Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2466
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: 145712
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1228 original size:29 final size:29
Alignment explanation
Indices: 1191--1261 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
1181 TTTTTGCTAA
*
1191 TTTT-TTTCTCTTTCT-TTTTTTACCTTCT
1 TTTTCTTTCTCTTTCTACTTTTT-CCTTCT
* *
1219 TTTTCTTTCTCTCTCTACTTTTTCTTTCT
1 TTTTCTTTCTCTTTCTACTTTTTCCTTCT
* *
1248 TTCTCATTCTCTTT
1 TTTTCTTTCTCTTT
1262 TTCTCTCTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
28 4 0.11
29 26 0.74
30 5 0.14
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTCTTTCTCTTTCTACTTTTTCCTTCT
Found at i:1243 original size:25 final size:24
Alignment explanation
Indices: 1215--1276 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
1205 TTTTTTTACC
1215 TTCTTTTTCTTTCTC-TCTCTACTTT
1 TTCTTTTTCTTTCTCAT-TCT-CTTT
1240 TTC--TTTCTTTCTCATTCTCTTT
1 TTCTTTTTCTTTCTCATTCTCTTT
*
1262 TTCTCTCTTCTTTCT
1 TTCT-TTTTCTTTCT
1277 TTTTTTTCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 7 0.22
23 13 0.41
24 1 0.03
25 11 0.34
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (24 bp):
TTCTTTTTCTTTCTCATTCTCTTT
Found at i:1246 original size:23 final size:22
Alignment explanation
Indices: 1220--1270 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
1210 TTACCTTCTT
1220 TTTCTTTCTC-TCTCTACTTTTTC
1 TTTCTTTCTCAT-TCT-CTTTTTC
1243 TTTCTTTCTCATTCTCTTTTTC
1 TTTCTTTCTCATTCTCTTTTTC
*
1265 TCTCTT
1 TTTCTT
1271 CTTTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.46
23 13 0.50
24 1 0.04
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTCTTTCTCATTCTCTTTTTC
Found at i:1281 original size:19 final size:19
Alignment explanation
Indices: 1199--1295 Score: 55
Period size: 19 Copynumber: 5.4 Consensus size: 19
1189 AATTTTTTTC
*
1199 TCTTTCTTTTTTT-AC-CT
1 TCTTTCTTTTTTTCTCTCT
*
1216 TCTTT-TTCTTTCTCTCTCT
1 TCTTTCTT-TTTTTCTCTCT
* * *
1235 AC-TT-TTTCTTTCTTTC-
1 TCTTTCTTTTTTTCTCTCT
* *
1251 TCATTCTCTTTTTCTCTCT
1 TCTTTCTTTTTTTCTCTCT
1270 TCTTTCTTTTTTT-TCGTCT
1 TCTTTCTTTTTTTCTC-TCT
*
1289 TCCTTCT
1 TCTTTCT
1296 CTATCAATTG
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
16 3 0.05
17 18 0.30
18 16 0.27
19 23 0.38
ACGTcount: A:0.03, C:0.28, G:0.01, T:0.68
Consensus pattern (19 bp):
TCTTTCTTTTTTTCTCTCT
Found at i:4524 original size:34 final size:34
Alignment explanation
Indices: 4486--4598 Score: 95
Period size: 34 Copynumber: 3.2 Consensus size: 34
4476 TCGATGGCAA
*
4486 AGTTTCTCATTTAAAGTTGAATCCTCGGTGAAGG
1 AGTTTCTCATTTAAAGTTGAATCCTAGGTGAAGG
* *
4520 AGTTTTTTTTCATCGTT-AAGTTGAAGT-CTAGATGAAGG
1 AG---TTTCTCAT--TTAAAGTTGAA-TCCTAGGTGAAGG
* * * *
4558 AGTTTTTCATTTAAAGTTGAAGCCTTGGTGGAGG
1 AGTTTCTCATTTAAAGTTGAATCCTAGGTGAAGG
4592 AGTTTCT
1 AGTTTCT
4599 TCTTCATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
33 2 0.03
34 24 0.38
35 8 0.13
37 7 0.11
38 19 0.30
39 3 0.05
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (34 bp):
AGTTTCTCATTTAAAGTTGAATCCTAGGTGAAGG
Found at i:4531 original size:72 final size:71
Alignment explanation
Indices: 4453--4608 Score: 172
Period size: 72 Copynumber: 2.2 Consensus size: 71
4443 ACAAATTTAG
* *
4453 TTTTTCATTTTAAAGTTAAAGCCTCGATGGCAA-AGTTTCTCATTTAAAGTTGAATCCTCGGTGA
1 TTTTTCATTTT-AAGTTAAAGCCTAGAT-G-AAGAGTTTCTCATTTAAAGTTGAAGCCTCGGTGA
4517 AGGAGTTT-
63 AGGAGTTTC
* * * * * *
4525 TTTTTCATCGTTAAGTTGAAGTCTAGATGAAGGAGTTTTTCATTTAAAGTTGAAGCCTTGGTGGA
1 TTTTTCAT-TTTAAGTTAAAGCCTAGATGAA-GAGTTTCTCATTTAAAGTTGAAGCCTCGGTGAA
4590 GGAGTTTC
64 GGAGTTTC
*
4598 TTCTTCATTTT
1 TTTTTCATTTT
4609 TGAAAGTTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
70 2 0.03
71 1 0.01
72 58 0.83
73 9 0.13
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTTCATTTTAAGTTAAAGCCTAGATGAAGAGTTTCTCATTTAAAGTTGAAGCCTCGGTGAAGG
AGTTTC
Found at i:4649 original size:34 final size:34
Alignment explanation
Indices: 4611--4759 Score: 111
Period size: 34 Copynumber: 4.3 Consensus size: 34
4601 TTCATTTTTG
*
4611 AAAGTTGAAGACTTAATGGAGGAA-TTTTGCATTT
1 AAAGTTGAAGACTTAATAGA-GAAGTTTTGCATTT
* * *
4645 AAAGTTGAAGCCTTAGTAGAGAAGTTTTTCATTT
1 AAAGTTGAAGACTTAATAGAGAAGTTTTGCATTT
* * * * * **
4679 AAAGTTGAAGTCTCAGTAAAGGAGTTTTTTATTT
1 AAAGTTGAAGACTTAATAGAGAAGTTTTGCATTT
* ** * *
4713 AAAGTTGATAAGTCTCGATGGAGAAGTTTTGTATCTT
1 AAAGTTG--AAGACTTAATAGAGAAGTTTTGCAT-TT
4750 AAAGTTGAAG
1 AAAGTTGAAG
4760 CCTCGATGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
33 3 0.03
34 62 0.65
35 3 0.03
36 19 0.20
37 9 0.09
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.37
Consensus pattern (34 bp):
AAAGTTGAAGACTTAATAGAGAAGTTTTGCATTT
Found at i:4650 original size:75 final size:72
Alignment explanation
Indices: 4493--4658 Score: 199
Period size: 75 Copynumber: 2.3 Consensus size: 72
4483 CAAAGTTTCT
* * * *
4493 CATTTAAAGTTGAATCCTCGGTGAAGGAGTTTTTTTTCATCGTTAAGTTGAAGTCTAGATGAAGG
1 CATTTAAAGTTGAAGCCTTGGTGAAGGAGTTTTTCTTCATCGTTAAGTTGAAGACTAGATGAAGG
* *
4558 AGTTTTT
66 AATTTTG
* **
4565 CATTTAAAGTTGAAGCCTTGGTGGAGGAGTTTCTTCTTCATTTTTGAAAGTTGAAGACTTA-ATG
1 CATTTAAAGTTGAAGCCTTGGTGAAGGAGTTT-TTCTTCATCGTT--AAGTTGAAGAC-TAGATG
*
4629 GAGGAATTTTG
62 AAGGAATTTTG
4640 CATTTAAAGTTGAAGCCTT
1 CATTTAAAGTTGAAGCCTT
4659 AGTAGAGAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
72 29 0.36
73 9 0.11
75 40 0.50
76 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.39
Consensus pattern (72 bp):
CATTTAAAGTTGAAGCCTTGGTGAAGGAGTTTTTCTTCATCGTTAAGTTGAAGACTAGATGAAGG
AATTTTG
Found at i:4687 original size:75 final size:75
Alignment explanation
Indices: 4537--4687 Score: 171
Period size: 75 Copynumber: 2.0 Consensus size: 75
4527 TTTCATCGTT
* * * * * *
4537 AAGTTGAAGTCTAGATGAAGGAGTTTTTCATTTAAAGTTGAAGCCTTGGTGGAGGAGTTTCTTCT
1 AAGTTGAAGACTAGATGAAGGAATTTTGCATTTAAAGTTGAAGCCTTAGTAGAGAAGTTTCTTCT
***
4602 TCATTTTTGA
66 TCAAAGTTGA
*
4612 AAGTTGAAGACTTA-ATGGAGGAATTTTGCATTTAAAGTTGAAGCCTTAGTAGAGAAGTTT-TTC
1 AAGTTGAAGAC-TAGATGAAGGAATTTTGCATTTAAAGTTGAAGCCTTAGTAGAGAAGTTTCTTC
*
4675 ATTTAAAGTTGA
65 -TTCAAAGTTGA
4687 A
1 A
4688 GTCTCAGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 3 0.05
75 58 0.92
76 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (75 bp):
AAGTTGAAGACTAGATGAAGGAATTTTGCATTTAAAGTTGAAGCCTTAGTAGAGAAGTTTCTTCT
TCAAAGTTGA
Found at i:4784 original size:105 final size:104
Alignment explanation
Indices: 4626--4826 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 104
4616 TGAAGACTTA
* * *
4626 ATGGAGGAATTTTGCATTTAAAGTTGAAGCCTTAGTAGAGAAGTTTTTCATTTAAAGTTGAAGTC
1 ATGGAGGAATTTTGCATTTAAAGTTGAAGCCTGAGTAGAGAAGTTTTTCATTTAAAGTTAAAGCC
*
4691 TCAGTAAAGGAGTTTTTTATTTAAAGTTGATAAGTCTCG
66 TCAGTAAAGGAGTTTTTTATTTAAAATTGATAAGTCTCG
* *
4730 ATGGA-GAAGTTTTGTATCTTAAAGTTGAAGCCTCGA-T-GAAGAAGTTTTTTATTTAAAGTTAA
1 ATGGAGGAA-TTTTGCAT-TTAAAGTTGAAGCCT-GAGTAG-AGAAGTTTTTCATTTAAAGTTAA
** **
4792 AGCCTTGGTGGAGGAGTTTTTTATTTAAAATTGAT
62 AGCCTCAGTAAAGGAGTTTTTTATTTAAAATTGAT
4827 TCATCAATGA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
103 3 0.04
104 13 0.16
105 66 0.80
106 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (104 bp):
ATGGAGGAATTTTGCATTTAAAGTTGAAGCCTGAGTAGAGAAGTTTTTCATTTAAAGTTAAAGCC
TCAGTAAAGGAGTTTTTTATTTAAAATTGATAAGTCTCG
Found at i:4795 original size:34 final size:34
Alignment explanation
Indices: 4664--4820 Score: 154
Period size: 34 Copynumber: 4.5 Consensus size: 34
4654 GCCTTAGTAG
* * * *
4664 AGAAGTTTTTCATTTAAAGTTGAAGTCTC-AGTAA
1 AGAAGTTTTTTATTTAAAGTTAAAGCCTCGA-TGA
* * *
4698 AGGAGTTTTTTATTTAAAGTTGATAAGTCTCGATGG
1 AGAAGTTTTTTATTTAAAGTT-A-AAGCCTCGATGA
* *
4734 AGAAGTTTTGTATCTTAAAGTTGAAGCCTCGATGA
1 AGAAGTTTTTTAT-TTAAAGTTAAAGCCTCGATGA
* * *
4769 AGAAGTTTTTTATTTAAAGTTAAAGCCTTGGTGG
1 AGAAGTTTTTTATTTAAAGTTAAAGCCTCGATGA
*
4803 AGGAGTTTTTTATTTAAA
1 AGAAGTTTTTTATTTAAA
4821 ATTGATTCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
34 53 0.51
35 22 0.21
36 19 0.18
37 9 0.09
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (34 bp):
AGAAGTTTTTTATTTAAAGTTAAAGCCTCGATGA
Found at i:6726 original size:21 final size:21
Alignment explanation
Indices: 6671--6726 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
6661 ATTTTGAACA
* *
6671 AAGTATCGATACAAATGCATG
1 AAGTATCAATACATATGCATG
6692 AAGTATCAATACATATGCATG
1 AAGTATCAATACATATGCATG
6713 AAGTATCAATACAT
1 AAGTATCAATACAT
6727 TACCTTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (21 bp):
AAGTATCAATACATATGCATG
Found at i:7911 original size:20 final size:20
Alignment explanation
Indices: 7859--7911 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
7849 AAGTTACTTT
7859 TAATTTTCATTA-TTTAAAAA
1 TAATTTT-ATTATTTTAAAAA
*
7879 TAATTCTTA-TATTTTTAAAA
1 TAATT-TTATTATTTTAAAAA
*
7899 TTATTTTATTATT
1 TAATTTTATTATT
7912 ATCATTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 5 0.18
20 21 0.75
21 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TAATTTTATTATTTTAAAAA
Found at i:9734 original size:22 final size:21
Alignment explanation
Indices: 9700--9741 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9690 TTACAAAAAA
9700 AATTAATACATGTTATTAATT
1 AATTAATACATGTTATTAATT
*
9721 AATTATTACTATGTTATTAAT
1 AATTAATAC-ATGTTATTAAT
9742 CTTTTACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTAATACATGTTATTAATT
Found at i:11661 original size:22 final size:22
Alignment explanation
Indices: 11556--11662 Score: 81
Period size: 22 Copynumber: 4.9 Consensus size: 22
11546 ATATTATTCG
*
11556 TCATTTACTAATATGTTATTAA
1 TCATTTACTACTATGTTATTAA
* * * * * * *
11578 TAATTAAGTACCATATTATCAT
1 TCATTTACTACTATGTTATTAA
* * * **
11600 TTATTTACTAATATATTAACAA
1 TCATTTACTACTATGTTATTAA
*
11622 TCATTTTCTAC-ATGTTATTAA
1 TCATTTACTACTATGTTATTAA
11643 TCATTTACTACTATGTTATT
1 TCATTTACTACTATGTTATT
11663 GGTCATATTA
Statistics
Matches: 62, Mismatches: 22, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
21 17 0.27
22 45 0.73
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.49
Consensus pattern (22 bp):
TCATTTACTACTATGTTATTAA
Found at i:11668 original size:22 final size:21
Alignment explanation
Indices: 11620--11662 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11610 ATATATTAAC
*
11620 AATCATTTTCTACATGTTATT
1 AATCATTTACTACATGTTATT
11641 AATCATTTACTACTATGTTATT
1 AATCATTTACTAC-ATGTTATT
11663 GGTCATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (21 bp):
AATCATTTACTACATGTTATT
Found at i:14276 original size:2 final size:2
Alignment explanation
Indices: 14269--14309 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14259 AAAGACAGTT
14269 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14310 TAATTCTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16570 original size:21 final size:20
Alignment explanation
Indices: 16539--16590 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
16529 GAAGGTTATA
*
16539 TTTATTCATTTTATTTTGAT
1 TTTATTCATTTAATTTTGAT
* *
16559 TATTATTTATTTAATTTTTAT
1 T-TTATTCATTTAATTTTGAT
16580 TTTATTGCATT
1 TTTATT-CATT
16591 AAAAATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTATTCATTTAATTTTGAT
Found at i:17977 original size:21 final size:21
Alignment explanation
Indices: 17952--18029 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
17942 TGTTTATCCA
17952 AATGTATCGATACATTTATAG
1 AATGTATCGATACATTTATAG
* *
17973 AATGTATTGATACATTTGTAG
1 AATGTATCGATACATTTATAG
* *
17994 AATGTATCGATACATTTGTTTG
1 AATGTATCGATACATTT-ATAG
18016 AATGTATCGATACA
1 AATGTATCGATACA
