Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 56 of 185
Found at i:17523856 original size:27 final size:27
Alignment explanation
Indices: 17523818--17524357 Score: 229
Period size: 27 Copynumber: 20.1 Consensus size: 27
17523808 TCGATATTTG
* *
17523818 GACCGAAATACCCCCGAAGGTTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
*
17523845 GACCGAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
* * * *
17523872 GATCGAAATACCATTGATGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
17523899 GACCGAAATACCCTC-AATGGGTAAAAT
1 GACCGAAATACCCTCGAA-GGGTAAAAT
* * * *
17523926 AACTGAAATGCCC-CCATAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAAT
* * *
17523953 GATCGAAATACCCTCGTAGGGTAGAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
*
17523980 -ACCGAAATACCC-CCATAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAAT
* ** *
17524006 AACC-ATAATA-CCTCCTAGGATAAAAT
1 GACCGA-AATACCCTCGAAGGGTAAAAT
** * * * *
17524032 GATTGTAATACCTTTGTAGGGTAAAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
* *
17524059 GATCGTAATACCACT-GTAA-GGTAAAAT
1 GACCGAAATACC-CTCG-AAGGGTAAAAT
* * * *
17524086 GACTGTAAT-GCCTCTATAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAAT
* *
17524113 GACCGTAATACCC-CTATAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAAT
** * * * * *
17524140 GAGTGTAATGCCCTTGTAGGGTATAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
* * *
17524167 GATCGTAATACCCTTGTACA-GGTAAAAT
1 GACCGAAATACCCTCG-A-AGGGTAAAAT
* *
17524195 GACCGTAATGCCCAT-GTAA-GGTAAAAT
1 GACCGAAATACCC-TCG-AAGGGTAAAAT
* * * *
17524222 GATC-ATA-ACGCTCCTATAGGGTAAAAT
1 GACCGAAATACCCT-CGA-AGGGTAAAAT
* * * *
17524249 GACAGTAATGCTCCT-GTAGGGTAAAAT
1 GACCGAAATAC-CCTCGAAGGGTAAAAT
* * *
17524276 GATCGTAATACCC-CTATAGGGTAAAAT
1 GACCGAAATACCCTCGA-AGGGTAAAAT
* * *
17524303 GA-CTATAATACCCTTGTAGGGTAAAAT
1 GACCGA-AATACCCTCGAAGGGTAAAAT
* * *
17524330 GACCGTAATGCCCTCG-TGGGT-AAAT
1 GACCGAAATACCCTCGAAGGGTAAAAT
17524355 GAC
1 GAC
17524358 TACTTTTGCC
Statistics
Matches: 395, Mismatches: 86, Indels: 66
0.72 0.16 0.12
Matches are distributed among these distances:
24 1 0.00
25 14 0.04
26 50 0.13
27 296 0.75
28 29 0.07
29 3 0.01
30 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GACCGAAATACCCTCGAAGGGTAAAAT
Found at i:17523953 original size:81 final size:80
Alignment explanation
Indices: 17523818--17524141 Score: 282
Period size: 81 Copynumber: 4.0 Consensus size: 80
17523808 TCGATATTTG
* * * * *
17523818 GACCGAAATACCCCCGAAGGTTAAAATGACCGAAATACCCTCGAT-GGGTAAAATGATCGAAATA
1 GACCGAAATACCCTC-AAGGGTAAAATAACTGAAATACCC-CCATAGGGTAAAATGATCGAAATA
*
17523882 CCATTG-ATGGGTAAAAT
64 CCCTTGTA-GGGTAAAAT
*
17523899 GACCGAAATACCCTCAATGGGTAAAATAACTGAAATGCCCCCATAGGGTAAAATGATCGAAATAC
1 GACCGAAATACCCTCAA-GGGTAAAATAACTGAAATACCCCCATAGGGTAAAATGATCGAAATAC
* *
17523964 CCTCGTAGGGTAGAAT
65 CCTTGTAGGGTAAAAT
* * * * * *
17523980 -ACCGAAATACCCCCATAGGGTAAAATAAC-CATAATACCTCC-TAGGATAAAATGATTGTAATA
1 GACCGAAATACCCTCA-AGGGTAAAATAACTGA-AATACCCCCATAGGGTAAAATGATCGAAATA
*
17524042 CCTTTGTAGGGTAAAAT
64 CCCTTGTAGGGTAAAAT
* * * * * * * * * *
17524059 GATCGTAATACCACTGTAA-GGTAAAATGACTGTAATGCCTCTATAGGGTAAAATGACCGTAATA
1 GACCGAAATACC-CT-CAAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAATGATCGAAATA
* *
17524123 CCCCTATAGGGTAAAAT
64 CCCTTGTAGGGTAAAAT
17524140 GA
1 GA
17524142 GTGTAATGCC
Statistics
Matches: 199, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
79 33 0.17
80 64 0.32
81 100 0.50
82 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (80 bp):
GACCGAAATACCCTCAAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAATGATCGAAATACC
CTTGTAGGGTAAAAT
Found at i:17524084 original size:160 final size:160
Alignment explanation
Indices: 17523819--17524125 Score: 365
Period size: 160 Copynumber: 1.9 Consensus size: 160
17523809 CGATATTTGG
* * *
17523819 ACCGAAATACCCCCGAAGGTTAAAATGACCGAAATACCCTCGATGGGTAAAATGATCGAAATACC
1 ACCGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCTCGATGGATAAAATGATCGAAATACC
17523884 ATTGATGGGTAAAATGACCGAAATACCCTCAATGGGTAAAATAACTGAAATGCCCCCATAGGGTA
66 ATTGATGGGTAAAATGACCGAAATACCCTCAA-GGGTAAAATAACTGAAATGCCCCCATAGGGTA
*
17523949 AAATGATCGAAATACCCTCGTAGGGTAGAAT
130 AAATGACCGAAATACCCTCGTAGGGTAGAAT
* * *
17523980 ACCGAAATACCCCC-ATAGGGTAAAATAACC-ATAATA-CCTC-CTAGGATAAAATGATTGTAAT
1 ACCGAAATACCCCCGA-AGGGTAAAATAACCGA-AATACCCTCGAT-GGATAAAATGATCGAAAT
* * * * * * * *
17524041 ACCTTTG-TAGGGTAAAATGATCGTAATACCACTGTAA-GGTAAAATGACTGTAATGCCTCTATA
63 ACCATTGAT-GGGTAAAATGACCGAAATACC-CT-CAAGGGTAAAATAACTGAAATGCCCCCATA
*
17524104 GGGTAAAATGACCGTAATACCC
125 GGGTAAAATGACCGAAATACCC
17524126 CTATAGGGTA
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
159 2 0.02
160 88 0.71
161 32 0.26
162 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (160 bp):
ACCGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCTCGATGGATAAAATGATCGAAATACC
ATTGATGGGTAAAATGACCGAAATACCCTCAAGGGTAAAATAACTGAAATGCCCCCATAGGGTAA
AATGACCGAAATACCCTCGTAGGGTAGAAT
Found at i:17524106 original size:54 final size:52
Alignment explanation
Indices: 17523890--17524343 Score: 365
Period size: 54 Copynumber: 8.4 Consensus size: 52
17523880 TACCATTGAT
* * * * **
17523890 GGGTAAAATGACCGAAATACCCTCA-ATGGGTAAAATAACTGAAATGCCCCCATA
1 GGGTAAAATGATCGTAATACCCT-ATA-GGGTAAAATGACTGTAATG-CCCTGTA
* * * * * * **
17523944 GGGTAAAATGATCGAAATACCCTCGTAGGGTAGAAT-ACCGAAATACCCCCATA
1 GGGTAAAATGATCGTAATACCCT-ATAGGGTAAAATGACTGTAAT-GCCCTGTA
* * * * * * * *
17523997 GGGTAAAATAACCATAATA-CCTCCTAGGATAAAATGATTGTAATACCTTTGTA
1 GGGTAAAATGATCGTAATACCCT-ATAGGGTAAAATGACTGTAATGCC-CTGTA
* * *
17524050 GGGTAAAATGATCGTAATACCACTGTAAGGTAAAATGACTGTAATGCCTCTATA
1 GGGTAAAATGATCGTAATACC-CTATAGGGTAAAATGACTGTAATGCC-CTGTA
* *
17524104 GGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGAGTGTAATGCCCTTGTA
1 GGGTAAAATGATCGTAATA-CCCTATAGGGTAAAATGACTGTAATGCCC-TGTA
* * * *
17524158 GGGTATAATGATCGTAATACCCTTGTACAGGTAAAATGACCGTAATGCCCATGTA
1 GGGTAAAATGATCGTAATACCC-TATA-GGGTAAAATGACTGTAATGCCC-TGTA
* * ** *
17524213 AGGTAAAATGATCATAACGCTCCTATAGGGTAAAATGACAGTAATGCTCCTGTA
1 GGGTAAAATGATCGTAATAC-CCTATAGGGTAAAATGACTGTAATGC-CCTGTA
* *
17524267 GGGTAAAATGATCGTAATACCCCTATAGGGTAAAATGACTATAATACCCTTGTA
1 GGGTAAAATGATCGTAATA-CCCTATAGGGTAAAATGACTGTAATGCCC-TGTA
* *
17524321 GGGTAAAATGACCGTAATGCCCT
1 GGGTAAAATGATCGTAATACCCT
17524344 CGTGGGTAAA
Statistics
Matches: 328, Mismatches: 58, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
52 15 0.05
53 62 0.19
54 200 0.61
55 49 0.15
56 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (52 bp):
GGGTAAAATGATCGTAATACCCTATAGGGTAAAATGACTGTAATGCCCTGTA
Found at i:17524641 original size:26 final size:26
Alignment explanation
Indices: 17524586--17524641 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
17524576 ATACTATTAC
* *
17524586 TGGCAGCTTTGCTACGATACTATTGT
1 TGGCAGCTTTGCTACGATACTACTGA
** *
17524612 TGGCAGCTTTGCTGTGATGCTACTGA
1 TGGCAGCTTTGCTACGATACTACTGA
17524638 TGGC
1 TGGC
17524642 TTTGTGTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.36
Consensus pattern (26 bp):
TGGCAGCTTTGCTACGATACTACTGA
Found at i:17524764 original size:32 final size:32
Alignment explanation
Indices: 17524629--17524865 Score: 136
Period size: 32 Copynumber: 7.4 Consensus size: 32
17524619 TTTGCTGTGA
* * *
17524629 TGCTACTGATGGCTTTGTGTCGATCATAGT-AC
1 TGCTACTGATGGCTGTGTGCCAATCATA-TCAC
** * * * *
17524661 TATTACTGATGACTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * ** * * * *
17524693 CGTTACCAATGGCTATGTACCGATCATTTCAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
** * *
17524725 TATTACTGATGGATGTGTGCCAATCATATCAT
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * * * *
17524757 TGCTACTGATGGTTTTGTGCCGATCATGTTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * * * *
17524789 CGTTACTGATGGCCGTGTGTCGATCATATCAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * *
17524821 TGCTACTGATGGCTTTGTGCCAATCAAATTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
*
17524853 TG-TACTTATGGCT
1 TGCTACTGATGGCT
17524866 TGCAGTCATT
Statistics
Matches: 156, Mismatches: 48, Indels: 3
0.75 0.23 0.01
Matches are distributed among these distances:
31 11 0.07
32 145 0.93
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TGCTACTGATGGCTGTGTGCCAATCATATCAC
Found at i:17524780 original size:64 final size:64
Alignment explanation
Indices: 17524629--17524853 Score: 229
Period size: 64 Copynumber: 3.5 Consensus size: 64
17524619 TTTGCTGTGA
* * * *
17524629 TGCTACTGATGGCTTTGTGTCGATCATAGTACTATTACTGAT-GACTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGA-TGTGTGCCGATCATATCAC
* * ** * * * *
17524693 CGTTACCAATGGCTATGTACCGATCAT-TTCACTATTACTGATGGATGTGTGCCAATCATATCAT
1 TGCTACTGATGGCTTTGTGCCGATCATATT-ACTATTACTGATGGATGTGTGCCGATCATATCAC
* * ** ** *
17524757 TGCTACTGATGGTTTTGTGCCGATCATGTTACCGTTACTGATGGCCGTGTGTCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGATGTGTGCCGATCATATCAC
* *
17524821 TGCTACTGATGGCTTTGTGCCAATCAAATTACT
1 TGCTACTGATGGCTTTGTGCCGATCATATTACT
17524854 GTACTTATGG
Statistics
Matches: 127, Mismatches: 31, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
63 1 0.01
64 122 0.96
65 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGATGTGTGCCGATCATATCAC
Found at i:17524801 original size:96 final size:96
Alignment explanation
Indices: 17524664--17524846 Score: 240
Period size: 96 Copynumber: 1.9 Consensus size: 96
17524654 ATAGTACTAT
* * *
17524664 TACTGATGACTTTGTGCCGATCATATTACCGTTACCAATGGCTATGTACCGATCATTTCACTATT
1 TACTGATGACTTTGTGCCGATCATATTACCGTTACCAATGGCCATGTACCGATCATATCACTACT
17524729 ACTGATGGATGTGTGCCAATCATATCATTGC
66 ACTGATGGATGTGTGCCAATCATATCATTGC
** * ** * ** *
17524760 TACTGATGGTTTTGTGCCGATCATGTTACCGTTACTGATGGCCGTGTGTCGATCATATCACTGCT
1 TACTGATGACTTTGTGCCGATCATATTACCGTTACCAATGGCCATGTACCGATCATATCACTACT
* *
17524825 ACTGATGGCTTTGTGCCAATCA
66 ACTGATGGATGTGTGCCAATCA
17524847 AATTACTGTA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (96 bp):
TACTGATGACTTTGTGCCGATCATATTACCGTTACCAATGGCCATGTACCGATCATATCACTACT
ACTGATGGATGTGTGCCAATCATATCATTGC
Found at i:17526872 original size:43 final size:43
Alignment explanation
Indices: 17526825--17527010 Score: 221
Period size: 43 Copynumber: 4.3 Consensus size: 43
17526815 AGGTCAAGAC
* *
17526825 CTTTAGCAGCGCTTATTCCACAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGCTCATGTT
* * * *
17526868 CTTTAGCGGCGTTTATCCCACAAATGCAGCTAAGGCTCATGTT
1 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGCTCATGTT
* * * * *
17526911 CTTTAGCGGCGCTTATCCCACAATCGCCGCTATAGATCCTG-A
1 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGCTCATGTT
* * * *
17526953 CTTTTAGCGGCACTTTTCCCACAAGCGCCGCTAAAGGTCATGTT
1 C-TTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGCTCATGTT
17526997 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
17527011 TTTCGAAAAA
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 116 0.98
44 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGCTCATGTT
Found at i:17527012 original size:43 final size:43
Alignment explanation
Indices: 17526805--17527012 Score: 208
Period size: 43 Copynumber: 4.8 Consensus size: 43
17526795 ATAGAAATAG
* * ** *
17526805 ACGCCGTTAAAGGTCAAGACCTTTAGCAGCGCTTATT-CCACAA
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT-TTCCCACAA
*
17526848 ACGCCGCTAAAGCTCATGTTCTTTAGCGGCG-TTTATCCCACAA
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TCCCACAA
* * *
17526891 ATGCAGCT-AAGGCTCATGTTCTTTAGCGGCGCTTATCCCACAA
1 ACGCCGCTAAAGG-TCATGTTCTTTAGCGGCGCTTTTCCCACAA
* * * * * *
17526934 TCGCCGCTATAGATCCTG-ACTTTTAGCGGCACTTTTCCCACAA
1 ACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTCCCACAA
*
17526977 GCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTT
