Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 105 of 126
Found at i:20867983 original size:22 final size:22
Alignment explanation
Indices: 20867957--20868093 Score: 73
Period size: 22 Copynumber: 6.3 Consensus size: 22
20867947 TTTGAAAGAT
20867957 TTTCAAAATTCTTCGAGCACAA
1 TTTCAAAATTCTTCGAGCACAA
* * *
20867979 TTTCAAAGTAT-TTCG-GTATAA
1 TTTCAAAAT-TCTTCGAGCACAA
* * * *
20868000 TCTC-AAAGTCTTGCAAACACAA
1 TTTCAAAATTCTT-CGAGCACAA
* * *
20868022 TTTCAAAGTTTTTCGAACACAA
1 TTTCAAAATTCTTCGAGCACAA
* * *
20868044 TTTTAAAATTCGTCGAGCATAA
1 TTTCAAAATTCTTCGAGCACAA
* * * * *
20868066 TCTCAAAGTCCTCCAAGCACAA
1 TTTCAAAATTCTTCGAGCACAA
20868088 TTTCAA
1 TTTCAA
20868094 TTTTCAAAAA
Statistics
Matches: 80, Mismatches: 30, Indels: 10
0.67 0.25 0.08
Matches are distributed among these distances:
19 1 0.01
20 4 0.05
21 8 0.10
22 61 0.76
23 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.32
Consensus pattern (22 bp):
TTTCAAAATTCTTCGAGCACAA
Found at i:20869181 original size:118 final size:116
Alignment explanation
Indices: 20869033--20869601 Score: 682
Period size: 118 Copynumber: 4.8 Consensus size: 116
20869023 TTGTGCAGGA
* ** * **
20869033 AAAATTGATACTTTCAACTTTTCCT-AAAAAATATTCTTTTGAAGCTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-CTT-TTTTGAAAATTTATTTTTAAGAAAAATT
** * * *
20869097 GATACTTTCAACTTTTTCCCAAAAATTTTTTTTCAGAATTTTTTAATTTCGAGG
64 GATACTTTCAACTTTTTCCCAAAAATTTTTTTT-AGAAACTTTGATTTTCAAGG
* * *** *
20869151 AAAATTGATACTTTTAACTTTTCCTCAAAAATCCTTTTAAAAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ACTTTTTTGAAAATTTATTTTTAAGAAAAATTG
* * *
20869216 ATACTTTCAACTTTTTCCTAAAAA-TATTTTTGGAAACTTTGATTTTCAAGG
65 ATACTTTCAACTTTTTCCCAAAAATTTTTTTTAGAAACTTTGATTTTCAAGG
* *
20869267 GAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAATTTTATTTTTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-CTTTTTTGAAAATTTATTTTTAAGAAAAATTG
* *
20869332 ATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
65 ATACTTTCAACTTTTTCC-CAAAAATTTTTTTTAGAAACTTTGATTTTCAAGG
*
20869384 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAA-CTTTTTTGAAAATTTATTTTTAAGAAAAATT
* ** *
20869449 AATACTTTCTGC-TTTTCCTCAAAAATATTTTTT-GAAAACTTTGATTTTCAAGG
64 GATACTTTCAACTTTTTCC-CAAAAATTTTTTTTAG-AAACTTTGATTTTCAAGG
*
20869502 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTG-AAATTTCATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAA-C-TTTTTTGAAAATTT-ATTTTTAAGAAAAA
*
20869566 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
62 TTGATACTTTCAACTTTTTCCCAAAAAT-TTTTTTT
20869602 GATTTTTATT
Statistics
Matches: 398, Mismatches: 42, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
115 6 0.02
116 86 0.22
117 57 0.14
118 193 0.48
119 45 0.11
120 11 0.03
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTGAAAATTTATTTTTAAGAAAAATTGA
TACTTTCAACTTTTTCCCAAAAATTTTTTTTAGAAACTTTGATTTTCAAGG
Found at i:20869601 original size:58 final size:57
Alignment explanation
Indices: 20869033--20869612 Score: 614
Period size: 59 Copynumber: 9.9 Consensus size: 57
20869023 TTGTGCAGGA
* * * * ** *
20869033 AAAATTGATACTTTCAACTTTTCCTAAAAAATATTCTTTTGAAGCTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAA-ATTTATTTTTAAGG
* * *
20869091 AAAATTGATACTTTCAACTTTTTCC-CAAAAAT-TTTTTTTCAGAATTTTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGA-AATTTATT--TTT-AAGG
* * ****
20869151 AAAATTGATACTTTTAACTTTTCCTCAAAAATCCTTTTAAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTGAAATTTATTTTTAAGG
* *
20869209 AAAATTGATACTTTCAACTTTTTCCT-AAAAATA-TTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAA-TTT-ATTTTTAAGG
* * *
20869267 GAAATTGATACTTTCAACTTTTCCTCAAAAA-ACCTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAA-TTTATTTTTAAGG
* *
20869325 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTT-ATTTTTAAGG
* * *
20869384 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAA-TTTATTTTTAAGG
* ** *
20869443 AAAATTAATACTTTCTGCTTTTCCTCAAAAATA-TTTTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAA-TTT-ATTTTTAAGG
*
20869502 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTCATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTGAAATTT-ATTTTTAAGG
* **
20869562 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGATTTTTATTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTT
20869613 AAAGAAAATA
Statistics
Matches: 444, Mismatches: 56, Indels: 45
0.81 0.10 0.08
Matches are distributed among these distances:
56 6 0.01
57 33 0.07
58 150 0.34
59 151 0.34
60 82 0.18
61 10 0.02
62 12 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAAGG
Found at i:20869650 original size:6 final size:5
Alignment explanation
Indices: 20869627--20869780 Score: 74
Period size: 5 Copynumber: 30.4 Consensus size: 5
20869617 AAAATAGAAT
* * *
20869627 AATAA AACAA AATAAA AATGAA AATAA AA-AA AATAA AA-AA GA-AA AGTAA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA AATAA AATAA
* * *
20869676 AACAAA AATAAA AATAA AATAA AGATAA AA-AGA ATATTA AATAA ACCTAA
1 AA-TAA AAT-AA AATAA AATAA A-ATAA AATA-A A-ATAA AATAA A-ATAA
* *
20869726 AATAA AA-AA AATAA AA-AA ACAAATA AAT-A AAT-A AATAA AA-AT AATAA
1 AATAA AATAA AATAA AATAA A-ATA-A AATAA AATAA AATAA AATAA AATAA
20869773 TAATAA AA
1 -AATAA AA
20869781 AAACTTGGAG
Statistics
Matches: 116, Mismatches: 16, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
4 28 0.24
5 48 0.41
6 38 0.33
7 2 0.02
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:20869683 original size:39 final size:38
Alignment explanation
Indices: 20869627--20869783 Score: 66
Period size: 37 Copynumber: 4.3 Consensus size: 38
20869617 AAAATAGAAT
*
20869627 AATAAAACAAAATAAAAATGAAAAT-AAA-AAAAAT-AA
1 AATAAAA-AAAATAAAAAAGAAAATAAAATAAAAATAAA
* * *
20869663 AA-AAGAAAAGTAAAACA-AAAATAAAA-ATAAAATAAA
1 AATAAAAAAAATAAAAAAGAAAATAAAATA-AAAATAAA
* * ** * *
20869699 GATAAAAAGAATATTAAATAAACCTAAAATAAAAA-AAA
1 AATAAAAAAAATAAAAAAGAAA-ATAAAATAAAAATAAA
* * *
20869737 TAA-AAAAACAAATAAATAAA-TAAAT-AAA-AATAATAAT
1 -AATAAAAA-AAATAAA-AAAGAAAATAAAATAAAAATAAA
20869774 AATAAAAAAA
1 AATAAAAAAA
20869784 CTTGGAGCGG
Statistics
Matches: 89, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
33 5 0.06
34 12 0.13
35 8 0.09
36 13 0.15
37 19 0.21
38 12 0.13
39 16 0.18
40 4 0.04
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (38 bp):
AATAAAAAAAATAAAAAAGAAAATAAAATAAAAATAAA
Found at i:20869688 original size:17 final size:17
Alignment explanation
Indices: 20869647--20869706 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
20869637 AATAAAAATG
20869647 AAAATAAAAA-AAATA-A
1 AAAATAAAAATAAA-ACA
* *
20869663 AAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAACA
*
20869680 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAACA
*
20869697 AAGATAAAAA
1 AAAATAAAAA
20869707 GAATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 9 0.25
17 27 0.75
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:20869703 original size:11 final size:10
Alignment explanation
Indices: 20869627--20869780 Score: 74
Period size: 11 Copynumber: 15.2 Consensus size: 10
20869617 AAAATAGAAT
*
20869627 AATAAAACAA
1 AATAAAATAA
20869637 AATAAAAATGAA
1 AAT-AAAAT-AA
20869649 AATAAAA-AA
1 AATAAAATAA
20869658 AATAAAA-AA
1 AATAAAATAA
* *
20869667 GA-AAAGTAA
1 AATAAAATAA
*
20869676 AACAAAAATAAA
1 AA-TAAAAT-AA
20869688 AATAAAATAA
1 AATAAAATAA
20869698 AGATAAAA-AGA
1 A-ATAAAATA-A
*
20869709 ATATTAAATAA
1 A-ATAAAATAA
*
20869720 ACCTAAAATAA
1 A-ATAAAATAA
20869731 AA-AAAATAA
1 AATAAAATAA
*
20869740 AA-AAACAAATA
1 AATAAA-ATA-A
20869751 AAT-AAAT-A
1 AATAAAATAA
*
20869759 AATAAAA-AT
1 AATAAAATAA
20869768 AATAATAATAA
1 AATAA-AATAA
20869779 AA
1 AA
20869781 AAACTTGGAG
Statistics
Matches: 112, Mismatches: 16, Indels: 31
0.70 0.10 0.19
Matches are distributed among these distances:
8 7 0.06
9 35 0.31
10 12 0.11
11 48 0.43
12 10 0.09
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (10 bp):
AATAAAATAA
Found at i:20869749 original size:12 final size:11
Alignment explanation
Indices: 20869729--20869783 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 11
20869719 AACCTAAAAT
20869729 AAAAAAAATAA
1 AAAAAAAATAA
20869740 AAAAACAAATAA
1 AAAAA-AAATAA
*
20869752 ATAAATAAATAA
1 A-AAAAAAATAA
*
20869764 AAATAATAATAA
1 AAA-AAAAATAA
20869776 TAAAAAAA
1 -AAAAAAA
20869784 CTTGGAGCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 7 0.19
12 23 0.64
13 6 0.17
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:20869784 original size:39 final size:38
Alignment explanation
Indices: 20869642--20869783 Score: 130
Period size: 39 Copynumber: 3.7 Consensus size: 38
20869632 AACAAAATAA
*
20869642 AAATGAAAATAAAAAAAATAAAAAAGAAAAGTAAA-ACAA-
1 AAATAAAAATAAAAAAAATAAAAAA-AAAA-TAAATA-AAT
* * * * *
20869681 AAATAAAAATAAAATAAAGATAAAAAGAAT-ATTAAAT
1 AAATAAAAATAAAAAAAATAAAAAAAAAATAAATAAAT
20869718 AAACCT-AAAATAAAAAAAATAAAAAAACAAATAAATAAAT
1 AAA--TAAAAATAAAAAAAATAAAAAAA-AAATAAATAAAT
* *
20869758 AAATAAAAATAATAATAATAAAAAAA
1 AAATAAAAATAAAAAAAATAAAAAAA
20869784 CTTGGAGCGG
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
36 3 0.04
37 5 0.06
38 22 0.27
39 44 0.53
40 9 0.11
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (38 bp):
AAATAAAAATAAAAAAAATAAAAAAAAAATAAATAAAT
Found at i:20870600 original size:14 final size:15
Alignment explanation
Indices: 20870563--20870611 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
20870553 TTTCAGTCAG
*
20870563 ATAAAACAAA-AAAA
1 ATAAATCAAACAAAA
*
20870577 ATAAAT--AACAGAA
1 ATAAATCAAACAAAA
20870590 A-AAATCAAACAAAA
1 ATAAATCAAACAAAA
20870604 ATAAATCA
1 ATAAATCA
20870612 GATAAGTCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 12 0.43
15 6 0.21
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (15 bp):
ATAAATCAAACAAAA
Found at i:20870608 original size:27 final size:25
Alignment explanation
Indices: 20870560--20870609 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
20870550 AATTTTCAGT
*
20870560 CAGATAAAACAAAAAAAATAAATAA
1 CAGAAAAAACAAAAAAAATAAATAA
20870585 CAGAAAAAATCAAACAAAAATAAAT
1 CAGAAAAAA-CAAA-AAAAATAAAT
