Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 50 of 153
Found at i:16582295 original size:29 final size:30
Alignment explanation
Indices: 16582249--16582305 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
16582239 AAGTAATCTA
* *
16582249 ACTCTTTTTAAAAGATTGATGATCAATTCG
1 ACTCTTTTTAAAAAATTGAAGATCAATTCG
*
16582279 ACTC-TTTTAAAAAATTGAAGGTCAATT
1 ACTCTTTTTAAAAAATTGAAGATCAATT
16582306 TTAGTTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (30 bp):
ACTCTTTTTAAAAAATTGAAGATCAATTCG
Found at i:16583069 original size:19 final size:19
Alignment explanation
Indices: 16583042--16583089 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
16583032 CTAGCAGGAT
16583042 AAAAA-TAAAAA-TAAAAG
1 AAAAAGTAAAAAGTAAAAG
16583059 CAAAAAGTAAAAAGTAAAAG
1 -AAAAAGTAAAAAGTAAAAG
*
16583079 TAAAAGTAAAA
1 AAAAAGTAAAA
16583090 GGCCCACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAGTAAAAAGTAAAAG
Found at i:16583090 original size:6 final size:6
Alignment explanation
Indices: 16583041--16583090 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
16583031 TCTAGCAGGA
* * *
16583041 TAAAAA TAAAAA TAAAAG CAAAAAG TAAAAAG TAAAAG TAAAAG TAAAAG
1 TAAAAG TAAAAG TAAAAG -TAAAAG T-AAAAG TAAAAG TAAAAG TAAAAG
16583091 GCCCACACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 28 0.72
7 11 0.28
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (6 bp):
TAAAAG
Found at i:16584163 original size:23 final size:24
Alignment explanation
Indices: 16584123--16584173 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
16584113 CTGCCTCCAC
** *
16584123 ATTAAATATATATTATAA-ATTTA
1 ATTAAATATATAAAATAATATTAA
*
16584146 ATTAAATCTATAAAATAATATTAA
1 ATTAAATATATAAAATAATATTAA
16584170 ATTA
1 ATTA
16584174 TAACACACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTAAATATATAAAATAATATTAA
Found at i:16586669 original size:13 final size:13
Alignment explanation
Indices: 16586648--16586685 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
16586638 TTTATCAAGT
*
16586648 AAATTTTTTAATC
1 AAATATTTTAATC
16586661 AAATATTTTAATC
1 AAATATTTTAATC
16586674 AAATATTTTAAT
1 AAATATTTTAAT
16586686 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTAATC
Found at i:16588013 original size:20 final size:18
Alignment explanation
Indices: 16587985--16588023 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
16587975 TACTTATTAT
*
16587985 TTAATAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
16588005 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
16588023 T
1 T
16588024 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:16588060 original size:28 final size:28
Alignment explanation
Indices: 16588021--16588074 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
16588011 AATATAATAT
* *
16588021 AATAATATAAAGTA-AAAGAAATCAAAGA
1 AATAATAAAAAGAATAAAGAAA-CAAAGA
16588049 AATAATAAAAAGAATAAAGAAACAAA
1 AATAATAAAAAGAATAAAGAAACAAA
16588075 AGTAAGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (28 bp):
AATAATAAAAAGAATAAAGAAACAAAGA
Found at i:16594565 original size:16 final size:16
Alignment explanation
Indices: 16594544--16594577 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16594534 ATATTAAATG
*
16594544 ATTTTATAAATTTATA
1 ATTTTATAAATTAATA
*
16594560 ATTTTATTAATTAATA
1 ATTTTATAAATTAATA
16594576 AT
1 AT
16594578 ATATTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATAAATTAATA
Found at i:16595116 original size:17 final size:17
Alignment explanation
Indices: 16595096--16595128 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16595086 TTAATTATTA
16595096 TAAAT-AATATATTAGAT
1 TAAATAAATA-ATTAGAT
16595113 TAAATAAATAATTAGA
1 TAAATAAATAATTAGA
16595129 AGTTGCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAAATAAATAATTAGAT
Found at i:16603201 original size:35 final size:36
Alignment explanation
Indices: 16603162--16603246 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
16603152 ATCCGTCTAT
16603162 GGCAACCTTTAAAAGGTTGGGAT-TGACTCATTTAA
1 GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
* * **
16603197 GGCAACCTTAAAAAGGTTGGGATATGCCTTGTTTAA
1 GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
* *
16603233 AGCAACCCTTAAAA
1 GGCAACCTTTAAAA
16603247 AAATTTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 22 0.52
36 20 0.48
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (36 bp):
GGCAACCTTTAAAAGGTTGGGATATGACTCATTTAA
Found at i:16603352 original size:37 final size:36
Alignment explanation
Indices: 16603086--16603446 Score: 189
Period size: 38 Copynumber: 9.8 Consensus size: 36
16603076 TAAACCTGTA
* * * * *
16603086 TAAGGCAA-CTATAAAAAGGTTGGTATAGTTCTTGTC
1 TAAGGCAACCTTTAAAAAGGTTGGGATAG-ACATGTT
* * *
16603122 TAAGGCAACTTTTAAGAATA-GTTGGGATAGATC-CGTC
1 TAAGGCAACCTTTAA-AA-AGGTTGGGATAGA-CATGTT
* * *
16603159 TATGGCAACCTTT-AAAAGGTTGGGATTGAC-TCATT
