAAAAATCATTAAT
1 AATAAAAATAA--A--AAT
*
19351 AATAATAATAAAAAT
1 AATAAAAATAAAAAT
19366 AAGTAAAAAT--AAAT
1 AA-TAAAAATAAAAAT
* *
19380 AA-AAGTGAGTAAAAAT
1 AATAA--AAATAAAAAT
19396 AATAAAAATATAAAAAT
1 AAT-AAAA-ATAAAAAT
19413 ATATAAAAA-AAAAA
1 A-ATAAAAATAAAAA
19427 CAAAACATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 30
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.02
14 13 0.15
15 22 0.26
16 19 0.22
17 13 0.15
18 4 0.05
19 12 0.14
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:19348 original size:22 final size:22
Alignment explanation
Indices: 19308--19383 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
19298 TAAAAATAAA
19308 AATAA-AAATAAAAA-AATTAAT
1 AATAATAAA-AAAAATAATTAAT
*
19329 AATAATAAAAAAAATCATTAAT
1 AATAATAAAAAAAATAATTAAT
* * *
19351 AATAATAATAAAAATAAGTAAA
1 AATAATAAAAAAAATAATTAAT
19373 AATAAATAAAA
1 AAT-AATAAAA
19384 GTGAGTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.22
22 30 0.65
23 6 0.13
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (22 bp):
AATAATAAAAAAAATAATTAAT
Found at i:19378 original size:6 final size:6
Alignment explanation
Indices: 19298--19367 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
19288 GGTTAGATTG
* * *
19298 TAAAAA TAAAAA TAAAAA TAAAAA -AATTAA TAATAA TAAAAA -AAATCAT
1 TAAAAA TAAAAA TAAAAA TAAAAA TAA-AAA TAAAAA TAAAAA TAAA--AA
* *
19347 TAATAA TAATAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAA
19368 GTAAAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.09
6 43 0.81
7 3 0.06
8 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (6 bp):
TAAAAA
Found at i:19416 original size:10 final size:9
Alignment explanation
Indices: 19308--19421 Score: 88
Period size: 10 Copynumber: 11.9 Consensus size: 9
19298 TAAAAATAAA
19308 AATAAAAAT
1 AATAAAAAT
19317 AA-AAAAATT
1 AATAAAAA-T
*
19326 AATAATAAT
1 AATAAAAAT
*
19335 AAAAAAAATCATT
1 -AATAAAA--A-T
*
19348 AATAATAAT
1 AATAAAAAT
19357 AATAAAAAT
1 AATAAAAAT
19366 AAGTAAAAAT
1 AA-TAAAAAT
*
19376 AAATAAAAGT
1 -AATAAAAAT
*
19386 GAGTAAAAAT
1 -AATAAAAAT
19396 AATAAAAAT
1 AATAAAAAT
19405 -ATAAAAAT
1 AATAAAAAT
19413 ATATAAAAA
1 A-ATAAAAA
19422 AAAAACAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
8 13 0.15
9 25 0.30
10 37 0.44
11 2 0.02
12 6 0.07
13 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.24
Consensus pattern (9 bp):
AATAAAAAT
Found at i:20433 original size:16 final size:18
Alignment explanation
Indices: 20409--20448 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20399 TAATAAAAAA
* *
20409 ATAATAATATTATATATAT
1 ATAAT-ATATAATACATAT
20428 ATAATATATAATACATAT
1 ATAATATATAATACATAT
20446 ATA
1 ATA
20449 TGTATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATATAATACATAT
Found at i:21400 original size:104 final size:104
Alignment explanation
Indices: 21220--21412 Score: 305
Period size: 104 Copynumber: 1.9 Consensus size: 104
21210 CATCCGCCGC
* * * * *
21220 GAAGTTGAAATTGGTTCTGGAACTGGGAAATTATTTATTGACAACCAGTCGTCCCTTCGTTGTGA
1 GAAGTTAAAATTGGCTCTGAAACTGGGAAATTATTTATTGACAACCAATCGTCCATTCGTTGTGA
21285 AGTTGAACTTGTGTTGTCTCGAGTCCAATCCTTCACTGT
66 AGTTGAACTTGTGTTGTCTCGAGTCCAATCCTTCACTGT
* * *
21324 GAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAATCGTCCATTCGTTGTGA
1 GAAGTTAAAATTGGCTCTGAAACTGGGAAATTATTTATTGACAACCAATCGTCCATTCGTTGTGA
*
21389 AGTTGAACTTGTGTTGTCTTGAGT
66 AGTTGAACTTGTGTTGTCTCGAGT
21413 GGCACGATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (104 bp):
GAAGTTAAAATTGGCTCTGAAACTGGGAAATTATTTATTGACAACCAATCGTCCATTCGTTGTGA
AGTTGAACTTGTGTTGTCTCGAGTCCAATCCTTCACTGT
Found at i:21646 original size:106 final size:106
Alignment explanation
Indices: 21461--22565 Score: 1787
Period size: 106 Copynumber: 10.3 Consensus size: 106
21451 GGCCCCTTCC
** ** * *
21461 GAGTCCAATATCCGCCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
21526 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
21567 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
21632 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
21673 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTAACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * *
21738 CCAGCGGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