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTT
17527013 TCGAAAAATG
Statistics
Matches: 133, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 7 0.05
43 120 0.90
44 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (43 bp):
ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAA
Found at i:17530661 original size:16 final size:16
Alignment explanation
Indices: 17530642--17530986 Score: 128
Period size: 16 Copynumber: 21.1 Consensus size: 16
17530632 TATTAAGTAA
17530642 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
17530658 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
* *
17530674 AAGTTACGT-A-TTAAGT
1 -A-TTATGTAAGTTATGT
* * *
17530690 AAGCTATGTAAGTTGTAT
1 -A-TTATGTAAGTTATGT
* *
17530708 TTTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
17530724 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
17530740 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
*
17530756 AAGCTATGTCATAGACTT-T-T
1 -A-TTATGT-A-AG--TTATGT
* *
17530776 -TTATGTAAGTTGTAT
1 ATTATGTAAGTTATGT
* *
17530791 TTTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
* *
17530807 ATTATGTAAGCTACGT
1 ATTATGTAAGTTATGT
*
17530823 AAGTTATGT-A-TCATGT
1 -A-TTATGTAAGTTATGT
*
17530839 AAGCTATGTAAG-T-TGT
1 -A-TTATGTAAGTTATGT
* * *
17530855 ATTTTAATAAGTTATTT
1 ATTAT-GTAAGTTATGT
*
17530872 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
*
17530888 ATTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
17530904 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
*
17530920 ATGTTATGTAAGTTGTGT
1 A--TTATGTAAGTTATGT
** *
17530938 AGAATGTAAGCTATGT
1 ATTATGTAAGTTATGT
17530954 AAGTTATGTAAGTTA--T
1 -A-TTATGTAAGTTATGT
17530970 A-TATGTAAGTTATGT
1 ATTATGTAAGTTATGT
17530985 AT
1 AT
17530987 ANNNNNNNNN
Statistics
Matches: 249, Mismatches: 48, Indels: 64
0.69 0.13 0.18
Matches are distributed among these distances:
13 13 0.05
14 3 0.01
15 12 0.05
16 153 0.61
17 23 0.09
18 40 0.16
19 1 0.00
20 1 0.00
21 1 0.00
22 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:17530671 original size:25 final size:25
Alignment explanation
Indices: 17530630--17530721 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 25
17530620 TATATATTTC
*
17530630 TGTATTAAGTAAATTATGTAAGTTA
1 TGTATTAAGTAAGTTATGTAAGTTA
17530655 TGTATTATA-TAAGTTATGTAAGTTA
1 TGTATTA-AGTAAGTTATGTAAGTTA
* * *
17530680 CGTATTAAGTAAGCTATGTAAGTTG
1 TGTATTAAGTAAGTTATGTAAGTTA
* * *
17530705 TATTTTATGTAAGTTAT
1 TGTATTAAGTAAGTTAT
17530722 TTATTATGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (25 bp):
TGTATTAAGTAAGTTATGTAAGTTA
Found at i:17530731 original size:25 final size:25
Alignment explanation
Indices: 17530703--17530756 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
17530693 CTATGTAAGT
* *
17530703 TGTATTTTATGTAAGTTATTTATTA
1 TGTATGTTATGTAAGTTATGTATTA
* *
17530728 TGTAAGCTATGTAAGTTATGTATTA
1 TGTATGTTATGTAAGTTATGTATTA
17530753 TGTA
1 TGTA
17530757 AGCTATGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (25 bp):
TGTATGTTATGTAAGTTATGTATTA
Found at i:17530757 original size:25 final size:25
Alignment explanation
Indices: 17530710--17530764 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
17530700 AGTTGTATTT
*
17530710 TATGTAAGTTATTTATTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGC
17530735 TATGTAAGTTATGTATTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGC
17530760 TATGT
1 TATGT
17530765 CATAGACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGTAAGC
Found at i:17530801 original size:83 final size:82
Alignment explanation
Indices: 17530694--17530931 Score: 313
Period size: 83 Copynumber: 2.9 Consensus size: 82
17530684 TTAAGTAAGC
17530694 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATGTAAG
17530759 CTATGTCATAGACT-T-TTT
66 CTATGT-A-AG-CTGTATTT
* *
17530777 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTACGTAAGTTATGTATCATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATGTAAG
*
17530842 CTATGTAAGTTGTATTT
66 CTATGTAAGCTGTATTT
* * * * * * *
17530859 TA-ATAAGTTAT-TTATTATGTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTATTATGTAT
1 TATGTAAGTTGTATT-TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATGTAA
*
17530922 GTTATGTAAG
65 GCTATGTAAG
17530932 TTGTGTAGAA
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
80 3 0.02
81 61 0.44
82 6 0.04
83 69 0.50
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.49
Consensus pattern (82 bp):
TATGTAAGTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATGTAAG
CTATGTAAGCTGTATTT
Found at i:17530814 original size:25 final size:25
Alignment explanation
Indices: 17530786--17530852 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
17530776 TTATGTAAGT
* *
17530786 TGTATTTTATGTAAGTTATTTATTA
1 TGTATGTTATGTAAGTTATGTATTA
* * * *
17530811 TGTAAGCTACGTAAGTTATGTATCA
1 TGTATGTTATGTAAGTTATGTATTA
* *
17530836 TGTAAGCTATGTAAGTT
1 TGTATGTTATGTAAGTT
17530853 GTATTTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (25 bp):
TGTATGTTATGTAAGTTATGTATTA
Found at i:17530839 original size:41 final size:41
Alignment explanation
Indices: 17530642--17530985 Score: 188
Period size: 41 Copynumber: 8.4 Consensus size: 41
17530632 TATTAAGTAA
* * **
17530642 ATTATGTAAGTTATGT-A-TTATATAAGTTATGTAAGTTACGT
1 ATTATGTAAGCTATGTAAGTTATGT-A-TTATGTAAGTTATTT
* * * *
17530683 ATTAAGTAAGCTATGTAAGTTGTATTTTATGTAAGTTATTT
1 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTATTT
* *
17530724 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGCTATGTC
1 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTAT-TT
**** * * *
17530766 A-TA-GACTTTTTTATGTAAGTTGTATTTTATGTAAGTTATTT
1 ATTATG--TAAGCTATGTAAGTTATGTATTATGTAAGTTATTT
* * * *
17530807 ATTATGTAAGCTACGTAAGTTATGTATCATGTAAGCTATGTA
1 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTAT-TT
* *** * * * *
17530849 AGT-TGTATTTTA-ATAAGTTATTTATTATGTAAGCTATGT
1 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTATTT
* * * *
17530888 ATTATGTTAGTTATGTAAGTTATGTATTATGTATGTTATGTA
1 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTAT-TT
* * *
17530930 AGTTGTGT-AG-AATGTAAGCTATGTAAGTTATGTAAGTTA--T
1 A-TTATGTAAGCTATGTAAGTTATGT-A-TTATGTAAGTTATTT
*
17530970 A-TATGTAAGTTATGTA
1 ATTATGTAAGCTATGTA
17530986 TANNNNNNNN
Statistics
Matches: 229, Mismatches: 58, Indels: 33
0.72 0.18 0.10
Matches are distributed among these distances:
38 4 0.02
39 4 0.02
40 35 0.15
41 127 0.55
42 37 0.16
43 22 0.10
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (41 bp):
ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTATTT
Found at i:17530914 original size:25 final size:24
Alignment explanation
Indices: 17530873--17530987 Score: 112
Period size: 25 Copynumber: 4.8 Consensus size: 24
17530863 AAGTTATTTA
*
17530873 TTATGTAAGCTATGTATTATGTTAG
1 TTATGTAAGTTATGTA-TATGTTAG
17530898 TTATGTAAGTTATGTATTATG-TATG
1 TTATGTAAGTTATGTA-TATGTTA-G
* * *
17530923 TTATGTAAGTTGTGTAGAATGTAAG
1 TTATGTAAGTTATGTA-TATGTTAG
*
17530948 CTATGTAAGTTATGTA-A-GTTA-
1 TTATGTAAGTTATGTATATGTTAG
17530969 TATATGTAAGTTATGTATA
1 T-TATGTAAGTTATGTATA
17530988 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
22 18 0.23
23 2 0.03
24 2 0.03
25 54 0.70
26 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (24 bp):
TTATGTAAGTTATGTATATGTTAG
Found at i:17530976 original size:13 final size:13
Alignment explanation
Indices: 17530958--17530982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17530948 CTATGTAAGT
17530958 TATGTAAGTTATA
1 TATGTAAGTTATA
17530971 TATGTAAGTTAT
1 TATGTAAGTTAT
17530983 GTATANNNNN
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATGTAAGTTATA
Found at i:17530985 original size:9 final size:9
Alignment explanation
Indices: 17530638--17530969 Score: 161
Period size: 9 Copynumber: 40.0 Consensus size: 9
17530628 TCTGTATTAA
*
17530638 GTAAATTAT
1 GTAAGTTAT
17530647 GTAAGTTAT
1 GTAAGTTAT
17530656 GT-A-TTAT
1 GTAAGTTAT
*
17530663 ATAAGTTAT
1 GTAAGTTAT
*
17530672 GTAAGTTAC
1 GTAAGTTAT
*
17530681 GT-A-TTAA
1 GTAAGTTAT
*
17530688 GTAAGCTAT
1 GTAAGTTAT
17530697 GTAAG-T-T
1 GTAAGTTAT
**
17530704 GTATTTTAT
1 GTAAGTTAT
17530713 GTAAGTTAT
1 GTAAGTTAT
*
17530722 -TTA-TTAT
1 GTAAGTTAT
*
17530729 GTAAGCTAT
1 GTAAGTTAT
17530738 GTAAGTTAT
1 GTAAGTTAT
17530747 GT-A-TTAT
1 GTAAGTTAT
*
17530754 GTAAGCTAT
1 GTAAGTTAT
17530763 GTCATAGACTT-T
1 GT-A-AG--TTAT
17530775 -T---TTAT
1 GTAAGTTAT
17530780 GTAAG-T-T
1 GTAAGTTAT
**
17530787 GTATTTTAT
1 GTAAGTTAT
17530796 GTAAGTTAT
1 GTAAGTTAT
*
17530805 -TTA-TTAT
1 GTAAGTTAT
* *
17530812 GTAAGCTAC
1 GTAAGTTAT
17530821 GTAAGTTAT
1 GTAAGTTAT
*
17530830 GT-A-TCAT
1 GTAAGTTAT
*
17530837 GTAAGCTAT
1 GTAAGTTAT
17530846 GTAAG-T-T
1 GTAAGTTAT
**
17530853 GTATTTTA-
1 GTAAGTTAT
*
17530861 ATAAGTTAT
1 GTAAGTTAT
*
17530870 -TTA-TTAT
1 GTAAGTTAT
*
17530877 GTAAGCTAT
1 GTAAGTTAT
17530886 GT-A-TTAT
1 GTAAGTTAT
*
17530893 GTTAGTTAT
1 GTAAGTTAT
17530902 GTAAGTTAT
1 GTAAGTTAT
17530911 GT-A-TTAT
1 GTAAGTTAT
*
17530918 GTATGTTAT
1 GTAAGTTAT
*
17530927 GTAAGTTGT
1 GTAAGTTAT
*
17530936 GT-AG-AAT
1 GTAAGTTAT
*
17530943 GTAAGCTAT
1 GTAAGTTAT
17530952 GTAAGTTAT
1 GTAAGTTAT
17530961 GTAAGTTAT
1 GTAAGTTAT
17530970 ATATGTAAGT
Statistics
Matches: 240, Mismatches: 47, Indels: 72
0.67 0.13 0.20
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 1 0.00
7 59 0.25
8 38 0.16
9 133 0.55
10 1 0.00
11 3 0.01
12 1 0.00
13 1 0.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17531107 original size:13 final size:12
Alignment explanation
Indices: 17531088--17531135 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
17531078 NNNNNNNNNN
*
17531088 CAAAAAAAATTT
1 CAAAAAAAAATT
*
17531100 GAAAAAAAAATT
1 CAAAAAAAAATT
17531112 CAAAAAAAAATT
1 CAAAAAAAAATT
17531124 CAAAAAAAAATT
1 CAAAAAAAAATT
17531136 GGTTTGCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (12 bp):
CAAAAAAAAATT
Found at i:17531194 original size:14 final size:15
Alignment explanation
Indices: 17531172--17531211 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
17531162 GATATGAAGT
17531172 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
17531187 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
17531202 TGAAAAAAAA
1 TGAAAAAAAA
17531212 GAAGAAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:17539931 original size:10 final size:10
Alignment explanation
Indices: 17539916--17539980 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
17539906 AGTTTTTCCC
17539916 AGCTCAATTT
1 AGCTCAATTT
*
17539926 AGCTCACA-TG
1 AGCTCA-ATTT
*
17539936 AGCTTAATTT
1 AGCTCAATTT
*
17539946 AGCTC-GTTT
1 AGCTCAATTT
17539955 GAGCTCAATTT
1 -AGCTCAATTT
* *
17539966 AGCTTACTTT
1 AGCTCAATTT
17539976 AGCTC
1 AGCTC
17539981 GTTTGAGCTT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
9 4 0.10
10 34 0.81
11 4 0.10
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (10 bp):
AGCTCAATTT
Found at i:17539939 original size:20 final size:20
Alignment explanation
Indices: 17539916--17539969 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
17539906 AGTTTTTCCC
17539916 AGCTCAATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
17539936 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
17539956 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
17539970 TACTTTAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:17539950 original size:30 final size:30
Alignment explanation
Indices: 17539916--17539989 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
17539906 AGTTTTTCCC
17539916 AGCTCAATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTC-ATTTGAGCTCA-ATTGAGCTTAATTT
* * *
17539946 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCATTTGAGCTCAATTGAGCTTAATTT
*
17539976 AGCTCGTTTGAGCT
1 AGCTCATTTGAGCT
