Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168111.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_356, 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: 31917
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Found at i:300 original size:21 final size:21
Alignment explanation
Indices: 258--300 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
248 TTAATTAAAA
*
258 TATTATTAAATACTTATATAT
1 TATTATTAAATACTAATATAT
*
279 TATTATTAATTATCTAAT-TAT
1 TATTATTAAATA-CTAATATAT
300 T
1 T
301 GATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTAAATACTAATATAT
Found at i:687 original size:16 final size:17
Alignment explanation
Indices: 668--712 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
658 TATTATTTAA
668 TAATATTAAAATAA-AT
1 TAATATTAAAATAATAT
*
684 TAATAATTAAATTAATAT
1 TAAT-ATTAAAATAATAT
702 TAA-ATTAAAAT
1 TAATATTAAAAT
713 CCTTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 11 0.44
17 9 0.36
18 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATATTAAAATAATAT
Found at i:705 original size:11 final size:12
Alignment explanation
Indices: 679--709 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
669 AATATTAAAA
679 TAAATTAATAAT
1 TAAATTAATAAT
691 TAAATTAAT-AT
1 TAAATTAATAAT
702 TAAATTAA
1 TAAATTAA
710 AATCCTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATTAATAAT
Found at i:1783 original size:15 final size:16
Alignment explanation
Indices: 1759--1796 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1749 ATTATATTTT
*
1759 AATTACTGATT-AATA
1 AATTATTGATTCAATA
1774 AATTATTGATTCAATA
1 AATTATTGATTCAATA
*
1790 AACTATT
1 AATTATT
1797 CACATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (16 bp):
AATTATTGATTCAATA
Found at i:1911 original size:18 final size:17
Alignment explanation
Indices: 1890--1965 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 17
1880 AGTAATAACT
1890 TAATATTAAAT-TTAATAA
1 TAATATTAAATATT-AT-A
1908 TAATATTACAATATTATA
1 TAATATTA-AATATTATA
*
1926 TAATATTAATTA-TATAA
1 TAATATTAAATATTAT-A
*
1943 TATTATATAAATATTATA
1 TAATAT-TAAATATTATA
*
1961 AAATA
1 TAATA
1966 GTTGTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.06
17 9 0.19
18 26 0.54
19 8 0.17
20 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATTAAATATTATA
Found at i:1937 original size:14 final size:14
Alignment explanation
Indices: 1920--1958 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
1910 ATATTACAAT
1920 ATTATATAATATTA
1 ATTATATAATATTA
1934 ATTATATAATATT-
1 ATTATATAATATTA
1947 A-TATA-AATATTA
1 ATTATATAATATTA
1959 TAAAATAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.25
12 4 0.17
13 1 0.04
14 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATATAATATTA
Found at i:1956 original size:35 final size:36
Alignment explanation
Indices: 1890--1965 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 36
1880 AGTAATAACT
1890 TAATATTAAATTTAATAATAATATTACAATATTATA
1 TAATATTAAATTTAATAATAATATTACAATATTATA
*
1926 TAATATT-AA-TTATATAATATTATATA-AATATTATA
1 TAATATTAAATTTA-ATAATAATAT-TACAATATTATA
*
1961 AAATA
1 TAATA
1966 GTTGTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 3 0.08
35 24 0.67
36 9 0.25
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (36 bp):
TAATATTAAATTTAATAATAATATTACAATATTATA
Found at i:1960 original size:19 final size:19
Alignment explanation
Indices: 1909--1961 Score: 52
Period size: 24 Copynumber: 2.5 Consensus size: 19
1899 ATTTAATAAT
*
1909 AATATTACAATATTATATA
1 AATATTATAATATTATATA
1928 ATATTAATTATATAATATTATATA
1 A-A-T-A-T-TATAATATTATATA
1952 AATATTATAA
1 AATATTATAA
1962 AATAGTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 2 0.07
22 2 0.07
23 2 0.07
24 14 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATTATAATATTATATA
Found at i:2317 original size:13 final size:14
Alignment explanation
Indices: 2272--2315 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
2262 GAATGTTAAT
2272 AATTAATAAT-TTTA
1 AATTAA-AATATTTA
*
2286 AATTTTAAATATTTA
1 AA-TTAAAATATTTA
2301 AATTAAAATATTTA
1 AATTAAAATATTTA
2315 A
1 A
2316 TTTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:2961 original size:15 final size:14
Alignment explanation
Indices: 2909--2964 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 14
2899 TTATAAGTAT
2909 AAATTTATTAAATTTA
1 AAATTTATT-AA-TTA
2925 ATAAGTTTA-TAATTA
1 A-AA-TTTATTAATTA
*
2940 TAATTTATTAATGTA
1 AAATTTATTAAT-TA
2955 AAATTTATTA
1 AAATTTATTA
2965 TTTTAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 4 0.12
14 6 0.18
15 14 0.41
16 3 0.09
17 3 0.09
18 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (14 bp):
AAATTTATTAATTA
Found at i:2971 original size:28 final size:31
Alignment explanation
Indices: 2899--2979 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 31
2889 ATTTTATATA
* *
2899 TTATAAGTATAAATTTATTAAATTTAATAAGT
1 TTATAATTAT-AATTTATTAAATGTAATAAGT
2931 TTATAATTATAATTTATT-AATGTAA-AA-T
1 TTATAATTATAATTTATTAAATGTAATAAGT
* * *
2959 TTATTATTTTAA-TAATTAAAT
1 TTATAATTATAATTTATTAAAT
2980 ACATTTAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.09
28 14 0.33
29 2 0.05
30 6 0.14
31 8 0.19
32 9 0.21
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (31 bp):
TTATAATTATAATTTATTAAATGTAATAAGT
Found at i:2978 original size:22 final size:22
Alignment explanation
Indices: 2909--2978 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
2899 TTATAAGTAT
2909 AAATTTATTAAATTTAATAAGTTTA
1 AAATTTATT-AATTTAATAA--TTA
* *
2934 TAA-TTA-TAATTTATTAATGTA
1 AAATTTATTAATTTAATAAT-TA
*
2955 AAATTTATTATTTTAATAATTA
1 AAATTTATTAATTTAATAATTA
2977 AA
1 AA
2979 TACATTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
20 1 0.03
21 4 0.11
22 16 0.43
23 11 0.30
24 3 0.08
25 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
AAATTTATTAATTTAATAATTA
Found at i:3057 original size:16 final size:16
Alignment explanation
Indices: 3032--3078 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
3022 TTATTAATTG
3032 TATAAT-TTATATTAT
1 TATAATATTATATTAT
*
3047 TCA-AATATTATATCAT
1 T-ATAATATTATATTAT
3063 TATAATATTATATTAT
1 TATAATATTATATTAT
3079 ACTAGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
TATAATATTATATTAT
Found at i:3423 original size:21 final size:21
Alignment explanation
Indices: 3397--3446 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
3387 TAATAATAAA
3397 TATTATTAGTACTATTAGAAT
1 TATTATTAGTACTATTAGAAT
3418 TATTATTAGTACTATTAGAAT
1 TATTATTAGTACTATTAGAAT
*
3439 AATTATTA
1 TATTATTA
3447 AACCAGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (21 bp):
TATTATTAGTACTATTAGAAT
Found at i:3672 original size:23 final size:22
Alignment explanation
Indices: 3629--3680 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
3619 AATAAATTTA
* *
3629 TATTTATTAATATTAATTAAAT
1 TATTAATTAATATTAAGTAAAT
3651 TATTAATTATATATTAAGTAAAT
1 TATTAATTA-ATATTAAGTAAAT
3674 TAATTAA
1 T-ATTAA
3681 AAAATAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 8 0.31
23 13 0.50
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTAATTAATATTAAGTAAAT
Found at i:4328 original size:22 final size:22
Alignment explanation
Indices: 4302--4351 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4292 TTATAATTTG
* *
4302 TAATTAGTACA-AATTAGTTAAT
1 TAATTAATACATAAATA-TTAAT
4324 TAATTAATACATAAATATTAAT
1 TAATTAATACATAAATATTAAT
4346 TAATTA
1 TAATTA
4352 TAGTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
TAATTAATACATAAATATTAAT
Found at i:4367 original size:22 final size:21
Alignment explanation
Indices: 4320--4373 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
4310 ACAAATTAGT
*
4320 TAATTAATTAATACATAAATAT
1 TAATTAATT-ATACATAAATAA
* *
4342 TAATTAATTATAGTATTAATAA
1 TAATTAATTATA-CATAAATAA
*
4364 TAATTTATTA
1 TAATTAATTA
4374 ATTCAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATTAATTATACATAAATAA
Found at i:4830 original size:9 final size:9
Alignment explanation
Indices: 4803--4858 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
4793 TATTATTAAT
4803 TTAA-ATTA
1 TTAATATTA
* *
4811 TTATTAATA
1 TTAATATTA
4820 TTAATATTA
1 TTAATATTA
*
4829 TTATTATTA
1 TTAATATTA
*
4838 TTAAT-TAA
1 TTAATATTA
*
4846 CTAATATTA
1 TTAATATTA
4855 TTAA
1 TTAA
4859 ATATAATGTA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
8 9 0.25
9 27 0.75
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
TTAATATTA
Found at i:4830 original size:18 final size:18
Alignment explanation
Indices: 4792--4842 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
4782 TTATCATGGT
4792 TTATTATTAAT-TTAA-A
1 TTATTATTAATATTAATA
4808 TTATTATTAATATTAATA
1 TTATTATTAATATTAATA
*
4826 TTATTATTATTATTAAT
1 TTATTATTAATATTAAT
4843 TAACTAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 11 0.34
17 4 0.12
18 17 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTAATATTAATA
Found at i:4857 original size:3 final size:3
Alignment explanation
Indices: 4807--4840 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4797 ATTAATTTAA
* *
4807 ATT ATT ATT AAT ATT AAT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4841 ATTAACTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:4865 original size:23 final size:25
Alignment explanation
Indices: 4821--4873 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
4811 TTATTAATAT
*
4821 TAATATTATTATTATTATTAAT-TAAC
1 TAATATTATTA-TAATATTAATGT-AC
4847 TAATATTATTA-AATA-TAATGTAC
1 TAATATTATTATAATATTAATGTAC
4870 TAAT
1 TAAT
4874 CGATAGTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 10 0.40
24 4 0.16
26 11 0.44
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
TAATATTATTATAATATTAATGTAC
Found at i:5101 original size:16 final size:16
Alignment explanation
Indices: 5045--5106 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
5035 CCAACATTTA
5045 AATATTAATTAATAAGT
1 AATATTAATTAATAA-T
*
5062 AA-ATTTATTCAAATATTAT
1 AATATTAATT--AATA--AT
*
5081 TATATTAATTAATAAT
1 AATATTAATTAATAAT
5097 AATATTAATT
1 AATATTAATT
5107 TTTAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
16 17 0.47
17 2 0.06
18 8 0.22
19 2 0.06
20 7 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AATATTAATTAATAAT
Found at i:5131 original size:39 final size:38
Alignment explanation
Indices: 5047--5133 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 38
5037 AACATTTAAA
*
5047 TATTAATTAATAAGTAAATTTATTCAAATATTATTATAT
1 TATTAA-TAATAAGTAAATTTATTCAAATATTATAATAT
5086 TAATTAATAATAA-TATTAATTT-TT-AAATATTTATAATAAT
1 T-ATTAATAATAAGTA--AATTTATTCAAATA-TTATAAT-AT
5126 TATTAATA
1 TATTAATA
5134 TTAAAAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
38 7 0.17
39 22 0.52
40 13 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (38 bp):
TATTAATAATAAGTAAATTTATTCAAATATTATAATAT
Found at i:5135 original size:19 final size:19
Alignment explanation
Indices: 5088--5146 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
5078 TATTATATTA
* *
5088 ATTAATAATAATATTAATT
1 ATTAATATTAATAATAATT
* *
5107 TTTAAATATTTATAATAATT
1 ATT-AATATTAATAATAATT
*
5127 ATTAATATTAAAAATAATT
1 ATTAATATTAATAATAATT
5146 A
1 A
5147 AATGGTAGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATATTAATAATAATT
Found at i:5145 original size:39 final size:40
Alignment explanation
Indices: 5063--5145 Score: 91
Period size: 39 Copynumber: 2.1 Consensus size: 40
5053 TTAATAAGTA
* * *
5063 AATTTATTCAAATATTATTATATTAATTAATAATAATATT
1 AATTTATTCAAATATTATAATATTAATTAATAATAAAAAT
*
5103 AATTT-TT-AAATATTTATAATAATT-ATTAATATTAAAAAT
1 AATTTATTCAAATA-TTATAAT-ATTAATTAATAATAAAAAT
5142 AATT
1 AATT
5146 AAATGGTAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
38 5 0.14
39 24 0.65
40 8 0.22