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGACAT-GTT
* *
16603194 TAAGGCAACC-TTAAAAAGGTTGGGATATGCCTTGTT
1 TAAGGCAACCTTTAAAAAGGTTGGGATA-GACATGTT
* * ** * * *
16603230 TAAAGCAACCCTTAAAAAAATTTGGTATAAACCT-TAT
1 TAAGGCAA-CCTTTAAAAAGGTTGGGATAGACATGT-T
* * * * * *
16603267 CTAAAGCAACTTTTTAAAAAAGTTGAGATAGATCTTGTC
1 -TAAGGCAAC-CTTTAAAAAGGTTGGGATAGA-CATGTT
* *
16603306 TAAGGCAACCTTTAGGAAAGGTTGGGATAGGCATGTT
1 TAAGGCAACCTTTA-AAAAGGTTGGGATAGACATGTT
* * * *
16603343 TAAGGCAACCTTTTAAAAATGTTAGAATAGACATTGTC
1 TAAGGCAACC-TTTAAAAAGGTTGGGATAGACA-TGTT
* * *
16603381 TAAGGTAACCTTAAAAAAAGGTTGGGATAGACTTGTT
1 TAAGGCAACCTT-TAAAAAGGTTGGGATAGACATGTT
* * *
16603418 TAAAGCAA-CGTTAAAAAGGTTGCGATAGA
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGA
16603447 TTCTTCTAAG
Statistics
Matches: 248, Mismatches: 57, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
34 4 0.02
35 51 0.21
36 23 0.09
37 67 0.27
38 99 0.40
39 3 0.01
40 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (36 bp):
TAAGGCAACCTTTAAAAAGGTTGGGATAGACATGTT
Found at i:16603373 original size:75 final size:75
Alignment explanation
Indices: 16603268--16603469 Score: 209
Period size: 75 Copynumber: 2.7 Consensus size: 75
16603258 AAACCTTATC
* * **
16603268 TAAAGCAACTTTTTAAAAAAGTTGAGATAGATC-TTGTCTAAGGCAACCTTTAGGAAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGA-CATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
*
16603332 ATAGGCATGTT
65 ATAGACATGTT
* * *
16603343 TAAGGCAACCTTTTAAAAATGTT-AGAATAGACATTGTCTAAGGTAACCTTAAAAAAAGGTTGGG
1 TAAAGCAACCTTTTAAAAAAGTTGAG-ATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGG
*
16603407 ATAGACTTGTT
65 ATAGACATGTT
* * * * *
16603418 TAAAGCAA-C-GTTAAAAAGGTTGCGATAG--ATTCTTCTAAGGTAACCTTAAAAA
1 TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATT-GTCTAAGGCAACCTTAAAAA
16603470 CGTTGGTATA
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
71 3 0.03
72 19 0.17
73 14 0.13
74 5 0.05
75 68 0.62
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (75 bp):
TAAAGCAACCTTTTAAAAAAGTTGAGATAGACATTGTCTAAGGCAACCTTAAAAAAAGGTTGGGA
TAGACATGTT
Found at i:16603467 original size:35 final size:36
Alignment explanation
Indices: 16603379--16603474 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 36
16603369 ATAGACATTG
* *
16603379 TCTAAGGTAACCTTAAAAAAAGGTTGGGATAGACTTGT
1 TCTAAGGTAACCTT--AAAAAGGTTGCGATAGACTTCT
* * *
16603417 T-TAAAGCAACGTTAAAAAGGTTGCGATAGA-TTCT
1 TCTAAGGTAACCTTAAAAAGGTTGCGATAGACTTCT
*
16603451 TCTAAGGTAACCTTAAAAACGTTG
1 TCTAAGGTAACCTTAAAAAGGTTG
16603475 GTATATATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
34 4 0.08
35 34 0.71
37 9 0.19
38 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
TCTAAGGTAACCTTAAAAAGGTTGCGATAGACTTCT
Found at i:16607774 original size:17 final size:17
Alignment explanation
Indices: 16607752--16607784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16607742 TGCATATTTG
16607752 AATAAAAACAACCCAAA
1 AATAAAAACAACCCAAA
*
16607769 AATAAAAACAGCCCAA
1 AATAAAAACAACCCAA
16607785 GGAAATATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (17 bp):
AATAAAAACAACCCAAA
Found at i:16613102 original size:74 final size:74
Alignment explanation
Indices: 16612981--16613359 Score: 351
Period size: 74 Copynumber: 5.1 Consensus size: 74
16612971 NNNNNNNNNN
* * * *
16612981 ACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATTGAG
1 ACGCTGAGGTAATTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
16613046 CCTTAGGAC
66 CCTTAGGAC
* **
16613055 ACGCTGAGGTAATTTTAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAAATGAGTTGAG
1 ACGCTGAGGTAATTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
16613120 CCTCAAGAC
66 CCTTAGGAC
** * *
16613129 ACATTGAGGT-ATTTTCAATTTCTATTTTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGA
1 ACGCTGAGGTAATTTT-AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
16613191 GCC-TCGGTTCAC
65 GCCTTAGG---AC
* * * * * * *
16613203 ATGCTGAGGTAATTTCAAATTGTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAG
1 ACGCTGAGGTAATTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
16613268 -CTTCAAGAC
66 CCTT-AGGAC
** * * * *
16613277 ATACTTAGGT-ATTGTCAATTTTTTGTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAA
1 ACGCTGAGGTAATT-TTAA-TTTCTG--T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
16613339 TTGAGCCTCAGGAC
61 TTGAGCCTTAGGAC
16613353 ACGCTGA
1 ACGCTGA
16613360 ATGAGTTGAG
Statistics
Matches: 247, Mismatches: 43, Indels: 28
0.78 0.14 0.09
Matches are distributed among these distances:
71 1 0.00
72 32 0.13
73 8 0.03
74 119 0.48
75 9 0.04
76 71 0.29
77 4 0.02
78 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (74 bp):
ACGCTGAGGTAATTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTTAGGAC
Found at i:16613253 original size:148 final size:146
Alignment explanation
Indices: 16612985--16613359 Score: 450
