Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 56 of 207
Found at i:16428293 original size:94 final size:94
Alignment explanation
Indices: 16428172--16428475 Score: 268
Period size: 94 Copynumber: 3.3 Consensus size: 94
16428162 TCATCTTTCC
* * * *
16428172 CCACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGCAACTTCAG
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
*
16428237 GGGTATAGAAAGTGTAGCTTCAATCTGAT
66 GGGTATAGAAATTGTAGCTTCAATCTGAT
* * * * *** *
16428266 CCACTGCAACTTCAGGGATATAGGA--TT---T-GAAGCTTCATT-TTGCTCTACTGTAACTTTA
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAAC-CTACTGTAACTTCA
* * *
16428324 GAGGG-ATA-AAATTTGCAGTTTC-ATCTTGCT
65 G-GGGTATAGAAA-TTGTAGCTTCAATC-TGAT
* * * * *
16428354 CCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAACCCACTGTAACTTCAA
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
* * *
16428419 GGGTATGGAAATTATTGCTTCAATCTGAT
66 GGGTATAGAAATTGTAGCTTCAATCTGAT
* *
16428448 CCACTGCAACTTCAGGGATATAGGATTT
1 CCACTGCAACTTCAGGGAGATAAGATTT
16428476 GTAGCTTCAT
Statistics
Matches: 158, Mismatches: 38, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
87 7 0.04
88 57 0.36
89 4 0.03
90 1 0.01
92 2 0.01
93 3 0.02
94 77 0.49
95 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
GGGTATAGAAATTGTAGCTTCAATCTGAT
Found at i:16428316 original size:138 final size:138
Alignment explanation
Indices: 16427793--16428339 Score: 568
Period size: 138 Copynumber: 4.0 Consensus size: 138
16427783 ATTTGTAGTT
* * *
16427793 GTAGCTTCATTCCAA-CTCACTGCAACTT-AAGGGTATAGGAATTGTAGCTTC-ATCTTGCTCCA
1 GTAGTTTCATTCCAACCT-ACTGCAACTTCAAGGGTATAGAAATTGTAGCTTCAATC-TGATCCA
** *
16427855 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAG
64 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
16427920 ATTTGCTATG
129 ATTTGCCATA
* ** ** * * * * * *
16427930 GTAGATTCAATT-TGATTTACTGCAACTTTATGGGTATAGGATTTGTAGCTTCAATTTGTTCCAC
1 GTAGTTTC-ATTCCAACCTACTGCAACTTCAAGGGTATAGAAATTGTAGCTTCAATCTGATCCAC
* *
16427994 TGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA
65 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
*
16428059 TTCGCCATA
130 TTTGCCATA
* * *
16428068 GTAGTTTCATTCCAACCCACTACAACTTCAAGGGTATAGAGATTGTAGCTTCAATCTGATCCACT
1 GTAGTTTCATTCCAACCTACTGCAACTTCAAGGGTATAGAAATTGTAGCTTCAATCTGATCCACT
* * * * * * * * *
16428133 GCAACTTCATGGATATAGGATTCGTCA-CTTC-ATCTTTCCCCACTGTAACTTTAGGGAGACAAG
66 GCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAG
* *
16428196 ATTTTCCATC
129 ATTTGCCATA
* *
16428206 GTAGTTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTGATCCACT
1 GTAGTTTCATTCCAACCTACTGCAACTTCAAGGGTATAGAAATTGTAGCTTCAATCTGATCCACT
* * * * * * * * *
16428271 GCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAGG-GATAAAA
66 GCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GGAGATAAGA
16428335 TTTGC
130 TTTGC
16428340 AGTTTCATCT
Statistics
Matches: 340, Mismatches: 60, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
137 25 0.07
138 309 0.91
139 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (138 bp):
GTAGTTTCATTCCAACCTACTGCAACTTCAAGGGTATAGAAATTGTAGCTTCAATCTGATCCACT
GCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TTGCCATA
Found at i:16440106 original size:21 final size:19
Alignment explanation
Indices: 16440064--16440108 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
16440054 TAACTATAAT
*
16440064 AAAATAAAATAACTACATA
1 AAAATAAAAAAACTACATA
*
16440083 AAAATAAATAAAACATAGATA
1 AAAATAAA-AAAAC-TACATA
16440104 AAAAT
1 AAAAT
16440109 TTGAAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAAACTACATA
Found at i:16445791 original size:21 final size:21
Alignment explanation
Indices: 16445765--16445806 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16445755 AACATCAAAT
16445765 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
16445786 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
16445807 AAGCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
TAAACATAAAATCATGTACTA
Found at i:16446236 original size:22 final size:22
Alignment explanation
Indices: 16446211--16446253 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16446201 TTTAACACAT
*
16446211 AAACATTCAATTATATTGGCAC
1 AAACAATCAATTATATTGGCAC
16446233 AAACAATCAATTATATTGGCA
1 AAACAATCAATTATATTGGCA
16446254 TAATACATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (22 bp):
AAACAATCAATTATATTGGCAC
Found at i:16447975 original size:19 final size:17
Alignment explanation
Indices: 16447951--16448004 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
16447941 TTCCAATTTA
16447951 ACCCAAAATATTTATTTTT
1 ACCCAAAA-A-TTATTTTT
*
16447970 ACCCAAAAATTATTTTA
1 ACCCAAAAATTATTTTT
*
16447987 AACCATAAAATTATTTTT
1 ACCCA-AAAATTATTTTT
16448005 TCTAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.35
18 12 0.39
19 8 0.26
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (17 bp):
ACCCAAAAATTATTTTT
Found at i:16448861 original size:17 final size:19
Alignment explanation
Indices: 16448814--16448863 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
16448804 AAAAGAATAG
*
16448814 AAAAGAAATAAAAAGAGAT
1 AAAAGAATTAAAAAGAGAT
*
16448833 -AAATAATGTAAAAA-A-AT
1 AAAAGAAT-TAAAAAGAGAT
16448850 AAAAGAATTAAAAA
1 AAAAGAATTAAAAA
16448864 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (19 bp):
AAAAGAATTAAAAAGAGAT
Found at i:16452900 original size:33 final size:33
Alignment explanation
Indices: 16452853--16452916 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
16452843 TAATTTTTAT
*
16452853 TTTTAATTTAATTTAATACTTAATGTATATGTA
1 TTTTAATTTAATTTAATACTTAATATATATGTA
* * *
16452886 TTTTATTTTTATTTAATGCTTAATATATATG
1 TTTTAATTTAATTTAATACTTAATATATATG
16452917 CATTATACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (33 bp):
TTTTAATTTAATTTAATACTTAATATATATGTA
Found at i:16456820 original size:3 final size:3
Alignment explanation
Indices: 16456814--16456848 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16456804 AAAAGAAAAA
16456814 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16456849 TGGAAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16465334 original size:12 final size:15
Alignment explanation
Indices: 16465304--16465337 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
16465294 GCTTCTCACC
16465304 TATTAATTACAATAT
1 TATTAATTACAATAT
16465319 TATTAATTACAATAT
1 TATTAATTACAATAT
16465334 TATT
1 TATT
16465338 TAGTCACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTACAATAT
Found at i:16466837 original size:12 final size:12
Alignment explanation
Indices: 16466820--16466844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16466810 CAGAGGCTAT
16466820 TAACAATATTTA
1 TAACAATATTTA
16466832 TAACAATATTTA
1 TAACAATATTTA
16466844 T
1 T
16466845 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:16474087 original size:45 final size:45
Alignment explanation
Indices: 16474031--16474125 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
16474021 TACTATGTGA
* *
16474031 ACCGAACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
16474076 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
16474121 ACCGA
1 ACCGA
16474126 GTATTTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:16498689 original size:26 final size:26
Alignment explanation
Indices: 16498660--16498711 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
16498650 ACCAATGAAA
*
16498660 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
16498686 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
16498712 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:16498692 original size:104 final size:103
Alignment explanation
Indices: 16498420--16498789 Score: 600
Period size: 103 Copynumber: 3.6 Consensus size: 103
16498410 TAGCCGTTAT
** *
16498420 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
16498485 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
16498523 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
16498588 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
16498627 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
16498691 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
16498731 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