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (40 bp):
AATTTATTCAAATATTATAATATTAATTAATAATAAAAAT
Found at i:5459 original size:16 final size:16
Alignment explanation
Indices: 5438--5468 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5428 AATTAATAAA
5438 AATCAAATAGATTAAT
1 AATCAAATAGATTAAT
5454 AATCAAATAGATTAA
1 AATCAAATAGATTAA
5469 ATCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AATCAAATAGATTAAT
Found at i:6188 original size:29 final size:28
Alignment explanation
Indices: 6133--6190 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
6123 ATATTGATAA
*
6133 TTAAATAATAAAAATTAAATATCTTAAT
1 TTAAATAATAAAAATTAAAAATCTTAAT
* * *
6161 TTAAATATTTAAAATTTAAAAATTTTAAT
1 TTAAATA-ATAAAAATTAAAAATCTTAAT
6190 T
1 T
6191 ATTACCATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAAAATCTTAAT
Found at i:6495 original size:181 final size:179
Alignment explanation
Indices: 6275--7240 Score: 753
Period size: 181 Copynumber: 5.3 Consensus size: 179
6265 ACAATTATTT
* * *
6275 CAAGCTTATCCAAAATGAAATAATACTAATTTCTTAATATTTCAAAAATTAATAAGCAAGAGTTT
1 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGTTT
* * * * * *
6340 AAAAAAATTAATTTGTTTACTAAACAAATTCCAATAGTTATGACTATTTGAATAATTATCTATTT
66 -AAAAAATTAATTTATTTACTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATATTT
*
6405 AAAATCATTATGACCTTTTGTTTTCTCATAAAATAATTGTTTTAGTTCATA
130 -AAATCATTATGACCTTTTGTTTTCTCATAAAACAATTGTTTTAGTTCATA
* * *
6456 CAAGCTTATTCAAAATAAAATAATAGTAATTTATTAATATTTCAAAAATTAATAAGTAAGTGATT
1 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAG-TT
* * ** * * * *
6521 TAAAAAA-TGATTCTATTTACCGAATTAGTTCAAATAATTATGGCTATTTTAATCATTATATATT
65 TAAAAAATTAATT-TATTTACTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATATT
* * *** * *
6585 TGAAATCAATATTACCTTTTGTTCGGTCATATAACAACTATTTTTTA--TCATA
129 T-AAATCATTATGACCTTTTGTTTTCTCATAAAACAA-T-TGTTTTAGTTCATA
* * * * * *
6637 CAAGC---TTCAGAATAAAATAATACTAATTTATTAATCTTTCAAAAGTTAATAAGTAAGAAATA
1 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAG-AGTT
* * * * * *
6699 TAAAAAATAAATTTATTTA-TCGAACCCGTTTAAATAGTTATGACTATTTGAACAAATGTATAGT
65 TAAAAAATTAATTTATTTACT-GAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATA-T
*
6763 TTAAATCAATTATTTAAAAAGTAAACCTTTT-TTGTTCTGTCATAAAACAATTATTCTT-GTTCA
128 TTAAATC-ATTA--T-----G---ACCTTTTGTT-TTC--TCATAAAACAATTGTT-TTAGTTCA
6826 TA
178 TA
** * * *
6828 CAAGCTTATTCGTAATAAAATAATACTAATCTAATAATA-CTCTAAAAATTAATAA-CTAAGAGA
1 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAGC-AAGAG-
* * * * * * * *
6891 TTTAAAAAATAAATTTGTTTGCTGAACTAGTTTAAATAGTTAAGACTATATGAATAATTATCTAT
63 TTTAAAAAATTAATTTATTTACTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATA-
* * * * *
6956 TTTAAATCATTATGACCTTTTGTTTTGTCATAAAATAATTTTTTTCAATCCATA
127 TTTAAATCATTATGACCTTTTGTTTTCTCATAAAACAATTGTTTT-AGTTCATA
** *
7010 CTGGCTTATTCAAAATAAAAAAATA--AATTTATTAATATTTCAAAAATTAATAA--AAGA-TTT
1 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGTTT
* * * * * * *
7070 AACAAA-TAATTCTACTTACCT-AACCAGTTCAAATAATTATGATTATTCGAACAATTATTTTAT
66 AAAAAATTAATT-TATTTA-CTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTA-TATAT
* * * * *
7133 TTCAAATAATTATGACCTTTTGTTTTATCATAAAACAAATGTTTTTGTCCATA
128 TT-AAATCATTATGACCTTTTGTTTTCTCATAAAACAATTGTTTTAGTTCATA
* * * ** * * * *
7186 TAAGTTTGTTCGGAATAAATTAATACTACTCTATTAATATTTTAAAAATTAATAA
1 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA
7241 TAGATCTAAA
Statistics
Matches: 620, Mismatches: 123, Indels: 87
0.75 0.15 0.10
Matches are distributed among these distances:
175 4 0.01
176 64 0.10
177 42 0.07
178 126 0.20
179 9 0.01
180 28 0.05
181 157 0.25
182 29 0.05
183 15 0.02
184 2 0.00
186 1 0.00
188 2 0.00
189 10 0.02
190 3 0.00
191 21 0.03
193 7 0.01
194 99 0.16
195 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (179 bp):
CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAAGAGTTT
AAAAAATTAATTTATTTACTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATATTTA
AATCATTATGACCTTTTGTTTTCTCATAAAACAATTGTTTTAGTTCATA
Found at i:6962 original size:194 final size:190
Alignment explanation
Indices: 6601--6968 Score: 438
Period size: 194 Copynumber: 1.9 Consensus size: 190
6591 CAATATTACC
* * *
6601 TTTTGTTCGGTCATATAACAACTATTTTTTATCATACAAGCTTCAGAATAAAATAATACTAATTT
1 TTTTGTTCGGTCATAAAACAACTATTTTGTATCATACAAGCTTCAGAATAAAATAATACTAATCT
* * * * *
6666 ATTAATCTTTCAAAAGTTAATAAGTAAGAAATATAAAAAATAAATTTATTTATCGAACCCGTTTA
66 AATAATCTCTCAAAAATTAATAACTAAGAAATATAAAAAATAAATTTATTTATCGAACCAGTTTA
* * *
6731 AATAGTTATGACTATTTGAACAAATGTATAGTTTAAATCAATTATTTAAAAAGTAAACCTT
131 AATAGTTAAGACTATATGAACAAATATATAGTTTAAATC-ATTATTTAAAAAGTAAACCTT
* *
6792 TTTTGTTCTGTCATAAAACAATTATTCTTGT-TCATACAAGCTT-ATTCGTAATAAAATAATACT
1 TTTTGTTCGGTCATAAAACAACTATT-TTGTATCATACAAGCTTCA---G-AATAAAATAATACT
* * * *
6855 AATCTAATAATACTCT-AAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTT-GCTGAAC
61 AATCTAATAAT-CTCTCAAAAATTAATAACTAAGAAATATAAAAAATAAATTTATTTATC-GAAC
* * * * *
6918 TAGTTTAAATAGTTAAGACTATATGAATAATTATCTATTTTAAATCATTAT
124 CAGTTTAAATAGTTAAGACTATATGAACAAATATATAGTTTAAATCATTAT
6969 GACCTTTTGT
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
190 1 0.01
191 35 0.24
192 3 0.02
193 7 0.05
194 99 0.67
195 3 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (190 bp):
TTTTGTTCGGTCATAAAACAACTATTTTGTATCATACAAGCTTCAGAATAAAATAATACTAATCT
AATAATCTCTCAAAAATTAATAACTAAGAAATATAAAAAATAAATTTATTTATCGAACCAGTTTA
AATAGTTAAGACTATATGAACAAATATATAGTTTAAATCATTATTTAAAAAGTAAACCTT
Found at i:7143 original size:18 final size:18
Alignment explanation
Indices: 7097--7147 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
7087 ACCTAACCAG
7097 TTCAAATAATTATGATTA
1 TTCAAATAATTATGATTA
* * *
7115 TTCGAACAATTAT-TTTA
1 TTCAAATAATTATGATTA
7132 TTTCAAATAATTATGA
1 -TTCAAATAATTATGA
7148 CCTTTTGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (18 bp):
TTCAAATAATTATGATTA
Found at i:7511 original size:15 final size:15
Alignment explanation
Indices: 7457--7515 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
7447 TATAATTCAA
7457 AATATTATAATAA-T
1 AATATTATAATAATT
* *
7471 AATTTTAT-ATAGTAT
1 AATATTATAATAAT-T
7486 AA-ATT-TAAATAATT
1 AATATTAT-AATAATT
7500 AATATTATAATAATT
1 AATATTATAATAATT
7515 A
1 A
7516 TAATTTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
13 4 0.11
14 12 0.34
15 18 0.51
16 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTATAATAATT
Found at i:7537 original size:19 final size:19
Alignment explanation
Indices: 7502--7539 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7492 AAATAATTAA
*
7502 TATTATAATAATTATAATT
1 TATTATAATAATAATAATT
7521 TATTACTAAT-ATAATAATT
1 TATTA-TAATAATAATAATT
7540 ATGTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATAATAATAATAATT
Found at i:7722 original size:16 final size:16
Alignment explanation
Indices: 7701--7735 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7691 CATTAAATTA
* *
7701 TTATATTAGTTATAAT
1 TTATATTAATAATAAT
7717 TTATATTAATAATAAT
1 TTATATTAATAATAAT
7733 TTA
1 TTA
7736 AACAATAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTATATTAATAATAAT
Found at i:8585 original size:181 final size:179
Alignment explanation
Indices: 7858--8936 Score: 632
Period size: 181 Copynumber: 6.0 Consensus size: 179
7848 ATAACTAATC
* * * ** * *
7858 TATTTTA-TTCAAAATAAGCTTGTATGAACAAAAAAAATCATTTTATGACAAAGCAAAAGGTTA-
1 TATTTTATTTCAAAA-AAACTTATATG-A-ATAAAAAATTGTTTTATGACAAAACAAAAAGTTAT
** * * * * * ** *
7921 AAGC-GATTTCCAATATATAATTGTTCAAATAATTATAATTATTTAAACTTGTTCAGTAAACAGA
63 AA-CAG-TTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTTTTGTAAACAAA
* * ** * * *
7985 TTCATTTTTTAAATCTCTTAATTATTAATTTTCAAAATATTAATAACTTAATAT
126 TTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTTT
* ** * * * * * * **
8039 TACTTTATTTGGAATAAGCTTATATGAATTGAAATAATTTTTTTATGACAAAAGAAAAGGTCGTA
1 TATTTTATTTCAAAAAAACTTATATGAA-T-AAAAAATTGTTTTATGACAAAACAAAAAGTTATA
* * * * *** * *
8104 AC-GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGATCTAGTTCAATAAATATATT
64 ACAG-TTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTTTTGTAAACAAATT
* * * * ** * *
8168 TAATTTTTTACATTTTTTACTTATTAATTGTCAAAATATTAATAAATTTGTAT
128 T-ATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTTT
* * * * * * * * * * * * *
8221 TATTTTTAATCCAAATAAGCTTGA-ATAAAGAGAAACTATTATCTTATAATAGAACAAAAAGTCA
1 TA-TTTTATTTCAAAAAAACTT-ATATGAATA-AAA-AATTGTTTTATGACAAAACAAAAAGTTA
* * * * * * *** *
8285 CAA-TGATTTGAAATAAATAATTGCTT-AAACAATC-T--TAATTTGAAC-CAATTTGATAAATA
62 TAACAG-TTTGAAATAGATAATTG-TTCAAATAGTCATAATTATTTGAACTGGTTTTG-TAAACA
* * * * *
8344 GATTTATTTTTTAAA-AT-TT--TTATTAATTTTTTAAATATTAATAGATTAGTAT
124 AATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTTT
* * * * * *
8396 TATTTTATTTCGAACAAACTTATATGAACAAAAACATTAGTTTTATGATAAAACAAAAAATCATA
1 TATTTTATTTCAAAAAAACTTATATGAATAAAAA-ATT-GTTTTATGACAAAACAAAAAGTTATA
* * * ** *
8461 ACAGTTTAAAATAGATAATTGTTAAAATAATCATAATTATTTGAACTGGTTAAGTAAACAAAATT
64 ACAGTTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTTTTGTAAACAAATTT
* * *
8526 ATTTTTTAATTCTCTTACTTTTTAATTTTTGAAATTTTAATAAATTTA-TTT
129 ATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTTT
* * *
8577 TATTTTA-TTCTAAATAAAC-TAGTATGAATTGAAAATATTGTTTTATGGCAAAACAAAAAGTTA
1 TATTTTATTTC-AAAAAAACTTA-TATGAA-T-AAAAAATTGTTTTATGACAAAACAAAAAGTTA
* * * ** * * * * *
8640 TAA-TGATTTGAAATAGATAATTATTCATATAGTTTTAACTATTTGAGCTAGTTTTGCAAACAAT
62 TAACAG-TTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTTTTGTAAACAAA
* * *
8704 TTTATTTTTTAAATCTCTTAGTTATTAATTTTT-AGAATATTATTAGATTAGTTT
126 TTTATTTTTTAAATCTCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTTT
* * * * *
8758 TATTTTATTTTAAAAAAGCTTGTATGAATAGAAATAATTGTTTAATGACAAAACAAAATGTTATA
1 TATTTTATTTCAAAAAAACTTATATGAATA-AAA-AATTGTTTTATGACAAAACAAAAAGTTATA
* * * * * * * * * *
8823 ACAATTTGAAGTATACAACTGCTCTAATAGTCATAATTATTTGAATTGGTTTTGTAAGCAGATTT
64 ACAGTTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTTTTGTAAACAAATTT
*
8888 ATTTTTTAAATCTCTTACTTATTAATTTTTGAAAGATTAATAAATTAGT
129 ATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGT
8937 ATTAATACTT
Statistics
Matches: 689, Mismatches: 170, Indels: 78
0.74 0.18 0.08
Matches are distributed among these distances:
173 9 0.01
174 62 0.09
175 32 0.05
177 28 0.04
178 4 0.01
179 14 0.02
180 32 0.05
181 375 0.54
182 64 0.09
183 66 0.10
184 3 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
TATTTTATTTCAAAAAAACTTATATGAATAAAAAATTGTTTTATGACAAAACAAAAAGTTATAAC
AGTTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAACTGGTTTTGTAAACAAATTTAT
TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTTT
Found at i:9080 original size:18 final size:19
Alignment explanation
Indices: 9057--9094 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9047 AAATTAAATT
9057 ATTATGGAA-TAATATTAA
1 ATTATGGAATTAATATTAA
*
9075 ATTATGTAATTTAATATTAA
1 ATTATGGAA-TTAATATTAA
9095 TGAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (19 bp):
ATTATGGAATTAATATTAA
Found at i:9195 original size:27 final size:27
Alignment explanation
Indices: 9151--9212 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
9141 TGTTTTGCAA
9151 ATAATTAATTAATAACAA-AAGTATTGTT
1 ATAATT-ATTAATAACAATAAGTATT-TT
* *
9179 ATAATTATTCATAACAATAATTATTTT
1 ATAATTATTAATAACAATAAGTATTTT
*
9206 ATTATTA
1 ATAATTA
9213 AACTAATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (27 bp):
ATAATTATTAATAACAATAAGTATTTT
Found at i:9631 original size:25 final size:24
Alignment explanation
Indices: 9590--9639 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
9580 ATTTAATTAA
9590 ATATTTTTAATAATTATTATTAAAT
