Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167900.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_166, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60120
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Found at i:3565 original size:239 final size:235
Alignment explanation
Indices: 3276--3808 Score: 584
Period size: 235 Copynumber: 2.3 Consensus size: 235
3266 TATTTACATT
* * * *
3276 AATAA-TATT-ATTAAAATTTTATGTTAC-AAATGTATTTATTTACATTATAATAATATTTTCTT
1 AATAATTATTAATTAAAATTTTATGTTACTTACT-TAATTATTTACATTATAATAATATTTTCGT
* *
3338 ACT-ATTATTCTTACTTTTCATTACGTTTAGAATTATTATAACT-TTTTCTTAATGTGTGTTACG
65 A-TAATTATT-TTACTTTTCATTACGTTTAGAATTATTATAACTATTTT-ATAATGT-T-TTACA
* * ** ** *
3401 ACACTTT-TTATTTATTTCACATCAAATCATACGAATTTTATGATTTTTTTTCACTTGTTTACGT
125 ACA-TTTCTTATCTATTTCACAACAAATCATAAAAATTTTAT-AAATTTTTTCACTTGTTTACAT
** * *
3465 TACC-ATTAGTTTTTTAGCTTTTAGTTATTTTGT-TTATATA-TTTACGAA
188 TACCTATT--TTTTTTAAATTTTAGCTATTTT-TCTTATATATTTTACAAA
* *
3513 AATAATTATTAATTAAAATTTTATGTTACTTACTTAATTATTTACGTTATAATAATATATTCGTA
1 AATAATTATTAATTAAAATTTTATGTTACTTACTTAATTATTTACATTATAATAATATTTTCGTA
* * *
3578 TAATTGTTTTACTTTTTATTACGTTTAGAATTGTTATAACTATTTTATAATGTTTTACAACATTT
66 TAATTATTTTACTTTTCATTACGTTTAGAATTATTATAACTATTTTATAATGTTTTACAACATTT
* * *
3643 CTTATCTATTTTACAACAAATGATAAAAATTTTATAAATTTTTTCACTTGTTTATATTACCTATT
131 CTTATCTATTTCACAACAAATCATAAAAATTTTATAAATTTTTTCACTTGTTTACATTACCTATT
*
3708 TTTTTTAAATTTTAGCTATTTTTCTTATATATTTTATAAA
196 TTTTTTAAATTTTAGCTATTTTTCTTATATATTTTACAAA
* * * * * *
3748 AATAATAATCAATTAAAAGTTTAGGTT-GTCTACTTAATTATTTA-TTGTATAATAATATTTT
1 AATAATTATTAATTAAAATTTTATGTTACT-TACTTAATTATTTACAT-TATAATAATATTTT
3809 TTGACATTTA
Statistics
Matches: 252, Mismatches: 33, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
233 1 0.00
234 28 0.11
235 81 0.32
236 38 0.15
237 6 0.02
238 42 0.17
239 54 0.21
240 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (235 bp):
AATAATTATTAATTAAAATTTTATGTTACTTACTTAATTATTTACATTATAATAATATTTTCGTA
TAATTATTTTACTTTTCATTACGTTTAGAATTATTATAACTATTTTATAATGTTTTACAACATTT
CTTATCTATTTCACAACAAATCATAAAAATTTTATAAATTTTTTCACTTGTTTACATTACCTATT
TTTTTTAAATTTTAGCTATTTTTCTTATATATTTTACAAA
Found at i:4132 original size:16 final size:16
Alignment explanation
Indices: 4107--4140 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4097 AGCTTTTACA
4107 TTACTTATCG-TTTGT
1 TTACTTATCGATTTGT
4122 TTACATTATCGATTTGT
1 TTAC-TTATCGATTTGT
4139 TT
1 TT
4141 TTCAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (16 bp):
TTACTTATCGATTTGT
Found at i:7452 original size:12 final size:12
Alignment explanation
Indices: 7437--7476 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
7427 AAATTTATTT
7437 AATTATATTAAA
1 AATTATATTAAA
7449 AATTATATT-AA
1 AATTATATTAAA
* *
7460 AATAATATCAAA
1 AATTATATTAAA
7472 AATTA
1 AATTA
7477 AAAAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTATATTAAA
Found at i:8622 original size:7 final size:7
Alignment explanation
Indices: 8610--8692 Score: 62
Period size: 7 Copynumber: 11.7 Consensus size: 7
8600 ACAAGTTCTC
8610 ATTTTTT
1 ATTTTTT
*
8617 ATTTTTG
1 ATTTTTT
8624 ATTTTTT
1 ATTTTTT
8631 GATTTTTT
1 -ATTTTTT
*
8639 GATTTTTG
1 -ATTTTTT
*
8647 A-TTTTG
1 ATTTTTT
*
8653 ATTTTTG
1 ATTTTTT
*
8660 ATTTTCT
1 ATTTTTT
8667 ATTATTTT
1 ATT-TTTT
*
8675 GTTTTTT
1 ATTTTTT
*
8682 -TTTTCT
1 ATTTTTT
8688 ATTTT
1 ATTTT
8693 AGTATTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
6 11 0.17
7 34 0.53
8 19 0.30
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:8629 original size:8 final size:8
Alignment explanation
Indices: 8610--8681 Score: 70
Period size: 8 Copynumber: 9.9 Consensus size: 8
8600 ACAAGTTCTC
8610 ATTTTTT-
1 ATTTTTTG
8617 A-TTTTTG
1 ATTTTTTG
8624 ATTTTTTG
1 ATTTTTTG
8632 ATTTTTTG
1 ATTTTTTG
8640 A-TTTTTG
1 ATTTTTTG
8647 A--TTTTG
1 ATTTTTTG
8653 A-TTTTTG
1 ATTTTTTG
*
8660 ATTTTCT-
1 ATTTTTTG
8667 ATTATTTTG
1 ATT-TTTTG
8676 -TTTTTT
1 ATTTTTT
8682 TTTTCTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
6 11 0.19
7 22 0.39
8 24 0.42
ACGTcount: A:0.14, C:0.01, G:0.10, T:0.75
Consensus pattern (8 bp):
ATTTTTTG
Found at i:8653 original size:13 final size:13
Alignment explanation
Indices: 8619--8664 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 13
8609 CATTTTTTAT
8619 TTTTGATTTTTTGA
1 TTTTGA-TTTTTGA
8633 TTTTTTGATTTTTGA
1 --TTTTGATTTTTGA
8648 TTTTGATTTTTGA
1 TTTTGATTTTTGA
8661 TTTT
1 TTTT
8665 CTATTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.57
15 7 0.23
16 6 0.20
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (13 bp):
TTTTGATTTTTGA
Found at i:8659 original size:36 final size:36
Alignment explanation
Indices: 8612--8681 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
8602 AAGTTCTCAT
* *
8612 TTTTTATTTTTGATTTTTTGATT-TTTTGATTTTTGA
1 TTTTGATTTTTGATTTTCT-ATTATTTTGATTTTTGA
*
8648 TTTTGATTTTTGATTTTCTATTATTTTGTTTTTT
1 TTTTGATTTTTGATTTTCTATTATTTTGATTTTT
8682 TTTTCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.13, C:0.01, G:0.10, T:0.76
Consensus pattern (36 bp):
TTTTGATTTTTGATTTTCTATTATTTTGATTTTTGA
Found at i:8680 original size:6 final size:7
Alignment explanation
Indices: 8610--8664 Score: 76
Period size: 7 Copynumber: 7.7 Consensus size: 7