16498790 TTTATATACA
Statistics
Matches: 253, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
103 113 0.45
104 109 0.43
105 31 0.12
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:16502199 original size:13 final size:13
Alignment explanation
Indices: 16502181--16502210 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16502171 GGATTGGAAC
16502181 AAGCAACAACAAG
1 AAGCAACAACAAG
*
16502194 AAGCAACAATAAG
1 AAGCAACAACAAG
16502207 AAGC
1 AAGC
16502211 GATGGTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.17, T:0.03
Consensus pattern (13 bp):
AAGCAACAACAAG
Found at i:16506700 original size:19 final size:18
Alignment explanation
Indices: 16506654--16506702 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
16506644 GATAGAATTT
*
16506654 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
16506673 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
16506691 TTGTATTAAAAT
1 TTGTA-TAAAAT
16506703 TTTTGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:16506807 original size:130 final size:130
Alignment explanation
Indices: 16506574--16506965 Score: 757
Period size: 130 Copynumber: 3.0 Consensus size: 130
16506564 ATGATTTAAG
*
16506574 TTTGGGGTTTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
1 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
16506639 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
66 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
16506704 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
1 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
16506769 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
66 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
* *
16506834 TTGGGGGTGTGGAAACACAAAGATTTATATATTTTTTCATACCTAATTTTACTTAAAATCATGCA
1 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
16506899 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
66 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
16506964 TT
1 TT
16506966 GAGCATGTTA
Statistics
Matches: 259, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 259 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (130 bp):
TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
Found at i:16506830 original size:19 final size:18
Alignment explanation
Indices: 16506784--16506832 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
16506774 GATAGAATTT
*
16506784 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
16506803 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
16506821 TTGTATTAAAAT
1 TTGTA-TAAAAT
16506833 TTTGGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:16506960 original size:19 final size:18
Alignment explanation
Indices: 16506914--16506962 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
16506904 GATAGAATTT
*
16506914 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
16506933 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
16506951 TTGTATTAAAAT
1 TTGTA-TAAAAT
16506963 TTTGAGCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:16507595 original size:14 final size:14
Alignment explanation
Indices: 16507572--16507602 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16507562 CATCCCTCAT
*
16507572 TCACATCTCTTCTC
1 TCACAACTCTTCTC
16507586 TCACAACTCTTCTC
1 TCACAACTCTTCTC
16507600 TCA
1 TCA
16507603 TCTCTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.39
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:16508400 original size:137 final size:138
Alignment explanation
Indices: 16508153--16508425 Score: 318
Period size: 137 Copynumber: 2.0 Consensus size: 138
16508143 CTGTAAAATA
* * * *
16508153 GGTCTACTCACACAAGCTATCGGTCAGAACGTAAGCTACACGATGCTGCTTACACAAGCTATCGA
1 GGTCTACTCACACAAGCTATCAGTCAGAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
** * * ** *
16508218 GTATCTACAACTAATGTCGAACCTCATCCACTTGTAGGACATTCAAGACCAGTACCCA-AAACAT
66 GTATCTACAACTAATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCA-CCAGAAACAT
*
16508282 GGTAACCTT
130 CGTAACCTT
* * * * * *
16508291 GGTCTACTCATACAAGCTATCAGTCGGAACGT-AGCTACACGGTGTTACTCACATAAGCTGTCAA
1 GGTCTACTCACACAAGCTATCAGTCAGAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
* * *
16508355 GTATCTGCAAC-ACATACCGAAACTTAGCCACCGGTAGGACATTCAAGACTAGCACCAGAAACAT
66 GTATCTACAACTA-ATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCAGAAACAT
16508419 CGTAACC
130 CGTAACC
16508426 CTAATGACAT
Statistics
Matches: 112, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
136 4 0.04
137 79 0.71
138 29 0.26
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (138 bp):
GGTCTACTCACACAAGCTATCAGTCAGAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
GTATCTACAACTAATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCAGAAACATC
GTAACCTT
Found at i:16515718 original size:25 final size:27
Alignment explanation
Indices: 16515670--16515726 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
16515660 TAGCTCGTTA
*
16515670 AAAATTGTCAAAAATTTTACT-GGGGT
1 AAAATCGTCAAAAATTTTACTGGGGGT
*
16515696 AAAATCGTC-AAAATTTTATTGGGGGT
1 AAAATCGTCAAAAATTTTACTGGGGGT
16515722 AAAAT
1 AAAAT
16515727 ATAGATGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (27 bp):
AAAATCGTCAAAAATTTTACTGGGGGT
Found at i:16518426 original size:6 final size:6
Alignment explanation
Indices: 16518415--16518443 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16518405 CCCCACCCCA
16518415 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
16518444 CCAACATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:16520901 original size:16 final size:16
Alignment explanation
Indices: 16520876--16520918 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
16520866 TTGAATTTTT
16520876 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
16520891 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
16520907 ATTATTAAGAAT
1 GTTATTAAGAAT
16520919 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:16520945 original size:18 final size:17
Alignment explanation
Indices: 16520917--16520951 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16520907 ATTATTAAGA
*
16520917 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16520934 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16520952 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16521065 original size:18 final size:17
Alignment explanation
Indices: 16521037--16521071 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16521027 ATTATTAAGA
*
16521037 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16521054 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16521072 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16521109 original size:120 final size:120
Alignment explanation
Indices: 16520892--16521213 Score: 610
Period size: 120 Copynumber: 2.7 Consensus size: 120
16520882 AGAATATTGG
16520892 TTAT-TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
16520956 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
66 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
16521011 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
16521076 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
66 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
*
16521131 TGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
16521196 TAATAATTATGTTTAAAT
66 TAATAATTATG-TTAAAT
16521214 ATGATTAAAT
Statistics
Matches: 199, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 4 0.02
120 189 0.95
121 6 0.03
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.50
Consensus pattern (120 bp):
TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAAT
Found at i:16521185 original size:18 final size:17
Alignment explanation
Indices: 16521157--16521191 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16521147 ATTATTAAGA
*
16521157 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16521174 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16521192 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16521300 original size:147 final size:149
Alignment explanation
Indices: 16521147--16521419 Score: 505
Period size: 147 Copynumber: 1.8 Consensus size: 149
16521137 AAGAATATTG
*
16521147 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
*