21779 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
21844 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * *
21885 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
21950 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
21991 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
22056 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * * *
22097 GAGTCCAATATCCTTCGCTGTGAAGTTGAAAATAGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
22162 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
22203 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
22268 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
22309 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTTTGAAATTGGCTCTGAAATTGGGAAATT
1 GAGTCCAATATCCTTCG-T-T---G-TG-AA---G--TTGAAATTGGCTCTGAAATTGAGAAGTT
22374 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
54 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
22427 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGATAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
22492 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
22533 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
22566 TGACTCTAAA
Statistics
Matches: 932, Mismatches: 55, Indels: 24
0.92 0.05 0.02
Matches are distributed among these distances:
106 822 0.88
107 1 0.00
108 2 0.00
111 3 0.00
112 4 0.00
113 3 0.00
116 2 0.00
117 1 0.00
118 94 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
Found at i:22351 original size:12 final size:12
Alignment explanation
Indices: 22334--22367 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
22324 CGCTATGAAG
22334 TTGAAATTGGCT
1 TTGAAATTGGCT
22346 TTGAAATTGGCT
1 TTGAAATTGGCT
*
22358 CTGAAATTGG
1 TTGAAATTGG
22368 GAAATTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.38
Consensus pattern (12 bp):
TTGAAATTGGCT
Found at i:22407 original size:224 final size:224
Alignment explanation
Indices: 22122--22565 Score: 834
Period size: 224 Copynumber: 2.0 Consensus size: 224
22112 CGCTGTGAAG
22122 TTGAAAATAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAAATAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
22187 GAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
66 GAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
*
22252 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
131 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
22317 TATCCTTCGCTATGAAGTTGAAATTGGCT
196 TATCCTTCGCTATGAAGTTGAAATTGGCT
* *
22346 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAAATAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
22411 GAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
66 GAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
*
22476 AGTTGTTTGTTGATAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
131 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
* *
22541 TATCCTTCGTTGTGAAGTTGAAATT
196 TATCCTTCGCTATGAAGTTGAAATT
22566 TGACTCTAAA
Statistics
Matches: 214, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
224 214 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (224 bp):
TTGAAAATAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
TATCCTTCGCTATGAAGTTGAAATTGGCT
Found at i:23834 original size:32 final size:31
Alignment explanation
Indices: 23780--23839 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
23770 TTTTGTCCCT
*
23780 TTTTCTTTTTGATTTTTGTTCTTTCTTTTTTG
1 TTTTCTTTTTGATTCTTGTTCTTT-TTTTTTG
*
23812 TTTTCTTTTTTGCTTCTT-TTCTTTTTTT
1 TTTTC-TTTTTGATTCTTGTTCTTTTTTT
23840 GGTTTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.16
32 11 0.44
33 10 0.40
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.80
Consensus pattern (31 bp):
TTTTCTTTTTGATTCTTGTTCTTTTTTTTTG
Found at i:25050 original size:27 final size:26
Alignment explanation
Indices: 25015--25065 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
25005 AAGAAATTTC
*
25015 ATGTTTATG-AAAATGCTTAAAAATGAA
1 ATGTATATGCAAAATGC--AAAAATGAA
25042 ATGTATATGCAAAATGCAAAAATG
1 ATGTATATGCAAAATGCAAAAATG
25066 CATGAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (26 bp):
ATGTATATGCAAAATGCAAAAATGAA
Found at i:26800 original size:15 final size:15