8600 ACAAGTTCTC
*
8610 ATTTTTT
1 ATTTTTG
8617 ATTTTTG
1 ATTTTTG
8624 ATTTTTTG
1 A-TTTTTG
8632 ATTTTTTG
1 A-TTTTTG
8640 ATTTTTG
1 ATTTTTG
8647 A-TTTTG
1 ATTTTTG
8653 ATTTTTG
1 ATTTTTG
8660 ATTTT
1 ATTTT
8665 CTATTATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 6 0.13
7 24 0.53
8 15 0.33
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.75
Consensus pattern (7 bp):
ATTTTTG
Found at i:8805 original size:24 final size:24
Alignment explanation
Indices: 8773--8881 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
8763 AGGATTTTTA
*
8773 TTATTATATTTATTTGCATAATTT
1 TTATTATATTTATTTACATAATTT
*
8797 TTATTATATTTATTTACA-AGATAT
1 TTATTATATTTATTTACATA-ATTT
* *
8821 TT-TTATATGATTACTTACATGATTT
1 TTATTATAT--TTATTTACATAATTT
*
8846 TTATTATATTTATTTACATGATTT
1 TTATTATATTTATTTACATAATTT
*
8870 ATTATGATATTT
1 -TTATTATATTT
8882 TTGCATGATA
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
23 7 0.10
24 36 0.50
25 23 0.32
26 6 0.08
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATTATATTTATTTACATAATTT
Found at i:8838 original size:25 final size:25
Alignment explanation
Indices: 8793--8881 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
8783 TATTTGCATA
*
8793 ATTTTTATTATATTTATTTACAAGAT
1 ATTTTTA-TATATTTACTTACAAGAT
*
8819 ATTTTTATATGA-TTACTTACATG--
1 ATTTTTATAT-ATTTACTTACAAGAT
* *
8842 ATTTTTATTATATTTATTTACATGAT
1 ATTTTTA-TATATTTACTTACAAGAT
*
8868 -TTATTATGATATTT
1 ATTTTTAT-ATATTT
8882 TTGCATGATA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
23 8 0.15
24 14 0.26
25 23 0.43
26 8 0.15
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (25 bp):
ATTTTTATATATTTACTTACAAGAT
Found at i:8895 original size:49 final size:49
Alignment explanation
Indices: 8769--8937 Score: 150
Period size: 49 Copynumber: 3.4 Consensus size: 49
8759 TGGTAGGATT
* *
8769 TTTATTATTATATTTATTTGCAT-AATTTTTATTATATTTATTTACAAGA
1 TTTATTATGATA-TTATTTGCATGAATTTTTATTATATTTATTTACATGA
* * *
8818 TATTTTTAT-ATGATTACTTACATG-ATTTTTATTATATTTATTTACATGA
1 T-TTATTATGAT-ATTATTTGCATGAATTTTTATTATATTTATTTACATGA
* * *
8867 TTTATTATGATATT-TTTGCATGATATTTTGCATGGATTTTATTTATTTGCATTA
1 TTTATTATGATATTATTTGCATGA-ATTTT---T--ATTATATTTATTTACATGA
8921 TTTATTATGAT-TTATTT
1 TTTATTATGATATTATTT
8938 TTTGTATGAT
Statistics
Matches: 98, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
47 6 0.06
48 9 0.09
49 43 0.44
50 7 0.07
52 1 0.01
53 2 0.02
54 30 0.31
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (49 bp):
TTTATTATGATATTATTTGCATGAATTTTTATTATATTTATTTACATGA
Found at i:8961 original size:54 final size:54
Alignment explanation
Indices: 8852--8956 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
8842 ATTTTTATTA
*
8852 TATTTATTTACATGATTTATTATGATATTTTTGCATGATATTTTGCATGGATTT
1 TATTTATTTACATGATTTATTATGATATTTTTGCATGATACTTTGCATGGATTT
* * *
8906 TATTTATTTGCATTATTTATTATGATTTATTTTTTGTATGAT-CTTTGCATG
1 TATTTATTTACATGATTTATTATGA--TA-TTTTTGCATGATACTTTGCATG
8957 TTTTAATCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 23 0.52
56 10 0.23
57 11 0.25
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (54 bp):
TATTTATTTACATGATTTATTATGATATTTTTGCATGATACTTTGCATGGATTT
Found at i:9020 original size:25 final size:25
Alignment explanation
Indices: 8965--9013 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
8955 TGTTTTAATC
8965 ATGATATTATTGCATGATATTTTTT
1 ATGATATTATTGCATGATATTTTTT
8990 ATGATATT-TTG-ATAGA-ATTTTTT
1 ATGATATTATTGCAT-GATATTTTTT
9013 A
1 A
9014 AATGATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.43
24 5 0.22
25 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (25 bp):
ATGATATTATTGCATGATATTTTTT
Found at i:9656 original size:45 final size:45
Alignment explanation
Indices: 9583--9681 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
9573 ATGTAATTAT
* * *
9583 TTATGA-TTTTTTGTGTGCACTAACCTATTTATTTATTTTGTAGC
1 TTATGATTTTTTTATGTGCACTAACCTATTTACTTATTTTGTAGA
** * *
9627 TTATGATTTTTTTATGTTTACTAATCTATTTGCTTATTTTGTAGA
1 TTATGATTTTTTTATGTGCACTAACCTATTTACTTATTTTGTAGA
*
9672 TTTTGATTTT
1 TTATGATTTT
9682 ACATGTGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 6 0.13
45 40 0.87
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.60
Consensus pattern (45 bp):
TTATGATTTTTTTATGTGCACTAACCTATTTACTTATTTTGTAGA
Found at i:14862 original size:20 final size:20
Alignment explanation
Indices: 14837--14875 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14827 CACTTCATGA
*
14837 ATGCATCATATTAAGAACAC
1 ATGCATCATATTAAAAACAC
14857 ATGCATCATATTAAAAACA
1 ATGCATCATATTAAAAACA
14876 TTGCATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.26
Consensus pattern (20 bp):
ATGCATCATATTAAAAACAC
Found at i:15295 original size:41 final size:39
Alignment explanation
Indices: 15202--15382 Score: 149
Period size: 39 Copynumber: 4.5 Consensus size: 39
15192 AGATATCCAT
* ** * *
15202 TTTATTTTTACAGAGTTTTGAAGCC-CTGATGATGGAG-C
1 TTTATTTTT-CAAAGTTTCAAAGCCTCTGGTGAGGGAGAC
15240 ATTTATTTTTCAAAGTTTCAAAGCCTCTGGTGAGGGAGAAC
1 -TTTATTTTTCAAAGTTTCAAAGCCTCTGGTGAGGGAG-AC
* *
15281 TTTAAATTTTCAAAGTTT-ATAAGCC-CTAGT-AGAGGAG-C
1 TTT-ATTTTTCAAAGTTTCA-AAGCCTCTGGTGAG-GGAGAC
*
15319 GTTTATTTTTCAAAAGTTTCAAAACCTCTGGTGAAGGGAGCAC
1 -TTTATTTTTC-AAAGTTTCAAAGCCTCTGGTG-AGGGAG-AC
*
15362 TTTATTTTTGAAAGTTTCAAA