Period size: 148 Copynumber: 2.5 Consensus size: 146
16612975 NNNNNNACGC
* *
16612985 TGAGGTAATTTT-AATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCT
1 TGAGGT-ATTTTCAATTTCTA-TTTT-CAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC-
* * * * * *
16613049 TAGGACACGCTGAGGTAATTTTAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAAATGA
62 TCGGACACGCTGAGGTAATTTCAAATTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAACGA
16613114 GTTGAGCCTCAAGACACA-T
127 GTTGAGCCTCAAGACACACT
* *
16613133 TGAGGTATTTTCAATTTCTATTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TGAGGTATTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGG
* * * **
16613198 TTCACATGCTGAGGTAATTTCAAATTGTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
66 ---ACACGCTGAGGTAATTTCAAATTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAACGAG
* *
16613263 TTGAGCTTCAAGACATACT
128 TTGAGCCTCAAGACACACT
* *
16613282 T-AGGTATTGTCAATTTTTTGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
1 TGAGGTATTTTCAA---TTTCTAT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
16613346 TCAGGACACGCTGA
62 TC-GGACACGCTGA
16613360 ATGAGTTGAG
Statistics
Matches: 195, Mismatches: 22, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
145 3 0.02
146 33 0.17
147 9 0.05
148 92 0.47
149 2 0.01
150 8 0.04
151 6 0.03
152 40 0.21
153 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (146 bp):
TGAGGTATTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGG
ACACGCTGAGGTAATTTCAAATTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAACGAGTTG
AGCCTCAAGACACACT
Found at i:16614659 original size:22 final size:23
Alignment explanation
Indices: 16614631--16614685 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
16614621 AATTTTTTTA
16614631 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
16614653 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
16614677 -TA-ATATTAT
1 ATATATATTAT
16614686 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:16616095 original size:14 final size:15
Alignment explanation
Indices: 16616072--16616111 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
16616062 ACAGAAAAGT
*
16616072 AAAA-CATTTTCCA-
1 AAAATCATTTTACAG
16616085 AAAATCATTTTACAG
1 AAAATCATTTTACAG
16616100 AAAAT-ATTTTAC
1 AAAATCATTTTAC
16616112 CGACAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAATCATTTTACAG
Found at i:16616095 original size:34 final size:35
Alignment explanation
Indices: 16616036--16616103 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
16616026 TCAAACACCA
* *
16616036 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
1 TAAAACATTTTCCAGAAAATCATTTTACAGAAAAG
16616071 TAAAACATTTTCCA-AAAATCATTTTACAGAAAA
1 TAAAACATTTTCCAGAAAATCATTTTACAGAAAA
16616104 TATTTTACCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (35 bp):
TAAAACATTTTCCAGAAAATCATTTTACAGAAAAG
Found at i:16616924 original size:18 final size:19
Alignment explanation
Indices: 16616901--16616938 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16616891 ATTTTCTCTA
16616901 TTTTTAATAATTT-TTTAT
1 TTTTTAATAATTTATTTAT
*
16616919 TTTTTAATGATTTATTTAT
1 TTTTTAATAATTTATTTAT
16616938 T
1 T
16616939 AAACTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTTAATAATTTATTTAT
Found at i:16617334 original size:51 final size:51
Alignment explanation
Indices: 16617265--16617405 Score: 142
Period size: 51 Copynumber: 2.8 Consensus size: 51
16617255 TTGTGTAAAT
* * **
16617265 ATTGAC-AGAATGTGTAAATTTTGCAAGTTAAATTTGTTAAATCAGGACCAA
1 ATTGACAAG-ATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
* ** * *
16617316 ATTGACAAGATGTATAAATATTGTGAGCTAAATTTGTTCAATTAAAACCAA
1 ATTGACAAGATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
* * *
16617367 ATTGACAAAATGTATAAACTTTG-AGGGCTAAATTTGTTA
1 ATTGACAAGATGTATAAATTTTGCA-AGCTAAATTTGTTA
16617406 TTATATAAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
51 71 0.97
52 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (51 bp):
ATTGACAAGATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
Found at i:16628686 original size:15 final size:15
Alignment explanation
Indices: 16628651--16628702 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16628641 TTAAGAATTT
*
16628651 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16628665 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16628679 TATTTAATAATAAT-
1 TATTTAATTATAATA
16628693 TATGTTAATT
1 TAT-TTAATT
16628703 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16628745 original size:120 final size:120
Alignment explanation
Indices: 16628595--16628818 Score: 414
Period size: 120 Copynumber: 1.9 Consensus size: 120
16628585 AGTTTCTTTA
* *
16628595 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGA-TTATTAAGAATTTTATTAAAT
1 TATCATATATTATGATTTCAGTAAATTCATATAAGAAAATT-ATTTATTAAGAATTTTATTAAAT