Alignment explanation
Indices: 26769--26847 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 15
26759 AGATTGTAAA
26769 AATAAAAATAAATAT
1 AATAAAAATAAATAT
*
26784 AA-AAAAATGAATAAT
1 AATAAAAATAAAT-AT
26799 AATAAAAA-AAATCATT
1 AATAAAAATAAAT-A-T
*
26815 AATAATAATAATAAAAAT
1 AAT-A-AA-AATAAATAT
26833 AAGTAAAAATAAATA
1 AA-TAAAAATAAATA
26848 AAAGTGAGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
14 9 0.18
15 10 0.20
16 16 0.31
17 3 0.06
18 6 0.12
19 4 0.08
20 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAAAAATAAATAT
Found at i:26806 original size:19 final size:18
Alignment explanation
Indices: 26766--26848 Score: 62
Period size: 20 Copynumber: 4.4 Consensus size: 18
26756 GTTAGATTGT
*
26766 AAAAATAAAAATAAATATAA
1 AAAAATAATAAT-AATA-AA
26786 AAAAATGAATAATAATAAA
1 AAAAAT-AATAATAATAAA
* *
26805 AAAAATCAT--TAATAAT
1 AAAAATAATAATAATAAA
* *
26821 AATAATAAAAATAAGTAAA
1 AAAAATAATAATAA-TAAA
26840 AATAAATAA
1 AA-AAATAA
26849 AAGTGAGTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
16 12 0.24
18 5 0.10
19 13 0.26
20 15 0.30
21 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAATAATAATAATAAA
Found at i:26818 original size:22 final size:22
Alignment explanation
Indices: 26793--26850 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
26783 TAAAAAAATG
* *
26793 AATAATAATAAAAAAAATCATT
1 AATAATAATAAAAAAAATAAGT
*
26815 AATAATAATAATAAAAATAAGT
1 AATAATAATAAAAAAAATAAGT
*
26837 AAAAATAAATAAAA
1 AATAAT-AATAAAA
26851 GTGAGTAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAATAATAAAAAAAATAAGT
Found at i:26849 original size:20 final size:20
Alignment explanation
Indices: 26786--26889 Score: 81
Period size: 19 Copynumber: 5.2 Consensus size: 20
26776 ATAAATATAA
* *
26786 AAAAATGAATAATAATAAA-
1 AAAAATGAGTAAAAATAAAT
* * *
26805 AAAAATCATTAATAATAATAAT
1 AAAAATGAGTAAAAAT-A-AAT
*
26827 AAAAATAAGTAAAAATAAAT
1 AAAAATGAGTAAAAATAAAT
* *
26847 AAAAGTGAGTAGAAAT-AAT
1 AAAAATGAGTAAAAATAAAT
26866 AAAAA-GA-TAAAAATATAAT
1 AAAAATGAGTAAAAATA-AAT
26885 AAAAA
1 AAAAA
26890 CAAAACATAA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.09
18 2 0.03
19 29 0.41
20 17 0.24
21 3 0.04
22 13 0.19
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAATGAGTAAAAATAAAT
Found at i:26850 original size:19 final size:19
Alignment explanation
Indices: 26828--26888 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
26818 AATAATAATA
26828 AAAATAAGTAAAAATAAAT
1 AAAATAAGTAAAAATAAAT
* *
26847 AAAAGTGAGTAGAAAT-AAT
1 AAAA-TAAGTAAAAATAAAT
26866 -AAA-AAGATAAAAATATAAT
1 AAAATAAG-TAAAAATA-AAT
26885 AAAA
1 AAAA
26889 ACAAAACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
16 2 0.06
17 6 0.18
18 3 0.09
19 10 0.30
20 12 0.36
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
AAAATAAGTAAAAATAAAT
Found at i:27896 original size:16 final size:18
Alignment explanation
Indices: 27872--27911 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27862 TAATAAAAAA
* *
27872 ATAATAATATTATATATAT
1 ATAAT-ATATAATACATAT
27891 ATAATATATAATACATAT
1 ATAATATATAATACATAT
27909 ATA
1 ATA
27912 TGTATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATATAATACATAT
Found at i:28247 original size:3 final size:3
Alignment explanation
Indices: 28239--28309 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
28229 TGTGGATATC
28239 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28287 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
28310 GTAACATGAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:32434 original size:38 final size:38
Alignment explanation
Indices: 32390--32503 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
32380 AAATTTCAGG
* *
32390 GACTCCTACAAGTACTATAAATTTAAAATGATTTGTTC
1 GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
* *
32428 GTCTCCTACGAGTACCATAAATTTAACATGATTTGTTC
1 GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
* * *
32466 GACTCCGAAAAGTACCATAAATTTAACATTATTTGTTC
1 GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
32504 ACATCGCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (38 bp):
GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
Found at i:35340 original size:23 final size:23