1 ATATTTTTAATAATTA-TATTAAAT
* * *
9615 ATATTTTTACTAGTTATATTTAAT
1 ATATTTTTAATAATTATATTAAAT
9639 A
1 A
9640 CTATAATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTTTTAATAATTATATTAAAT
Found at i:10044 original size:16 final size:16
Alignment explanation
Indices: 10031--10078 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
10021 AAATATTAGA
10031 TAATTAATATATTAAT
1 TAATTAATATATTAAT
*
10047 TAATTAATAT-TTTAT
1 TAATTAATATATTAAT
10062 TAATT--T-TATTAAT
1 TAATTAATATATTAAT
10075 TAAT
1 TAAT
10079 ATTTTATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 1 0.03
13 9 0.31
15 9 0.31
16 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTAATATATTAAT
Found at i:11040 original size:181 final size:180
Alignment explanation
Indices: 10664--11040 Score: 420
Period size: 182 Copynumber: 2.1 Consensus size: 180
10654 GTTCAAATTG
* * ** * * *
10664 TTATGACTTTTTGTTTTGCCATAAAACAATTGTTTCTGTTCATACAAGGTTATTCATATTAAAAT
1 TTATGACCTTTTGTTTTGCAATAAAACAATTGTTTCAATTCAAACAAGCTTATTCATAATAAAAT
* * *
10729 AATATTAATTTATTAATTTTTGACAATTAATAAGTAGAAGATTTAAAAAATAAATATGTTTACCC
66 AATACTAATTTATTAATTTTTGAAAATTAATAAGTAGAAGAATTAAAAAATAAATATGTTTACCC
* * * * * *
10794 AACAAGTTGAAATAGCCATGATAATTTGAATAATTAACTATTTCAAATCA
131 AACAAGTTCAAATAGACATGATAATCTAAAAAATTAACTATTTCAAAACA
* * * * *
10844 TTATGTCCTTTTTGTTTTGTAATAAAATAATTGTTTCAATTCAAATAAGCTTATTTGA-AATAAA
1 TTATGACC-TTTTGTTTTGCAATAAAACAATTGTTTCAATTCAAACAAGCTTA-TTCATAATAAA
* *
10908 ATAATACTAATTTATTAATTTTATGAAAATTAATGAGTA-AGAGAATTAAAAAATGAATATGTTT
64 ATAATACTAATTTATTAATTTT-TGAAAATTAATAAGTAGA-AGAATTAAAAAATAAATATGTTT
* * * * *
10972 -GCCAACCATGTTCAAATAGATATGACT-ATCTAAAAAATTATCTATTTTAAAACA
127 ACCCAA-CAAGTTCAAATAGACATGA-TAATCTAAAAAATTAACTATTTCAAAACA
11026 TTATGACCTTTTGTT
1 TTATGACCTTTTGTT
11041 AATGATTCAA
Statistics
Matches: 162, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
180 6 0.04
181 74 0.46
182 81 0.50
183 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (180 bp):
TTATGACCTTTTGTTTTGCAATAAAACAATTGTTTCAATTCAAACAAGCTTATTCATAATAAAAT
AATACTAATTTATTAATTTTTGAAAATTAATAAGTAGAAGAATTAAAAAATAAATATGTTTACCC
AACAAGTTCAAATAGACATGATAATCTAAAAAATTAACTATTTCAAAACA
Found at i:12493 original size:11 final size:11
Alignment explanation
Indices: 12463--12500 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
12453 AATTTATTTT
12463 TTAAAT-TTAA
1 TTAAATATTAA
12473 TTAAA-A-TAA
1 TTAAATATTAA
12482 TTAAATATTAA
1 TTAAATATTAA
12493 TTAAATAT
1 TTAAATAT
12501 ATGACTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.32
10 6 0.24
11 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAAATATTAA
Found at i:13017 original size:16 final size:17
Alignment explanation
Indices: 12985--13017 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12975 AACAAGTACA
12985 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
13003 AATAATTAT-CTATTT
1 AATAATTATACTATTT
13018 CTAATCACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:13786 original size:18 final size:20
Alignment explanation
Indices: 13759--13809 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
13749 AATTAGTAAA
*
13759 ATAATAAATTATAT-TTATT
1 ATAATAAATTATATATAATT
*
13778 -TAATTAATTATATATAATT
1 ATAATAAATTATATATAATT
*
13797 ATAATGAATTATA
1 ATAATAAATTATA
13810 ATTAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
19 4 0.15
20 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAATAAATTATATATAATT
Found at i:13797 original size:10 final size:10
Alignment explanation
Indices: 13765--14003 Score: 88
Period size: 10 Copynumber: 24.6 Consensus size: 10
13755 TAAAATAATA
*
13765 AATTATATTT
1 AATTATATAT
*
13775 ATTTA-AT-T
1 AATTATATAT
13783 AATTATATAT
1 AATTATATAT
13793 AATTATA-AT
1 AATTATATAT
13802 GAATTATA-ATT
1 -AATTATATA-T
*
13813 AA-TAAATATT
1 AATTATATA-T
13823 AA-TA-ATA-
1 AATTATATAT
* *
13830 AATAATAGTCT
1 AATTATA-TAT
13841 AA-TATATTATT
1 AATTATA-TA-T
*
13852 AATT-TATGT
1 AATTATATAT
13861 AATTATATAT
1 AATTATATAT
*
13871 AAATAT-TAAT
1 AATTATAT-AT
*
13881 AGTATATATAT
1 AAT-TATATAT
*
13892 AGTATATATAT
1 AAT-TATATAT
13903 AATTATACTATT
1 AATTATA-TA-T
*
13915 AA-TAGTGT-T
1 AATTA-TATAT
13924 -A-TATATAT
1 AATTATATAT
13932 AATTATATAT
1 AATTATATAT
13942 AA--ATAT-T
1 AATTATATAT
* *
13949 AATTA-GTCT
1 AATTATATAT
13958 AA-TATACTATT
1 AATTATA-TA-T
13969 AATTATATAT
1 AATTATATAT
*
13979 AATTAGAT-T
1 AATTATATAT
13988 AATTATATAT
1 AATTATATAT
13998 AATTAT
1 AATTAT
14004 GACCTTTTGT
Statistics
Matches: 179, Mismatches: 21, Indels: 58
0.69 0.08 0.22
Matches are distributed among these distances:
7 7 0.04
8 17 0.09
9 33 0.18
10 76 0.42
11 36 0.20
12 10 0.06
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (10 bp):
AATTATATAT
Found at i:13846 original size:55 final size:53
Alignment explanation
Indices: 13786--13909 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 53
13776 TTTAATTAAT
*
13786 TATATATAATTATAATG-AATTATAATTAATAAATATTAATAATAAATA-ATAGTC
1 TATATATAATTATAATGTAATTAT-A-T-ATAAATATTAATAATAAATATATAGTA
* * * *
13840 TAATATATTATTAATTTATGTAATTATATATAAATATTAATAGTATATATATAGTA
1 T-ATATATAATT-A-TAATGTAATTATATATAAATATTAATAATAAATATATAGTA
13896 TATATATAATTATA
1 TATATATAATTATA
13910 CTATTAATAG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
53 1 0.02
54 2 0.03
55 36 0.62
56 8 0.14
57 5 0.09
58 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (53 bp):
TATATATAATTATAATGTAATTATATATAAATATTAATAATAAATATATAGTA
Found at i:13886 original size:17 final size:16
Alignment explanation
Indices: 13814--13951 Score: 55
Period size: 17 Copynumber: 7.8 Consensus size: 16
13804 ATTATAATTA
13814 ATAAATATTAATA-AT
1 ATAAATATTAATATAT
*
13829 AAATAATAGTCTAATATATT
1 ATA-AATA-T-TAATATA-T
*
13849 ATTAATTTATGTAATTATAT
1 A-TAA-ATAT-TAA-TATAT
13869 ATAAATATTAATAGTAT
1 ATAAATATTAATA-TAT
* *
13886 ATATATAGTATATATAT
1 ATAAATATTA-ATATAT
* *
13903 AATTATACTATTAATAGTGT
1 -A-TA-AATATTAATA-TAT
*
13923 -TATATATATAATTATAT
1 ATAAATAT-TAA-TATAT
13940 ATAAATATTAAT
1 ATAAATATTAAT
13952 TAGTCTAATA
Statistics
Matches: 91, Mismatches: 15, Indels: 33
0.65 0.11 0.24
Matches are distributed among these distances:
15 2 0.02
16 10 0.11
17 28 0.31
18 20 0.22
19 9 0.10
20 15 0.16
21 7 0.08
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (16 bp):
ATAAATATTAATATAT
Found at i:13891 original size:15 final size:13
Alignment explanation
Indices: 13840--13947 Score: 50
Period size: 12 Copynumber: 8.5 Consensus size: 13
13830 AATAATAGTC
13840 TAATATAT-TAT-
1 TAATATATATATA
* *
13851 TAATTTATGTA-A
1 TAATATATATATA
* *
13863 TTATATATAAATA
1 TAATATATATATA
13876 TTAATAGTATATATA
1 -TAATA-TATATATA
*
13891 TAGTATATATATA
1 TAATATATATATA
*
13904 -ATTATACTAT-TAA
1 TAATATA-TATAT-A
* *
13917 TAGTGTTATATATA
1 TAAT-ATATATATA
13931 TAAT-TATATATA
1 TAATATATATATA
13943 -AATAT
1 TAATAT
13948 TAATTAGTCT
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
11 10 0.14
12 24 0.32
13 13 0.18
14 17 0.23
15 10 0.14
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (13 bp):
TAATATATATATA
Found at i:13947 original size:8 final size:9
Alignment explanation
Indices: 13840--14000 Score: 56
Period size: 9 Copynumber: 17.4 Consensus size: 9
13830 AATAATAGTC
13840 TAATATATTA
1 TAATATA-TA
* *
13850 TTAATTTATG
1 -TAATATATA
13860 TAATTATATA
1 TAA-TATATA
13870 TAA-ATAT-
1 TAATATATA
13877 TAATAGTATA
1 TAATA-TATA
13887 T-ATATAGTA
1 TAATATA-TA
13896 T-ATATATA
1 TAATATATA
*
13904 -ATTATACTA
1 TAATATA-TA
*
13913 TTAATAGTGT-
1 -TAATA-TATA
13923 T-ATATATA
1 TAATATATA
13931 TAATTATATA
1 TAA-TATATA
13941 TAA-ATAT-
1 TAATATATA
*
13948 TAAT-TAGTC
1 TAATATA-TA
13957 TAATATACTA
1 TAATATA-TA
13967 TTAATTATATA
1 -TAA-TATATA
*
13978 TAAT-TAGA
1 TAATATATA
13986 TTAATTATATA
1 -TAA-TATATA
13997 TAAT
1 TAAT
14001 TATGACCTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 46
0.67 0.07 0.26
Matches are distributed among these distances:
7 10 0.09
8 25 0.22
9 30 0.26
10 28 0.24
11 18 0.16
12 5 0.04
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (9 bp):
TAATATATA
Found at i:13972 original size:37 final size:35
Alignment explanation
Indices: 13860--13980 Score: 122
Period size: 37 Copynumber: 3.4 Consensus size: 35
13850 TTAATTTATG
*
13860 TAATTATATATAAATATTAATAGTAT-ATATATAG
1 TAATTATATATAAATATTAATAGTATAATATATAT
* * *
13894 T-ATATATATAATTATACTATTAATAGTGTTATATATA-
1 TAAT-TATAT-A-TA-AATATTAATAGTATAATATATAT
*
13931 TAATTATATATAAATATTAATTAGTCTAATATACTAT
1 TAATTATATATAAATATTAA-TAGTATAATATA-TAT
13968 TAATTATATATAA
1 TAATTATATATAA
13981 TTAGATTAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
33 2 0.03
34 13 0.18
35 13 0.18
36 5 0.07
37 31 0.42
38 9 0.12
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (35 bp):
TAATTATATATAAATATTAATAGTATAATATATAT
Found at i:13990 original size:19 final size:19
Alignment explanation
Indices: 13966--14002 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13956 CTAATATACT
13966 ATTAATTATATATAATTAG
1 ATTAATTATATATAATTAG
13985 ATTAATTATATATAATTA
1 ATTAATTATATATAATTA
14003 TGACCTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAATTATATATAATTAG
Found at i:14511 original size:194 final size:191
Alignment explanation
Indices: 14185--14531 Score: 450
Period size: 194 Copynumber: 1.8 Consensus size: 191
14175 CAATATTACC
* * * *
14185 TTTTGTTTGGTCATATAACAATTATTTTTTATCATACAAGCTTTAGAATAAAATAATACTAATTT
1 TTTTGTTTGGTCATAAAACAATTATTATGTATCATACAAGCTTTAGAATAAAATAATACTAATCT
* * * * *
14250 ATTAATCTTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATCAATTTATTTATCGAACTCATTTA
66 AGTAATCTCTCAAAAATTAATAACTAAGAAATTTAAAAAATAAATTTATTTATCGAACTCATTTA
* *
14315 AATAGTTATGACTATTTGAACAAATGTATAGTTTAAATCAGTTATTTAAAAAATAAACTTT
131 AATAGTTAAGACTATATGAACAAATGTATAGTTTAAATCAGTTATTTAAAAAATAAACTTT
*
14376 TTTTGTTCT-GTCATAAAACAATTATTCATGT-TCATACAAGCTTATTCGAAATAAAATAATACT
1 TTTTGTT-TGGTCATAAAACAATTATT-ATGTATCATACAAGC-T-TTAG-AATAAAATAATACT
* * * * *
14439 AATCTAGTAATACTCT-AAAAATTAATAACTAAGAGATTTCAAAAATAAATTTGTTTGTTGAAC-
61 AATCTAGTAAT-CTCTCAAAAATTAATAACTAAGAAATTTAAAAAATAAATTTATTTATCGAACT
14502 CAGTTTAAATAGTTAAGACTATATGAACAA
125 CA-TTTAAATAGTTAAGACTATATGAACAA
14532 TTATCTATTT
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
191 33 0.25
192 4 0.03
193 5 0.04
194 87 0.66
195 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (191 bp):
TTTTGTTTGGTCATAAAACAATTATTATGTATCATACAAGCTTTAGAATAAAATAATACTAATCT
AGTAATCTCTCAAAAATTAATAACTAAGAAATTTAAAAAATAAATTTATTTATCGAACTCATTTA
AATAGTTAAGACTATATGAACAAATGTATAGTTTAAATCAGTTATTTAAAAAATAAACTTT
Found at i:14901 original size:18 final size:18
Alignment explanation
Indices: 14853--14901 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
14843 AATAAAAATC
*
14853 AATAATTAA-AATATTTA
1 AATAATTAATAATATTCA
14870 AATTAA--AATCAATATTCA
1 AA-TAATTAAT-AATATTCA
14888 AATAATTAATAATA
1 AATAATTAATAATA
14902 AATTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 2 0.08
17 5 0.19
18 16 0.62
19 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAATTAATAATATTCA
Found at i:14904 original size:26 final size:27
Alignment explanation
Indices: 14838--14904 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
14828 GGATATCTAT
*
14838 TAATCAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * *
14864 TATTTAA-ATTAAAATCAAT-ATTCAAA
1 TAATTAATAAT-AAATCAATAATTAAAA
14890 TAATTAATAATAAAT
1 TAATTAATAATAAAT
14905 TATAAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:15383 original size:18 final size:18
Alignment explanation
Indices: 15344--15385 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
15334 TTACACAACA
* *
15344 AATAGTTTATTTTTTATT
1 AATAATTTATTTTTAATT
15362 -ATAATTTATTTTTAATT