16628659 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAG
65 TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAG
16628715 TATCATATATTATGATTTCAGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTCAGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATTAAATT
16628780 ATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTT
16628819 TAAATATGAT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 1 0.01
120 100 0.99
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TATCATATATTATGATTTCAGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAG
Found at i:16628784 original size:61 final size:60
Alignment explanation
Indices: 16628599--16628786 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 60
16628589 TCTTTATATC
*
16628599 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGA-TTATTAAGAATTTTATTAAATT
1 ATATATTATGATTT-AGTAAATTCATATAAGAAAATT-ATTTATTAAGAATTTTATTAAATT
* * * * * * * *
16628660 ATATATT-TTAATTA-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATTTAGTAAAT-TCATATAAGAA-AATTAT-TT-ATTAAGAATTTTATTA-AATT
16628719 ATATATTATGATTTCAGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATTAAATT
1 ATATATTATGATTT-AGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATTAAATT
16628780 ATATATT
1 ATATATT
16628787 TTAATTATAA
Statistics
Matches: 97, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
57 11 0.11
58 7 0.07
59 18 0.19
60 16 0.16
61 25 0.26
62 10 0.10
63 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (60 bp):
ATATATTATGATTTAGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATTAAATT
Found at i:16628801 original size:16 final size:16
Alignment explanation
Indices: 16628780--16628821 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16628770 TTATTAAATT
*
16628780 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16628796 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16628811 AT-TATGTTTAA
1 ATATAT-TTTAA
16628822 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16628806 original size:15 final size:15
Alignment explanation
Indices: 16628771--16628812 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16628761 TTAAGAATTT
*
16628771 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16628785 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16628799 TATTTAATAATAAT
1 TATTTAATTATAAT
16628813 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16629080 original size:16 final size:16
Alignment explanation
Indices: 16629048--16629097 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
16629038 ACATCTCTAA
*
16629048 TCCATTAC-ACTTCTAT
1 TCCATTACGCCTT-TAT
16629064 TCCATTACGCCTTTAT
1 TCCATTACGCCTTTAT
*
16629080 TCCATTACGCCTCTAT
1 TCCATTACGCCTTTAT
16629096 TC
1 TC
16629098 TAATACAGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 28 0.90
17 3 0.10
ACGTcount: A:0.20, C:0.34, G:0.04, T:0.42
Consensus pattern (16 bp):
TCCATTACGCCTTTAT
Found at i:16629298 original size:37 final size:40
Alignment explanation
Indices: 16629229--16629308 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 40
16629219 ATTTTAAATT
*
16629229 AATAATGATAAAATTATATTTTAATCTCTTAAAAATAATA
1 AATAATAATAAAATTATATTTTAATCTCTTAAAAATAATA
* * *
16629269 AATAATAAT-AAATTA-A-TTTAATTTTTTAAAAATTATA
1 AATAATAATAAAATTATATTTTAATCTCTTAAAAATAATA
16629306 AAT
1 AAT
16629309 GTATAGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 21 0.58
38 1 0.03
39 6 0.17
40 8 0.22
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
AATAATAATAAAATTATATTTTAATCTCTTAAAAATAATA
Found at i:16634266 original size:21 final size:21
Alignment explanation
Indices: 16634240--16634280 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16634230 ATCTGCTCAA
* *
16634240 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16634261 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16634281 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16639047 original size:21 final size:21
Alignment explanation
Indices: 16639021--16639061 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16639011 ATCTGCTCAA
* *
16639021 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16639042 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16639062 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16647463 original size:17 final size:17
Alignment explanation
Indices: 16647414--16647452 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16647404 TCTAGTTCAG
* * *
16647414 GAAAAAAAAAGAAAAAA
1 GAAAAAAGAAGAAGAGA
16647431 GAAAAAAGAAGAAGAGA
1 GAAAAAAGAAGAAGAGA
16647448 GAAAA
1 GAAAA
16647453 TAGAGAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAGAAGAGA
Found at i:16674671 original size:14 final size:15
Alignment explanation
Indices: 16674652--16674681 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16674642 TATATATATG
16674652 AATAATAAT-AATAA
1 AATAATAATAAATAA