18030 AGGTCCCAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 35 0.69
22 16 0.31
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTTATAG
Found at i:18090 original size:19 final size:18
Alignment explanation
Indices: 18066--18162 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
18056 TTTCAACGAT
18066 TTGTATCGATACAAAAATG
1 TTGTATCGATAC-AAAATG
18085 TTGTATCGATAC--AA--
1 TTGTATCGATACAAAATG
*
18099 -TGTATCGATACATAAGTG
1 TTGTATCGATACA-AAATG
18117 TTGTATCGATAC--AA--
1 TTGTATCGATACAAAATG
*
18131 -TGTATCGATACATAAGTG
1 TTGTATCGATACA-AAATG
18149 TTGTATCGATACAA
1 TTGTATCGATACAA
18163 TGTATCGCTA
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
13 22 0.35
16 5 0.08
18 1 0.02
19 35 0.56
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (18 bp):
TTGTATCGATACAAAATG
Found at i:18103 original size:32 final size:32
Alignment explanation
Indices: 18067--18169 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
18057 TTCAACGATT
* *
18067 TGTATCGATACAAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
18099 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
18131 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
18163 TGTATCG
1 TGTATCG
18170 CTACGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:18104 original size:13 final size:13
Alignment explanation
Indices: 18086--18142 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
18076 ACAAAAATGT
18086 TGTATCGATACAA
1 TGTATCGATACAA
18099 TGTATCGATACATAA
1 TGTATCGATAC--AA
18114 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
18131 TGTATCGATACA
1 TGTATCGATACA
18143 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18212 original size:21 final size:21
Alignment explanation
Indices: 18186--18227 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18176 AGCTACTGCC
18186 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
18207 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
18228 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:18232 original size:13 final size:13
Alignment explanation
Indices: 18214--18239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18204 ATTAAGGAAA
18214 TGTATCGATACAT
1 TGTATCGATACAT
18227 TGTATCGATACAT
1 TGTATCGATACAT
18240 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20809 original size:51 final size:50
Alignment explanation
Indices: 20746--20917 Score: 229
Period size: 51 Copynumber: 3.4 Consensus size: 50
20736 TTGCCTCTGA
* *
20746 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACA-CAATTTTCCATAATC
* *
20797 GGGGATACTCCAACCCCGGCTTTATCTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACAC-AATTTTCCATAATC
* * *
20848 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTCATC
1 GGGGATACTCCAACCCCGGCTTTATTTCT-AAAACA-CAATTTTCC-ATAATC
20900 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
20918 TTATTTTTGA
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.02
51 84 0.78
52 22 0.20
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAACACAATTTTCCATAATC
Found at i:21013 original size:79 final size:78
Alignment explanation
Indices: 20848--21228 Score: 464
Period size: 79 Copynumber: 4.9 Consensus size: 78
20838 TTCCACAATC
* * *
20848 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTCATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCAATTTT-C-ATCATCGGGGATACTCCA
* ***
20912 ACCCCGTTATTTTTGA
63 ACCCCGTTACTTCCAA
* * * * * *
20928 GAGGATACTCTAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTT-TCATCATCGGGGATACTCCAAC
20993 CCCGTTACTTCCAA
65 CCCGTTACTTCCAA
*
21007 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCAATTTT--TCATCGGGGATACTCCAACC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCATCATCGGGGATACTCCAACC
* *
21070 CCGTTATTTCCGA
66 CCGTTACTTCCAA
* * * * *
21083 GGGGATACTCCAACCTCTATTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTT-TCATCATCGGGGATACTCCAAC
21148 CCCGTTACTTCCAA
65 CCCGTTACTTCCAA
* ** *
21162 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCGGTTTT-TTCATCGGGGATACTCCAACC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCATCATCGGGGATACTCCAACC
21226 CCG
66 CCG
21229 GCTTTATTTC
Statistics
Matches: 259, Mismatches: 37, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
76 67 0.26
77 23 0.09
78 2 0.01
79 129 0.50
80 36 0.14
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCATCATCGGGGATACTCCAACC
CCGTTACTTCCAA
Found at i:21134 original size:155 final size:155
Alignment explanation
Indices: 20848--21228 Score: 593
Period size: 155 Copynumber: 2.4 Consensus size: 155
20838 TTCCACAATC
* * *
20848 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTCATCGGGGATACTCCA
1 GGGGATACTCCAATCCCGATTTTATTTCT-AAAACATCAA--TT--TTTCATCGGGGATACTCCA
** * *
20912 ACCCCGTTATTTTTGAGAGGATACTCTAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAA
61 ACCCCGTTATTTCCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAA
20977 TCGGGGATACTCCAACCCCGTTACTTCCAA
126 TCGGGGATACTCCAACCCCGTTACTTCCAA
21007 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
* * *
21072 GTTATTTCCGAGGGGATACTCCAACCTCTATTTTATTTCTAAAATATTAATTTCTCATAATCGGG
66 GTTATTTCCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCGGG
21137 GATACTCCAACCCCGTTACTTCCAA
131 GATACTCCAACCCCGTTACTTCCAA
**
21162 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCGGTTTTTTCATCGGGGATACTCCAACCC
1 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATC-AATTTTTCATCGGGGATACTCCAACCC
21227 CG
65 CG
21229 GCTTTATTTC
Statistics
Matches: 208, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
155 144 0.69
156 27 0.13
157 2 0.01
159 34 0.16
160 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (155 bp):
GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
GTTATTTCCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCGGG
GATACTCCAACCCCGTTACTTCCAA
Found at i:21235 original size:49 final size:49
Alignment explanation
Indices: 21162--21328 Score: 163
Period size: 51 Copynumber: 3.3 Consensus size: 49
21152 TTACTTCCAA
* ** * *
21162 GGGGATACTCCAATCCCGATTTTATTTCTAAAACATCGGTTTTTTCATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCGGTTTTATCATC
* * * * **
21211 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATGTTGATTTCTCAAAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCGGTTT-T-ATCATC
* * * *
21262 GGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCGGTTT-T-ATCATC
21313 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
21329 TATTATTTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 34 0.35
50 1 0.01
51 63 0.64
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCGGTTTTATCATC
Found at i:21276 original size:51 final size:51
Alignment explanation
Indices: 21208--21328 Score: 188
Period size: 51 Copynumber: 2.4 Consensus size: 51
21198 CGGTTTTTTC
* * *
21208 ATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATGTTGATTTCTCAAA
1 ATCGGGGATACTCCAACCCCGGCCTTATTTCCAAAATATCGATTTCTCAAA
* * *
21259 ATCGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATA
1 ATCGGGGATACTCCAACCCCGGCCTTATTTCCAAAATATCGATTTCTCAAA
21310 ATCGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
21329 TATTATTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGGCCTTATTTCCAAAATATCGATTTCTCAAA
Found at i:22875 original size:26 final size:25
Alignment explanation
Indices: 22833--22881 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
22823 CAAAATTTTC
22833 AAAAATAAATAAAATAAATAAAAAT
1 AAAAATAAATAAAATAAATAAAAAT
* *
22858 AAAAATTAATAATCATAAATAAAA
1 AAAAATAAATAA-AATAAATAAAA
22882 TTTTAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAAATAAATAAAATAAATAAAAAT
Found at i:23975 original size:20 final size:20
Alignment explanation
Indices: 23946--23985 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
23936 TTTTTATTGG
*
23946 ATTCTGAAAGATATTAGTAA
1 ATTCTAAAAGATATTAGTAA
23966 ATTCTAAAAGATATTAGTAA
1 ATTCTAAAAGATATTAGTAA
23986 TGTATAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTCTAAAAGATATTAGTAA
Found at i:24040 original size:39 final size:39
Alignment explanation
Indices: 23968--24046 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
23958 ATTAGTAAAT
* * * * *
23968 TCTAAAAGATATTAGTAATGTATAGATTATTTATTGGAA
1 TCTAAAAGATATGACTAATATATAAATTATTTATTAGAA
*
24007 TCTAAAAGATATGACTAATATATAAATTTTTTATTAGAA
1 TCTAAAAGATATGACTAATATATAAATTATTTATTAGAA
24046 T
1 T
24047 TTGTCAGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (39 bp):
TCTAAAAGATATGACTAATATATAAATTATTTATTAGAA
Found at i:24345 original size:67 final size:66
Alignment explanation
Indices: 24262--24389 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 66
24252 AATGTGATTA
* * * * *
24262 ATGCATAGATTGTTGATGGGAA-CGAGATTCCTTCTGATATGAAAGAAGTTGATAAGACTAATGT
1 ATGCATAGATTCTTGATGAGAATC-AAATTCCTTCTAATATGAAA-AAATTGATAAGACTAATGT
24326 ATG
64 ATG
*
24329 ATGCATAGATTCTTGATGAGAATCAAATTCTTTCTAATATGAAAAAATTGATAAGACTAAT
1 ATGCATAGATTCTTGATGAGAATCAAATTCCTTCTAATATGAAAAAATTGATAAGACTAAT
24390 ACATGGATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
66 16 0.30
67 37 0.69
68 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (66 bp):
ATGCATAGATTCTTGATGAGAATCAAATTCCTTCTAATATGAAAAAATTGATAAGACTAATGTAT
G
Found at i:24495 original size:94 final size:93
Alignment explanation
Indices: 24395--24595 Score: 235
Period size: 94 Copynumber: 2.2 Consensus size: 93
24385 CTAATACATG
* * * *
24395 GATTGTAAATGTCAAACTATAAAGATTAAACTAATGCAT-GAATTGTATCTGAA-AATTAGATTC
1 GATTGTAAATATCAAACTACAAAGATTAAACTAATGCATAG-ATTATAT-TGAAGAATTAAATTC
*
24458 CTTTCGGTAGAAAAAAAAAGAAAAATTAGTT
64 CTTTCGGTAG-AAAAAAAAGAAAAATTAATT
* * * * *
24489 GATTGTAAATATCAGACTACAAGGATTAGACTAATGCATAGATTATATTTAAGAATTAAATTTCT
1 GATTGTAAATATCAAACTACAAAGATTAAACTAATGCATAGATTATATTGAAGAATTAAATTCCT
* * *
24554 TTTGGTAGAAAAAAAAGCAAAGTTAATT
66 TTCGGTAGAAAAAAAAGAAAAATTAATT
*
24582 GTTTGTAAATATCA
1 GATTGTAAATATCA
24596 CAGTTAAAAG
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
93 33 0.36
94 57 0.63
95 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (93 bp):
GATTGTAAATATCAAACTACAAAGATTAAACTAATGCATAGATTATATTGAAGAATTAAATTCCT
TTCGGTAGAAAAAAAAGAAAAATTAATT
Found at i:27157 original size:20 final size:20
Alignment explanation
Indices: 27132--27187 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
27122 ACTGCCAAGG
*
27132 AAATGTATCGATATATTATT
1 AAATGTATCGATACATTATT
27152 AAATGTATCGATACATTATT
1 AAATGTATCGATACATTATT
*
27172 CAATGTATCGATACAT
1 AAATGTATCGATACAT
27188 GCAGGCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Found at i:31141 original size:28 final size:28
Alignment explanation
Indices: 31040--32307 Score: 802
Period size: 27 Copynumber: 44.2 Consensus size: 28
31030 CACTGACACA
* **
31040 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
31069 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
31099 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
* *
31129 CGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
31157 TGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
31184 CGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
31212 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
31239 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
31267 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
31295 TGCGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
31327 GTGTGGGCTTTGAAAGGGTGCCACTAACTT
1 -TGTGGGCTTTGAAAGGGTGCCACTGAC-T
*
31357 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
