Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 85 of 125
Found at i:16858776 original size:24 final size:24
Alignment explanation
Indices: 16858749--16858797 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16858739 TTTTTTAAAT
*
16858749 TATATATATTTTAAAAAAACAAAC
1 TATATATAATTTAAAAAAACAAAC
16858773 TATATATAATTTAAAAAAACAAAC
1 TATATATAATTTAAAAAAACAAAC
16858797 T
1 T
16858798 CAAAATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (24 bp):
TATATATAATTTAAAAAAACAAAC
Found at i:16859879 original size:11 final size:11
Alignment explanation
Indices: 16859863--16859915 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 11
16859853 TTCCTCATTA
16859863 TTTATTTATTT
1 TTTATTTATTT
16859874 TTTA-TTA-TT
1 TTTATTTATTT
16859883 TTTATCTTATTT
1 TTTAT-TTATTT
16859895 TATT-TTTA-TT
1 T-TTATTTATTT
16859905 TTTA-TTATTT
1 TTTATTTATTT
16859915 T
1 T
16859916 AAAAAATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
9 11 0.31
10 9 0.25
11 10 0.28
12 4 0.11
13 2 0.06
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:16859886 original size:16 final size:16
Alignment explanation
Indices: 16859867--16859915 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
16859857 TCATTATTTA
16859867 TTTATTTTTTATTATT
1 TTTATTTTTTATTATT
*
16859883 TTTATCTTATT-TTATT
1 TTTAT-TTTTTATTATT
16859899 TTTA-TTTTTATTATT
1 TTTATTTTTTATTATT
16859914 TT
1 TT
16859916 AAAAAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
16 14 0.48
17 4 0.14
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTTTATTATT
Found at i:16859902 original size:25 final size:24
Alignment explanation
Indices: 16859859--16859914 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
16859849 CATTTTCCTC
16859859 ATTATTTATTTATTTTTTATTATTT
1 ATTATTTATTTATTTTTTATT-TTT
16859884 -TTATCTTATTT-TATTTTTATTTTT
1 ATTAT-TTATTTAT-TTTTTATTTTT
16859908 ATTATTT
1 ATTATTT
16859915 TAAAAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTATTTATTTATTTTTTATTTTT
Found at i:16860044 original size:13 final size:13
Alignment explanation
Indices: 16860028--16860127 Score: 51
Period size: 12 Copynumber: 7.2 Consensus size: 13
16860018 ATGAACTAAA
*
16860028 AAATTATAATGAT
1 AAATAATAATGAT
16860041 AAATAATAATGAT
1 AAATAATAATGAT
*
16860054 AATGATGATAATAGAT
1 AA--ATAATAAT-GAT
*
16860070 GAAATGATATGATGATCAT
1 -AAAT-A-AT-A--ATGAT
*
16860089 AAATAATAATAAT
1 AAATAATAATGAT
*
16860102 -AATAATAATAAT
1 AAATAATAATGAT
*
16860114 -AATAATAATAAT
1 AAATAATAATGAT
16860126 AA
1 AA
16860128 TATATGGACA
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
12 24 0.33
13 19 0.26
15 10 0.14
16 5 0.07
17 5 0.07
18 5 0.07
19 2 0.03
20 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (13 bp):
AAATAATAATGAT
Found at i:16860096 original size:3 final size:3
Alignment explanation
Indices: 16860090--16860129 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16860080 GATGATCATA
16860090 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16860130 TATGGACAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16863527 original size:19 final size:18
Alignment explanation
Indices: 16863503--16863605 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 18
16863493 ACATCACTCA
16863503 AAATAATAAGTAATCATGC
1 AAATAATAA-TAATCATGC
16863522 AAATAATAAATAAAATCA--C
1 AAATAAT-AAT--AATCATGC
* *
16863541 AATTAAATATATAATCAGGC
1 AAAT-AATA-ATAATCATGC
* *
16863561 AATTAAATATATGATCATGC
1 AAAT-AATA-ATAATCATGC
16863581 AAATAATAATTAATCATGC
1 AAATAATAA-TAATCATGC
16863600 AAATAA
1 AAATAA
16863606 ATTTTACCAA
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
18 6 0.08
19 31 0.44
20 29 0.41
21 5 0.07
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (18 bp):
AAATAATAATAATCATGC
Found at i:16863554 original size:20 final size:19
Alignment explanation
Indices: 16863535--16863582 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
16863525 TAATAAATAA
16863535 AATCA-CAATTAAATATAT
1 AATCAGCAATTAAATATAT
16863553 AATCAGGCAATTAAATATAT
1 AATCA-GCAATTAAATATAT
*
16863573 GATCATGCAA
1 AATCA-GCAA
16863583 ATAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
20 21 0.81
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (19 bp):
AATCAGCAATTAAATATAT
Found at i:16863690 original size:18 final size:17
Alignment explanation
Indices: 16863658--16863730 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
16863648 ATTCAAACAC
* *
16863658 ATAATTAAAATAATAAA
1 ATAATAAAAAAAATAAA
16863675 ATAATAAAAAAGAATAAA
1 ATAATAAAAAA-AATAAA
* *
16863693 ATTAGAACAAAAAATAAA
1 ATAATAA-AAAAAATAAA
* *
16863711 A-AATAAAAAATAGAAA
1 ATAATAAAAAAAATAAA
16863727 ATAA
1 ATAA
16863731 ATCAAGACAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.20
17 14 0.31
18 18 0.40
19 4 0.09
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (17 bp):
ATAATAAAAAAAATAAA
Found at i:16863713 original size:7 final size:7
Alignment explanation
Indices: 16863663--16863731 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
16863653 AACACATAAT
16863663 TAAAATAA
1 TAAAA-AA
16863671 TAAAATAA
1 TAAAA-AA
16863679 TAAAAAA
1 TAAAAAA
*
16863686 GAATAAAA
1 TAA-AAAA
* *
16863694 T-TAGAA
1 TAAAAAA
*
16863700 CAAAAAA
1 TAAAAAA
16863707 TAAAAAA
1 TAAAAAA
16863714 TAAAAAA
1 TAAAAAA
*
16863721 TAGAAAA
1 TAAAAAA
16863728 TAAA
1 TAAA
16863732 TCAAGACAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
6 3 0.06
7 29 0.59
8 17 0.35
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:16863745 original size:39 final size:39
Alignment explanation
Indices: 16863664--16863750 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
16863654 ACACATAATT
* *
16863664 AAAATAATAAAATAATAAAAAAGAATAAAATTAGAACAA
1 AAAATAATAAAATAATAAAAAAGAAAAAAATAAGAACAA
*
16863703 AAAATAA-AAAATAA-AAAATAGAAAATAAATCAAG-ACAGA
1 AAAATAATAAAATAATAAAAAAGAAAA-AAAT-AAGAACA-A
16863742 AAAATAATA
1 AAAATAATA
16863751 CAAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
37 9 0.22
38 14 0.34
39 17 0.41
40 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (39 bp):
AAAATAATAAAATAATAAAAAAGAAAAAAATAAGAACAA
Found at i:16864266 original size:15 final size:16
Alignment explanation
Indices: 16864232--16864273 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
16864222 CCCAATAGTC
16864232 TAAA-CCAAATCCCCA
1 TAAATCCAAATCCCCA
*
16864247 TAAATCCAAATTCCCA
1 TAAATCCAAATCCCCA
*
16864263 -AAATCAAAATC
1 TAAATCCAAATC
16864274 AAACCAAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAATCCAAATCCCCA
Found at i:16864776 original size:6 final size:6
Alignment explanation
Indices: 16864765--16864859 Score: 138
Period size: 6 Copynumber: 15.8 Consensus size: 6
16864755 ACTAAACCAA
* * * *
16864765 AAAATT AAAATT AAAATT AAAATT AAAACTA AAAATC AAAATC AAAATC
1 AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAATT AAAATT AAAATT
16864814 AAAATT AAAATT AAAA-T AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
16864860 CAACTAAGAC
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
5 5 0.06
6 74 0.88
7 5 0.06
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:16867901 original size:24 final size:24
Alignment explanation
Indices: 16867874--16867922 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16867864 TTTTTTAAAT
*
16867874 TATATATATTTTAAAAAAACAAAC
1 TATATATAATTTAAAAAAACAAAC
16867898 TATATATAATTTAAAAAAACAAAC
1 TATATATAATTTAAAAAAACAAAC
16867922 T
1 T
16867923 CAAAATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (24 bp):
TATATATAATTTAAAAAAACAAAC
Found at i:16869000 original size:11 final size:11
Alignment explanation
Indices: 16868986--16869043 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
16868976 CATTTTCCTC
16868986 ATTTTTTATTT
1 ATTTTTTATTT
16868997 ATTTATTTA-TT
1 ATTT-TTTATTT
16869008 A-TTTTTATCTT
1 ATTTTTTAT-TT
16869019 ATTTTATT-TTT
1 ATTTT-TTATTT
16869030 A-TTTTTA-TT
1 ATTTTTTATTT
16869039 ATTTT
1 ATTTT
16869044 AAAAAATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
9 9 0.22
10 8 0.20
11 13 0.32
12 8 0.20
13 2 0.05
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:16869011 original size:22 final size:20
Alignment explanation
Indices: 16868988--16869042 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 20
16868978 TTTTCCTCAT
16868988 TTTTTATTTATTTATTTATTA
1 TTTTTATTTATTTATTT-TTA
16869009 TTTTTATCTTATTTTATTTTTA
1 TTTTTAT-TTA-TTTATTTTTA
16869031 TTTTTA-TTATTT
1 TTTTTATTTATTT
16869043 TAAAAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.09
20 3 0.09
21 7 0.22
22 12 0.38
23 7 0.22
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTATTTATTTATTTTTA
Found at i:16869027 original size:16 final size:15
Alignment explanation
Indices: 16869002--16869043 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
16868992 TATTTATTTA
16869002 TTTATTATTTTTATCT
1 TTTATTATTTTTAT-T
16869018 TATT-TTATTTTTATT
1 T-TTATTATTTTTATT
16869033 TTTATTATTTT
1 TTTATTATTTT
16869044 AAAAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 9 0.38
16 11 0.46
17 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTATTTTTATT
Found at i:16869175 original size:3 final size:3
Alignment explanation
Indices: 16869161--16869265 Score: 111
Period size: 3 Copynumber: 35.0 Consensus size: 3
16869151 CTAAAAAATT
* * * * * * * *
16869161 ATA ATG ATA ATA ATA ATA ATG ATA ATG ATG ATA ATG ATG ATA ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16869209 ATG ATG ATC ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16869257 ATA ATA ATA
1 ATA ATA ATA
16869266 TATGGACAAC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16869286 original size:14 final size:14
Alignment explanation
Indices: 16869267--16869293 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16869257 ATAATAATAT
16869267 ATGGACAACAAAGC
1 ATGGACAACAAAGC
16869281 ATGGACAACAAAG
1 ATGGACAACAAAG
16869294 AACCTAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.22, T:0.07
Consensus pattern (14 bp):
ATGGACAACAAAGC
Found at i:16872625 original size:19 final size:18
Alignment explanation
Indices: 16872601--16872703 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 18