1 TTTATTTTTCAAAGTTTCAAA
15383 ACCTTTATTT
Statistics
Matches: 117, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
38 19 0.16
39 35 0.30
40 17 0.15
41 34 0.29
42 11 0.09
43 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTATTTTTCAAAGTTTCAAAGCCTCTGGTGAGGGAGAC
Found at i:15383 original size:41 final size:40
Alignment explanation
Indices: 15235--15386 Score: 161
Period size: 41 Copynumber: 3.8 Consensus size: 40
15225 CCCTGATGAT
*
15235 GGAGCA-TTTATTTTTCAAAGTTTCAAAGCCTCTGGTGAG
1 GGAGCACTTTATTTTTCAAAGTTTCAAAACCTCTGGTGAG
* * * *
15274 GGAGAACTTTAAATTTTCAAAGTTT-ATAAGCC-CTAGT-AG
1 GGAGCACTTT-ATTTTTCAAAGTTTCA-AAACCTCTGGTGAG
*
15313 AGGAGC-GTTTATTTTTCAAAAGTTTCAAAACCTCTGGTGAAG
1 -GGAGCACTTTATTTTTC-AAAGTTTCAAAACCTCTGGTG-AG
*
15355 GGAGCACTTTATTTTTGAAAGTTTCAAAACCT
1 GGAGCACTTTATTTTTCAAAGTTTCAAAACCT
15387 TTATTTAGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
38 6 0.06
39 21 0.23
40 17 0.18
41 38 0.41
42 11 0.12
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (40 bp):
GGAGCACTTTATTTTTCAAAGTTTCAAAACCTCTGGTGAG
Found at i:19910 original size:2 final size:2
Alignment explanation
Indices: 19899--19934 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
19889 ATCTCTAATT
19899 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19935 GGATGTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26720 original size:22 final size:22
Alignment explanation
Indices: 26675--26721 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
26665 TTTATTCTAA
* *
26675 TTAAATGTAAGTTAATATTATT
1 TTAAATATAAGTTAACATTATT
*
26697 TTAAATATAAGTTTAACATTTTT
1 TTAAATATAAG-TTAACATTATT
26720 TT
1 TT
26722 TTGGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
TTAAATATAAGTTAACATTATT
Found at i:26872 original size:21 final size:21
Alignment explanation
Indices: 26826--26872 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
26816 AAGCTAGGTG
*
26826 ATATT-GTTATTATAGTGATA
1 ATATTAGTTATTATAATGATA
* * *
26846 AGATTAGTTATTATAATTATT
1 ATATTAGTTATTATAATGATA
26867 ATATTA
1 ATATTA
26873 AAATTAGAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (21 bp):
ATATTAGTTATTATAATGATA
Found at i:28776 original size:32 final size:32
Alignment explanation
Indices: 28740--28800 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
28730 TATTTTTTGT
* *
28740 TTTATTTTTTATTTTCATTTTCTAGAAAAGTC
1 TTTATTTTCTATTTTCATTTTCTAAAAAAGTC
*
28772 TTTATTTTCTATTTTTATTTTCTAAAAAA
1 TTTATTTTCTATTTTCATTTTCTAAAAAA
28801 TGTATTTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (32 bp):
TTTATTTTCTATTTTCATTTTCTAAAAAAGTC
Found at i:38489 original size:61 final size:62
Alignment explanation
Indices: 38381--38509 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 62
38371 TAATATTTGA
* * *
38381 ATTTTAGTTTATTAAATTTTATATATTTCATAATTCTGTCATATATGGTGAGAATTTATGAG
1 ATTTTAATTTACTAAATTTTATATATTTCATAATTCTATCATATATGGTGAGAATTTATGAG
* * * * * *
38443 -TTTTAATTTACTAAGTTTTATATATTTTATAATTTTATTATTTATGGTGAGAATTTGTGAG
1 ATTTTAATTTACTAAATTTTATATATTTCATAATTCTATCATATATGGTGAGAATTTATGAG
38504 ATTTTA
1 ATTTTA
38510 CTAGATAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 52 0.91
62 5 0.09
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (62 bp):
ATTTTAATTTACTAAATTTTATATATTTCATAATTCTATCATATATGGTGAGAATTTATGAG
Found at i:39738 original size:21 final size:19
Alignment explanation
Indices: 39723--39761 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
39713 TAAATTTAAG
39723 GGTAAAATTAAAAAATAATTA
1 GGTAAAATTAAAAAAT--TTA
*
39744 GTTAAAATTAAAAAATTT
1 GGTAAAATTAAAAAATTT
39762 TGAGAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
21 15 0.88
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
GGTAAAATTAAAAAATTTA
Found at i:39769 original size:27 final size:26
Alignment explanation
Indices: 39739--39793 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
39729 ATTAAAAAAT
*
39739 AATTAGTTAAAATTAAAAAATTTTGAG
1 AATTAATTAAAATTAAAAAA-TTTGAG
***
39766 AATTAATTTTGATTAAAAAATTTGAG
1 AATTAATTAAAATTAAAAAATTTGAG
39792 AA
1 AA
39794 GAATTTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (26 bp):
AATTAATTAAAATTAAAAAATTTGAG
Found at i:42253 original size:14 final size:14
Alignment explanation
Indices: 42236--42269 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
42226 TTTAAAATTT
42236 AAAATTCAATAAAC
1 AAAATTCAATAAAC
* *
42250 AAAATTGAATAAAT
1 AAAATTCAATAAAC
42264 AAAATT
1 AAAATT
42270 TGATCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAATTCAATAAAC
Found at i:42626 original size:20 final size:20
Alignment explanation
Indices: 42601--42640 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
42591 ATAGTTTTCC
42601 TTTTTTTTTTTTTTTAAAAA
1 TTTTTTTTTTTTTTTAAAAA
42621 TTTTTTTTTTTTTTTAAAAA
1 TTTTTTTTTTTTTTTAAAAA
42641 AAAAAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTAAAAA
Found at i:45372 original size:60 final size:59
Alignment explanation
Indices: 45240--45518 Score: 395
Period size: 59 Copynumber: 4.8 Consensus size: 59
45230 TCTTGTGTAG
* *
45240 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTAG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTTTAA
* * * **
45297 GTAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTT-ATTTTTAA
* ** *