17539990 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (30 bp):
AGCTCATTTGAGCTCAATTGAGCTTAATTT
Found at i:17539979 original size:20 final size:20
Alignment explanation
Indices: 17539916--17539980 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
17539906 AGTTTTTCCC
* * *
17539916 AGCTCAATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
17539936 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
17539955 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
17539976 AGCTC
1 AGCTC
17539981 GTTTGAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 29 0.81
21 4 0.11
22 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:17541640 original size:21 final size:21
Alignment explanation
Indices: 17541595--17541657 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
17541585 TTTGAACCAT
*
17541595 TACCAATTCGTACCAAATACCA
1 TACCAATTCGTACC-AATTCCA
17541617 TACCAATTCGTACCAATTCCA
1 TACCAATTCGTACCAATTCCA
* * *
17541638 TACTATTTCGAACCAATTCC
1 TACCAATTCGTACCAATTCC
17541658 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 23 0.62
22 14 0.38
ACGTcount: A:0.35, C:0.32, G:0.05, T:0.29
Consensus pattern (21 bp):
TACCAATTCGTACCAATTCCA
Found at i:17546850 original size:46 final size:46
Alignment explanation
Indices: 17546797--17546889 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
17546787 CAAAGAAAAG
*
17546797 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAACG-ATGATAAGAACCTTGGTATATGATGA
17546843 ACCTCGACCCACTATCAACGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAACGATGATAAGAACCTTGGTATATGATGA
17546889 A
1 A
17546890 TGCCACACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAACGATGATAAGAACCTTGGTATATGATGA
Found at i:17547239 original size:19 final size:19
Alignment explanation
Indices: 17547215--17547252 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17547205 TGGCTTAGAA
17547215 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
17547234 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
17547253 TTGGCTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
AATGACTCTTGAGTTGTCC
Found at i:17549633 original size:19 final size:18
Alignment explanation
Indices: 17549597--17549636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17549587 TTTCCACTTG
*
17549597 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
17549615 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
17549634 TTT
1 TTT
17549637 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:17550711 original size:14 final size:13
Alignment explanation
Indices: 17550693--17550744 Score: 88
Period size: 14 Copynumber: 4.0 Consensus size: 13
17550683 AACTAGCTCT
17550693 TTTTTTTTCACAA
1 TTTTTTTTCACAA
17550706 TTTTTTTTTCACAA
1 -TTTTTTTTCACAA
17550720 TTTTTTTTCA-AA
1 TTTTTTTTCACAA
17550732 TTTTTTTTCACAA
1 TTTTTTTTCACAA
17550745 CTTGATATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
12 12 0.32
13 12 0.32
14 13 0.35
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:17550735 original size:25 final size:27
Alignment explanation
Indices: 17550693--17550744 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
17550683 AACTAGCTCT
17550693 TTTTTTTTCACAATTTTTTTTTCACAA
1 TTTTTTTTCACAATTTTTTTTTCACAA
17550720 TTTTTTTTCA-AA-TTTTTTTTCACAA
1 TTTTTTTTCACAATTTTTTTTTCACAA
17550745 CTTGATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 13 0.52
26 2 0.08
27 10 0.40
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTTTTTCACAATTTTTTTTTCACAA
Found at i:17550799 original size:12 final size:12
Alignment explanation
Indices: 17550782--17550828 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
17550772 TGGAAACTAG
17550782 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
17550794 TTTTTTTTTGAA
1 TTTTTTTTCGAA
*
17550806 TTTTTTTTCGAG
1 TTTTTTTTCGAA
17550818 TTTTTTTTCGA
1 TTTTTTTTCGA
17550829 GAAACTACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.13, C:0.06, G:0.11, T:0.70
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:17551196 original size:46 final size:46
Alignment explanation
Indices: 17551143--17551236 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
17551133 CAAAGAAAAG
*
17551143 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
17551189 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
17551235 AC
1 AC
17551237 GCCACACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:17559010 original size:23 final size:23
Alignment explanation
Indices: 17558950--17559011 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
17558940 CGGTTTTGGG
* * **
17558950 TTTGTTACGAAATGATAATGTGA
1 TTTGGTACGAAATGGTAATACGA
*
17558973 TTTGGTTCGAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATACGA
17558996 TTTGGTACGAAATGGT
1 TTTGGTACGAAATGGT
17559012 TATGGTTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (23 bp):
TTTGGTACGAAATGGTAATACGA
Found at i:17559570 original size:50 final size:49
Alignment explanation
Indices: 17559414--17560039 Score: 338
Period size: 50 Copynumber: 12.5 Consensus size: 49
17559404 GTAAAATCCA
* *** * * **
17559414 CCGTTGTGCCTTCAATCTTTTTAATTGCGTTGTCGGGGAAACCAGATCCA
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGG-AACTAGATCTG
** ** * * * *
17559464 CCGTTGTGACTTCAATCATGCTCCACTGCTCCGCCAGGGAAGTAAGATCTG
1 CCGTTGTGACTTCAATC-TTTTTAATTGCACCGTCAGGGAACT-AGATCTG
* * * * *
17559515 TCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGG-AACTAGATCTG
* ** ** * *
17559565 CCGTTGTAACTTCAATC-TGCTCCTCTGCACCGCCAGGGAAGTAAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAAT-TGCACCGTCAGGGAACT-AGATCTG
* * * * * *
17559615 CCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGG-AACTAGATCTG
* ** ** * * * *
17559665 CTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTACGTTCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGGAACTA-GATCTG
* * * * * *
17559715 CCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGG-AACTAGATCTG
* ** ** * * * *
17559765 CTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTACGTTCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGGAACTA-GATCTG
* * * * * *
17559815 CCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGG-AACTAGATCTG
** ** * *
17559865 CCGTTGTGACTTCAATCTGCTCCACTGCACCG-CTAGGGAAGTAAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTC-AGGGAACT-AGATCTG
* * * * * * *
17559915 CCGCTGTGGCTTCAATCCTTGTAATTGCACTGTCGGGGAAACCAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGG-AACTAGATCTG
* * ** * *
17559965 CCATTGTGACTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGGAACT-AGATCTG
* *
17560015 CCGTTGTGGCTTCATTCTTTTTAAT
1 CCGTTGTGACTTCAATCTTTTTAAT
17560040 CAATGCCAAA
Statistics
Matches: 405, Mismatches: 155, Indels: 32
0.68 0.26 0.05
Matches are distributed among these distances:
49 17 0.04
50 340 0.84
51 48 0.12
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.31
Consensus pattern (49 bp):
CCGTTGTGACTTCAATCTTTTTAATTGCACCGTCAGGGAACTAGATCTG
Found at i:17559642 original size:100 final size:100
Alignment explanation
Indices: 17559350--17560039 Score: 1013
Period size: 100 Copynumber: 6.9 Consensus size: 100
17559340 NNNNNNNCGA
* * * * * * * * * * **
17559350 GGAAACAAGATCCGTCGTTGT-AGCTTCAATCTGTTCAACTGCACAGCTAAGGAGGTAAAATCCA
1 GGAAACCAGATCTGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTG
* * *
17559414 CCGTTGTGCCTTCAATCTTTTTAATTGCGTTGTCGG
65 CCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
** *
17559450 GGAAACCAGATCCACCGTTGTGACTTCAATCATGCTCCACTGCTCCGCCAGGGAAGTAAGATCTG
1 GGAAACCAGATCTGCCGTTGTGACTTCAATC-TGCTCCACTGCACCGCCAGGGAAGTAAGATCTG
* *
17559515 TCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
65 CCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
* * *
17559551 GGAAACTAGATCTGCCGTTGTAACTTCAATCTGCTCCTCTGCACCGCCAGGGAAGTAAGATCTGC
1 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGC
17559616 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
66 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
* * *
17559651 GGAAACCAGATCTGCTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTACGTTCTGC
1 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGC
17559716 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
66 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
* * *
17559751 GGAAACCAGATCTGCTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTACGTTCTGC
1 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGC
17559816 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
66 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
*
17559851 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCTAGGGAAGTAAGATCTGC
1 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGC
* * *
17559916 CGCTGTGGCTTCAATCCTTGTAATTGCACTGTCGG
66 CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
* * *
17559951 GGAAACCAGATCTGCCATTGTGACTTCAATCTGTTCCATTGCACCGCCAGGGAAGTAAGATCTGC
1 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGC
* *
17560016 CGTTGTGGCTTCATTCTTTTTAAT
66 CGTTGTGGCTTCAATCTTTGTAAT
17560040 CAATGCCAAA
Statistics
Matches: 543, Mismatches: 45, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
100 459 0.85
101 84 0.15
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (100 bp):
GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGC
CGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGG
Found at i:17561402 original size:42 final size:42
Alignment explanation
Indices: 17561338--17561441 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 42
17561328 CCCCATTCCA
* ** * *
17561338 ATCAAAATCTGAGCCACTCTGATCACTTCCAGCCCTATTCTG
1 ATCAAAATTTGAGCTGCCCTGATCACTTCCAGCCCTATCCTG
17561380 ATCAAAATTTGAGCTGCCCTGATCACTTCCAGCCCTATCCTG
1 ATCAAAATTTGAGCTGCCCTGATCACTTCCAGCCCTATCCTG
17561422 ATCAAAATTTGAGCTGCCCT
1 ATCAAAATTTGAGCTGCCCT
17561442 TTTCGGGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (42 bp):
ATCAAAATTTGAGCTGCCCTGATCACTTCCAGCCCTATCCTG
Found at i:17562055 original size:16 final size:15
Alignment explanation
Indices: 17562027--17562072 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
17562017 CGGTAGAGAG
*
17562027 TTTTT-TTTCTATTT
1 TTTTTCTTTTTATTT
17562041 CTTTTTCTTTTTATTT
1 -TTTTTCTTTTTATTT
17562057 TTTGTTCTTTTT-TTT
1 TTT-TTCTTTTTATTT
17562072 T
1 T
17562073 GCCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTATTT
Found at i:17568279 original size:50 final size:50
Alignment explanation
Indices: 17568123--17568391 Score: 211
Period size: 50 Copynumber: 5.4 Consensus size: 50
17568113 GTAAAATCCA
* * * **
17568123 CCGTTGTGCCTTCAATCTTTTTAATTGCGTTGTCGGGGAAACCAGATCCA
1 CCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCTG
** ** * * * * * *
17568173 CCGTTGTGACTTCAATCATGCTCCACTGCTCCGCCAGGG-AAGTAAGATCTG
1 CCGTTGTGACTTCAATC-TTTTTAATTGCGCTGTCGGGGAAACT-AGATCTG
* *
17568224 TCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCTG
* ** ** * * * * *
17568274 CCGTTGTAACTTCAATC-TGCTCCTCTGCACCGCCAGGG-AAGTAAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAAT-TGCGCTGTCGGGGAAACT-AGATCTG
* * *
17568324 CCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCTG
1 CCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCTG
17568374 CCGTTGTGACTTCAATCT
1 CCGTTGTGACTTCAATCT
17568392 GCTCCGCTAC
Statistics
Matches: 160, Mismatches: 52, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
49 6 0.04
50 115 0.72
51 39 0.24
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.32
Consensus pattern (50 bp):
CCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCTG
Found at i:17568351 original size:100 final size:100
Alignment explanation
Indices: 17568053--17568495 Score: 521
Period size: 100 Copynumber: 4.4 Consensus size: 100
17568043 CCAATTACAA
* * * * * * * * * *
17568053 TGTCGAGGAAACAAGATCCGTCGTTGTAGCTTCAATCTGTTCAACTGCACAGCTAAGGAGGTAAA