31386 TGTGGGTTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
31414 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
31442 TGTGGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
31470 TGTGGGCTCTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
31498 TGTGGGCTTTGAAAGGGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
**
31527 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
*
31559 GTGTGGGCTTTGGAATGGGTTGCCACTGACT
1 -TGTGGGCTTT-GAAAGGG-TGCCACTGACT
*
31590 TGTATGGGCTTTGGAATGGGTTGCCA-TCGACTT
1 TG--TGGGCTTT-GAAAGGG-TGCCACT-GAC-T
* *
31623 GTGTGGGCTTTGGAATGGGTTGCCACCGACTT
1 -TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T
* *
31655 GTGTGGGCTTTGGAACGGGTTGCCACCGACTT
1 -TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T
*
31687 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
*
31719 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
* *
31751 GTGTGGGCTTTGGAATGGGTTGCCACCGACTT
1 -TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T
* * *
31783 GTGTGGGCTTTGGAATGGGTGCCACAGAGT
1 -TGTGGGCTTT-GAAAGGGTGCCACTGACT
* * * * *
31813 TGT-GGATTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
31840 TGTGGAC-TTAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
31867 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
31894 TGTGGAC-TTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * *
31921 TGTGGTC-TTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * *
31948 TGTGGACTTTAAAAGGGTGCCA-TAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * * *
31976 TGTGGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * * *
32004 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * **
32031 TGTGGAC-TTAAAAGGGTGCCA-TAGGGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
32058 TGTGGTC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
32086 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
32113 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
32140 TGTGGAC-TTAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * * *
32167 TGTGGAC-TTAAAAGAATGTCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
32194 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
32221 TGTGGTC-TTAAAAGGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
32249 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
32276 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
32303 TGTGG
1 TGTGG
32308 ACTTAAAAGA
Statistics
Matches: 1111, Mismatches: 95, Indels: 68
0.87 0.07 0.05
Matches are distributed among these distances:
26 1 0.00
27 385 0.35
28 324 0.29
29 7 0.01
30 111 0.10
31 51 0.05
32 222 0.20
33 8 0.01
34 2 0.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:31559 original size:32 final size:31
Alignment explanation
Indices: 30994--31816 Score: 767
Period size: 32 Copynumber: 27.5 Consensus size: 31
30984 AAAAAAAAAT
* **
30994 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAAG
1 GTGCCACTGA-CTTGTGTGGGCTTTG-AAATGG
* *** * *
31026 TTGCCACTGACACATGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
** * *
31057 GTGTTACTGACTTGCGTGGGCTTT-AAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31087 GTGCCACTGACTTGCGTGGGCTTTGAAA-GG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* * *
31117 ATGCCACTGAC-T-CGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
31145 GTGCCACTGAC-T-TGTGGGCTTTGAAA--G
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31172 GTGCCACTGAC-T-CGTGGGCTTTGAAA-AG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31200 GTACCACTGAC-T-CGTGGGC-TTGAAA-GG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31227 GTGCCACTGAC-T-TGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31255 GTGCCACTGAC-T-CGTGGGCTTTGAAA-AG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31283 GTGCCACTGACTTGCGTGGGCTTTGAAA-GG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
31313 AGTGCCACTGACTTGTGTGGGCTTTGAAA-GG
1 -GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31344 GTGCCACTAACTTGTGTGGGCTTT-AAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31374 GTGCCACTGAC-T-TGTGGGTTTTGAAA-GA
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* * *
31402 GTGCCACTGA-AT-TGTGGGCTTCGCAAT-G
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31430 GTGCCACTGAC-T-TGTGGGCTTCGAAA-GG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31458 GTGCCACTAAC-T-TGTGGGCTCTGAAA-GG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31486 GTGCCACTAAC-T-TGTGGGCTTTGAAA-GG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
31514 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAATGG
** *
31545 GTTGCCACCAACTTGTGTGGGCTTTGGAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31577 GTTGCCACTGACTTGTATGGGCTTTGGAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31609 GTTGCCA-TCGACTTGTGTGGGCTTTGGAATGG
1 G-TGCCACT-GACTTGTGTGGGCTTTGAAATGG
* * *
31641 GTTGCCACCGACTTGTGTGGGCTTTGGAACGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31673 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
*
31705 GTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31737 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31769 GTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAATGG
* *
31801 GTGCCACAGAGTTGTG
1 GTGCCACTGACTTGTG
31817 GATTTAAAAG
Statistics
Matches: 711, Mismatches: 61, Indels: 39
0.88 0.08 0.05
Matches are distributed among these distances:
27 49 0.07
28 220 0.31
29 10 0.01
30 103 0.14
31 70 0.10
32 258 0.36
33 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (31 bp):
GTGCCACTGACTTGTGTGGGCTTTGAAATGG
Found at i:31592 original size:64 final size:58
Alignment explanation
Indices: 30994--31969 Score: 789
Period size: 64 Copynumber: 16.6 Consensus size: 58
30984 AAAAAAAAAT
* * * * *
30994 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 GTGCCACTGA-CTTGTGTGGGCTTTG--AAAGGGTGCCACTG--ACTTGTGGGCTTTG-AAAGG
** * *
31057 GTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * *
31117 ATGCCACTGAC-T-CGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-G
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
31172 GTGCCACTGAC-T-CGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGC-TTGAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
31227 GTGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
*
31283 GTGCCACTGACTTGCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * * *
31344 GTGCCACTAACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGA
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
31402 GTGCCACTGA-AT-TGTGGGCTTCGCAATGGTGCCACTGACTTGTGGGCTTCGAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
31458 GTGCCACTAAC-T-TGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
** *
31514 GTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGGAATGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTT-GAAAGG
* * *
31577 GTTGCCACTGACTTGTATGGGCTTTGGAATGGGTTGCCA-TCGACTTGTGTGGGCTTTGGAATGG
1 G-TGCCACTGACTTGTGTGGGCTTT-GAAAGGG-TGCCACT-GAC-T-TGTGGGCTTT-GAAAGG
* * *
31641 GTTGCCACCGACTTGTGTGGGCTTTGGAACGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGACTTGTGTGGGCTTT-GAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
* * *
31705 GTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGG
1 G-TGCCACTGACTTGTGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTT-GAAAGG
* * * * * *
31769 GTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTGCCACAGAGTTGT-GGATTTAAAAGG
1 G-TGCCACTGACTTGTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * * * * * *
31828 ATGCCACGGA-GT-TGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * * *
31882 GTGCCACGGA-GT-TGTGGAC-TTAAAAGGGTGCCAC-GAAGTTGTGGTC-TTAAAAGG
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAGG
** * *
31936 GTGCCAC-GAAGT-TGTGGACTTTAAAAGGGTGCCA
1 GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCA
31970 TAGAGTTGTG
Statistics
Matches: 800, Mismatches: 83, Indels: 68
0.84 0.09 0.07
Matches are distributed among these distances:
53 3 0.00
54 96 0.12
55 104 0.13
56 132 0.17
57 4 0.00
58 85 0.11
59 23 0.03
60 38 0.05
61 67 0.08
62 11 0.01
63 38 0.05
64 190 0.24
65 9 0.01
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (58 bp):
GTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:32042 original size:82 final size:82
Alignment explanation
Indices: 31799--32372 Score: 857
Period size: 82 Copynumber: 7.0 Consensus size: 82
31789 GCTTTGGAAT
* *
31799 GGGTGCCACAGAGTTGTGGATTTAAAAG-GATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
31863 GAGTTGTGGACTTAAAA
66 GAGTTGTGGACTTAAAA
* * * *
31880 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGAAGTTGTGGTCTTAAAAGGGTGCCACG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
31944 AAGTTGTGGACTTTAAAA
66 GAGTTGTGGAC-TTAAAA
* *
31962 GGGTGCCATAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
32027 GAGTTGTGGACTTAAAA
66 GAGTTGTGGACTTAAAA
* * * *
32044 GGGTGCCATAGGGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
32109 GAGTTGTGGACTTAAAA
66 GAGTTGTGGACTTAAAA
* ** * *
32126 GGGTGCCACAGAGTTGTGGACTTAAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGAATGTCACA
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
32190 GAGTTATGGACTTAAAA
66 GAGTTGTGGACTTAAAA
* * * *
32207 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
32272 GAGTTGTGGACTTAAAA
66 GAGTTGTGGACTTAAAA
* * * * *
32289 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGAAGTTGTGGACTTAAAAAGATGGCACA
1 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
32354 GAGTTGTGGACTTTAAAA
66 GAGTTGTGGAC-TTAAAA
32372 G
1 G
32373 AAAATGCCAC
Statistics
Matches: 442, Mismatches: 47, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
81 140 0.32
82 253 0.57
83 49 0.11
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (82 bp):
GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
GAGTTGTGGACTTAAAA
Found at i:32373 original size:27 final size:27
Alignment explanation
Indices: 31799--32372 Score: 817
Period size: 27 Copynumber: 21.0 Consensus size: 27
31789 GCTTTGGAAT
* *
31799 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
31826 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
31853 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
31880 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
31907 GGGTGCCACGAAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
31934 GGGTGCCACGAAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
**
31962 GGGTGCCATAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
31989 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
32017 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
32044 GGGTGCCATAGG-GTTGTGGTCTTAAAA
1 GGGTGCCA-CGGAGTTGTGGACTTAAAA
32071 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
32099 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
32126 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
32153 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
32180 GAATGTCACAGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
32207 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
32234 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
32262 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
32289 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
32316 GAGATGCCACGAAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* * * *
32344 AGATGGCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
32372 G
1 G
32373 AAAATGCCAC
Statistics