45357 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTGTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTTTAA
* *
45416 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTTTAA
45475 GGAAAATTGATACTTTCAACTTTTTC-CTAAAAATA-TTTTTTTGA
1 GGAAAATTGATACTTTCAACTTTTTCTC-AAAAATACTTTTTTTGA
45519 TTTTTATTTA
Statistics
Matches: 199, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
57 33 0.17
58 17 0.09
59 99 0.50
60 50 0.25
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTTCTCAAAAATACTTTTTTTGAAAATTTATTTTTAA
Found at i:45427 original size:119 final size:117
Alignment explanation
Indices: 45240--45514 Score: 405
Period size: 119 Copynumber: 2.4 Consensus size: 117
45230 TCTTGTGTAG
* *
45240 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTAGAAATTTATTTTTAAGTAAAAT
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTGAGAAATTTATTTTTAAGGAAAAT
* * *
45304 TGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
66 TGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTT-ATTTCCAA
*
45357 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTGTTTTTGA-AAATTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAA---TATTTTTGAGAAATTTATTTTTAAGGAA
* **
45420 AATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTTATTTCCAA
45475 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTT
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTT
45515 TTGATTTTTA
Statistics
Matches: 143, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
115 6 0.04
116 6 0.04
117 26 0.18
118 31 0.22
119 67 0.47
120 7 0.05
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTGAGAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAAATTTATTTCCAA
Found at i:45581 original size:19 final size:19
Alignment explanation
Indices: 45554--45612 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
45544 AATAGAAGTG
*
45554 AAAATAAATAAAGATAAGA
1 AAAAAAAATAAAGATAAGA
*
45573 AAAAAAAATAAAGAAAAGTA
1 AAAAAAAATAAAGATAAG-A
*
45593 AAACAAAAATAAAAATAAGA
1 AAA-AAAAATAAAGATAAGA
45613 TAAAGATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.47
20 5 0.15
21 13 0.38
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (19 bp):
AAAAAAAATAAAGATAAGA
Found at i:45617 original size:27 final size:27
Alignment explanation
Indices: 45572--45623 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
45562 TAAAGATAAG
45572 AAAAAAAAATAAAGAAAAG-TAAAACA
1 AAAAAAAAATAAAGAAAAGATAAAACA
45598 AAAATAAAAAT-AAGATAAAGATAAAA
1 AAAA-AAAAATAAAGA-AAAGATAAAA
45624 AATATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.12
Consensus pattern (27 bp):
AAAAAAAAATAAAGAAAAGATAAAACA
Found at i:45632 original size:27 final size:25
Alignment explanation
Indices: 45554--45625 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
45544 AATAGAAGTG
*
45554 AAAATAA-ATAAAGATAAGAAAA-A
1 AAAATAAGATAAAGATAAAAAAATA
*
45577 AAAATAAAGA-AAAGTAAAACAAAAATA
1 AAAAT-AAGATAAAG-ATAA-AAAAATA
45604 AAAATAAGATAAAGATAAAAAA
1 AAAATAAGATAAAGATAAAAAA
45626 TATTAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 5 0.12
24 6 0.15
25 8 0.20
26 11 0.28
27 10 0.25
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.12
Consensus pattern (25 bp):
AAAATAAGATAAAGATAAAAAAATA
Found at i:46544 original size:18 final size:18
Alignment explanation
Indices: 46501--46549 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
46491 CTCAGCCCTC
*
46501 AAAAAAAATAATAGATAATT
1 AAAAAAAAT-A-AGATAAAT
* *
46521 AGAAAAGATAAGATAAAT
1 AAAAAAAATAAGATAAAT
46539 AAAAAAAATAA
1 AAAAAAAATAA
46550 TAATATCAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 16 0.67
19 1 0.04
20 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (18 bp):
AAAAAAAATAAGATAAAT
Found at i:46658 original size:10 final size:10
Alignment explanation
Indices: 46645--46676 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
46635 ATATTACAAG
46645 AAAAAAAAAT
1 AAAAAAAAAT
46655 AAAAAAAAAT
1 AAAAAAAAAT
*
46665 TAAAAAAAAT
1 AAAAAAAAAT
46675 AA
1 AA
46677 TATATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:46784 original size:27 final size:27
Alignment explanation
Indices: 46732--46792 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
46722 TAACAGAAAT
*
46732 AAATAAATAAATAAGTAAAAATATACATA
1 AAAT-AAT-AATAAATAAAAATATACATA
*
46761 TAATAATAATAAATAATAAA-ATACATA
1 AAATAATAATAAATAA-AAATATACATA
46788 AAATA
1 AAATA
46793 CAAAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 19 0.68
28 6 0.21
29 3 0.11
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (27 bp):
AAATAATAATAAATAAAAATATACATA
Found at i:46827 original size:5 final size:5
Alignment explanation
Indices: 46794--46826 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
46784 CATAAAATAC
46794 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA- AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
46827 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:47013 original size:1 final size:1
Alignment explanation
Indices: 47002--47075 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
46992 AACATTGTCA
* * * * * * * * * *
47002 TTTTTTGTTTTTTTTATTTTTTTATGTTTTATGTTTTTTTGTTTTTTTGTTTTTTGTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
47067 TTTTTTTTT
1 TTTTTTTTT
47076 ACCAAAGCTC
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:47014 original size:7 final size:7