16521212 ATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATTTA
66 ATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTA
16521275 CCAAAACAAATTTCTGCTA
131 CCAAAACAAATTTCTGCTA
16521294 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
*
16521359 ATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 ATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
16521420 CAATAATCAT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 89 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGCTA
Found at i:16521332 original size:18 final size:17
Alignment explanation
Indices: 16521304--16521338 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16521294 ATTATTAAGA
*
16521304 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16521321 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16521339 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16521549 original size:44 final size:45
Alignment explanation
Indices: 16521500--16521594 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
16521490 TTACACCTCT
* *
16521500 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** **
16521544 ATTACATTCAACCAAACAGTTGATTTGGTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
16521589 ATTACA
1 ATTACA
16521595 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:16521594 original size:16 final size:16
Alignment explanation
Indices: 16521575--16521626 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
16521565 GATTTGGTAT
* *
16521575 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
16521591 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16521607 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16521623 TACA
1 TACA
16521627 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16521706 original size:7 final size:7
Alignment explanation
Indices: 16521694--16521723 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16521684 ATCAAAAGCA
16521694 AAACCAT
1 AAACCAT
16521701 AAACCAT
1 AAACCAT
16521708 AAACCAT
1 AAACCAT
16521715 AAACCAT
1 AAACCAT
16521722 AA
1 AA
16521724 CTACAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCAT
Found at i:16525521 original size:31 final size:31
Alignment explanation
Indices: 16525455--16525521 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
16525445 ATTTTTTTAT
* *
16525455 TTAATTGTGATATATTAACTAATGTAATAAT
1 TTAATTGGGATATATTAACTAATGTAATAAC
* * **
16525486 TTAATTGGGATGTATTAACTATTGTGGTAAC
1 TTAATTGGGATATATTAACTAATGTAATAAC
16525517 TTAAT
1 TTAAT
16525522 ATGGTCAGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (31 bp):
TTAATTGGGATATATTAACTAATGTAATAAC
Found at i:16529837 original size:12 final size:12
Alignment explanation
Indices: 16529820--16529844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16529810 GATAAATATA
16529820 TTTTTATATTAT
1 TTTTTATATTAT
16529832 TTTTTATATTAT
1 TTTTTATATTAT
16529844 T
1 T
16529845 CATATATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:16531290 original size:24 final size:25
Alignment explanation
Indices: 16531250--16531296 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16531240 TATGTTTTTA
*
16531250 ATTTTTAAAATAGAAAATAAAAATT
1 ATTTTTAAAATAGAAAAGAAAAATT
16531275 ATTTTTAAAATA-AAAAGAAAAA
1 ATTTTTAAAATAGAAAAGAAAAA
16531297 AAATGAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
ATTTTTAAAATAGAAAAGAAAAATT
Found at i:16531667 original size:24 final size:23
Alignment explanation
Indices: 16531640--16531690 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
16531630 TTCACTATAA
* * *
16531640 TTAACTTTTCACCTTTCATATTCC
1 TTAACTCTTCACATTTCAT-CTCC
16531664 TTAACTCTTCACATTTCATCTCC
1 TTAACTCTTCACATTTCATCTCC
16531687 TTAA
1 TTAA
16531691 AACCCCTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAACTCTTCACATTTCATCTCC
Found at i:16531983 original size:32 final size:32
Alignment explanation
Indices: 16531947--16532058 Score: 111
Period size: 31 Copynumber: 3.5 Consensus size: 32
16531937 AATAAATACC
*
16531947 AAAAATTTATTTTAAAAATTAAAATAAAAATTA
1 AAAAAATTATTTTAAAAA-TAAAATAAAAATTA
* ** * *
16531980 AAAAAAGTATTTTAAAAAT-ATTTTAAAATTT
1 AAAAAATTATTTTAAAAATAAAATAAAAATTA
** *
16532011 AAAAAATTATTTTAAAAA-AATTTTAAAATTA
1 AAAAAATTATTTTAAAAATAAAATAAAAATTA
*
16532042 AAAAAAGTATTTTAAAA
1 AAAAAATTATTTTAAAA
16532059 TTTAAAAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 52 0.75
32 1 0.01
33 16 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
AAAAAATTATTTTAAAAATAAAATAAAAATTA
Found at i:16532001 original size:11 final size:11
Alignment explanation
Indices: 16531981--16532038 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
16531971 TAAAAATTAA
16531981 AAAAAGTATTTT
1 AAAAA-TATTTT
16531993 AAAAATATTTT
1 AAAAATATTTT
*
16532004 --AAA-ATTTA
1 AAAAATATTTT
16532012 AAAAATTATTTT
1 AAAAA-TATTTT
*
16532024 AAAAAAATTTT
1 AAAAATATTTT
16532035 AAAA
1 AAAA
16532039 TTAAAAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 3 0.08
11 15 0.38
12 14 0.36
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:16532015 original size:31 final size:31
Alignment explanation
Indices: 16531973--16532058 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
16531963 AATTAAAATA
*
16531973 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
* *
16532004 AAAATTTAAAAAATTATTTTAAAAAAATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
16532035 AAAATTAAAAAAAGTATTTTAAAA
1 AAAATTAAAAAAAGTATTTTAAAA
16532059 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAAAATTTT
Found at i:16532021 original size:20 final size:19
Alignment explanation
Indices: 16531988--16532067 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 19
16531978 TAAAAAAAGT
*
16531988 ATTTTAAAAATATTTTAAA
1 ATTTAAAAAATATTTTAAA
16532007 ATTT-AAAAA-A--TT--A
1 ATTTAAAAAATATTTTAAA
*
16532020 TTTTAAAAAA-ATTTTAAA
1 ATTTAAAAAATATTTTAAA
*
16532038 ATTAAAAAAAGTATTTTAAA
1 ATTTAAAAAA-TATTTTAAA
16532058 ATTTAAAAAA
1 ATTTAAAAAA
16532068 ATAAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 2 0.04
16 2 0.04
17 1 0.02
18 14 0.28
19 4 0.08
20 17 0.34
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
ATTTAAAAAATATTTTAAA
Found at i:16546001 original size:35 final size:34
Alignment explanation
Indices: 16545952--16546019 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
16545942 TTCAATTTTG
16545952 GAAAGTAATAATTATAATTCAATAAATACATTTA
1 GAAAGTAATAATTATAATTCAATAAATACATTTA
* * **
16545986 GAAAGTGATAAATTATCATTCAATGGATACATTT
1 GAAAGTAAT-AATTATAATTCAATAAATACATTT
16546020 TCATGGGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (34 bp):
GAAAGTAATAATTATAATTCAATAAATACATTTA
Found at i:16546322 original size:17 final size:17
Alignment explanation
Indices: 16546300--16546332 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16546290 ATATTTAATA
16546300 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
16546317 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
16546333 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:16546810 original size:19 final size:21
Alignment explanation
Indices: 16546786--16546826 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
16546776 TTTGTGCAGT
16546786 TAATAATGAAA-AAAAT-TAA
1 TAATAATGAAATAAAATGTAA
*
16546805 TAATAATTAAATAAAATGTAA
1 TAATAATGAAATAAAATGTAA
16546826 T
1 T
16546827 TTTAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 5 0.26
21 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
TAATAATGAAATAAAATGTAA
Found at i:16556267 original size:2 final size:2
Alignment explanation
Indices: 16556260--16556284 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16556250 GAAAAGAATA
16556260 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16556285 AAAGAAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16557693 original size:19 final size:18
Alignment explanation
Indices: 16557671--16557726 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
16557661 TTATATATTT
16557671 TTTTATGATTTTTATAAAA
1 TTTTA-GATTTTTATAAAA
* **
16557690 TTTTACATTTTTAATAATT
1 TTTTAGATTTTT-ATAAAA
16557709 TTTTACGATTTTTATAAA
1 TTTTA-GATTTTTATAAA
16557727 TCTAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.20
19 18 0.60
20 6 0.20
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTAGATTTTTATAAAA
Found at i:16557732 original size:28 final size:30
Alignment explanation
Indices: 16557701--16557771 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
16557691 TTTACATTTT
*
16557701 TAATAATTTTTTACGATTTTTA-T-AAATC
1 TAATAATTTTTTAAGATTTTTATTAAAATC
** * *
16557729 TAATAAAATTTTAATATTTTTATTAAAATT
1 TAATAATTTTTTAAGATTTTTATTAAAATC
16557759 TAATAATTTTTTA
1 TAATAATTTTTTA
16557772 TAACTTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 18 0.53
29 1 0.03
30 15 0.44
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (30 bp):
TAATAATTTTTTAAGATTTTTATTAAAATC
Found at i:16557755 original size:20 final size:20
Alignment explanation
Indices: 16557732--16557769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16557722 ATAAATCTAA
16557732 TAAAATTTTAAT-ATTTTTAT
1 TAAAA-TTTAATAATTTTTAT
16557752 TAAAATTTAATAATTTTT
1 TAAAATTTAATAATTTTT
16557770 TATAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAAATTTAATAATTTTTAT
Found at i:16557780 original size:30 final size:28
Alignment explanation
Indices: 16557699--16557782 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
16557689 ATTTTACATT
*
16557699 TTTAATAATTTTTTACGATTTTTA-TAAA
1 TTTAATAATTTTTTA-TATTTTTATTAAA
* * *
16557727 TCTAATAAAATTTTAATATTTTTATTAAAA
1 TTTAAT-AATTTTTTATATTTTTATT-AAA
*
16557757 TTTAATAATTTTTTATAACTTTTATT
1 TTTAATAATTTTTTAT-ATTTTTATT
16557783 GATTTTTACT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 12 0.27
29 16 0.36
30 16 0.36
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTAATAATTTTTTATATTTTTATTAAA
Found at i:16561161 original size:3 final size:3
Alignment explanation
Indices: 16561153--16561188 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16561143 ATATGTCCAT
16561153 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16561189 AAGAGATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16570676 original size:58 final size:60
Alignment explanation
Indices: 16570614--16570727 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 60
16570604 AATTTAATAC
* *
16570614 TAAATTAATATAATAATTAT-T-AAGATAAATATTAGATTAAATTTAATATTAAATCTGT
1 TAAATTAATAGAATAATTATCTAAAGATAAATATTAAATTAAATTTAATATTAAATCTGT
* **
16570672 TAAATTAATAGAATATTTATCTAGAAGATAAATATTAAATTATTTTTAATATTAAA
1 TAAATTAATAGAATAATTATCTA-AAGATAAATATTAAATTAAATTTAATATTAAA
16570728 ATAATCATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 18 0.38
59 1 0.02
61 29 0.60
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (60 bp):
TAAATTAATAGAATAATTATCTAAAGATAAATATTAAATTAAATTTAATATTAAATCTGT
Found at i:16570724 original size:17 final size:18
Alignment explanation
Indices: 16570702--16570750 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
16570692 CTAGAAGATA
16570702 AATATTAAATTAT-TTTT
1 AATATTAAATTATATTTT
*
16570719 AATATTAAAATAATCATTTT
1 AATATT-AAATTAT-ATTTT
16570739 AATATTAAATTA
1 AATATTAAATTA
16570751 ATAAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 5 0.19
20 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTAAATTATATTTT
Found at i:16570740 original size:20 final size:20
Alignment explanation
Indices: 16570715--16570752 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16570705 ATTAAATTAT
16570715 TTTTAATATTAAAATAATCA
1 TTTTAATATTAAAATAATCA
*
16570735 TTTTAATATTAAATTAAT
1 TTTTAATATTAAAATAAT
16570753 AAAATACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAATATTAAAATAATCA
Found at i:16570810 original size:68 final size:72
Alignment explanation
Indices: 16570671--16570813 Score: 161
Period size: 68 Copynumber: 2.0 Consensus size: 72
16570661 ATTAAATCTG
* * ** *
16570671 TTAAATTAATAGAATATTTATCTAGAAGATAAATATTAAATTATTTTTAATATTAAAATAATCAT
1 TTAAATTAATAAAATATCTATCTAGAAGATAAATATTAAATTAAATTTAATATTAAAATAATCAA
**
16570736 TTTAATA
66 CATAATA
* *
16570743 TTAAATTAATAAAATA-CTATC-A-AA-ATAATTATTAAATTAAATTTAGTATTAAAACT-ATCA
1 TTAAATTAATAAAATATCTATCTAGAAGATAAATATTAAATTAAATTTAATATTAAAA-TAATCA
16570803 ACATAATA
65 ACATAATA
16570811 TTA
1 TTA
16570814 TTTTTGAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
68 38 0.62
69 3 0.05
70 1 0.02
71 4 0.07
72 15 0.25
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (72 bp):
TTAAATTAATAAAATATCTATCTAGAAGATAAATATTAAATTAAATTTAATATTAAAATAATCAA
CATAATA
Found at i:16573985 original size:54 final size:54
Alignment explanation
Indices: 16573903--16574010 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
16573893 ATCCACGAGG
16573903 ATTGTAATACAAATCTGAGTCCATCAGAACAAACCATTAGCTGTAATTCGTGAT
1 ATTGTAATACAAATCTGAGTCCATCAGAACAAACCATTAGCTGTAATTCGTGAT
16573957 ATTGTAATACAAATCTGAGTCCATCAGAACAAACCATTAGCTGTAATTCGTGAT
1 ATTGTAATACAAATCTGAGTCCATCAGAACAAACCATTAGCTGTAATTCGTGAT
16574011 TGGAACTATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (54 bp):
ATTGTAATACAAATCTGAGTCCATCAGAACAAACCATTAGCTGTAATTCGTGAT
Found at i:16577639 original size:32 final size:32
Alignment explanation
Indices: 16577598--16577667 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
16577588 TTTCGAGAAA
16577598 ATATGTTTAATATTTCACAACTCAACATGTTC
1 ATATGTTTAATATTTCACAACTCAACATGTTC
16577630 ATATGTTTAATATTTCACAACTCAACATGTTC
1 ATATGTTTAATATTTCACAACTCAACATGTTC
16577662 ACTATG
1 A-TATG
16577668 ACATGATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (32 bp):
ATATGTTTAATATTTCACAACTCAACATGTTC
Found at i:16582560 original size:52 final size:53
Alignment explanation
Indices: 16582493--16582615 Score: 135
Period size: 52 Copynumber: 2.3 Consensus size: 53
16582483 GGCTTTGTAA
* * **
16582493 AGGTTGGGATGGATTGTTTGGAG-AATGCATATACATGATATTTGG-TTTCCGG
1 AGGTTCGGTTGGATTGTAAGGAGAAAT-CATATACATGATATTTGGTTTTCCGG
* * **
16582545 AGGTTCAGG-TGGATTGTAAGGAGAAATTATATGCATGATATTTGGTTTTGTGG
1 AGGTTC-GGTTGGATTGTAAGGAGAAATCATATACATGATATTTGGTTTTCCGG
16582598 AGGTTCGGTTGGATTGTA
1 AGGTTCGGTTGGATTGTA
16582616 CAGAGACATA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
52 35 0.58
53 25 0.42
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.37
Consensus pattern (53 bp):
AGGTTCGGTTGGATTGTAAGGAGAAATCATATACATGATATTTGGTTTTCCGG
Found at i:16586181 original size:27 final size:27
Alignment explanation
Indices: 16586143--16586197 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16586133 ATTTTGGATG
16586143 ATCCGAATCCAATGATAGTTAAACCAT
1 ATCCGAATCCAATGATAGTTAAACCAT
*
16586170 ATCCGAATCCAATGATAGTTAGACCAT
1 ATCCGAATCCAATGATAGTTAAACCAT
16586197 A
1 A
16586198 CATTTAAGCT
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:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (27 bp):
ATCCGAATCCAATGATAGTTAAACCAT
Found at i:16587093 original size:3 final size:3
Alignment explanation
Indices: 16587085--16587117 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16587075 TTCCTTTGTT
16587085 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
16587118 TATTAAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:16601504 original size:16 final size:17
Alignment explanation
Indices: 16601485--16601541 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
16601475 TAGTTTTTTG
*
16601485 TTTTATTTCTTTTTCT-
1 TTTTATTTCTATTTCTA
*
16601501 TTTTCTTTCTATTTCTA
1 TTTTATTTCTATTTCTA
*
16601518 TTGTTA-TT-TGTTTCTA
1 TT-TTATTTCTATTTCTA
16601534 TTTTATTT
1 TTTTATTT
16601542 TCTAGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.09
16 25 0.74
17 4 0.12
18 2 0.06
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.75
Consensus pattern (17 bp):
TTTTATTTCTATTTCTA
Found at i:16601531 original size:22 final size:23
Alignment explanation
Indices: 16601481--16601545 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
16601471 CATTTAGTTT
* *
16601481 TTTGTTT-TATTTCT-TTTTCTT
1 TTTGTTTCTATTTCTATTGTCTA
*
16601502 TTTCTTTCTATTTCTATTGT-TA
1 TTTGTTTCTATTTCTATTGTCTA
*
16601524 TTTGTTTCTATTT-TATTTTCTA
1 TTTGTTTCTATTTCTATTGTCTA
16601546 GATTTATATG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.31
22 22 0.61
23 3 0.08
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTGTTTCTATTTCTATTGTCTA
Found at i:16601541 original size:27 final size:26
Alignment explanation
Indices: 16601485--16601572 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 26
16601475 TAGTTTTTTG
*
16601485 TTTTATTTCT-TTTTCT-T-TTTCT-
1 TTTTATTTCTATTTTATATGTTTCTA
* *
16601507 TTCTATTTCTATTGTTATTTGTTTCTA