20870610 CAGATAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 4 0.18
27 10 0.45
ACGTcount: A:0.74, C:0.10, G:0.04, T:0.12
Consensus pattern (25 bp):
CAGAAAAAACAAAAAAAATAAATAA
Found at i:20870613 original size:25 final size:23
Alignment explanation
Indices: 20870559--20870613 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 23
20870549 CAATTTTCAG
*
20870559 TCAGATAAAACAAAAAAAATAAA
1 TCAGAAAAAACAAAAAAAATAAA
20870582 TAACAGAAAAAATCAAACAAAAATAAA
1 T--CAGAAAAAA-CAAA-AAAAATAAA
20870609 TCAGA
1 TCAGA
20870614 TAAGTCAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
25 12 0.44
26 4 0.15
27 10 0.37
ACGTcount: A:0.71, C:0.11, G:0.05, T:0.13
Consensus pattern (23 bp):
TCAGAAAAAACAAAAAAAATAAA
Found at i:20870636 original size:12 final size:12
Alignment explanation
Indices: 20870619--20870659 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
20870609 TCAGATAAGT
20870619 CAGATAAATTAA
1 CAGATAAATTAA
20870631 CAGATAAATTAA
1 CAGATAAATTAA
20870643 -A-ATTAAA-TAA
1 CAGA-TAAATTAA
20870653 CAGATAA
1 CAGATAA
20870660 TTACATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.15
11 9 0.35
12 13 0.50
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (12 bp):
CAGATAAATTAA
Found at i:20870728 original size:20 final size:17
Alignment explanation
Indices: 20870687--20870831 Score: 58
Period size: 15 Copynumber: 8.4 Consensus size: 17
20870677 AGAAAAAAAA
20870687 AATAAAATAATAATAAT
1 AATAAAATAATAATAAT
*
20870704 AATAAAGATATATACATATT
1 AATAAA-ATA-ATA-ATAAT
**
20870724 AAT-AAATACATAAATCCCT
1 AATAAAATA-AT-AAT-AAT
20870743 AAGATAAATATATATATATAAT
1 -A-ATAAA-ATA-ATA-ATAAT
* *
20870765 AATAAAAGAA-AAGAA-
1 AATAAAATAATAATAAT
20870780 AA-AAAAT-ATACAT-AT
1 AATAAAATAATA-ATAAT
20870795 -ATAAAATAATAATAAT
1 AATAAAATAATAATAAT
*
20870811 -A-AAAATAAAAATAA-
1 AATAAAATAATAATAAT
20870825 AATAAAA
1 AATAAAA
20870832 ATGTAAAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 37
0.67 0.08 0.25
Matches are distributed among these distances:
13 1 0.01
14 7 0.07
15 23 0.23
16 13 0.13
17 7 0.07
18 11 0.11
19 9 0.09
20 13 0.13
21 3 0.03
22 4 0.04
23 7 0.07
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (17 bp):
AATAAAATAATAATAAT
Found at i:20870829 original size:26 final size:25
Alignment explanation
Indices: 20870795--20870871 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 25
20870785 ATATACATAT
20870795 ATAAAATAATAATAATAAAAATAAAA
1 ATAAAATAA-AATAATAAAAATAAAA
*
20870821 ATAAAAT-AAA-AATGTAAAATACAAA
1 ATAAAATAAAATAAT-AAAAATA-AAA
*
20870846 ATAAAAATAAATTAA-AAAAATAAAA
1 AT-AAAATAAAATAATAAAAATAAAA
20870871 A
1 A
20870872 AATACAGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
23 3 0.07
24 8 0.19
25 10 0.23
26 18 0.42
27 2 0.05
28 2 0.05
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (25 bp):
ATAAAATAAAATAATAAAAATAAAA
Found at i:20870830 original size:31 final size:30
Alignment explanation
Indices: 20870795--20870870 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 30
20870785 ATATACATAT
20870795 ATAAAATAATAATAATA-AAAATAAAAATAAA
1 ATAAAA-AATAA-AATACAAAATAAAAATAAA
*
20870826 ATAAAAATGTAAAATACAAAATAAAAATAAA
1 ATAAAAA-ATAAAATACAAAATAAAAATAAA
*
20870857 TTAAAAAAATAAAA
1 AT-AAAAAATAAAA
20870871 AAATACAGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 5 0.13
31 29 0.74
32 5 0.13
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (30 bp):
ATAAAAAATAAAATACAAAATAAAAATAAA
Found at i:20870832 original size:6 final size:6
Alignment explanation
Indices: 20870802--20870871 Score: 72
Period size: 6 Copynumber: 11.3 Consensus size: 6
20870792 TATATAAAAT
* *
20870802 AATAAT AATAAA AATAAA AAT-AA AATAAA AATGTAA AATACAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA AATA-AA AATAAA
20870851 AATAAA TTAA-AAA AATAAA AA
1 AATAAA --AATAAA AATAAA AA
20870872 AATACAGACT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
5 7 0.13
6 32 0.58
7 14 0.25
8 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:20871952 original size:21 final size:20
Alignment explanation
Indices: 20871926--20871969 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
20871916 TCATTCCATT
20871926 TTTCATTGCAATTTCATT-TTG
1 TTTCATT-C-ATTTCATTGTTG
*
20871947 TTTCATTCATTTCTTTGTTG
1 TTTCATTCATTTCATTGTTG
20871967 TTT
1 TTT
20871970 TTCTTCAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.64
Consensus pattern (20 bp):
TTTCATTCATTTCATTGTTG
Found at i:20872888 original size:7 final size:7
Alignment explanation
Indices: 20872873--20873036 Score: 98
Period size: 7 Copynumber: 24.4 Consensus size: 7
20872863 AATTCCCATG
*
20872873 AAACTCT
1 AAACCCT
20872880 AAACCCT
1 AAACCCT
20872887 -AACTCCT
1 AAAC-CCT
**
20872894 AAAACTAT
1 -AAACCCT
*
20872902 AAACCTT
1 AAACCCT
*
20872909 AATCCCT
1 AAACCCT
*
20872916 AAACCTT
1 AAACCCT
20872923 AAACCCT
1 AAACCCT
20872930 AAA-CCT
1 AAACCCT
*
20872936 CAAACCCC
1 -AAACCCT
20872944 AAA--CT
1 AAACCCT
* *
20872949 AAATCTT
1 AAACCCT
20872956 AAACCCT
1 AAACCCT
20872963 AAA-CCT
1 AAACCCT
*
20872969 AAACCAT
1 AAACCCT
*
20872976 AAA-TCT
1 AAACCCT
20872982 CAAACCCT
1 -AAACCCT
20872990 AAACCCT
1 AAACCCT
20872997 AAA-CC-
1 AAACCCT
*
20873002 AAATCCT
1 AAACCCT
20873009 AAA-CC-
1 AAACCCT
20873014 AAACCCT
1 AAACCCT
20873021 AAA-CCT
1 AAACCCT
*
20873027 AAATCCT
1 AAACCCT
20873034 AAA
1 AAA
20873037 TTTCAAACCT
Statistics
Matches: 123, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
5 10 0.08
6 27 0.22
7 78 0.63
8 5 0.04
9 3 0.02
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:20872899 original size:22 final size:21
Alignment explanation
Indices: 20872873--20872931 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
20872863 AATTCCCATG
20872873 AAACTCTAAACCCTAA-CTCCTA
1 AAACT-TAAACCCTAATC-CCTA
*
20872895 AAACTATAAACCTTAATCCCTA
1 AAACT-TAAACCCTAATCCCTA
*
20872917 AACCTTAAACCCTAA
1 AAACTTAAACCCTAA
20872932 ACCTCAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.28
22 22 0.69
23 1 0.03
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACTTAAACCCTAATCCCTA
Found at i:20872957 original size:33 final size:33
Alignment explanation
Indices: 20872914--20873001 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 33
20872904 ACCTTAATCC
*
20872914 CTAAACCTTAAACCCTAAACCTCAAACCCCAAA-
1 CTAAACCTTAAACCCTAAACCT-AAACCACAAAT
* *
20872947 CTAAATCTTAAACCCTAAACCTAAACCATAAAT
1 CTAAACCTTAAACCCTAAACCTAAACCACAAAT
*
20872980 CTCAAACCCTAAACCCTAAACC
1 CT-AAACCTTAAACCCTAAACC
20873002 AAATCCTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 8 0.17
33 23 0.48
34 17 0.35
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (33 bp):
CTAAACCTTAAACCCTAAACCTAAACCACAAAT
Found at i:20872986 original size:27 final size:26
Alignment explanation
Indices: 20872947--20873045 Score: 101
Period size: 27 Copynumber: 3.5 Consensus size: 26
20872937 AAACCCCAAA
*
20872947 CTAAATCTTAAACCCTAAACCTAAAC
1 CTAAATCTCAAACCCTAAACCTAAAC
20872973 CATAAATCTCAAACCCTAAACCCTAAAC
1 C-TAAATCTCAAACCCTAAA-CCTAAAC
20873001 C-AAATCCTAAACCAAACCCTAAACCTAAATC
1 CTAAAT-CT----CAAACCCTAAACCTAAA-C
*
20873032 CTAAATTTCAAACC
1 CTAAATCTCAAACC
20873046 TCAAATCGTA
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
26 5 0.08
27 25 0.40
28 8 0.13
30 6 0.10
31 14 0.23
32 4 0.06
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (26 bp):
CTAAATCTCAAACCCTAAACCTAAAC
Found at i:20873010 original size:46 final size:46
Alignment explanation
Indices: 20872912--20873036 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 46
20872902 AAACCTTAAT
* *
20872912 CCCTAAACCTTAAACCCTAAACCTCAAACCCCAAACTAAATCTTAAA
1 CCCTAAACC-TAAACCCTAAACCTCAAACCCTAAACTAAATCTCAAA
* *
20872959 CCCTAAACCTAAACCATAAATCTCAAACCCTAAACCCTAAA-C-CAAA
1 CCCTAAACCTAAACCCTAAACCTCAAACCCTAAA--CTAAATCTCAAA
* *
20873005 TCCTAAACC-AAACCCTAAACCT-AAATCCTAAA
1 CCCTAAACCTAAACCCTAAACCTCAAACCCTAAA
20873037 TTTCAAACCT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 9 0.13
45 11 0.16
46 33 0.49
47 10 0.15
48 5 0.07
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (46 bp):
CCCTAAACCTAAACCCTAAACCTCAAACCCTAAACTAAATCTCAAA
Found at i:20873011 original size:12 final size:12
Alignment explanation
Indices: 20872994--20873036 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
20872984 AACCCTAAAC
20872994 CCTAAACCAAAT
1 CCTAAACCAAAT
*
20873006 CCTAAACCAAAC
1 CCTAAACCAAAT
20873018 CCTAAACCTAAAT
1 CCTAAACC-AAAT
20873031 CCTAAA
1 CCTAAA
20873037 TTTCAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTAAACCAAAT
Found at i:20873969 original size:12 final size:12
Alignment explanation
Indices: 20873951--20873982 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20873941 GGTAGGTTAA
20873951 AGTTTAAGATTT
1 AGTTTAAGATTT
*
20873963 GGTTTAAGATTT
1 AGTTTAAGATTT
20873975 AGTTTAAG
1 AGTTTAAG
20873983 GCTTAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (12 bp):
AGTTTAAGATTT
Found at i:20873988 original size:19 final size:19
Alignment explanation
Indices: 20873966--20874018 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
20873956 AAGATTTGGT
20873966 TTAAGATTTAGTTTAAGGC
1 TTAAGATTTAGTTTAAGGC
* * * *
20873985 TTAAGGTTAAGTATAAGGT
1 TTAAGATTTAGTTTAAGGC
* *
20874004 TTATGATTTAATTTA
1 TTAAGATTTAGTTTA
20874019 GGGCATACGA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (19 bp):
TTAAGATTTAGTTTAAGGC
Found at i:20875040 original size:27 final size:27
Alignment explanation
Indices: 20875010--20875064 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
20875000 AACTTTAAAA
* * * *
20875010 TTTTTATTATGTTAGTATTTAAAATTT
1 TTTTTATCATATTAATACTTAAAATTT
20875037 TTTTTATCATATTAATACTTAAAATTT
1 TTTTTATCATATTAATACTTAAAATTT
20875064 T
1 T
20875065 AAATTTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTTTATCATATTAATACTTAAAATTT
Found at i:20875265 original size:8 final size:9
Alignment explanation
Indices: 20875233--20875263 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20875223 AAATTTTTTG
20875233 AAAATTATAA
1 AAAATT-TAA
20875243 AAAATTTAA
1 AAAATTTAA
20875252 AAAATTTAA
1 AAAATTTAA
20875261 AAA
1 AAA
20875264 TTCGGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATTTAA
Found at i:20877987 original size:22 final size:22
Alignment explanation
Indices: 20877959--20878002 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20877949 TGGTATTGAC
20877959 TGACTAGTTAACAAATTATACA
1 TGACTAGTTAACAAATTATACA
20877981 TGACTAGTTAACAAATTATACA
1 TGACTAGTTAACAAATTATACA
20878003 ATTGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
TGACTAGTTAACAAATTATACA
Found at i:20883886 original size:107 final size:107
Alignment explanation
Indices: 20883700--20883914 Score: 405
Period size: 107 Copynumber: 2.0 Consensus size: 107
20883690 TCAGAAGATG
*
20883700 TGGCATATGTGCTTATTTGTGGATCTTAATTGCTGGATCATCATTTAATGTTTCTACTTCCTAAT
1 TGGCATATGTGCTTATTTGTGGATCGTAATTGCTGGATCATCATTTAATGTTTCTACTTCCTAAT
20883765 TCTTATCTAGGACTATGAAATTGATGAGCAATCACAAGAGTA
66 TCTTATCTAGGACTATGAAATTGATGAGCAATCACAAGAGTA
20883807 TGGCATATGTGCTTATTTGTGGATCGTAATTGCTGGATCATCATTTAATGTTTCTACGTT-CTAA
1 TGGCATATGTGCTTATTTGTGGATCGTAATTGCTGGATCATCATTTAATGTTTCTAC-TTCCTAA
20883871 TTCTTATCTAGGACTATGAAATTGATGAGCAATCACAAGAGTA
65 TTCTTATCTAGGACTATGAAATTGATGAGCAATCACAAGAGTA
20883914 T
1 T
20883915 CTTGCCTTAC
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 104 0.98
108 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (107 bp):
TGGCATATGTGCTTATTTGTGGATCGTAATTGCTGGATCATCATTTAATGTTTCTACTTCCTAAT
TCTTATCTAGGACTATGAAATTGATGAGCAATCACAAGAGTA
Found at i:20884493 original size:6 final size:6
Alignment explanation
Indices: 20884476--20884528 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
20884466 TCAATGTTTG
* * *
20884476 GAGGCA GGGGCA GAGGCA GAGGCA GAGGGA GAGGGA GAGG-A -AGG-A
1 GAGGCA GAGGCA GAGGCA GAGGCA GAGGCA GAGGCA GAGGCA GAGGCA
20884521 GAGGCA GA
1 GAGGCA GA
20884529 AGGTGAACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
4 4 0.10
5 4 0.10
6 34 0.81
ACGTcount: A:0.34, C:0.09, G:0.57, T:0.00
Consensus pattern (6 bp):
GAGGCA
Found at i:20884750 original size:4 final size:4
Alignment explanation
Indices: 20884722--20884770 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
20884712 TATTTTTAGG
* * * *
20884722 TATA TATA CATA CATA CATA CATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
20884770 T
1 T
20884771 TGCATGGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:20888384 original size:15 final size:15
Alignment explanation
Indices: 20888358--20888515 Score: 122
Period size: 15 Copynumber: 11.1 Consensus size: 15
20888348 ATAATATTTT
20888358 TATTATATAAATATTA
1 TATTA-ATAAATATTA
20888374 TATTAATAAATA-T-
1 TATTAATAAATATTA
**
20888387 TATTAAT-TTTATTA
1 TATTAATAAATATTA
*
20888401 TATAAAT-AATATTA
1 TATTAATAAATATTA
* *
20888415 TATTAATAAATAATG
1 TATTAATAAATATTA
*
20888430 TATT-AT-ATTATTA
1 TATTAATAAATATTA
*
20888443 -A-T-ATAATATATGA
1 TATTAATAA-ATATTA
20888456 TATTAATAATATATTA
1 TATTAATAA-ATATTA
*
20888472 T-TT-ATTAATATTA
1 TATTAATAAATATTA
* *
20888485 TATTTATAAATAATA
1 TATTAATAAATATTA
20888500 TATTAATAAATATTA
1 TATTAATAAATATTA
20888515 T
1 T
20888516 TATATTATTA
Statistics
Matches: 113, Mismatches: 19, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
11 3 0.03
12 4 0.04
13 23 0.20
14 26 0.23
15 41 0.36
16 16 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
TATTAATAAATATTA
Found at i:20888412 original size:41 final size:40
Alignment explanation
Indices: 20888333--20888529 Score: 185
Period size: 41 Copynumber: 4.9 Consensus size: 40
20888323 ACACTACAAT
*
20888333 TATTATATTAATAAA-A-TAATATTTTTATTATAT--A-AA
1 TATTATATTAATAAATATTATTA-TTTTATTATATAAATAA
20888369 TATTATATTAATAAATATTATTAATTTTATTATATAAATAA
1 TATTATATTAATAAATATTATT-ATTTTATTATATAAATAA
*
20888410 TATTATATTAATAAATAATGTATTATATTATTA-ATATAAT-A
1 TATTATATTAATAAAT-AT-TATTATTTTATTATATA-AATAA
* * **
20888451 TATGATATTAATAATATATTATTTATTAATATTATATTTATAAA
1 TATTATATTAATAA-ATATTA-TTATT-TTATTATATAAAT-AA
* *
20888495 TAATATATTAATAAATATTATTATATTATTA-ATAA
1 TATTATATTAATAAATATTATTATTTTATTATATAA
20888530 CAAATGAAGC
Statistics
Matches: 133, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
36 15 0.11
37 1 0.01
38 14 0.11
39 1 0.01
40 5 0.04
41 46 0.35
42 26 0.20
43 12 0.09
44 13 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (40 bp):
TATTATATTAATAAATATTATTATTTTATTATATAAATAA
Found at i:20889610 original size:4 final size:4
Alignment explanation
Indices: 20889603--20889647 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
20889593 TTTTGCTTAT
** * *
20889603 TTTA TTTA TTTA TTCC TTCA TTTG TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
20889648 AAATATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:20889951 original size:38 final size:38
Alignment explanation
Indices: 20889921--20889992 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
20889911 TTTTTTTCAT
*
20889921 AAAATCCTACCAA-TATATTAAAGGATAATTTCTGACAA
1 AAAATCCTACCAACT-TATTAAAGGATAATTTTTGACAA
* *
20889959 AAAATCTTACCAACTTATTAGAGGAT-ATTTTTGA
1 AAAATCCTACCAACTTATTAAAGGATAATTTTTGA
20889993 TAATAAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 7 0.23
38 22 0.73
39 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (38 bp):
AAAATCCTACCAACTTATTAAAGGATAATTTTTGACAA
Found at i:20896758 original size:23 final size:22
Alignment explanation
Indices: 20896722--20896767 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
20896712 TAAAATTAAA
20896722 TATTATATTTTGATTTTGTTATT
1 TATTATATTTTGATTTTG-TATT
20896745 TATTA-ATTTATGATTTTGTATT
1 TATTATATTT-TGATTTTGTATT
20896767 T
1 T
20896768 GAAATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (22 bp):
TATTATATTTTGATTTTGTATT
Found at i:20900374 original size:18 final size:18
Alignment explanation
Indices: 20900351--20900465 Score: 103
Period size: 18 Copynumber: 6.6 Consensus size: 18
20900341 TCATCCACCT
20900351 CAAATGTATCCTTTACCA
1 CAAATGTATCCTTTACCA
* *
20900369 CAAATGTATCCTTCACTA
1 CAAATGTATCCTTTACCA
* *
20900387 CAAATGTAT-C--AACCT
1 CAAATGTATCCTTTACCA
* *
20900402 CAAATATAT-CTTTCACCT
1 CAAATGTATCCTTT-ACCA
*
20900420 CAAATGTATCATTTACCA
1 CAAATGTATCCTTTACCA
* * *
20900438 TAAATGTATCCCTTACTA
1 CAAATGTATCCTTTACCA
20900456 CAAATGTATC
1 CAAATGTATC
20900466 ATCCTCAAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
15 11 0.14
17 1 0.01
18 63 0.81
19 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (18 bp):
CAAATGTATCCTTTACCA
Found at i:20900425 original size:51 final size:51
Alignment explanation
Indices: 20900347--20900447 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
20900337 TCCATCATCC
* * *
20900347 ACCTCAAATGTATCCTTTACCACAAATGTATCCTTCACTACAAATGTATCA
1 ACCTCAAATATATCCTTTACCACAAATGTATCATTCACCACAAATGTATCA
* * *
20900398 ACCTCAAATATAT-CTTTCACCTCAAATGTATCATTTACCATAAATGTATC
1 ACCTCAAATATATCCTTT-ACCACAAATGTATCATTCACCACAAATGTATC
20900448 CCTTACTACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (51 bp):
ACCTCAAATATATCCTTTACCACAAATGTATCATTCACCACAAATGTATCA
Found at i:20900457 original size:69 final size:69
Alignment explanation
Indices: 20900344--20900497 Score: 238
Period size: 69 Copynumber: 2.2 Consensus size: 69
20900334 TTATCCATCA
*
20900344 TCCACCTCAAATGTATCCTTTACCACAAATGTATCCTTCACTACAAATGTATCAACCTCAAATAT
1 TCCACCTCAAATGTATCATTTACCACAAATGTATCCTTCACTACAAATGTATCAACCTCAAATAT
*
20900409 ATCT
66 AACT
* * *
20900413 TTCACCTCAAATGTATCATTTACCATAAATGTATCCCTT-ACTACAAATGTATCATCCTCAAATA
1 TCCACCTCAAATGTATCATTTACCACAAATGTAT-CCTTCACTACAAATGTATCAACCTCAAATA
20900477 TAACT
65 TAACT
*
20900482 TCCATCTCAAATGTAT
1 TCCACCTCAAATGTAT
20900498 GAAAAACAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 73 0.95
70 4 0.05
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (69 bp):
TCCACCTCAAATGTATCATTTACCACAAATGTATCCTTCACTACAAATGTATCAACCTCAAATAT
AACT
Found at i:20902003 original size:20 final size:19
Alignment explanation
Indices: 20901960--20902004 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
20901950 CTTGTTCGAG
*
20901960 TTTTT-TTATTTTAATATA
1 TTTTTATTAGTTTAATATA
20901978 TATTTTATTAGTTTAATTATA
1 T-TTTTATTAGTTTAA-TATA
20901999 TTTTTA
1 TTTTTA
20902005 CCCTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 4 0.17
20 13 0.57
21 5 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATTAGTTTAATATA
Found at i:20907010 original size:30 final size:31
Alignment explanation
Indices: 20906950--20907023 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 31
20906940 GGTTTTAGGG
*
20906950 TTTGATTTTA-AGGTATGGAATGTTTAGGAT
1 TTTGATTTTAGAGGTATGGAATGTTAAGGAT
*
20906980 TTTGATTTTAGAGGTTTGG-AT-TTAAGGGAT
1 TTTGATTTTAGAGGTATGGAATGTTAA-GGAT
*
20907010 TTTGGATTTAAGAG
1 TTT-GATTTTAGAG
20907024 TTTAAAGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 3 0.08
30 19 0.50
31 16 0.42
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (31 bp):
TTTGATTTTAGAGGTATGGAATGTTAAGGAT
Found at i:20907015 original size:16 final size:16
Alignment explanation
Indices: 20906994--20907132 Score: 58
Period size: 16 Copynumber: 8.8 Consensus size: 16
20906984 ATTTTAGAGG
20906994 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
*
20907010 TTTGGATTTAAGAG-T
1 TTTGGATTTAAGGGAT
*
20907025 TTAAAGG-TTT--GGGAT
1 TT--TGGATTTAAGGGAT
*
20907040 TTCGGATTTTAGAGGG-T
1 TTTGGA-TTTA-AGGGAT
* * *
20907057 TTTAGATTTTAGGGGT
1 TTTGGATTTAAGGGAT
*** * **
20907073 TTCAAATTTTATGGGGG
1 TTTGGA-TTTAAGGGAT
*
20907090 TTTGGATTTAAAGGAT
1 TTTGGATTTAAGGGAT
20907106 TTTGGACTTT-A-GGAT
1 TTTGGA-TTTAAGGGAT
20907121 TTTGGATTTAAG
1 TTTGGATTTAAG
20907133 AGTTTAAAGG
Statistics
Matches: 91, Mismatches: 19, Indels: 26
0.67 0.14 0.19
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 24 0.26
16 37 0.41
17 20 0.22
18 3 0.03
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (16 bp):
TTTGGATTTAAGGGAT
Found at i:20907121 original size:15 final size:14
Alignment explanation
Indices: 20907090--20907130 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
20907080 TTTATGGGGG
20907090 TTTGGATTTAAAGGAT
1 TTTGGATTT--AGGAT
20907106 TTTGGACTTTAGGAT
1 TTTGGA-TTTAGGAT
20907121 TTTGGATTTA
1 TTTGGATTTA
20907131 AGAGTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 11 0.46
16 6 0.25