Alignment explanation
Indices: 35314--35380 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
35304 CCTCTGAATG
* *
35314 AAGACTGTGTTGAATGATTTAGC
1 AAGACTGTGTTGAATGATTCAGA
35337 AAGACTGTGTTGAATGATTCAGA
1 AAGACTGTGTTGAATGATTCAGA
* *
35360 AAAACAGTGTTGAATGATTCA
1 AAGACTGTGTTGAATGATTCA
35381 ACATCAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (23 bp):
AAGACTGTGTTGAATGATTCAGA
Found at i:35756 original size:20 final size:20
Alignment explanation
Indices: 35731--35768 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35721 ACCTCTTACT
35731 TAAAATTTAAAATTTATATC
1 TAAAATTTAAAATTTATATC
*
35751 TAAAATTTAAGATTTATA
1 TAAAATTTAAAATTTATA
35769 ATTTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TAAAATTTAAAATTTATATC
Found at i:36304 original size:20 final size:20
Alignment explanation
Indices: 36281--36323 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
36271 TATTTAAAAT
*
36281 AAAGCAAAATTG-GATTTTGA
1 AAAGCAAAA-TGAAATTTTGA
36301 AAAGCAAAATGAAATTTTGA
1 AAAGCAAAATGAAATTTTGA
36321 AAA
1 AAA
36324 ATGATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGCAAAATGAAATTTTGA
Found at i:39517 original size:20 final size:20
Alignment explanation
Indices: 39489--39537 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
39479 ATGGCCATGG
* *
39489 CTCAGCTCGACATGGCTCGA
1 CTCAACTCGACACGGCTCGA
* * *
39509 CTCAACTCGGCGCGGTTCGA
1 CTCAACTCGACACGGCTCGA
39529 CTCAACTCG
1 CTCAACTCG
39538 GCGCGACTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.20
Consensus pattern (20 bp):
CTCAACTCGACACGGCTCGA
Found at i:39538 original size:20 final size:20
Alignment explanation
Indices: 39504--39560 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
39494 CTCGACATGG
*
39504 CTCGACTCAACTCGGCGCGG
1 CTCGACTCAACTCGGCGCGA
*
39524 TTCGACTCAACTCGGCGCGA
1 CTCGACTCAACTCGGCGCGA
39544 CTCGAC-CTAACTCGGCG
1 CTCGACTC-AACTCGGCG
39561 TACCTCATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.18, C:0.39, G:0.26, T:0.18
Consensus pattern (20 bp):
CTCGACTCAACTCGGCGCGA
Found at i:40438 original size:34 final size:34
Alignment explanation
Indices: 40369--40438 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
40359 ATATATTTTT
*
40369 AATATCTTTAATATATAAATTTTAAAAAATAATA
1 AATATCTTTAATATATAAATTTCAAAAAATAATA
* *
40403 AATATCTTTCAATTTA-AAATATTCAAAAGAT-ATA
1 AATATCTTT-AATATATAAAT-TTCAAAAAATAATA
40437 AA
1 AA
40439 CTTCTTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (34 bp):
AATATCTTTAATATATAAATTTCAAAAAATAATA
Found at i:40510 original size:64 final size:63
Alignment explanation
Indices: 40413--40532 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 63
40403 AATATCTTTC
* * *
40413 AATTTAAAATATTCAAAAGATATAAACTTCTTTTACTATTTAAATTTAAATAGATATTATGTT
1 AATTTAAAATATTCAAAAGATATAAACATCTTTTACTATTAAAAGTTAAATAGATATTATGTT
* *
40476 AATTTGAAATATTTAAAA-ATATATAATCATCTTTTACTATTAAAAGTTAAATAGATA
1 AATTTAAAATATTCAAAAGATATA-AA-CATCTTTTACTATTAAAAGTTAAATAGATA
40533 ATAAATACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 5 0.10
63 18 0.36
64 27 0.54
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (63 bp):
AATTTAAAATATTCAAAAGATATAAACATCTTTTACTATTAAAAGTTAAATAGATATTATGTT
Found at i:41236 original size:17 final size:17
Alignment explanation
Indices: 41203--41236 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
41193 TATTTGATTA
41203 AATTTCTTTTAATTTTT
1 AATTTCTTTTAATTTTT
41220 AATTT-TTTTAATATTTT
1 AATTTCTTTTAAT-TTTT
41237 GATCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTCTTTTAATTTTT
Found at i:43998 original size:2 final size:2
Alignment explanation
Indices: 43974--44026 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
43964 ATTATATGAT
* * *
43974 TA TA TG TA TA TA T- TT TA TA -A TA TA TA TA TA T- TT TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44012 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
44027 TATTTACACA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:44001 original size:18 final size:18
Alignment explanation
Indices: 43975--44022 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
43965 TTATATGATT
*
43975 ATATGTATATATTTTATA
1 ATATATATATATTTTATA
43993 ATATATATATATTTTATA
1 ATATATATATATTTTATA