1 TTTTATTTCTATT-TTATATGTTTCTA
*
16601534 TTTTATTTTCTAGATTTATATGTTT-TA
1 TTTTA-TTTCTA-TTTTATATGTTTCTA
16601561 TTTTATTT-TATT
1 TTTTATTTCTATT
16601573 ATGCACTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 9 0.17
23 2 0.04
24 4 0.08
25 3 0.06
26 8 0.15
27 11 0.21
28 15 0.28
29 1 0.02
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.73
Consensus pattern (26 bp):
TTTTATTTCTATTTTATATGTTTCTA
Found at i:16603090 original size:16 final size:16
Alignment explanation
Indices: 16603070--16603138 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
16603060 TTGGTTCGCT
*
16603070 GTAATGGAATAGAAGT
1 GTAATGGAATAGAAGC
*
16603086 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
*
16603102 GTAATGGAATAGATGC
1 GTAATGGAATAGAAGC
*
16603118 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
16603134 GTAAT
1 GTAAT
16603139 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAAGC
Found at i:16603111 original size:32 final size:32
Alignment explanation
Indices: 16603070--16603138 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
16603060 TTGGTTCGCT
*
16603070 GTAATGGAATAGAAGTGTAATGGAATAGAGGC
1 GTAATGGAATAGAAGCGTAATGGAATAGAGGC
*
16603102 GTAATGGAATAGATGCGTAATGGAATAGAGGC
1 GTAATGGAATAGAAGCGTAATGGAATAGAGGC
16603134 GTAAT
1 GTAAT
16603139 AGGTAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.23
Consensus pattern (32 bp):
GTAATGGAATAGAAGCGTAATGGAATAGAGGC
Found at i:16603205 original size:44 final size:46
Alignment explanation
Indices: 16603120--16603212 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
16603110 ATAGATGCGT
* *
16603120 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATAG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATAG
* *
16603166 AATGGAATAGAGGCGTAGT-GAT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATAG
16603210 AAT
1 AAT
16603213 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATAG
Found at i:16603208 original size:39 final size:44
Alignment explanation
Indices: 16603120--16603230 Score: 124
Period size: 39 Copynumber: 2.6 Consensus size: 44
16603110 ATAGATGCGT
* *
16603120 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATAG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTT--ATAG
*
16603166 AATGGAATAGAGGCGTAGT-GAT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTATAG
*
16603205 AATGGAATAGAGGTGTAATAGCATAA
1 AATGGAATAGAGGCGTAATAG-ATAA
16603231 GGAAAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 18 0.32
40 2 0.04
41 2 0.04
42 1 0.02
43 1 0.02
44 13 0.23
45 2 0.04
46 18 0.32
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTATAG
Found at i:16603382 original size:26 final size:26
Alignment explanation
Indices: 16603353--16603492 Score: 96
Period size: 26 Copynumber: 5.5 Consensus size: 26
16603343 TTAATCATAT
*
16603353 TTTAACATAAATATTATTAAATATAA
1 TTTAATATAAATATTATTAAATATAA
* *
16603379 TTTAATAAAAATATATAATTTAATA-AA
1 TTTAATATAAATAT-T-ATTAAATATAA
* * * *
16603406 -AT-ATATGAAT-TTACTAAA-ATCA
1 TTTAATATAAATATTATTAAATATAA
* *
16603428 --TAATATATAATACTATAAAATATAA
1 TTTAATATA-AATATTATTAAATATAA
* *
16603453 TTTAAAATAATTATTATTAAATATAA
1 TTTAATATAAATATTATTAAATATAA
*
16603479 TTTAATAAAAATAT
1 TTTAATATAAATAT
16603493 ATAATTTGAT
Statistics
Matches: 84, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
21 2 0.02
22 9 0.11
23 4 0.05
24 6 0.07
25 9 0.11
26 38 0.45
27 9 0.11
28 7 0.08
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (26 bp):
TTTAATATAAATATTATTAAATATAA
Found at i:16603396 original size:18 final size:18
Alignment explanation
Indices: 16603373--16603506 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
16603363 ATATTATTAA
16603373 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
16603391 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
16603408 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
16603426 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* * *
16603442 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
16603461 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
16603473 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
16603491 ATATAATTTGATAAAA
1 ATATAATTTAATAAAA
16603507 TTATTTAGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 4 0.05
16 8 0.09
17 20 0.23
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:16603577 original size:64 final size:63
Alignment explanation
Indices: 16603407--16603592 Score: 212
Period size: 59 Copynumber: 3.0 Consensus size: 63
16603397 TTTAATAAAA
16603407 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTAT
* * * *
16603470 TAAATAT-AATTTA--ATAA--A-AATATATAAT-TTGATAAAAT-T-ATTTAGTATTAGA-TAT
1 T--ATATGAATTTACTAAAATCATAATATATAATACT-ATAAAATATAATTTA-AAATA-ATTAT
16603525 TAT
61 TAT
*
16603528 TATATGAATTTACTAAAATCATAATATATAATACTACAAAATATAATTTAAAATAATTATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTAT
16603591 TA
1 TA
16603593 AATATAATTT
Statistics
Matches: 99, Mismatches: 9, Indels: 30
0.72 0.07 0.22
Matches are distributed among these distances:
56 4 0.04
57 11 0.11
58 12 0.12
59 21 0.21
60 1 0.01
61 1 0.01
62 20 0.20
63 14 0.14
64 11 0.11
65 4 0.04
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (63 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTAT
Found at i:16612675 original size:31 final size:31
Alignment explanation
Indices: 16612637--16612698 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
16612627 ATAACACGAG
16612637 TTAATGCAATAATAGGGGTTTTAATTAGAAA
1 TTAATGCAATAATAGGGGTTTTAATTAGAAA
*
16612668 TTAATGCAATAATTGGGGTTTTAATTAGAAA
1 TTAATGCAATAATAGGGGTTTTAATTAGAAA
16612699 GAAATTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (31 bp):
TTAATGCAATAATAGGGGTTTTAATTAGAAA
Found at i:16627058 original size:20 final size:20
Alignment explanation
Indices: 16627035--16627074 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16627025 AAATGAAATG
*
16627035 AAATGTAATGAAATGGTTTA
1 AAATGCAATGAAATGGTTTA
*
16627055 AAATGCAATGGAATGGTTTA
1 AAATGCAATGAAATGGTTTA
16627075 GCAACAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (20 bp):
AAATGCAATGAAATGGTTTA
Found at i:16633807 original size:19 final size:19
Alignment explanation
Indices: 16633783--16633822 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16633773 ATGTCCGTAC
*
16633783 ATAATTTCACTCTCTAAAT
1 ATAATTTCACTATCTAAAT
16633802 ATAATTTCACTATCTAAAT
1 ATAATTTCACTATCTAAAT
16633821 AT
1 AT
16633823 CAAACATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATTTCACTATCTAAAT
Found at i:16642967 original size:21 final size:20
Alignment explanation
Indices: 16642929--16642972 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
16642919 TACAACAACC
* *
16642929 TTAACTATCACTGTTAACTG
1 TTAACTATAACTGCTAACTG
16642949 TTAACTACTAACTGCTAACTG
1 TTAACTA-TAACTGCTAACTG
16642970 TTA
1 TTA
16642973 TAACAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
TTAACTATAACTGCTAACTG
Found at i:16643725 original size:3 final size:3
Alignment explanation
Indices: 16643717--16643750 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16643707 AGAGTGTTTT
16643717 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16643751 GAGAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16644696 original size:10 final size:10
Alignment explanation
Indices: 16644681--16644710 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
16644671 TGTGTAAAAT
16644681 AATTTTTTTA
1 AATTTTTTTA
16644691 AATTTTTTTA
1 AATTTTTTTA
16644701 AATATTTTTT
1 AAT-TTTTTT
16644711 TCTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:16646354 original size:16 final size:16
Alignment explanation
Indices: 16646335--16646370 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16646325 AATAGGGCTA
16646335 TAATGGAATAAAATTG
1 TAATGGAATAAAATTG
* *
16646351 TAATGGAATAGAGTTG
1 TAATGGAATAAAATTG
16646367 TAAT
1 TAAT
16646371 TAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (16 bp):
TAATGGAATAAAATTG
Found at i:16649453 original size:24 final size:24
Alignment explanation
Indices: 16649419--16649470 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16649409 TTTCTAGAAG
* **
16649419 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
16649443 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