17 3 0.12
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (14 bp):
TTTGGATTTAGGAT
Found at i:20907186 original size:16 final size:16
Alignment explanation
Indices: 20907043--20907129 Score: 59
Period size: 16 Copynumber: 5.4 Consensus size: 16
20907033 TTGGGATTTC
20907043 GGATTTTAGAGGGTTTT
1 GGATTTTAG-GGGTTTT
* *
20907060 AGATTTTAGGGGTTTC
1 GGATTTTAGGGGTTTT
** *
20907076 AAATTTTATGGGGGTTT
1 GGATTTTA-GGGGTTTT
* * *
20907093 GGATTTAAAGGATTTT
1 GGATTTTAGGGGTTTT
* *
20907109 GGACTTTA-GGATTTT
1 GGATTTTAGGGGTTTT
20907124 GGATTT
1 GGATTT
20907130 AAGAGTTTAA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
15 12 0.22
16 24 0.44
17 19 0.35
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (16 bp):
GGATTTTAGGGGTTTT
Found at i:20907332 original size:12 final size:11
Alignment explanation
Indices: 20907315--20907345 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20907305 ATGATATTTT
*
20907315 TTAAAAGTTAA
1 TTAAAAATTAA
20907326 TTAAAAATTAA
1 TTAAAAATTAA
20907337 TTAAAAATT
1 TTAAAAATT
20907346 TCTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TTAAAAATTAA
Found at i:20908291 original size:14 final size:13
Alignment explanation
Indices: 20908264--20908296 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
20908254 GAGGACTGTG
20908264 TTTTATTTTTTAT
1 TTTTATTTTTTAT
20908277 TTTTATTTTTGTAT
1 TTTTATTTTT-TAT
20908291 TTTTAT
1 TTTTAT
20908297 AGATCTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:20908678 original size:25 final size:25
Alignment explanation
Indices: 20908650--20908703 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
20908640 TTCTTTCTTC
*
20908650 TTTTTT-TTATTTAA-AAATTTAATT
1 TTTTTTATTTTTTAATAAA-TTAATT
*
20908674 TTTTTTATTTTTTAATTAATTAATT
1 TTTTTTATTTTTTAATAAATTAATT
20908699 TTTTT
1 TTTTT
20908704 AATTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 18 0.69
26 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTTATTTTTTAATAAATTAATT
Found at i:20908690 original size:22 final size:21
Alignment explanation
Indices: 20908650--20908715 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 21
20908640 TTCTTTCTTC
20908650 TTTTTTTTATTTAAAAATTTAA
1 TTTTTTTTATTTAAAAA-TTAA
*
20908672 TTTTTTTTATTTTTTAATTAATTAA
1 TTTTTTTTA---TTTAA-AAATTAA
*
20908697 TTTTTTTAATTATAAAAAT
1 TTTTTTTTATT-TAAAAAT
20908716 GTAGACCCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
22 14 0.39
23 3 0.08
25 17 0.47
26 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTTTATTTAAAAATTAA
Found at i:20908970 original size:36 final size:36
Alignment explanation
Indices: 20908838--20909082 Score: 171
Period size: 36 Copynumber: 6.8 Consensus size: 36
20908828 TAAAAGCTAT
*
20908838 TGGGATTAAATCGTAAGTCAG-GAATATAAGAATGAC
1 TGGGATTAAATCGTAAGTCAGAGAA-ATAAAAATGAC
* * * * ** **
20908874 TGGGATTAAACCATAAGTTAGAG-ATTAATGACAAC
1 TGGGATTAAATCGTAAGTCAGAGAAATAAAAATGAC
* * * *
20908909 TGAGATTGAATCGCAAGTCAAAGAAATAAAAATGAC
1 TGGGATTAAATCGTAAGTCAGAGAAATAAAAATGAC
* * * *
20908945 TGGGATTAAATCGTAAATCGGAGAAATAAAAACGAT
1 TGGGATTAAATCGTAAGTCAGAGAAATAAAAATGAC
* *
20908981 TGGGATTAAA-CTGCAAGTTA-AGAAACTATAAGAATGAC
1 TGGGATTAAATC-GTAAGTCAGAGAAA-TA-AA-AATGAC
**
20909019 TGGGATTAAATCGTAAGTCAGA-AAATAAAAGCGA-
1 TGGGATTAAATCGTAAGTCAGAGAAATAAAAATGAC
* * *
20909053 TCGGGATTAAATTGCAAGTC-GAGAAGTAAA
1 T-GGGATTAAATCGTAAGTCAGAGAAATAAA
20909083 GAATCGATTG
Statistics
Matches: 158, Mismatches: 41, Indels: 21
0.72 0.19 0.10
Matches are distributed among these distances:
34 3 0.02
35 53 0.34
36 72 0.46
37 5 0.03
38 23 0.15
39 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (36 bp):
TGGGATTAAATCGTAAGTCAGAGAAATAAAAATGAC
Found at i:20909064 original size:35 final size:34
Alignment explanation
Indices: 20908946--20909064 Score: 89
Period size: 38 Copynumber: 3.3 Consensus size: 34
20908936 AAAAATGACT
* * *
20908946 GGGATTAAATCGTAAATCGGAGAAATAAAAACGATT
1 GGGATTAAATCGTAAGTCAGA-AAAT-AAAACGATC
* * *
20908982 GGGATTAAA-CTGCAAGTTAAGAAACTATAAGAATGA-C
1 GGGATTAAATC-GTAAG-TCAGAAA--ATAA-AACGATC
20909019 TGGGATTAAATCGTAAGTCAGAAAATAAAAGCGATC
1 -GGGATTAAATCGTAAGTCAGAAAATAAAA-CGATC
20909055 GGGATTAAAT
1 GGGATTAAAT
20909065 TGCAAGTCGA
Statistics
Matches: 65, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
34 2 0.03
35 17 0.26
36 15 0.23
37 11 0.17
38 19 0.29
39 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (34 bp):
GGGATTAAATCGTAAGTCAGAAAATAAAACGATC
Found at i:20909069 original size:73 final size:74
Alignment explanation
Indices: 20908934--20909071 Score: 215
Period size: 74 Copynumber: 1.9 Consensus size: 74
20908924 AGTCAAAGAA
* *
20908934 ATAAAAATGACTGGGATTAAATCGTAAATCGGAGAAATAAAAACGATTGGGATTAAACTGCAAGT
1 ATAAAAATGACTGGGATTAAATCGTAAATCAGAGAAATAAAAACGATCGGGATTAAACTGCAAGT
20908999 TAAGAAACT
66 TAAGAAACT
* * * *
20909008 ATAAGAATGACTGGGATTAAATCGTAAGTCAGA-AAATAAAAGCGATCGGGATTAAATTGCAAGT
1 ATAAAAATGACTGGGATTAAATCGTAAATCAGAGAAATAAAAACGATCGGGATTAAACTGCAAGT
20909072 CGAGAAGTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
73 28 0.48
74 30 0.52
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (74 bp):
ATAAAAATGACTGGGATTAAATCGTAAATCAGAGAAATAAAAACGATCGGGATTAAACTGCAAGT
TAAGAAACT
Found at i:20909072 original size:35 final size:34
Alignment explanation
Indices: 20908968--20909077 Score: 87
Period size: 35 Copynumber: 3.0 Consensus size: 34
20908958 TAAATCGGAG
* * *
20908968 AAATAAAAACGATTGGGATTAAACTGCAAGTTAAGA
1 AAAT-AAAACGATCGGGATTAAATTGCAAG-TCAGA
* * *
20909004 AACTATAAGAATGA-CTGGGATTAAATCGTAAGTCAGA
1 AA--ATAA-AACGATC-GGGATTAAATTGCAAGTCAGA
20909041 AAATAAAAGCGATCGGGATTAAATTGCAAGTCGAGA
1 AAATAAAA-CGATCGGGATTAAATTGCAAGTC-AGA
20909077 A
1 A
20909078 GTAAAGAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
34 2 0.03
35 22 0.38
36 7 0.12
37 8 0.14
38 19 0.33
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (34 bp):
AAATAAAACGATCGGGATTAAATTGCAAGTCAGA
Found at i:20909295 original size:34 final size:34
Alignment explanation
Indices: 20909233--20909303 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
20909223 TAAATCAGAG
*
20909233 AATAAAGAGATCGGGATTAAACATCGAAT-AGAAA
1 AATAAAGAGATCGGGATTAAACAGCGAATCA-AAA
20909267 AATAAAGAGATCGGGATTAAATC-GCGAATCAAAA
1 AATAAAGAGATCGGGATTAAA-CAGCGAATCAAAA
20909301 AAT
1 AAT
20909304 GACATTAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.52, C:0.10, G:0.20, T:0.18
Consensus pattern (34 bp):
AATAAAGAGATCGGGATTAAACAGCGAATCAAAA
Found at i:20909525 original size:69 final size:69
Alignment explanation
Indices: 20909417--20909545 Score: 156
Period size: 69 Copynumber: 1.9 Consensus size: 69
20909407 AAAGCGATCG
* * *
20909417 GGATTGAATCACGAATCGAAGAATAAAGAGACCGTGATTAAACTACGAGTCAAAAAATAAAGTTA
1 GGATTGAATCACGAATCGAAGAATAAAAAGACAGTGATTAAACCACGAGTCAAAAAATAAAGTTA
20909482 ACTT
66 ACTT
* * *
20909486 GGATTGAATCAC-AAGTCAGAA-AATAAAAAGATCAG-GATTAGACCACGAGTTAAAAGATAA
1 GGATTGAATCACGAA-TC-GAAGAATAAAAAGA-CAGTGATTAAACCACGAGTCAAAAAATAA
20909546 CAACAACCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
68 2 0.04
69 44 0.86
70 5 0.10
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (69 bp):
GGATTGAATCACGAATCGAAGAATAAAAAGACAGTGATTAAACCACGAGTCAAAAAATAAAGTTA
ACTT
Found at i:20909817 original size:171 final size:169
Alignment explanation
Indices: 20909235--20909818 Score: 610
Period size: 171 Copynumber: 3.4 Consensus size: 169
20909225 AATCAGAGAA
* * ** * *
20909235 TAAAGAGATCGGGATT-AAACATCGAATAGAAAAATAAAGAGATCGGGATTAAATCGCGAA-TCA
1 TAAAGAGATCGGGATTGAACCAT-GAATAGGAGGATAAAAAGATCGAGATTAAATCGC-AAGTCA
* * *
20909298 AAAAATGACATTAACTTGGATTGAATCACAAGTCAGAAAATAAAACGATCGGGAATAAACCACGA
64 AAAAATGACGTTAACTTGGATTGAATCACAAGTCAGAAAATAAAA-GATCAGG-ATTAACCACGA
* ** **
20909363 GTC-GAAGGTTAATGACAATCGAGATTAAACTACGATTTTAAAT
127 GTCAG-AGGATAACAACAATCGAGATTAAACTGTGATTTTAAAT
* * * * * * * * *
20909406 TAAAGCGATCGGGATTGAATCACGAATCGAAGAATAAAGAGACCGTGATTAAACTACG--AGTCA
1 TAAAGAGATCGGGATTGAACCATGAATAGGAGGATAAAAAGATCGAGATTAAA-T-CGCAAGTCA
* *
20909469 AAAAATAAAGTTAACTTGGATTGAATCACAAGTCAGAAAATAAAAAGATCAGGATTAGACCACGA
64 AAAAATGACGTTAACTTGGATTGAATCACAAGTCAGAAAAT-AAAAGATCAGGATTA-ACCACGA
* * * *
20909534 GTTAAAAGATAACAACAACCGAGATTAAACTGAT-ATTTTAAAT
127 GTCAGAGGATAACAACAATCGAGATTAAACTG-TGATTTTAAAT
* * * * * *
20909577 TAAAAAGAGCGAGATTGAACCGTGAATAAGAGGATAAAGAA-ATCGAGATTAAACCGCAAGTCAA
1 TAAAGAGATCGGGATTGAACCATGAATAGGAGGATAAA-AAGATCGAGATTAAATCGCAAGTCAA
* *
20909641 AAAATGACGTTAACTTGGATTGAATCACAAGTTC-GAAAACAAGAAGATCAGGATTGAACCATGA
65 AAAATGACGTTAACTTGGATTGAATCACAAG-TCAGAAAATAA-AAGATCAGGATT-AACCACGA
*
20909705 GTCAGAGGATAACAACAATCGAGATTGAACTGTGATTTTAAAT
127 GTCAGAGGATAACAACAATCGAGATTAAACTGTGATTTTAAAT
* *
20909748 TAAAGAGATCGGGATTGAACCATAAACT-GGAGGATAAAAAGATCAAGATTAAATCGCAAGTCAA
1 TAAAGAGATCGGGATTGAACCATGAA-TAGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAA
20909812 AAAATGA
65 AAAATGA
20909819 AATGATCGAG
Statistics
Matches: 343, Mismatches: 53, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
169 2 0.01
170 9 0.03
171 316 0.92
172 14 0.04
173 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (169 bp):
TAAAGAGATCGGGATTGAACCATGAATAGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAA
AAATGACGTTAACTTGGATTGAATCACAAGTCAGAAAATAAAAGATCAGGATTAACCACGAGTCA
GAGGATAACAACAATCGAGATTAAACTGTGATTTTAAAT
Found at i:20911030 original size:18 final size:17
Alignment explanation
Indices: 20911006--20911049 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
20910996 ACTTCCTTTC
*
20911006 TTTTTTTTATTTTTTTG
1 TTTTTTTTATTTGTTTG
*
20911023 TATTTTTTTGTTTGTTTG
1 T-TTTTTTTATTTGTTTG
20911041 TTTTTTTTA
1 TTTTTTTTA
20911050 AGCAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTTTTTATTTGTTTG
Found at i:20922450 original size:16 final size:16
Alignment explanation
Indices: 20922429--20922567 Score: 90
Period size: 16 Copynumber: 8.8 Consensus size: 16
20922419 ATTTTGGAGG
20922429 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
*
20922445 TTTGGATTTAA--GAG
1 TTTGGATTTAAGGGAT
** *
20922459 TTTAAATGTT-TGGGAT
1 TTTGGAT-TTAAGGGAT
*
20922475 TTTGGATTTTATGTGG-T