1 TGTCGGGGAAACAAGATCTGCCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* * *
17568118 ATCCACCGTTGTGCCTTCAATCTTTTTAATTGCGT
66 ATCTACCGTTGTGGCTTCAATCTTTTTAATTGCGC
* ** * * *
17568153 TGTCGGGGAAACCAGATCCACCGTTGTGACTTCAATCATGCTCCACTGCTCCGCCAGGGAAGTAA
1 TGTCGGGGAAACAAGATCTGCCGTTGTAACTTCAATC-TGCTCCACTGCACCGCCAAGGAAGTAA
**
17568218 GATCTGTCGTTGTGGCTTCAATCTTTTTAATTGCGC
65 GATCTACCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
17568254 TGTCGGGGAAACTAGATCTGCCGTTGTAACTTCAATCTGCTCCTCTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACAAGATCTGCCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* *
17568319 ATCTGCCGTTGTGGCTTCAATCTTTGTAATTGCGC
66 ATCTACCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * *
17568354 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCGCTACACCGCCAAGGAAGTAAG
1 TGTCGGGGAAACAAGATCTGCCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* **
17568419 AT-TCACCGTTGTGGCTTCAATCTTTTAAATTGCAA
66 ATCT-ACCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
17568454 TGTTGGGGAAACAAGAT-TCGCCGTCGTAGCTTCAATCTGCTC
1 TGTCGGGGAAACAAGATCT-GCCGTTGTAACTTCAATCTGCTC
17568496 NNNNNNNNNN
Statistics
Matches: 298, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.01
100 213 0.71
101 83 0.28
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (100 bp):
TGTCGGGGAAACAAGATCTGCCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
ATCTACCGTTGTGGCTTCAATCTTTTTAATTGCGC
Found at i:17568380 original size:201 final size:200
Alignment explanation
Indices: 17568045--17568495 Score: 573
Period size: 201 Copynumber: 2.2 Consensus size: 200
17568035 CAATTTATCC
* * * * * *
17568045 AATTACAATGTCGAGGAAACAAGATCCGTCGTTGTAGCTTCAATCTGTTCAACTGCACAGCTAAG
1 AATTGCAATGTCGGGGAAACAAGATCTGCCGTTGTAGCTTCAATCTGCTCAACTGCACAGCCAAG
* * *
17568110 GAGGTAAAATCCACCGTTGTGCCTTCAATCTTTTTAATTGCGTTGTCGGGGAAACCAGATCCACC
66 GAAGTAAAATCCACCGTTGTGCCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCCACC
* * * **
17568175 GTTGTGACTTCAATCATGCTCCACTGCTCCGCCAGGGAAGTAAGA-TCTGTCGTTGTGGCTTCAA
131 GTTGTGACTTCAATC-TGCTCCACTACACCGCCAAGGAAGTAAGATTC-ACCGTTGTGGCTTCAA
*
17568239 TCTTTTT
194 TCTTTTA
** * * ** * *
17568246 AATTGCGCTGTCGGGGAAACTAGATCTGCCGTTGTAACTTCAATCTGCTCCTCTGCACCGCCAGG
1 AATTGCAATGTCGGGGAAACAAGATCTGCCGTTGTAGCTTCAATCTGCTCAACTGCACAGCCAAG
* ** * **
17568311 GAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCTGCC
66 GAAGTAAAATCCACCGTTGTGCCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCCACC
*
17568376 GTTGTGACTTCAATCTGCTCCGCTACACCGCCAAGGAAGTAAGATTCACCGTTGTGGCTTCAATC
131 GTTGTGACTTCAATCTGCTCCACTACACCGCCAAGGAAGTAAGATTCACCGTTGTGGCTTCAATC
17568441 TTTTA
196 TTTTA
* *
17568446 AATTGCAATGTTGGGGAAACAAGAT-TCGCCGTCGTAGCTTCAATCTGCTC
1 AATTGCAATGTCGGGGAAACAAGATCT-GCCGTTGTAGCTTCAATCTGCTC
17568496 NNNNNNNNNN
Statistics
Matches: 212, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
199 1 0.00
200 87 0.41
201 124 0.58
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (200 bp):
AATTGCAATGTCGGGGAAACAAGATCTGCCGTTGTAGCTTCAATCTGCTCAACTGCACAGCCAAG
GAAGTAAAATCCACCGTTGTGCCTTCAATCTTTGTAATTGCGCTGTCGGGGAAACCAGATCCACC
GTTGTGACTTCAATCTGCTCCACTACACCGCCAAGGAAGTAAGATTCACCGTTGTGGCTTCAATC
TTTTA
Found at i:17578593 original size:376 final size:376
Alignment explanation
Indices: 17577900--17579015 Score: 2196
Period size: 376 Copynumber: 3.0 Consensus size: 376
17577890 TCCAAAGCTC
17577900 TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
1 TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
17577965 TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
66 TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
17578030 GAAGGATGAATTGTTAGCGATACGAACATCCACTGATATGCAATCTATTGATTAGGTAATTCATG
131 GAAGGATGAATTGTTAGCGATACGAACATCCACTGATATGCAATCTATTGATTAGGTAATTCATG
*
17578095 TTTTATATTGTTGTATTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
196 TTTTATATTGTTGTGTTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
17578160 TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
261 TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
17578225 ACTGGAGGCACATACGCGTAATCATGTTTTTATATATGTACATACGCGTAA
326 ACTGGAGGCACATACGCGTAATCATGTTTTTATATATGTACATACGCGTAA
17578276 TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
1 TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
17578341 TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
66 TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
17578406 GAAGGATGAATTGTTAGCGATACGAACATCCACTGATATGCAATCTATTGATTAGGTAATTCATG
131 GAAGGATGAATTGTTAGCGATACGAACATCCACTGATATGCAATCTATTGATTAGGTAATTCATG
17578471 TTTTATATTGTTGTGTTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
196 TTTTATATTGTTGTGTTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
17578536 TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
261 TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
17578601 ACTGGAGGCACATACGCGTAATCATGTTTTTATATATGTACATACGCGTAA
326 ACTGGAGGCACATACGCGTAATCATGTTTTTATATATGTACATACGCGTAA
17578652 TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
1 TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
17578717 TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
66 TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
* *
17578782 GAAGGATGACTTGTTAGCGATACGAACATCCATTGATATGCAATCTATTGATTAGGTAATTCATG
131 GAAGGATGAATTGTTAGCGATACGAACATCCACTGATATGCAATCTATTGATTAGGTAATTCATG
17578847 TTTTATATTGTTGTGTTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
196 TTTTATATTGTTGTGTTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
17578912 TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
261 TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
17578977 ACTGGAGGCACATACGCGTAATCATGTTTTTAATATATG
326 ACTGGAGGCACATACGCGTAATCATGTTTTT-ATATATG
17579016 CACGCCACTT
Statistics
Matches: 736, Mismatches: 3, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
376 729 0.99
377 7 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (376 bp):
TCAGTTTCCCTTATAAAGTAAAAATAAAACCCCAAACCTTAAAATCCATTACTTTCTAAATGGTT
TATATATGTACTAACATTTTATATTTTAATATGTGGTCTAGGCATCATGACTATAAAACTTATTA
GAAGGATGAATTGTTAGCGATACGAACATCCACTGATATGCAATCTATTGATTAGGTAATTCATG
TTTTATATTGTTGTGTTTATGGACTTTTATTAATATCATCTCATAATATAATTTAAATGCAATAC
TTCTATTTATTTTTTAAATTTCTGTGGATGTTGTACCAACTGGAAGAGATTACAACCATACTACT
ACTGGAGGCACATACGCGTAATCATGTTTTTATATATGTACATACGCGTAA
Found at i:17581768 original size:5 final size:5
Alignment explanation
Indices: 17581755--17581788 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
17581745 GTATGTTGTT
* *
17581755 TTTTC TTTTT TTTTC TTTTC TTTTC TTTTA TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
17581789 TTGTAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:17581768 original size:10 final size:10
Alignment explanation
Indices: 17581753--17581789 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
17581743 TTGTATGTTG
17581753 TTTTTTCTTT
1 TTTTTTCTTT
17581763 TTTTTTCTTT
1 TTTTTTCTTT
*
17581773 TCTTTTCTTT
1 TTTTTTCTTT
17581783 TATTTTT
1 T-TTTTT
17581790 TGTAATGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:17588402 original size:23 final size:23
Alignment explanation
Indices: 17588368--17588828 Score: 305
Period size: 23 Copynumber: 20.3 Consensus size: 23
17588358 AATGGAAAGT
*
17588368 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
17588391 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
17588414 AACAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
17588437 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* ** *
17588460 AACA-TTTTACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
17588481 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
17588504 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
17588527 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
17588550 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
17588573 AGCACTT-AACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
17588595 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
17588617 AGCAATAAAACA-TCTCAATTT-C
1 AGCACTTAAACACT-TCAATTTAC
*
17588639 TAGCAAC-TAAACACTTCAATTTGC
1 -AGC-ACTTAAACACTTCAATTTAC
17588663 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
17588686 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
17588709 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
17588732 AACATTTACACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
17588754 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
17588777 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
17588800 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
17588823 AGCACT
1 AGCACT
17588829 ATCAAATTTC
Statistics
Matches: 339, Mismatches: 68, Indels: 62
0.72 0.14 0.13
Matches are distributed among these distances:
21 6 0.02
22 74 0.22
23 252 0.74
24 7 0.02
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.29
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:17588448 original size:46 final size:46
Alignment explanation
Indices: 17588376--17588826 Score: 377
Period size: 46 Copynumber: 9.9 Consensus size: 46
17588366 GTAGCACTTT
* * * * *
17588376 AACACTTCAATTTACAGCGA-TAAAACATCTCAATTTGCAACAACTA
1 AACACTTCAATTTGCAGC-ACTTAAACATCTCAATTTACAGCAATTA
* * * *
17588422 AACACTTCAATTTGCAGCACTTAAACATATCAATTAACAAC-ATTT
1 AACACTTCAATTTGCAGCACTTAAACATCTCAATTTACAGCAATTA
* * * * * *
17588467 TACACCTCAA-TTACAGCGA-TAAAACATCTCAATTTCCAGCAACTA
1 AACACTTCAATTTGCAGC-ACTTAAACATCTCAATTTACAGCAATTA
* *
17588512 AATACTTCAATTTGCAGCACTTAAACA-CTTCAATTTACAGCATTTA
1 AACACTTCAATTTGCAGCACTTAAACATC-TCAATTTACAGCAATTA
* * * * *
17588558 AACACTTAAATTTGCAGCACTT-AACATATCAATTAACAACATTTA
1 AACACTTCAATTTGCAGCACTTAAACATCTCAATTTACAGCAATTA
* * * * * *
17588603 TACACCTCAA-TTACAGCAATAAAACATCTCAATTT-CTAGCAACTA
1 AACACTTCAATTTGCAGCACTTAAACATCTCAATTTAC-AGCAATTA
*
17588648 AACACTTCAATTTGCAGCACTTAAACA-CTTCAATTTACAGCATTTA
1 AACACTTCAATTTGCAGCACTTAAACATC-TCAATTTACAGCAATTA
* * * * *
17588694 AACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTA
1 AACACTTCAATTTGCAGCACTTAAACATCTCAATTTACAGCAATTA
* * * * * *
17588740 CACACCTCAA-TTACAGCGA-TAAAACATCTCAATTTCCAGCAACTA
1 AACACTTCAATTTGCAGC-ACTTAAACATCTCAATTTACAGCAATTA
* *
17588785 AATACTTCAATTTGCAGCACTTAAACA-CTTCAATTTGCAGCA
1 AACACTTCAATTTGCAGCACTTAAACATC-TCAATTTACAGCA
17588827 CTATCAAATT
Statistics
Matches: 319, Mismatches: 69, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
44 31 0.10
45 108 0.34
46 179 0.56
47 1 0.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (46 bp):
AACACTTCAATTTGCAGCACTTAAACATCTCAATTTACAGCAATTA
Found at i:17588590 original size:113 final size:113
Alignment explanation
Indices: 17588376--17588694 Score: 355
Period size: 113 Copynumber: 2.8 Consensus size: 113
17588366 GTAGCACTTT
* * *
17588376 AACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAACAACTAAACACTTCAATTTGCAGCA
1 AACACCTCAA-TTACAGCAATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCA
* * * * *
17588441 CTTAAACA-TATCAATTAACAACATTTTACACCTCAATT-ACAGCGA-TAA
65 CTTAAACACT-TCAATTTACAGCATTTAACACATCAATTAACAAC-ATTAA
* * *
17588489 AACATCTCAATTTCCAGCAACTAAATAC-T-TCAATTTGCAGC-ACTTAAACACTTCAATTTACA
1 AACACCTCAA-TTACAGCAA-TAAA-ACATCTCAATTTGCAGCAAC-TAAACACTTCAATTTGCA
* * * * * *
17588551 GCATTTAAACACTTAAATTTGCAGCACTTAACATATCAATTAACAACATTTA
62 GCACTTAAACACTTCAATTTACAGCATTTAACACATCAATTAACAACATTAA
*
17588603 TACACCTCAATTACAGCAATAAAACATCTCAATTT-CTAGCAACTAAACACTTCAATTTGCAGCA
1 AACACCTCAATTACAGCAATAAAACATCTCAATTTGC-AGCAACTAAACACTTCAATTTGCAGCA
17588667 CTTAAACACTTCAATTTACAGCATTTAA
65 CTTAAACACTTCAATTTACAGCATTTAA
17588695 ACACTTAAAT
Statistics
Matches: 171, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