16649467 ATTT
1 ATTT
16649471 GACTTTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:16653870 original size:24 final size:24
Alignment explanation
Indices: 16653836--16653887 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16653826 TTTCTAGAAG
* **
16653836 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
16653860 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
16653884 ATTT
1 ATTT
16653888 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:16654637 original size:44 final size:44
Alignment explanation
Indices: 16654588--16654676 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
16654578 CTATCCATGC
*
16654588 AGTTCTTATATATGTGTATACAATCTGATTAATATATTTTAAAT
1 AGTTCTTATATATGTGTATACAATCTAATTAATATATTTTAAAT
*
16654632 AGTTCTTATATATGTGTATACAATTTAATTAATATATTTTAAAT
1 AGTTCTTATATATGTGTATACAATCTAATTAATATATTTTAAAT
16654676 A
1 A
16654677 TACTCCATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (44 bp):
AGTTCTTATATATGTGTATACAATCTAATTAATATATTTTAAAT
Found at i:16660724 original size:19 final size:19
Alignment explanation
Indices: 16660687--16660724 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
16660677 TCCATTTTAT
16660687 CAAAATAATATCCAAAAATC
1 CAAAATAATAT-CAAAAATC
16660707 CAAAATTAATAT-AAAAAT
1 CAAAA-TAATATCAAAAAT
16660725 AAAAATACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (19 bp):
CAAAATAATATCAAAAATC
Found at i:16660923 original size:21 final size:21
Alignment explanation
Indices: 16660899--16660951 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
16660889 CCTTGTATAA
16660899 AATTTAATTTGAGCATTT-A-AT
1 AATTTAATTTGA--ATTTCACAT
* *
16660920 AATTTTATTTTAATTTCACAT
1 AATTTAATTTGAATTTCACAT
16660941 AATTTAATTTG
1 AATTTAATTTG
16660952 TTTCTACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.15
20 1 0.04
21 21 0.81
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (21 bp):
AATTTAATTTGAATTTCACAT
Found at i:16662727 original size:14 final size:14
Alignment explanation
Indices: 16662708--16662737 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16662698 TTACCAATTC
*
16662708 AACATAAACTTCCA
1 AACATAAACATCCA
16662722 AACATAAACATCCA
1 AACATAAACATCCA
16662736 AA
1 AA
16662738 TCACTATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AACATAAACATCCA
Found at i:16663079 original size:20 final size:20
Alignment explanation
Indices: 16663054--16663115 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
16663044 GAAGTACAAA
16663054 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
16663074 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
*
16663094 CAGGGGCATGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
16663114 CA
1 CA
16663116 AGGGTACCAA
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
19 1 0.03
20 26 0.90
21 2 0.07
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.21
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:16663154 original size:40 final size:40
Alignment explanation
Indices: 16663006--16663155 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
16662996 GAGTTACTGG
* * * *
16663006 AGTACAAATA-GAGGCACGTAAGTGCATT-TAGGAGTACTGA
1 AGTACAAACAGGA-GCACGTATGTGCATTCAAGG-GTACCGA
* *
16663046 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGA
* * *
16663086 AGTACAAACAGGGGCATGTATGTGCATTCAAGGGTACCAA
1 AGTACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGA
16663126 AGTACAAACAGGAGCACGTATGTGCATTCA
1 AGTACAAACAGGAGCACGTATGTGCATTCA
16663156 TTCAATAGTT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
40 94 0.97
41 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (40 bp):
AGTACAAACAGGAGCACGTATGTGCATTCAAGGGTACCGA
Found at i:16667048 original size:19 final size:19
Alignment explanation
Indices: 16667011--16667048 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16667001 GTAATTAAAC
*
16667011 TTGAAAATTGGACCTGAGA
1 TTGAAAATTGGACCCGAGA
16667030 TTGAAAATTAGG-CCCGAGA
1 TTGAAAATT-GGACCCGAGA
16667049 ACACAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (19 bp):
TTGAAAATTGGACCCGAGA
Found at i:16667385 original size:20 final size:20
Alignment explanation
Indices: 16667360--16667456 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
16667350 ATTCAAAAAA
*
16667360 TAATATTATTTTAATAGATT
1 TAATATTAATTTAATAGATT
*
16667380 TAATATTAAATT--TA-ATT
1 TAATATTAATTTAATAGATT
* *
16667397 TAATATTTATCTTGTAGATAAATAT
1 TAATA-TTA-ATT-TA-ATAGAT-T
*
16667422 T-CTATTAATTTAATAGATT
1 TAATATTAATTTAATAGATT
16667441 TAATATTAAATTTAAT
1 TAATATT-AATTTAAT
16667457 CTAATATTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
17 8 0.14
18 5 0.08
19 3 0.05
20 20 0.34
21 10 0.17
22 2 0.03
23 5 0.08
24 4 0.07
25 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (20 bp):
TAATATTAATTTAATAGATT
Found at i:16667435 original size:61 final size:58
Alignment explanation
Indices: 16667362--16667494 Score: 203
Period size: 61 Copynumber: 2.2 Consensus size: 58
16667352 TCAAAAAATA
* *
16667362 ATATTATTTTAATAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATT
* *
16667423 CTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATT
16667481 ATATTAATTTAATA
1 ATATTAATTTAATA
16667495 TTAAGGTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 21 0.31
59 2 0.03
60 1 0.01
61 43 0.64
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATT
Found at i:16671602 original size:45 final size:45
Alignment explanation
Indices: 16671527--16671619 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
16671517 CTTGTCAAAG
* * * *
16671527 GATGTCATAGCGTCTTTCAGCCATGATCTTAGTC-TTATTTATCAT
1 GATGTCATAACGTATTTCAGCCATGATCTTACTCATT-TATATCAT
*
16671572 GATGTCATAATGTATTTCAGCCATTG-TCTTACTCATTTATATCAT
1 GATGTCATAACGTATTTCAGCCA-TGATCTTACTCATTTATATCAT
16671617 GAT
1 GAT
16671620 ACCATATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 37 0.90
46 4 0.10
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (45 bp):
GATGTCATAACGTATTTCAGCCATGATCTTACTCATTTATATCAT
Found at i:16677018 original size:13 final size:13
Alignment explanation
Indices: 16676995--16677033 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
16676985 CAAATAATAT
16676995 TAATAAAAATAAAA
1 TAAT-AAAATAAAA
16677009 TAATAAAATAAAA
1 TAATAAAATAAAA
16677022 TAATAAAA-AAAA
1 TAATAAAATAAAA
16677034 CTATCGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAATAAAATAAAA
Found at i:16683713 original size:20 final size:20
Alignment explanation
Indices: 16683688--16683726 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16683678 TGAGTTATTT
16683688 AAGCAAGCA-AGTAAGTAAAC
1 AAGCAAG-AGAGTAAGTAAAC
16683708 AAGCAAGAGAGTAAGTAAA
1 AAGCAAGAGAGTAAGTAAA
16683727 GAAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.10, G:0.23, T:0.10
Consensus pattern (20 bp):
AAGCAAGAGAGTAAGTAAAC
Found at i:16689135 original size:13 final size:13
Alignment explanation
Indices: 16689117--16689166 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
16689107 TTAACAATTC
16689117 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
*
16689130 TTTTGAAAGGTGT
1 TTTTGAAAAGTGT
*** *
16689143 TGGGGAAAAGTGC
1 TTTTGAAAAGTGT
16689156 TTTTGAAAAGT
1 TTTTGAAAAGT
16689167 TTGATTTAAG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:16690683 original size:15 final size:16
Alignment explanation
Indices: 16690663--16690699 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16690653 TCACTATCAA
16690663 TAATAAAATGA-GACT
1 TAATAAAATGACGACT
*
16690678 TAAT-AATTGACGACT
1 TAATAAAATGACGACT
16690693 TAATAAA
1 TAATAAA
16690700 TGTATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 12 0.63
16 2 0.11
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (16 bp):
TAATAAAATGACGACT
Found at i:16692518 original size:34 final size:35
Alignment explanation
Indices: 16692474--16692540 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16692464 CAGTAAAATA
*
16692474 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
16692508 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
16692541 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:16698885 original size:14 final size:14
Alignment explanation
Indices: 16698863--16698900 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16698853 ATGTGTTTGG
16698863 TATAAAAAAATTTA