Matches: 490, Mismatches: 49, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
27 365 0.74
28 125 0.26
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:40462 original size:20 final size:20
Alignment explanation
Indices: 40415--40489 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
40405 AAAAAGACAT
*
40415 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
40434 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
40455 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
40475 AATGTATCGATACAT
1 AATGTATCGATACAT
40490 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:40483 original size:40 final size:39
Alignment explanation
Indices: 40412--40489 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
40402 GGTAAAAAGA
* *
40412 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
40451 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
40490 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:45768 original size:19 final size:20
Alignment explanation
Indices: 45744--45795 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
45734 TCGATACATT
**
45744 GTATCGATACATGTTC-ATC
1 GTATCGATACATGGACAATC
45763 GTATCGATACATGGACAATC
1 GTATCGATACATGGACAATC
45783 GTATCGATACATG
1 GTATCGATACATG
45796 CAACTGGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGGACAATC
Found at i:45785 original size:20 final size:19
Alignment explanation
Indices: 45739--45795 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
45729 TTATATCGAT
* *
45739 ACATTGTATCGATACATGT
1 ACATCGTATCGATACATGG
*
45758 TCATCGTATCGATACATGG
1 ACATCGTATCGATACATGG
45777 ACAATCGTATCGATACATG
1 AC-ATCGTATCGATACATG
45796 CAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (19 bp):
ACATCGTATCGATACATGG
Found at i:45861 original size:13 final size:13
Alignment explanation
Indices: 45840--45870 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45830 CGATACATGG
*
45840 TACAGTGTATCGA
1 TACATTGTATCGA
45853 TACATTGTATCGA
1 TACATTGTATCGA
45866 TACAT
1 TACAT
45871 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:45882 original size:33 final size:33
Alignment explanation
Indices: 45824--45890 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
45814 CTATCACTGT
*
45824 TTGTATCGATACATGGTACAGTGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
45857 TTGTATCGATACATGAAG-A-AATGTATCGATACA
1 TTGTATCGATACATG--GTACAATGTATCGATACA
45890 T
1 T
45891 AGCTTGTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCGATACA
Found at i:51290 original size:32 final size:33
Alignment explanation
Indices: 51232--51294 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
51222 CTCTCAGATG
*
51232 TATCGATACATCTTGCTTTGTATCGATACATTA
1 TATCGATACATCTTGCATTGTATCGATACATTA
*
51265 TATCGATACATGTT-CATTGTATCGATACAT
1 TATCGATACATCTTGCATTGTATCGATACAT
51295 GGACAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATCTTGCATTGTATCGATACATTA
Found at i:51305 original size:20 final size:19
Alignment explanation
Indices: 51259--51315 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
51249 TTGTATCGAT
* *
51259 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
51278 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
51297 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
51316 CAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:51381 original size:13 final size:13
Alignment explanation
Indices: 51360--51390 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
51350 CGATACATGG
*
51360 TACAGTGTATCGA
1 TACATTGTATCGA
51373 TACATTGTATCGA
1 TACATTGTATCGA
51386 TACAT
1 TACAT
51391 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:51402 original size:33 final size:33
Alignment explanation
Indices: 51344--51410 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
51334 CTATCACTGT
*
51344 TTGTATCGATACATGGTACAGTGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
51377 TTGTATCGATACATGAAG-A-AATGTATCGATACA
1 TTGTATCGATACATG--GTACAATGTATCGATACA
51410 T
1 T
51411 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCGATACA
Found at i:52818 original size:167 final size:167
Alignment explanation
Indices: 52536--52870 Score: 523
Period size: 167 Copynumber: 2.0 Consensus size: 167
52526 CTTTATCAAT
* * *
52536 ATCTATTGTATCAAAAAATTGAAATCCATTACTAGAAGAACTAGCACCTACAGTACCAAAAATAA
1 ATCTACTGTATCAAAAAATTGAAATCCACTACTAGAAGAACTAGCACCTACAGTACAAAAAATAA
* *
52601 GATAAGTACTAGTACCACCAAAAGCTAAAGCTGAGGTACCAAATTGATATAAAGTA-TTCATATA
66 GATAAGTACTAGTACCACCAAAAGCTAAAGCTGAGATACCAAACTGATATAAAGTACTT-ATATA
* *
52665 GGTTGAAGCTGAAGTCGGGTTTAATAGGTTGGCATCTA
130 GGCTGAAGCTGAAGTCGAGTTTAATAGGTTGGCATCTA
*
52703 ATCTACTGTATCAAAAAATTGAAA-CCTACTACTAGAAGAACTAGCACCTACTGTACAAAAAAT-
1 ATCTACTGTATCAAAAAATTGAAATCC-ACTACTAGAAGAACTAGCACCTACAGTACAAAAAATA
* *
52766 AGAATAGGTACTAGTACCACCAAAAGCTGAAGCTGAGATACCAAACTGATATAAAGTACTTATAT
65 AG-ATAAGTACTAGTACCACCAAAAGCTAAAGCTGAGATACCAAACTGATATAAAGTACTTATAT
*
52831 AGGCTGAAGCTGAAGTCGAGTTTTATAGGTTGGCATCTA
129 AGGCTGAAGCTGAAGTCGAGTTTAATAGGTTGGCATCTA
52870 A
1 A
52871 CCTTCTTGTT
Statistics
Matches: 154, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
166 4 0.03
167 148 0.96
168 2 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (167 bp):
ATCTACTGTATCAAAAAATTGAAATCCACTACTAGAAGAACTAGCACCTACAGTACAAAAAATAA
GATAAGTACTAGTACCACCAAAAGCTAAAGCTGAGATACCAAACTGATATAAAGTACTTATATAG
GCTGAAGCTGAAGTCGAGTTTAATAGGTTGGCATCTA
Found at i:54941 original size:79 final size:79
Alignment explanation
Indices: 54851--55175 Score: 289
Period size: 79 Copynumber: 4.1 Consensus size: 79
54841 AATGGGGCTG
* * * *
54851 GAGTATCCCTGATTATGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCTCTTTAG
1 GAGTATCCCTGATTATGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCAA
54916 AAATAACAGGGTTA
66 AAATAACAGGGTTA
* * *
54930 GAGTATCCCTGATTATAGAAAATTGGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCCTGATTATGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCAA
* *
54995 AAATAACGGGGTTG
66 AAATAACAGGGTTA
* * * * * * *** *
55009 GAGCATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGT-G
1 GAGTATCCCTGATTATGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCC-TCA
* *
55073 AAAATAACAAGG-AA
65 AAAATAACAGGGTTA
* * ** * ** * *
55087 GGAGTATCCCCGATTGT-GAGAAATTAATATTTTAGGAAT-AAAGCTGGGGCTGGAGTATCCCCT
1 -GAGTATCCCTGATTATGGA-AAATCGATGTTTTAAAAATAAAATC-GGGGTTGGAGTATCCCCT
* * *
55150 CGAAAATAACGGGGTTC
63 CAAAAATAACAGGGTTA
55167 GAGTATCCC
1 GAGTATCCC
55176 CGATAAAATA
Statistics
Matches: 199, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
78 4 0.02
79 194 0.97
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GAGTATCCCTGATTATGGAAAATCGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCAA
AAATAACAGGGTTA
Found at i:55207 original size:28 final size:28
Alignment explanation
Indices: 55132--55207 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
55122 GAATAAAGCT
* ***
55132 GGGGCTGGAGTATCCCCTCGAAAATAAC
1 GGGGTTGGAGTATCCCCGATAAAATAAC
*
55160 GGGGTTCGAGTATCCCCGATAAAATAAC
1 GGGGTTGGAGTATCCCCGATAAAATAAC
55188 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
55208 TGTGAAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATAAAATAAC
Found at i:55248 original size:107 final size:105
Alignment explanation
Indices: 55052--55456 Score: 256
Period size: 101 Copynumber: 3.9 Consensus size: 105
55042 GAAATAAGGC
* * ** * *
55052 CGGGGTTGGAGTATCCCCG-TGAAAATAACAAGGAAGGAGTATCCCCGATTGTGAGAAATTAATA
1 CGGGGTTCGAGTATCCCCGAT-AAAATAACGAGGTTGGAGTATCCCCGATTGTGA-AAATTGATG
* * *
55116 TTTTAGG-AAT-AAAGCTGGGGCTGGAGTATCCCC-TCGAAAAT
64 TTTT-GGAAATAAAATC-GGAGTTGGAGTATCCCCGTCGAAAAT
* *
55157 AACGGGGTTCGAGTATCCCCGATAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAGATTGGT
1 --CGGGGTTCGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAA-ATTGAT
* *
55222 GTTTTGGAAATAAAATCGGAGTTGGAGTCTCCCCGATTGTGGAAAAT
63 GTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC----GTCGAAAAT
* * ** *
55269 TGGTGTTTTAG-A-----AATAAAAT--CGAGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT
1 CGGGGTTCGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAATTGATGT
* *
55326 TTTGGAAATAAAATCGGAGTTGGAGTATCCCGATTGTGGAAAAT
65 TTTGGAAATAAAATCGGAGTTGGAGTATCCC---CGTCGAAAAT
* * ** * * *
55370 TGGTGTTTTAG-A-----AAT-AAA-ACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT
1 CGGGGTTCGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAATTGATGT
* * *
55427 TTTGAAAATAAAACCGGGGTTGGAGTATCC
65 TTTGGAAATAAAATCGGAGTTGGAGTATCC
55457 TCGAGATGAA
Statistics
Matches: 257, Mismatches: 26, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
100 3 0.01
101 87 0.34
102 61 0.24
103 3 0.01
104 7 0.03
106 4 0.02
107 72 0.28
108 5 0.02
109 1 0.00
110 7 0.03
112 7 0.03
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (105 bp):
CGGGGTTCGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAATTGATGTT
TTGGAAATAAAATCGGAGTTGGAGTATCCCCGTCGAAAAT
Found at i:55255 original size:51 final size:50
Alignment explanation
Indices: 55191--55456 Score: 374
Period size: 51 Copynumber: 5.2 Consensus size: 50
55181 AAATAACGGG
55191 GTTGGAGTATCCCCGATTGTGAAAGATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAA-ATTGGTGTTTTGGAAATAAAATCGGA
* *
55242 GTTGGAGTCTCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATC-GA
1 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTGGAAATAAAATCGGA
*
55292 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
55344 GTTGGAGTAT-CCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *
55394 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTGGAAATAAAATCGGA
55445 GTTGGAGTATCC
1 GTTGGAGTATCC
55457 TCGAGATGAA
Statistics
Matches: 196, Mismatches: 12, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
50 48 0.24
51 142 0.72
52 6 0.03
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:55411 original size:101 final size:101
Alignment explanation
Indices: 55187--55456 Score: 459
Period size: 101 Copynumber: 2.7 Consensus size: 101
55177 GATAAAATAA
* * *
55187 CGGGGTTGGAGTATCCCCGATTGTGAAAGATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTCT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTAT
*
55252 CCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAAT
66 -CCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAAC
*
55289 CGAGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTAT
55354 CCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAAC
66 CCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAAC
* * *
55390 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTAT
55455 CC
66 CC
55457 TCGAGATGAA
Statistics
Matches: 159, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 98 0.62
102 61 0.38
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (101 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTAT
CCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAAC
Found at i:57788 original size:20 final size:19
Alignment explanation
Indices: 57758--57831 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
57748 AAAATGCATG
* *
57758 AATGTGTCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
57778 AATGTAACGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
57798 AATGTATCGATAAAATGCAA
1 AATGTATCGATACAATG-AA
57818 AATGTATCGATACA
1 AATGTATCGATACA
57832 TCTGGGTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:57894 original size:13 final size:13
Alignment explanation