111 2 0.01
112 8 0.05
113 137 0.80
114 22 0.13
115 2 0.01
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (113 bp):
AACACCTCAATTACAGCAATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCAC
TTAAACACTTCAATTTACAGCATTTAACACATCAATTAACAACATTAA
Found at i:17588625 original size:136 final size:137
Alignment explanation
Indices: 17588420--17588826 Score: 746
Period size: 136 Copynumber: 3.0 Consensus size: 137
17588410 TTGCAACAAC
*
17588420 TAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTT-TACACCTCAATTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
17588484 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
66 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
17588549 CAGCATT
131 CAGCATT
17588556 TAAACACTTAAATTTGCAGCACTT-AACATATCAATTAACAACATTTATACACCTCAATTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* * *
17588620 AATAAAACATCTCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTA
66 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
17588685 CAGCATT
131 CAGCATT
*
17588692 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTACACACCTCAATTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
*
17588757 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTG
66 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
17588822 CAGCA
131 CAGCA
17588827 CTATCAAATT
Statistics
Matches: 260, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
135 22 0.08
136 133 0.51
137 105 0.40
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (137 bp):
TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
CAGCATT
Found at i:17589247 original size:41 final size:39
Alignment explanation
Indices: 17589164--17589247 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
17589154 GCACAATACA
* **
17589164 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
*
17589203 ATATAAAAAGCATATATAAATATATGTATGTCACAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAGAAA-T
17589244 ATAT
1 ATAT
17589248 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
Found at i:17591762 original size:27 final size:27
Alignment explanation
Indices: 17591724--17591778 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
17591714 TTTTGGTAGA
*
17591724 ATAAATGGAAGGGAGATGAAGACGAAG
1 ATAAATGAAAGGGAGATGAAGACGAAG
17591751 ATAAATGAAAGGGAGATGAAGACGAAG
1 ATAAATGAAAGGGAGATGAAGACGAAG
17591778 A
1 A
17591779 GAAGCAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.35, T:0.11
Consensus pattern (27 bp):
ATAAATGAAAGGGAGATGAAGACGAAG
Found at i:17592459 original size:15 final size:15
Alignment explanation
Indices: 17592409--17592460 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
17592399 AAACGCCACT
*
17592409 ATTGTTTTTTTATAA
1 ATTGATTTTTTATAA
17592424 ATTGATTTATTT-T--
1 ATTGATTT-TTTATAA
17592437 -TT-ATTTTTTATAA
1 ATTGATTTTTTATAA
17592450 ATTGATTTTTT
1 ATTGATTTTTT
17592461 TGGCCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 2 0.07
14 2 0.07
15 15 0.50
16 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
ATTGATTTTTTATAA
Found at i:17592469 original size:25 final size:26
Alignment explanation
Indices: 17592415--17592472 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
17592405 CACTATTGTT
** *
17592415 TTTTTATAAATTGATTTATTTTTTAT
1 TTTTTATAAATTGATTTATTTTGGAC
*
17592441 TTTTTATAAATTGATTT-TTTTGGCC
1 TTTTTATAAATTGATTTATTTTGGAC
17592466 TTTTTAT
1 TTTTTAT
17592473 TGGTTACCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.22, C:0.03, G:0.07, T:0.67
Consensus pattern (26 bp):
TTTTTATAAATTGATTTATTTTGGAC
Found at i:17592609 original size:104 final size:105
Alignment explanation
Indices: 17592485--17592827 Score: 407
Period size: 104 Copynumber: 3.2 Consensus size: 105
17592475 GTTACCTTTA
* * *
17592485 GCGGCGTTTCTCATACAAACGCCGCAAAATTT-TTTT-AACAAAAACATGCCGTTTTACTATTCT
1 GCGGCGTTTTTCATAAAAACGCCGCAAAATTTATTTTGAACAAAAACA-GCCGTTTTGCTATTCT
*
17592548 AAAAATTTTTTATTTTGTTTTCTATAAATTGATTTATTTTT
65 AAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTT
* * *
17592589 GCGGCGTTTTTCATAAAAACGCCGC--TATTTCATTTTGAACAAAATGACA-CCGTTTTGTTATG
1 GCGGCGTTTTTCATAAAAACGCCGCAAAATTT-ATTTTGAACAAAA--ACAGCCGTTTTGCTATT
*
17592651 CTAAAAA-TTTTTATTTTATTTTTTATAAATTGATTTATTTTTT
63 CTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTA-TTTTT
* * *
17592694 GCGACGTTTTTCATAAAAACGCCACAAAATTTTTTCATTTTGAA-TAAAACGACGCCGTTTTGCT
1 GCGGCGTTTTTCATAAAAACGCCGCAAAA---TTT-ATTTTGAACAAAAAC-A-GCCGTTTTGCT
17592758 ATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTA-TTTT
60 ATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTT
*
17592803 GTGGCGTTTTT-ATAAAAAACGCCGC
1 GCGGCGTTTTTCAT-AAAAACGCCGC
17592828 TATTGCTTAC
Statistics
Matches: 205, Mismatches: 18, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
102 4 0.02
104 55 0.27
105 52 0.25
107 6 0.03
108 3 0.01
109 26 0.13
110 30 0.15
111 29 0.14
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.45
Consensus pattern (105 bp):
GCGGCGTTTTTCATAAAAACGCCGCAAAATTTATTTTGAACAAAAACAGCCGTTTTGCTATTCTA
AAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTT
Found at i:17592655 original size:105 final size:105
Alignment explanation
Indices: 17592533--17592831 Score: 397
Period size: 105 Copynumber: 2.8 Consensus size: 105
17592523 CAAAAACATG
* * *
17592533 CCGTTTTACTATTCTAAAAATTTTTTATTTTGTTTTCTATAAATTGATTTATTTTTGCGGCGTTT
1 CCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTGCGGCGTTT
*
17592598 TTCATAAAAACGCCGCTATTTCATTTTGAACAAAATGACA
66 TTCATAAAAACGCCGCTATTTCATTTTGAACAAAACGACA
* * *
17592638 CCGTTTTGTTATGCTAAAAA-TTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGACGTT
1 CCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTA-TTTTTGCGGCGTT
* * * *
17592702 TTTCATAAAAACGCCACAAAATTTTTTCATTTTGAATAAAACGACG
65 TTTCATAAAAACGCCGC-----TATTTCATTTTGAACAAAACGACA
* *
17592748 CCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTA-TTTTGTGGCGTTT
1 CCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTGCGGCGTTT
17592812 TT-ATAAAAAACGCCGCTATT
66 TTCAT-AAAAACGCCGCTATT
17592832 GCTTACCTTT
Statistics
Matches: 168, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
104 31 0.18
105 45 0.27
108 2 0.01
109 23 0.14
110 38 0.23
111 29 0.17
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (105 bp):
CCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTGCGGCGTTT
TTCATAAAAACGCCGCTATTTCATTTTGAACAAAACGACA
Found at i:17592950 original size:15 final size:15
Alignment explanation
Indices: 17592932--17592961 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17592922 TTTTATTTTG
17592932 TTTTTTATAAATTAA
1 TTTTTTATAAATTAA
17592947 TTTTTTATAAATTAA
1 TTTTTTATAAATTAA
17592962 AATAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTATAAATTAA
Found at i:17593549 original size:14 final size:14
Alignment explanation
Indices: 17593513--17593566 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
17593503 TCGACCCCTG
17593513 AATCCCTAAAC-CTT
1 AATCCCTAAACTC-T
17593527 AAGTCCCT-AACATCT
1 AA-TCCCTAAAC-TCT
17593542 AATCCCTAAACTCT
1 AATCCCTAAACTCT
*
17593556 AACCCCTAAAC
1 AATCCCTAAAC
17593567 CTTAAATCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 23 0.66
15 11 0.31
16 1 0.03
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.24
Consensus pattern (14 bp):
AATCCCTAAACTCT
Found at i:17593605 original size:15 final size:14
Alignment explanation
Indices: 17593583--17593617 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
17593573 TCCCGACCCT
*
17593583 TAAACCATAGTCCC
1 TAAACCATACTCCC
17593597 TAAATCCATACTCCC
1 TAAA-CCATACTCCC
17593612 TAAACC
1 TAAACC
17593618 TTAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.37, C:0.37, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAACCATACTCCC
Found at i:17593809 original size:33 final size:33
Alignment explanation
Indices: 17593761--17593835 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
17593751 AATTAATCTA
*
17593761 AACCCA-AAACCCTAACCCAACCCTGAATCCCT
1 AACCCATAAACCCTAACCCAACCCAGAATCCCT
* ** *
17593793 AATCCATAAACCCTAACCTGACCCAGAATTCCT
1 AACCCATAAACCCTAACCCAACCCAGAATCCCT
17593826 AACCCATAAA
1 AACCCATAAA
17593836 TATTATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 5 0.14
33 31 0.86
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.16
Consensus pattern (33 bp):
AACCCATAAACCCTAACCCAACCCAGAATCCCT
Found at i:17593931 original size:7 final size:7
Alignment explanation
Indices: 17593905--17593943 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
17593895 TAACTGATCT
*
17593905 TAACCTC
1 TAACCCC
*
17593912 TAACCTC
1 TAACCCC
17593919 TAACCCC
1 TAACCCC
17593926 TAACCCC
1 TAACCCC
*
17593933 TAGCCCC
1 TAACCCC
17593940 TAAC
1 TAAC
17593944 ACATAAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.49, G:0.03, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:17594748 original size:41 final size:41
Alignment explanation
Indices: 17594685--17594925 Score: 301
Period size: 41 Copynumber: 5.9 Consensus size: 41
17594675 TTTTATTATT
** *
17594685 ATTAGCGGCGCTT-TTGTTAAAACGCCGCTAAAGGTCAGAGC
1 ATTAGCGGCGCTTCTT-CAAAAACGCCGCTAAAGGCCAGAGC
* * *
17594726 ACTAGTGGCGCTT-TCTCAAAAACGCCGCTAAAGATCC-GAGC
1 ATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAG-GCCAGAGC
* * *
17594767 ATTAGCGGCGCTAT-ATCAAAAACGCCGCGAAAGGACAGAGC
1 ATTAGCGGCGCT-TCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
17594808 ATTAGCTGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
17594849 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
17594890 ATTAGCGGCGCTTCTTTAAAAACGACGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
17594926 CCAAAAACTC
Statistics
Matches: 174, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.01
41 169 0.97
42 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:17595031 original size:40 final size:38
Alignment explanation
Indices: 17594960--17595041 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
17594950 TTTGCGACGC
* * *
17594960 TTTTCAAAAAACGCCACTAATGCTTATTTTTAGCGGCG
1 TTTTCAAAAAACGCCACTAATACTGACTTTTAGCGGCG
* *
17594998 TTTTCCAAAAAACGCTACTAATACTCGACTTTTAGTGGCG
1 TTTT-CAAAAAACGCCACTAATACT-GACTTTTAGCGGCG
17595038 TTTT
1 TTTT
17595042 TTATCTAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.11
39 18 0.49
40 15 0.41
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (38 bp):
TTTTCAAAAAACGCCACTAATACTGACTTTTAGCGGCG
Found at i:17599881 original size:2 final size:2
Alignment explanation
Indices: 17599874--17599902 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17599864 CTTTTCTTTC
17599874 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
17599903 ATTGTCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:17600607 original size:5 final size:5
Alignment explanation
Indices: 17600597--17600621 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17600587 TGATATGAAT
17600597 ATGAG ATGAG ATGAG ATGAG ATGAG
1 ATGAG ATGAG ATGAG ATGAG ATGAG
17600622 GCAATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
ATGAG
Found at i:17607625 original size:26 final size:27
Alignment explanation
Indices: 17607571--17607636 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
17607561 TATTATTTGT
* * *
17607571 TTTAAATTG-GTCT-TAGTTTAGACAC
1 TTTAAATTGAGTCTATTGTTTAGAAAA
*
17607596 TTT-AATTGTGTCTATTGTTTAGAAAA
1 TTTAAATTGAGTCTATTGTTTAGAAAA
17607622 TTTAAATTGAGTCTA
1 TTTAAATTGAGTCTA
17607637 AATTAAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.15
25 7 0.21
26 12 0.35
27 10 0.29
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (27 bp):
TTTAAATTGAGTCTATTGTTTAGAAAA
Found at i:17615150 original size:22 final size:22
Alignment explanation
Indices: 17615122--17615165 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17615112 TTTTGAACCA