1 AATAATTTATTTTTAATT
15379 AATAATT
1 AATAATT
15386 AATATTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATAATTTATTTTTAATT
Found at i:16065 original size:181 final size:180
Alignment explanation
Indices: 15794--18506 Score: 1759
Period size: 181 Copynumber: 15.1 Consensus size: 180
15784 AAATTGTGTC
* * ** * * *
15794 ATGAGAAAACAAAAAGTCATAAAAATTTGAAATAAATAATTGTTCAAATAGTCATAATTATTTAA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * ** * *
15859 ACTTATTTGATAAGTAGATTTATTTTTTAAATCTTTTACTTATTAGTTGTCTGAATATTAATAAA
66 ACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT-TCTGAATATTAATAAA
* * * *
15924 TTTGTATAATTTTATTTGAAATAAACTTGTATGAATAGAAAATTTTGTTTT
130 TTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAATATTGTTTT
* * * ** * * * * *
15975 AGGACAAAACAAAAGGTTATAGCGATTAAAAATATATAATTATTCAAATAGTCATAATTAATTGT
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
*
16040 ACTTGTTCGATAAACAAATTTATTTTTTAAATC---T-CTTATTAATTTTTAGAATATTAATAAA
66 ACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCT-GAATATTAATAAA
* * * * * * *
16101 ATAGAATTATATTATTTCAAATAAGCTAGTA-CAGACA-AAAATAATTGTTTT
130 TTAGTATTATTTTATTTCAAATAAACTTGTATGA-ATAGAAAAT-ATTGTTTT
* * * * * * * *
16152 GTGATAAAAAAAAAGGTCATAATGATTTGAAATAGATAATTATTCGAACAGTCATAACTATTTGC
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* *** *** * * ** *
16217 AC-TGGTCAGGCCAATTGATTCATTTTTTAAATCTATTACTTATTAATTTCAAAATATTGATAAA
66 ACTTGTTC-GATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCTGAATATTAATAAA
* * * *
16281 TTAGTATTACTTTATTCCGAATAAGAC-TGTATGAATAG-AAATAATTATTTT
130 TTAGTATTATTTTATTTCAAATAA-ACTTGTATGAATAGAAAAT-ATTGTTTT
* * * * * * *
16332 ATGATAATAA-TAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTAATTG
1 ATGACAA-AACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTG
* * * ** * * * **
16396 AACTGGTT-TAGTAAATAGTTTTACTTTTTAAAT-TTTTTCTTTCTTAATTTTCAAAATATTAAT
65 AACTTGTTCGA-TAAACAAATTTATTTTTTAAATCTTTTAC-TTATTAA-TTTCTGAATATTAAT
* * * * * * *
16459 AAATTAATATTGTTTTA-TTCTGAACAAACTTGTATGTACA-AAAACATTTGTTTT
127 AAATTAGTATTATTTTATTTC-AAATAAACTTGTATGAATAGAAAATA-TTGTTTT
* ** *
16513 ATGACAAAATAAAAGAACATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* ** * * * *
16578 A-TTGGTTAGGCAAACTTAAA--TGTTTTTTAAATCTCTTGCTTATTAAGCTT-TGAAATATTAA
66 ACTT-GTTCGATAAAC--AAATTTATTTTTTAAATCTTTTACTTATTAA-TTTCTG-AATATTAA
* * * * * * * *
16639 TAAATTTGTTTTACTTTATTACAAAT-AAGTTACTAAGAA-ATGAAAAAATTGTTTT
126 TAAATTAGTATTATTTTATTTCAAATAAACTT-GTATGAATA-GAAAATATTGTTTT
** * * * * * * *
16694 ACAACAAAACGAAAA-GTCATAATGATTTGAAATAAAAAATTGTTCATATA-CCCTGAAATATTT
1 ATGACAAAAC-AAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCAT-AACTATTT
* * * * *
16757 GAACTAGTTC-AGTAAACAAATCTATTTTTTAAAT-TTATTAGTTATTAATTTTCAGAATATTAT
64 GAACTTGTTCGA-TAAACAAATTTATTTTTTAAATCTT-TTACTTATTAA-TTTCTGAATATTAA
* * * *
16820 TATATTAGTATTATTTTATTTCGAATAAACTTGTGTGAATAG-AAATAATTATTTT
126 TAAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAAT-ATTGTTTT
* * * * *
16875 ATGATATAAC-AAAGGTTATAACAATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
** * * * *
16939 ACCGGTTC-AGTAAACAAATTAACTTTTTAAATC--TT--TTATTAATTTTTGAA-ATTTAGTAA
66 ACTTGTTCGA-TAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCTGAATA-TTAATAA
* ** * *
16998 ATTAGTATTATTTTATTCCAAATAGGCTTGTATG-AT-GAAAAACAATTGCTTT
129 ATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAG-AAAA-TATTGTTTT
* * * *
17050 ATGACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTATTCAAATAGCCATAATTATTTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
** * * * *** * *
17115 A-TAATTTGATAAACTAATTTATTTTTTAAAACTCCAACTTCTTAATTTTTGAAATATTAATAAA
66 ACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCTG-AATATTAATAAA
** * * * * * *
17179 GCAATATTATTTTATTTTGAAA-AAATTTTTATGTACTA-AAACA-GTTGTTTT
130 TTAGTATTATTTTA-TTTCAAATAAACTTGTATG-AATAGAAA-ATATTGTTTT
* * *
17230 ATGATAAAATAAAAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTCATAACTATTTG
1 ATGACAAAA-CAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTG
* * * * * * * *
17295 AACTTATTCGGTAAATAGA--T-TTCTTTAAA--ATTT-CTTATTAATTTTCTAAATTTTAATAA
65 AACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TTTCTGAATATTAATAA
* * * * * *
17354 ATTAGTATTACTATATTTCGAATAAGCATGTATGAACT-GAAACA-ATTATTTT
129 ATTAGTATTATTTTATTTCAAATAAACTTGTATGAA-TAGAAA-ATATTGTTTT
* * * * ** * * * *
17406 TTGACTAAACAAAAGATCAAAATAATTTGGAATAGATAATTGTTCTAATAGTCTTAACTATTGGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * *
17471 AC-TGCTTCGAAAAACACATTTA-TTTTTAAATC-----CTTATTAATTTTTGAAATAGTAATAA
66 ACTTG-TTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCTG-AATATTAATAA
* * ** *
17529 ATTGGCATTATTTTA-TTCTAAATAATTTTGTATGAATAGAAACA-ATT-ATTT
129 ATTAGTATTATTTTATTTC-AAATAAACTTGTATGAATAGAAA-ATATTGTTTT
* * * * * * ** * * * *
17580 ATAATAAAACAAAATGTCATAACAATTTAAAATAAATAACAGTTCAAATGGACATGACTATTTAA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * * * * *
17645 ACTTGTTCGGTAAATAAATTTATTTTTTAAATATCTAACTTATTAATTTTTAGAATAATAATAAA
66 ACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCT-GAATATTAATAAA
* *
17710 TTAGTATTATTTTATTCCAAATAAACTTGTGTGAATAGAAACA-ATTGTTTT
130 TTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAA-ATATTGTTTT
* * * * * *
17761 ATGACAAAACAAAAGATCATAAAGATTTGACATATATAATTATTCAAATAGTAATAACTATTTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
** *
17826 ACTTACTCGGTAAACCAAATTT-TTTATTTAAATC-TTTACTTATTAATTT-TAGAAATATTAAT
66 ACTTGTTCGATAAA-CAAATTTATTT-TTTAAATCTTTTACTTATTAATTTCT-G-AATATTAAT
* * * * * *
17888 AAATTAATATTATTTTATTTCTAGTAAGCTTATATGAATAG-AAATAATTGGTTT
127 AAATTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAAT-ATTGTTTT
** * *
17942 ATGACAAAACAAATTGTCATAACGATTTGAAAAAGATAATTGTTCAAATAATCATAACTA-TTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * * * * * *
18006 A-TATGTTCAAAAAACATATTTATTTTTAAAAT-TTTTATTTATTAATTTTTGGACTTTTAATAA
66 ACT-TGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCT-GAATATTAATAA
* * * * * * *
18069 ATTTA-TATTATTTTATTTGAAATAAGCTTGCATGAACAG-AACTAAGTATTTT
129 A-TTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAAT-ATTGTTTT
* * * * * *
18121 ATGACAAAACAAATGGTCATAATGTTTTGAAATAGATAATTATTTAGATAGTCATAACTATTTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * * * * * * *
18186 ACTTGTTTGGTAAACAAATTCATTTTTTTAATTCTCTTACTCATTAATTTTTGGTAGATTAATAA
66 ACTTGTTCGATAAACAAATTTA-TTTTTTAAATCTTTTACTTATTAATTTCT-GAATATTAATAA
* * * * * *
18251 ATTAG-AGCTATTTTATTTCAAATAAGCTTATGTTAACT-GAAACA-ATTATTTT
129 ATTAGTA-TTATTTTATTTCAAATAAACTTGTATGAA-TAGAAA-ATATTGTTTT
* * * * ** * * * *
18303 ATTACAAAATAGAAGGTCACAATTATTTGAAATAGATAATTATTCATATAGTCTTGACTATTTGA
1 ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * * **
18368 ACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTCACTTATTAATTGTCAAAATATTAATAAA
66 ACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT-TCTGAATATTAATAAA
* * * *
18433 TTAATATTATTTTAATCCAAATAAGCTTGTATGAATAGAAACA-ATTGTTTT
130 TTAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAA-ATATTGTTTT
* * *
18484 ATTACAAAACAAAAAGTCGTAAC
1 ATGACAAAACAAAAGGTCATAAC
18507 AATTCTGTTT
Statistics
Matches: 1950, Mismatches: 473, Indels: 218
0.74 0.18 0.08
Matches are distributed among these distances:
173 1 0.00
174 75 0.04
175 202 0.10
176 120 0.06
177 136 0.07
178 3 0.00
179 157 0.08
180 353 0.18
181 721 0.37
182 179 0.09
183 3 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
ATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
ACTTGTTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTCTGAATATTAATAAAT
TAGTATTATTTTATTTCAAATAAACTTGTATGAATAGAAAATATTGTTTT
Found at i:17100 original size:16 final size:17
Alignment explanation
Indices: 17079--17111 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17069 TAACGATTTG
17079 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
17095 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
17112 TGAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:18295 original size:542 final size:534
Alignment explanation
Indices: 15794--18510 Score: 2099
Period size: 542 Copynumber: 5.0 Consensus size: 534
15784 AAATTGTGTC
* * * * *
15794 ATGAGAAAACAAAAAGTCATAAAAATTTGAAATAA-ATAATTGTTCAAATAGTCATAATTATTTA
1 ATGACAAAAC-AAAGGTCATAACAATTTGAAA-AAGATAATTGTTCAAATAGTCATAACTATTGA
* ** ** * ** * * * *
15858 AACTTATTTGATAAGTAGATTTATTTTTTAAATCTTTTACTTATTAGTTGTCTGAATATTAATAA
64 ATC-GGTTCAAAAAACATATTTA-TTTTTAAAT-TTTTATTTATTAATT-TTTGAATATTAATAA
* * * * *
15923 ATTTGTATAATTTTATTTGAAATAAACTTGTATGAATAGAA-AATTTTGTTTTAGGACAAAACAA
125 ATTTATATTATTTTATTTGAAATAAGCTTGTATGAACAGAACAA--TTGTTTTATGACAAAACAA
* * ** * * * *
15987 AAGGTTATAGCGATTAAAAATATATAATTATTCAAATAGTCATAATTAATTGTACTTGTTCGATA
188 AAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAACTTGTTCGGTA
* * *
16052 AACAAATTTATTTTTTAAATCTC-T--T-ATTAATTTTTAGAATATTAATAAAATAGAATTATAT
253 AACAAATTTATTTTTTAAATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAGAATTATTT
* ** * * *
16113 TATTTCAAATAAGC-TA-GTACAGACAAAAATAATTGTTTTGTGATAAAAAAAAAGGTCATAATG
318 TATTTCAAATAAGCTTATGT-GA-ACTGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAATG
* * * ** ** *** *
16176 ATTTGAAATAGATAATTATTCGAACAGTCATAACTATTTGCAC-TGGTCAGGCCAATTGATTCAT
381 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTATTC-GGTAAACAAATT-TT
* * * *
16240 TTTTTAAATCTATTACTTATTAATTTCAAAATATTGATAAATTAGTATTACTTTATTCCGAATAA
444 TTTTTAAATCT-TTACTTATTAATTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAA
16305 GAC-TGTATGAATAGAAATAATTATTTT
508 G-CTTGTATGAATAGAAATAATTATTTT
* * * ** *
16332 ATGATAATAATAATGGTCATAATGATTTGAAATAA-ATAATTGTTCAAATAGTTATAACTAATTG
1 ATGACAA-AACAAAGGTCATAACAATTTGAAA-AAGATAATTGTTCAAATAGTCATAACT-ATTG
* ** * * * **
16396 AA-CTGGTTTAGTAAATAGT-TTTACTTTTTAAATTTTTTCTTTCTTAATTTTCAAAATATTAAT
63 AATC-GGTTCAAAAAACA-TATTTA-TTTTTAAA-TTTTTATTTATTAATTTT-TGAATATTAAT
* * * * *
16459 AAATTAATATTGTTTTATTCTGAACA-AA-CTTGTATGTACAAAAACATTTGTTTTATGACAAAA
123 AAATTTATATTATTTTATT-TGAA-ATAAGCTTGTATGAAC-AGAACAATTGTTTTATGACAAAA
* ** * *
16522 TAAAAGAACATAACGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGAA-TTGGTTA
185 CAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAACTT-GTTC
* * * * ** * * **
16586 GGCAAACTTAAA--TGTTTTTTAAATCTCTTGCTTATTAAGCTTTGAAATATTAATAAATTTGTT
249 GGTAAAC--AAATTTATTTTTTAAATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAGAA
* * ** * * ** *
16649 TTACTTTATTACAAATAAG-TTACTAAGAAATGAAAAAATTGTTTTACAACAAAACGAAAA-GTC
312 TTATTTTATTTCAAATAAGCTTA-TGTGAACTGAAACAATTGTTTTATGACAAAA-AAAAAGGTC
* * * * * * * *
16712 ATAATGATTTGAAATAAAAAATTGTTCATATA-CCCTGAAATATTTGAAC-TAGTTCAGTAAACA
375 ATAATGATTTGAAATAGATAATTATTCAAATAGTCAT-AACTATTTGAACTTA-TTCGGTAAACA
* * * * * *
16775 AATCTATTTTTTAAATTTATTAGTTATTAATTTTCAGAATATTATTATATTAGTATTATTTTATT
438 AAT-TTTTTTTTAAATCT-TTACTTATTAATTTT-AAAATATTAATAAATTAGTATTATTTTATT
* *
16840 TCGAATAAACTTGTGTGAATAGAAATAATTATTTT
500 TCGAATAAGCTTGTATGAATAGAAATAATTATTTT
* * * * *
16875 ATGATATAACAAAGGTTATAACAATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAA
1 ATGACAAAACAAAGGTCATAACAATTTGAAAAAGATAATTGTTCAAATAGTCATAACTA-TTGAA
* ** * * * *
16940 CCGGTTCAGTAAACAAATTAACTTTTTAAA--TCT-TTTATTAATTTTTGAA-ATTTAGTAAA-T
65 TCGGTTCAAAAAACATATTTA-TTTTTAAATTTTTATTTATTAATTTTTGAATA-TTAATAAATT
** * * *
17000 TAGTATTATTTTATTCCAAATAGGCTTGTATGATGA-AAAACAATTGCTTTATGACAAAACAAAA
128 TA-TATTATTTTATTTGAAATAAGCTTGTATGA--ACAGAACAATTGTTTTATGACAAAACAAAA
* * ** * *
17064 GTTCATAACGATTTGAAATAGATAATTATTCAAATAGCCATAATTATTTGAA-TAATTTGATAAA
190 GGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAACTTGTTCGGTAAA
* * ** * **
17128 CTAATTTATTTTTTAAAACTCCAACTTC-TTAATTTTTGAAATATTAATAAAGCA-ATATTATTT
255 CAAATTTATTTTTTAAATCTCTTAC-TCATTAATTTTTGGAATATTAATAAATTAGA-ATTATTT
* * ** * * * *
17191 TATTTTGAAAAAATTTTTATGT--ACTAAAACAGTTGTTTTATGATAAAATAAAAAGGTCATAAC
318 TA-TTTCAAATAA-GCTTATGTGAACTGAAACAATTGTTTTATGACAAAA-AAAAAGGTCATAAT
* * * *
17254 GATTTTAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAATAGA--TTT
380 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAAATTTTT
* * * * * *
17317 CTTTAAA-ATTT-CTTATTAATTTTCTAAATTTTAATAAATTAGTATTACTATATTTCGAATAAG
445 TTTTAAATCTTTACTTATTAATTTT-AAAATATTAATAAATTAGTATTATTTTATTTCGAATAAG
* *
17380 CATGTATGAACT-GAAACAATTATTTT
509 CTTGTATGAA-TAGAAATAATTATTTT
* * * * * * * * *
17406 TTGACTAAACAAAAGATCAAAATAATTTGGAATAGATAATTGTTCTAATAGTCTTAACTATTGGA
1 ATGACAAAAC-AAAGGTCATAACAATTTGAAAAAGATAATTGTTCAAATAGTCATAACTATT-GA
* * * ** *
17471 A-CTGCTTCGAAAAACACATTTATTTTTAAA----TCCTTATTAATTTTTGAAATAGTAATAAAT
64 ATC-GGTTCAAAAAACATATTTATTTTTAAATTTTTATTTATTAATTTTTG-AATATTAATAAAT
*** ** * * * *
17531 TGGCATTATTTTATTCT-AAATAATTTTGTATGAATAGAAACAATT-ATTTATAATAAAACAAAA
127 TTATATTATTTTATT-TGAAATAAGCTTGTATGAACAG-AACAATTGTTTTATGACAAAACAAAA
* * * * * * * * * *
17594 TGTCATAACAATTTAAAATAAATAA-CAGTTCAAATGGACATGACTATTTAAACTTGTTCGGTAA
190 GGTCATAACGATTTGAAATAGATAATTA-TTCAAATAGTCATAATTATTTGAACTTGTTCGGTAA
* * * * * * *
17658 ATAAATTTATTTTTTAAATATCTAACTTATTAATTTTTAGAATAATAATAAATTAGTATTATTTT
254 ACAAATTTATTTTTTAAATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAGAATTATTTT
* * * * * *
17723 ATTCCAAATAAACTTGTGTGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGATCATAAAGAT
319 ATTTCAAATAAGCTTATGTGAACT-GAAACAATTGTTTTATGACAAAAAAAAAGGTCATAATGAT
* * * *
17787 TTGACATATATAATTATTCAAATAGTAATAACTATTTGAACTTACTCGGTAAACCAAATTTTTTA
383 TTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTATTCGGTAAA-CAAATTTTTT-
* * *
17852 TTTAAATCTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTTCTAGTAAGC
446 TTTAAATCTTTACTTATTAATTTTA-AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGC
* **
17917 TTATATGAATAGAAATAATTGGTTT
510 TTGTATGAATAGAAATAATTATTTT
* * *
17942 ATGACAAAACAAATTGTCATAACGATTTGAAAAAGATAATTGTTCAAATAATCATAACTATTGAA
1 ATGACAAAACAAA-GGTCATAACAATTTGAAAAAGATAATTGTTCAAATAGTCATAACTATTGAA
** * *
18007 TATGTTCAAAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTTGGACTTTTAATAAATT
65 TCGGTTCAAAAAACATATTTATTTTT-AAATTTTTATTTATTAATTTTT-GAATATTAATAAATT
* * * *
18072 TATATTATTTTATTTGAAATAAGCTTGCATGAACAGAACTAAGTATTTTATGACAAAACAAATGG
128 TATATTATTTTATTTGAAATAAGCTTGTATGAACAGAAC-AATTGTTTTATGACAAAACAAAAGG
* * * * * *
18137 TCATAATGTTTTGAAATAGATAATTATTTAGATAGTCATAACTATTTGAACTTGTTTGGTAAACA
192 TCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAACTTGTTCGGTAAACA
* * * * **
18202 AATTCATTTTTTTAATTCTCTTACTCATTAATTTTTGGTAGATTAATAAATTAGAGCTATTTTAT
257 AATTTA-TTTTTTAAATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAGAATTATTTTAT
* * * * * * *
18267 TTCAAATAAGCTTATGTTAACTGAAACAATTATTTTATTACAAAATAGAAGGTCACAATTATTTG
321 TTCAAATAAGCTTATGTGAACTGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAATGATTTG
* * * * * *
18332 AAATAGATAATTATTCATATAGTCTTGACTATTTGAACTTGTTTGGTAAACATATTTATTTTTTA
386 AAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAAATTT-TTTTTTA
* * * * *
18397 AATCTTTCACTTATTAATTGTCAAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTTG
450 AATCTTT-ACTTATTAATT-TTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTG
* *
18462 TATGAATAGAAACAATTGTTTT
513 TATGAATAGAAATAATTATTTT
* * *
18484 ATTACAAAACAAAAAGTCGTAACAATT
1 ATGACAAAAC-AAAGGTCATAACAATT
18511 CTGTTTACAA
Statistics
Matches: 1712, Mismatches: 378, Indels: 174
0.76 0.17 0.08
Matches are distributed among these distances:
529 8 0.00
530 138 0.08
531 201 0.12
532 62 0.04
533 4 0.00
534 16 0.01
535 31 0.02
536 190 0.11
537 164 0.10
538 213 0.12
539 28 0.02
540 59 0.03
541 92 0.05
542 430 0.25
543 76 0.04
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (534 bp):
ATGACAAAACAAAGGTCATAACAATTTGAAAAAGATAATTGTTCAAATAGTCATAACTATTGAAT
CGGTTCAAAAAACATATTTATTTTTAAATTTTTATTTATTAATTTTTGAATATTAATAAATTTAT
ATTATTTTATTTGAAATAAGCTTGTATGAACAGAACAATTGTTTTATGACAAAACAAAAGGTCAT
AACGATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAACTTGTTCGGTAAACAAATT
TATTTTTTAAATCTCTTACTCATTAATTTTTGGAATATTAATAAATTAGAATTATTTTATTTCAA
ATAAGCTTATGTGAACTGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAATGATTTGAAATA
GATAATTATTCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAAATTTTTTTTTAAATCTT
TACTTATTAATTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATA
GAAATAATTATTTT
Found at i:18956 original size:181 final size:177
Alignment explanation
Indices: 18534--19138 Score: 567
Period size: 181 Copynumber: 3.4 Consensus size: 177
18524 TATTTCAAAT
* * * *
18534 AATTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCATATA
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
* * * * *
18599 AGTTTGTTTGGAATAAAATAATATTGATTTATTAATATTTCAAAAATTAATACGTAGGAGATTTA
66 A-TTTATTTGGAAT-AAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTA-GAGATTTA
* * * * * *
18664 AAAAATAAATTTGTTTGCCAT-ACCAATTC-AATTAGTATAACTATTT-AACC
128 AAAAATGAATCTGTTTG-CTTGACC-ATTCAAATAATTATGACTATTTGAA-C
* * ** *
18714 AAATATTTATTTCAAATCGTTATGACCAATTGTTTTATCATAAAACAATTGTTTCTGTTCATATA
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
* *
18779 ATATTATTTGGAATAAAGTAATGCTAATTTATTAATATTTTGAAAATTAATAAGTA-ATGGATTT
66 AT-TTATTTGGAATAAA-TAATACTAATTTATTAATATTTTAAAAATTAATAAGTAGA--GATTT
* * *
18843 AGAAAATGTACCT-TTTGGCTTGACCATTGCAAATAATTATGACTATTTGAAC
127 AAAAAATGAATCTGTTT-GCTTGACCATT-CAAATAATTATGACTATTTGAAC
* * * * * *
18895 AATTATCTTTTTCAAATCATTATGACCTTTTGTTTTCTTACAAAACAATTGTTTTTGTTCATACA
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
* *** * * *
18960 AGCTTATTCATAATAACATTATTCTAATTTATTAATATTCTAAAAATTAATAAGTGAGAGATTTA
66 A-TTTATTTGGAATAA-ATAATACTAATTTATTAATATTTTAAAAATTAATAAGT-AGAGATTTA
* *
19025 AAAAATGAATCTGTTT-ATTGAACAAGTTCAAATAATTATGACTATTTGAAC
128 AAAAATGAATCTGTTTGCTTG-ACCA-TTCAAATAATTATGACTATTTGAAC
* * * * * * * *
19076 AATTATCTAGTTCAAATTGCTATAACCTTTTGTGTTGTCATAAAATAATT-TTTTCTATTCATA
1 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTT-TGTTCATA
19139 CAAGCTTATT
Statistics
Matches: 347, Mismatches: 61, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
178 1 0.00
179 12 0.03
180 124 0.36
181 200 0.58
182 9 0.03
183 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (177 bp):
AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATATA
ATTTATTTGGAATAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTAGAGATTTAAAA
AATGAATCTGTTTGCTTGACCATTCAAATAATTATGACTATTTGAAC
Found at i:19616 original size:180 final size:179
Alignment explanation
Indices: 19190--20564 Score: 1210
Period size: 181 Copynumber: 7.6 Consensus size: 179
19180 TTATGATTGA
* * ** * * *
19190 AACAATTTATTTATTTCAAATCGTTATGACTTTTTGTTTTTGTCATAAAATGATTATTTTTGTTC
1 AACAA-TTATCTATTTCAAATCGTTATGACCTTTTG-TTTTGTCATAAAACAATTGTTTCTATTC
* * * * *
19255 ATATTAA-CTTATTC-ATATTAAAATAATATTAATTTATTAATATTTCAACAATTAATAAGTAAA
64 ATA-CAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGTAAG
* * * * *
19318 AGATTTAAAAAATAAATATGTTTACCAAAC-AGTTCAAATAGTAATAACTATATG
126 AGATTTAAAAAATAAATCTGTTTACCGAACAAGTT-AAATAGTTATGACTATTTG
* * * * *
19372 AATAATTATCTATTTCAAA-CGTTATGACCTTTTGTTTTGCCATAAAACAATTATATCAATTCAT
1 AACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT
* * * * * * *
19436 ATAGGCATATTCGAAATAAAATAATACTAACTTATTACTATTCCAAAATTAATGAGTAAGAGATT
66 ACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAGAGATT
* * *
19501 TAAAAAATGAATCTATTTACCAAACAAGTCTAAATAGTTATGACTATTTG
131 TAAAAAATAAATCTGTTTACCGAACAAGT-TAAATAGTTATGACTATTTG
* *
19551 AACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTATTCAT
1 AACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT
* * *
19616 ACAAGCTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCCAAAGATTAATAAGTAA-AA
66 ACAAGCTTA-TTCGAAATAAAATAATACT-AATTTATTAATATT-CAAAAATTAATAAGTAAGAG
* * * *** * * *
19678 ATATATAAAATAAATTTGTTTTTTGAACATGTTCAAAATAATTATGACCATTTG
128 ATTTAAAAAATAAATCTGTTTACCGAACAAGTT--AAATAGTTATGACTATTTG
* * * *
19732 CACAATTATCTATTTCAAATCATCATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTATTCAT
1 AACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT
* * * * * * *
19797 AAAAGCTTATACAAAATAAAATAATACTAATTTATTAAAATTTCAAAAATTTATAAGTAAAATAT
66 ACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGTAAGAGAT
* *** * *
19862 TTAAAAAATAAATTTGTTTACCGAGTGAGTTCAAATTA-TTATGACTGTTTA
130 TTAAAAAATAAATCTGTTTACCGAACAAGTT-AAA-TAGTTATGACTATTTG
* * * * * *
19913 AATAATTATTTATTTCAAATCGTTATAATCC-TCTGTTTTGTAATAAAACAATTGCTTCTATTCA
1 AACAATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCA
** * * *
19977 TACAAAATTATTCAAAATAAAATAATATTAATTTATTAATATTTTAAAAATTAAT-AG---GAGA
65 TACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGTAAGAGA
* * * ** *
20038 TTTAAAAACTATATCCGTTTATTGGATCAA-TTCAAATAGTTATGACTATTTG
129 TTTAAAAAATAAATCTGTTTA-CCGAACAAGTT-AAATAGTTATGACTATTTG
* * * * * * *
20090 AATAATTATCTATCTCAAATTGGTATGATC-TTTGTTTTGTCATAAAATAATTGTTTCTATCCAT
1 AACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT
* * * * * ** *
20154 ACAAACTTATTCGGAGTAAAATATTGCTAAACTAATAATATTCTAAAAATTAATAAGTAAGAGAT
66 ACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTC-AAAAATTAATAAGTAAGAGAT
* * * *** * *
20219 TTAATAAATAAATGTATTTGTTGAACCAGTTCAAATAGTTAAGACTATTAT-
130 TTAAAAAATAAATCTGTTTACCGAACAAGTT-AAATAGTTATGACTATT-TG
* * * * * * *
20270 AATAATTATCTATTTCAAATCATTCTGACCTTTTGTTTAGTTATAAAATAATTG-TT-TAGTTGA
1 AACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCA
* * * *
20333 TACATGCTTATTCGAAATAAAATAATACTATTTTATTAACATTCAAAAAATTAATAAGCAAGCA-
65 TACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTC-AAAAATTAATAAGTAAG-AG
* *
20397 A-TTAAAAAATAAATCTGTTTACCAAACAAGTTTAAATAGTTATGACTATTTA
128 ATTTAAAAAATAAATCTGTTTACCGAACAAG-TTAAATAGTTATGACTATTTG
* * *
20449 AACAATTATC-ATTTTAAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTGTTTC-ATTTC
1 AACAATTATCTA-TTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTC
* * * * * *
20512 ATAAAAGTTTATCCAAAATAAAATAATATTACTTTATTAATATTTCAAAAATT
64 ATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TTCAAAAATT
20565 GAGAAATAAT
Statistics
Matches: 965, Mismatches: 194, Indels: 70
0.79 0.16 0.06
Matches are distributed among these distances:
175 2 0.00
176 72 0.07
177 61 0.06
178 50 0.05
179 178 0.18
180 277 0.29
181 289 0.30
182 36 0.04
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (179 bp):
AACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT
ACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAGAGATT
TAAAAAATAAATCTGTTTACCGAACAAGTTAAATAGTTATGACTATTTG
Found at i:20572 original size:36 final size:36
Alignment explanation
Indices: 20532--20605 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
20522 ATCCAAAATA
* *
20532 AAATAATATTACTTTATTAATATTTCAAAAATTGAG
1 AAATAATATTACTTTATTAATATGTCAAAAATTAAG
20568 AAATAATATTACTTTATTAATATGTCAAAAATTAAG
1 AAATAATATTACTTTATTAATATGTCAAAAATTAAG
20604 AA
1 AA
20606 GTTGGAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (36 bp):
AAATAATATTACTTTATTAATATGTCAAAAATTAAG
Found at i:20927 original size:171 final size:171
Alignment explanation
Indices: 20642--20967 Score: 413
Period size: 171 Copynumber: 1.9 Consensus size: 171
20632 TTATTGAATC
* * * * *
20642 AGTTCAAATAGTTATGGCCATTTAAACAATTATCTATTTCAAATCATTTTAAACTTTTGTTTTGT
1 AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATAAACTTTTGTTTTCT
* * * * * *
20707 CATAAAAAAATTGTTTTTCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATAT
66 CATAAAAAAATTATTTATCATCATACAAGCCTAATTAGAAGAAAATAATACTAATCTAATAATAT
*
20772 T-TCAAAAATTAATAAGTAGGAGATTATCTGTTTACTGAACT
131 TAT-AAAAATTAATAAGTAAGAGATTATCTGTTTACTGAACT
* * *
20813 AGTTCAAATAATTATGACTATTTAAACAATTATATATTTCAAGTCATTATAACCTTTTGTTTTCT
1 AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATAAACTTTTGTTTTCT
* ** * * *
20878 CATAAAACAATTATTTATGTTCATATAAG-CTTATTCGAAAGAAAATAATACTAATCTAATAATA
66 CATAAAAAAATTATTTATCATCATACAAGCCTAATTAG-AAGAAAATAATACTAATCTAATAATA
* *
20942 TTATGAAAATTAATAATTAAGAGATT
130 TTATAAAAATTAATAAGTAAGAGATT
20968 TGAAAAATAA
Statistics
Matches: 130, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
170 6 0.05
171 123 0.95
172 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (171 bp):
AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATAAACTTTTGTTTTCT
CATAAAAAAATTATTTATCATCATACAAGCCTAATTAGAAGAAAATAATACTAATCTAATAATAT
TATAAAAATTAATAAGTAAGAGATTATCTGTTTACTGAACT
Found at i:21685 original size:18 final size:18
Alignment explanation
Indices: 21635--21689 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
21625 TTAATATTGC
* *
21635 TATTTATTTAAGAAATAT
1 TATTAATTTAAGTAATAT
*
21653 T-TTAAATATAA-TAATAT
1 TATT-AATTTAAGTAATAT
21670 TATTAATTTAAGTAATAT
1 TATTAATTTAAGTAATAT
21688 TA
1 TA
21690 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TATTAATTTAAGTAATAT
Found at i:24094 original size:19 final size:19
Alignment explanation
Indices: 24070--24165 Score: 60
Period size: 18 Copynumber: 5.1 Consensus size: 19
24060 TAATTAATAC
24070 ATAATCATATTAAATTATT
1 ATAATCATATTAAATTATT
*
24089 ATAATCATGATTATAATTCAAT
1 ATAATCAT-ATTA-AATT-ATT
* * *
24111 ATCATAATATTGAATTA--
1 ATAATCATATTAAATTATT
*
24128 ATAA-CA-ATTCATATTATT
1 ATAATCATATT-AAATTATT
24146 ATAAT-ACTATTAAA-TATT
1 ATAATCA-TATTAAATTATT
24164 AT
1 AT
24166 TTAATATATA
Statistics
Matches: 59, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 3 0.05
18 11 0.19
19 11 0.19
20 11 0.19
21 7 0.12
22 8 0.14
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAATCATATTAAATTATT
Found at i:24321 original size:22 final size:20
Alignment explanation
Indices: 24287--24328 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
24277 TTATTTAATT
24287 TTAATAATCAATTTAAAATATA
1 TTAATAATCAA-TT-AAATATA
24309 TTAATAGAT-AATTAAATATA
1 TTAATA-ATCAATTAAATATA
24329 ATGCAAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 8 0.42
23 2 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAATAATCAATTAAATATA
Found at i:24476 original size:14 final size:14
Alignment explanation
Indices: 24454--24483 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24444 ATAAAACTAA
*
24454 ATAATTATATTATT
1 ATAAATATATTATT
24468 ATAAATATATTATT
1 ATAAATATATTATT
24482 AT
1 AT
24484 CTTAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAAATATATTATT
Found at i:24643 original size:21 final size:20
Alignment explanation
Indices: 24596--24644 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
24586 CATAATACTA
*
24596 ATTTTAATCTATTATAATTT
1 ATTTTAATCAATTATAATTT
24616 A-TTTAAT-AATTATAATTAAT
1 ATTTTAATCAATTATAATT--T
24636 ATTTTAATC
1 ATTTTAATC
24645 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 3 0.12
21 6 0.25
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAATCAATTATAATTT
Found at i:24954 original size:17 final size:17
Alignment explanation
Indices: 24908--24960 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
24898 TTATTAAAAT
24908 ATATTAATAA--TATTA
1 ATATTAATAATTTATTA
24923 ATA-TAATAATATTATTA
1 ATATTAATAAT-TTATTA
24940 ATATTAATAATTTATTCA
1 ATATTAATAATTTATT-A
24958 ATA
1 ATA
24961 GCCATTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
17 13 0.39
18 11 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAATAATTTATTA
Found at i:24986 original size:19 final size:19
Alignment explanation
Indices: 24964--25002 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24954 TTCAATAGCC
*
24964 ATTAATA-ATATTGTTAATT
1 ATTAATACA-ATTATTAATT
24983 ATTAATACAATTATTAATT
1 ATTAATACAATTATTAATT
25002 A
1 A
25003 ATGATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAATACAATTATTAATT
Found at i:25490 original size:181 final size:180
Alignment explanation
Indices: 25264--26095 Score: 821
Period size: 181 Copynumber: 4.6 Consensus size: 180
25254 TATCTCGAAT
* * * *
25264 AGAAAAAATTGTTTTATGA-TAAAATAAAAGATCATAACGATTTGAAATAAATAATTATTCAAAT
1 AGAAACAATTGTTTTATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * *
25328 AGTCATAACTATTTGAACTTGCTCGGTAAACAGATTTATTTTTAAATCTTTTAGTTATTAATTTT
66 AGTCATAACTATTTGAACTTGTTCGGTAAACATATTTATTTTTAAATCTTTTACTTATTAATTTT
* * * * *
25393 TGGAATTTTAATAAATTAGTACTATTTTATTTCAAAAAAGCTTTTATGACC
131 TGAAATATTAATAAATTAGTATTATTTTA-TTCAAAAAAGCTTGTATGAAC
* *
25444 AGAAACAATTGGTTTATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTCTTCAAAT
1 AGAAACAATTGTTTTATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * *
25509 AGTCATAACTATTTGAACGTGTTCAGAAAACATATTTATTTTTTAAA-ATTTTACTTATTAAATT
66 AGTCATAACTATTTGAACTTGTTCGGTAAACATATTTA-TTTTTAAATCTTTTACTTATTAATTT
* * * *
25573 TTGAAATATTAATAAATTTA-AATTATTTTATTCGAAATAGCTTGCATGAAC
130 TTGAAATATTAATAAA-TTAGTATTATTTTATTCAAAAAAGCTTGTATGAAC
* * *
25624 A-AAGCCAATTGTTTTATGAC-AAAATAAAAGGTCATAA-TATTTTGAAATAGATAATTGTTCAA
1 AGAA-ACAATTGTTTTATGACAAAAATAAAAGGTCATAACGA-TTTGAAATAGATAATTATTCAA
* * * * * *
25686 ATAGTAATAACTATTTGAACTTATTCGGTAAAAATATTCT-TTTTCTAATTCTCTTACTCATTAA
64 ATAGTCATAACTATTTGAACTTGTTCGGTAAACATATT-TATTTT-TAAATCTTTTACTTATTAA
* * * * *
25750 TTTTTGGAATATTAATAAATTAGTATTATCTTACTTCAAATAAGCTTATATGAAT
127 TTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCAAAAAAGCTTGTATGAAC
* * * * * * *
25805 TGAAACAAGTGTTTTAT--TAGAAAGAAAAGGTCATAATGATTTGAAATAGATAATTATTGAAAT
1 AGAAACAATTGTTTTATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * ** *
25868 ATTAATGACTATTTGAACTTTTTTAGTAAATATATTTATTTTTTAAATCTTTTACTTATTAA-TT
66 AGTCATAACTATTTGAACTTGTTCGGTAAACATATTTA-TTTTTAAATCTTTTACTTATTAATTT
* * * * * *
25932 ATCAAATATTAATTAATTAATATTATTTTAATTCGAATAAA-CTTGTATGAAT
130 TTGAAATATTAATAAATTAGTATTATTTT-ATTC-AAAAAAGCTTGTATGAAC
* * * **
25984 AGAAATAATTGTTTTATGACAAAACA-AAAA-ATCATAAAC-ATGTTGAAATAAATAATTGCTCA
1 AGAAACAATTGTTTTATGACAAAA-ATAAAAGGTCAT-AACGAT-TTGAAATAGATAATTATTCA
* * * * *
26046 AATAGCCATAA-TGATTAGAACTTGTTTGGTAAACAGATTTATTTTCAAAT
63 AATAGTCATAACT-ATTTGAACTTGTTCGGTAAACATATTTATTTTTAAAT
26096 AGGTAATTAT
Statistics
Matches: 534, Mismatches: 95, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
178 5 0.01
179 131 0.25
180 188 0.35
181 196 0.37
182 14 0.03
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (180 bp):
AGAAACAATTGTTTTATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
AGTCATAACTATTTGAACTTGTTCGGTAAACATATTTATTTTTAAATCTTTTACTTATTAATTTT
TGAAATATTAATAAATTAGTATTATTTTATTCAAAAAAGCTTGTATGAAC
Found at i:25856 original size:180 final size:180
Alignment explanation
Indices: 25260--26090 Score: 831
Period size: 180 Copynumber: 4.6 Consensus size: 180
25250 TTACTATCTC
* * * *
25260 GAATAGAAAAAATTGTTTTATGATAAAATAAAAGATCATAACGATTTGAAATAAATAATTATTCA
1 GAATAGAAACAATTGTTTTATGACAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCA
* * * * * *
25325 AATAGTCATAACTATTTGAACTTGCTCGGTAAACAGATTTA-TTTTTAAATCTTTTAGTTATTAA
66 AATAGTAATAACTATTTGAACTTGTTCAGTAAAAATATTTATTTTTTAAATCTTTTACTTATTAA
* * * * *
25389 TTTTTGGAATTTTAATAAATTAGTACTATTTTATTTCAAAAAAGCTTTTAT
131 TTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCAAATAAGCTTGTAT
** * *
25440 GACCAGAAACAATTGGTTTATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTCTTC
1 GAATAGAAACAATTGTTTTATGAC-AAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTC
* * *
25505 AAATAGTCATAACTATTTGAACGTGTTCAG-AAAACATATTTATTTTTTAAA-ATTTTACTTATT
65 AAATAGTAATAACTATTTGAACTTGTTCAGTAAAA-ATATTTATTTTTTAAATCTTTTACTTATT
* * *
25568 AAATTTTGAAATATTAATAAATTTA-AATTATTTTATTCGAAAT-AGCTTGCAT
129 AATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTC-AAATAAGCTTGTAT
* * * *
25620 GAACA-AAGCCAATTGTTTTATGACAAAATAAAAGGTCATAA-TATTTTGAAATAGATAATTGTT
1 GAATAGAA-ACAATTGTTTTATGACAAAATAAAAGGTCATAACGA-TTTGAAATAGATAATTATT
* * * * * *
25683 CAAATAGTAATAACTATTTGAACTTATTCGGTAAAAATATTCT-TTTTCTAATTCTCTTACTCAT
64 CAAATAGTAATAACTATTTGAACTTGTTCAGTAAAAATATT-TATTTTTTAAATCTTTTACTTAT
* * *
25747 TAATTTTTGGAATATTAATAAATTAGTATTATCTTACTTCAAATAAGCTTATAT
128 TAATTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCAAATAAGCTTGTAT
* * * * * * *
25801 GAATTGAAACAAGTGTTTTATTA-GAAAGAAAAGGTCATAATGATTTGAAATAGATAATTATTGA
1 GAATAGAAACAATTGTTTTATGACAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCA
* * * * *
25865 AATATTAATGACTATTTGAACTTTTTTAGTAAATATATTTATTTTTTAAATCTTTTACTTATTAA
66 AATAGTAATAACTATTTGAACTTGTTCAGTAAAAATATTTATTTTTTAAATCTTTTACTTATTAA
* * * * * *
25930 -TTATCAAATATTAATTAATTAATATTATTTTAATTCGAATAAACTTGTAT
131 TTTTTGAAATATTAATAAATTAGTATTATTTT-ATTCAAATAAGCTTGTAT
* * ** * **
25980 GAATAGAAATAATTGTTTTATGACAAAACAAAAAATCATAAAC-ATGTTGAAATAAATAATTGCT
1 GAATAGAAACAATTGTTTTATGACAAAATAAAAGGTCAT-AACGAT-TTGAAATAGATAATTATT
** * ** * *
26044 CAAATAGCCATAA-TGATTAGAACTTGTTTGGTAAACAGATTTATTTT
64 CAAATAGTAATAACT-ATTTGAACTTGTTCAGTAAAAATATTTATTTT
26091 CAAATAGGTA
Statistics
Matches: 536, Mismatches: 94, Indels: 41
0.80 0.14 0.06
Matches are distributed among these distances:
178 1 0.00
179 138 0.26
180 197 0.37
181 187 0.35
182 13 0.02
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (180 bp):
GAATAGAAACAATTGTTTTATGACAAAATAAAAGGTCATAACGATTTGAAATAGATAATTATTCA
AATAGTAATAACTATTTGAACTTGTTCAGTAAAAATATTTATTTTTTAAATCTTTTACTTATTAA
TTTTTGAAATATTAATAAATTAGTATTATTTTATTCAAATAAGCTTGTAT
Found at i:25968 original size:360 final size:359
Alignment explanation
Indices: 25264--26095 Score: 960
Period size: 360 Copynumber: 2.3 Consensus size: 359
25254 TATCTCGAAT
* * *
25264 AGAAAAAATTGTTTTATGATAAAATAAAAGATCATAACGA-TTTGAAATAAATAATTATTCAAAT
1 AGAAACAATTGTTTTATGACAAAATAAAAGATCATAAC-ATTTTGAAATAAATAATTGTTCAAAT
* * * * * *
25328 AGTCATAACTATTTGAACTTGCTCGGTAAACAGATTTATTTTTAAATCTTTTAGTTATTAATTTT
65 AGTAATAACTATTTGAACTTACTCGGTAAAAAGATTTATTTTTAAATCTCTTACTCATTAATTTT
* * * * * *
25393 TGGAATTTTAATAAATTAGTACTATTTTATTTCAAAAAAGCTTTTATGACCAGAAACAATTGGTT
130 TGGAATATTAATAAATTAGTACTATCTTACTTCAAAAAAGCTTATATGAACAGAAACAAGTGGTT
* * *
25458 TATGACAAAAATAAAAGGTCATAACGATTTGAAATAGATAATTCTTCAAATAGTCATAACTATTT
195 TAT-ACAAAAAGAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTAATAACTATTT
* *
25523 GAACGTGTTCAGAAAACATATTTATTTTTTAAAATTTTACTTATTAAATTTTGAAATATTAATAA
259 GAACGTGTTCAGAAAACATATTTATTTTTTAAAATTTTACTTATTAAATTATCAAATATTAATAA
*
25588 ATTTAAATTATTTTATTCGAA-ATAGCTTGCATGAAC
324 ATTTAAATTATTTTATTCGAATA-AACTTGCATGAAC
* * * *
25624 A-AAGCCAATTGTTTTATGACAAAATAAAAGGTCATAATATTTTGAAATAGATAATTGTTCAAAT
1 AGAA-ACAATTGTTTTATGACAAAATAAAAGATCATAACATTTTGAAATAAATAATTGTTCAAAT
* * *
25688 AGTAATAACTATTTGAACTTATTCGGTAAAAATATTCT-TTTTCTAATTCTCTTACTCATTAATT
65 AGTAATAACTATTTGAACTTACTCGGTAAAAAGATT-TATTTT-TAAATCTCTTACTCATTAATT
* * ** *
25752 TTTGGAATATTAATAAATTAGTATTATCTTACTTCAAATAAGCTTATATGAATTGAAACAAGTGT
128 TTTGGAATATTAATAAATTAGTACTATCTTACTTCAAAAAAGCTTATATGAACAGAAACAAGTGG
* * * * * *
25817 TTTAT-TAGAAAGAAAAGGTCATAATGATTTGAAATAGATAATTATTGAAATATTAATGACTATT
193 TTTATACAAAAAGAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTAATAACTATT
* * * * * *
25881 TGAACTTTTTTAGTAAATATATTTATTTTTTAAATCTTTTACTTATT-AATTATCAAATATTAAT
258 TGAACGTGTTCAGAAAACATATTTATTTTTTAAA-ATTTTACTTATTAAATTATCAAATATTAAT
* * *
25945 TAA-TTAATATTATTTTAATTCGAATAAACTTGTATGAAT