44011 ATATATATATAT
1 ATATATATATAT
44023 ATATTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATATATATATATTTTATA
Found at i:44003 original size:20 final size:19
Alignment explanation
Indices: 43974--44029 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 19
43964 ATTATATGAT
*
43974 TATATGTATATATTTTATA
1 TATATATATATATTTTATA
43993 -ATATATATATATTTTATAA
1 TATATATATATATTTTAT-A
*
44012 TATATATATATATATTAT
1 TATATATATATATTTTAT
44030 TTACACATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 16 0.48
19 1 0.03
20 16 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATATATATATATTTTATA
Found at i:48764 original size:17 final size:16
Alignment explanation
Indices: 48742--48775 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
48732 TTAAAGGCTA
*
48742 TTTGTACTATTTCTCTC
1 TTTGTAATATTTC-CTC
48759 TTTGTAATATTTCCTC
1 TTTGTAATATTTCCTC
48775 T
1 T
48776 ATTAGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTGTAATATTTCCTC
Found at i:57670 original size:22 final size:22
Alignment explanation
Indices: 57642--57693 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
57632 TCACATAGTA
57642 CGACATCTATATTCTTTAGATC
1 CGACATCTATATTCTTTAGATC
57664 CGACATCTATATTCTTTAGATC
1 CGACATCTATATTCTTTAGATC
57686 CGACATCT
1 CGACATCT
57694 TCCTTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (22 bp):
CGACATCTATATTCTTTAGATC
Found at i:65005 original size:20 final size:20
Alignment explanation
Indices: 64929--65039 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
64919 GTGATTTTCC
* *
64929 GACTATCGCAATGTGAATAT
1 GACTATCGCAATGCGATTAT
* *
64949 GTA-AATCGCAATGCGAATAT
1 G-ACTATCGCAATGCGATTAT
*
64969 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
*
64989 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTAT
* *
65009 GACTATCGCAACGCGATTTT
1 GACTATCGCAATGCGATTAT
*
65029 GACTGTCGCAA
1 GACTATCGCAA
65040 CACTGAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 79 0.98
21 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:65891 original size:24 final size:24
Alignment explanation
Indices: 65840--65893 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
65830 GTATTCGAAA
*
65840 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
65864 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
65888 TTTGAT
1 TTTGAT
65894 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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:66109 original size:14 final size:14
Alignment explanation
Indices: 66080--66116 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
66070 AGAAAAAGAA
66080 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
66095 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
66109 GAAGAAAA
1 GAAGAAAA
66117 TGCCACGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:68484 original size:138 final size:138
Alignment explanation
Indices: 68236--68507 Score: 474
Period size: 138 Copynumber: 2.0 Consensus size: 138
68226 ATGCAAACGT
*
68236 TGTATTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGGACATT
1 TGTATTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATT
* *
68301 GCTATGATCTGTTCAGTTGTTATCACTTATTACCCATTCATTTGAATATCGCAACGCGAATTTGA
66 GCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
68366 CTATTATG
131 CTATTATG
* *
68374 TGTATTTATGTGTAAACTTTTAACA-TTTCAGTTAGGCATGTATTAGTAGCTTGAGTTTGAACAT
1 TGTA-TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACAT
*
68438 TGCTATGATATGTTCAGTTTTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTG
65 TGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTG
68503 ACTAT
130 ACTAT
68508 CGCAACGAGA
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
138 107 0.84
139 20 0.16
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (138 bp):
TGTATTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGTTTGAACATT
GCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
CTATTATG
Found at i:68503 original size:20 final size:20
Alignment explanation
Indices: 68478--68767 Score: 207
Period size: 20 Copynumber: 15.8 Consensus size: 20
68468 TTACACATTC
*
68478 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
68498 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