Indices: 57847--57876 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57837 GTAAACCTAG
57847 AATGTACCGATAC
1 AATGTACCGATAC
*
57860 AATGTATCGATAC
1 AATGTACCGATAC
57873 AATG
1 AATG
57877 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
AATGTACCGATAC
Found at i:61189 original size:18 final size:18
Alignment explanation
Indices: 61155--61200 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
61145 AATTAATAAT
*
61155 TAATATTTTAATTTTTAA
1 TAATATTTTAATATTTAA
61173 TAATAATTTTAA-ATTTAA
1 TAAT-ATTTTAATATTTAA
*
61191 TTATATTTTA
1 TAATATTTTA
61201 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATATTTTAATATTTAA
Found at i:61406 original size:3 final size:3
Alignment explanation
Indices: 61398--61423 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61388 AATTTAAAAA
61398 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
61424 AAAAAAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:61593 original size:2 final size:2
Alignment explanation
Indices: 61586--61612 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61576 ATCGTTTTAA
61586 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
61613 GTATTGATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68730 original size:16 final size:17
Alignment explanation
Indices: 68708--68749 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
68698 AATTTTTAAG
68708 ATATTTAAATTTAATT-
1 ATATTTAAATTTAATTA
*
68724 TTATTT-AATTTAATTA
1 ATATTTAAATTTAATTA
68740 ATATTTAAAT
1 ATATTTAAAT
68750 CTGTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 10 0.45
17 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTAAATTTAATTA
Found at i:69083 original size:16 final size:16
Alignment explanation
Indices: 69059--69092 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
69049 TTAAATTTAC
69059 TATTGAAATTAAAAAA
1 TATTGAAATTAAAAAA
*
69075 TATTTAAATTAAAAAA
1 TATTGAAATTAAAAAA
69091 TA
1 TA
69093 AAATTGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TATTGAAATTAAAAAA
Found at i:74949 original size:52 final size:51
Alignment explanation
Indices: 74891--75115 Score: 265
Period size: 52 Copynumber: 4.3 Consensus size: 51
74881 TCAATACTAT
*
74891 AGTGACTTAGTGTCACTTGAA-GTGT-TGATGCCCTGGTGGCGATCAGATTTGG
1 AGTGACTT-GTGTCACTT-AAGGT-TATGATACCCTGGTGGCGATCAGATTTGG
* * ** * *
74943 AATGACTTGTTGTCACTTAAGGTAATGATACATTAGTGGCGATTAGATTTGG
1 AGTGACTTG-TGTCACTTAAGGTTATGATACCCTGGTGGCGATCAGATTTGG
*
74995 AGTGACTTGGTTTCACTTAAGGTTATGATACCCTGGTGGCGATCAGATTTGG
1 AGTGACTT-GTGTCACTTAAGGTTATGATACCCTGGTGGCGATCAGATTTGG
* ** *
75047 AGTGACTTGATGTCACTTAAGGTTGTGATGTCCTGGTGGTGATCAGATTTGG
1 AGTGACTTG-TGTCACTTAAGGTTATGATACCCTGGTGGCGATCAGATTTGG
75099 AGTGACTTGGTGTCACT
1 AGTGACTT-GTGTCACT
75116 AATACCTTGA
Statistics
Matches: 148, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
51 4 0.03
52 142 0.96
53 2 0.01
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (51 bp):
AGTGACTTGTGTCACTTAAGGTTATGATACCCTGGTGGCGATCAGATTTGG
Found at i:75037 original size:104 final size:104
Alignment explanation
Indices: 74891--75115 Score: 294
Period size: 104 Copynumber: 2.2 Consensus size: 104
74881 TCAATACTAT
* * *
74891 AGTGACTTAGTGTCACTTGAAGTGTTGATGCCCTGGTGGCGATCAGATTTGGAATGACTTGTTGT
1 AGTGACTTGGTGTCACTTGAAGTGTTGATACCCTGGTGGCGATCAGATTTGGAATGACTTGATGT
* *
74956 CACTTAAGGTAATGAT-ACATTAGTGGCGATTAGATTTGG
66 CACTTAAGGTAATGATGAC-CTAGTGGCGATCAGATTTGG
* *
74995 AGTGACTTGGTTTCACTT-AAG-GTTATGATACCCTGGTGGCGATCAGATTTGGAGTGACTTGAT
1 AGTGACTTGGTGTCACTTGAAGTG-T-TGATACCCTGGTGGCGATCAGATTTGGAATGACTTGAT
** * * *
75058 GTCACTTAAGGTTGTGATGTCCTGGTGGTGATCAGATTTGG
64 GTCACTTAAGGTAATGATGACCTAGTGGCGATCAGATTTGG
75099 AGTGACTTGGTGTCACT
1 AGTGACTTGGTGTCACT
75116 AATACCTTGA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
102 1 0.01
103 4 0.04
104 99 0.94
105 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (104 bp):
AGTGACTTGGTGTCACTTGAAGTGTTGATACCCTGGTGGCGATCAGATTTGGAATGACTTGATGT
CACTTAAGGTAATGATGACCTAGTGGCGATCAGATTTGG
Found at i:83434 original size:16 final size:16
Alignment explanation
Indices: 83413--83443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83403 CGCACACCAT
*
83413 ATTATTCTTTTGCTAG
1 ATTATTATTTTGCTAG
83429 ATTATTATTTTGCTA
1 ATTATTATTTTGCTA
83444 CTGTTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (16 bp):
ATTATTATTTTGCTAG
Found at i:83957 original size:31 final size:30
Alignment explanation
Indices: 83917--83974 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
83907 AAATTAAAAA
83917 ATAAATTTATTTTTATTTAATTTTTTATTTT
1 ATAAATTTA-TTTTATTTAATTTTTTATTTT
* *
83948 ATAATTTTATTTTATTTTATTTTTTAT
1 ATAAATTTATTTTATTTAATTTTTTAT
83975 ATTTTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (30 bp):
ATAAATTTATTTTATTTAATTTTTTATTTT
Found at i:83959 original size:25 final size:25
Alignment explanation
Indices: 83927--83980 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
83917 ATAAATTTAT
83927 TTTTATTTAATTTT-TTATTTTATAA
1 TTTTATTTAATTTTATT-TTTTATAA
* *
83952 TTTTATTTTATTTTATTTTTTATAT
1 TTTTATTTAATTTTATTTTTTATAA
83977 TTTT
1 TTTT
83981 TAGTAATGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTATTTAATTTTATTTTTTATAA
Found at i:87437 original size:45 final size:45
Alignment explanation
Indices: 87373--87471 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
87363 GAACTTTGTT
* * *
87373 TTTTTAATTAGGTTTTAATTGAGTTTGGGTTTAAGTTCATATAGA
1 TTTTTAATTAGATTTTAATTGAGTTTGAGTTTAAATTCATATAGA
* * *
87418 TTTTTATTTAGATTTTAATTGGGTTTGAGTTTAAATTTATATAGA
1 TTTTTAATTAGATTTTAATTGAGTTTGAGTTTAAATTCATATAGA
87463 TTTTTAATT
1 TTTTTAATT
87472 TGTATTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.01, G:0.16, T:0.56
Consensus pattern (45 bp):
TTTTTAATTAGATTTTAATTGAGTTTGAGTTTAAATTCATATAGA
Found at i:87496 original size:45 final size:45
Alignment explanation
Indices: 87401--87501 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 45
87391 TTGAGTTTGG
* * * *
87401 GTTTAAGTTCATATAGATTTTTATTTAGATTTTAATTGGGTTTGA
1 GTTTAAGTTTATATAGATTTTTATTTAGATATTAAATGGGTTTAA
*
87446 GTTTAAATTTATATAGATTTTTAATTT-G-TATTAAATGGGTTTAA
1 GTTTAAGTTTATATAGATTTTT-ATTTAGATATTAAATGGGTTTAA
*
87490 CTTTTAAGTTTA
1 -GTTTAAGTTTA
87502 ATTTATATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 13 0.28
45 30 0.64
46 4 0.09
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (45 bp):
GTTTAAGTTTATATAGATTTTTATTTAGATATTAAATGGGTTTAA
Found at i:89803 original size:19 final size:18
Alignment explanation
Indices: 89778--89835 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
89768 ATGTATCAAT
89778 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
*
89796 ATCATTGTATTGATACATGG
1 A-CATTGTATCGATACAT-G
89816 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
89835 A
1 A
89836 AACTGGGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 16 0.46
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:89824 original size:20 final size:20
Alignment explanation
Indices: 89779--89834 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
89769 TGTATCAATA
89779 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
*
89798 CATTGTATTGATACATGGA-
1 CATTGTATCGATACATGGAT
89817 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
89835 AAACTGGGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:89903 original size:33 final size:33
Alignment explanation
Indices: 89866--89930 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
89856 TCACTGTTTA
89866 TATCGAAACATGGA-CAAATGTATCGATACATTT
1 TATCGAAACAT-GATCAAATGTATCGATACATTT
* * *
89899 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGAAACATGATCAAATGTATCGATACATT
89931 GCTTATAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TATCGAAACATGATCAAATGTATCGATACATTT
Found at i:97521 original size:13 final size:13
Alignment explanation
Indices: 97503--97527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97493 CATAAAGTGT
97503 TGTATCGATACAA
1 TGTATCGATACAA
97516 TGTATCGATACA
1 TGTATCGATACA
97528 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:97525 original size:33 final size:33
Alignment explanation
Indices: 97483--97549 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
97473 TTCAACGATT
97483 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
97516 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
97549 T
1 T
97550 TTACGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:97679 original size:52 final size:52
Alignment explanation
Indices: 97623--97751 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
97613 CACTGATCTT
*
97623 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
97675 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
97727 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
97752 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:102802 original size:34 final size:33
Alignment explanation
Indices: 102765--103362 Score: 411
Period size: 34 Copynumber: 18.8 Consensus size: 33
102755 ATCTCTTTCC
*
102765 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
102798 CAAAGTCCACAACTCCGTGGCA-C--TCT-TTTT
1 -AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
102828 AAAGCCCACAACTCCGTGGCA-C----TCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
102856 -AAGCCCACAACTCCGTGGCACTCTTTTT-TTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTT
* *
102888 CAAAGTCTACAACTCCGTGGCA-C--TCT-TTTT
1 -AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
102918 AAAGCCCATAACTCCGTGGCACC-----CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
102946 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTT
**
102980 -AAGTCCACAACTTTGTGGCACC-----CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * * *
103007 -AAGCCCATAACTCCATGGCACTATTTTTCCTTCT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTT
103041 -AAGTCCACAACTCCGTGGCACC----T-TTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
103068 -AAG-CCTACAACTCCGTGGCACTCGTTTTCCTTCT
1 AAAGTCC-ACAACTCCGTGGCAC-C-TTTTTCTTTT
*
103102 -AAGTCCACAACTCCGTGGCACCGTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTC-TTTT
*
103135 AAAG-CCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTT
*
103169 -AAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTT--TCTTTT
* * *
103204 AAAGTCCACAACCCCGTGGCAGCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
*
103238 -AAGTCCACGACTCCGTGGCACC---TTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
103267 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* *
103304 AAAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTTCTTTT
* *
103338 -AAGTCCACAACTTCGTGGCATCTTT
1 AAAGTCCACAACTCCGTGGCACCTTT
103363 CACCCTTTTT
Statistics
Matches: 464, Mismatches: 48, Indels: 106
0.75 0.08 0.17
Matches are distributed among these distances:
26 2 0.00
27 82 0.18
28 10 0.02
29 47 0.10
30 11 0.02
31 21 0.05
32 11 0.02
33 69 0.15
34 148 0.32
35 15 0.03
36 43 0.09
37 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (33 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:102889 original size:90 final size:90
Alignment explanation
Indices: 102770--103296 Score: 425
Period size: 90 Copynumber: 5.6 Consensus size: 90
102760 TTTCCAAAGT
*
102770 CCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
1 CCACAACTCCGTGGCACCTTTTT-TTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
102835 ACAACTCCGTGGCAC-TCTTTTAAGC
65 ACAACTCCGTGGCACTTCTTTTAAGC
*
102860 CCACAACTCCGTGGCACTCTTTTTTTTTCAAAGTCTACAACTCCGTGGCACTCTTTTTAAAGCCC
1 CCACAACTCCGTGGCAC-CTTTTTTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