1 TATAAAAAAATTTA
*
16698877 TATATAAAAATTTA
1 TATAAAAAAATTTA
*
16698891 -ACAAAAAAAT
1 TATAAAAAAAT
16698901 ATTGAATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TATAAAAAAATTTA
Found at i:16699100 original size:18 final size:20
Alignment explanation
Indices: 16699079--16699115 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
16699069 ATTAAAATAA
16699079 AAAAATAA-ATA-ATTTTTT
1 AAAAATAATATATATTTTTT
*
16699097 AAAATTAATATATATTTTT
1 AAAAATAATATATATTTTT
16699116 ACCAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 3 0.19
20 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATAATATATATTTTTT
Found at i:16699106 original size:17 final size:19
Alignment explanation
Indices: 16699080--16699116 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
16699070 TTAAAATAAA
16699080 AAAATAAATA-AT-TTTTT
1 AAAATAAATATATATTTTT
*
16699097 AAAATTAATATATATTTTT
1 AAAATAAATATATATTTTT
16699116 A
1 A
16699117 CCAAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATAAATATATATTTTT
Found at i:16703082 original size:197 final size:199
Alignment explanation
Indices: 16702712--16703113 Score: 709
Period size: 197 Copynumber: 2.0 Consensus size: 199
16702702 ACTTTGAGTT
16702712 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
1 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
16702777 CAAGAACTACTTATCTCTCGATGTCATAGTTTAGACCGGATTGGGGTAAGGTTTTCACGGATAGA
66 CAAGAACTACTTA---CTC-A-GTCATAGTTTAGACCGGATTGGGGTAAGGTTTTCACGGATAGA
*
16702842 AAATACCAATTTTGAGTTCATTCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTA
126 AAATACCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTA
16702907 AGTTCTTCC
191 AGTTCTTCC
16702916 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
1 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
** *
16702981 CAAGAACTACTTA-TC-GTCATAGTTTAGACCGGATTGGGGTAAGGTTTTCACGGATAGCCAATG
66 CAAGAACTACTTACTCAGTCATAGTTTAGACCGGATTGGGGTAAGGTTTTCACGGATAGAAAATA
16703044 CCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTAAGTTC
131 CCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTAAGTTC
16703109 TTCC
196 TTCC
16703113 T
1 T
16703114 ATCCCAACCA
Statistics
Matches: 194, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
197 114 0.59
200 2 0.01
204 78 0.40
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (199 bp):
TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
CAAGAACTACTTACTCAGTCATAGTTTAGACCGGATTGGGGTAAGGTTTTCACGGATAGAAAATA
CCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTAAGTTC
TTCC
Found at i:16718886 original size:11 final size:11
Alignment explanation
Indices: 16718870--16718896 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16718860 ATGCTATTGA
16718870 AATGGGAATGT
1 AATGGGAATGT
16718881 AATGGGAATGT
1 AATGGGAATGT
16718892 AATGG
1 AATGG
16718897 AAACATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (11 bp):
AATGGGAATGT
Found at i:16719030 original size:13 final size:13
Alignment explanation
Indices: 16719012--16719059 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
16719002 AGTTTAGCAA
16719012 TGCTTTTGAAAGG
1 TGCTTTTGAAAGG
16719025 TGCTTTTGAAAGG
1 TGCTTTTGAAAGG
* * *
16719038 TGCTGTGGAAAAG
1 TGCTTTTGAAAGG
16719051 TGCTTTTGA
1 TGCTTTTGA
16719060 GAAATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAGG
Found at i:16727883 original size:51 final size:51
Alignment explanation
Indices: 16727819--16727949 Score: 165
Period size: 51 Copynumber: 2.6 Consensus size: 51
16727809 TGATAGGTCG
* *
16727819 CATGTGTAGTACTATTTACAAGCTACTATGCGTACCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTACAAGCTACTATGCGTACCGGATAGTAAT-GATCA
* * * * * * *
16727870 CGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTACAAGCTACTATGCGTACCGGATAGTAATGATCA
16727921 CATGTGTAGTACTATGTACAAGCTACTAT
1 CATGTGTAGTACTATGTACAAGCTACTAT
16727950 ATGAACCGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 66 0.99
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTATGTACAAGCTACTATGCGTACCGGATAGTAATGATCA
Found at i:16727883 original size:101 final size:102
Alignment explanation
Indices: 16727766--16727949 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 102
16727756 AAAGTGATGG
* * *
16727766 TCACGTGTGTATTACTATGTGCAGGCTACTACGTGTACCAGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
*
16727829 ACTATTTACAAGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTACAAGCTACTATGCGTACCGGATAGTTTCGA
* * *
16727867 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
16727932 CTATGTACAAGCTACTAT
66 CTATGTACAAGCTACTAT
16727950 ATGAACCGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 5 0.07
101 37 0.50
102 32 0.43
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTACAAGCTACTATGCGTACCGGATAGTTTCGA
Found at i:16728010 original size:45 final size:45
Alignment explanation
Indices: 16727954--16728048 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
16727944 TACTATATGA
* * *
16727954 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
*
16727999 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
16728044 ACCGA
1 ACCGA
16728049 GTATCTGCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
Found at i:16737927 original size:25 final size:26
Alignment explanation
Indices: 16737899--16737958 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
16737889 TGGCTCGTAT
**
16737899 GAGCTTCCCGATAAT-TGGCTCACAA
1 GAGCTTCCCGATAATACAGCTCACAA
* *
16737924 GAGCTTCCC-ATTATACAGCTCACAT
1 GAGCTTCCCGATAATACAGCTCACAA
16737949 GAGCTTCCCG
1 GAGCTTCCCG
16737959 TTACATGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (26 bp):
GAGCTTCCCGATAATACAGCTCACAA
Found at i:16755106 original size:32 final size:32
Alignment explanation
Indices: 16755070--16755133 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
16755060 AAAGTTCCCT
16755070 TTTTTCTAATTTAAAATTTA-ATTTTATACTTA
1 TTTTTCTAATTTAAAATTTATATTTTAT-CTTA
* ** *
16755102 TTTTTTTGTTTTAAATTTTATATTTTATCTTA
1 TTTTTCTAATTTAAAATTTATATTTTATCTTA
16755134 ATGTTATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (32 bp):
TTTTTCTAATTTAAAATTTATATTTTATCTTA
Found at i:16757430 original size:12 final size:12
Alignment explanation
Indices: 16757413--16757445 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
16757403 AATTGAATAA
16757413 AATGTAAAATTG
1 AATGTAAAATTG
*
16757425 AATGTAGAATTG
1 AATGTAAAATTG
16757437 AATGTAAAA
1 AATGTAAAA
16757446 ATAGGAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (12 bp):
AATGTAAAATTG
Found at i:16768587 original size:20 final size:21
Alignment explanation
Indices: 16768543--16768590 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
16768533 GAACATGTTA
*
16768543 ATTTTTAGTTAATTTTACAATT
1 ATTTTTAGTGAATTTTA-AATT
*
16768565 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTGAATTTTAAATT
16768585 ATTTTT
1 ATTTTT
16768591 GACAAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTTTTAGTGAATTTTAAATT
Found at i:16779679 original size:19 final size:19
Alignment explanation
Indices: 16779640--16779676 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
16779630 CGATAGAATT
16779640 TTTTTCATAAAATAATTAA
1 TTTTTCATAAAATAATTAA
16779659 TTTTT-ATAAAATAATTAA
1 TTTTTCATAAAATAATTAA
16779677 ATTGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTTCATAAAATAATTAA
Found at i:16779687 original size:19 final size:18
Alignment explanation
Indices: 16779646--16779688 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
16779636 AATTTTTTTC
* *
16779646 ATAAAATAATTAATTTTT
1 ATAAAATAATTAAATTGT
16779664 ATAAAATAATTAAATTGT
1 ATAAAATAATTAAATTGT
16779682 ATTAAAA
1 A-TAAAA
16779689 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATAAAATAATTAAATTGT
Found at i:16779731 original size:22 final size:20
Alignment explanation
Indices: 16779703--16779750 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
16779693 TAAAATGTTA
16779703 ATTTTTA-TTCAATTTTACAATT
1 ATTTTTAGTT-AATTTT--AATT
16779725 ATTTTTAGTTAATTTTAATT
1 ATTTTTAGTTAATTTTAATT
16779745 ATTTTT
1 ATTTTT
16779751 GATAGATTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.40
22 13 0.52
23 2 0.08
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTAGTTAATTTTAATT
Found at i:16784387 original size:30 final size:30
Alignment explanation