16872591 CATCACTCAA
16872601 AAATAATAAGTAATCATGC
1 AAATAATAA-TAATCATGC
16872620 AAATAATAAATAAAATCA--C
1 AAATAAT-AAT--AATCATGC
* *
16872639 AATTAAATATATAATCAGGC
1 AAAT-AATA-ATAATCATGC
* *
16872659 AATTAAATATATGATCATGC
1 AAAT-AATA-ATAATCATGC
16872679 AAATAATAATTAATCATGC
1 AAATAATAA-TAATCATGC
16872698 AAATAA
1 AAATAA
16872704 ATTTTACCAA
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
18 6 0.08
19 31 0.44
20 29 0.41
21 5 0.07
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (18 bp):
AAATAATAATAATCATGC
Found at i:16872652 original size:20 final size:19
Alignment explanation
Indices: 16872633--16872680 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
16872623 TAATAAATAA
16872633 AATCA-CAATTAAATATAT
1 AATCAGCAATTAAATATAT
16872651 AATCAGGCAATTAAATATAT
1 AATCA-GCAATTAAATATAT
*
16872671 GATCATGCAA
1 AATCA-GCAA
16872681 ATAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
20 21 0.81
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (19 bp):
AATCAGCAATTAAATATAT
Found at i:16872791 original size:18 final size:17
Alignment explanation
Indices: 16872759--16872831 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
16872749 ATTCAAACAC
* *
16872759 ATAATTAAAATAATAAA
1 ATAATAAAAAAAATAAA
16872776 ATAATAAAAAAGAATAAA
1 ATAATAAAAAA-AATAAA
* *
16872794 ATTAGAACAAAAAATAAA
1 ATAATAA-AAAAAATAAA
* *
16872812 A-AATAAAAAATAGAAA
1 ATAATAAAAAAAATAAA
16872828 ATAA
1 ATAA
16872832 ATCAAGACAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.20
17 14 0.31
18 18 0.40
19 4 0.09
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (17 bp):
ATAATAAAAAAAATAAA
Found at i:16872814 original size:7 final size:7
Alignment explanation
Indices: 16872764--16872832 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
16872754 AACACATAAT
16872764 TAAAATAA
1 TAAAA-AA
16872772 TAAAATAA
1 TAAAA-AA
16872780 TAAAAAA
1 TAAAAAA
*
16872787 GAATAAAA
1 TAA-AAAA
* *
16872795 T-TAGAA
1 TAAAAAA
*
16872801 CAAAAAA
1 TAAAAAA
16872808 TAAAAAA
1 TAAAAAA
16872815 TAAAAAA
1 TAAAAAA
*
16872822 TAGAAAA
1 TAAAAAA
16872829 TAAA
1 TAAA
16872833 TCAAGACAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
6 3 0.06
7 29 0.59
8 17 0.35
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:16872846 original size:39 final size:39
Alignment explanation
Indices: 16872765--16872851 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
16872755 ACACATAATT
* *
16872765 AAAATAATAAAATAATAAAAAAGAATAAAATTAGAACAA
1 AAAATAATAAAATAATAAAAAAGAAAAAAATAAGAACAA
*
16872804 AAAATAA-AAAATAA-AAAATAGAAAATAAATCAAG-ACAGA
1 AAAATAATAAAATAATAAAAAAGAAAA-AAAT-AAGAACA-A
16872843 AAAATAATA
1 AAAATAATA
16872852 CAAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
37 9 0.22
38 14 0.34
39 17 0.41
40 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (39 bp):
AAAATAATAAAATAATAAAAAAGAAAAAAATAAGAACAA
Found at i:16873367 original size:15 final size:16
Alignment explanation
Indices: 16873333--16873374 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
16873323 CCCAATAGTC
16873333 TAAA-CCAAATCCCCA
1 TAAATCCAAATCCCCA
*
16873348 TAAATCCAAATTCCCA
1 TAAATCCAAATCCCCA
*
16873364 -AAATCAAAATC
1 TAAATCCAAATC
16873375 AAACCAAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAATCCAAATCCCCA
Found at i:16873877 original size:6 final size:6
Alignment explanation
Indices: 16873866--16873973 Score: 155
Period size: 6 Copynumber: 17.8 Consensus size: 6
16873856 CTAAACCAAA
* * *
16873866 AAAATT AAAATT AAAATT AAAATT AAAATT AAAACTA AAAATC AAAATC
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAATT AAAATT
*
16873915 AAAATC AAAATT AAAATT AAAAATT AAAA-T AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT -AAAATT AAAATT AAAATT AAAATT AAAATT
16873963 AAAATT AAAAT
1 AAAATT AAAAT
16873974 CAACTAAGAC
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.05
6 80 0.83
7 11 0.11
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:16877010 original size:24 final size:24
Alignment explanation
Indices: 16876983--16877031 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16876973 TTTTTTAAAT
*
16876983 TATATATATTTTAAAAAAACAAAC
1 TATATATAATTTAAAAAAACAAAC
16877007 TATATATAATTTAAAAAAACAAAC
1 TATATATAATTTAAAAAAACAAAC
16877031 T
1 T
16877032 CAAAATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (24 bp):
TATATATAATTTAAAAAAACAAAC
Found at i:16878106 original size:8 final size:9
Alignment explanation
Indices: 16878093--16878132 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
16878083 ATTTTCCTCA
16878093 TTATTTA-T
1 TTATTTATT
16878101 TTATTTA-T
1 TTATTTATT
16878109 TTA-TTATT
1 TTATTTATT
16878117 TTATCTTATT
1 TTAT-TTATT
16878127 TTATTT
1 TTATTT
16878133 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.10
8 15 0.52
9 2 0.07
10 9 0.31
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
TTATTTATT
Found at i:16878117 original size:15 final size:15
Alignment explanation
Indices: 16878097--16878148 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
16878087 TCCTCATTAT
16878097 TTATTTATTTATTTA
1 TTATTTATTTATTTA
16878112 TTATTTTATCTTATTTTA
1 TTA-TTTAT-TTA-TTTA
16878130 TT-TTTA-TT-TTTA
1 TTATTTATTTATTTA
16878142 TTATTTA
1 TTATTTA
16878149 AAAAATGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 2 0.06
15 3 0.09
16 9 0.27
17 3 0.09
18 6 0.18
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:16878280 original size:3 final size:3
Alignment explanation
Indices: 16878266--16878374 Score: 119
Period size: 3 Copynumber: 36.3 Consensus size: 3
16878256 TTAAAAAATT
* * * * * * * *
16878266 ATA ATG ATA ATA ATA ATA ATG ATA ATG ATG ATA ATG ATG ATA ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16878314 ATG ATG ATC ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16878362 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
16878375 CAACAACAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16894036 original size:25 final size:25
Alignment explanation
Indices: 16894007--16894056 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
16893997 AGAGATTTGA
16894007 AGCTTATCCTATATCATAAGTATAT
1 AGCTTATCCTATATCATAAGTATAT
16894032 AGCTTATCCTATATCATAAGTATAT
1 AGCTTATCCTATATCATAAGTATAT
16894057 CTCAAAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (25 bp):
AGCTTATCCTATATCATAAGTATAT
Found at i:16896742 original size:14 final size:13
Alignment explanation
Indices: 16896726--16896750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16896716 TTGGTTTTTT
16896726 TTTTTTTTACTTA
1 TTTTTTTTACTTA
16896739 TTTTTTTTACTT
1 TTTTTTTTACTT
16896751 CCTTCAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTACTTA
Found at i:16899155 original size:75 final size:77
Alignment explanation
Indices: 16899032--16899186 Score: 278
Period size: 75 Copynumber: 2.0 Consensus size: 77
16899022 TGAAATGAGA
16899032 TAAGTAGAATCTCATACAGTTTGTTTGTTTTTGAATCTATG-TATATATATATA-TGTTTATAAA
1 TAAGTAGAATCTCATACAGTTTGTTTGTTTTTGAATCTATGATATATATATATAGTGTTTATAAA
16899095 TGAATGAATGTT
66 TGAATGAATGTT
16899107 TAAGTAGAATCTCATACAGTTTGTTTGTTTTTGAATCTATGTATATATATATATATGTGTTTATA
1 TAAGTAGAATCTCATACAGTTTGTTTGTTTTTGAATCTATG-ATATATATATATA-GTGTTTATA
16899172 AATGAATGAATGTT
64 AATGAATGAATGTT
16899186 T
1 T
16899187 TATTTCTTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
75 41 0.54
77 12 0.16
79 23 0.30
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (77 bp):
TAAGTAGAATCTCATACAGTTTGTTTGTTTTTGAATCTATGATATATATATATAGTGTTTATAAA
TGAATGAATGTT
Found at i:16900218 original size:29 final size:29
Alignment explanation
Indices: 16900182--16900239 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
16900172 TATGATAGTT
16900182 AATATTTAAATACCATCACTAAAAGTTTC
1 AATATTTAAATACCATCACTAAAAGTTTC
16900211 AATATTTAAATACCATCACTAAAAGTTTC
1 AATATTTAAATACCATCACTAAAAGTTTC
16900240 TTCTCCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (29 bp):
AATATTTAAATACCATCACTAAAAGTTTC
Found at i:16900446 original size:28 final size:30
Alignment explanation
Indices: 16900396--16900453 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
16900386 AACTATAGTG
* * *
16900396 AAATGTTTAATATGGTACTTAAACTTTAAA
1 AAATGTTTAATATGATACCTAAACTATAAA
16900426 AAAT-TTT-ATATGATACCTAAACTATAAA
1 AAATGTTTAATATGATACCTAAACTATAAA
16900454 TCTATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.72
29 3 0.12
30 4 0.16
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATGTTTAATATGATACCTAAACTATAAA
Found at i:16900941 original size:70 final size:71
Alignment explanation
Indices: 16900860--16900997 Score: 260
Period size: 71 Copynumber: 2.0 Consensus size: 71
16900850 TGAAGTATGC
16900860 TACACACATCTAGACATAAA-ATAACATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAAT
1 TACACACATCTAGACATAAACATAACATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAAT
16900924 GTTGCG
66 GTTGCG
*
16900930 TACACACATCTAGACATAAACATAGCATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAAT
1 TACACACATCTAGACATAAACATAACATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAAT
16900995 GTT
66 GTT
16900998 ATGTAATCAT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 20 0.30
71 46 0.70
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (71 bp):
TACACACATCTAGACATAAACATAACATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAAT
GTTGCG
Found at i:16901024 original size:42 final size:42
Alignment explanation
Indices: 16900956--16901039 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
16900946 TAAACATAGC
* *
16900956 ATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAATGTT
1 ATGTAATCATGAGCTACACACATTTGGAATAGAAGCAATGTT
* *
16900998 ATGTAATCATGAGCTATACACCTTTGGAATAGAAGCAATGTT
1 ATGTAATCATGAGCTACACACATTTGGAATAGAAGCAATGTT
16901040 GTTTACAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (42 bp):
ATGTAATCATGAGCTACACACATTTGGAATAGAAGCAATGTT
Found at i:16901107 original size:112 final size:113
Alignment explanation
Indices: 16900885--16901109 Score: 326
Period size: 112 Copynumber: 2.0 Consensus size: 113
16900875 ATAAAATAAC