* *
102925 ATAACTCCGTGGCAC-CCTTTTAAGC
65 ACAACTCCGTGGCACTTCTTTTAAGC
** * ** *
102950 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTTGTGGCAC-CCTTTT-AAGCCC
1 CCACAACTCCGTGGCAC-CTTTTTTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
* * * *
103013 ATAACTCCATGGCACTATTTTTCCTTCTAAGT
65 ACAACTCCGTGGCAC-----TT-CTTTTAAGC
*
103045 CCACAACTCCGTGGCACC----TTTTT--AAG-CCTACAACTCCGTGGCACTCGTTTTCCTTCTA
1 CCACAACTCCGTGGCACCTTTTTTTTTCAAAGTCC-ACAACTCCGTGGCACTC--TTT--TT-AA
*
103103 AGTCCACAACTCCGTGGCACCGTTTTCTTTTTAAAG-
60 AGCCCACAACTCCGTGGCA-C---TTC-TTTT-AAGC
** *
103139 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTT
1 CCACAACTCCGTGGCAC-CTTTTTTTTTCAAAGTCCACAACTCCGTGGCACTC---T----TTTT
* * *
103204 AAAGTCCACAACCCCGTGGCAGCTTGTTCCTTTTAAGT
58 AAAGCCCACAACTCCGTGGCA-C---TT-CTTTTAAGC
* * *
103242 CCACGACTCCGTGGCACC--TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCACAACTCCGTGGCACCTTTTTTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTT
103297 CCCTTTTAAA
Statistics
Matches: 364, Mismatches: 39, Indels: 65
0.78 0.08 0.14
Matches are distributed among these distances:
87 2 0.01
88 36 0.10
89 6 0.02
90 127 0.35
91 8 0.02
93 7 0.02
94 25 0.07
95 45 0.12
96 1 0.00
97 1 0.00
99 3 0.01
100 27 0.07
101 20 0.05
102 8 0.02
103 43 0.12
104 3 0.01
106 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (90 bp):
CCACAACTCCGTGGCACCTTTTTTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCA
CAACTCCGTGGCACTTCTTTTAAGC
Found at i:103019 original size:61 final size:62
Alignment explanation
Indices: 102896--103326 Score: 450
Period size: 61 Copynumber: 6.8 Consensus size: 62
102886 TTCAAAGTCT
* * *
102896 ACAACTCCGTGGCACTC--TTT--TT-AAAGCCCATAACTCCGTGGCACCCTTTT-AAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCC
**
102952 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTTGTGGCACCCTTTT-AAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCC
* * * * *
103013 ATAACTCCATGGCACTATTTTTCCTTCTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGCCT
1 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCC
*
103074 ACAACTCCGTGGCACTCGTTTTCCTTCTAAGTCCACAACTCCGTGGCACCGTTTTCTTTTTAAAG
1 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-----C-TTTTAAAG
103139 -CC
60 CCC
103141 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTTAA
1 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA--------CCCTTTTAA
*
103206 AGTCC
58 AGCCC
* * * * *
103211 ACAACCCCGTGGCA-GCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--CTTTT-AAAGCCC
* *
103275 ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCACC
1 ACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACC
103327 TTGTTCCTTT
Statistics
Matches: 318, Mismatches: 29, Indels: 45
0.81 0.07 0.11
Matches are distributed among these distances:
56 17 0.05
58 3 0.01
60 8 0.03
61 123 0.39
62 1 0.00
63 5 0.02
64 19 0.06
65 5 0.02
66 6 0.02
67 69 0.22
68 7 0.02
69 37 0.12
70 16 0.05
75 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (62 bp):
ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCC
Found at i:103310 original size:100 final size:98
Alignment explanation
Indices: 103000--103362 Score: 425
Period size: 100 Copynumber: 3.7 Consensus size: 98
102990 CTTTGTGGCA
* * * * * *
103000 CCCTTTT-AAGCCCATAACTCCATGGCACTATTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-
1 CCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCT
* *
103063 TTTTT-AAGCCTACAACTCCGTGGCACTCGTTTT
65 TTTTTCAAGCCCACAACTCCGTGGCACTCTTTTT
* *
103096 -CCTTCT-AAGTCCACAACTCCGTGGCACCGTT-TTCTTTTTAAAG-CCACAACTCCGTGGCACT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACC-TTGTTCCTTTT-AAGTCCACAACTCCGTGGCAC-
* *
103157 CTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTCTTTTC
63 C-TTTT--TTC-AAGCCCACAACTCCGTGGCACTCTTTTT
* * *
103197 CCCTTTTAAAGTCCACAACCCCGTGGCAGCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
103262 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
66 -TTTTC-AAGCCCACAACTCCGTGGCACTCTTTTT
* * *
103297 CCCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCATCTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
103362 T
66 T
103363 CACCCTTTTT
Statistics
Matches: 228, Mismatches: 25, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
94 23 0.10
95 29 0.13
97 3 0.01
99 3 0.01
100 88 0.39
101 26 0.11
102 13 0.06
103 43 0.19
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (98 bp):
CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
TTTTCAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:103401 original size:32 final size:32
Alignment explanation
Indices: 103364--103507 Score: 166
Period size: 32 Copynumber: 4.5 Consensus size: 32
103354 GGCATCTTTC
103364 ACCCTTTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTTTAAAGCCCACACAAGTCGGTGGCA
* * * *
103396 ACCCTTCTCAAAGCCCACATAAGTTGGTGGCA
1 ACCCTTTTTAAAGCCCACACAAGTCGGTGGCA
* * * * *
103428 ACCCTCTCTAAAGCCTACACAAGTTGGAGGCA
1 ACCCTTTTTAAAGCCCACACAAGTCGGTGGCA
* *
103460 ACCATTCTTTAAAGCCCACACAAGTCGATGGCA
1 ACCCTT-TTTAAAGCCCACACAAGTCGGTGGCA
103493 ACCC-TTTT-AAGCCCA
1 ACCCTTTTTAAAGCCCA
103508 ATATCGCTGG
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
30 7 0.08
31 3 0.03
32 58 0.63
33 24 0.26
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (32 bp):
ACCCTTTTTAAAGCCCACACAAGTCGGTGGCA
Found at i:103558 original size:49 final size:49
Alignment explanation
Indices: 103498--103685 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 49
103488 TGGCAACCCT
* *
103498 TTTAAGCCCAATATCGCTGGTCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * *
103547 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-T-
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
103590 TTTAAGTCCAATATCACTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATC
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATC
* * * *
103645 TTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
103686 TCTTTATCAC
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
43 36 0.33
44 1 0.01
45 1 0.01
49 36 0.33
53 1 0.01
54 1 0.01
55 33 0.30
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (49 bp):
TTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:103778 original size:49 final size:49
Alignment explanation
Indices: 103705--104530 Score: 928
Period size: 49 Copynumber: 17.0 Consensus size: 49
103695 CTTTTCTCAT
* *
103705 CTTCATCTTTAAGTCCAA-AGTCGCTAGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATA-TCGCTGGCCTTGAATCAGCATATTGGCAC
* *
103754 CTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
103803 CTTTGTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC
1 C--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * *
103855 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
103904 C-TC--C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
103947 CTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
103996 CTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 C--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
104048 CTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
104097 CTTTGTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-
1 C--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
104148 ---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * *
104192 ATTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
104240 ---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
104284 CTTTATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * *
104333 CTTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * *
104381 ---C--CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCATAT
1 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC--AC
* * * * * *
104427 TTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 CTT-CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C
* * * *
104478 TTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCA
1 ----CT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
104531 TCTTTATCAC
Statistics
Matches: 671, Mismatches: 63, Indels: 80
0.82 0.08 0.10
Matches are distributed among these distances:
43 153 0.23
44 1 0.00
45 4 0.01
46 2 0.00
47 1 0.00
48 2 0.00
49 292 0.44
50 5 0.01
51 3 0.00
52 168 0.25
55 39 0.06
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:103973 original size:92 final size:93
Alignment explanation
Indices: 103715--104472 Score: 736
Period size: 92 Copynumber: 7.9 Consensus size: 93
103705 CTTCATCTTT
* * * * *
103715 AAGTCCAA-AGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGCCCAATATCGCT
1 AAGTCCAATA-TCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCTTTAAGTCCAATATAGCT
*
103779 GGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
64 GGCCTTGAATCAGCATATTGGCACC--T-TC-TC
* *
103813 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAG
1 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCTTTAAGTCCAATATAG
*
103878 CTGGCCTTGAATCAGCACATTGGCACC-TC-C
62 CTGGCCTTGAATCAGCATATTGGCACCTTCTC
*
103908 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATATAGCTG
*
103973 GCCTTGAATCAGCATATTGGCGCCTTTATCATC
65 GCCTTGAATCAGCATATTGGCACC--T-TC-TC
* * * *
104006 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTG
1 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCTTTAAGTCCAATATAG
*
104071 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
62 CTGGCCTTGAATCAGCATATTGGCACC--T-TC-TC
* * *
104107 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGC
1 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATATAGC
*
104167 TGGCCTTGAATCAGCATATTGGCACATTCTTCTTT
63 TGGCCTTGAATCAGCATATTGGCAC---CTTC-TC
* * * *
104202 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGCTGG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATATAGCTGG
*
104262 CCTTGAATCAGCATATTGGCACCTTTATCTTT
66 CCTTGAATCAGCATATTGGCACC--T-TC-TC
* * *
104294 AAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCTTTAAGTCCAATATAGCTG
*
104359 GCCTTGAATCAGCACATTGGCACCTT-T-
65 GCCTTGAATCAGCATATTGGCACCTTCTC
* * ** * *
104386 AAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCATATTTTCCATCTTTAAGTTCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTT---TCTTTAAGTCCAATATAG
*
104451 CTGGCCTTGAATCAGCACATTG
62 CTGGCCTTGAATCAGCATATTG
104473 ACATCTTTTT
Statistics
Matches: 588, Mismatches: 41, Indels: 62
0.85 0.06 0.09
Matches are distributed among these distances:
89 1 0.00
91 2 0.00
92 238 0.40
93 4 0.01
95 84 0.14
96 4 0.01
97 2 0.00
98 42 0.07
100 1 0.00
101 209 0.36
102 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (93 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCTTCTC
Found at i:104046 original size:193 final size:193
Alignment explanation
Indices: 103715--104472 Score: 853
Period size: 193 Copynumber: 3.9 Consensus size: 193
103705 CTTCATCTTT
* * *
103715 AAGTCCAA-AGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGCCCAATATCGCT
1 AAGTCCAATA-TCGCTGGCCTTGAATCAGCACATTGGCACCTT-TTCTTTAAGTCCAATATCGCT
* * *
103779 GGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAG
64 GGCCTTGAATCAGCATATTGGCGCC-TTATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* * *
103844 CATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC-
128 CACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCT
103907 C
193 C
*
103908 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-TCTTTAAGTCCAATATCGCTG
* *
103973 GCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