16674666 AATAATAATAAATAA
1 AATAATAATAAATAA
16674681 A
1 A
16674682 TAAATGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:16675657 original size:20 final size:20
Alignment explanation
Indices: 16675621--16675660 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16675611 TCCTATTGTT
16675621 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
16675641 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
16675661 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:16682064 original size:22 final size:20
Alignment explanation
Indices: 16682039--16682078 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16682029 TTAAAAAATT
*
16682039 GTTAAGATACATATATATATAA
1 GTTAA-ATAAATA-ATATATAA
16682061 GTTAAATAAATAATATAT
1 GTTAAATAAATAATATAT
16682079 TAAATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (20 bp):
GTTAAATAAATAATATATAA
Found at i:16684468 original size:42 final size:42
Alignment explanation
Indices: 16684422--16684583 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
16684412 GCACATGAGT
* * *
16684422 GCTAAAC-AGAAACCCGTAAGGGTTGAATGGAAGCTC-ATAAGA
1 GCTAAACGA-AAACCCATAAGGGTTAAATAGAAGCTCAAT-AGA
* * *
16684464 GCTAAACGAAAACCCATAAGGGTTAAACAAAAGTTCAATAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
*
16684506 GCTGAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
* * * * * *
16684548 GCTAAACGGAAACTCATATGAGTTAAACAAAAGCTC
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTC
16684584 GTGAGAGATA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 98 0.97
43 3 0.03
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
Found at i:16684481 original size:21 final size:21
Alignment explanation
Indices: 16684457--16684525 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
16684447 AATGGAAGCT
16684457 CATAAGAGCTAAACGAAAACC
1 CATAAGAGCTAAACGAAAACC
* * **
16684478 CATAAGGGTTAAAC-AAAAGTT
1 CATAAGAGCTAAACGAAAA-CC
*
16684499 CA-ATAGAGCTGAACGAAAACC
1 CATA-AGAGCTAAACGAAAACC
16684520 CATAAG
1 CATAAG
16684526 GGTTAAATAG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.14
Consensus pattern (21 bp):
CATAAGAGCTAAACGAAAACC
Found at i:16689757 original size:18 final size:19
Alignment explanation
Indices: 16689720--16689758 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16689710 TAATTTATTT
16689720 AAAAAAAATCAGACATTGA
1 AAAAAAAATCAGACATTGA
16689739 AAAATAAAATCA-ACA-TGA
1 AAAA-AAAATCAGACATTGA
16689757 AA
1 AA
16689759 TTTTATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAAAAATCAGACATTGA
Found at i:16689993 original size:18 final size:19
Alignment explanation
Indices: 16689960--16690035 Score: 75
Period size: 20 Copynumber: 4.0 Consensus size: 19
16689950 AAAATTATTT
**
16689960 TTTTAGAAAATTTTTAAAA
1 TTTTAGAATTTTTTTAAAA
*
16689979 TTTTA-AATTTTTTT-ATA
1 TTTTAGAATTTTTTTAAAA
*
16689996 TGTTTAGAATTTTTTAAAAA
1 T-TTTAGAATTTTTTTAAAA
*
16690016 TTTTTATAATTTTTTTAAAA
1 -TTTTAGAATTTTTTTAAAA
16690036 ATATAAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
17 3 0.07
18 11 0.24
19 13 0.28
20 18 0.39
21 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTAGAATTTTTTTAAAA
Found at i:16690073 original size:19 final size:20
Alignment explanation
Indices: 16690002--16690096 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
16689992 TATATGTTTA
16690002 GAATTTTTTAAAAATT-TTTAT
1 GAATTTTTT-AAAATTATTT-T
16690023 -AATTTTTTTAAAAATATAAATTTT
1 GAA-TTTTTT-AAAAT-T--ATTTT
16690047 GTAA-TTTTTATAAA-TATTTT
1 G-AATTTTTTA-AAATTATTTT
16690067 GAATTTTTTAAAATTATTTT
1 GAATTTTTTAAAATTATTTT
16690087 GAATTATTTT
1 GAATT-TTTT
16690097 GTAATTTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
19 5 0.08
20 25 0.40
21 16 0.25
22 2 0.03
23 1 0.02
24 9 0.14
25 3 0.05
26 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
GAATTTTTTAAAATTATTTT
Found at i:16690091 original size:10 final size:10
Alignment explanation
Indices: 16690061--16690102 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
16690051 TTTTTATAAA
16690061 TATTTTGAAT
1 TATTTTGAAT
*
16690071 T-TTTTAAAAT
1 TATTTT-GAAT
16690081 TATTTTGAAT
1 TATTTTGAAT
16690091 TATTTTGTAAT
1 TATTTTG-AAT
16690102 T
1 T
16690103 TTTGTTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 4 0.15
10 15 0.56
11 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TATTTTGAAT
Found at i:16691152 original size:21 final size:21
Alignment explanation
Indices: 16691131--16691210 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
16691121 CTTTCTATTT
* *
16691131 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTGTTC
* * *
16691152 AACTCATACGAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
16691173 AGCTCTCACGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTGTTC
16691194 AGCT-TT-CGAGCTTCTGT
1 AGCTCTTACGAGCTTCTGT
16691211 GAACGATGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.21
20 1 0.02
21 36 0.77