* * *
16900885 ATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAATGTTGCGTACACACATCTAGACATAAA
1 ATGTAATCATGAGCTACACACATTTGGAATAGAAGCAATGTTGCGTACAAACATCTAGACATAAA
* * * *
16900950 CATAGCATGTAATCATTAGCTACAGACATTTGGAATAGAAGCAATGTT
66 CAGAGCATGTAATCATGAGCTACAAACATTTAGAATAGAAGCAATGTT
* * ** *
16900998 ATGTAATCATGAGCTATACACCTTTGGAATAGAAGCAATGTTGTTTACAAACATC-AGAGATAAA
1 ATGTAATCATGAGCTACACACATTTGGAATAGAAGCAATGTTGCGTACAAACATCTAGACATAAA
*
16901062 CAGAGCATGTAATCATGAGCTACAAACCTTTAGAATAGAAGCAATGTT
66 CAGAGCATGTAATCATGAGCTACAAACATTTAGAATAGAAGCAATGTT
16901110 GCGTAGCTCC
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
112 51 0.52
113 48 0.48
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (113 bp):
ATGTAATCATGAGCTACACACATTTGGAATAGAAGCAATGTTGCGTACAAACATCTAGACATAAA
CAGAGCATGTAATCATGAGCTACAAACATTTAGAATAGAAGCAATGTT
Found at i:16903455 original size:89 final size:89
Alignment explanation
Indices: 16903346--16903525 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
16903336 CCCCATTAGG
*
16903346 TAAGGATTCATTCACAATCTTCTGTTCAAGTTTCTTCACACCTTTCCTTTTCAGATTCTGACTTA
1 TAAGGATTCATTCACAATCTTCTGTCCAAGTTTCTTCACACCTTTCCTTTTCAGATTCTGACTTA
16903411 GTTTCCTCCCACGTTTCTTATCTT
66 GTTTCCTCCCACGTTTCTTATCTT
*
16903435 TAAGGATTCATTCACAATCTTCTGTCCAAGTTTCTTCACACCTTTCCTTTTCAGATTCTTACTTA
1 TAAGGATTCATTCACAATCTTCTGTCCAAGTTTCTTCACACCTTTCCTTTTCAGATTCTGACTTA
16903500 GTTTCCTCCCACGTTTCTTATCTT
66 GTTTCCTCCCACGTTTCTTATCTT
16903524 TA
1 TA
16903526 TTGTTCAACT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.19, C:0.27, G:0.08, T:0.45
Consensus pattern (89 bp):
TAAGGATTCATTCACAATCTTCTGTCCAAGTTTCTTCACACCTTTCCTTTTCAGATTCTGACTTA
GTTTCCTCCCACGTTTCTTATCTT
Found at i:16905941 original size:22 final size:21
Alignment explanation
Indices: 16905872--16905997 Score: 103
Period size: 22 Copynumber: 5.8 Consensus size: 21
16905862 AATTTATTAA
* * *
16905872 TGATTGACAATTAAGTTATCCT
1 TGATTTACTATTAA-TTATCAT
* * *
16905894 TGATTTACCATTATATTATTAG
1 TGATTTACTATTA-ATTATCAT
*
16905916 TGATTTACTACTAATCTATCAT
1 TGATTTACTATTAAT-TATCAT
*
16905938 TGATATACTATTACATTATCAAT
1 TGATTTACTATTA-ATTATC-AT
16905961 T-ATTTACTATTAAATTAGT-AT
1 TGATTTACTATT-AATTA-TCAT
16905982 TGATTTACTATTAATT
1 TGATTTACTATTAATT
16905998 TATTAATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
21 9 0.11
22 68 0.80
23 8 0.09
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (21 bp):
TGATTTACTATTAATTATCAT
Found at i:16905993 original size:11 final size:11
Alignment explanation
Indices: 16905962--16906016 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
16905952 ATTATCAATT
16905962 ATTTACTATTA
1 ATTTACTATTA
* * *
16905973 AATTAGTATTG
1 ATTTACTATTA
16905984 ATTTACTATTA
1 ATTTACTATTA
* *
16905995 ATTTATTAATA
1 ATTTACTATTA
16906006 A-TTACTATTA
1 ATTTACTATTA
16906016 A
1 A
16906017 ATTATGACTA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (11 bp):
ATTTACTATTA
Found at i:16906031 original size:65 final size:65
Alignment explanation
Indices: 16905862--16906100 Score: 173
Period size: 65 Copynumber: 3.6 Consensus size: 65
16905852 AGTATAAAAA
* * * * * * * *
16905862 AATTTATTAATGATTGACAATTAAGTTAT-CCTTGATTTACCATTATATTATTAGTGATTTACTA
1 AATTTATTAATGATT-ACTATTAAATTATAAC-TAATTTACTATTAAATTAGTAATGATTTACTA
*
16905926 CT
64 TT
* * * * * *
16905928 AATCTATCATTGATATACTATTACATTATCAA-TTATTTACTATTAAATTAGTATTGATTTACTA
1 AATTTATTAATGAT-TACTATTAAATTAT-AACTAATTTACTATTAAATTAGTAATGATTTACTA
16905992 TT
64 TT
* * * * *
16905994 AATTTATTAATAATTACTATTAAATTATGACTAATTTATTACTAAATT-GTTAATGATTTATTAT
1 AATTTATTAATGATTACTATTAAATTATAACTAATTTACTATTAAATTAG-TAATGATTTACTAT
16906058 T
65 T
* * *
16906059 AAGTTACTAATGATT--TGTTAAAGATTATAACTAATTTACTAT
1 AATTTATTAATGATTACTATT-AA-ATTATAACTAATTTACTAT
16906101 GAATGTATCA
Statistics
Matches: 135, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
63 3 0.02
64 4 0.03
65 68 0.50
66 59 0.44
67 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (65 bp):
AATTTATTAATGATTACTATTAAATTATAACTAATTTACTATTAAATTAGTAATGATTTACTATT
Found at i:16906047 original size:43 final size:43
Alignment explanation
Indices: 16905964--16906047 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
16905954 TATCAATTAT
* * * *
16905964 TTACTATTAAATTAGTATTGATTTACTATTAATTTATTAATAA
1 TTACTATTAAATTAGTACTAATTTACTACTAAATTATTAATAA
* *
16906007 TTACTATTAAATTA-TGACTAATTTATTACTAAATTGTTAAT
1 TTACTATTAAATTAGT-ACTAATTTACTACTAAATTATTAAT
16906048 GATTTATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (43 bp):
TTACTATTAAATTAGTACTAATTTACTACTAAATTATTAATAA
Found at i:16906144 original size:22 final size:22
Alignment explanation
Indices: 16905943--16906223 Score: 151
Period size: 22 Copynumber: 12.7 Consensus size: 22
16905933 ATCATTGATA
* * *
16905943 TACTATTACATTATCAATTATT
1 TACTATTAAATTATTAATAATT
* * *
16905965 TACTATTAAATTAGTATTGATT
1 TACTATTAAATTATTAATAATT
*
16905987 TACTATTAATTTATTAATAA-T
1 TACTATTAAATTATTAATAATT
* *
16906008 TACTATTAAATTATGACTAATT
1 TACTATTAAATTATTAATAATT
* * * *
16906030 TATTACTAAATTGTTAATGATT
1 TACTATTAAATTATTAATAATT
* * * *
16906052 TATTATTAAGTTACTAATGATT
1 TACTATTAAATTATTAATAATT
* *
16906074 T-GT-TAAAGATTA-TAACTAATT
1 TACTATTAA-ATTATTAA-TAATT
* *
16906095 TACTA-TGAATGTATCAATAAAAATT
1 TACTATTAAAT-TAT---TAATAATT
*
16906120 TACTATTAAATTATTACTAATT
1 TACTATTAAATTATTAATAATT
* * * *
16906142 TACAATTAAGTTATTAGTGATT
1 TACTATTAAATTATTAATAATT
* * * *
16906164 TATTACTAAGTTATCAATAATT
1 TACTATTAAATTATTAATAATT
* * *
16906186 TAC-ATCTAAATTGTCAATGATT
1 TACTAT-TAAATTATTAATAATT
*
16906208 TACTATTATATTATTA
1 TACTATTAAATTATTA
16906224 TGCCTTTTTA
Statistics
Matches: 195, Mismatches: 51, Indels: 26
0.72 0.19 0.10
Matches are distributed among these distances:
20 6 0.03
21 30 0.15
22 138 0.71
23 2 0.01
25 12 0.06
26 7 0.04
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (22 bp):
TACTATTAAATTATTAATAATT
Found at i:16906392 original size:22 final size:22
Alignment explanation
Indices: 16906346--16906453 Score: 78
Period size: 22 Copynumber: 4.8 Consensus size: 22
16906336 ACTCATTTAA
* *
16906346 ATTAAATTATTCA-TGATTTATT
1 ATTAAGTTA-TCATTGATTAATT
16906368 ATTAAGTTATCATTGATTAACTATT
1 ATTAAGTTATCATTGATT-A--ATT
* *
16906393 ACTAAGTTAT-ATTGATTTATT
1 ATTAAGTTATCATTGATTAATT
* * *
16906414 TTTAGGTT-TCCAATGATTAATT
1 ATTAAGTTAT-CATTGATTAATT
*
16906436 ATTAAATTATCATTGATT
1 ATTAAGTTATCATTGATT
16906454 TATTGTAGAC
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
20 1 0.02
21 11 0.17
22 34 0.52
23 1 0.02
24 7 0.11
25 12 0.18
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.51
Consensus pattern (22 bp):
ATTAAGTTATCATTGATTAATT
Found at i:16906411 original size:46 final size:44
Alignment explanation
Indices: 16906346--16906457 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 44
16906336 ACTCATTTAA
*
16906346 ATTAAATTATTCA-TGATTTATTATTAAGTTAT-CATTGATTAACT
1 ATTAAATTA-TCATTGATTTATTATTAAGTT-TCCAATGATTAACT
* * *
16906390 ATTACTAAGTTAT-ATTGATTTATTTTTAGGTTTCCAATGATTAATT
1 ATTA--AA-TTATCATTGATTTATTATTAAGTTTCCAATGATTAACT
16906436 ATTAAATTATCATTGATTTATT
1 ATTAAATTATCATTGATTTATT
16906458 GTAGACACCT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
43 4 0.07
44 17 0.29
45 2 0.03
46 32 0.55
47 3 0.05
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (44 bp):
ATTAAATTATCATTGATTTATTATTAAGTTTCCAATGATTAACT
Found at i:16906561 original size:6 final size:6
Alignment explanation
Indices: 16906546--16906680 Score: 62
Period size: 6 Copynumber: 21.7 Consensus size: 6
16906536 GACCCATATT
* * *
16906546 TTTTTA -TTTTA TTTTTA TTTATTA TTATTA TTAGCATTA TTATTA TTTTT-
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TT---TTTA TTTTTA TTTTTA
* * * * *
16906596 TTGTTTA TTATTTA TTATTA TTATTA TTTTTTA TTATTA TTATCA TTATTTA
1 TT-TTTA TT-TTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TT-TTTA
* * *
16906648 -TTTTA TTATTA TTATT- TTTTTA TCTTTTC TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTT
16906681 CTTGATTAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
5 15 0.14
6 59 0.56
7 25 0.24
9 6 0.06
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:16906572 original size:3 final size:3
Alignment explanation
Indices: 16906549--16906663 Score: 105
Period size: 3 Copynumber: 38.7 Consensus size: 3
16906539 CCATATTTTT
* **
16906549 TTA TT- TTA TTT TTA TTTA TTA TTA TTA TTA GCA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
16906593 TTT TTGT TTA TTA TTTA TTA TTA TTA TTA TT- TT- TTA TTA TTA TTA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
16906638 TCA TTA TTTA TT- TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TT
16906664 TTTTTATCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
2 10 0.11
3 73 0.77
4 12 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:16906638 original size:53 final size:53
Alignment explanation
Indices: 16906553--16906660 Score: 130
Period size: 53 Copynumber: 2.0 Consensus size: 53
16906543 ATTTTTTTAT
* * *
16906553 TTTATTTTTATTTATTATTATTATTAGCATTATTATTATTT-TTTTGTTTATTA
1 TTTATTATTATTTATTATTATTATTAGCATTATCATTATTTATTTT-ATTATTA
* **
16906606 TTTATTATTA-TTATTATTTTTTATTATTATTATCATTATTTATTTTATTATTA
1 TTTATTATTATTTATTA-TTATTATTAGCATTATCATTATTTATTTTATTATTA
16906659 TT
1 TT
16906661 ATTTTTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 6 0.13
53 37 0.79
54 4 0.09
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (53 bp):
TTTATTATTATTTATTATTATTATTAGCATTATCATTATTTATTTTATTATTA
Found at i:16907710 original size:17 final size:17
Alignment explanation
Indices: 16907684--16907728 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16907674 ATTTATTTTC
* *
16907684 AAACAAAAAAAACTTAA
1 AAACATAAAAAACATAA
*
16907701 AAACATAAAAAGCATAA
1 AAACATAAAAAACATAA
*
16907718 AAATATAAAAA
1 AAACATAAAAA
16907729 TTTTTGGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (17 bp):
AAACATAAAAAACATAA
Found at i:16908717 original size:22 final size:22
Alignment explanation
Indices: 16908692--16908783 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