1 TTTGGA-TTTAAG-GGAT
* *
20922492 TTTGGATTTTAGGGGT
1 TTTGGATTTAAGGGAT
* * **
20922508 TTTGAATTTTAGTGGGG
1 TTTGGATTTAAG-GGAT
20922525 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
* *
20922541 TTTGGATTTTA-TGAT
1 TTTGGATTTAAGGGAT
20922556 TTTGGATTTAAG
1 TTTGGATTTAAG
20922568 AGTTTAAAGG
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
14 7 0.07
15 17 0.18
16 47 0.49
17 23 0.24
18 2 0.02
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (16 bp):
TTTGGATTTAAGGGAT
Found at i:20922496 original size:17 final size:16
Alignment explanation
Indices: 20922474--20922564 Score: 96
Period size: 16 Copynumber: 5.6 Consensus size: 16
20922464 ATGTTTGGGA
20922474 TTTTGGATTTTATGTGG
1 TTTTGGATTTTA-GTGG
*
20922491 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGTGG
*
20922507 TTTTGAATTTTAGTGGG
1 TTTTGGATTTTAGT-GG
* *
20922524 GTTTGGATTTAAG-GG
1 TTTTGGATTTTAGTGG
*
20922539 ATTTTGGATTTTA-TGA
1 -TTTTGGATTTTAGTGG
20922555 TTTTGGATTT
1 TTTTGGATTT
20922565 AAGAGTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
15 12 0.19
16 26 0.42
17 24 0.39
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (16 bp):
TTTTGGATTTTAGTGG
Found at i:20922517 original size:33 final size:34
Alignment explanation
Indices: 20922470--20922553 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 34
20922460 TTAAATGTTT
* *
20922470 GGGATTTTGGATTTTATGT-GGTTTTGGATTTTA
1 GGGATTTTGGATTTTATGTGGGGTTTGGATTTAA
* *
20922503 GGGGTTTTGAATTTTA-GTGGGGTTTGGATTTAA
1 GGGATTTTGGATTTTATGTGGGGTTTGGATTTAA
20922536 GGGATTTTGGATTTTATG
1 GGGATTTTGGATTTTATG
20922554 ATTTTGGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
32 2 0.05
33 40 0.93
34 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (34 bp):
GGGATTTTGGATTTTATGTGGGGTTTGGATTTAA
Found at i:20922593 original size:30 final size:30
Alignment explanation
Indices: 20922553--20922624 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
20922543 TGGATTTTAT
*
20922553 GATTTTGGATTTAAGAGTTTAAAGGTTTGG
1 GATTTCGGATTTAAGAGTTTAAAGGTTTGG
20922583 GATTTCGGATTTAAGAGTTTAAAGGTTTGG
1 GATTTCGGATTTAAGAGTTTAAAGGTTTGG
20922613 GATTTCGGATTT
1 GATTTCGGATTT
20922625 TAGGGGGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.43
Consensus pattern (30 bp):
GATTTCGGATTTAAGAGTTTAAAGGTTTGG
Found at i:20922649 original size:16 final size:17
Alignment explanation
Indices: 20922619--20922651 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
20922609 TTGGGATTTC
20922619 GGATTTTAGGGGGTTTT
1 GGATTTTAGGGGGTTTT
20922636 GGATTTTA-GGGGTTTT
1 GGATTTTAGGGGGTTTT
20922652 AGAAACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.48
Consensus pattern (17 bp):
GGATTTTAGGGGGTTTT
Found at i:20925499 original size:15 final size:16
Alignment explanation
Indices: 20925470--20925499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20925460 CATGACATAG
20925470 TGATACAATATAAAAA
1 TGATACAATATAAAAA
20925486 TGATACAA-ATAAAA
1 TGATACAATATAAAA
20925500 GATATGGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
TGATACAATATAAAAA
Found at i:20926409 original size:33 final size:32
Alignment explanation
Indices: 20926366--20926429 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
20926356 ATTCAAAACC
* *
20926366 ATTATTTTTAAAAGTTTAAAATATTTTTAAAAT
1 ATTATGTTTAAAAGTTTAAAA-ATATTTAAAAT
* *
20926399 ATTATGTTTAATATTTTAAAAATATTTAAAA
1 ATTATGTTTAAAAGTTTAAAAATATTTAAAA
20926430 AAATCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
ATTATGTTTAAAAGTTTAAAAATATTTAAAAT
Found at i:20926451 original size:23 final size:24
Alignment explanation
Indices: 20926423--20926488 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
20926413 TTTAAAAATA
*
20926423 TTTAAAAAAATCAAAATATTGA-T
1 TTTAAAAAAATAAAAATATTGATT
20926446 TTTAAAAAAATTAAAAAT-TT-ATTT
1 TTTAAAAAAA-TAAAAATATTGA-TT
*
20926470 TTTAAAAAAGTAAAAATAT
1 TTTAAAAAAATAAAAATAT
20926489 GAAATTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 1 0.03
23 19 0.51
24 17 0.46
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (24 bp):
TTTAAAAAAATAAAAATATTGATT
Found at i:20930074 original size:20 final size:22
Alignment explanation
Indices: 20930027--20930076 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
20930017 CAAAATCAAT
*
20930027 ATCAATTTCACAATAATTTTGC
1 ATCAATTTCACAATAATTTAGC
*
20930049 ACCAATTTCAC-A-AATTTAGC
1 ATCAATTTCACAATAATTTAGC
20930069 ATCAATTT
1 ATCAATTT
20930077 TATAAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.56
21 1 0.04
22 10 0.40
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (22 bp):
ATCAATTTCACAATAATTTAGC
Found at i:20931179 original size:16 final size:16
Alignment explanation
Indices: 20931158--20931189 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20931148 AACGTTTTTT
20931158 CTTATAGTGAAATAAC
1 CTTATAGTGAAATAAC
*
20931174 CTTATAGTGATATAAC
1 CTTATAGTGAAATAAC
20931190 ATAGGCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (16 bp):
CTTATAGTGAAATAAC
Found at i:20933589 original size:27 final size:27
Alignment explanation
Indices: 20933551--20933633 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
20933541 AAACTCAAAT
20933551 ATCCCTCACCCCGCAGAATTTTCAGAC
1 ATCCCTCACCCCGCAGAATTTTCAGAC
20933578 ATCCCTCACCCCGCAGAATTTTCAGAC
1 ATCCCTCACCCCGCAGAATTTTCAGAC
* * * *
20933605 ATCCCTCTCCCCGAAGAAGTTCCAGAC
1 ATCCCTCACCCCGCAGAATTTTCAGAC
20933632 AT
1 AT
20933634 TTCTGTCTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.27, C:0.40, G:0.12, T:0.22
Consensus pattern (27 bp):
ATCCCTCACCCCGCAGAATTTTCAGAC
Found at i:20935676 original size:19 final size:19
Alignment explanation
Indices: 20935654--20935694 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
20935644 TCTATAACAT
20935654 CTATAACATACTATTAAAA
1 CTATAACATACTATTAAAA
20935673 CTATAACATACTATTAAAA
1 CTATAACATACTATTAAAA
20935692 CTA
1 CTA
20935695 GCCCTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (19 bp):
CTATAACATACTATTAAAA
Found at i:20936514 original size:118 final size:118
Alignment explanation
Indices: 20936306--20936541 Score: 454
Period size: 118 Copynumber: 2.0 Consensus size: 118
20936296 GCTGCTTGCG
20936306 ACATGTCATTGTTTTATTTTTAATTTTTTTATATTGTTTTAAATACCTCTTAAAAAAAAAATTCT
1 ACATGTCATTGTTTTATTTTTAATTTTTTTATATTGTTTTAAATACCTCTTAAAAAAAAAATTCT
*
20936371 CTTAAAGAGTTATTATGTTAATGTGTGACAAGCTCTTTATTTGCCATGTGGCA
66 CTTAAAGAGTTATTATGTTAATGTGTAACAAGCTCTTTATTTGCCATGTGGCA
*
20936424 ACATGTCATTGTTTTATTTTTAATTTTTTTATATTGTTTTAAATACCTTTTAAAAAAAAAATTCT
1 ACATGTCATTGTTTTATTTTTAATTTTTTTATATTGTTTTAAATACCTCTTAAAAAAAAAATTCT
20936489 CTTAAAGAGTTATTATGTTAATGTGTAACAAGCTCTTTATTTGCCATGTGGCA
66 CTTAAAGAGTTATTATGTTAATGTGTAACAAGCTCTTTATTTGCCATGTGGCA
20936542 TTTAATATTT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (118 bp):
ACATGTCATTGTTTTATTTTTAATTTTTTTATATTGTTTTAAATACCTCTTAAAAAAAAAATTCT
CTTAAAGAGTTATTATGTTAATGTGTAACAAGCTCTTTATTTGCCATGTGGCA
Found at i:20936582 original size:118 final size:116
Alignment explanation
Indices: 20936327--20936566 Score: 322
Period size: 118 Copynumber: 2.1 Consensus size: 116
20936317 TTTTATTTTT
**
20936327 AATTTTTTTATATTGTTTTAAATACCTCTTAAAAAAAAAATTCTCTTAAAGAGTTATTATGTTAA
1 AATTTTTAAATATTGTTTTAAATACCTCTTAAAAAAAAAATTCTCTTAAAGAGTTATTATGTTAA
* * ****
20936392 TGTGTGACAAGCTCTTTATTTGCCATGTGGCAACATGTCATTGTTTTATTTTT
66 TGTGTAACAAGCTCTTTATTTGCCATGTGG--ACATGTAATTGTTTTATAAAA
** *
20936445 AATTTTTTTATATTGTTTTAAATACCTTTTAAAAAAAAAATTCTCTTAAAGAGTTATTATGTTAA
1 AATTTTTAAATATTGTTTTAAATACCTCTTAAAAAAAAAATTCTCTTAAAGAGTTATTATGTTAA
* *
20936510 TGTGTAACAAGCTCTTTATTTGCCATGTGG-CATTTAATATTTTTTA-AAAA
66 TGTGTAACAAGCTCTTTATTTGCCATGTGGACATGTAAT-TGTTTTATAAAA
20936560 AATTTTT
1 AATTTTT
20936567 CAAAATAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
115 13 0.12
116 6 0.05
118 93 0.83
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (116 bp):
AATTTTTAAATATTGTTTTAAATACCTCTTAAAAAAAAAATTCTCTTAAAGAGTTATTATGTTAA
TGTGTAACAAGCTCTTTATTTGCCATGTGGACATGTAATTGTTTTATAAAA
Found at i:20936595 original size:3 final size:3
Alignment explanation
Indices: 20936589--20936627 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
20936579 TTTATTTGAT
20936589 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20936628 AAGGTGAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20937471 original size:34 final size:34
Alignment explanation
Indices: 20937433--20937557 Score: 99
Period size: 34 Copynumber: 3.5 Consensus size: 34
20937423 TTTTAAGCAC
*
20937433 AAATGCCACTAAATTTAGCGGTGTTTGTGCTTAA
1 AAATGCCACTAAATTTAGCGGTGTTTGTGATTAA
* ** *
20937467 AAATGCCACTAAATTATGAATTTAGTGGCATTTGT-ATAAA
1 AAATGCCAC-----TA--AATTTAGCGGTGTTTGTGATTAA
* * *
20937507 AAATACCGCTAAATTTAGCGGTGTTTGTGTTTAA
1 AAATGCCACTAAATTTAGCGGTGTTTGTGATTAA
*
20937541 AAATGTCACTAAATTTA
1 AAATGCCACTAAATTTA
20937558 ACAATGTTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
33 14 0.21
34 26 0.38
35 2 0.03
39 2 0.03
40 10 0.15
41 14 0.21
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (34 bp):
AAATGCCACTAAATTTAGCGGTGTTTGTGATTAA
Found at i:20939385 original size:18 final size:18
Alignment explanation
Indices: 20939362--20939396 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20939352 ATTTTTTAAT
*
20939362 TAATTATTTAATTATATA
1 TAATTATATAATTATATA
20939380 TAATTATATAATTATAT
1 TAATTATATAATTATAT
20939397 TTTTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTATATAATTATATA
Found at i:20939427 original size:20 final size:21
Alignment explanation
Indices: 20939402--20939454 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
20939392 TATATTTTTA
20939402 AATATTTATATTTT-AAAAAT
1 AATATTTATATTTTAAAAAAT
20939422 AATATTTTATATTTTAAAAAAT
1 AATA-TTTATATTTTAAAAAAT
20939444 AATATTT-TATT
1 AATATTTATATT
20939455 AATTTCGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:20939432 original size:21 final size:22
Alignment explanation
Indices: 20939402--20939453 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
20939392 TATATTTTTA
20939402 AATA-TTTATATTTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
20939422 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