17615122 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
17615144 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
17615166 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:17617086 original size:27 final size:26
Alignment explanation
Indices: 17617056--17617116 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
17617046 AGTTTAATTG
*
17617056 ATTATGTTTTATTTATTACATCTATTT
1 ATTATGTTTAATTTATTA-ATCTATTT
* * *
17617083 ATTATGTTGAATTTATTAATGTTTTT
1 ATTATGTTTAATTTATTAATCTATTT
17617109 ATTA-GTTT
1 ATTATGTTT
17617117 CAGCCGAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 3 0.10
26 10 0.34
27 16 0.55
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.62
Consensus pattern (26 bp):
ATTATGTTTAATTTATTAATCTATTT
Found at i:17618743 original size:11 final size:11
Alignment explanation
Indices: 17618729--17618757 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17618719 TAAAAAAAAT
17618729 AAAAAAATTCA
1 AAAAAAATTCA
17618740 AAAAAAATTCA
1 AAAAAAATTCA
17618751 AAAAAAA
1 AAAAAAA
17618758 GTTTGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:17618832 original size:15 final size:15
Alignment explanation
Indices: 17618814--17618864 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
17618804 AAAAAAGAAG
17618814 AAAAAAATCAGAATT
1 AAAAAAATCAGAATT
** *
17618829 AAAAAAAGAAGAA-G
1 AAAAAAATCAGAATT
17618843 AAAAAAATC-GAAATT
1 AAAAAAATCAG-AATT
17618858 AAAAAAA
1 AAAAAAA
17618865 AAAGAGTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
15 18 0.64
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.12
Consensus pattern (15 bp):
AAAAAAATCAGAATT
Found at i:17618869 original size:29 final size:29
Alignment explanation
Indices: 17618802--17618869 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
17618792 AGTATTGAAG
17618802 AAAAAAAAGAAGAAAAAAATCAGAATTAA
1 AAAAAAAAGAAGAAAAAAATCAGAATTAA
*
17618831 AAAAAGAAGAAGAAAAAAATC-GAAATTAA
1 AAAAAAAAGAAGAAAAAAATCAG-AATTAA
17618860 AAAAAAAAGA
1 AAAAAAAAGA
17618870 GTGATTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (29 bp):
AAAAAAAAGAAGAAAAAAATCAGAATTAA
Found at i:17620069 original size:21 final size:23
Alignment explanation
Indices: 17620024--17620070 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17620014 TCACCTGCAA
* *
17620024 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
17620047 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
17620068 TAA
1 TAA
17620071 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:17623387 original size:100 final size:100
Alignment explanation
Indices: 17623266--17623465 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
17623256 TTTTGGAAAG
17623266 AGAGAAAAGATTTGAAAAGAATAAAAAATAAAAATGTAATCAAAATAAAACCCCCCACAACTCCC
1 AGAGAAAAGATTTGAAAAGAATAAAAAATAAAAATGTAATCAAAATAAAACCCCCCACAACTCCC
17623331 ACTAACAACATATCTCAACTACCTCAGAATCCCAA
66 ACTAACAACATATCTCAACTACCTCAGAATCCCAA
17623366 AGAGAAAAGATTTGAAAAGAATAAAAAATAAAAATGTAATCAAAATAAAACCCCCCACAACTCCC
1 AGAGAAAAGATTTGAAAAGAATAAAAAATAAAAATGTAATCAAAATAAAACCCCCCACAACTCCC
17623431 ACTAACAACATATCTCAACTACCTCAGAATCCCAA
66 ACTAACAACATATCTCAACTACCTCAGAATCCCAA
17623466 CTCCACCGAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.52, C:0.24, G:0.07, T:0.17
Consensus pattern (100 bp):
AGAGAAAAGATTTGAAAAGAATAAAAAATAAAAATGTAATCAAAATAAAACCCCCCACAACTCCC
ACTAACAACATATCTCAACTACCTCAGAATCCCAA
Found at i:17628481 original size:15 final size:15
Alignment explanation
Indices: 17628461--17628513 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
17628451 ACTCTCCTCA
*
17628461 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
17628476 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
17628491 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
17628505 TT-TTTTCTC
1 TTCTTTTCTC
17628514 AATCAATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 4 0.12
14 10 0.30
15 19 0.58
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:17630504 original size:20 final size:19
Alignment explanation
Indices: 17630481--17630545 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
17630471 AAGCTCAAAC
17630481 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
17630501 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
17630521 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
17630541 GAGCT
1 GAGCT
17630546 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:17640167 original size:23 final size:23
Alignment explanation
Indices: 17640141--17640215 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
17640131 ATAAGTGCCA
*
17640141 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
17640164 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
17640187 CACTGAAATGTAGCCGAAGCTAT
1 CACTGAAATGTAGCCGAAGCTAC
17640210 CACTGA
1 CACTGA
17640216 TCAATAACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:17641907 original size:25 final size:25
Alignment explanation
Indices: 17641848--17641911 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
17641838 TTTGAGCCAG
17641848 CATTCTTTTATTCTTTTTCGAGTAAT
1 CATTCTTTTATTCTTTTTCGAG-AAT
* *
17641874 TATTATTTTATTCTTTTTTC-A-ACAT
1 CATTCTTTTATTC-TTTTTCGAGA-AT
17641899 CATTCTTTTATTC
1 CATTCTTTTATTC
17641912 ATTTCATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 13 0.41
26 12 0.38
27 6 0.19
ACGTcount: A:0.20, C:0.16, G:0.03, T:0.61
Consensus pattern (25 bp):
CATTCTTTTATTCTTTTTCGAGAAT
Found at i:17646788 original size:50 final size:50
Alignment explanation
Indices: 17646710--17647293 Score: 389
Period size: 50 Copynumber: 11.7 Consensus size: 50
17646700 TAATCATATC
* * *
17646710 TCCCTGGCATTGTAGTGGAGCAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * * ***
17646760 TCTCTGGCGGTGTAGTGGAGCCGATTGAAGTCACAACGGCAGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * ** * **
17646810 TCCCCGACAGCGTAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * ** * * *
17646860 TCCCTGGCGGTACAGTGGAGCAGATTGAAGTCACAACGGCAGATC-TAGTTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTA--CT
* * ** * * *
17646911 TCCC-GACAGCGTAATTAAAAAGATTGAAGCCACGACGGCGGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * ***
17646960 TCCCTGGCAGTGTAGTGGAGCAGATTAAAGTCACAACGGCGGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * ** *
17647010 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * * * ***
17647060 TCCTTGGCGGTGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * ** *
17647110 TCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * * * ***
17647160 TCCTTGGCGGTGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * ** *
17647210 TCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* *
17647260 TCCCTGACGGTGCAGTGGAACAGATTGAAGCCAC
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCAC
17647294 GGCGGCGGGT
Statistics
Matches: 377, Mismatches: 153, Indels: 8
0.70 0.28 0.01
Matches are distributed among these distances:
49 7 0.02
50 363 0.96
51 7 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
Found at i:17646858 original size:100 final size:99
Alignment explanation
Indices: 17646731--17647420 Score: 934
Period size: 100 Copynumber: 6.9 Consensus size: 99
17646721 GTAGTGGAGC
* *
17646731 AGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGTAGTGGAGCCGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTC-CTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
* **
17646796 CGGCAGATCTGGTTTCCCCGACAGCGTAATTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
** *
17646831 AGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTACAGTGGAGCAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTT-CCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
* * * **
17646896 CGGCAGATCTAGTTTTCCCGACAGCGTAATTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
* * * * *
17646931 AGATTGAAGCCACGACGGCGGATCTTACTTCCCTGGCAGTGTAGTGGAGCAGATTAAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTT-CCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
*
17646996 CGGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
17647031 AGATTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCC-TGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
17647096 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
17647131 AGATTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCC-TGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
17647196 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
* * * **
17647231 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAGTGGAACAGATTGAAGCCACGG
1 AGATTGAAGCCACAACGGCAGATCTTACTT-CCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
* * *
17647296 CGGCGGGTCTGGTTTCTCCGACATTGCAATTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
* * * ** * *
17647331 AGATTGAAGCTACAATGGC-GAATCTTATTTCCTTGATGGTGTAGTGGAACAGATTGAAG-CTAC
1 AGATTGAAGCCACAACGGCAG-ATCTTACTTCC-TGGCGGTGCAGTGGAGCAGATTGAAGTC-AC
* * * * *
17647394 GATGGCGAATCTTGTTTCCTCGACATT
63 AACGGCGGATCTGGTTTCCCCGACATT
17647421 ACACGGAGTG
Statistics
Matches: 539, Mismatches: 45, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
99 6 0.01
100 530 0.98
101 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (99 bp):
AGATTGAAGCCACAACGGCAGATCTTACTTCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAAC
GGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
Found at i:17647335 original size:50 final size:49
Alignment explanation
Indices: 17646782--17647355 Score: 293
Period size: 50 Copynumber: 11.5 Consensus size: 49
17646772 TAGTGGAGCC
* * ** *
17646782 GATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** * ** * * ** **
17646832 GATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTACAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCC-GACATTGCAATTAAAAA
* * * ** *
17646882 GATTGAAGTCACAACGGCAGATCTAGTTTTCCCGACAGCGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCT-GGTTTCCCGACATTGCAATTAAAAA
* *** * * * * ** **
17646932 GATTGAAGCCACGACGGCGGATCTTACTTCCCTGGCAGTGTAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCC-GACATTGCAATTAAAAA
* *
17646982 GATTAAAGTCACAACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** * * ** * ** **
17647032 GATTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGCAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCC-CGACATTGCAATTAAAAA
* *
17647082 GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACATTGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** * * ** * ** **
17647132 GATTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGCAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCC-CGACATTGCAATTAAAAA
* *
17647182 GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACATTGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** ** * ** *
17647232 GATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCC-GACATTGCAATTAAAAA
** *
17647282 GATTGAAGCCACGGCGGCGGGTCTGGTTTCTCCGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTC-CCGACATTGCAATTAAAAA
* * *
17647332 GATTGAAGCTACAATGGCGAATCT
1 GATTGAAGCCACAACGGCGGATCT
17647356 TATTTCCTTG
Statistics
Matches: 364, Mismatches: 150, Indels: 20
0.68 0.28 0.04
Matches are distributed among these distances:
49 15 0.04
50 335 0.92
51 14 0.04
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (49 bp):
GATTGAAGCCACAACGGCGGATCTGGTTTCCCGACATTGCAATTAAAAA
Found at i:17649959 original size:13 final size:13
Alignment explanation
Indices: 17649943--17650021 Score: 88
Period size: 13 Copynumber: 6.1 Consensus size: 13
17649933 TTTAAACCAA
*
17649943 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
17649956 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
17649969 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* *
17649982 ACTTTTTAAAAAC