Alignment explanation
Indices: 47002--47075 Score: 73
Period size: 7 Copynumber: 10.6 Consensus size: 7
46992 AACATTGTCA
47002 TTTTTTG
1 TTTTTTG
47009 TTTTTT-
1 TTTTTTG
*
47015 TTATTT-
1 TTTTTTG
*
47021 TTTTATG
1 TTTTTTG
*
47028 TTTTATG
1 TTTTTTG
47035 TTTTTTTG
1 -TTTTTTG
47043 TTTTTTTG
1 -TTTTTTG
47051 TTTTTTG
1 TTTTTTG
47058 TTTTTTTG
1 -TTTTTTG
47066 TTTTTT-
1 TTTTTTG
47072 TTTT
1 TTTT
47076 ACCAAAGCTC
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
6 13 0.22
7 26 0.43
8 21 0.35
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:47015 original size:8 final size:8
Alignment explanation
Indices: 47002--47072 Score: 90
Period size: 8 Copynumber: 8.8 Consensus size: 8
46992 AACATTGTCA
47002 TTTTTTGTT
1 TTTTTTG-T
*
47011 TTTTTTAT
1 TTTTTTGT
*
47019 TTTTTTAT
1 TTTTTTGT
*
47027 GTTTTATGT
1 -TTTTTTGT
47036 TTTTTTGT
1 TTTTTTGT
47044 TTTTTTG-
1 TTTTTTGT
47051 TTTTTTGT
1 TTTTTTGT
47059 TTTTTTGT
1 TTTTTTGT
47067 TTTTTT
1 TTTTTT
47073 TTTACCAAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
7 7 0.12
8 37 0.66
9 12 0.21
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:47031 original size:15 final size:14
Alignment explanation
Indices: 47003--47076 Score: 69
Period size: 15 Copynumber: 5.0 Consensus size: 14
46993 ACATTGTCAT
*
47003 TTTTTGTTTTTTTTA
1 TTTTT-TTTGTTTTA
47018 TTTTTTTATGTTTTA
1 TTTTTTT-TGTTTTA
*
47033 TGTTTTTTTGTTTTT
1 T-TTTTTTTGTTTTA
47048 TTGTTTTTTGTTTT-
1 TT-TTTTTTGTTTTA
*
47062 TTTGTTTTTTTTTTA
1 TTT-TTTTTGTTTTA
47077 CCAAAGCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
13 1 0.02
14 14 0.27
15 30 0.59
16 6 0.12
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.85
Consensus pattern (14 bp):
TTTTTTTTGTTTTA
Found at i:47260 original size:42 final size:41
Alignment explanation
Indices: 47082--47614 Score: 682
Period size: 41 Copynumber: 13.1 Consensus size: 41
47072 TTTTACCAAA
* * * *
47082 GCTCCTATAAACAAAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-ATAAATT
* *
47125 GCTCCTTTAAACAGAGGCACCATGACTTTTG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATT
* * *
47166 GCTCTTCTAAACAGAGGTACCACGACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
47207 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATT
* *
47249 GTTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
* * *
47291 GCTCCTTTAAACAGAGGCACCATGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
47333 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
47374 GCTCCTCTAAACAGAGG-----C-AC------AAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
47403 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
47444 GCTCCTCTAAACAGAGGCACCACGATTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
* *
47486 ACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
47527 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAATAAATT
*
47568 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
47609 GCTCCT
1 GCTCCT
47615 TGGCAATCAT
Statistics
Matches: 438, Mismatches: 31, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
29 26 0.06
34 1 0.00
35 4 0.01
36 1 0.00
39 3 0.01
40 4 0.01
41 221 0.50
42 146 0.33
43 28 0.06
44 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:47326 original size:84 final size:83
Alignment explanation
Indices: 47082--47393 Score: 473
Period size: 84 Copynumber: 3.7 Consensus size: 83
47072 TTTTACCAAA
* * * * *
47082 GCTCCTATAAACAAAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTTTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-ATAAATTGCTCCTCTAAACAGAGGCACCA
*
47147 TGACTTTTGAAAA-TAAATT
64 TGACTTTGGAAAAGTAAATT
* * *
47166 GCTCTTCTAAACAGAGGTACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCATG
*
47231 ACTTTGAAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
* *
47249 GTTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCAT
47314 GACTTTGGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATT
*
47333 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAC
47394 AAATAAATTG
Statistics
Matches: 207, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
82 38 0.18
83 67 0.32
84 102 0.49
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCATG
ACTTTGGAAAAGTAAATT
Found at i:47398 original size:29 final size:29
Alignment explanation
Indices: 47365--47422 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
47355 CGACTTTGAA
47365 AAATAAATTGCTCCTCTAAACAGAGGCAC
1 AAATAAATTGCTCCTCTAAACAGAGGCAC
47394 AAATAAATTGCTCCTCTAAACAGAGGCAC
1 AAATAAATTGCTCCTCTAAACAGAGGCAC
47423 CACGACTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (29 bp):
AAATAAATTGCTCCTCTAAACAGAGGCAC
Found at i:47440 original size:70 final size:70
Alignment explanation
Indices: 47327--47463 Score: 274
Period size: 70 Copynumber: 2.0 Consensus size: 70
47317 TTTGGAAAAG
47327 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
47392 ACAAA
66 ACAAA
47397 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
47462 AC
66 AC
47464 CACGATTTTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.22
Consensus pattern (70 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
ACAAA
Found at i:47525 original size:153 final size:157
Alignment explanation
Indices: 47082--47614 Score: 671