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:16691708 original size:20 final size:22
Alignment explanation
Indices: 16691679--16691719 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
16691669 GGTTGAATGA
*
16691679 TATGCTTAT-GAATG-GTGTGT
1 TATGCATATGGAATGAGTGTGT
16691699 TATGCATATGGAATGAGTGTG
1 TATGCATATGGAATGAGTGTG
16691720 GAAAGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (22 bp):
TATGCATATGGAATGAGTGTGT
Found at i:16693946 original size:19 final size:18
Alignment explanation
Indices: 16693924--16693959 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16693914 ATTTCAACTT
*
16693924 TTTTTATATGTTTAAAATC
1 TTTTTAAAT-TTTAAAATC
16693943 TTTTTAAATTTTAAAAT
1 TTTTTAAATTTTAAAAT
16693960 ATAAAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTTAAATTTTAAAATC
Found at i:16693993 original size:19 final size:20
Alignment explanation
Indices: 16693966--16694013 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
16693956 AAATATAAAA
16693966 TTTGAAATTTTT-ATAAA-TAT
1 TTTG-AATTTTTGA-AAATTAT
16693986 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTTGAAAATTAT
16694006 TTTGAATT
1 TTTGAATT
16694014 CTTTTTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTGAATTTTTGAAAATTAT
Found at i:16697205 original size:89 final size:88
Alignment explanation
Indices: 16697043--16697471 Score: 375
Period size: 89 Copynumber: 4.9 Consensus size: 88
16697033 ACCAGTATGG
* * * * * * * *
16697043 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCT
1 GAAGACAAGATCTGCTATCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-GTCT
* *
16697106 TCGATCTACTTCACGCCAATACAT
65 TTGATCTACTTCACACCAATACAT
* * * *
16697130 GAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTGTCT
1 GAAGACAAGATCTGCTATCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-GTCT
***
16697195 TTGATCTACTTCATGGCAATACAT
65 TTGATCTACTTCACACCAATACAT
* *
16697219 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGT
1 GAAGACAAGATCTGCTATCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCTT
* * * *
16697284 GGATCCACTTC-CTATCAATATA-
66 TGATCTACTTCAC-ACCAATACAT
* * * * *** *** *
16697306 GAAAGATAGGACCTGCTATCTTCGATCTACTTC-ATGCCAATACATGAAGACAAGATCTGCTTTC
1 G-AAGACAAGATCTGCTATCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-GTC
* * ***
16697370 TGTGATCTACTTCGCCACCAATATGG
64 TTTGATCTACTTC-ACACCAATACAT
* *
16697396 GAAGACAAGATCTG-TATCTTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
1 GAAGACAAGATCTGCTATC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCT
*
16697460 TTGATCCACTTC
65 TTGATCTACTTC
16697472 CTACTAATAT
Statistics
Matches: 275, Mismatches: 57, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
87 36 0.13
88 73 0.27
89 143 0.52
90 23 0.08
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (88 bp):
GAAGACAAGATCTGCTATCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCTT
TGATCTACTTCACACCAATACAT
Found at i:16697397 original size:221 final size:221
Alignment explanation
Indices: 16697013--16697427 Score: 706
Period size: 221 Copynumber: 1.9 Consensus size: 221
16697003 NNNNNNNNNT
* *
16697013 TTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
*
16697078 CAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
* * *
16697143 GTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTGTCTT-TGATCTACTTC
131 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT-CTATCTTGTGATCTACTTC
16697207 ATGGCAATACATGAAGACAAGATCTGC
195 ATGGCAATACATGAAGACAAGATCTGC
* * *
16697234 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTGGATCCACTTCCTAT
1 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
*
16697299 CAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCT
66 CAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
* *
16697364 GCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTGTGATCTACTTC
131 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTCTATCTTGTGATCTACTTC
16697428 GCCACCAATA
Statistics
Matches: 181, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
220 5 0.03
221 176 0.97
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (221 bp):
TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTAC
CAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTCTATCTTGTGATCTACTTCA
TGGCAATACATGAAGACAAGATCTGC
Found at i:16706347 original size:24 final size:24
Alignment explanation
Indices: 16706319--16706366 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
16706309 ATCCCAAATA
16706319 CACTCTTTCTTCTTCTAACTGTTC
1 CACTCTTTCTTCTTCTAACTGTTC
16706343 CACTCTTTCTTCTTCTAACTGTTC
1 CACTCTTTCTTCTTCTAACTGTTC
16706367 TATCCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.04, T:0.50
Consensus pattern (24 bp):
CACTCTTTCTTCTTCTAACTGTTC
Found at i:16709528 original size:7 final size:7
Alignment explanation
Indices: 16709510--16709546 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