1 ACTTTTCAAAAGC
*
17649995 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
17650008 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
17650021 A
1 A
17650022 ATGAAGAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
12 3 0.05
13 49 0.88
14 4 0.07
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:17651399 original size:24 final size:24
Alignment explanation
Indices: 17651363--17651411 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17651353 AGTATGTAGC
*
17651363 ATCATTCACAATAGTGGAATTTAT
1 ATCATTCAAAATAGTGGAATTTAT
17651387 ATCATTCAAAATAGTGGAATTTAT
1 ATCATTCAAAATAGTGGAATTTAT
17651411 A
1 A
17651412 GCCCAACCAA
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:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (24 bp):
ATCATTCAAAATAGTGGAATTTAT
Found at i:17665096 original size:19 final size:19
Alignment explanation
Indices: 17665044--17665088 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17665034 TGCCTCTTTT
*
17665044 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCA-TCATA
17665063 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
17665082 TGCATTA
1 TGCATTA
17665089 AGTTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:17669308 original size:51 final size:50
Alignment explanation
Indices: 17669176--17669363 Score: 243
Period size: 51 Copynumber: 3.7 Consensus size: 50
17669166 TATCATTTGA
* *
17669176 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAACTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAC-CTTCGG
*
17669226 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTT-CGG
* * * ** * *
17669277 TACACATAGTAGCTTGCACATAGTACTACACATGTGACCATTATCTATCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCGG
*
17669328 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
17669364 TTTATAGGCA
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
50 39 0.32
51 80 0.67
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCGG
Found at i:17676978 original size:11 final size:12
Alignment explanation
Indices: 17676944--17676983 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
17676934 GGTTAATAAG
17676944 ATTCACCTTCAC
1 ATTCACCTTCAC
*
17676956 TTTCACCTTCAC
1 ATTCACCTTCAC
17676968 ATTCA-CTTCAC
1 ATTCACCTTCAC
17676979 ATTCA
1 ATTCA
17676984 TCCTACCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTCACCTTCAC
Found at i:17679223 original size:64 final size:64
Alignment explanation
Indices: 17679118--17679245 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
17679108 TTTTGCTCGG
** * *
17679118 TTGGATCGGTCTTCTTGGTTCAGCACAACTAAGCCTTCTTTCATAATTTAATTAATAATAATTA
1 TTGGATCGGTCTTCTCCGTTCAGCACAACTAAGACTCCTTTCATAATTTAATTAATAATAATTA
* * *
17679182 TTGGATCGGTCTTCTCCGTTCTGCACAATTGAGACTCCTTTCATAATTTAATTAATAATAATTA
1 TTGGATCGGTCTTCTCCGTTCAGCACAACTAAGACTCCTTTCATAATTTAATTAATAATAATTA
17679246 ATGAACCCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (64 bp):
TTGGATCGGTCTTCTCCGTTCAGCACAACTAAGACTCCTTTCATAATTTAATTAATAATAATTA
Found at i:17686484 original size:32 final size:32
Alignment explanation
Indices: 17686431--17686761 Score: 440
Period size: 32 Copynumber: 10.4 Consensus size: 32
17686421 AAATGGCAAC
* *
17686431 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
17686462 AAGCCATCAGTAACAGTGATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
17686494 CAGCCATCAGTAAC-GATAATATGA-CAGGCACA
1 AAGCCATCAGTAACAG-TAATATGATC-GGCACA
17686526 AAGCCATCAGTAACAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
17686558 AAGCCAGCAGTAACGGTAATATGATCGGAACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
17686590 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
17686622 CAA-CCATCAGTAACGGTAATATGATAC-GCACA
1 -AAGCCATCAGTAACAGTAATATGAT-CGGCACA
*
17686654 AAGCCATCAGTAACAGTAAAATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
17686686 AAGCCATCAGTAA-TGATAAAATGATCGGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
*
17686718 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
17686750 AAGCCATCAGTA
1 AAGCCATCAGTA
17686762 GCATTGCAGC
Statistics
Matches: 267, Mismatches: 22, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
31 15 0.06
32 246 0.92
33 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:17686929 original size:24 final size:24
Alignment explanation
Indices: 17686902--17686948 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17686892 GGCTCAGAAT
*
17686902 CAGTGATACAAATCACAGACAAAG
1 CAGTCATACAAATCACAGACAAAG
* *
17686926 CAGTCATACCAATCATAGACAAA
1 CAGTCATACAAATCACAGACAAA
17686949 TCAATCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (24 bp):
CAGTCATACAAATCACAGACAAAG
Found at i:17686956 original size:24 final size:24
Alignment explanation
Indices: 17686907--17686956 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
17686897 AGAATCAGTG
*
17686907 ATACAAATCACAGACAAAGCAGTC
1 ATACAAATCACAGACAAAGCAATC
* * *
17686931 ATACCAATCATAGACAAATCAATC
1 ATACAAATCACAGACAAAGCAATC
17686955 AT
1 AT
17686957 TTACCCTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (24 bp):
ATACAAATCACAGACAAAGCAATC
Found at i:17691993 original size:26 final size:26
Alignment explanation
Indices: 17691964--17692027 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
17691954 TGACCTACAA
17691964 CTTGTGTAAGCAGACCCATTTCACAG
1 CTTGTGTAAGCAGACCCATTTCACAG
* * *
17691990 CTTGTGTGAGCATACCTATTTCACAG
1 CTTGTGTAAGCAGACCCATTTCACAG
*
17692016 CTCGTGTAAGCA
1 CTTGTGTAAGCA
17692028 ACTATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (26 bp):
CTTGTGTAAGCAGACCCATTTCACAG
Found at i:17694414 original size:50 final size:50
Alignment explanation
Indices: 17694312--17694545 Score: 211
Period size: 50 Copynumber: 4.6 Consensus size: 50
17694302 GGGAATGAGA
* **
17694312 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGG
*
17694368 TCCCATGTAAGACCATGTCTGCGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
17694418 TCCCCCGTAAGGCCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * **
17694468 TCCCATGTAAGAACATATCTGGGATATGACATTGGCA--GTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
17694517 TCCCATGTAAGACCATGTCTGGGACATGG
1 TCCCATGTAAGACCATGTCTGGGACATGG
17694546 GTTTGGCATG
Statistics
Matches: 148, Mismatches: 29, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 30 0.20
50 79 0.53
52 1 0.01
53 3 0.02
56 34 0.23
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:17694780 original size:20 final size:20
Alignment explanation
Indices: 17694755--17694803 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17694745 TGAGTTATTT
17694755 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
17694775 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
17694795 AAG-AAGCAA
1 AAGTAAGCAA
17694804 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:17714191 original size:13 final size:13
Alignment explanation
Indices: 17714175--17714205 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
17714165 AGGTCGTGGA
17714175 GTGCTAGGCAAAG
1 GTGCTAGGCAAAG
17714188 GTGCTAGGCAAAG
1 GTGCTAGGCAAAG
17714201 GTGCT
1 GTGCT
17714206 GGTCCTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.39, T:0.19
Consensus pattern (13 bp):
GTGCTAGGCAAAG
Found at i:17718995 original size:26 final size:26
Alignment explanation
Indices: 17718966--17719015 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
17718956 CTTTCCTACG
* * *
17718966 ATACTGTTACTGGTAGCTTTGTTGTA
1 ATACTATTACTGGCAGCCTTGTTGTA
17718992 ATACTATTACTGGCAGCCTTGTTG
1 ATACTATTACTGGCAGCCTTGTTG
17719016 CGATATTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (26 bp):
ATACTATTACTGGCAGCCTTGTTGTA
Found at i:17722795 original size:14 final size:15
Alignment explanation
Indices: 17722761--17722799 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
17722751 TCAGTAGAGC
17722761 TTCA-TATCTTGGAT
1 TTCATTATCTTGGAT
17722775 TTCATTATCTTGG-T
1 TTCATTATCTTGGAT
*
17722789 TTTATTATCTT
1 TTCATTATCTT
17722800 TCTTATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (15 bp):
TTCATTATCTTGGAT
Found at i:17729011 original size:24 final size:24
Alignment explanation
Indices: 17728967--17729012 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17728957 TTTTCTTTAG
* *
17728967 GATCTTCTTCTAGGTCATCCTCCA
1 GATCTTCTTCAAAGTCATCCTCCA
*
17728991 GATCTTCTTCAAAGTCTTCCTC
1 GATCTTCTTCAAAGTCATCCTC
17729013 TATATCCTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.39
Consensus pattern (24 bp):
GATCTTCTTCAAAGTCATCCTCCA
Found at i:17734397 original size:9 final size:9
Alignment explanation
Indices: 17734383--17734420 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
17734373 TTTGATTCAC
17734383 GAACTCTAT
1 GAACTCTAT
17734392 GAACTCTAT
1 GAACTCTAT
17734401 GAACTCTAT
1 GAACTCTAT
17734410 GAACTCTAT
1 GAACTCTAT
17734419 GA
1 GA
17734421 GCCTTCCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (9 bp):
GAACTCTAT
Found at i:17749063 original size:11 final size:13
Alignment explanation
Indices: 17749043--17749074 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17749033 AATAAATTAA
17749043 TAAAATATCAT-T
1 TAAAATATCATAT
17749055 TAAAA-ATCATAT
1 TAAAATATCATAT
17749067 TAAAATAT
1 TAAAATAT
17749075 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:17750047 original size:11 final size:13
Alignment explanation
Indices: 17750023--17750054 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17750013 TAGTTTATTA
17750023 ATATTTTAATATG
1 ATATTTTAATATG
17750036 AT-TTTTAA-ATG
1 ATATTTTAATATG
17750047 ATATTTTA
1 ATATTTTA
17750055 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:17754996 original size:23 final size:22
Alignment explanation
Indices: 17754970--17755015 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
17754960 TGAATTTATA
17754970 AGTTA-TGAAACTAGAAAAAAATT
1 AGTTACTG-AACTA-AAAAAAATT
*
17754993 AGTTACTGAATTAAAAAAAATT
1 AGTTACTGAACTAAAAAAAATT
17755015 A
1 A
17755016 CATCAACAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 9 0.43
24 2 0.10
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (22 bp):
AGTTACTGAACTAAAAAAAATT
Found at i:17756979 original size:19 final size:20
Alignment explanation
Indices: 17756943--17757011 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
17756933 TAATATTAGT
* *
17756943 AATAATAACAATATAAAAAA
1 AATAATAATAAAATAAAAAA
17756963 AATAA-AATAAAATAAAAAA
1 AATAATAATAAAATAAAAAA
* * *
17756982 GATAATATTAAAAT-AATAA
1 AATAATAATAAAATAAAAAA
17757001 AATAATAATAA
1 AATAATAATAA
17757012 CAAATGAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (20 bp):
AATAATAATAAAATAAAAAA
Found at i:17757911 original size:30 final size:30
Alignment explanation
Indices: 17757875--17757951 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
17757865 TGACTCGCCA
* *
17757875 GTGTGTCTAGGCTGTGTATCATACACGACC
1 GTGTGTCTAGGCTGTGTATCACACACAACC
* * *
17757905 GTGTGTCCAGGCCGTGTATCACACACAACT
1 GTGTGTCTAGGCTGTGTATCACACACAACC
*
17757935 GTGTCTCTAGGCTGTGT
1 GTGTGTCTAGGCTGTGT
17757952 GATTCACCCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (30 bp):
GTGTGTCTAGGCTGTGTATCACACACAACC
Found at i:17759921 original size:27 final size:27
Alignment explanation
Indices: 17759891--17760085 Score: 273
Period size: 27 Copynumber: 7.1 Consensus size: 27
17759881 TATAATAATA
* *
17759891 ATTTTACCTTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
17759918 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
17759945 ATTTTACCCTATAGGGGGCATTTCGATC
1 ATTTTACCCTAT-GGGGGTATTTCGGTC
*
17759973 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
17760000 ATTTTACCCTATGAGGGGTATTTCAGTC
1 ATTTTACCCTATG-GGGGTATTTCGGTC
**
17760028 ATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
17760055 ATTTTACCCTATGGGGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