Indices: 16784330--16784388 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
16784320 GCCTTTTGAA
* *
16784330 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
16784360 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
16784389 GAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:16794196 original size:149 final size:149
Alignment explanation
Indices: 16793923--16794404 Score: 507
Period size: 149 Copynumber: 3.2 Consensus size: 149
16793913 GATAATAACA
* **
16793923 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTACTGCCAATGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-A-TGCCAATGCCATG
* * *
16793985 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCT
64 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATGTCCCAGACATGGTCT
*
16794050 TACGATG-GACTTCTCATCTCGG
128 TAC-ATGAGACTTCTCATATCGG
* *
16794072 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATGTC
* * *
16794137 CCAGACATGGTCTTACATGGGATGTTTTC-TGTAC-TGCCAATGCCATGTCCCAGATATGGTCTT
66 CCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATGTCCCAGACATGGTCTT
* *
16794200 ACATGAGAGTTCTCATATCGT
129 ACATGAGACTTCTCATATCGG
* * * *
16794221 TGCCCATGCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCTCGTTGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGATGCCAATGCCATGT
** * * *
16794285 CCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATAATGTCAATGCCATGTCCTAGACAT
65 CCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC----GTGCCAATGCCATGTCCCAGACAT
* * *
16794350 GGTCTTACACTG-G-C-TCACACATCGA
123 GGTCTTACA-TGAGACTTCTCATATCGG
* *
16794375 TGTCAATGCCATGTCCCAGACATGGTCTTA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTA
16794405 TACAAGATCG
Statistics
Matches: 284, Mismatches: 32, Indels: 29
0.82 0.09 0.08
Matches are distributed among these distances:
148 6 0.02
149 156 0.55
150 39 0.14
151 13 0.05
152 2 0.01
154 36 0.13
156 30 0.11
157 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (149 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATGTCCCAGACATGGTCTTAC
ATGAGACTTCTCATATCGG
Found at i:16794266 original size:199 final size:199
Alignment explanation
Indices: 16793922--16794315 Score: 743
Period size: 199 Copynumber: 2.0 Consensus size: 199
16793912 TGATAATAAC
16793922 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
16793987 CCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTA
66 CCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTA
* *
16794052 CGATGGACTTCTCATCTCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
131 CGATGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
16794117 CTCG
196 CTCG
*
16794121 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
*
16794186 CCAGATATGGTCTTACATGAGAGTTCTCATATCGTTGCCCATGCCATGTCCCAGACATGGTCTTA
66 CCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTA
*
16794251 CGATGGACCTCTCATCTCGTTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
131 CGATGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
16794316 AATTTCAATA
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 190 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (199 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
CCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTA
CGATGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
CTCG
Found at i:16794309 original size:50 final size:50
Alignment explanation
Indices: 16793923--16794404 Score: 457
Period size: 50 Copynumber: 9.6 Consensus size: 50
16793913 GATAATAACA
* * **
16793923 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGT
* * ** * *
16793970 ACTGCCAATGCCATGTCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGT
* * *
16794022 TGCCCATGCCATGTCCCAGACATGGTCTTACGAT-GGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGT
* * *
16794072 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGT
* **
16794122 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGT
* * ** *
16794169 ACTGCCAATGCCATGTCCCAGATATGGTCTTACATGAGAGTTCTCATATCGT
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGT
*
16794221 TGCCCATGCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCTCGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGT
* * *
16794271 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-GT
* * * *
16794325 AATGTCAATGCCATGTCCTAGACATGGTCTTACACT-GG--CTCACA-CATCGA
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATC-TCGT
*
16794375 TGTCAATGCCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
16794405 TACAAGATCG
Statistics
Matches: 365, Mismatches: 48, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
47 1 0.00
48 34 0.09
49 73 0.20
50 198 0.54
51 15 0.04
52 3 0.01
53 4 0.01
54 5 0.01
56 31 0.08
57 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGT
Found at i:16794424 original size:48 final size:48
Alignment explanation
Indices: 16794326--16794424 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 48
16794316 AATTTCAATA
* ** * *
16794326 ATGTCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATCG
1 ATGTCAATGCCATGTCCCAGACATGGTCTTACACAAGATCACACACCG
* * *
16794374 ATGTCAATGCCATGTCCCAGACATGGTCTTATACAAGATCGCATACCG
1 ATGTCAATGCCATGTCCCAGACATGGTCTTACACAAGATCACACACCG
16794422 ATG
1 ATG
16794425 CCATATCCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGTCAATGCCATGTCCCAGACATGGTCTTACACAAGATCACACACCG
Found at i:16796993 original size:12 final size:11
Alignment explanation
Indices: 16796965--16797008 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
16796955 AGATCAATGT
*
16796965 TATTTAATTAA
1 TATTTTATTAA
16796976 TATTTTATTAA
1 TATTTTATTAA
* *
16796987 TATTTTTAGTAT
1 TA-TTTTATTAA
16796999 TATTTTATTA
1 TATTTTATTA
16797009 TTAAATGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:16799805 original size:22 final size:22
Alignment explanation
Indices: 16799762--16799806 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16799752 ATTCAACCAT
* *
16799762 AAGATTAGTAGATTTCTGTAAC
1 AAGATTAGTAGATTTATATAAC
*
16799784 AAGATTAGTATATTTATATAAC
1 AAGATTAGTAGATTTATATAAC
16799806 A
1 A
16799807 CCCCTAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (22 bp):
AAGATTAGTAGATTTATATAAC
Found at i:16803117 original size:31 final size:31
Alignment explanation
Indices: 16803079--16803143 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
16803069 TCCTTTCGGA
16803079 ATCCTTTACTTAGTAAATACACATTTTATTG
1 ATCCTTTACTTAGTAAATACACATTTTATTG
16803110 ATCCTTTACTTAGTAAATACACATTTTATTG
1 ATCCTTTACTTAGTAAATACACATTTTATTG
16803141 ATC
1 ATC
16803144 ATTATTTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (31 bp):
ATCCTTTACTTAGTAAATACACATTTTATTG
Found at i:16812145 original size:18 final size:18
Alignment explanation
Indices: 16812122--16812157 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16812112 TTAGCATACT
*
16812122 TTAGATTTATTGAAACCC
1 TTAGATTTATCGAAACCC
16812140 TTAGATTTATCGAAACCC
1 TTAGATTTATCGAAACCC
16812158 AACCCAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (18 bp):
TTAGATTTATCGAAACCC
Found at i:16814765 original size:49 final size:50
Alignment explanation
Indices: 16814701--16814828 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 50
16814691 CGTATTTTCC
* * * * *
16814701 TCAATCTTTACAATCCCATTTCCTCAAAATCTCGT-CTTTTTCTCC-TTGTT
1 TCAATCTTTAAAATCCCATTTCATCAAAATCCCATAC--TTTCCCCTTTGTT
* *
16814751 T-AATCTGTAAAATCCCAGTTCATCAAAATCCCATACTTTCCCCTTTGTT
1 TCAATCTTTAAAATCCCATTTCATCAAAATCCCATACTTTCCCCTTTGTT
*
16814800 TCAATCTTTAAAATCCCATTTCTTCAAAA
1 TCAATCTTTAAAATCCCATTTCATCAAAA
16814829 ACCCGTTGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
48 6 0.09
49 33 0.51
50 26 0.40
ACGTcount: A:0.27, C:0.28, G:0.04, T:0.41
Consensus pattern (50 bp):
TCAATCTTTAAAATCCCATTTCATCAAAATCCCATACTTTCCCCTTTGTT
Found at i:16818469 original size:18 final size:22
Alignment explanation
Indices: 16818427--16818471 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 22
16818417 ATTAAAATCG
16818427 ATTATTATAAGTACTAAATTTA
1 ATTATTATAAGTACTAAATTTA
16818449 ATTATT-TAAGT-CT-AA-TTA
1 ATTATTATAAGTACTAAATTTA
16818467 ATTAT
1 ATTAT
16818472 CTCACTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 2 0.09
21 5 0.22
22 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTATTATAAGTACTAAATTTA
Done.