20939444 AATATTTTAT
1 AATATTTTAT
20939454 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 10 0.33
22 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:20939916 original size:43 final size:43
Alignment explanation
Indices: 20939858--20939954 Score: 176
Period size: 43 Copynumber: 2.2 Consensus size: 43
20939848 TTCATTCAAA
20939858 TAAATAAGTAAGAGTATCTTAACACATAACAACTTTAGGATACAT
1 TAAATAA--AAGAGTATCTTAACACATAACAACTTTAGGATACAT
20939903 TAAATAAAAGAGTATCTTAACACATAACAACTTTAGGATACAT
1 TAAATAAAAGAGTATCTTAACACATAACAACTTTAGGATACAT
20939946 TAAATAAAA
1 TAAATAAAA
20939955 AAAATTCTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 45 0.87
45 7 0.13
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (43 bp):
TAAATAAAAGAGTATCTTAACACATAACAACTTTAGGATACAT
Found at i:20942098 original size:61 final size:60
Alignment explanation
Indices: 20941996--20942111 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 60
20941986 TTTGCAAAAA
20941996 AGATTATTGAAGGCATTTCAAGCAAAAAACACCTTCAATAATCCTCACCCCAATTTTGATGAGG
1 AGATTATTGAAGGCATTT--AGCAAAAAACACCTTCAATAAT-CTCA-CCCAATTTTGATGAGG
** * *
20942060 AGATTATTGAAGGCATTT-TTAAAAAATACCTTCAATAATCTCATCCAATTTT
1 AGATTATTGAAGGCATTTAGCAAAAAACACCTTCAATAATCTCACCCAATTTT
20942112 TTAAAACAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 8 0.17
60 4 0.08
61 18 0.38
64 18 0.38
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (60 bp):
AGATTATTGAAGGCATTTAGCAAAAAACACCTTCAATAATCTCACCCAATTTTGATGAGG
Found at i:20942275 original size:61 final size:61
Alignment explanation
Indices: 20942208--20942389 Score: 195
Period size: 64 Copynumber: 2.9 Consensus size: 61
20942198 AATCCCCTTC
* * *
20942208 ATTTTTTATGAAGAGATTATTGAAGGTATTTTTGACAAAAAACCCTTCAATAATTTTTTTTA
1 ATTTTTTAT-AAGAGATTATTGAAGGTATTTTTAACAAAAAACCCTTCAATAATTTATTCTA
* * * * **
20942270 ATTTTTTATAAGAGATTATTAAAGGTATTTTTTACAAAAAAAAAACATTCAATAATCCATTCTA
1 ATTTTTTATAAGAGATTATTGAAGGTA-TTTTT--AACAAAAAACCCTTCAATAATTTATTCTA
** *
20942334 ATTTTTTATAAGAGATTATTGAAGG-CGTTTTAAGCAAAAAACACCTTGAATAATTT
1 ATTTTTTATAAGAGATTATTGAAGGTATTTTTAA-CAAAAAAC-CCTTCAATAATTT
20942390 GCTCATAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
60 2 0.02
61 23 0.24
62 27 0.28
64 45 0.46
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (61 bp):
ATTTTTTATAAGAGATTATTGAAGGTATTTTTAACAAAAAACCCTTCAATAATTTATTCTA
Found at i:20942275 original size:163 final size:164
Alignment explanation
Indices: 20942019--20942346 Score: 398
Period size: 163 Copynumber: 2.0 Consensus size: 164
20942009 CATTTCAAGC
*
20942019 AAAAAACACCTTCAATAATCCTCACCCCAATTTTGATGAGGAGATTATTGAAGGCATTTTTAAAA
1 AAAAAACACCTTCAATAATCCTCACCCCAATTTTGATGAAGAGATTATTGAAGGCATTTTTAAAA
*
20942084 AATACCTTCAATAATCTCATCCAATTTTTTAAAACAGATTATTAAAGGTATTTTTTGAC-CAAAA
66 AATACCTTCAATAATCTCATCCAATTTTTTAAAACAGATTATTAAAGGTATTTTTT-ACAAAAAA
** *
20942148 ACGCTTTCAATAATCC-TCTCTAATTTTTTA-AAGA
130 AAACATTCAATAATCCAT-TCTAATTTTTTATAAGA
* ** * * *
20942182 AAAAAATACCTTCAATAATCC-C-CTTCATTTTTTATGAAGAGATTATTGAAGGTATTTTTGACA
1 AAAAAACACCTTCAATAATCCTCACCCCAATTTTGATGAAGAGATTATTGAAGGCATTTTT-A-A
* ** ** * *
20942245 AAAA-ACCCTTCAATAATTTTTTTTAATTTTTTATAAGAGATTATTAAAGGTATTTTTTACAAAA
64 AAAATA-CCTTCAATAATCTCATCCAATTTTTTAAAACAGATTATTAAAGGTATTTTTTAC-AAA
20942309 AAAAAACATTCAATAATCCATTCTAATTTTTTATAAGA
127 AAAAAACATTCAATAATCCATTCTAATTTTTTATAAGA
20942347 GATTATTGAA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
161 31 0.22
162 5 0.04
163 70 0.50
164 29 0.21
165 5 0.04
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (164 bp):
AAAAAACACCTTCAATAATCCTCACCCCAATTTTGATGAAGAGATTATTGAAGGCATTTTTAAAA
AATACCTTCAATAATCTCATCCAATTTTTTAAAACAGATTATTAAAGGTATTTTTTACAAAAAAA
AACATTCAATAATCCATTCTAATTTTTTATAAGA
Found at i:20942345 original size:64 final size:64
Alignment explanation
Indices: 20942170--20942358 Score: 219
Period size: 64 Copynumber: 3.0 Consensus size: 64
20942160 ATCCTCTCTA
*
20942170 ATTTTTTA-AAGAAAAAAATACCTTCAATAATCCCCTTC--ATTTTTTATGAAGAGATTATTGAA
1 ATTTTTTACAA-AAAAAAA-ACCTTCAATAAT-CCATTCTAATTTTTTAT-AAGAGATTATTGAA
20942232 GGT
62 GGT
* * *** * *
20942235 ATTTTTGAC---AAAAAACCCTTCAATAATTTTTTTTAATTTTTTATAAGAGATTATTAAAGGT
1 ATTTTTTACAAAAAAAAAACCTTCAATAATCCATTCTAATTTTTTATAAGAGATTATTGAAGGT
*
20942296 ATTTTTTACAAAAAAAAAACATTCAATAATCCATTCTAATTTTTTATAAGAGATTATTGAAGG
1 ATTTTTTACAAAAAAAAAACCTTCAATAATCCATTCTAATTTTTTATAAGAGATTATTGAAGG
20942359 CGTTTTAAGC
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
60 2 0.02
61 35 0.34
62 15 0.15
64 44 0.43
65 7 0.07
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (64 bp):
ATTTTTTACAAAAAAAAAACCTTCAATAATCCATTCTAATTTTTTATAAGAGATTATTGAAGGT
Found at i:20942420 original size:61 final size:61
Alignment explanation
Indices: 20942339--20942486 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 61
20942329 TTCTAATTTT
* * *
20942339 TTATAAGAGATTATTGAAGGCGTTTTAAGCAAAAAACACCTTGAATAA-TTTGCTCATAAAAA
1 TTATAAAAGATTATTAAAGGCGTTTTAAGCAAAAAACACCTTCAATAATTTTGCT-A-AAAAA
* * * ** * *
20942401 -TATATATGATTATTAAAGGCATTTTCTGCTAGAAACACCTTCAATAATTTTGCTAAAAAA
1 TTATAAAAGATTATTAAAGGCGTTTTAAGCAAAAAACACCTTCAATAATTTTGCTAAAAAA
* *
20942461 TTGTAAAAGATTATTAAAGGTGTTTT
1 TTATAAAAGATTATTAAAGGCGTTTT
20942487 TTGTTAAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
60 5 0.07
61 58 0.84
62 6 0.09
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (61 bp):
TTATAAAAGATTATTAAAGGCGTTTTAAGCAAAAAACACCTTCAATAATTTTGCTAAAAAA
Found at i:20943674 original size:19 final size:19
Alignment explanation
Indices: 20943641--20943688 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
20943631 TATTCCCTTT
* * *
20943641 TTTTTTTCTTCTTTTTTTC
1 TTTTTTTATTCTTTTATGC
*
20943660 TTTTTTTATTTTTTTATGC
1 TTTTTTTATTCTTTTATGC
*
20943679 CTTTTTTATT
1 TTTTTTTATT
20943689 AAATTAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTTTATTCTTTTATGC
Found at i:20943827 original size:13 final size:15
Alignment explanation
Indices: 20943792--20943828 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
20943782 TTTCACAACA
20943792 AAATATGTCAATTAAT
1 AAATATGTCAA-TAAT
20943808 AAATATGTCAA-AAT
1 AAATATGTCAATAAT
20943822 -AATATGT
1 AAATATGT
20943829 ATCCGACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
16 11 0.52
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (15 bp):
AAATATGTCAATAAT
Found at i:20945396 original size:21 final size:21
Alignment explanation
Indices: 20945372--20945417 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
20945362 TTATTTAGAT
20945372 AATTGCACTCGTCCTTCTCAA
1 AATTGCACTCGTCCTTCTCAA
* *
20945393 AATTGCACTCGTCTTTTTCAA
1 AATTGCACTCGTCCTTCTCAA
20945414 AATT
1 AATT
20945418 ATTGTCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (21 bp):
AATTGCACTCGTCCTTCTCAA
Found at i:20945497 original size:28 final size:28
Alignment explanation
Indices: 20945457--20945514 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
20945447 TCTAAATTGT
*
20945457 GTTTAGATCATTTAGATAATTACAATAG
1 GTTTAGATAATTTAGATAATTACAATAG
20945485 GTTTAGATAATTTAGATAATTACAATAG
1 GTTTAGATAATTTAGATAATTACAATAG
20945513 GT
1 GT
20945515 GACAGTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (28 bp):
GTTTAGATAATTTAGATAATTACAATAG
Found at i:20945523 original size:28 final size:28
Alignment explanation
Indices: 20945461--20945525 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
20945451 AATTGTGTTT
* **
20945461 AGATCATTTAGATAATTACAATAGGTTT
1 AGATAATTTAGATAATTACAATAGGTAC
20945489 AGATAATTTAGATAATTACAATAGGTGAC
1 AGATAATTTAGATAATTACAATAGGT-AC
20945518 AG-TAATTT
1 AGATAATTT
20945526 TGAAAAAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 31 0.94
29 2 0.06
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (28 bp):
AGATAATTTAGATAATTACAATAGGTAC
Found at i:20945545 original size:21 final size:21
Alignment explanation
Indices: 20945519--20945561 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20945509 ATAGGTGACA
20945519 GTAATTTTGAAAAAGACGAGT
1 GTAATTTTGAAAAAGACGAGT
*
20945540 GTAATTTTGAAAAGGACGAGT
1 GTAATTTTGAAAAAGACGAGT
20945561 G
1 G
20945562 CAATCATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (21 bp):
GTAATTTTGAAAAAGACGAGT
Found at i:20945641 original size:63 final size:62
Alignment explanation
Indices: 20945542--20945704 Score: 220
Period size: 63 Copynumber: 2.6 Consensus size: 62
20945532 AGACGAGTGT
* * * * *
20945542 AATTTTGA-AAAGGACGAGTGCAATCATCTAAATAATTTAGATAAGAATTGGCAGGTGCCAGC
1 AATTTTGAGAAA-AACGAGTGCAATTATCTAAATAATTTAGATAAAAATTGACAGGTGACAGC
* *
20945604 TATTTTGAGAAGAAACGAGTGCAATTATCTAAATAATTTAGATAAAAATTGATAGGTGACAGC
1 AATTTTGAGAA-AAACGAGTGCAATTATCTAAATAATTTAGATAAAAATTGACAGGTGACAGC
* *
20945667 AATTTTGAGAAAGACGAGTGCAATTATCTAAATTATTT
1 AATTTTGAGAAAAACGAGTGCAATTATCTAAATAATTT
20945705 TCCCACCCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
62 32 0.36
63 56 0.63
64 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (62 bp):
AATTTTGAGAAAAACGAGTGCAATTATCTAAATAATTTAGATAAAAATTGACAGGTGACAGC
Found at i:20945995 original size:21 final size:24
Alignment explanation
Indices: 20945961--20946013 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
20945951 ATTTATTTTT
20945961 TTAT-ATATAATAAAA-TTTAAA-A
1 TTATCATA-AATAAAATTTTAAATA
20945983 TT-TCATAAATAAAATTTTAAATA
1 TTATCATAAATAAAATTTTAAATA
20946006 TTATCATA
1 TTATCATA
20946014 TATATTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.30
22 11 0.41
23 3 0.11
24 5 0.19
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATCATAAATAAAATTTTAAATA
Found at i:20955847 original size:175 final size:175
Alignment explanation
Indices: 20955556--20955870 Score: 551
Period size: 175 Copynumber: 1.8 Consensus size: 175
20955546 AAAGTAAACT
* *
20955556 GAGTTGGGACTTGAATTCAAATTCTTAAGTTAATTTAATGAATCCTTAAGTTGATTGATTAAAAT
1 GAGTTGGGACTTAAATTCAAATTCTTAAGTTAATTTAATGAATCCTTAAGTTGATTAATTAAAAT
*
20955621 CTATTAAGCTCCCCTAATTTGAGCTAAAACTTTATGGTTATTTGATTTACCAAAAGATTAATCTA
66 CTATTAAGCTCCCCTAATTTGAGCTAAAACTTGATGGTTATTTGATTTACCAAAAGATTAATCTA
20955686 TCAAATCACTGATTTGGAGAAATAGGTTGATAGTTAATGTAAATC