17760082 ATTT
1 ATTT
17760086 ATTGACCTCT
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
27 103 0.67
28 50 0.33
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:17759982 original size:55 final size:54
Alignment explanation
Indices: 17759891--17760085 Score: 284
Period size: 55 Copynumber: 3.6 Consensus size: 54
17759881 TATAATAATA
* ** *
17759891 ATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
* * *
17759945 ATTTTACCCTATAGGGGGCATTTC-GATCATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTAT-GGGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTCGATC
*
17760000 ATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCTATG-GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
17760055 ATTTTACCCTATGGGGGTATTTCAGTCATTT
1 ATTTTACCCTATGGGGGTATTTCAGTCATTT
17760086 ATTGACCTCT
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
54 31 0.24
55 95 0.75
56 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATC
Found at i:17759986 original size:82 final size:82
Alignment explanation
Indices: 17759891--17760085 Score: 313
Period size: 82 Copynumber: 2.4 Consensus size: 82
17759881 TATAATAATA
*
17759891 ATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTAT-AGGGGTATTTC-GATCATTTTACCC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAG-TCATTTTACCC
*
17759954 TATAGGGGGCATTTCGATC
65 TAT-GGGGGCATTTCAATC
17759973 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCT
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCT
*
17760038 ATGGGGGTATTTCAATC
66 ATGGGGGCATTTCAATC
**
17760055 ATTTTACCCTATGGGGGTATTTCAGTCATTT
1 ATTTTACCCTATGGGGGTATTTTGGTCATTT
17760086 ATTGACCTCT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
82 80 0.75
83 25 0.24
84 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (82 bp):
ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGGTATTTCAGTCATTTTACCCT
ATGGGGGCATTTCAATC
Found at i:17767786 original size:20 final size:19
Alignment explanation
Indices: 17767757--17767797 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17767747 GAACAAATGA
17767757 AATTAAAAAAATTATGTCTT
1 AATTAAAAAAATTAT-TCTT
* *
17767777 AATTAGAAAATTTATTCTT
1 AATTAAAAAAATTATTCTT
17767796 AA
1 AA
17767798 CAAATTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAAAAAAATTATTCTT
Found at i:17778853 original size:14 final size:15
Alignment explanation
Indices: 17778832--17778865 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17778822 ATTAGAATGT
17778832 AAAA-ATTAAA-TAA
1 AAAATATTAAATTAA
17778845 AAAATATTAAATTAA
1 AAAATATTAAATTAA
17778860 AAAATA
1 AAAATA
17778866 AATATGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 6 0.32
15 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATTAAATTAA
Found at i:17778856 original size:19 final size:19
Alignment explanation
Indices: 17778834--17778870 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17778824 TAGAATGTAA
17778834 AAATTAAATAAA-AAATATT
1 AAATTAAA-AAATAAATATT
17778853 AAATTAAAAAATAAATAT
1 AAATTAAAAAATAAATAT
17778871 GGCTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATTAAAAAATAAATATT
Found at i:17778860 original size:26 final size:27
Alignment explanation
Indices: 17778816--17778869 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
17778806 ACAATCAAAC
*
17778816 AAAAAAATTAGAATGTAAAAATTAAAT
1 AAAAAAATTAGAATGTAAAAAATAAAT
17778843 AAAAAATATTA-AAT-TAAAAAATAAAT
1 AAAAAA-ATTAGAATGTAAAAAATAAAT
17778869 A
1 A
17778870 TGGCTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 12 0.48
27 9 0.36
28 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (27 bp):
AAAAAAATTAGAATGTAAAAAATAAAT
Found at i:17781493 original size:134 final size:128
Alignment explanation
Indices: 17781259--17781523 Score: 431
Period size: 134 Copynumber: 2.0 Consensus size: 128
17781249 AACATCTATG
* *
17781259 TAATGATGCCGAATGGAATGAATAAATATATATATATACATGTATGTATGTGATGATGAAATTGT
1 TAATGATGCCGAATGGAATGAATAAATATATATATATACATGTACGTATGTGATGATGAAAGTGT
*
17781324 TGAATGAAAAGAAAAGAGGTGAGATGTGTTGAGTTGTTGATCTCGGCACTAAATGTGCGGGTA
66 TGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTAAATGTGCGGGTA
* *
17781387 TAATGATGCTGAATGGAATGAATAAATATACATATATATATATGCGTGTACGTATGTGATGATGA
1 TAATGATGCCGAATGGAATGAAT-AA-AT--ATATATATATA--CATGTACGTATGTGATGATGA
17781452 AAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTAAATGTGCG
60 AAGTGTTGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTAAATGTGCG
17781517 GGTA
125 GGTA
17781521 TAA
1 TAA
17781524 CCATTTATGA
Statistics
Matches: 126, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
128 22 0.17
129 2 0.02
130 2 0.02
132 11 0.09
134 89 0.71
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (128 bp):
TAATGATGCCGAATGGAATGAATAAATATATATATATACATGTACGTATGTGATGATGAAAGTGT
TGAATGAAAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTAAATGTGCGGGTA
Found at i:17781655 original size:89 final size:89
Alignment explanation
Indices: 17781499--17781676 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
17781489 AGTTGTTGAT
17781499 CTCGGCACTAAATGTGCGGGTATAACCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATT
1 CTCGGCACTAAATGTGCGGGTATAACCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATT
17781564 AAATTGTACAGCACTAAGTGTGCG
66 AAATTGTACAGCACTAAGTGTGCG
* *
17781588 CTCGGCACTAAATGTGCGGGTATAACCATTTATGACCATGAGATTGGCGCTAAGTGTGCGGGTTT
1 CTCGGCACTAAATGTGCGGGTATAACCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATT
17781653 AAATTGTACAGCACTAAGTGTGCG
66 AAATTGTACAGCACTAAGTGTGCG
17781677 AGTTGGACTA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (89 bp):
CTCGGCACTAAATGTGCGGGTATAACCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATT
AAATTGTACAGCACTAAGTGTGCG
Found at i:17781721 original size:27 final size:27
Alignment explanation
Indices: 17781662--17781813 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
17781652 TAAATTGTAC
*
17781662 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
17781690 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
17781717 TGCACTAAGTGTGCGAATTGACTATGC
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
17781744 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
17781772 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
17781799 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17781814 GACTTAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
27 70 0.62
28 42 0.38
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:17781728 original size:55 final size:55
Alignment explanation
Indices: 17781662--17781813 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
17781652 TAAATTGTAC
17781662 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * * *
17781717 TGCACTAAGTGTGCGAATTGACTATGCAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
17781772 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
17781814 GACTTAATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 23 0.27
55 63 0.73
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:17781776 original size:82 final size:82
Alignment explanation
Indices: 17781661--17781813 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 82
17781651 TTAAATTGTA
* *
17781661 CAGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAG
1 CAGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAG
17781726 TGTGCGAATTGACTATG
66 TGTGCGAATTGACTATG
* * * *
17781743 CAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAG
1 CAGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAG
17781808 TGTGCG
66 TGTGCG
17781814 GACTTAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (82 bp):
CAGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAG
TGTGCGAATTGACTATG
Found at i:17784485 original size:35 final size:35
Alignment explanation
Indices: 17784439--17784510 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
17784429 TACGATGTTA
*
17784439 GACCATAGATGAAAGATGCTATGACAACAAGGTAT
1 GACCATAGATGAAAAATGCTATGACAACAAGGTAT
*
17784474 GACCATAGATGAAAAATTCTATGACAACAAGGTAT
1 GACCATAGATGAAAAATGCTATGACAACAAGGTAT
17784509 GA
1 GA
17784511 TGAGTAAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (35 bp):
GACCATAGATGAAAAATGCTATGACAACAAGGTAT
Found at i:17810924 original size:39 final size:39
Alignment explanation
Indices: 17810760--17810942 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
17810750 TTGAATGCTG
* * * * * *
17810760 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
17810800 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
**
17810840 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
17810880 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
17810919 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17810943 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 37 0.31
40 75 0.62
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:17810962 original size:79 final size:80
Alignment explanation
Indices: 17810796--17810977 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
17810786 GCTAAGTGAA
** * * *
17810796 TATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
17810860 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * *
17810876 TAAATCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
17810940 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
17810955 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
17810978 TACGTGATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.18
79 50 0.60
80 19 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:17818713 original size:40 final size:39
Alignment explanation
Indices: 17818682--17818891 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
17818672 GGACTAAGAT
* *
17818682 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
17818722 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
17818762 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
17818802 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
17818842 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
17818881 CCGAAGGCATT
1 CCGAAGGCATT
17818892 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:17818845 original size:120 final size:120
Alignment explanation
Indices: 17818629--17818891 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
17818619 TTGAATGCTG
* *
17818629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
17818693 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
17818749 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
17818812 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
17818868 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17818892 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:17818911 original size:79 final size:80
Alignment explanation
Indices: 17818630--17818926 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
17818620 TGAATGCTGT
* ** * * * **
17818630 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
17818693 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
17818710 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
17818774 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
17818790 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
17818854 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
17818869 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
17818927 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:17820727 original size:18 final size:18
Alignment explanation
Indices: 17820704--17820740 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17820694 GGCGACTCCC
*
17820704 ATTTTTCATTTTGAAATA
1 ATTTTTCATTTTAAAATA
17820722 ATTTTTCATTTTAAAATA
1 ATTTTTCATTTTAAAATA
17820740 A
1 A
17820741 AAAGTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTTCATTTTAAAATA
Done.