16908682 ACTGAAATTG
* *
16908692 ATTTACTATTAAATTATTACTA
1 ATTTACTATTAAGTTATCACTA
*
16908714 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCACTA
* * *
16908736 ATTTATTATTAAGTTATCAATT
1 ATTTACTATTAAGTTATCACTA
* *
16908758 ATTAACTATTAAGTTATCACTT
1 ATTTACTATTAAGTTATCACTA
16908780 ATTT
1 ATTT
16908784 TTAATAACCT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCACTA
Found at i:16908741 original size:11 final size:11
Alignment explanation
Indices: 16908721--16908776 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
16908711 CTAATTTACT
16908721 ATTAAGTTATC
1 ATTAAGTTATC
* *
16908732 ATTAATTTATT
1 ATTAAGTTATC
16908743 ATTAAGTTATC
1 ATTAAGTTATC
*
16908754 AATT-A-TTAAC
1 -ATTAAGTTATC
16908764 TATTAAGTTATC
1 -ATTAAGTTATC
16908776 A
1 A
16908777 CTTATTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 7 0.20
11 21 0.60
12 7 0.20
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (11 bp):
ATTAAGTTATC
Found at i:16909072 original size:22 final size:22
Alignment explanation
Indices: 16909002--16909137 Score: 87
Period size: 22 Copynumber: 6.2 Consensus size: 22
16908992 TATAAAAAAG
*
16909002 TTATCAATGA-TTAATAATTAAA
1 TTATCAATGATTTACT-ATTAAA
* * * *
16909024 TTATTAGTTATTTACTA-CACAA
1 TTATCAATGATTTACTATTA-AA
*
16909046 CTATCAATGATTTACTATTAAA
1 TTATCAATGATTTACTATTAAA
* * * *
16909068 TTATCAATTATTGACTACTAAT
1 TTATCAATGATTTACTATTAAA
* * ** * *
16909090 TTATGAATGAATTGTTACTAAG
1 TTATCAATGATTTACTATTAAA
*
16909112 TTATGAATGATTTACTATTAAA
1 TTATCAATGATTTACTATTAAA
16909134 TTAT
1 TTAT
16909138 TGGTGATTTA
Statistics
Matches: 84, Mismatches: 27, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
21 1 0.01
22 78 0.93
23 5 0.06
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAA
Found at i:16909168 original size:22 final size:22
Alignment explanation
Indices: 16909108--16909168 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
16909098 GAATTGTTAC
*
16909108 TAAGTTA-TGAATGATTTACTAT
1 TAAGTTATTG-ATGATTTACCAT
* *
16909130 TAAATTATTGGTGATTTACCAT
1 TAAGTTATTGATGATTTACCAT
*
16909152 TAAGTTATTGATAATTT
1 TAAGTTATTGATGATTT
16909169 GTTATAAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (22 bp):
TAAGTTATTGATGATTTACCAT
Found at i:16909276 original size:22 final size:22
Alignment explanation
Indices: 16909251--16909346 Score: 81
Period size: 22 Copynumber: 4.5 Consensus size: 22
16909241 TATTAATAAA
*
16909251 TTATCACTGATTTACAACTAAG
1 TTATCACTGATTTACTACTAAG
* * * * *
16909273 TTATAAGTAATTTACTATTATG
1 TTATCACTGATTTACTACTAAG
* *
16909295 TTATTACTTATTTACTACTAAG
1 TTATCACTGATTTACTACTAAG
*
16909317 TTATCA---ATTTACTACTAAA
1 TTATCACTGATTTACTACTAAG
*
16909336 TTATCATTGAT
1 TTATCACTGAT
16909347 GTATTATTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 18 0.31
22 40 0.69
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (22 bp):
TTATCACTGATTTACTACTAAG
Found at i:16909286 original size:44 final size:44
Alignment explanation
Indices: 16909236--16909346 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 44
16909226 AATAATTAAC
*
16909236 TAATTTATTAATAAATTATCACTGATTTACAACTAAGTTATAAG
1 TAATTTACTAATAAATTATCACTGATTTACAACTAAGTTATAAG
* ** * * *
16909280 TAATTTACTATTATGTTATTACTTATTTACTACTAAGTTAT---
1 TAATTTACTAATAAATTATCACTGATTTACAACTAAGTTATAAG
* * *
16909321 CAATTTACTACTAAATTATCATTGAT
1 TAATTTACTAATAAATTATCACTGAT
16909347 GTATTATTAT
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
41 19 0.36
44 34 0.64
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (44 bp):
TAATTTACTAATAAATTATCACTGATTTACAACTAAGTTATAAG
Found at i:16909328 original size:19 final size:19
Alignment explanation
Indices: 16909304--16909341 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16909294 GTTATTACTT
*
16909304 ATTTACTACTAAGTTATCA
1 ATTTACTACTAAATTATCA
16909323 ATTTACTACTAAATTATCA
1 ATTTACTACTAAATTATCA
16909342 TTGATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTACTACTAAATTATCA
Found at i:16909491 original size:21 final size:22
Alignment explanation
Indices: 16909465--16909519 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
16909455 ATTCACTACC
16909465 AAATTATTACTAATTTA-TATT
1 AAATTATTACTAATTTACTATT
*
16909486 AAATTATGTA-TCATTTACTATT
1 AAATTAT-TACTAATTTACTATT
* *
16909508 AAGTTATCACTA
1 AAATTATTACTA
16909520 TTATCGATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
AAATTATTACTAATTTACTATT
Found at i:16909642 original size:22 final size:22
Alignment explanation
Indices: 16909615--16909664 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16909605 TTCAATCAAT
16909615 TATTAAACTGA-AATTAATTTAC
1 TATTAAA-TGATAATTAATTTAC
* *
16909637 TATTAAATTATCATTAATTTAC
1 TATTAAATGATAATTAATTTAC
16909659 TATTAA
1 TATTAA
16909665 GTTATCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (22 bp):
TATTAAATGATAATTAATTTAC
Found at i:16909669 original size:22 final size:22
Alignment explanation
Indices: 16909627--16909715 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 22
16909617 TTAAACTGAA
*
16909627 ATTAATTTACTATTAAATTATC
1 ATTAATTTACTATTAAGTTATC
16909649 ATTAATTTACTATTAAGTTATC
1 ATTAATTTACTATTAAGTTATC
* * *
16909671 ATTGATTTATTATTAAGTTATT
1 ATTAATTTACTATTAAGTTATC
* * * *
16909693 AATAATTAATTGTTAAGTTATC
1 ATTAATTTACTATTAAGTTATC
16909715 A
1 A
16909716 CTTATTTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (22 bp):
ATTAATTTACTATTAAGTTATC
Found at i:16909692 original size:11 final size:11
Alignment explanation
Indices: 16909627--16909713 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 11
16909617 TTAAACTGAA
* *
16909627 ATTAATTTACT
1 ATTAAGTTATT
* *
16909638 ATTAAATTATC
1 ATTAAGTTATT
* *
16909649 ATTAATTTACT
1 ATTAAGTTATT
*
16909660 ATTAAGTTATC
1 ATTAAGTTATT
* *
16909671 ATTGATTTATT
1 ATTAAGTTATT
16909682 ATTAAGTTATT
1 ATTAAGTTATT
*
16909693 AATAA-TTAATT
1 ATTAAGTT-ATT
*
16909704 GTTAAGTTAT
1 ATTAAGTTAT
16909714 CACTTATTTT
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
10 2 0.04
11 53 0.93
12 2 0.04
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.52
Consensus pattern (11 bp):
ATTAAGTTATT
Found at i:16909727 original size:22 final size:21
Alignment explanation
Indices: 16909639--16909745 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 21
16909629 TAATTTACTA
* * *
16909639 TTAAATTATCATTAATTTACTA
1 TTAAGTTATCATT-ATTTATTG
*
16909661 TTAAGTTATCATTGATTTATTA
1 TTAAGTTATCATT-ATTTATTG
* * *
16909683 TTAAGTTATTAATAATTAATTG
1 TTAAGTTA-TCATTATTTATTG
*
16909705 TTAAGTTATCACTTATTTTTTG
1 TTAAGTTATCA-TTATTTATTG
*
16909727 TTAAGTTATCCATGATTTA
1 TTAAGTTAT-CATTATTTA
16909746 GTATAATATT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.03
22 62 0.90
23 5 0.07
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (21 bp):
TTAAGTTATCATTATTTATTG
Found at i:16909865 original size:21 final size:21
Alignment explanation
Indices: 16909839--16909879 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16909829 AATTACTAAA
16909839 AAATTATCAATTATTTACTAC
1 AAATTATCAATTATTTACTAC
* *
16909860 AAATTATTACTTATTTACTA
1 AAATTATCAATTATTTACTA
16909880 TTAAGTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTATCAATTATTTACTAC
Found at i:16909889 original size:43 final size:43
Alignment explanation
Indices: 16909842--16909931 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
16909832 TACTAAAAAA
* *
16909842 TTATCAATTATTTACTAC-AAATTATT-ACTTATTTACTATTAAG
1 TTATCAATAATTTACTACTAAATTATTGA-TGA-TTACTATTAAG
* * *
16909885 TTATCACTAATTTTCTACTAAGTTATTGATGATTACTATTAAG
1 TTATCAATAATTTACTACTAAATTATTGATGATTACTATTAAG
16909928 TTAT
1 TTAT
16909932 ACTGACTACA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 30 0.75
44 9 0.22
45 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (43 bp):
TTATCAATAATTTACTACTAAATTATTGATGATTACTATTAAG
Found at i:16909897 original size:22 final size:22
Alignment explanation
Indices: 16909863--16909931 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
16909853 TTACTACAAA
* *
16909863 TTATTACTTATTTACTATTAAG
1 TTATCACTAATTTACTATTAAG
* *
16909885 TTATCACTAATTTTCTACTAAG
1 TTATCACTAATTTACTATTAAG
* *
16909907 TTATTGA-TGA-TTACTATTAAG
1 TTA-TCACTAATTTACTATTAAG
16909928 TTAT
1 TTAT
16909932 ACTGACTACA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.03
21 12 0.32
22 23 0.61
23 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (22 bp):
TTATCACTAATTTACTATTAAG
Found at i:16915141 original size:39 final size:39
Alignment explanation
Indices: 16915080--16915188 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 39
16915070 CACCTAGGGC
* * *
16915080 TTTCGGGTTTCATCTAAAATTTAGGGTTTTGTTTTA-AGG
1 TTTCGGGTTTCACCTAAGATTTAGGGTTTCGTTTTAGA-G
* * * *
16915119 TTTTGGGTTTCACCTAGGATTTAAGATTTCGTTTTAGAG
1 TTTCGGGTTTCACCTAAGATTTAGGGTTTCGTTTTAGAG
**
16915158 TTTCGAAATTTCACCTAAGATTTAGGGTTTC
1 TTTCG-GGTTTCACCTAAGATTTAGGGTTTC
16915189 ACCTAGGGTG
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
39 34 0.62
40 21 0.38
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.46
Consensus pattern (39 bp):
TTTCGGGTTTCACCTAAGATTTAGGGTTTCGTTTTAGAG
Found at i:16915396 original size:3 final size:3
Alignment explanation
Indices: 16915388--16915452 Score: 78
Period size: 3 Copynumber: 21.7 Consensus size: 3
16915378 TTTTGTATAT
* *
16915388 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA ATC TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* *
16915433 TTA TTT TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
16915453 TAATAATTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16915436 original size:30 final size:30
Alignment explanation
Indices: 16915400--16915456 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
16915390 ATTATTATTA
16915400 TTATTATTATTATTATTATTAATTAATCTT
1 TTATTATTATTATTATTATTAATTAATCTT
* * *
16915430 TTATTATTTTTATTTTTATTATTTAAT
1 TTATTATTATTATTATTATTAATTAAT
16915457 AATTCCTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (30 bp):
TTATTATTATTATTATTATTAATTAATCTT
Found at i:16915611 original size:21 final size:21
Alignment explanation