65 GCCTTGAATCAGCATATTGGCGCC-TTATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
* * *
104038 ACATTGGCACCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
129 ACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T-T
104103 CATC
191 C-TC
*
104107 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGC
1 ---AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTAAGTCCAATATCGC
* * * *
104167 TGGCCTTGAATCAGCATATTGGC-ACAT-TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
63 TGGCCTTGAATCAGCATATTGGCGCCTTATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* *
104230 CACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
128 CACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T-
*
104289 TCTTT
190 TC-TC
* * * * *
104294 AAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-TTCTTTAAGTCCAATATCGCTG
* *
104359 GCCTTGAATCAGCACATT-G-G-C--A-C--CTTTAAATCCAATATAGCTGGCCTTGAATCAGCA
65 GCCTTGAATCAGCATATTGGCGCCTTATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
* ** * *
104416 TATTGGCATATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
130 CATTGGC--ACCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
104473 ACATCTTTTT
Statistics
Matches: 499, Mismatches: 38, Indels: 56
0.84 0.06 0.09
Matches are distributed among these distances:
184 73 0.15
185 1 0.00
186 2 0.00
187 48 0.10
188 1 0.00
189 2 0.00
190 34 0.07
191 1 0.00
193 253 0.51
194 2 0.00
195 1 0.00
196 41 0.08
197 2 0.00
199 1 0.00
201 1 0.00
202 36 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (193 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTAAGTCCAATATCGCTGG
CCTTGAATCAGCATATTGGCGCCTTATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCTC
Found at i:104338 original size:141 final size:140
Alignment explanation
Indices: 104106--104472 Score: 555
Period size: 141 Copynumber: 2.6 Consensus size: 140
104096 CCTTTGTCAT
*
104106 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATCG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATATCG
*
104166 CTGGCCTTGAATCAGCATATTGGCACATTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
66 CTGGCCTTGAATCAGCATATTGGCACATTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGC
104231 ACATTGGCAC
131 ACATTGGCAC
*
104241 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGTCCAATATC
* *
104306 GCTGGCTTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAG
65 GCTGGCCTTGAATCAGCATATTGGCACATTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAG
104371 CACATTGGCAC
130 CACATTGGCAC
* * *
104382 CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCATATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC--ACTTT--ATCTTTAAGTCCAAT
* * *
104447 GTAGCTGGCCTTGAATCAGCACATTG
62 ATCGCTGGCCTTGAATCAGCATATTG
104473 ACATCTTTTT
Statistics
Matches: 209, Mismatches: 13, Indels: 11
0.90 0.06 0.05
Matches are distributed among these distances:
135 40 0.19
136 1 0.00
141 128 0.61
142 3 0.01
143 1 0.00
144 36 0.17
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (140 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGTCCAATATCG
CTGGCCTTGAATCAGCATATTGGCACATTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGC
ACATTGGCAC
Found at i:104511 original size:55 final size:54
Alignment explanation
Indices: 104390--104729 Score: 208
Period size: 52 Copynumber: 6.1 Consensus size: 54
104380 ACCTTTAAAT
* * * * *
104390 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA-TATTTTC-CATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGACACTTTTTTCTCATCTTTAAGC
* * *
104442 TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGACA-CTTTTTTCTCATCTTTAAGC
* * *
104497 CCAATATCGTTGGCCTTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAA
1 CCAATATCGCTGGCCTTGAATCAGC--A----CA--TTGA-CACTTTT-T--TC-TCATCTTTAA
*
104562 GT
53 GC
* * * * *
104564 CCAATATTGCTGGCCTTGAATCAGCATATTGGCAC---CTTCATCATCTTTAAAAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGACACTTTTTTC-TCATCTTT-AAGC
* * * * * *
104617 CCAATGTTGTTGGCCTTGAATCAGCACATTGGCA--TTTTTCTCATCTTCAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGACACTTTTTTCTCATCTTTAAGC
* * * * * * *
104669 CTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTCTTATCTTTAAAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGACA-CTTTTTTCTCATCTTTAAGC
104724 CCAATA
1 CCAATA
104730 GCGTTGGTCG
Statistics
Matches: 224, Mismatches: 42, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
52 70 0.31
53 40 0.18
54 10 0.04
55 48 0.21
57 1 0.00
58 3 0.01
59 2 0.01
61 3 0.01
63 8 0.04
64 3 0.01
65 1 0.00
66 2 0.01
67 33 0.15
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (54 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGACACTTTTTTCTCATCTTTAAGC
Found at i:104593 original size:67 final size:68
Alignment explanation
Indices: 104485--104611 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 68
104475 ATCTTTTTTC
* * *
104485 TCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
104549 TCT
66 TCT
* * *
104552 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCATCTTT
104612 AAAACCCAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 49 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:105386 original size:13 final size:13
Alignment explanation
Indices: 105368--105392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105358 TTCAATGATT
105368 TGTATCGATACAA
1 TGTATCGATACAA
105381 TGTATCGATACA
1 TGTATCGATACA
105393 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:105472 original size:13 final size:13
Alignment explanation
Indices: 105454--105478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105444 ATTACTCAAA
105454 TGTATCGATACAT
1 TGTATCGATACAT
105467 TGTATCGATACA
1 TGTATCGATACA
105479 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105530 original size:52 final size:52
Alignment explanation
Indices: 105487--105663 Score: 309
Period size: 52 Copynumber: 3.4 Consensus size: 52
105477 CACTGATCTT
* *
105487 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
105539 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
105591 TGTATCGATACATGCAGGCAAATTTGCCGAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
105643 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
105664 TTTTTCATAT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:108755 original size:20 final size:20
Alignment explanation
Indices: 108730--108780 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
108720 TCACTATTTA
108730 TATCGATACATGGA-CAAATG
1 TATCGATACAT-GATCAAATG
* *
108750 TATCGATACATGATGAATTG
1 TATCGATACATGATCAAATG
108770 TATCGATACAT
1 TATCGATACAT
108781 TGTTTATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACATGATCAAATG
Found at i:110130 original size:50 final size:50
Alignment explanation
Indices: 110076--110184 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 50
110066 CACGAGATTG
*
110076 GAGTATCCCCGATTGTGAAAAAT-AGTATTTT-GAAAATAAAATCGGGGTTA
1 GAGTATCCCCGATAGTG-AAAATCAGTATTTTAG-AAATAAAATCGGGGTTA
* *
110126 GAGTATCCTCGATAGTGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTA
1 GAGTATCCCCGATAGTGAAAATCAGTATTTTAGAAATAAAATCGGGGTTA
110176 GAGTATCCC
1 GAGTATCCC
110185 TTCAAAAATC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
49 5 0.09
50 47 0.89
51 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (50 bp):
GAGTATCCCCGATAGTGAAAATCAGTATTTTAGAAATAAAATCGGGGTTA
Found at i:112720 original size:50 final size:51
Alignment explanation
Indices: 112658--112771 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
112648 TACATTGAGA
* *
112658 AATGTATTGATACATCTGGTTAAAACCCAAAATGTATCGATACAAT-AAAG
1 AATGTATTGATACATCTGGGTAAAACCCAAAATGTATCAATACAATGAAAG
* *
112708 AATGTATCGATACATCTGGGTAAAACCCAAAATGTATCAATATAATGAAAG
1 AATGTATTGATACATCTGGGTAAAACCCAAAATGTATCAATACAATGAAAG
112759 -ATGTATTGATACA
1 AATGTATTGATACA
112772 AATTATGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 54 0.93
51 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (51 bp):
AATGTATTGATACATCTGGGTAAAACCCAAAATGTATCAATACAATGAAAG
Found at i:113580 original size:41 final size:41
Alignment explanation
Indices: 113483--113684 Score: 215
Period size: 41 Copynumber: 4.8 Consensus size: 41
113473 AGGATAAAAG
* ** * * * *
113483 AAGGAAATTAAGTGTGTCCTACTCCTTGAGAATAAAGAAGAA
1 AAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAG-GGAA
*
113525 TAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAGGGAA
1 AAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAGGGAA
*
113566 AAGGAAATAAAGTGCATCCTCCTCTTTGAGGACAAAGGGAA
1 AAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAGGGAA
* * * *
113607 AATGAAGTAAAGTGCATCCTACTCTTTGAGGGCAAAAAGGAAA
1 AAGGAAATAAAGTGCATCCTACTCTTTGA-GG-ACAAAGGGAA
* * *
113650 TGAAAGAAATGAAGTGCGTCCTACTCTTTGAGGAC
1 --AAGGAAATAAAGTGCATCCTACTCTTTGAGGAC
113685 TAAAAGGTGC
Statistics
Matches: 136, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
41 68 0.50
42 32 0.24
43 9 0.07
44 2 0.01
45 25 0.18
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (41 bp):
AAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAGGGAA
Found at i:113826 original size:61 final size:63
Alignment explanation
Indices: 113671--113842 Score: 206
Period size: 61 Copynumber: 2.7 Consensus size: 63
113661 AAGTGCGTCC
** *
113671 TACTCTTTGAGGACTAAAAGGTGCCATTAACTTGTGTGGGCTTTAAGAGGAAAAAGGAAAGTATC
1 TACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGG---AAGGAAAGCATC
113736 T
63 T
* ** *
113737 TACTCTTTGGGGACTAAAAGGTATCACCAACTTGTGTGGGCTTTGCA-AGG-A-GAAAGCATCT
1 TACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGAAGGAAAGCATCT
* *
113798 TGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
1 TACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
113843 GAAGGGGAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
61 48 0.52
62 1 0.01
66 42 0.46
67 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (63 bp):
TACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAGGAAAGCATCT
Found at i:114067 original size:41 final size:42
Alignment explanation
Indices: 113942--114124 Score: 160
Period size: 41 Copynumber: 4.4 Consensus size: 42
113932 AGGACTACAC
* * * * * **
113942 CCTACTCTTCGAGTACAAAAAGAAAACAAGAAATAAAATGCGC
1 CCTACTCTTTGAGGACAAAGAGAAAA-AGGAAATAAAGTGCAT
* * **
113985 CCTACTCTTTGGGGAC--A-A-AAAAAGGAAATTAAGTGTGT
1 CCTACTCTTTGAGGACAAAGAGAAAAAGGAAATAAAGTGCAT
114023 CCTACTCTTTGAGGACAAAGAG-AAAAGGAAATAAAGTGCAT
1 CCTACTCTTTGAGGACAAAGAGAAAAAGGAAATAAAGTGCAT
* * *
114064 CCTACTCTTTAAGGACAAAAGGGAAAGGAAGGAAATGAAGTGCAT
1 CCTACTCTTTGAGGAC-AAAGAGAAA--AAGGAAATAAAGTGCAT
*
114109 CCTGCTCTTTGAGGAC
1 CCTACTCTTTGAGGAC
114125 TAAAAGGTGT
Statistics
Matches: 115, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
38 26 0.23
39 4 0.03
40 2 0.02
41 33 0.29
42 5 0.04
43 15 0.13
45 30 0.26
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (42 bp):
CCTACTCTTTGAGGACAAAGAGAAAAAGGAAATAAAGTGCAT
Found at i:114269 original size:61 final size:60
Alignment explanation
Indices: 114111--114399 Score: 296
Period size: 59 Copynumber: 4.7 Consensus size: 60
114101 AAGTGCATCC
* * **
114111 TGCTCTTTGAGGACTAAAAGGTGTCACCAACTTGTGTGGGCTTTAAGAGGAAAAAGGAAAGTGTC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA-AGG----A-GAAAACGTC
114176 T
60 T
* *
114177 TGCTCTTCGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGTAAGGAGAAAACGTCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAGGAGAAAACGTCT
* * * * *