131 TCAAATCACTGATTTGGAGAAATAGGTTGATAGTTAATGTAAATC
*
20955731 GAGTTGGGACTTAAATTTAAATTCTTAAGTTAATTTAA-GAAATCCTTAAGTTGATTAATTAAAA
1 GAGTTGGGACTTAAATTCAAATTCTTAAGTTAATTTAATG-AATCCTTAAGTTGATTAATTAAAA
* * *
20955795 TCTATTAAGCTCTCTTAATTTGAGCTAAAACTTGGTGGTTATTTGATTTACCAAAAGATTAATCT
65 TCTATTAAGCTCCCCTAATTTGAGCTAAAACTTGATGGTTATTTGATTTACCAAAAGATTAATCT
20955860 ATCAAATCACT
130 ATCAAATCACT
20955871 TTAGTTTGTC
Statistics
Matches: 132, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
174 1 0.01
175 131 0.99
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (175 bp):
GAGTTGGGACTTAAATTCAAATTCTTAAGTTAATTTAATGAATCCTTAAGTTGATTAATTAAAAT
CTATTAAGCTCCCCTAATTTGAGCTAAAACTTGATGGTTATTTGATTTACCAAAAGATTAATCTA
TCAAATCACTGATTTGGAGAAATAGGTTGATAGTTAATGTAAATC
Found at i:20960060 original size:11 final size:11
Alignment explanation
Indices: 20960044--20960085 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
20960034 AATCTCATAA
20960044 GAGATTTGTTT
1 GAGATTTGTTT
*
20960055 GAGATTTGTTA
1 GAGATTTGTTT
20960066 GAGATTTGTTT
1 GAGATTTGTTT
20960077 GAGATTTGT
1 GAGATTTGT
20960086 CAGATAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:20960071 original size:22 final size:22
Alignment explanation
Indices: 20960043--20960085 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20960033 AAATCTCATA
20960043 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
20960065 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
20960086 CAGATAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:20960200 original size:52 final size:51
Alignment explanation
Indices: 20960138--20960266 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 51
20960128 TTCAAGAGAA
* *
20960138 AAAGGG-TTCTTAATAGGTAAGTTTGACTTGCA-AGAGAAGAATTCTAAAAGG
1 AAAGGGATTCTTAATAGGCAAGTTTGACTTACAGA-AGAAGAATTCTAAAA-G
* *
20960189 AAAGGGATTCTTAATAGGCAAGTTTGACTTACAGAAGAAGAATTTTAAGAG
1 AAAGGGATTCTTAATAGGCAAGTTTGACTTACAGAAGAAGAATTCTAAAAG
* *
20960240 AAGAAGGATTCTTAATGGGCAAGTTTG
1 AA-AGGGATTCTTAATAGGCAAGTTTG
20960267 TATGGTTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
51 9 0.13
52 59 0.86
53 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.28
Consensus pattern (51 bp):
AAAGGGATTCTTAATAGGCAAGTTTGACTTACAGAAGAAGAATTCTAAAAG
Found at i:20960861 original size:25 final size:25
Alignment explanation
Indices: 20960832--20960906 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
20960822 AGAGATGTGA
20960832 AAGAGCTGAAAGTTTGAGATATGGG
1 AAGAGCTGAAAGTTTGAGATATGGG
* * *
20960857 AAGAGCT-AAAGGTTTCAGATGTGAG
1 AAGAGCTGAAA-GTTTGAGATATGGG
*
20960882 AAGTGCATG---GTTTGAGATATGGG
1 AAGAGC-TGAAAGTTTGAGATATGGG
20960905 AA
1 AA
20960907 AAAGTAAGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
23 13 0.32
24 3 0.08
25 23 0.57
26 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.25
Consensus pattern (25 bp):
AAGAGCTGAAAGTTTGAGATATGGG
Found at i:20961142 original size:11 final size:11
Alignment explanation
Indices: 20961126--20961167 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
20961116 AATCTCATAA
20961126 GAGATTTGTTT
1 GAGATTTGTTT
*
20961137 GAGATTTGTTA
1 GAGATTTGTTT
20961148 GAGATTTGTTT
1 GAGATTTGTTT
20961159 GAGATTTGT
1 GAGATTTGT
20961168 CAGATATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:20961153 original size:22 final size:22
Alignment explanation
Indices: 20961125--20961167 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20961115 AAATCTCATA
20961125 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
20961147 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
20961168 CAGATATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:20961279 original size:52 final size:52
Alignment explanation
Indices: 20961192--20961345 Score: 193
Period size: 52 Copynumber: 3.0 Consensus size: 52
20961182 TGGACAAGAA
* * *
20961192 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
20961244 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* ** * * * *
20961296 AACTTATAGGAAAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGT
20961346 GTGTATGGTT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 84 0.94
53 5 0.06
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:20964098 original size:24 final size:25
Alignment explanation
Indices: 20964057--20964108 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
20964047 TCTACCATGC
* ** *
20964057 AATAAATATCATGTAAT-AATATTA
1 AATAAAAATCATACAATAAATATAA
20964081 AATAAAAATCATACAATAAATATAA
1 AATAAAAATCATACAATAAATATAA
20964106 AAT
1 AAT
20964109 CATGCAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (25 bp):
AATAAAAATCATACAATAAATATAA
Found at i:20964102 original size:18 final size:19
Alignment explanation
Indices: 20964079--20964118 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
20964069 GTAATAATAT
20964079 TAAATA-AAAATCATACAA
1 TAAATATAAAATCATACAA
*
20964097 TAAATATAAAATCATGCAA
1 TAAATATAAAATCATACAA
20964116 TAA
1 TAA
20964119 TCATACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (19 bp):
TAAATATAAAATCATACAA
Found at i:20964136 original size:25 final size:25
Alignment explanation
Indices: 20964094--20964192 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 25
20964084 AAAAATCATA
20964094 CAATAAATATAAA-ATCATGCAATAAT
1 CAATAAA-A-AAATATCATGCAATAAT
* *
20964120 C-ATACAAAAAATATCATGAAAAAAAT
1 CAATA-AAAAAATATCATG-CAATAAT
*
20964146 GCAATAAAAACAT-T-ATGCAATAAT
1 -CAATAAAAAAATATCATGCAATAAT
20964170 CAATAATATAAAATATCATGCAA
1 CAATAA-A-AAAATATCATGCAA
20964193 AAATAACAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
23 6 0.10
24 9 0.16
25 17 0.29
26 10 0.17
27 13 0.22
28 3 0.05
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (25 bp):
CAATAAAAAAATATCATGCAATAAT
Found at i:20964803 original size:49 final size:50
Alignment explanation
Indices: 20964750--20964844 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 50
20964740 ATAAAACTAT
*
20964750 AATAACAATAAAATATATCTTAGAAAAAAATTA-TAAAAAAATAAATTGC
1 AATAACAATAAAATATACCTTAGAAAAAAATTACTAAAAAAATAAATTGC
* * * *
20964799 AATAACAATAGATTATACCTTAGAAAAAAGTTACTGAAAAAATAAA
1 AATAACAATAAAATATACCTTAGAAAAAAATTACTAAAAAAATAAA
20964845 AAAAAAATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 29 0.73
50 11 0.28
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.25
Consensus pattern (50 bp):
AATAACAATAAAATATACCTTAGAAAAAAATTACTAAAAAAATAAATTGC
Found at i:20965450 original size:25 final size:24
Alignment explanation
Indices: 20965412--20965491 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
20965402 AATAAATTTA
* *
20965412 AAATTACCTAATTTGTAATTAAAAG
1 AAATTATCTTATTTGT-ATTAAAAG
20965437 AAATTATCTTATTT-T-TTAAAA-
1 AAATTATCTTATTTGTATTAAAAG
* *
20965458 AAACTATCTTATATGTCATTTAAAAG
1 AAATTATCTTATTTGT-A-TTAAAAG
20965484 -AATTATCT
1 AAATTATCT
20965492 ATATAAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 12 0.27
22 7 0.16
24 1 0.02
25 25 0.56
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (24 bp):
AAATTATCTTATTTGTATTAAAAG
Found at i:20965549 original size:2 final size:2
Alignment explanation
Indices: 20965524--20965562 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
20965514 TTTATTTGTT
20965524 TA TA T- TA T- TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20965562 T
1 T
20965563 TGGATTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:20965984 original size:14 final size:14
Alignment explanation
Indices: 20965962--20966009 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
20965952 TATTTTTTAA
*
20965962 TTATTTATTTAATT
1 TTATATATTTAATT
20965976 TTATATATTT-A--
1 TTATATATTTAATT
20965987 -TATATATTTAATT
1 TTATATATTTAATT
20966000 TTATAT-TTTA
1 TTATATATTTA
20966010 TATAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
10 9 0.31
11 1 0.03
13 5 0.17
14 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:20965994 original size:24 final size:23
Alignment explanation
Indices: 20965967--20966013 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
20965957 TTTAATTATT
20965967 TATTTAATTTTATATATTTATATA
1 TATTTAATTTTATAT-TTTATATA
20965991 TATTTAATTTTATATTTTATATA
1 TATTTAATTTTATATTTTATATA
20966014 AAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTAATTTTATATTTTATATA
Found at i:20966022 original size:24 final size:23
Alignment explanation
Indices: 20965971--20966030 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
20965961 ATTATTTATT
* **
20965971 TAATTTTATATATTTATATATATT
1 TAATTTTATAT-TTTATATAAAAA
20965995 TAATTTTATATTTTATATAAAAAA
1 TAATTTTATATTTTATAT-AAAAA
20966019 TAATATTT-TATT
1 TAAT-TTTATATT
20966031 AATTTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 7 0.23
24 21 0.68
25 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TAATTTTATATTTTATATAAAAA
Found at i:20967328 original size:27 final size:27
Alignment explanation
Indices: 20967290--20967342 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
20967280 CAAGATTCGA
20967290 TTTTAAATTGTTCTTAATTCTCTTTTC
1 TTTTAAATTGTTCTTAATTCTCTTTTC
*
20967317 TTTTAAATTGTTCTTAATTTTCTTTT
1 TTTTAAATTGTTCTTAATTCTCTTTT
20967343 TCCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTTAAATTGTTCTTAATTCTCTTTTC
Found at i:20967452 original size:17 final size:17
Alignment explanation
Indices: 20967422--20967469 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
20967412 TTTTAAACAT
*
20967422 AAAA-TCACAATTAAAA
1 AAAATTCACATTTAAAA
20967438 AAAATTCACATTTAAAA
1 AAAATTCACATTTAAAA
* *
20967455 AAAGTACACATTTAA
1 AAAATTCACATTTAA
20967470 TTTTAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAATTCACATTTAAAA
Found at i:20967454 original size:16 final size:16
Alignment explanation
Indices: 20967422--20967469 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
20967412 TTTTAAACAT
*
20967422 AAAA-TCACAATTAAAA
1 AAAATTCAC-ATTTAAA
20967438 AAAATTCACATTTAAA
1 AAAATTCACATTTAAA
*
20967454 AAAAGTACACATTTAA
1 AAAA-TTCACATTTAA
20967470 TTTTAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATTCACATTTAAA
Found at i:20971738 original size:9 final size:8
Alignment explanation