68518 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
68537 A----A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
* *
68551 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* * *
68570 A----A-AATTGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
68585 ATTTGACTATTGCAACACGA
1 ATTTGACTATCGCAACGCGA
* *
68605 ATATGACTATCACAACGC-A
1 ATTTGACTATCGCAACGCGA
*
68624 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
68639 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
68659 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
68679 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
68699 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
*
68719 A----A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
*
68733 ATTTTACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
68753 ATTTGACTATCGCAA
1 ATTTGACTATCGCAA
68768 TGAGAAAATC
Statistics
Matches: 210, Mismatches: 35, Indels: 50
0.71 0.12 0.17
Matches are distributed among these distances:
13 8 0.04
14 29 0.14
15 7 0.03
16 1 0.00
18 2 0.01
19 7 0.03
20 156 0.74
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:68553 original size:33 final size:34
Alignment explanation
Indices: 68506--68600 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 34
68496 GAATTTGACT
68506 ATCGCAACGAGAATTTGATTATCGCAACTC-AAA
1 ATCGCAACGAGAATTTGATTATCGCAACTCAAAA
* *
68539 ATCGCAATGCGAATTTGATTATCGCAACTCAAAA
1 ATCGCAACGAGAATTTGATTATCGCAACTCAAAA
* * * *
68573 ATTGCAACGTGAATTTGACTATTGCAAC
1 ATCGCAACGAGAATTTGATTATCGCAAC
68601 ACGAATATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 28 0.52
34 26 0.48
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (34 bp):
ATCGCAACGAGAATTTGATTATCGCAACTCAAAA
Found at i:68634 original size:54 final size:54
Alignment explanation
Indices: 68539--68676 Score: 177
Period size: 54 Copynumber: 2.6 Consensus size: 54
68529 GCAACTCAAA
** * * * *
68539 ATCGCAATGCGAATTTGATTATCGCAACTCAAAAATTGCAACGTGAATTTGACT
1 ATCGCAACACGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACT
* * * *
68593 ATTGCAACACGAATATGACTATCACAACGCAAAAATCGCAACGCGAATTTGTCT
1 ATCGCAACACGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACT
*
68647 ATCGCAACGCGAATTTGACTATCGCAACGC
1 ATCGCAACACGAATTTGACTATCGCAACGC
68677 GAATTTGATT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (54 bp):
ATCGCAACACGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAATTTGACT
Found at i:68749 original size:54 final size:54
Alignment explanation
Indices: 68627--68818 Score: 206
Period size: 54 Copynumber: 3.5 Consensus size: 54
68617 CAACGCAAAA
* * *
68627 ATCGCAACGCGAATTTGTCTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAA----A--ATCGCAACGCGAATTTGACT
* * * *
68687 ATCGCAACGGGTATTTGACTATCGCAACGAGAAAATCGCAATGCGAATTTTACT
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAACGCGAATTTGACT
* * * *
68741 ATCGCAACGCGAATTTGACTATCGCAATGAGAAAATCGCAAAGCGTATTAGACT
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAACGCGAATTTGACT
* *
68795 AGCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAACGCGAATTTGACTATCGC
68819 GTTGCGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 10 0.09
54 76 0.66
56 1 0.01
60 29 0.25
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAACGCGAATTTGACT
Found at i:68837 original size:20 final size:21
Alignment explanation
Indices: 68808--68865 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
68798 GCAACGCGAA
68808 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
68828 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
68848 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
68866 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:70442 original size:42 final size:42
Alignment explanation
Indices: 70375--70466 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
70365 GTGAATCGGG
* * * *
70375 CTCTAGAATGTTGGGAGGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGACCTCTTCAAGGATGACAGGGGC
* * *
70417 CTCTTGAATGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGGTGGGA-GGGACCTCTTCAAGGATGACAGGGGC
70459 CTCTTGAA
1 CTCTTGAA
70467 CGATAGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGACCTCTTCAAGGATGACAGGGGC
Done.