Period size: 153 Copynumber: 3.3 Consensus size: 157
47072 TTTTACCAAA
* * * * *
47082 GCTCCTATAAACAAAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTTTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-ATAAATTGCTCCTCTAAACAGAGGCACCA
* * * * * *
47147 TGACTTTTGAAAA-TAAATTGCTCTTCTAAACAGAGGTACCACGACTTTGGAAAATAAATTGCTC
64 CGACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTC
47211 CTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
129 CTCTAAACAGAGG-A-CA--AC--T---AAAGTAAATT
* * * *
47249 GTTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
47314 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCC
65 GACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCC
47379 TCTAAACAGAGG-C-AC-AAA-TAAATT
130 TCTAAACAGAGGACAACTAAAGTAAATT
47403 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
47468 ATTTTGGGAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
66 ACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCT
47533 CTAAACAGAGGCAACGAAACTTTGGAAAGTAAATT
131 CTAAACAGAGG--AC--AAC--T--AAAGTAAATT
*
47568 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCT
47615 TGGCAATCAT
Statistics
Matches: 333, Mismatches: 19, Indels: 30
0.87 0.05 0.08
Matches are distributed among these distances:
153 105 0.32
154 34 0.10
155 3 0.01
156 1 0.00
159 2 0.01
161 2 0.01
164 4 0.01
165 52 0.16
166 40 0.12
167 88 0.26
168 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (157 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCT
CTAAACAGAGGACAACTAAAGTAAATT
Found at i:47536 original size:83 final size:81
Alignment explanation
Indices: 47397--47614 Score: 357
Period size: 83 Copynumber: 2.7 Consensus size: 81
47387 GAGGCACAAA
47397 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
*
47462 ACCACG-ATTTTGGGAAAG
66 A--ACGAACTTT-GGAAAG
* *
47480 TAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
47545 AACGAAACTTTGGAAAG
66 AACG-AACTTTGGAAAG
*
47562 TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCCT
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCT
47615 TGGCAATCAT
Statistics
Matches: 127, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
81 3 0.02
82 56 0.44
83 68 0.54
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (81 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
AACGAACTTTGGAAAG
Found at i:47880 original size:30 final size:30
Alignment explanation
Indices: 47844--47907 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
47834 TATACTTTCT
47844 TGAAAGTAGTGTATGCTGTGCAAATGCATA
1 TGAAAGTAGTGTATGCTGTGCAAATGCATA
*
47874 TGAAAGTATTGTATGCTGTGCAAATGCATA
1 TGAAAGTAGTGTATGCTGTGCAAATGCATA
47904 TGAA
1 TGAA
47908 TTTCAATGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (30 bp):
TGAAAGTAGTGTATGCTGTGCAAATGCATA
Found at i:47927 original size:31 final size:30
Alignment explanation
Indices: 47844--47930 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
47834 TATACTTTCT
* *
47844 TGAAAGTAGTGTATGCTGTGCAAATGCATA
1 TGAAAGTAATGCATGCTGTGCAAATGCATA
* *
47874 TGAAAGTATTGTATGCTGTGCAAATGCATA
1 TGAAAGTAATGCATGCTGTGCAAATGCATA
** *
47904 TGAATTTCAATGCATGCTATGCAAATG
1 TGAAAGT-AATGCATGCTGTGCAAATG
47931 TTGGCCAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 34 0.68
31 16 0.32
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (30 bp):
TGAAAGTAATGCATGCTGTGCAAATGCATA
Found at i:48872 original size:7 final size:8
Alignment explanation
Indices: 48853--48890 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
48843 TTGAATCTCT
48853 TTTTTTCA
1 TTTTTTCA
48861 TTTTTTCA
1 TTTTTTCA
48869 TTTTTTCA
1 TTTTTTCA
*
48877 TTTTTTCC
1 TTTTTTCA
48885 TTTTTT
1 TTTTTT
48891 TTCATCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:48902 original size:22 final size:23
Alignment explanation
Indices: 48877--48934 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
48867 CATTTTTTCA
*
48877 TTTTTTCCTTTTTTTTCATCATTT
1 TTTTTT-CTTTTTTTTCATCATTC
**
48901 TTTTTTCTTTTTTTTTTTCA-TC
1 TTTTTTCTTTTTTTTCATCATTC
48923 TTTTTTCTTTTT
1 TTTTTTCTTTTT
48935 GCTCGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.42
23 12 0.39
24 6 0.19
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTCATCATTC
Found at i:48903 original size:15 final size:14
Alignment explanation
Indices: 48885--48933 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
48875 CATTTTTTCC
*
48885 TTTTTTTTCATCAT
1 TTTTTTTTCATCTT
48899 TTTTTTTTC-T-TT
1 TTTTTTTTCATCTT
48911 TTTTTTTTCATCTT
1 TTTTTTTTCATCTT
48925 TTTTCTTTT
1 TTTT-TTTT
48934 TGCTCGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 10 0.32
13 2 0.06
14 15 0.48
15 4 0.13
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTTTCATCTT
Found at i:48913 original size:8 final size:8
Alignment explanation
Indices: 48850--48934 Score: 57
Period size: 8 Copynumber: 9.9 Consensus size: 8
48840 AATTTGAATC
48850 TCTTTTTT
1 TCTTTTTT
*
48858 TCATTTTT
1 TCTTTTTT
*
48866 TCATTTTT
1 TCTTTTTT
48874 TCATTTTTT
1 TC-TTTTTT
*
48883 CCTTTTTTT
1 TC-TTTTTT
48892 TCATCATTTTT
1 TC-T--TTTTT
48903 T-TTTCTTT
1 TCTTT-TTT
48911 T-TTTTTT
1 TCTTTTTT
48918 TCATCTTTTT
1 TC-T-TTTTT
48928 TCTTTTT
1 TCTTTTT
48935 GCTCGTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
7 6 0.09
8 28 0.44
9 17 0.27
10 7 0.11
11 6 0.09