16709500 ATATCTATGT
16709510 ATATAAAA
1 ATAT-AAA
*
16709518 ATATGAA
1 ATATAAA
16709525 ATATAAA
1 ATATAAA
16709532 ATATAAA
1 ATATAAA
16709539 ATATAAA
1 ATATAAA
16709546 A
1 A
16709547 AGTATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
ATATAAA
Found at i:16722081 original size:38 final size:38
Alignment explanation
Indices: 16722030--16722109 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
16722020 TTATAAGCCC
* *
16722030 AAAACCCTGAATACCTAATCTGCTAACGTAAAAATCCT
1 AAAACCCTGAATACCCAATCTGCTAACCTAAAAATCCT
*
16722068 AAAACCTTGAATACCCAATCTGCTAACCTAAAAATCCT
1 AAAACCCTGAATACCCAATCTGCTAACCTAAAAATCCT
16722106 AAAA
1 AAAA
16722110 GCCCAAAGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (38 bp):
AAAACCCTGAATACCCAATCTGCTAACCTAAAAATCCT
Found at i:16723564 original size:36 final size:37
Alignment explanation
Indices: 16723524--16723594 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
16723514 TAGATGTATT
* *
16723524 ATTATGATTTATTAGCATGATTA-TTATTTTATTCTC
1 ATTATGATCTACTAGCATGATTATTTATTTTATTCTC
* *
16723560 ATTATTATCTACTAGCATGGTTATTTTATTTTATT
1 ATTATGATCTACTAGCATGATTA-TTTATTTTATT
16723595 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 19 0.66
38 10 0.34
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (37 bp):
ATTATGATCTACTAGCATGATTATTTATTTTATTCTC
Found at i:16723566 original size:20 final size:21
Alignment explanation
Indices: 16723500--16723567 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 21
16723490 TGATTAATAA
16723500 TATTATTACTA-TTA-TAG-AT
1 TATTATTA-TATTTATTAGCAT
16723519 GTATTATTATGATTTATTAGCAT
1 -TATTATTAT-ATTTATTAGCAT
* **
16723542 GATTATTAT-TTTATTCTCAT
1 TATTATTATATTTATTAGCAT
16723562 TATTAT
1 TATTAT
16723568 CTACTAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
20 23 0.57
21 3 0.08
22 11 0.28
23 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (21 bp):
TATTATTATATTTATTAGCAT
Found at i:16726866 original size:6 final size:6
Alignment explanation
Indices: 16726857--16726915 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
16726847 TTAGTATTAT
16726857 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
16726905 ATATAC ATATA
1 ATATAC ATATA
16726916 TATTGTTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:16727721 original size:16 final size:16
Alignment explanation
Indices: 16727684--16727726 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16727674 TAATTTATTA
*
16727684 AATAAAA-ATAATCTT
1 AATAAAATATTATCTT
*
16727699 AATTAAAATATTATTTT
1 AA-TAAAATATTATCTT
16727716 AATAAAATATT
1 AATAAAATATT
16727727 TATATTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:16728222 original size:18 final size:18
Alignment explanation
Indices: 16728191--16728237 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
16728181 ATATAATAGT
*
16728191 TAAAGTAAATAAAATAAAA
1 TAAAG-AAACAAAATAAAA
16728210 TAAAGAAACAAAATAAAA
1 TAAAGAAACAAAATAAAA
* *
16728228 AAAAGGAACA
1 TAAAGAAACA
16728238 GATAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (18 bp):
TAAAGAAACAAAATAAAA
Found at i:16731798 original size:2 final size:2
Alignment explanation
Indices: 16731791--16731815 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16731781 TTTGAATTAT
16731791 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16731816 GCATCTCTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16740481 original size:15 final size:16
Alignment explanation
Indices: 16740444--16740481 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16740434 TTTTCTCCTC
* *
16740444 TGTTGTTCATTTTTGG
1 TGTTTTTCATTTCTGG
16740460 TGTTTTTCATTTCTGG
1 TGTTTTTCATTTCTGG
16740476 -GTTTTT
1 TGTTTTT
16740482 TGTTGTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.05, C:0.08, G:0.21, T:0.66
Consensus pattern (16 bp):
TGTTTTTCATTTCTGG
Found at i:16745414 original size:31 final size:31
Alignment explanation
Indices: 16745378--16745438 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
16745368 TTGGTCACTG
** *
16745378 AACTATTTGAAAGTTTTCATTTAAGTCATTT
1 AACTATTCAAAAGTTTTCATTTAACTCATTT
*
16745409 AACTATTCAAAAGTTTTTATTTAACTCATT
1 AACTATTCAAAAGTTTTCATTTAACTCATT
16745439 GGGCTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAACTCATTT
Found at i:16752070 original size:58 final size:58
Alignment explanation
Indices: 16751980--16752097 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
16751970 TCATGTCTAT
*
16751980 AAATATCGATAATAATTTTATTTTTTTAATAAACAAGTAAAATAAAAATAAAATATGA
1 AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
16752038 AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
1 AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
16752096 AA
1 AA
16752098 TTAAAATTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (58 bp):
AAATATCGATAATAATTTTATTTCTTTAATAAACAAGTAAAATAAAAATAAAATATGA