Indices: 16915587--16915633 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16915577 TGCACAAATC
*
16915587 TAAAATGTATGAAAAATAAAA
1 TAAAATGTATCAAAAATAAAA
* * *
16915608 TAAATTGTATCAAAAGTAAAT
1 TAAAATGTATCAAAAATAAAA
16915629 TAAAA
1 TAAAA
16915634 CATAAAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (21 bp):
TAAAATGTATCAAAAATAAAA
Found at i:16917614 original size:8 final size:8
Alignment explanation
Indices: 16917535--16917603 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
16917525 TAAAACAATT
16917535 TTTTTTTG
1 TTTTTTTG
16917543 TTTCTTTTG
1 TTT-TTTTG
16917552 --TTTTTG
1 TTTTTTTG
16917558 -TTTTTTG
1 TTTTTTTG
* *
16917565 TTTTTATA
1 TTTTTTTG
**
16917573 TTTTCGTG
1 TTTTTTTG
*
16917581 TTTTTGTG
1 TTTTTTTG
*
16917589 TTTTTGTG
1 TTTTTTTG
16917597 TTTTTTT
1 TTTTTTT
16917604 TTTGTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
6 5 0.10
7 7 0.14
8 34 0.67
9 5 0.10
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.80
Consensus pattern (8 bp):
TTTTTTTG
Found at i:16917879 original size:29 final size:29
Alignment explanation
Indices: 16917844--16917912 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
16917834 CCAGCTAAAA
* *
16917844 CTAGGCTTAAAATCTGGATGCTAGATAAC
1 CTAGGCTTAAAACCTAGATGCTAGATAAC
* * *
16917873 CTAGGCTTAAAACCTAGATGTTAGCTAAT
1 CTAGGCTTAAAACCTAGATGCTAGATAAC
*
16917902 CTGGGCTTAAA
1 CTAGGCTTAAA
16917913 TTTTCATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (29 bp):
CTAGGCTTAAAACCTAGATGCTAGATAAC
Found at i:16918113 original size:33 final size:33
Alignment explanation
Indices: 16918054--16918158 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
16918044 GGTTTAAAAC
* * * *
16918054 CATTGGGTGCTAGCTAATCTAAGTTTAAATTTT
1 CATTTGGTGCCAGCTAAACTAGGTTTAAATTTT
*
16918087 CATTTGGTTCCAGCTAAACTAGGTTTAAATTTT
1 CATTTGGTGCCAGCTAAACTAGGTTTAAATTTT
* * *
16918120 CACTAGGTGCCAACTAAACTAGGTTTAAATTTT
1 CATTTGGTGCCAGCTAAACTAGGTTTAAATTTT
16918153 C-TTTGG
1 CATTTGG
16918159 GTGCTAGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
32 3 0.05
33 58 0.95
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
CATTTGGTGCCAGCTAAACTAGGTTTAAATTTT
Found at i:16918237 original size:129 final size:130
Alignment explanation
Indices: 16918016--16918269 Score: 339
Period size: 129 Copynumber: 2.0 Consensus size: 130
16918006 GTGCTAGCTA
* ** * *
16918016 AAATTTTTTTTAGGTGCTAGGAAGACTGGGTTTAAAACCATTGGGTGCTAGCTAATCTAAGTTTA
1 AAATTTTCTTTAGGTGCTAGGAAGACTCAGCTTAAAACCATTGAGTGCTAGCTAATCTAAGTTTA
* * * * *
16918081 AATTTTCATTTGGTTCCAGCTAAACTAGGTTTAAATTTTCACTAGGTGCCAACTAAACTAGGTTT
66 AATTTTCACTAGGTTCCAGCTAAACTAGGCTCAAATTTTCACTAGGTGCCAACCAAACTAGGTTT
* * * *
16918146 AAATTTTCTTTGGGTGCTAGGTAGACTCAGCTTAAAACCATT-AGTGCTAGCTAATTTAGGTTTA
1 AAATTTTCTTTAGGTGCTAGGAAGACTCAGCTTAAAACCATTGAGTGCTAGCTAATCTAAGTTTA
* * * *
16918210 AATTTTTACTAGGTTCCAGCTAGACTAGGCTCAAATTTTCATTGGGTGCCAACCAAACTA
66 AATTTTCACTAGGTTCCAGCTAAACTAGGCTCAAATTTTCACTAGGTGCCAACCAAACTA
16918270 ATCTTAAACT
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
129 70 0.66
130 36 0.34
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (130 bp):
AAATTTTCTTTAGGTGCTAGGAAGACTCAGCTTAAAACCATTGAGTGCTAGCTAATCTAAGTTTA
AATTTTCACTAGGTTCCAGCTAAACTAGGCTCAAATTTTCACTAGGTGCCAACCAAACTAGGTTT
Found at i:16918294 original size:17 final size:17
Alignment explanation
Indices: 16918272--16918305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16918262 CCAAACTAAT
16918272 CTTAAACTTTCCTTGGG
1 CTTAAACTTTCCTTGGG
* *
16918289 CTTAAATTTTCTTTGGG
1 CTTAAACTTTCCTTGGG
16918306 TGCTAGGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (17 bp):
CTTAAACTTTCCTTGGG
Found at i:16918465 original size:33 final size:33
Alignment explanation
Indices: 16918402--16918466 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
16918392 TAAGCTTGAA
* * * *
16918402 TTTTCATTAATGCCAGATAATTTAGGCTTAAAT
1 TTTTCATTAATACCAAATAAATTAGACTTAAAT
16918435 TTTTCATTGAATACCAAATAAATTA-ACTTAAA
1 TTTTCATT-AATACCAAATAAATTAGACTTAAA
16918467 ACCATTGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 14 0.52
34 13 0.48
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (33 bp):
TTTTCATTAATACCAAATAAATTAGACTTAAAT
Found at i:16918793 original size:28 final size:29
Alignment explanation
Indices: 16918760--16918821 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
16918750 GCTAATTTGA
*
16918760 GCTTAAAACCTGGGTGCCAACTAAACT-G
1 GCTTAAAACCTAGGTGCCAACTAAACTGG
** *
16918788 GCTT-AAATTTAGGTGCCAATTAAACTGG
1 GCTTAAAACCTAGGTGCCAACTAAACTGG
16918816 GCTTAA
1 GCTTAA
16918822 GACTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 18 0.64
28 9 0.32
29 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (29 bp):
GCTTAAAACCTAGGTGCCAACTAAACTGG
Found at i:16919767 original size:8 final size:8
Alignment explanation
Indices: 16919756--16919850 Score: 55
Period size: 8 Copynumber: 11.0 Consensus size: 8
16919746 CATCAATTCA
16919756 TTTTTCTT
1 TTTTTCTT
16919764 TTTTTCTTTT
1 TTTTTC--TT
16919774 TTTTTCCTTT
1 TTTTT-C-TT
16919784 GTTTTTCTT
1 -TTTTTCTT
* *
16919793 TCTTTCAT
1 TTTTTCTT
*
16919801 TTTTTCTC
1 TTTTTCTT
16919809 TTTTTCTT
1 TTTTTCTT
***
16919817 CACTTCTT
1 TTTTTCTT
*
16919825 TCTTTTCAT
1 T-TTTTCTT
*
16919834 TTCTTCTT
1 TTTTTCTT
16919842 TTTTCTCTT
1 TTTT-TCTT
16919851 AGTAGATTCA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
8 37 0.57
9 11 0.17
10 11 0.17
11 6 0.09
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTCTT
Found at i:16926206 original size:13 final size:13
Alignment explanation
Indices: 16926190--16926246 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
16926180 ATGGTTTTGT
16926190 TTTTAAGGTTTCA
1 TTTTAAGGTTTCA
**
16926203 TTTTGGGGTTTCA
1 TTTTAAGGTTTCA
* * **
16926216 CTTTAGGGTTTTG
1 TTTTAAGGTTTCA
16926229 TTTTAAGGTTTCA
1 TTTTAAGGTTTCA
16926242 TTTTA
1 TTTTA
16926247 GTGTTAAGGC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.56
Consensus pattern (13 bp):
TTTTAAGGTTTCA
Found at i:16926609 original size:20 final size:21
Alignment explanation
Indices: 16926568--16926614 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16926558 TTCATAAGTC
*
16926568 TAAAATGTATGAAAAGTAAAA
1 TAAAATGTATCAAAAGTAAAA
* *
16926589 TAAATTGTATCAAAAGTAAAT
1 TAAAATGTATCAAAAGTAAAA
16926610 TAAAA
1 TAAAA
16926615 CATAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.28
Consensus pattern (21 bp):
TAAAATGTATCAAAAGTAAAA
Found at i:16928831 original size:20 final size:21
Alignment explanation
Indices: 16928793--16928832 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16928783 TTTATTAATT
*
16928793 AAAAAATATATCTTGAAGAAG
1 AAAAAATATATCTTCAAGAAG
*
16928814 AAAAAATA-ATTTTCAAGAA
1 AAAAAATATATCTTCAAGAA
16928833 AATCTTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAAATATATCTTCAAGAAG
Found at i:16932551 original size:46 final size:47
Alignment explanation
Indices: 16932496--16932641 Score: 156
Period size: 46 Copynumber: 3.2 Consensus size: 47
16932486 TCTTTTAAAA
*
16932496 TTTGGATGTGAATCCCTAAAGTTTTTAAAATGAGAA-CTTTGGATAT-
1 TTTGGATGTGAATCCCTAAAGTTTTTAAAATGAGAATCTTT-GAAATC
* * *
16932542 TTTGGATGTGAATTCTTAAAGTTTTTCAAATGAGAATCTTTGAAATC
1 TTTGGATGTGAATCCCTAAAGTTTTTAAAATGAGAATCTTTGAAATC
* * * * ** *
16932589 TTTAGATGTGAATCTCAAAAATTTTTTGAATAAGAATCTTTG-AATC
1 TTTGGATGTGAATCCCTAAAGTTTTTAAAATGAGAATCTTTGAAATC
16932635 -TTGGATG
1 TTTGGATG
16932642 CAAATCTCTA
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
45 6 0.07
46 41 0.49
47 37 0.44
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (47 bp):
TTTGGATGTGAATCCCTAAAGTTTTTAAAATGAGAATCTTTGAAATC
Found at i:16932662 original size:47 final size:48
Alignment explanation
Indices: 16932563--16932668 Score: 119
Period size: 47 Copynumber: 2.2 Consensus size: 48
16932553 ATTCTTAAAG
* * **
16932563 TTTTTCAAATGAGAATCTTTGAAATCTTTAGATGTGAATCTC-AAAAA
1 TTTTTCGAATAAGAATCTTTGAAATCTTTAGATGCAAATCTCAAAAAA
* *
16932610 TTTTTTGAATAAGAATCTTTG-AATC-TTGGATGCAAATCTCTAACAAAA
1 TTTTTCGAATAAGAATCTTTGAAATCTTTAGATGCAAATCTC-AA-AAAA
16932658 TTTTTCGAATA
1 TTTTTCGAATA
16932669 CAAACTTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
45 12 0.24
46 4 0.08
47 19 0.39
48 14 0.29
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (48 bp):
TTTTTCGAATAAGAATCTTTGAAATCTTTAGATGCAAATCTCAAAAAA
Found at i:16932799 original size:17 final size:17
Alignment explanation
Indices: 16932774--16932958 Score: 52
Period size: 17 Copynumber: 10.9 Consensus size: 17
16932764 TTTCATTTGT
*
16932774 AAATCTTTAAATCTTGC
1 AAATTTTTAAATCTTGC
* * **
16932791 AAATTTTTAATTATTAT
1 AAATTTTTAAATCTTGC
* * * *
16932808 GAATATTCAAATATTGC
1 AAATTTTTAAATCTTGC
* * *
16932825 GAATCTTTAATTTCTTGC
1 AAATTTTTAA-ATCTTGC
* *
16932843 AAATCTTTGAATTCTTGC
1 AAAT-TTTTAAATCTTGC
* * * *
16932861 GAA-TTTGAAA-ATTAC
1 AAATTTTTAAATCTTGC
* * *
16932876 AAATCTTCAAATCTTGT
1 AAATTTTTAAATCTTGC
* *
16932893 GAATTTTTAATTCTTGC
1 AAATTTTTAAATCTTGC
* * *
16932910 TAATCTTTAAATCTTCC
1 AAATTTTTAAATCTTGC
***
16932927 AAAAACTT-AATCCTTGC
1 AAATTTTTAAAT-CTTGC
*
16932944 GAATTTTTAAATCTT
1 AAATTTTTAAATCTT
16932959 ATGAATCTTC
Statistics
Matches: 116, Mismatches: 46, Indels: 12
0.67 0.26 0.07
Matches are distributed among these distances:
15 5 0.04
16 14 0.12
17 73 0.63
18 20 0.17
19 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (17 bp):
AAATTTTTAAATCTTGC
Found at i:16932847 original size:18 final size:18
Alignment explanation
Indices: 16932821--16932860 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16932811 TATTCAAATA
*
16932821 TTGCGAATCTTT-AATTTC
1 TTGCAAATCTTTGAA-TTC
16932839 TTGCAAATCTTTGAATTC
1 TTGCAAATCTTTGAATTC
16932857 TTGC
1 TTGC
16932861 GAATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (18 bp):
TTGCAAATCTTTGAATTC
Found at i:16933002 original size:18 final size:18
Alignment explanation
Indices: 16932979--16933096 Score: 96
Period size: 18 Copynumber: 6.7 Consensus size: 18
16932969 AAATATTGTG
* *
16932979 AATCTTTGACTTTTTGCA
1 AATCTTTGAATTCTTGCA
16932997 AATCTTTGAATTCTTGCA
1 AATCTTTGAATTCTTGCA
* * **
16933015 AATCTTTAAAATCTT-TT
1 AATCTTTGAATTCTTGCA