322 AAATTTAA-ATTATTTT-ATTCGAATAAACTTGCATGAAC
* * * * *
25984 AGAAATAATTGTTTTATGACAAAACAAAAAATCATAAACATGTTGAAATAAATAATTGCTCAAAT
1 AGAAACAATTGTTTTATGACAAAATAAAAGATCAT-AACATTTTGAAATAAATAATTGTTCAAAT
** * ** * * *
26049 AGCCATAA-TGATTAGAACTTGTTTGGTAAACAGATTTATTTTCAAAT
65 AGTAATAACT-ATTTGAACTTACTCGGTAAAAAGATTTATTTTTAAAT
26096 AGGTAATTAT
Statistics
Matches: 394, Mismatches: 66, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
358 4 0.01
359 107 0.27
360 147 0.37
361 136 0.35
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (359 bp):
AGAAACAATTGTTTTATGACAAAATAAAAGATCATAACATTTTGAAATAAATAATTGTTCAAATA
GTAATAACTATTTGAACTTACTCGGTAAAAAGATTTATTTTTAAATCTCTTACTCATTAATTTTT
GGAATATTAATAAATTAGTACTATCTTACTTCAAAAAAGCTTATATGAACAGAAACAAGTGGTTT
ATACAAAAAGAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTAATAACTATTTGA
ACGTGTTCAGAAAACATATTTATTTTTTAAAATTTTACTTATTAAATTATCAAATATTAATAAAT
TTAAATTATTTTATTCGAATAAACTTGCATGAAC
Found at i:27174 original size:176 final size:174
Alignment explanation
Indices: 26166--27357 Score: 712
Period size: 176 Copynumber: 6.7 Consensus size: 174
26156 AATCTCTTCA
* * * * *
26166 TTATTAATTTTTGGATTATTAATAAATTAATATTATTTTATTT-TGAATAAGCTTATATGAACTG
1 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCT-AATAAGCTTGTATG-A-TA
* * ** * * * *
26230 AAACAACTCCTTTTATGACAAATCAAAAGGTCATAAACGATTTGAAATAGATAATTATTCAAATT
63 AAAAAAATTGTTTTATGACAAA-CAAAAAGTCAT-AATGATTTGAAATAGATAATTGTTCAAATA
* ** * * *
26295 GTCATAATTATTTGATCTAGAAGTGGT-AA-ACA-T-A-TTTTAAAATTTT
126 GTCATAATTATTTGAACT--ATTTGGTAAATAGATTCATTTTTTAAATCTT
** * * * *
26341 TTACTTACTAATTGTTCAAAATATTAATAAATTAGTATTCTTTTAATGCAAATAAGCTTGTATGA
1 TTA--T--TAATT-TTTGAAATATTAATAAATTAGTATTATTTTATTTCTAATAAGCTTGTATG-
* * ** * * **
26406 ATAGAAACAATTGTTTTACAACAAAACAAAAAGTCATAAT-ATTTGAAATAAACAATTGCCCAAA
60 ATAAAAAAAATTGTTTTATGAC-AAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAA
* * * * * **
26470 TAGTCATAATTATTTGAACTAGTTTGATATATAGATTTATTGTCTAAATCAA
124 TAGTCATAATTATTTGAACTA-TTTGGTAAATAGATTCATTTTTTAAATCTT
* * * * * *
26522 TTATTAATTTTTGAAATATTAATATATTAGTATTACTTTATTCCCGAATAAAC-TATATGA-ACG
1 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT-TCTAATAAGCTTGTATGATA--
* * * * *
26585 AAAACATTTGTTGTATGACAAA-AAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATAGT
63 AAAAAAATTGTTTTATGACAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGT
* * * *
26649 -ATAATTTTTTGAACTAGTTAGGTGAACAGAATT-ATTTTTTAAATCTCT
128 CATAATTATTTGAACTA-TTTGGTAAATAG-ATTCATTTTTTAAATCT-T
* * * * * *
26697 TACTATT-TTTTTTGAAACATTAATAAATTCA-TTTTATTTTAGTTCGAATAAGCTAGTATGA-A
1 T--TATTAATTTTTGAAATATTAATAAATT-AGTATTATTTTATTTCTAATAAGCTTGTATGATA
** * * * * *
26759 TTGAGAAATTGTTTTATGATAAGACAAAAGGTCATAATGAATTTGAAATAGATAATTATTCATAT
63 -AAAAAAATTGTTTTATGACAA-ACAAAAAGTCATAATG-ATTTGAAATAGATAATTGTTCAAAT
* * * * * * * *
26824 AGTCTTAACTA-TTGAATTGGTTCGGTCAAACAAATTTTATTTTTTTAAATCCTT
125 AGTCATAATTATTTGAACT-ATTTGGT-AAATAGA-TTCA-TTTTTTAAAT-CTT
* * * *
26878 AGTTATTAATTTTTTGGAATATTATTAGATTAGTATTGTTTTATTT-TGAATAAGCTTGTATGAA
1 --TTATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTCT-AATAAGCTTGTATG-A
* * * * * * *
26942 TAGAAATAATTGTTTAATGACATTAA-AAAATGTTATAATGA-TT-AAAGTACATAATTGTTTAA
61 TAAAAAAAATTGTTTTATGACA--AACAAAAAGTCATAATGATTTGAAA-TAGATAATTGTTCAA
* *
27004 ATAGTCATAACTATTTAAACTGATTTGGTAAATAGATTCATTTTTTAAATCTT
123 ATAGTCATAATTATTTGAACT-ATTTGGTAAATAGATTCATTTTTTAAATCTT
* * * * *
27057 TTATTAATTTTTAAAAGATTAATAAATTATTATTATTTTATTTCTAATAATCATGTATGATAAAA
1 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCTAATAAGCTTGTATGATAAAA
* * * * *
27122 AAAATTGTTATATGACCAAACAAAAGGTGATAATGATTTGAAATAGATAATTGTTGAAAT-GACC
66 AAAATTGTTTTATGA-CAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAG-TC
* * * * *
27186 ATAATTATTTAAACTAATTTTGCATATAGATTCACTTTTTAAAATCACTT
129 ATAATTATTTGAACT-ATTTGGTAAATAGATTCA-TTTTTTAAAT--CTT
* *
27236 ACTTATTAATTTTTGGAATATTAATAAATTA-AATTAATTTTATTT-TGAATAAGCTTGTATGAC
1 --TTATTAATTTTTGAAATATTAATAAATTAGTATT-ATTTTATTTCT-AATAAGCTTGTATGA-
** * * * *
27299 T-AAAGCAATTATTTTATGAC--A-AAACA-TCATAATGATTTAAAATAGACAATTGTTCAAAT
61 TAAAAAAAATTGTTTTATGACAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAAT
27358 GGTTGTACTA
Statistics
Matches: 788, Mismatches: 170, Indels: 117
0.73 0.16 0.11
Matches are distributed among these distances:
174 48 0.06
175 89 0.11
176 203 0.26
177 91 0.12
178 42 0.05
179 45 0.06
180 61 0.08
181 92 0.12
182 34 0.04
183 53 0.07
184 27 0.03
185 2 0.00
186 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (174 bp):
TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCTAATAAGCTTGTATGATAAAA
AAAATTGTTTTATGACAAACAAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCAT
AATTATTTGAACTATTTGGTAAATAGATTCATTTTTTAAATCTT
Found at i:28044 original size:178 final size:174
Alignment explanation
Indices: 27430--28819 Score: 604
Period size: 178 Copynumber: 7.8 Consensus size: 174
27420 ATTATTTTTA
* * * * **
27430 TTTTGGATAAGCTTTTATGAATT-GAAACAATTGTTTTATGTCAAA-ACAAAAGGTCATAACGAT
1 TTTTGAATAAGCTTGTATG-ATTAGAAACAATTGTTTTATGACAAATA-AAAAGGTTATAAAAAT
* * * ** * * * *
27493 TTTATAAAAATAATTAATCACAATAGTCACAACTT-TTTAAACTTGCTTGGTAAACAAATTTATT
64 TTGA-ATAGATAATTGTTCA-AATAGTAATAA-TTATTTGAAC-TGATTGGTAAACAAATTTATT
* ** * * * * *
27557 TTTCAAATCTT-TTACTTATTAATTTCCAAATGTTCATAAATTTGGATTATTT
125 TTTTAAAT-TTCTTA-TTATT-ATTTTGAAATATTAATAAATTAGTATAATTT
** * * * * * * *
27609 TATTCCAAATAAGCTTATAAGA-CATGAAACAAATATTTTATGACTAAA-CAAAAGGTT-TGAAC
1 T-TT-TGAATAAGCTTGTATGATTA-GAAACAATTGTTTTATGAC-AAATAAAAAGGTTAT-AAA
* * * * ** * * * * * * *
27671 TATTTGAAATAGATAATTATTCTAATTGTTTTTACTATTTGAACTGGTTTAGCAAACATATTTAA
61 AATTTG-AATAGATAATTGTTCAAATAGTAATAATTATTTGAACT-GATTGGTAAACAAATTTAT
* * * *
27736 TTTTTAAATCTCCTTATTAAT-TTTTG-AATATT-ATTAATTAGTATTATTT
124 TTTTTAAAT-TTCTTATTATTATTTTGAAATATTAATAAATTAGTATAATTT
* * * ** * *
27785 TTAATTGAATAGGCTTCTATGATTTAGAAACAATTGTTTTATGACAAAACAAAAACTTTTTAACA
1 TT--TTGAATAAGCTTGTATGA-TTAGAAACAATTGTTTTATGAC-AAATAAAAAGGTTATAAAA
* * *
27850 ATTTGAGATTGATAATTGTTCAAATAGTTAGAATTATTTGAACTAGATTGGTAAACAAATTTATT
62 ATTTGA-ATAGATAATTGTTCAAATAGTAATAATTATTTGAACT-GATTGGTAAACAAATTTATT
* * *
27915 GTTTAAATTTGTTACTTATTATTTTGAAATATTAATCAATTAGTATAATTT
125 TTTTAAATTTCTTA-TTATTATTTTGAAATATTAATAAATTAGTATAATTT
* **
27966 ATTTTGAATAAGCTTGTATGATTAAAAACAATTGTGTTT-TGACAAATAAAAAGGTTATAATGAT
1 -TTTTGAATAAGCTTGTATGATTAGAAACAATTGT-TTTATGACAAATAAAAAGGTTATAAAAAT
* * * ** * * *
28030 TTGCAATAGATAATTATTCAGATGGCCATAATTATTTTAACTGATTTGGTAAATAGATTTATTTT
64 TTG-AATAGATAATTGTTCAAATAGTAATAATTATTTGAACTGA-TTGGTAAACAAATTTATTTT
* *
28095 TTAAATTTCTTATTA--ATTTAGGAAATATTAATAAATTAGTATTATTT
127 TTAAATTTCTTATTATTATTT-TGAAATATTAATAAATTAGTATAATTT
** * * * *
28142 TATTCCATCTAAGCTTGTATTAACT-GAAACAATTGTTTTATGACAAATTAAAAGGTTATAAACA
1 T-TTTGA-ATAAGCTTGTA-TGATTAGAAACAATTGTTTTATGACAAATAAAAAGGTTATAAA-A
* * * * * *
28206 TTTTTAAATAGACAATTGTTCAAATAATAATAACTATTTGAACTTG-TTCGGCAAACAAATTTAT
62 -ATTTGAATAGATAATTGTTCAAATAGTAATAATTATTTGAAC-TGATT-GGTAAACAAATTTAT
* * * *
28270 TTTTTAAATCTCTTATTAAT-TTTTCAAATGTTAATAAATTAGTATTAATTT
124 TTTTTAAATTTCTTATTATTATTTTGAAATATTAATAAATTAGTA-TAATTT
* * * * * *
28321 ATTCTGAATAAGCTTGT-TGAATT-GAAACAACTGTTTTATGACTAA-AAAATGGTCA-AAATGA
1 -TTTTGAATAAGCTTGTATG-ATTAGAAACAATTGTTTTATGACAAATAAAAAGGTTATAAA-AA
* * * ** * * * * * *
28382 TTTGAAGTATATAATTATTCTAATAGTCTTAACTGTTTGAAATGATTCGATAGATAAATTTATTT
63 TTTGAA-TAGATAATTGTTCAAATAGTAATAATTATTTGAACTGATT-GGTAAACAAATTTATTT
* ** *
28447 TTTAAATCTCTTACTTATTAATTTTTTTAATATT-ATGAAATTAGTATTATTT
126 TTTAAATTTCTTA-TTATT-A-TTTTGAAATATTAAT-AAATTAGTATAATTT
* ** ** * * *
28499 TAATATGAATAAGCTTGTACAAACA-AAACAATTGTTTTATGACAAA-GAAAAGATCATAACAAA
1 T--TTTGAATAAGCTTGTATGATTAGAAACAATTGTTTTATGACAAATAAAAAGGTTATAA-AAA
** * * ** * * * ** *
28562 -TTGAAATAGATAATCATTTATATAGTTTTAACTATTTGAATTGGTTCGGTAATTAGATTTATTT
63 TTTG-AATAGATAATTGTTCAAATAGTAATAATTATTTGAACTGATT-GGTAAACAAATTTA--T
* * * * * * *
28626 TTTTTAATTTTTTTGGTTATTAAGTTTTGGAATATTATTAAATT-GCATTATTT
124 TTTTTAAATTTCTT-ATTATT-A-TTTTGAAATATTAATAAATTAGTATAATTT
** * * * * * **
28679 TATTTCGAATAAAATAGTATAAATAG-AACAAATTATTTGATGACAAA-ATAAAAGGTTATAATG
1 T-TTT-GAATAAGCTTGTATGATTAGAAAC-AATTGTTTTATGACAAATA-AAAAGGTTATAAAA
* * * * * * * *
28742 ATTTGAAATAGATAATTATTCAAATAGTCAA-AACTATTGGAAATGTTTGGTAAGCAGATTTACT
62 ATTTG-AATAGATAATTGTTCAAATAGT-AATAATTATTTGAACTGATTGGTAAACAAATTTATT
* *
28806 CTTTAAATCTCTTA
125 TTTTAAATTTCTTA
28820 CTGATTATAT
Statistics
Matches: 930, Mismatches: 218, Indels: 127
0.73 0.17 0.10
Matches are distributed among these distances:
174 7 0.01
175 64 0.07
176 69 0.07
177 101 0.11
178 242 0.26
179 159 0.17
180 101 0.11
181 133 0.14
182 54 0.06
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (174 bp):
TTTTGAATAAGCTTGTATGATTAGAAACAATTGTTTTATGACAAATAAAAAGGTTATAAAAATTT
GAATAGATAATTGTTCAAATAGTAATAATTATTTGAACTGATTGGTAAACAAATTTATTTTTTAA
ATTTCTTATTATTATTTTGAAATATTAATAAATTAGTATAATTT
Found at i:28530 original size:356 final size:351
Alignment explanation
Indices: 27539--28544 Score: 876
Period size: 356 Copynumber: 2.8 Consensus size: 351
27529 TTAAACTTGC
* * * * * *
27539 TTGGTAAACAAATTTATTTTTCAAATCTTTTACTTATTAA-TTTCCAAATGTTCATAAATTTGGA
1 TTGGCAAACAAATTTATTTTTTAAATC---T-CTTATTAATTTTTCAAATGTTAATAAATTAGTA
* ** * * *
27603 TTATTTTATTCCAAATAAGCTTATAAGACA-TGAAACAAATATTTTATGACTAAACAAAAGGTTT
62 TTAATTTATTCTGAATAAGCTTGTATGA-ATTGAAACAAATGTTTTATGACTAAA-AAAAGG-TT
* * * * * * *
27667 GAACT-ATTTGAAATAGATAATTATTCTAATTGTTTTTACTATTTGAACTGGTT-TAGCAAACAT
124 AAAATGATTTG-AATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGATTGTAG-ATA-A-
* * *
27730 ATTTAATTTTTAAATCTC--CTTATTAA-TTTTTGAATATTATTAATTAGTATTATTTTTAATTG
185 ATTTATTTTTTAAATCTCTTCTTATTAATTTTTTAAATATTATAAATTAGTATTA-TTTTAATTG
* * * *** * * *
27792 AATAGGCTTCTATGATTTAGAAACAATTGTTTTATGACAAAACAAAAACTTTTTAACAATTTGAG
249 AATAAGCTTGTA-CAAACA-AAACAATTGTTTTATGACAAAACAAAAACTTATAAACAATTTGAA
* * * * *
27857 ATTGATAATTGTTCAAATAGTTAGAATTATTTGAACTAGA
312 ATAGACAATTGTTCAAATAATAAGAACTATTTGAACTAGA
* * * * * * * *
27897 TTGGTAAACAAATTTATTGTTTAAATTTGTTACTTATTATTTTGAAATATTAATCAATTAGTA-T
1 TTGGCAAACAAATTTATTTTTTAAATCTCTTA-TTAAT-TTTTCAAATGTTAATAAATTAGTATT
* * * * *
27961 AATTTATTTTGAATAAGCTTGTATG-ATTAAAAACAATTGTGTTT-TGACAAATAAAAAGGTTAT
64 AATTTATTCTGAATAAGCTTGTATGAATT-GAAACAAATGT-TTTATGACTAA-AAAAAGGTTAA
* * * * * * *
28024 AATGATTTGCAATAGATAATTATTC-AGATGGCCATAATTATTTTAACTGATTTGGTAAATAGAT
126 AATGATTTG-AATAGATAATTATTCTA-ATAGTCTTAACTATTTGAACTGA-TT-GTAGATAAAT
*** *
28088 TTATTTTTTAAA--T-TTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTT-ATTCCA
187 TTATTTTTTAAATCTCTTCTTATTAATTTTTTAAATATT-ATAAATTAGTATTATTTTAATT-GA
* ** * ** ** * *
28149 TCTAAGCTTGTATTAACTGAAACAATTGTTTTATGACAAATTAAAAGGTTATAAACATTTTTAAA
250 -ATAAGCTTGTACAAAC-AAAACAATTGTTTTATGACAAAACAAAAACTTATAAACAATTTGAAA
* *
28214 TAGACAATTGTTCAAATAATAATAACTATTTGAACTTG-
313 TAGACAATTGTTCAAATAATAAGAACTATTTGAACTAGA
28252 TTCGGCAAACAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATGTTAATAAATTAGTATTA
1 TT-GGCAAACAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATGTTAATAAATTAGTATTA
* * *
28317 ATTTATTCTGAATAAGCTTGT-TGAATTGAAACAACTGTTTTATGACTAAAAAATGGTCAAAATG
65 ATTTATTCTGAATAAGCTTGTATGAATTGAAACAAATGTTTTATGACTAAAAAAAGGTTAAAATG
* * *
28381 ATTTGAAGTATATAATTATTCTAATAGTCTTAACTGTTTGAAATGATTCGATAGATAAATTTATT
130 ATTTGAA-TAGATAATTATTCTAATAGTCTTAACTATTTGAACTGATT-G-TAGATAAATTTATT
*
28446 TTTTAAATCTCTTACTTATTAATTTTTTTAATATTATGAAATTAGTATTATTTTAATATGAATAA
192 TTTTAAATCTCTT-CTTATTAATTTTTTAAATATTAT-AAATTAGTATTATTTTAAT-TGAATAA
28511 GCTTGTACAAACAAAACAATTGTTTTATGACAAA