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (8 bp):
TCTTTTTT
Found at i:52917 original size:59 final size:57
Alignment explanation
Indices: 52791--52997 Score: 283
Period size: 59 Copynumber: 3.5 Consensus size: 57
52781 TTGTGTAGGA
* **
52791 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTAGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTT-GAAATTTATTTTTAAGG
*
52848 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTGTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCT-TTTTTGAAA-TTTATTTTTAAGG
* *
52907 AAAATTGATACTTTCAACTTTTTCTCAAAAAATCCTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-CC-TTTTTTG-AAATTTATTTTTAAGG
52967 AAAATTGATACTTTCAACTTTTTCCT-AAAAA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAA
52998 TATTTTTTTG
Statistics
Matches: 135, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
57 24 0.18
58 10 0.07
59 48 0.36
60 43 0.32
61 10 0.07
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAATTTATTTTTAAGG
Found at i:53005 original size:59 final size:59
Alignment explanation
Indices: 52789--53008 Score: 304
Period size: 60 Copynumber: 3.8 Consensus size: 59
52779 TCTTGTGTAG
* *
52789 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTAG-AAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATACTTTTTTTGAAAATTTATTTTTAA
* ** * *
52846 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTGTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATACTTTTTTTGAAAATTTATTTTTAA
* * *
52905 GGAAAATTGATACTTTCAACTTTTTCTCAAAAAATCCTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTC-CTAAAAATACTTTTTTTGAAAATTTATTTTTAA
52965 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTTGA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATACTTTTTTTGA
53009 TTTTTATTTA
Statistics
Matches: 144, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
56 6 0.04
57 24 0.17
58 15 0.10
59 40 0.28
60 58 0.40
61 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTTCCTAAAAATACTTTTTTTGAAAATTTATTTTTAA
Found at i:53046 original size:22 final size:22
Alignment explanation
Indices: 53021--53062 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
53011 TTTATTTAAA
53021 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
53043 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
53063 AAAAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:53063 original size:16 final size:16
Alignment explanation
Indices: 53044--53111 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
53034 AATAAAAGTG
53044 AAAATAAATAAAGATA
1 AAAATAAATAAAGATA
*
53060 AAAAAAAATAAAG--A
1 AAAATAAATAAAGATA
* * *
53074 AAAGTAAAACAAAAATA
1 AAAAT-AAATAAAGATA
53091 AAAATAAGATAAAGATA
1 AAAATAA-ATAAAGATA
53108 AAAA
1 AAAA
53112 ATATTAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
14 4 0.10
15 6 0.15
16 14 0.35
17 16 0.40
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAATAAATAAAGATA
Found at i:53070 original size:10 final size:10
Alignment explanation
Indices: 53044--53094 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
53034 AATAAAAGTG
*
53044 AAAATAAATA
1 AAAATAAAAA
*
53054 AAGATAAAAA
1 AAAATAAAAA
*
53064 AAAATAAAGA
1 AAAATAAAAA
*
53074 AAAGTAAAACA
1 AAAATAAAA-A
53085 AAAATAAAAA
1 AAAATAAAAA
53095 TAAGATAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:53102 original size:11 final size:10
Alignment explanation
Indices: 53047--53103 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
53037 AAAAGTGAAA
*
53047 ATAAATAAAG
1 ATAAAAAAAG
*
53057 ATAAAAAAAA
1 ATAAAAAAAG
53067 ATAAAGAAAAG
1 ATAAA-AAAAG
*
53078 -TAAAACAAAA
1 ATAAAA-AAAG
53088 ATAAAAATAAG
1 ATAAAAA-AAG
53099 ATAAA
1 ATAAA
53104 GATAAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 1 0.03
10 21 0.55
11 16 0.42
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (10 bp):
ATAAAAAAAG
Found at i:53119 original size:27 final size:27
Alignment explanation
Indices: 53059--53110 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
53049 AAATAAAGAT
53059 AAAA-AAAAATAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAGAAAAGTAAAACA
53085 AAAATAAAAAT-AAGATAAAGATAAAA
1 AAAATAAAAATAAAGA-AAAG-TAAAA
53111 AATATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.12
Consensus pattern (27 bp):
AAAATAAAAATAAAGAAAAGTAAAACA
Found at i:54156 original size:13 final size:13
Alignment explanation
Indices: 54140--54180 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
54130 ATATTACAAG
54140 AAAAAATAATAAT
1 AAAAAATAATAAT
*
54153 AAAAAAAAATAAT
1 AAAAAATAATAAT
54166 AAAAAAATAATAAT
1 -AAAAAATAATAAT
54180 A
1 A
54181 TATAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATAATAAT
Found at i:54159 original size:16 final size:16
Alignment explanation
Indices: 54118--54189 Score: 67
Period size: 16 Copynumber: 4.3 Consensus size: 16
54108 ATACAATAAG
*
54118 ATAAATAAAAA-AATA
1 ATAAAAAAAAATAATA
*
54133 TTACAAGAAAAAATAATA
1 ATA-AA-AAAAAATAATA
54151 ATAAAAAAAAATAATA
1 ATAAAAAAAAATAATA
54167 A-AAAAATAATAATATATA
1 ATAAAAA-AA-AATA-ATA
54185 ATAAA
1 ATAAA
54190 TATAGAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 7 0.15
16 16 0.34
17 11 0.23
18 10 0.21
19 3 0.06
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (16 bp):
ATAAAAAAAAATAATA