114238 TGCTCTTTAAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTGAAAG-GAAAACGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAAACGTCT
* * * * **
114297 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AATAAAGTGT-T
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAAACGTCT
* * * *
114355 CTACTCCTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTT
1 -TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
114400 AAAAGGAAAA
Statistics
Matches: 195, Mismatches: 25, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
59 98 0.50
60 3 0.02
61 48 0.25
62 1 0.01
66 44 0.23
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (60 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAAACGTCT
Found at i:114320 original size:59 final size:59
Alignment explanation
Indices: 114187--114471 Score: 293
Period size: 59 Copynumber: 4.7 Consensus size: 59
114177 TGCTCTTCGG
* * * * *
114187 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGTAAGGAGAAAACGTCTTGCTCTTTAA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAACGTCCTACTCTTTGA
*
114248 GGACT-AGAAGGTGCCATCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGA
1 GGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGA
** ** * *
114307 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAATAAAGTGTTCTACTCCTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGA
* * * *
114366 GGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA--CGTCCTACTCTTTGA
** * * * * * *
114427 CAATTTAAAGTTGTCGCCAACTTGTGTAGGGCTTTAAAAGGAAAA
1 GGACTGAAAGGTGCCACCAACTTGTGT-GGGCTTTGAAAGGAAAA
114472 TGCATTCCCA
Statistics
Matches: 189, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
59 106 0.56
60 5 0.03
61 61 0.32
62 17 0.09
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (59 bp):
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGA
Found at i:114416 original size:120 final size:121
Alignment explanation
Indices: 114117--114426 Score: 326
Period size: 120 Copynumber: 2.5 Consensus size: 121
114107 ATCCTGCTCT
* * * * *
114117 TTGAGGACTAAAAGGTGTCACCAACTTGTGTGGGCTTTAAGAGGAAAAAGGAAAGTGTCTTGCTC
1 TTGAGGACT-AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGG-AAAA-G---GCGTCCTGCTC
* * * * *
114182 TTCGGGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGTAAGGAGAAAACGTCTTGCTCT
60 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGTAAGAAGAAAACGTCTTACTCC
* * *
114244 TTAAGGACTAGAAGGTGCCA-TCAACTTGTGTGGGCTTTGAAAGGAAAA--CGTCCTACTCTTTG
1 TTGAGGACTA-AAGGTGCCACT-AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
* * **
114306 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA-AATAAAGTGT-TCTACTCC
64 AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGTAAGAAGAAAACGTCT-TACTCC
*
114362 TTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTTGA
1 TTGAGGACT-AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
114427 CAATTTAAAG
Statistics
Matches: 155, Mismatches: 21, Indels: 21
0.79 0.11 0.11
Matches are distributed among these distances:
117 1 0.01
118 52 0.34
119 4 0.03
120 57 0.37
126 5 0.03
127 36 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (121 bp):
TTGAGGACTAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGTAAGAAGAAAACGTCTTACTCC
Found at i:118693 original size:83 final size:83
Alignment explanation
Indices: 118541--118694 Score: 193
Period size: 83 Copynumber: 1.9 Consensus size: 83
118531 GTTTATATAA
* * ** * * * *
118541 AAATTTAACTTGTTAAAACCTAAATGAGGGGATTTGATCCTATTATTAGGGGATTTGGATATCTC
1 AAATATAACTTGTTAAAACCTAAACGAGGGGATTAAATCCTATTATTAAGAGATTTGAATACCTC
118606 AATCATTATAGGCTAAAT
66 AATCATTATAGGCTAAAT
* *
118624 AAATATAACTTGTT-AAACTTAAACGAGGGGATTCAAATCCTCTTATTAAGAGATTTGAATACCT
1 AAATATAACTTGTTAAAACCTAAACGAGGGGATT-AAATCCTATTATTAAGAGATTTGAATACCT
*
118688 TAATCAT
65 CAATCAT
118695 ATTCAAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
82 17 0.29
83 42 0.71
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (83 bp):
AAATATAACTTGTTAAAACCTAAACGAGGGGATTAAATCCTATTATTAAGAGATTTGAATACCTC
AATCATTATAGGCTAAAT
Found at i:125815 original size:54 final size:54
Alignment explanation
Indices: 125726--125833 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
125716 TTTTTCCAAC
* *
125726 AACTTTATATTGATACATAAAGCAAAGTATTGATACATTACTTAAAAAACTAAT
1 AACTTTATATTGATACATAAAGCAAAGCATCGATACATTACTTAAAAAACTAAT
* * * *
125780 AACTTTGTATTGATACATAAAGCCAGGCATCGATACATTTCTTAAAAAACTAAT
1 AACTTTATATTGATACATAAAGCAAAGCATCGATACATTACTTAAAAAACTAAT
125834 TATTGTGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (54 bp):
AACTTTATATTGATACATAAAGCAAAGCATCGATACATTACTTAAAAAACTAAT
Found at i:126011 original size:20 final size:20
Alignment explanation
Indices: 125982--126031 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
125972 TCACTTAATG
*
125982 TATCGTTACATTGT-ACATTA
1 TATCGATACATTGTGAC-TTA
* *
126002 TATCGATACATTTTGACTTG
1 TATCGATACATTGTGACTTA
126022 TATCGATACA
1 TATCGATACA
126032 AATGAGGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTGTGACTTA
Found at i:126105 original size:112 final size:113
Alignment explanation
Indices: 125866--126081 Score: 267
Period size: 113 Copynumber: 1.9 Consensus size: 113
125856 ACATTTAGGG
** ** *
125866 ATGTATCGATATGTTGTGTATTGTATCGATACATTTTCATGTGTATCGATACAAATGAGAGTTTC
1 ATGTATCGATACATTGTACATTATATCGATACATTTTCATGTGTATCGATACAAATGAGAGTTTC
* * * *
125931 AAGATTTCTTTAGCTATTGCCAACCAGATGTATCGATACTTTCACTTA
66 AAGACTTCTTTAGCTACTACCAACCAGATGTATCGATAATTTCACTTA
* * *
125979 ATGTATCGTTACATTGTACATTATATCGATACATTTTGACT-TGTATCGATACAAATGAGGGTTT
1 ATGTATCGATACATTGTACATTATATCGATACATTTTCA-TGTGTATCGATACAAATGAGAGTTT
* *
126043 -TAGCACTT-TTTAGCTACTACCAACCATATGTATCGATAA
65 CAAG-ACTTCTTTAGCTACTACCAACCAGATGTATCGATAA
126082 ATTTATATGA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
112 29 0.33
113 57 0.66
114 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (113 bp):
ATGTATCGATACATTGTACATTATATCGATACATTTTCATGTGTATCGATACAAATGAGAGTTTC
AAGACTTCTTTAGCTACTACCAACCAGATGTATCGATAATTTCACTTA
Found at i:128744 original size:20 final size:20
Alignment explanation
Indices: 128719--128775 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
128709 GAAACCCAAA
128719 TGTATCAATACATTATT-CAT
1 TGTATCAATACATT-TTGCAT
128739 TGTATCAATACATTTTGCAT
1 TGTATCAATACATTTTGCAT
* *
128759 TATATCAATATATTTTG
1 TGTATCAATACATTTTG
128776 GAAAAACCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (20 bp):
TGTATCAATACATTTTGCAT
Found at i:133612 original size:81 final size:81
Alignment explanation
Indices: 133519--133740 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 81
133509 ATTTTTACCT
* * * *
133519 TTTTTCCTTCCAAAAGCATCAAATTTTTAACCATTGGGGATACTCCAACCCCATCATTTTTCAGG
1 TTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTTTCAGG
* * *
133584 AGATACTCCAATCTTA
66 AGATAATCCAACCATA
* * * ** * *
133600 TTTTTACTTCCAAGA-TATCGAATTTTTCACCGTCGAAGATACTCTAACCCCATCATTTTTTAGG
1 TTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTTTCAGG
* * *
133664 GGATAATCTAACCATG
66 AGATAATCCAACCATA
* * *
133680 TTTTTACTTCCAAAAGCATCGAACTTTTCACCATCGGGAATACTCCAACCCCATTATTTTT
1 TTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTTT
133741 GAGGGTATAC
Statistics
Matches: 114, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
80 64 0.56
81 50 0.44
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (81 bp):
TTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGGATACTCCAACCCCATCATTTTTCAGG
AGATAATCCAACCATA
Found at i:133765 original size:81 final size:80
Alignment explanation
Indices: 133518--133765 Score: 236
Period size: 80 Copynumber: 3.1 Consensus size: 80
133508 AATTTTTACC
* * * * *
133518 TTTTTTCCTTCCAAAAGCATCAAATTTTTAACCATTGGGGATACTCCAACCCCATCATTTTTCAG
1 TTTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGAATACTCCAACCCCATCATTTTTCAG
* * *
133583 GAGATACTCCAA-TCT
66 G-GATACTCTAACCCA
* * * * * *
133598 TATTTTTACTTCCAAGA-TATCGAATTTTTCACCGTC-GAAGATACTCTAACCCCATCATTTTTT
1 T-TTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGA-ATACTCCAACCCCATCATTTTTC
*
133661 AGGGGATAATCTAA-CCA
64 A-GGGATACTCTAACCCA
* * *
133678 TGTTTTTACTTCCAAAAGCATCGAACTTTTCACCATCGGGAATACTCCAACCCCATTATTTTTGA
1 T-TTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGAATACTCCAACCCCATCATTTTTCA
133743 GGGTATACT-TAACCCCA
65 GGG-ATACTCTAA-CCCA
133760 TTTTTT
1 TTTTTT
133766 TTCAAAATAT
Statistics
Matches: 135, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.01
80 67 0.50
81 61 0.45
82 6 0.04
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (80 bp):
TTTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGAATACTCCAACCCCATCATTTTTCAG
GGATACTCTAACCCA
Found at i:136619 original size:17 final size:18
Alignment explanation
Indices: 136581--136627 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
136571 GAGATATTGG
136581 ATTAAAAAATTAGTCTTT
1 ATTAAAAAATTAGTCTTT
136599 -TTAAAAAATT-GAT-TTT
1 ATTAAAAAATTAG-TCTTT
136615 ATTAAAAATATTA
1 ATTAAAAA-ATTA
136628 ATAAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.16
17 18 0.72
18 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
ATTAAAAAATTAGTCTTT
Found at i:140773 original size:11 final size:10
Alignment explanation
Indices: 140742--140774 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
140732 ATTATTATTT
140742 TATTTTTATA
1 TATTTTTATA
140752 TATTTTT-TA
1 TATTTTTATA
140761 TATTTTTAGTA
1 TATTTTTA-TA
140772 TAT
1 TAT
140775 ATATTAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 7 0.33
11 5 0.24
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TATTTTTATA
Found at i:141453 original size:28 final size:27
Alignment explanation
Indices: 141397--141458 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
141387 TTTTATTTTC
*
141397 ATCCACAACTTTAAAAATTATATATTT
1 ATCCATAACTTTAAAAATTATATATTT
* * *
141424 ATTCATAACTTTTAAAATTATATTTATT
1 ATCCATAACTTTAAAAATTATATAT-TT
141452 ATCCATA
1 ATCCATA
141459 TTCTATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (27 bp):
ATCCATAACTTTAAAAATTATATATTT
Found at i:141468 original size:29 final size:27
Alignment explanation
Indices: 141397--141470 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
141387 TTTTATTTTC
*
141397 ATCCACAACT-TTAAAAATTATATATTT
1 ATCCATAACTATT-AAAATTATATATTT
* * *
141424 ATTCATAACTTTTAAAATTATATTTATT
1 ATCCATAACTATTAAAATTATATAT-TT
*
141452 ATCCATATTCTATTAAAAT
1 ATCCATA-ACTATTAAAAT
141471 ATTTCACAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 19 0.50
28 10 0.26
29 9 0.24
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (27 bp):
ATCCATAACTATTAAAATTATATATTT
Found at i:144163 original size:23 final size:23
Alignment explanation
Indices: 144121--144204 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 23
144111 AAAAAAAAAG
*
144121 TTTAAT-TTAATATAGT-AATTAA
1 TTTAATATTAATAT-TTAAATTAA
* *
144143 TTTAATATTAATTTTTAAATTTAT
1 TTTAATATTAATATTTAAA-TTAA
**
144167 TTTAA-ATTTCTATTTAAATTATA
1 TTTAATATTAATATTTAAATTA-A
144190 TTT-ATATTAAATATT
1 TTTAATATT-AATATT
144205 ATTTATTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
22 11 0.23
23 24 0.51
24 12 0.26
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (23 bp):
TTTAATATTAATATTTAAATTAA
Found at i:145593 original size:2 final size:2
Alignment explanation
Indices: 145588--145620 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
145578 CATTCTGGTA
145588 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
145621 TATTGTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.