254 GCTTGTACAAACAAAACAATTGTTTTATGACAAA
28545 GAAAAGATCA
Statistics
Matches: 511, Mismatches: 104, Indels: 68
0.75 0.15 0.10
Matches are distributed among these distances:
352 5 0.01
353 67 0.13
354 44 0.09
355 53 0.10
356 220 0.43
357 90 0.18
358 29 0.06
359 3 0.01
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (351 bp):
TTGGCAAACAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATGTTAATAAATTAGTATTAA
TTTATTCTGAATAAGCTTGTATGAATTGAAACAAATGTTTTATGACTAAAAAAAGGTTAAAATGA
TTTGAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGATTGTAGATAAATTTATTTTTT
AAATCTCTTCTTATTAATTTTTTAAATATTATAAATTAGTATTATTTTAATTGAATAAGCTTGTA
CAAACAAAACAATTGTTTTATGACAAAACAAAAACTTATAAACAATTTGAAATAGACAATTGTTC
AAATAATAAGAACTATTTGAACTAGA
Found at i:28624 original size:179 final size:174
Alignment explanation
Indices: 28081--28628 Score: 417
Period size: 179 Copynumber: 3.1 Consensus size: 174
28071 TGATTTGGTA
* * *** *
28081 AATAGATTTATTTTTTAAATTTCTTATTAATTTAGGAAATATTAATAAATTAGTATT-ATTTTAT
1 AATAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATATTAATAAATTAGTATTAATTTAAT
* * ** * * * * **
28145 -TCCATCTAAGCTTGTATTAACTGAAACAATTGTTTTATGAC-AAATTAAAAGGTTATAAACATT
66 AT-GA-ATAAGCTTGTACAAAC-AAAACAACTGTTTTATGACTAAA--AAAAGATCA-AAACAAA
* * ** * * ** *
28208 TTTAAATAGACAATTGTTCAAATAATAATAACTATTTGAACTT-GTTCGGCA
125 TTGAAATAGATAATCATTCTAATAGTCTTAACTATTTGAA-TTGGTTCGG-T
* * *
28259 AACAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATGTTAATAAATTAGTATTAATTTATT
1 AATAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATATTAATAAATTAGTATTAATTTAAT
* ** *** * * ** * *
28324 CTGAATAAGCTTGTTGAATTGAAACAACTGTTTTATGACTAAAAAATGGTCAAAATGATTTGAAG
66 ATGAATAAGCTTGTACAAACAAAACAACTGTTTTATGACTAAAAAAAGATCAAAACAAATTGAAA
* * * * * *
28389 TATATAATTATTCTAATAGTCTTAACTGTTTGAAATGATTCGAT
131 TAGATAATCATTCTAATAGTCTTAACTATTTGAATTGGTTCGGT
** *
28433 AGATAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTTTAATATT-ATGAAATTAGTATTAT
1 A-ATAAATTTATTTTTTAAA--TC-T-CTTATTAATTTTTCAAATATTAAT-AAATTAGTATTAA
* *
28497 TTTAATATGAATAAGCTTGTACAAACAAAACAATTGTTTTATGAC-AAAGAAAAGATCATAACAA
60 TTTAATATGAATAAGCTTGTACAAACAAAACAACTGTTTTATGACTAAA-AAAAGATCAAAACAA
*
28561 ATTGAAATAGATAATCATT-TATATAGTTTTAACTATTTGAATTGGTTCGGT
124 ATTGAAATAGATAATCATTCTA-ATAGTCTTAACTATTTGAATTGGTTCGGT
*
28612 AATTAGATTTATTTTTT
1 AA-TAAATTTATTTTTT
28629 TTAATTTTTT
Statistics
Matches: 293, Mismatches: 64, Indels: 25
0.77 0.17 0.07
Matches are distributed among these distances:
174 2 0.01
175 55 0.19
176 7 0.02
177 20 0.07
178 72 0.25
179 136 0.46
180 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (174 bp):
AATAAATTTATTTTTTAAATCTCTTATTAATTTTTCAAATATTAATAAATTAGTATTAATTTAAT
ATGAATAAGCTTGTACAAACAAAACAACTGTTTTATGACTAAAAAAAGATCAAAACAAATTGAAA
TAGATAATCATTCTAATAGTCTTAACTATTTGAATTGGTTCGGT
Found at i:29187 original size:41 final size:47
Alignment explanation
Indices: 29093--29189 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 47
29083 TATAAACTAC
*
29093 ATTAATTATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
1 ATTAATAATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
* *
29140 ATTAATAATATTAATTTAGTTAT-TAAA-TTATTTAA-TA-TTTA-A
1 ATTAATAATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
29182 A-TAATAAT
1 ATTAATAAT
29190 TAAAGATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 7 0.15
42 2 0.04
43 4 0.09
44 2 0.04
45 8 0.17
46 4 0.09
47 20 0.43
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (47 bp):
ATTAATAATATCAATATAGTTATCTAAATTTATTTAATTACTTTATA
Found at i:29318 original size:56 final size:59
Alignment explanation
Indices: 29211--29351 Score: 139
Period size: 56 Copynumber: 2.4 Consensus size: 59
29201 TTGAAATATA
* * *
29211 ATTAATTTATATATAAAAATAGTTTCATTATATTATTAAATAATAATCAATA-TA-TATT
1 ATTAAATTATATAT-ATAATAATTTCATTATATTATTAAATAATAATCAATATTAGTATT
* * *
29269 CTTAAATTATATATATAATAATTT-ATTATATTA-TAAATTAAGTTA-CAATATTAGTTTTT
1 ATTAAATTATATATATAATAATTTCATTATATTATTAAA-TAA-TAATCAATATTAG-TATT
*
29328 ATTAAATTATAATAAATAATAATT
1 ATTAAATTAT-ATATATAATAATT
29352 ATATAATGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
55 4 0.06
56 17 0.25
57 12 0.17
58 12 0.17
59 12 0.17
60 12 0.17
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (59 bp):
ATTAAATTATATATATAATAATTTCATTATATTATTAAATAATAATCAATATTAGTATT
Found at i:29391 original size:28 final size:28
Alignment explanation
Indices: 29334--29492 Score: 69
Period size: 29 Copynumber: 5.3 Consensus size: 28
29324 TTTTATTAAA
* *
29334 TTATAATAAATAATAATTATATAATGTT
1 TTATAATAAATAATAATAATATAATATT
29362 TTATAAATAAATAAT-ATAATACTAA-ATTT
1 TTAT-AATAAATAATAATAATA-TAATA-TT
* *
29391 TTACTTATTTAAATATTATAATTAATATATATATA
1 TTA--TA-ATAAATA--ATAA-TAATATA-ATATT
* *
29426 TTATTATATATAATTATAAT-ATATAATA-A
1 TTA-TA-ATA-AATAATAATAATATAATATT
*
29455 ATATAATATTAATTAA-AATAATATAATA-T
1 TTATAATA--AA-TAATAATAATATAATATT
29484 TTATAATAA
1 TTATAATAA
29493 TTATTTAATA
Statistics
Matches: 105, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
27 4 0.04
28 17 0.16
29 38 0.36
30 4 0.04
31 12 0.11
32 1 0.01
33 6 0.06
34 9 0.09
35 13 0.12
36 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TTATAATAAATAATAATAATATAATATT
Found at i:29422 original size:16 final size:16
Alignment explanation
Indices: 29403--29490 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 16
29393 ACTTATTTAA
29403 ATATTATAATTAATAT
1 ATATTATAATTAATAT
*
29419 ATA-TAT-ATTATTAT
1 ATATTATAATTAATAT
* *
29433 ATATAATTA-TAATAT
1 ATATTATAATTAATAT
*
29448 ATAATA-AATATAATAT
1 ATATTATAAT-TAATAT
*
29464 -TAATTA-AAATAATAT
1 AT-ATTATAATTAATAT
29479 AATATTTATAAT
1 -ATA-TTATAAT
29491 AATTATTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
14 11 0.20
15 21 0.39
16 16 0.30
17 4 0.07
18 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTATAATTAATAT
Found at i:29428 original size:20 final size:19
Alignment explanation
Indices: 29403--29490 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 19
29393 ACTTATTTAA
29403 ATATTATAATTAATAT-AT
1 ATATTATAATTAATATAAT
*
29421 ATA-TATTATTATATATAATT
1 ATATTATAATTA-ATATAA-T
*
29441 ATAATATATAATAAATATAAT
1 AT-AT-TATAATTAATATAAT
*
29462 ATTAATTA-AAATAATATAAT
1 A-T-ATTATAATTAATATAAT
29482 AT-TTATAAT
1 ATATTATAAT
29491 AATTATTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
17 10 0.18
18 9 0.16
19 2 0.04
20 14 0.25
21 5 0.09
22 10 0.18
23 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTATAATTAATATAAT
Found at i:29496 original size:9 final size:9
Alignment explanation
Indices: 29405--29496 Score: 55
Period size: 9 Copynumber: 9.6 Consensus size: 9
29395 TTATTTAAAT
29405 ATTATAATTA
1 ATTATAA-TA
29415 ATATATATATA
1 AT-TATA-ATA
29426 TTATTATATATA
1 --ATTATA-ATA
29438 ATTATAAT-
1 ATTATAATA
29446 A-TATAATAA
1 ATTATAAT-A
*
29455 ATATAATATTA
1 AT-T-ATAATA
*
29466 ATTAAAATA
1 ATTATAATA
29475 A-TATAATA
1 ATTATAATA
*
29483 TTTATAATA
1 ATTATAATA
29492 ATTAT
1 ATTAT
29497 TTAATATTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
7 6 0.09
8 7 0.11
9 19 0.29
10 9 0.14
11 10 0.15
12 13 0.20
13 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTATAATA
Found at i:29546 original size:28 final size:27
Alignment explanation
Indices: 29333--29614 Score: 90
Period size: 26 Copynumber: 10.1 Consensus size: 27
29323 TTTTTATTAA
*
29333 ATTATAATAAATAATAATT-ATATAATGT
1 ATTATTATAAATAAT-ATTAATATAAT-T
* *
29361 TTTATAAATAAATAATA-TAATACTAAATT
1 ATTAT-TATAAATAATATTAATA-T-AATT
*
29390 TTTACTTATTTAAATATTATAATTAATATATATAT
1 ATTA-TTA--TAAATA--AT-ATTAATATA-AT-T
* *
29425 ATTATTATATATAAT-TATAATAT-ATA
1 ATTATTATAAATAATAT-TAATATAATT
* * * *
29451 ATAAATAT-AATATTAATTAAAATAATAT
1 ATTATTATAAATAAT-ATTAATATAAT-T
*
29479 AATATT-TATAATAATTATTTAATATTAATT
1 ATTATTATA-AATAA-TA-TTAATA-TAATT
*
29509 A-T-TT-CAAATAATATTAACTATAATT
1 ATTATTATAAATAATATTAA-TATAATT
* *
29534 ATTATTATAAATATTATTAA-ATATTT
1 ATTATTATAAATAATATTAATATAATT
*
29560 AATA-TAT-AATAATATTAATTATAA-T
1 ATTATTATAAATAATATTAA-TATAATT
* * *
29585 ATT-TATATAAATATTAATAAT-TAAGT
1 ATTAT-TATAAATAATATTAATATAATT
29611 ATTA
1 ATTA
29615 ATATCCAATT
Statistics
Matches: 194, Mismatches: 26, Indels: 69
0.67 0.09 0.24
Matches are distributed among these distances:
24 10 0.05
25 23 0.12
26 35 0.18
27 23 0.12
28 26 0.13
29 29 0.15
30 14 0.07
31 10 0.05
32 5 0.03
33 3 0.02
34 7 0.04
35 9 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTATTATAAATAATATTAATATAATT
Found at i:29581 original size:40 final size:39
Alignment explanation
Indices: 29412--29603 Score: 114
Period size: 37 Copynumber: 5.2 Consensus size: 39
29402 AATATTATAA
*
29412 TTAATATAT-ATATATT-ATTAT--ATATAATTATAATAT
1 TTAATATATAATATATTAATTATAAATATTATTA-AATAT
* * *
29448 ATAATAAAT-ATAATATTAATTA-AAATAATA-T-AATAT
1 TTAATATATAAT-ATATTAATTATAAATATTATTAAATAT
* *
29484 TT-ATA-ATAAT-TATTTAA-TATTAATTATT-TCAAATAAT
1 TTAATATATAATATA-TTAATTA-TAAATATTATTAAAT-AT
*
29521 ATTAA-CTATAAT-TATT-ATTATAAATATTATTAAATAT
1 -TTAATATATAATATATTAATTATAAATATTATTAAATAT
29558 TTAATATATAATAATATTAATTAT-AATATTTATATAAATA-
1 TTAATATATAAT-ATATTAATTATAAATA-TTAT-TAAATAT
29598 TTAATA
1 TTAATA
29604 ATTAAGTATT
Statistics
Matches: 122, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
33 4 0.03
34 6 0.05
35 10 0.08
36 22 0.18
37 23 0.19
38 16 0.13
39 20 0.16
40 15 0.12
41 6 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (39 bp):
TTAATATATAATATATTAATTATAAATATTATTAAATAT
Found at i:30036 original size:17 final size:15
Alignment explanation
Indices: 30005--30034 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29995 ATTTATTTAG
30005 TTTATATTTTAATAA
1 TTTATATTTTAATAA
30020 TTTATA-TTTAATAA
1 TTTATATTTTAATAA
30034 T
1 T
30035 AACTAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATATTTTAATAA
Found at i:30513 original size:26 final size:24
Alignment explanation
Indices: 30483--30537 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
30473 ATATTATTGT
30483 AATTAGCTTA-TAATAAATTAATATA
1 AATTA-CTTATTAAT-AATTAATATA
*
30508 CAATTATTTATTTAATAATTAATATA
1 -AATTACTTA-TTAATAATTAATATA
30534 AATT
1 AATT
30538 TATATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.27
26 15 0.58
27 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (24 bp):
AATTACTTATTAATAATTAATATA
Found at i:30545 original size:27 final size:27
Alignment explanation
Indices: 30493--30554 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
30483 AATTAGCTTA
30493 TAATAAATTAATATACAATTATTTAT-T
1 TAAT-AATTAATATACAATTATTTATAT
30520 TAATAATTAATATA-AATTTATATTATAT
1 TAATAATTAATATACAA-TTAT-TTATAT
30548 T-ATAATT
1 TAATAATT
30555 CTTAGTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
25 2 0.06
26 14 0.44
27 14 0.44
28 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TAATAATTAATATACAATTATTTATAT
Found at i:31148 original size:19 final size:20
Alignment explanation
Indices: 31124--31176 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
31114 TTTATTAGTA
*
31124 ATTTATTATTATAAATTACT
1 ATTTATTATTATAAATTAAT
31144 A-TTA-TATTTATAAA-TAAT
1 ATTTATTA-TTATAAATTAAT
31162 ATTTATTATT-TAAAT
1 ATTTATTATTATAAAT
31177 ATTTATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
18 10 0.36
19 15 0.54
20 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATTATTATAAATTAAT
Found at i:31883 original size:22 final size:20
Alignment explanation
Indices: 31844--31886 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
31834 TTATTTCATT
31844 ATAAATATTTAATATAATTA
1 ATAAATATTTAATATAATTA
*
31864 ATAAATTATTTATTTATAATTA
1 ATAAA-TATTTA-ATATAATTA
31886 A
1 A
31887 GGGATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAATATTTAATATAATTA
Done.