* * * *
16933032 GATCTTTAAATTCTTTCG
1 AATCTTTGAATTCTTGCA
*
16933050 AATATTT-AATTCTTGCA
1 AATCTTTGAATTCTTGCA
* *
16933067 AATTTTTGAAATCTTGCA
1 AATCTTTGAATTCTTGCA
*
16933085 AACCTTTGAATT
1 AATCTTTGAATT
16933097 TTAAAATGTG
Statistics
Matches: 79, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
17 27 0.34
18 52 0.66
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.47
Consensus pattern (18 bp):
AATCTTTGAATTCTTGCA
Found at i:16933037 original size:70 final size:71
Alignment explanation
Indices: 16932939--16933091 Score: 161
Period size: 70 Copynumber: 2.2 Consensus size: 71
16932929 AAACTTAATC
* * * * *
16932939 CTTGCGAAT-TTTTAAATCTTATGAATCTTCAAATAT-TGT-GAATCTTTGACTTTTTGCAAATC
1 CTTGCAAATCTTTAAAATCTTATGAATCTTCAAAT-TCTGTCGAATATTT-AATTCTTGCAAATC
*
16933001 TTTGAATT
64 TTTGAAAT
* * * *
16933009 CTTGCAAATCTTTAAAATCTTTTG-ATCTTTAAATTCTTTCGAATATTTAATTCTTGCAAATTTT
1 CTTGCAAATCTTTAAAATCTTATGAATCTTCAAATTCTGTCGAATATTTAATTCTTGCAAATCTT
16933073 TGAAAT
66 TGAAAT
*
16933079 CTTGCAAACCTTT
1 CTTGCAAATCTTT
16933092 GAATTTTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
69 1 0.01
70 49 0.71
71 19 0.28
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.47
Consensus pattern (71 bp):
CTTGCAAATCTTTAAAATCTTATGAATCTTCAAATTCTGTCGAATATTTAATTCTTGCAAATCTT
TGAAAT
Found at i:16934755 original size:32 final size:32
Alignment explanation
Indices: 16934714--16934774 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
16934704 TCACACCAAA
*
16934714 CCATCGTGTAGCACTTAGTAACTCCCACGGCT
1 CCATCGTGTAACACTTAGTAACTCCCACGGCT
* *
16934746 CCATCGTGTAACACTTAGTGACTCTCACG
1 CCATCGTGTAACACTTAGTAACTCCCACG
16934775 ACTGTAGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (32 bp):
CCATCGTGTAACACTTAGTAACTCCCACGGCT
Found at i:16936862 original size:17 final size:16
Alignment explanation
Indices: 16936814--16936862 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
16936804 AGCTTAATTT
16936814 TTTTTATTA-AAAAAA
1 TTTTTATTATAAAAAA
*
16936829 -TTTTATTATGAATAAA
1 TTTTTATTAT-AAAAAA
16936845 TTTTTATTATATAAAAA
1 TTTTTATTATA-AAAAA
16936862 T
1 T
16936863 ATTAAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
16 6 0.21
17 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTTTATTATAAAAAA
Found at i:16938063 original size:248 final size:249
Alignment explanation
Indices: 16937749--16938214 Score: 819
Period size: 248 Copynumber: 1.9 Consensus size: 249
16937739 AATTCCATAT
* *
16937749 AATTATTATATTCCTATGCATATTAAGTTTTGGTCGTATTTTATTTGTATTTTTATTTAATGTG-
1 AATTATTATATTCCTATGCATATTAAGTTTTGATCATATTTTATTTGTATTTTTATTTAATGTGA
*
16937813 AAAATTATTTTATTTATAAAAAAGTATAATAATAAAAAAATCATTTAAATTAAATTTTATAAAAA
66 AAAATTATTTTATTTATAAAAAAGTATAATAATAAAAAAATCATTTAAATTAAAATTTAT-AAAA
* * *
16937878 AATTATTGAAGGTGTTTTAATCAGTCAATTTTAACATTTTTTAAATTAAAATTTTATTAAGGAAA
130 AATAATTGAAGGTATTTTAATCAGTCAATTTTAACATTTTTGAAATTAAAATTTTATTAAGGAAA
16937943 TTTTAGTTAATCACCTTTAATATTCCTATGCATATTAAGGAAATTAAAATCAGCC
195 TTTTAGTTAATCACCTTTAATATTCCTATGCATATTAAGGAAATTAAAATCAGCC
16937998 AATT-TTATATTCCTATGCATATTAAGTTTTGATCATATTTTATTTGTATTTTTATTTAATGTGA
1 AATTATTATATTCCTATGCATATTAAGTTTTGATCATATTTTATTTGTATTTTTATTTAATGTGA
*
16938062 AAAATTATTTTATTTATAAAAAAGTCTAATAATAAAAAAATCATTTAAATTAAAATTTATAAAAA
66 AAAATTATTTTATTTATAAAAAAGTATAATAATAAAAAAATCATTTAAATTAAAATTTATAAAAA
** *
16938127 ATAATTGAAGGTATTTTAATTGGTCAATTTTAACATTTTTGAAATTAAAATTTTATTAGGGAAAT
131 ATAATTGAAGGTATTTTAATCAGTCAATTTTAACATTTTTGAAATTAAAATTTTATTAAGGAAAT
16938192 TTTAGTTAATCACCTTTAATATT
196 TTTAGTTAATCACCTTTAATATT
16938215 TTTAGTCTAA
Statistics
Matches: 206, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
248 144 0.70
249 62 0.30
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (249 bp):
AATTATTATATTCCTATGCATATTAAGTTTTGATCATATTTTATTTGTATTTTTATTTAATGTGA
AAAATTATTTTATTTATAAAAAAGTATAATAATAAAAAAATCATTTAAATTAAAATTTATAAAAA
ATAATTGAAGGTATTTTAATCAGTCAATTTTAACATTTTTGAAATTAAAATTTTATTAAGGAAAT
TTTAGTTAATCACCTTTAATATTCCTATGCATATTAAGGAAATTAAAATCAGCC
Found at i:16951748 original size:14 final size:15
Alignment explanation
Indices: 16951725--16951757 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16951715 AATCCTTTAA
16951725 TTTTTCTTTTTGTT-
1 TTTTTCTTTTTGTTC
*
16951739 TTTTTTTTTTTGTTC
1 TTTTTCTTTTTGTTC
16951754 TTTT
1 TTTT
16951758 GATGAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTGTTC
Found at i:16952681 original size:7 final size:7
Alignment explanation
Indices: 16952669--16953199 Score: 216
Period size: 7 Copynumber: 80.7 Consensus size: 7
16952659 ATTTTTCTTG
16952669 AAACCCT
1 AAACCCT
*
16952676 AAACCCA
1 AAACCCT
16952683 AAACCC-
1 AAACCCT
*
16952689 AAAACCT
1 AAACCCT
16952696 AAA-CCT
1 AAACCCT
* *
16952702 AAATCTT
1 AAACCCT
*
16952709 AAACCAT
1 AAACCCT
*
16952716 AAAACC-
1 AAACCCT
*
16952722 AAACCTT
1 AAACCCT
**
16952729 AAACTTT
1 AAACCCT
16952736 AAACCCT
1 AAACCCT
16952743 AAACCCT
1 AAACCCT
**
16952750 AAACTTAAT
1 AAAC--CCT
16952759 ATAGACCCT
1 A-A-ACCCT
16952768 AAA-CCT
1 AAACCCT
* **
16952774 TAACTGT
1 AAACCCT
16952781 AAACCCT
1 AAACCCT
**
16952788 AAAATC-
1 AAACCCT
16952794 AAACCCT
1 AAACCCT
16952801 AAA-CC-
1 AAACCCT
*
16952806 AAACCTT
1 AAACCCT
*
16952813 AAACCTT
1 AAACCCT
16952820 AGAA-CC-
1 A-AACCCT
16952826 AAACCCT
1 AAACCCT
16952833 AAACCCT
1 AAACCCT
16952840 -AACCCT
1 AAACCCT
*
16952846 AAA-AC-
1 AAACCCT
*
16952851 AAAACCT
1 AAACCCT
16952858 AAA-CC-
1 AAACCCT
*
16952863 AAACCTT
1 AAACCCT
*
16952870 AAACACT
1 AAACCCT
16952877 AGAA-CC-
1 A-AACCCT
16952883 AAACCCT
1 AAACCCT
16952890 AAACCCT
1 AAACCCT
16952897 AAACCCT
1 AAACCCT
16952904 -AACCCT
1 AAACCCT
*
16952910 AAA--AT
1 AAACCCT
16952915 AAAACCCT
1 -AAACCCT
16952923 AAA-CCT
1 AAACCCT
*
16952929 -AACCTT
1 AAACCCT
16952935 AAACCCT
1 AAACCCT
*
16952942 AAACCTT
1 AAACCCT
16952949 AAA--CT
1 AAACCCT
*
16952954 AAAACCT
1 AAACCCT
*
16952961 AAATCCT
1 AAACCCT
*
16952968 AAA-TCT
1 AAACCCT
16952974 AAACCCT
1 AAACCCT
16952981 AAACCC-
1 AAACCCT
*
16952987 CAA-CCT
1 AAACCCT
16952993 AAACCCT
1 AAACCCT
16953000 AGAA--CT
1 A-AACCCT
16953006 AAACCCT
1 AAACCCT
16953013 AAACCCT
1 AAACCCT
16953020 -AACCCT
1 AAACCCT
* **
16953026 CAA-TGT
1 AAACCCT
*
16953032 TAA-CCT
1 AAACCCT
*
16953038 AGAA-CCA
1 A-AACCCT
*
16953045 AAATCCT
1 AAACCCT
*
16953052 AAACCTT
1 AAACCCT
* * *
16953059 GAATCTT
1 AAACCCT
*
16953066 AAACCCC
1 AAACCCT
*
16953073 AAA-CTT
1 AAACCCT
16953079 AAACCCT
1 AAACCCT
*
16953086 AAA-ACT
1 AAACCCT
16953092 AAACCCT
1 AAACCCT
16953099 AAACCC-
1 AAACCCT
16953105 AAACCCT
1 AAACCCT
*
16953112 AAA-TCT
1 AAACCCT
*
16953118 AAACCTT
1 AAACCCT
*
16953125 AAATCCT
1 AAACCCT
16953132 AATA--CT
1 AA-ACCCT
*
16953138 AGA-CCT
1 AAACCCT
16953144 AAACCCT
1 AAACCCT
*
16953151 ACAA-CTT
1 A-AACCCT
16953158 AAACCCT
1 AAACCCT
16953165 AAA-CC-
1 AAACCCT
*
16953170 AAACTCT
1 AAACCCT
16953177 AAA-CC-
1 AAACCCT
16953182 -AACCCT
1 AAACCCT
16953188 AAACCCT
1 AAACCCT
16953195 AAACC
1 AAACC
16953200 AACCCTCGAA
Statistics
Matches: 394, Mismatches: 77, Indels: 106
0.68 0.13 0.18
Matches are distributed among these distances:
4 2 0.01
5 30 0.08
6 115 0.29
7 229 0.58
8 11 0.03
9 4 0.01
10 1 0.00
11 2 0.01
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:16952719 original size:27 final size:28
Alignment explanation
Indices: 16952689--16952757 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
16952679 CCCAAAACCC
16952689 AAAACCTAAACC-TAAA-TCTTAAACCAT
1 AAAACCTAAACCTTAAACT-TTAAACCAT
*
16952716 AAAACC-AAACCTTAAACTTTAAACCCT
1 AAAACCTAAACCTTAAACTTTAAACCAT
*
16952743 AAACCCTAAA-CTTAA
1 AAAACCTAAACCTTAA
16952758 TATAGACCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 5 0.14
27 28 0.76
28 4 0.11
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.22
Consensus pattern (28 bp):
AAAACCTAAACCTTAAACTTTAAACCAT
Found at i:16952830 original size:45 final size:44
Alignment explanation
Indices: 16952781--16953025 Score: 176
Period size: 45 Copynumber: 5.5 Consensus size: 44
16952771 CCTTAACTGT
* *
16952781 AAACCCTAAAATCAAACCCTAAA-CCAAACCTTAAACCTTAGAACC
1 AAACCCTAAAACCAAACCCTAAACCCAAACC-TAAACC-TAAAACC
* * * *
16952826 AAACCCTAAACCCTAACCCTAAAACAAAACCTAAACC--AAACC
1 AAACCCTAAAACCAAACCCTAAACCCAAACCTAAACCTAAAACC
* * * **
16952868 TTAAACACTAGAACCAAACCCTAAACCCTAAACCCTAACCCTAAAATA
1 --AAACCCTAAAACCAAACCCTAAACCC-AAA-CCTAAACCTAAAACC
* *
16952916 AAACCCT-AAACCTAACCTTAAACCCTAAACCTTAAA-CTAAAACC
1 AAACCCTAAAACCAAACCCTAAACCC-AAACC-TAAACCTAAAACC
* * * * * *
16952960 TAAATCCTAAATCTAAACCCTAAACCCCAACCTAAACCCTAGAACT
1 -AAACCCTAAAACCAAACCCTAAACCCAAACCTAAA-CCTAAAACC
* *
16953006 AAACCCTAAACCCTAACCCT
1 AAACCCTAAAACCAAACCCT
16953026 CAATGTTAAC
Statistics
Matches: 155, Mismatches: 33, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
42 4 0.03
44 32 0.21
45 77 0.50
46 39 0.25
48 3 0.02
ACGTcount: A:0.47, C:0.36, G:0.01, T:0.16
Consensus pattern (44 bp):
AAACCCTAAAACCAAACCCTAAACCCAAACCTAAACCTAAAACC
Found at i:16952843 original size:13 final size:13
Alignment explanation
Indices: 16952827--16953199 Score: 98
Period size: 13 Copynumber: 28.8 Consensus size: 13
16952817 CTTAGAACCA
16952827 AACCCTAAACCCT
1 AACCCTAAACCCT
* *
16952840 AACCCTAAA-ACA
1 AACCCTAAACCCT
* *
16952852 AAACCTAAA-CCA
1 AACCCTAAACCCT
* *
16952864 AACCTTAAACACT
1 AACCCTAAACCCT
*
16952877 AGAACC-AAACCCT
1 A-ACCCTAAACCCT
16952890 AAACCCTAAACCCT
1 -AACCCTAAACCCT
****
16952904 AACCCTAAAATAA
1 AACCCTAAACCCT
16952917 AACCCTAAA-CCT
1 AACCCTAAACCCT
*
16952929 AACCTTAAACCCT
1 AACCCTAAACCCT
*
16952942 AAACCTTAAA--CT
1 -AACCCTAAACCCT
* *
16952954 AAAACCTAAATCCT
1 -AACCCTAAACCCT
**
16952968 AAATCTAAACCCT
1 AACCCTAAACCCT
*
16952981 AAACCC-CAA-CCT
1 -AACCCTAAACCCT
16952993 AAACCCTAGAA--CT
1 -AACCCTA-AACCCT
16953006 AAACCCTAAACCCT
1 -AACCCTAAACCCT
* ***
16953020 AACCCTCAATGTT
1 AACCCTAAACCCT
**
16953033 AA-CCTAGAACCAA
1 AACCCTA-AACCCT
* *
16953046 AATCCTAAACCTT
1 AACCCTAAACCCT
* * *
16953059 GAATCTTAAACCCC
1 -AACCCTAAACCCT
* *
16953073 AAACTTAAACCCT
1 AACCCTAAACCCT
**
16953086 AAAACTAAACCCT
1 AACCCTAAACCCT