Found at i:54188 original size:13 final size:11
Alignment explanation
Indices: 54121--54178 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
54111 CAATAAGATA
54121 AATAAAAAAAT
1 AATAAAAAAAT
*
54132 ATTACAAGAAAA-
1 AATA-AA-AAAAT
*
54144 AAT--AATAAT
1 AATAAAAAAAT
54153 AA-AAAAAAAT
1 AATAAAAAAAT
54163 AATAAAAAAAT
1 AATAAAAAAAT
54174 AATAA
1 AATAA
54179 TATATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 7 0.19
11 16 0.43
12 4 0.11
13 4 0.11
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:54293 original size:55 final size:56
Alignment explanation
Indices: 54161--54300 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 56
54151 ATAAAAAAAA
* * **
54161 ATAATAA-AA-AAATAATAATATATAATAAATATAGAACTATTTAAATAAAATACAT
1 ATAATAATAATAAATAATAAAATA-AATAAATATAGAAATAAGTAAATAAAATACAT
* *
54216 ATAAATATTAATAGAA-AA-AAAATAAATAAATA-AGTAAATAAGTAAA-AATATACAT
1 AT-AATAATAATA-AATAATAAAATAAATAAATATAG-AAATAAGTAAATAAAATACAT
*
54271 ATAATAATAATAAATAATAAAATACATAAA
1 ATAATAATAATAAATAATAAAATAAATAAA
54301 ATACAAAAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
53 2 0.03
54 11 0.16
55 25 0.36
56 20 0.29
57 7 0.10
58 3 0.04
59 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (56 bp):
ATAATAATAATAAATAATAAAATAAATAAATATAGAAATAAGTAAATAAAATACAT
Found at i:54303 original size:27 final size:26
Alignment explanation
Indices: 54142--54303 Score: 101
Period size: 27 Copynumber: 6.2 Consensus size: 26
54132 ATTACAAGAA
54142 AAAATAATAATAAA-AAAAAATA-AT
1 AAAATAATAATAAATAAAAAATACAT
*
54166 AAAAAAATAATAATATATAATAAAT--AT
1 AAAATAATAATAA-ATA-AA-AAATACAT
* *
54193 AGAACT-AT-TTAAAT--AAAATACAT
1 A-AAATAATAATAAATAAAAAATACAT
* *
54216 ATAAATATTAATAGAA-AAAAAATAAAT
1 A-AAATAATAATA-AATAAAAAATACAT
*
54243 -AAATAAGTAAATAAGTAAAAATATACAT
1 AAAATAA-T-AATAAATAAAAA-ATACAT
*
54271 ATAATAATAATAAATAATAAAATACAT
1 AAAATAATAATAAATAA-AAAATACAT
54298 AAAATA
1 AAAATA
54304 CAAAAGAAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 33
0.69 0.10 0.22
Matches are distributed among these distances:
21 4 0.04
22 1 0.01
23 6 0.06
24 13 0.12
25 10 0.10
26 8 0.08
27 43 0.41
28 15 0.14
29 5 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATAATAATAAATAAAAAATACAT
Found at i:56182 original size:50 final size:50
Alignment explanation
Indices: 56091--56191 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
56081 AAAAACGTAT
* * * **
56091 CACAGGTTGAAGGTGATATAAATATTTATATCTCATGACCAATTTTAGTA
1 CACAAGTTAAAGGTGATATAAACATTTATATCTCACAACCAATTTTAGTA
* *
56141 CACAAGTTAAAGGTGATATGAACATTTATATTTCACAACCAATTTTAGTA
1 CACAAGTTAAAGGTGATATAAACATTTATATCTCACAACCAATTTTAGTA
56191 C
1 C
56192 GCAGTCAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (50 bp):
CACAAGTTAAAGGTGATATAAACATTTATATCTCACAACCAATTTTAGTA
Found at i:56290 original size:53 final size:52
Alignment explanation
Indices: 56220--56342 Score: 148
Period size: 47 Copynumber: 2.4 Consensus size: 52
56210 ATGATTCTTT
56220 TCTACGATCATGATATCTTTCCCTTTTCCAATAAGGGCCATTCATAACTCATC
1 TCTACGATCATGATATCTTTCCCTTTTCCAAT-AGGGCCATTCATAACTCATC
* * * **
56273 TCTACGATCATGGTATC--T---TTTTCCAATGGGGCCATTCATGACTTTTC
1 TCTACGATCATGATATCTTTCCCTTTTCCAATAGGGCCATTCATAACTCATC
*
56320 TCTACGATCATGATATATTTCCC
1 TCTACGATCATGATATCTTTCCC
56343 CACTTCAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
47 31 0.53
48 9 0.16
49 1 0.02
51 1 0.02
53 16 0.28
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (52 bp):
TCTACGATCATGATATCTTTCCCTTTTCCAATAGGGCCATTCATAACTCATC
Found at i:56445 original size:116 final size:114
Alignment explanation
Indices: 56275--56494 Score: 307
Period size: 116 Copynumber: 1.9 Consensus size: 114
56265 AACTCATCTC
* * **
56275 TACGATCATGGTATCTTTTTCCAATGGGGCCATTCATGACTTTTCTCTACGATCATGATATATTT
1 TACGATCATGATATCTTTCTCCAACAGGGCCATTCATGACTTTTCTCTACGATCATG--ATATTT
*
56340 CCCCACTTCAATGAG-GACCTTTTGTCTTCGATGGCACATCGCTTGCATTTT
64 CCCCACTTCAATGAGTG-CCTATTGTCTTCGATGGCACATCGCTTGCATTTT
** *
56391 TACGATCATGATATCTTTCTCCAACAGGGTTATTCATGACTTTTCTCTACGATCATGATATTTCT
1 TACGATCATGATATCTTTCTCCAACAGGGCCATTCATGACTTTTCTCTACGATCATGATATTTCC
* * *
56456 CGACTTTAATGAGTGCCTATTGTCTTCGATGGTACATCG
66 CCACTTCAATGAGTGCCTATTGTCTTCGATGGCACATCG
56495 TTAGTACCTT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
114 40 0.43
115 1 0.01
116 51 0.55
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (114 bp):
TACGATCATGATATCTTTCTCCAACAGGGCCATTCATGACTTTTCTCTACGATCATGATATTTCC
CCACTTCAATGAGTGCCTATTGTCTTCGATGGCACATCGCTTGCATTTT
Found at i:56684 original size:53 final size:50
Alignment explanation
Indices: 56557--56713 Score: 170
Period size: 51 Copynumber: 3.0 Consensus size: 50
56547 ATTCTCTATG
* * * *
56557 ATCATGATATCTATTTCCATTCCAATAAGGGCTTATTGTTTTTAGTGTCAT
1 ATCATGATATCT-TTTCCACTCCAATAAGGGCTTACTGTCTTTAGTGTCAC
* * * *
56608 ATCATGATATCTTTTTTCACTCCAATAAGGGCATACTGTCTTTAATGACAC
1 ATCATGATATC-TTTTCCACTCCAATAAGGGCTTACTGTCTTTAGTGTCAC
* * *
56659 ATCACTTGATATCTTTTCCAACTCCAATGAGAGCTTACTATCTTTAGTGTCAC
1 ATCA--TGATATCTTTTCC-ACTCCAATAAGGGCTTACTGTCTTTAGTGTCAC
56712 AT
1 AT
56714 TACTAGAACC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
51 45 0.52
52 6 0.07
53 36 0.41
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (50 bp):
ATCATGATATCTTTTCCACTCCAATAAGGGCTTACTGTCTTTAGTGTCAC
Done.