Indices: 20971723--20971760 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
20971713 TTCGAGAGAA
20971723 TTTTTTTG
1 TTTTTTTG
20971731 TGTTTTTTG
1 T-TTTTTTG
20971740 TTTTTTATG
1 TTTTTT-TG
20971749 TTTTTTT-
1 TTTTTTTG
20971756 TTTTT
1 TTTTT
20971761 AATATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.18
8 7 0.25
9 16 0.57
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:20971745 original size:16 final size:15
Alignment explanation
Indices: 20971723--20971761 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
20971713 TTCGAGAGAA
*
20971723 TTTTTTTGTGTTTTT
1 TTTTTTTATGTTTTT
20971738 TGTTTTTTATGTTTTT
1 T-TTTTTTATGTTTTT
20971754 TTTTTTTA
1 TTTTTTTA
20971762 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (15 bp):
TTTTTTTATGTTTTT
Found at i:20972150 original size:41 final size:40
Alignment explanation
Indices: 20972104--20972774 Score: 235
Period size: 41 Copynumber: 16.6 Consensus size: 40
20972094 TTGCCCGAAA
* *
20972104 GTCTTGGAAAATCATTTAAAATTTTGAAGTTTTGCTCGGAG
1 GTCTT-GAAAATCATTTAAAAATTTAAAGTTTTGCTCGGAG
* * * * ** *
20972145 GTCTTGAAAATCCTTTAGAAATTT-AAGATTTTACCCAAAA
1 GTCTTGAAAATCATTTAAAAATTTAAAG-TTTTGCTCGGAG
* * * * *
20972185 GTCTTTAGAAATCATTCAAAAATCTAAAATTTTGACT-TGAG
1 GTCTTGA-AAATCATTTAAAAATTTAAAGTTTTG-CTCGGAG
* *
20972226 GTCTTGAAAATCATTTAAAAATTT-AAGATTTTG-TCCGAAA
1 GTCTTGAAAATCATTTAAAAATTTAAAG-TTTTGCT-CGGAG
* * * *
20972266 GTCTTTAGAAATCATTTAAAAAATTAAAATTTTGC-CTGGAT
1 GTCTTGA-AAATCATTTAAAAATTTAAAGTTTTGCTC-GGAG
* * ** *
20972307 GTCTTTGAAAAT-TTTTCAAAAATTTAAAATTTTGC-CTAAAA
1 GTC-TTGAAAATCATTT-AAAAATTTAAAGTTTTGCTC-GGAG
* * * * *
20972348 GTCTT-AGAAATCATTCAAAGATTT-AAGATTTTGTTTGGAA
1 GTCTTGA-AAATCATTTAAAAATTTAAAG-TTTTGCTCGGAG
* * * *
20972388 GTCTTTAAAAATCATTTAAAAATTTAAAGTTTTGCCCGAAA
1 GTC-TTGAAAATCATTTAAAAATTTAAAGTTTTGCTCGGAG
* * * * *
20972429 ATCTTGAAAATTA-TTAAAAAGTCTAAAATTTTGCTTGGAG
1 GTCTTGAAAATCATTTAAAAA-TTTAAAGTTTTGCTCGGAG
* * * ** * * * **
20972469 AT-TTTAAAGATCATTCAAAGTTTTAAAATTTTACCCAAAG
1 GTCTTGAAA-ATCATTTAAAAATTTAAAGTTTTGCTCGGAG
* * * *
20972509 GTCTTTTG-AAATTATTT-AAAATCT-GAGATTTTGTTCGGAG
1 GTC--TTGAAAATCATTTAAAAATTTAAAG-TTTTGCTCGGAG
* * * * ** *
20972549 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTGC-CTATAA
1 GTC-TTGAAAATCATTTAAAAATTTAAAGTTTTGCTC-GGAG
* * **
20972590 GTCTTGGAAAATCTTTTAAAATTTTAAAGTTTTGCTCAAAG
1 GTCTT-GAAAATCATTTAAAAATTTAAAGTTTTGCTCGGAG
* * * *
20972631 GTTTTGGGAAATCATTT-AAAATTTTAAGATTTTACTCGGAG
1 GTCTT-GAAAATCATTTAAAAATTTAAAG-TTTTGCTCGGAG
* * * * **
20972672 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTGCTCAAAG
1 GTC-TTGAAAATCATTTAAAAATTTAAAGTTTTGCTCGGAG
* * * * * *
20972713 GTTTTGAAGATCATTCAAAGATTT-AAGATTTTGCCCAGAG
1 GTCTTGAAAATCATTTAAAAATTTAAAG-TTTTGCTCGGAG
* *
20972753 GTATT-AGAAATCATTTACAAAT
1 GTCTTGA-AAATCATTTAAAAAT
20972775 CTAAGGCTTC
Statistics
Matches: 459, Mismatches: 133, Indels: 77
0.69 0.20 0.12
Matches are distributed among these distances:
38 1 0.00
39 27 0.06
40 198 0.43
41 205 0.45
42 26 0.06
43 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (40 bp):
GTCTTGAAAATCATTTAAAAATTTAAAGTTTTGCTCGGAG
Found at i:20972218 original size:81 final size:81
Alignment explanation
Indices: 20972093--20972778 Score: 464
Period size: 81 Copynumber: 8.5 Consensus size: 81
20972083 CATTCGAATC
* * * * * * *
20972093 TTTGCCCGAAAGTC-TTGGAAAATCATTTAAAATTTTGAAGTTTTGCTCGGAGGTCTTGAAAATC
1 TTTGCCCAAAAGTCTTTAG-AAATCATTCAAAAATCTAAAATTTTGCTCGGAGGTCTTGAAAATC
* *
20972157 CTTTAGAAATTTAAGAT
65 ATTTAAAAATTTAAGAT
* *
20972174 TTTACCCAAAAGTCTTTAGAAATCATTCAAAAATCTAAAATTTTGACT-TGAGGTCTTGAAAATC
1 TTTGCCCAAAAGTCTTTAGAAATCATTCAAAAATCTAAAATTTTG-CTCGGAGGTCTTGAAAATC
20972238 ATTTAAAAATTTAAGAT
65 ATTTAAAAATTTAAGAT
* * * *
20972255 TTTGTCCGAAAGTCTTTAGAAATCATTTAAAAAAT-TAAAATTTTGC-CTGGATGTCTTTGAAAA
1 TTTGCCCAAAAGTCTTTAGAAATCA-TTCAAAAATCTAAAATTTTGCTC-GGAGGTC-TTGAAAA
* *
20972318 T-TTTTCAAAAATTTAAAAT
63 TCATTT-AAAAATTTAAGAT
* * * * * * * *
20972337 TTTGCCTAAAAGTC-TTAGAAATCATTCAAAGATTTAAGATTTTGTTTGGAAGTCTTTAAAAATC
1 TTTGCCCAAAAGTCTTTAGAAATCATTCAAAAATCTAAAATTTTGCTCGGAGGTC-TTGAAAATC
20972401 ATTTAAAAATTTAA-AGT
65 ATTTAAAAATTTAAGA-T
* * * * *
20972418 TTTGCCCGAAAA-TCTTGA-AAATTATT-AAAAAGTCTAAAATTTTGCTTGGAGAT-TTTAAAGA
1 TTTGCCC-AAAAGTCTTTAGAAATCATTCAAAAA-TCTAAAATTTTGCTCGGAGGTCTTGAAA-A
* ** *
20972479 TCATTCAAAGTTTTAAAAT
63 TCATTTAAAAATTTAAGAT
* * * * * * * * *
20972498 TTTACCCAAAGGTCTTTTGAAATTATT-TAAAATCTGAGATTTTGTTCGGAGGTCTTTAAAAATC
1 TTTGCCCAAAAGTCTTTAGAAATCATTCAAAAATCTAAAATTTTGCTCGGAGGTC-TTGAAAATC
* * *
20972562 ATTCAAAAATCTAAAAT
65 ATTTAAAAATTTAAGAT
* * * * * * * * ** * *
20972579 TTTGCCTATAAGTC-TTGGAAAATCTTTTAAAATTTTAAAGTTTTGCTCAAAGGTTTTGGGAAAT
1 TTTGCCCAAAAGTCTTTAG-AAATCATTCAAAAATCTAAAATTTTGCTCGGAGGTCTT-GAAAAT
*
20972643 CATTTAAAATTTTAAGAT
64 CATTTAAAAATTTAAGAT
* * ** * * ** * *
20972661 TTTACTCGGAGGTCTTTAAAAATCATTCAAAAATCTAAAATTTTGCTCAAAGGTTTTGAAGATCA
1 TTTGCCCAAAAGTCTTTAGAAATCATTCAAAAATCTAAAATTTTGCTCGGAGGTCTTGAAAATCA
* *
20972726 TTCAAAGATTTAAGAT
66 TTTAAAAATTTAAGAT
* * * * *
20972742 TTTGCCCAGAGGT-ATTAGAAATCATTTACAAATCTAA
1 TTTGCCCAAAAGTCTTTAGAAATCATTCAAAAATCTAA
20972779 GGCTTCACCT
Statistics
Matches: 476, Mismatches: 105, Indels: 49
0.76 0.17 0.08
Matches are distributed among these distances:
79 8 0.02
80 77 0.16
81 255 0.54
82 134 0.28
83 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (81 bp):
TTTGCCCAAAAGTCTTTAGAAATCATTCAAAAATCTAAAATTTTGCTCGGAGGTCTTGAAAATCA
TTTAAAAATTTAAGAT
Found at i:20972311 original size:122 final size:123
Alignment explanation
Indices: 20972185--20972769 Score: 465
Period size: 122 Copynumber: 4.8 Consensus size: 123
20972175 TTACCCAAAA
* * * *
20972185 GTCTTTAGAAATCATTCAAAAATCTAAAATTTTGACTTGAGGTCTTGAAAATCATTTAAAAATTT
1 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTG-CTTAAGGTCTTGAAAATCATTCAAAGATTT
*
20972250 AAGATTTTGTCCGAAA-GTCTTTAGAAATCATTTAAAAAATTAAAATTTTGCCT-GGAT
65 AAGATTTTGTCCGAAAGGTCTTTAGAAATCATTTAAAAAATTAAAATTTTGCCTCGGAG
* ** * * *
20972307 GTCTTTGAAAATTTTTCAAAAATTTAAAATTTTGCCTAAAAGTCTT-AGAAATCATTCAAAGATT
1 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTG-CTTAAGGTCTTGA-AAATCATTCAAAGATT
** * * * * * *
20972371 TAAGATTTTGTTTGGAA-GTCTTTAAAAATCATTTAAAAATTTAAAGTTTTGCC-CGAAA
64 TAAGATTTTGTCCGAAAGGTCTTTAGAAATCATTTAAAAAATTAAAATTTTGCCTCGGAG
* * * * * * *
20972429 ATC-TTGAAAATTATT-AAAAAGTCTAAAATTTTGCTTGGAGAT-TTTAAAGATCATTCAAAGTT
1 GTCTTTAAAAATCATTCAAAAA-TCTAAAATTTTGCTT-AAGGTCTTGAAA-ATCATTCAAAGAT
* * * * * * * *
20972491 TTAAAATTTT-ACCCAAAGGTCTTTTGAAATTATTT--AAAATCTGAGATTTTG-TTCGGAG
63 TTAAGATTTTGTCCGAAAGGTCTTTAGAAATCATTTAAAAAAT-TAAAATTTTGCCTCGGAG
* *
20972549 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTGCCTATAA-GTCTTGGAAAATCTTTTAAA-AT
1 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTG-CT-TAAGGTCTT-GAAAATCATTCAAAGA-
* ** * *
20972612 TTTAA-AGTTTTG-CTC-AAAGGT-TTTGGGAAATCATTTAAAATTTTAAGATTTT-ACTCGGAG
62 TTTAAGA-TTTTGTC-CGAAAGGTCTTT-AGAAATCATTTAAAAAATTAAAATTTTGCCTCGGAG
* * *
20972672 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTGCTCAAAGGTTTTGAAGATCATTCAAAGATTT
1 GTCTTTAAAAATCATTCAAAAATCTAAAATTTTGCT-TAAGGTCTTGAAAATCATTCAAAGATTT
* * *
20972737 AAGATTTTG-CCCAGAGGT-ATTAGAAATCATTTA
65 AAGATTTTGTCCGAAAGGTCTTTAGAAATCATTTA
20972770 CAAATCTAAG
Statistics
Matches: 369, Mismatches: 67, Indels: 55
0.75 0.14 0.11
Matches are distributed among these distances:
119 4 0.01
120 25 0.07
121 100 0.27
122 178 0.48
123 59 0.16
124 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (123 bp):
GTCTTTAAAAATCATTCAAAAATCTAAAATTTTGCTTAAGGTCTTGAAAATCATTCAAAGATTTA
AGATTTTGTCCGAAAGGTCTTTAGAAATCATTTAAAAAATTAAAATTTTGCCTCGGAG
Found at i:20973251 original size:26 final size:26
Alignment explanation
Indices: 20973222--20973272 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20973212 GTGAATATGT
20973222 AAATATCTCTTCTCC-GATGTAAATGC
1 AAATATCT-TTCTCCTGATGTAAATGC
* *
20973248 AAATGTCTTTTTCCTGATGTAAATG
1 AAATATCTTTCTCCTGATGTAAATG
20973273 TTTCATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (26 bp):
AAATATCTTTCTCCTGATGTAAATGC
Found at i:20974463 original size:20 final size:20
Alignment explanation
Indices: 20974438--20974478 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20974428 CACATTTATC
20974438 TCTTTCTT-ATCTTCTTTCTT
1 TCTTTCTTCATCTT-TTTCTT
*
20974458 TCTTTCTTCTTCTTTTTCTT
1 TCTTTCTTCATCTTTTTCTT
20974478 T
1 T
20974479 TTTTTTGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (20 bp):
TCTTTCTTCATCTTTTTCTT
Found at i:20974881 original size:16 final size:15
Alignment explanation
Indices: 20974841--20974882 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
20974831 TTTTTTTTCC
*
20974841 TTTTGTTTCTCCCCT
1 TTTTGTTTTTCCCCT
*
20974856 TTTT-TTTTTCCCTT
1 TTTTGTTTTTCCCCT
20974870 TTTTGTTCTTTCC
1 TTTTGTT-TTTCC
20974883 TTCATTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 6 0.26
16 5 0.22
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.69
Consensus pattern (15 bp):
TTTTGTTTTTCCCCT
Found at i:20974884 original size:15 final size:13
Alignment explanation
Indices: 20974831--20974873 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
20974821 CAATCTTTCA
20974831 TTTTTTTT-CCTT
1 TTTTTTTTCCCTT
* *
20974843 TTGTTTCTCCCCTT
1 TT-TTTTTTCCCTT
20974857 TTTTTTTTCCCTT
1 TTTTTTTTCCCTT
20974870 TTTT
1 TTTT
20974874 GTTCTTTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 2 0.08
13 17 0.68
14 6 0.24
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTTTTCCCTT
Found at i:20974884 original size:28 final size:28
Alignment explanation
Indices: 20974831--20974900 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
20974821 CAATCTTTCA
20974831 TTTTTTTT-CCTTTTGTTTCTCCCCTT-
1 TTTTTTTTCCCTTTTGTTTCTCCCCTTC
* **
20974857 TTTTTTTTCCCTTTTTTGTTCTTTCCTTC
1 TTTTTTTTCCCTTTTGT-TTCTCCCCTTC
* *
20974886 ATTTCTTTCCCTTTT
1 TTTTTTTTCCCTTTT
20974901 CTTACTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.22
27 7 0.19
28 8 0.22
29 13 0.36
ACGTcount: A:0.01, C:0.26, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTTTTTCCCTTTTGTTTCTCCCCTTC
Done.