16953099 AAACCC-AAACCCT
1 -AACCCTAAACCCT
** *
16953112 AAATCTAAACCTT
1 AACCCTAAACCCT
*
16953125 AAATCCTAATA--CT
1 -AACCCTAA-ACCCT
16953138 AGA-CCTAAACCCT
1 A-ACCCTAAACCCT
* *
16953151 ACAACTTAAACCCT
1 A-ACCCTAAACCCT
* *
16953165 AAACC-AAACTCT
1 AACCCTAAACCCT
*
16953177 AAACC--AACCCT
1 AACCCTAAACCCT
16953188 AAACCCTAAACC
1 -AACCCTAAACC
16953200 AACCCTCGAA
Statistics
Matches: 273, Mismatches: 60, Indels: 53
0.71 0.16 0.14
Matches are distributed among these distances:
11 6 0.02
12 74 0.27
13 127 0.47
14 65 0.24
15 1 0.00
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.18
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:16952919 original size:19 final size:19
Alignment explanation
Indices: 16952884--16953000 Score: 80
Period size: 19 Copynumber: 6.1 Consensus size: 19
16952874 ACTAGAACCA
16952884 AACCCTAAACCCT-AAACCCT
1 AACCCTAAA--CTAAAACCCT
*
16952904 AACCCTAAAATAAAACCCT
1 AACCCTAAACTAAAACCCT
* * *
16952923 AAACCTAACCTTAAACCCT
1 AACCCTAAACTAAAACCCT
*
16952942 AAACCTTAAACTAAAA-CCT
1 -AACCCTAAACTAAAACCCT
*
16952961 AAATCCTAAATCT-AAACCCT
1 -AACCCTAAA-CTAAAACCCT
* *
16952981 AAACCCCAACCT-AAACCCT
1 -AACCCTAAACTAAAACCCT
16953000 A
1 A
16953001 GAACTAAACC
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
18 2 0.03
19 45 0.57
20 32 0.41
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (19 bp):
AACCCTAAACTAAAACCCT
Found at i:16952976 original size:32 final size:32
Alignment explanation
Indices: 16952940--16953017 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
16952930 ACCTTAAACC
* * *
16952940 CTAAACCTTAAACTAAAACCTAAATCCTA-AA
1 CTAAACCCTAAACCAAAACCTAAACCCTAGAA
**
16952971 TCTAAACCCTAAACCCCAACCTAAACCCTAGAA
1 -CTAAACCCTAAACCAAAACCTAAACCCTAGAA
16953004 CTAAACCCTAAACC
1 CTAAACCCTAAACC
16953018 CTAACCCTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 38 0.95
33 2 0.05
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (32 bp):
CTAAACCCTAAACCAAAACCTAAACCCTAGAA
Found at i:16953010 original size:19 final size:19
Alignment explanation
Indices: 16952673--16953199 Score: 213
Period size: 20 Copynumber: 27.1 Consensus size: 19
16952663 TTCTTGAAAC
* *
16952673 CCTAAACCCAAAACCCAAAA
1 CCTAAA-CCTAAACCCTAAA
* *
16952693 CCTAAACCTAAATCTTAAA
1 CCTAAACCTAAACCCTAAA
*
16952712 CCATAAAACC-AAACCTTAAA
1 CC-T-AAACCTAAACCCTAAA
*
16952732 CTTTAAACCCTAAACCCTAAA
1 C-CTAAA-CCTAAACCCTAAA
* *
16952753 CTTAATA--TAGACCCTAAA
1 CCTAA-ACCTAAACCCTAAA
* *
16952771 CCTTAACTGTAAACCCTAAA
1 CCTAAAC-CTAAACCCTAAA
*
16952791 -ATCAAACCCTAAA-CC-AAA
1 CCT-AAA-CCTAAACCCTAAA
16952809 CCTTAAACCTTAGAA-CC-AAA
1 CC-TAAACC-TA-AACCCTAAA
16952829 CCCTAAACCCT-AACCCTAAA
1 -CCTAAA-CCTAAACCCTAAA
* *
16952849 ACAAAACCTAAA-CC-AAA
1 CCTAAACCTAAACCCTAAA
16952866 CCTTAAACACTAGAA-CC-AAA
1 CC-TAAAC-CTA-AACCCTAAA
*
16952886 CCCTAAACCCTAAACCCTAAC
1 -CCTAAA-CCTAAACCCTAAA
*
16952907 CCTAAA-ATAAAACCCTAAA
1 CCTAAACCT-AAACCCTAAA
16952926 CCT-AACCTTAAACCCTAAA
1 CCTAAACC-TAAACCCTAAA
*
16952945 CCTTAAA-CTAAAACCTAAA
1 CC-TAAACCTAAACCCTAAA
*
16952964 TCCTAAATCTAAACCCTAAA
1 -CCTAAACCTAAACCCTAAA
**
16952984 CCCCAACCTAAACCCTAGAA
1 CCTAAACCTAAACCCTA-AA
*
16953004 -CTAAACCCTAAACCCTAAC
1 CCTAAA-CCTAAACCCTAAA
* ** *
16953023 CCTCAATGTTAA-CCTAGAA
1 CCTAAACCTAAACCCTA-AA
* * *
16953042 CCAAAATCCTAAACCTTGAAT
1 CCTAAA-CCTAAACCCT-AAA
* * *
16953063 CTTAAACCCCAAA-CTTAAA
1 CCTAAA-CCTAAACCCTAAA
*
16953082 CCCTAAAACTAAACCCTAAA
1 -CCTAAACCTAAACCCTAAA
* *
16953102 CCCAAACCCTAAA-TCTAAA
1 CCTAAA-CCTAAACCCTAAA
*
16953121 CCTTAAATCCTAATA--CTAGA
1 CC-TAAA-CCTAA-ACCCTAAA
*
16953141 CCTAAACCCTACAA-CTTAAA
1 CCTAAA-CCTA-AACCCTAAA
*
16953161 CCCTAAACC-AAACTCTAAA
1 -CCTAAACCTAAACCCTAAA
*
16953180 CC-AACCCTAAACCCTAAA
1 CCTAAACCTAAACCCTAAA
16953198 CC
1 CC
16953200 AACCCTCGAA
Statistics
Matches: 391, Mismatches: 65, Indels: 104
0.70 0.12 0.19
Matches are distributed among these distances:
17 9 0.02
18 51 0.13
19 131 0.34
20 152 0.39
21 47 0.12
22 1 0.00
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (19 bp):
CCTAAACCTAAACCCTAAA
Found at i:16953018 original size:32 final size:32
Alignment explanation
Indices: 16952956--16953023 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
16952946 CTTAAACTAA
*
16952956 AACCTAAATCCTAAATCTAAACCCTAAACCCC
1 AACCTAAACCCTAAATCTAAACCCTAAACCCC
*
16952988 AACCTAAACCCTAGAA-CTAAACCCTAAACCCT
1 AACCTAAACCCTA-AATCTAAACCCTAAACCCC
16953020 AACC
1 AACC
16953024 CTCAATGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.16
Consensus pattern (32 bp):
AACCTAAACCCTAAATCTAAACCCTAAACCCC
Found at i:16953173 original size:26 final size:25
Alignment explanation
Indices: 16952806--16953192 Score: 152
Period size: 26 Copynumber: 14.7 Consensus size: 25
16952796 ACCCTAAACC
*
16952806 AAACCTTAAACCTTAGAACCAAACCCT
1 AAACC-TAAACCCTA-AACCAAACCCT
* *
16952833 AAACCCT-AACCCTAAAACAAAACCT
1 AAA-CCTAAACCCTAAACCAAACCCT
*
16952858 AAACC-AAACCTTAAACACTAGAA-CC-
1 AAACCTAAACCCTAAAC-C-A-AACCCT
*
16952883 AAACCCTAAACCCTAAACCCTAACCCT
1 AAA-CCTAAACCCTAAA-CCAAACCCT
* * *
16952910 AAA-ATAAAACCCTAAACCTAACCTT
1 AAACCT-AAACCCTAAACCAAACCCT
* * *
16952935 AAACCCTAAACCTTAAACTAAAACCT
1 AAA-CCTAAACCCTAAACCAAACCCT
*
16952961 AAATCCTAAA-TCTAAACCCTAAACCC-
1 AAA-CCTAAACCCTAAA-CC-AAACCCT
* *
16952987 CAACCTAAACCCTAGAACTAAACCCT
1 AAACCTAAACCCTA-AACCAAACCCT
*
16953013 AAACCCT-AACCCTCAATGTTAACCTAGAA-CCA
1 AAA-CCTAAACCCT--A----AACC-A-AACCCT
* * * *
16953045 AAATCCTAAACCTTGAATCTTAAACCCC
1 AAA-CCTAAACCCT-AAAC-CAAACCCT
* *
16953073 AAACTTAAACCCTAAAACTAAACCCT
1 AAACCTAAACCCT-AAACCAAACCCT
* * *
16953099 AAACCCAAACCCTAAATCTAAACCTT
1 AAACCTAAACCCTAAA-CCAAACCCT
*
16953125 AAATCCTAATA--CTAGACCTAAACCCT
1 AAA-CCTAA-ACCCTAAACC-AAACCCT
* *
16953151 ACAACTTAAACCCTAAACCAAACTCT
1 A-AACCTAAACCCTAAACCAAACCCT
16953177 AAACC--AACCCTAAACC
1 AAACCTAAACCCTAAACC
16953193 CTAAACCAAC
Statistics
Matches: 275, Mismatches: 49, Indels: 76
0.69 0.12 0.19
Matches are distributed among these distances:
23 11 0.04
24 10 0.04
25 54 0.20
26 112 0.41
27 55 0.20
28 13 0.05
31 3 0.01
32 10 0.04
33 7 0.03
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (25 bp):
AAACCTAAACCCTAAACCAAACCCT
Found at i:16953205 original size:11 final size:12
Alignment explanation
Indices: 16952781--16953192 Score: 91
Period size: 13 Copynumber: 33.0 Consensus size: 12
16952771 CCTTAACTGT
*
16952781 AAACCCTAAAATC
1 AAACCCT-AAACC
16952794 AAACCCTAAACC
1 AAACCCTAAACC
*
16952806 AAA-CCT----T
1 AAACCCTAAACC
*
16952813 AAACCTTAGAACC
1 AAACCCTA-AACC
16952826 AAACCCTAAACCC
1 AAACCCTAAA-CC
* *
16952839 TAACCCTAAAAC
1 AAACCCTAAACC
*
16952851 AAAACCTAAACC
1 AAACCCTAAACC
*
16952863 AAACCTTAAACAC
1 AAACCCTAAAC-C
16952876 TAGAA-CC-AAACCC
1 -A-AACCCTAAA-CC
16952889 TAAACCCTAAACCC
1 -AAACCCTAAA-CC
* **
16952903 TAACCCTAAAATA
1 AAACCCT-AAACC
16952916 AAACCCTAAACC
1 AAACCCTAAACC
* *
16952928 TAACCTTAAACCC
1 AAACCCTAAA-CC
* *
16952941 TAAACCTTAAACT
1 -AAACCCTAAACC
*
16952954 AAAACCTAAATCC
1 AAACCCTAAA-CC
*
16952967 TAAA-TCTAAACCC
1 -AAACCCTAAA-CC
*
16952980 TAAACCC-CAACC
1 -AAACCCTAAACC
*
16952992 TAAACCCTAGAACT
1 -AAACCCTA-AACC
16953006 AAACCCTAAACCC
1 AAACCCTAAA-CC
* ***
16953019 TAACCCTCAATGT
1 AAACCCT-AAACC
*
16953032 TAA-CCTAGAACC
1 AAACCCTA-AACC
*
16953044 AAAATCCTAAACC
1 -AAACCCTAAACC
* * *
16953057 TTGAATCTTAAA-C
1 --AAACCCTAAACC
*
16953070 ---CCC-AAACTT
1 AAACCCTAAAC-C
*
16953079 AAACCCTAAAACT
1 AAACCCT-AAACC
16953092 AAACCCTAAACCC
1 AAACCCTAAA-CC
*
16953105 AAACCCTAAATCT
1 AAACCCTAAA-CC
*
16953118 AAACCTTAAATCC
1 AAACCCTAAA-CC
* ** *
16953131 TAATACTAGACC
1 AAACCCTAAACC
*
16953143 TAAACCCTACAACTT
1 -AAACCCTA-AAC-C
16953158 AAACCCTAAACC
1 AAACCCTAAACC
*
16953170 AAACTCTAAACC
1 AAACCCTAAACC
16953182 -AACCCTAAACC
1 AAACCCTAAACC
16953193 CTAAACCAAC
Statistics
Matches: 296, Mismatches: 65, Indels: 78
0.67 0.15 0.18
Matches are distributed among these distances:
7 6 0.02
8 3 0.01
11 14 0.05
12 83 0.28
13 132 0.45
14 56 0.19
15 2 0.01
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.17
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:16953213 original size:19 final size:18
Alignment explanation
Indices: 16953170--16953222 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
16953160 ACCCTAAACC
*
16953170 AAACTCTAAACCAACCCT
1 AAACCCTAAACCAACCCT
16953188 AAACCCTAAACCAACCCT
1 AAACCCTAAACCAACCCT
*
16953206 CGAACCCTAAAACCAAC
1 -AAACCCT-AAACCAAC
16953223 TTGATCACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 17 0.55
19 6 0.19
20 8 0.26
ACGTcount: A:0.45, C:0.42, G:0.02, T:0.11
Consensus pattern (18 bp):
AAACCCTAAACCAACCCT
Found at i:16954602 original size:23 final size:23
Alignment explanation
Indices: 16954579--16954635 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
16954569 CAAAGAAAAA
16954579 GAAAAAAAAATAAAGAAAATAAAG
1 GAAAAAAAAATAAAG-AAATAAAG
* *
16954603 GGAAAAACAA-AAAGAAATAAAG
1 GAAAAAAAAATAAAGAAATAAAG
*
16954625 GATAAAAAAAT
1 GAAAAAAAAAT
16954636 GAATAATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 15 0.56
23 4 0.15
24 8 0.30
ACGTcount: A:0.75, C:0.02, G:0.14, T:0.09
Consensus pattern (23 bp):
GAAAAAAAAATAAAGAAATAAAG
Found at i:16955322 original size:19 final size:19
Alignment explanation
Indices: 16955298--16955337 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16955288 ACATGTTTGG
16955298 TTTTTAAAAAAATTCATGT
1 TTTTTAAAAAAATTCATGT
* *
16955317 TTTTTAGAAAAATTTATGT
1 TTTTTAAAAAAATTCATGT
16955336 TT
1 TT
16955338 CATTATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAAAATTCATGT
Found at i:16957047 original size:25 final size:24
Alignment explanation
Indices: 16957005--16957057 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
16956995 TTTTTGTCAT
* *
16957005 ATTTTTTGGTGGTGATAT-TCGAGC
1 ATTTTTTGGTGATCATATCT-GAGC
16957029 ATTTTCTTGGTGATCATATCTGAGC
1 ATTTT-TTGGTGATCATATCTGAGC
16957054 ATTT
1 ATTT
16957058 AAGTTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (24 bp):
ATTTTTTGGTGATCATATCTGAGC
Found at i:16957759 original size:28 final size:27
Alignment explanation
Indices: 16957713--16957765 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
16957703 GTAAAAAAGC
*
16957713 AAAAACAAAAAAACCCAAGACAAAAAAA
1 AAAAACAAAAAAACACAAG-CAAAAAAA
16957741 AAAAACAAAATAAA-ACAAGCAAAAA
1 AAAAACAAAA-AAACACAAGCAAAAA
16957766 TATTTTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 14 0.61
29 3 0.13
ACGTcount: A:0.79, C:0.15, G:0.04, T:0.02
Consensus pattern (27 bp):
AAAAACAAAAAAACACAAGCAAAAAAA
Found at i:16960113 original size:13 final size:13
Alignment explanation
Indices: 16960092--16960331 Score: 145
Period size: 13 Copynumber: 17.9 Consensus size: 13
16960082 ATTTCTCATG
16960092 AAACCCTAAATCC-
1 AAACCCTAAA-CCT
*
16960105 AAGCCCTAAACCT
1 AAACCCTAAACCT
16960118 AAACCCTAAACCT
1 AAACCCTAAACCT
*
16960131 -TACCCTAAACCCT
1 AAACCCTAAA-CCT
16960144 AGAATCAAACCTTAAA-CT
1 A-AA-C---CC-TAAACCT
*
16960162 AAAACCTTAAACCCT
1 -AAACCCTAAA-CCT
*
16960177 AAACCC-AAACCC
1 AAACCCTAAACCT
16960189 AAACCCTAAACCT
1 AAACCCTAAACCT
16960202 AAA-CCTAAACCT
1 AAACCCTAAACCT
**
16960214 AAACTATAAATCCT
1 AAACCCTAAA-CCT
*
16960228 -AACTCTAAACCT
1 AAACCCTAAACCT
*
16960240 TAACCCTAAACACT
1 AAACCCTAAAC-CT
* *
16960254 AAACCTTAAACCC
1 AAACCCTAAACCT
*
16960267 AAGATCCTAAACCT
1 AA-ACCCTAAACCT
*
16960281 AAACGCTAAAACCT
1 AAACCCT-AAACCT
**
16960295 AAA-CCTTGACCT
1 AAACCCTAAACCT
*
16960307 AGGACCCTAAACC-
1 A-AACCCTAAACCT
*
16960320 AAACTCTAAACC
1 AAACCCTAAACC
16960332 AACCCCCAAA
Statistics
Matches: 178, Mismatches: 28, Indels: 43
0.71 0.11 0.17
Matches are distributed among these distances:
12 47 0.26
13 70 0.39
14 45 0.25
15 3 0.02
16 1 0.01
17 1 0.01
18 4 0.02
19 3 0.02
20 4 0.02
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:16960120 original size:6 final size:6
Alignment explanation
Indices: 16960109--16960331 Score: 130
Period size: 6 Copynumber: 34.3 Consensus size: 6
16960099 AAATCCAAGC
* * *
16960109 CCTAAA CCTAAA CCCTAAA CCTTAC CCTAAA CCCTAGAA TC-AAA CCTTAAA
1 CCTAAA CCTAAA -CCTAAA CCTAAA CCTAAA -CCTA-AA CCTAAA CC-TAAA
* *
16960160 -CTAAAA CCTTAAA CCCTAAA CCCAAA CCCAAA CCCTAAA CCTAAA CCTAAA
1 CCT-AAA CC-TAAA -CCTAAA CCTAAA CCTAAA -CCTAAA CCTAAA CCTAAA
* *
16960211 CCTAAA CTATAAA TCCT-AA CTCTAAA CCTTAAC CCTAAA CACTAAA CCTTAAA
1 CCTAAA C-CTAAA -CCTAAA C-CTAAA CC-TAAA CCTAAA C-CTAAA CC-TAAA
* ** *
16960264 CCCAAGA TCCTAAA CCTAAA CGCTAAAA CCTAAA CCTTGA CCTAGGAC
1 CCTAA-A -CCTAAA CCTAAA C-CT-AAA CCTAAA CCTAAA CCTA--AA
16960312 CCTAAA CC-AAA CTCTAAA CC
1 CCTAAA CCTAAA C-CTAAA CC
16960332 AACCCCCAAA
Statistics
Matches: 172, Mismatches: 20, Indels: 50
0.71 0.08 0.21
Matches are distributed among these distances:
5 9 0.05
6 83 0.48
7 62 0.36
8 18 0.10
ACGTcount: A:0.44, C:0.35, G:0.03, T:0.18
Consensus pattern (6 bp):
CCTAAA
Found at i:16960127 original size:7 final size:7
Alignment explanation
Indices: 16960092--16960299 Score: 126
Period size: 7 Copynumber: 31.7 Consensus size: 7
16960082 ATTTCTCATG
16960092 AAACCCT
1 AAACCCT
*
16960099 AAATCC-
1 AAACCCT
*
16960105 AAGCCCT
1 AAACCCT
16960112 AAA-CCT
1 AAACCCT
16960118 AAACCCT
1 AAACCCT
16960125 AAA-CCT
1 AAACCCT
*
16960131 -TACCCT
1 AAACCCT
16960137 AAACCCT
1 AAACCCT
*
16960144 AGAA-TC-
1 A-AACCCT
*
16960150 AAACCTT
1 AAACCCT
16960157 AAA--CT
1 AAACCCT
*
16960162 AAAACCTT
1 -AAACCCT
16960170 AAACCCT
1 AAACCCT
16960177 AAACCC-
1 AAACCCT
16960183 AAACCC-
1 AAACCCT
16960189 AAACCCT
1 AAACCCT
16960196 AAA-CCT
1 AAACCCT
16960202 AAA-CCT
1 AAACCCT
16960208 AAA-CCT
1 AAACCCT
**
16960214 AAACTAT
1 AAACCCT
*
16960221 AAATCCT
1 AAACCCT
*
16960228 -AACTCT
1 AAACCCT
16960234 AAA-CCT
1 AAACCCT
*
16960240 TAACCCT
1 AAACCCT
*
16960247 AAACACT
1 AAACCCT
*
16960254 AAACCTT
1 AAACCCT
16960261 AAACCC-
1 AAACCCT
*
16960267 AAGATCCT
1 AA-ACCCT
16960275 AAA-CCT
1 AAACCCT
*
16960281 AAACGCT
1 AAACCCT
*
16960288 AAAACCT
1 AAACCCT
16960295 AAACC
1 AAACC
16960300 TTGACCTAGG
Statistics
Matches: 153, Mismatches: 31, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.03
6 66 0.43
7 78 0.51
8 5 0.03
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:16962763 original size:2 final size:2
Alignment explanation
Indices: 16962752--16962790 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
16962742 CAAACCAATC
*
16962752 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TT 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
16962791 AACACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16966786 original size:20 final size:20
Alignment explanation
Indices: 16966763--16966815 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
16966753 AATTAAGAGA
16966763 AAAATTCAAAAAAAATT-TAC
1 AAAATT-AAAAAAAATTCTAC
* * *
16966783 AAAAATAAAACAAATTCTAG
1 AAAATTAAAAAAAATTCTAC
16966803 AAAATTAAAAAAA
1 AAAATTAAAAAAA
16966816 CCAAAAAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAATTAAAAAAAATTCTAC
Found at i:16966844 original size:22 final size:22
Alignment explanation
Indices: 16966819--16966866 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
16966809 AAAAAAACCA
* *
16966819 AAAAGTAAAAAATTAAAATATG
1 AAAAGTAAAAAATGAAAAAATG
* *
16966841 AAAATTTAAAAATGAAAAAATG
1 AAAAGTAAAAAATGAAAAAATG
16966863 AAAA
1 AAAA
16966867 AATTTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (22 bp):
AAAAGTAAAAAATGAAAAAATG
Found at i:16966907 original size:16 final size:15
Alignment explanation
Indices: 16966826--16966908 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 15
16966816 CCAAAAAGTA
16966826 AAAAATTAAAATATG
1 AAAAATTAAAATATG
*
16966841 AAAATTTAAAA-ATG
1 AAAAATTAAAATATG
* * *
16966855 AAAAAATGAAAAAATTTTC
1 -AAAAAT--TAAAA-TATG
* *
16966874 AAAAA-TAAATTCTG
1 AAAAATTAAAATATG
16966888 AAAAATTAAATATATG
1 AAAAATTAAA-ATATG
16966904 AAAAA
1 AAAAA
16966909 AATATAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 13
0.68 0.15 0.18
Matches are distributed among these distances:
14 10 0.20
15 22 0.44
16 8 0.16
17 4 0.08
18 5 0.10
19 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (15 bp):
AAAAATTAAAATATG
Found at i:16967107 original size:19 final size:19
Alignment explanation
Indices: 16967085--16967137 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
16967075 GTTTTTCACT
* *
16967085 TTTTTGAATTTTTTAAAAG
1 TTTTTAAATTTTTTAAAAA
** *
16967104 TTTTTTTATTTTTGAAAAA
1 TTTTTAAATTTTTTAAAAA
*
16967123 TTTTTAAATATTTTA
1 TTTTTAAATTTTTTA
16967138 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTTTAAATTTTTTAAAAA
Found at i:16967115 original size:28 final size:28
Alignment explanation
Indices: 16967048--16967130 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 28
16967038 CTACTTTTCA
* ***
16967048 TTTTTTTAATTTTAGAATTTTTTTTTAG
1 TTTTTTTATTTTTAGAATTTTTTAAAAG
* *
16967076 -TTTTTCACTTTTTTGAATTTTTTAAAAG
1 TTTTTTTA-TTTTTAGAATTTTTTAAAAG
* *
16967104 TTTTTTTATTTTTGAAAAATTTTTAAA
1 TTTTTTTATTTTT-AGAATTTTTTAAA
16967131 TATTTTATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
27 6 0.14
28 20 0.48
29 16 0.38
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (28 bp):
TTTTTTTATTTTTAGAATTTTTTAAAAG
Found at i:16968215 original size:3 final size:3
Alignment explanation
Indices: 16968207--16968262 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
16968197 TTTATGCCAT
*
16968207 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16968255 TTA TTA TT
1 TTA TTA TT
16968263 TATTTTTACA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16968792 original size:29 final size:29
Alignment explanation
Indices: 16968760--16968837 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
16968750 TTTTAGAAGC
* *
16968760 TGGGTTTTTGTTTAAATTTTTGGGTTTTT
1 TGGGTTTTTGTTTAAATTTTTAGCTTTTT
* *
16968789 TGGGTTCTAT-TTGAAATTTTTAGCTTTTT
1 TGGGTT-TTTGTTTAAATTTTTAGCTTTTT
*
16968818 T-GGTTTTTGTTTGAATTTTT
1 TGGGTTTTTGTTTAAATTTTT
16968838 CAATAAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
27 2 0.05
28 13 0.32
29 23 0.57
30 2 0.05
ACGTcount: A:0.13, C:0.03, G:0.21, T:0.64
Consensus pattern (29 bp):
TGGGTTTTTGTTTAAATTTTTAGCTTTTT
Found at i:16969213 original size:17 final size:16
Alignment explanation
Indices: 16969193--16969249 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
16969183 TCCTTTTTCA
*
16969193 TTTTTTTTCCTTTTTG
1 TTTTTTTTTCTTTTTG
16969209 TTTTTATTTT-TATTTTG
1 TTTTT-TTTTCT-TTTTG
* * *
16969226 TTCTTTTCTCTTTTTA
1 TTTTTTTTTCTTTTTG
16969242 TTTTTTTT
1 TTTTTTTT
16969250 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 19 0.59
17 13 0.41
ACGTcount: A:0.05, C:0.09, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTCTTTTTG
Found at i:16969251 original size:30 final size:30
Alignment explanation
Indices: 16969215--16969284 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
16969205 TTTGTTTTTA
* *
16969215 TTTTTATTTTGTTCTTT-TCTCTTTTTATTT
1 TTTTTATTTTGTTATTTATCT-ATTTTATTT
16969245 TTTTTATTTT-TTATTTATCTATTTTATTT
1 TTTTTATTTTGTTATTTATCTATTTTATTT
* *
16969274 TATTAATTTTG
1 TTTTTATTTTG
16969285 ATTGAATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (30 bp):
TTTTTATTTTGTTATTTATCTATTTTATTT
Found at i:16969256 original size:49 final size:50
Alignment explanation
Indices: 16969180--16969274 Score: 124
Period size: 49 Copynumber: 1.9 Consensus size: 50
16969170 CGATCGTAAG
* *
16969180 TTTTCCTTTTTCATTTTTTTTCCTTTTTGTTT-T-TATTTTTATTTTGTTC
1 TTTTCCTTTTTCATTTTTTTTACTTTTTATTTATCTA-TTTTATTTTGTTC
*
16969229 TTTTCTCTTTTT-ATTTTTTTTATTTTTTATTTATCTATTTTATTTT
1 TTTTC-CTTTTTCATTTTTTTTACTTTTTATTTATCTATTTTATTTT
16969275 ATTAATTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
49 22 0.55
50 16 0.40
51 2 0.05
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (50 bp):
TTTTCCTTTTTCATTTTTTTTACTTTTTATTTATCTATTTTATTTTGTTC
Found at i:16969376 original size:16 final size:17
Alignment explanation
Indices: 16969351--16969384 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16969341 TTATGCTTTA
16969351 TTTTTACATGA-ATTTT
1 TTTTTACATGATATTTT
*
16969367 TTTTTGCATGATATTTT
1 TTTTTACATGATATTTT
16969384 T
1 T
16969385 ATACGACGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (17 bp):
TTTTTACATGATATTTT
Done.