Found at i:16759201 original size:23 final size:23
Alignment explanation
Indices: 16759171--16759216 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
16759161 TAATTTATTC
*
16759171 ACTATTTAATTCCATTCTTACTA
1 ACTATTTAATTCCATTCCTACTA
16759194 ACTATTTAATTCCATTCCTACTA
1 ACTATTTAATTCCATTCCTACTA
16759217 TTTTTAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (23 bp):
ACTATTTAATTCCATTCCTACTA
Found at i:16763237 original size:21 final size:21
Alignment explanation
Indices: 16763213--16763256 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16763203 TTTTTGATCT
*
16763213 TTTTC-CTTTATTTTTTATTTC
1 TTTTCTCTCTATTTTTT-TTTC
*
16763234 TTTTCTCTCTCTTTTTTTTTC
1 TTTTCTCTCTATTTTTTTTTC
16763255 TT
1 TT
16763257 ATTAGTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTCTCTATTTTTTTTTC
Found at i:16766935 original size:26 final size:26
Alignment explanation
Indices: 16766899--16766954 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
16766889 TGAAATTCCA
16766899 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16766925 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16766951 ATCA
1 ATCA
16766955 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16772582 original size:131 final size:130
Alignment explanation
Indices: 16772277--16772915 Score: 423
Period size: 131 Copynumber: 4.9 Consensus size: 130
16772267 ATTAAGAATT
** ** * *
16772277 CTTTAAAACGAATGCG-ATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGT
1 CTTTAAAACGAA-G-GAATATTCGATGTTTGACAATTCG-GGAATCGTGCCCTATCGTGCTGGGT
* * * ** * ** * *
16772341 TGCAATTTCTCGTTTGCTCAGAGTAATCGAAGGTCCCTTTTGAATTTTGCCCATGTCTTTTAAAA
63 TGCAATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAAA
16772406 ATC
128 ATC
* * * * * * *
16772409 CCTT-AAGCGAATGTG-ATATAT-GATATTTGGCAATGCATGGAATCGTGCCCTAACGTGCTGGG
1 CTTTAAAACGAA-G-GAATAT-TCGATGTTTGACAATTC-GGGAATCGTGCCCTATCGTGCTGGG
* * * * *
16772471 TTGCAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTCATGTCTTCTAAA
62 TTGCAATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAA
16772536 AATC
127 AATC
* * * *
16772540 CGTTAAAACGAAGGCAATATTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGCGCTGGGTTG
1 CTTTAAAACGAAGG-AATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * * * ** *
16772605 TGATTTCTCGTTTGCTCAAAACAATTGAATATTCCTTTAGGTTTTCACTCATGT-TTGTTAAAAA
65 CAATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTT-CTAAAAA
16772669 -C
129 TC
** * * * * * * * *
16772670 CTTTTAAAATAAAGG-ATGTTCGAGGTTTGGCGATTTGAGAATCGTGCCCTATCATGCTAGGTTG
1 C-TTTAAAACGAAGGAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * * ** * * * * * *
16772734 CGCTTTTTCATTTG-TTCTAAACGATCAAAGATCCCTTTGGAATTTTACTCACGTTTTCTAAAAA
65 CAATTTCTCGTTTGCTT-AAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAAAA
*
16772798 CC
129 TC
* * * *
16772800 CTTTAAAACGAAAGAAATGTTCGATGTTTGACAATTCGGGGAATAGTACCCTATCGTGCTGGGTT
1 CTTTAAAACG-AAGGAATATTCGATGTTTGACAATTC-GGGAATCGTGCCCTATCGTGCTGGGTT
* * ** *
16772865 ACAATTTCCCGTTTG-TTCAAAATAATCGAATATATCTTCAGAATTTCACTC
64 GCAATTTCTCGTTTGCTT-AAAATAATCGAATATCCCTTTAGAATTTCACTC
16772916 GTATTTCCTA
Statistics
Matches: 387, Mismatches: 106, Indels: 28
0.74 0.20 0.05
Matches are distributed among these distances:
128 1 0.00
129 87 0.22
130 12 0.03
131 205 0.53
132 82 0.21
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (130 bp):
CTTTAAAACGAAGGAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGC
AATTTCTCGTTTGCTTAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCTTCTAAAAATC
Found at i:16777618 original size:87 final size:87
Alignment explanation
Indices: 16777472--16777645 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
16777462 TTCCAAGTCA
*
16777472 TTCACCGTAAATCAACCCAAGATGGTGACCACTAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
1 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
16777537 CACGAGGGAAAACACAGAGAGG
66 CACGAGGGAAAACACAGAGAGG
16777559 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
1 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
*
16777624 CACGAGGGAGAACACAGAGAGG
66 CACGAGGGAAAACACAGAGAGG
16777646 CCATAGTTCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.13
Consensus pattern (87 bp):
TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
CACGAGGGAAAACACAGAGAGG
Found at i:16783557 original size:3 final size:3
Alignment explanation
Indices: 16783549--16783597 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
16783539 AAATCTAAAA
*
16783549 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16783597 A
1 A
16783598 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16784722 original size:133 final size:133
Alignment explanation
Indices: 16784483--16784758 Score: 342
Period size: 133 Copynumber: 2.1 Consensus size: 133
16784473 GCGAATCCTA
* *** *
16784483 CAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGTGAATTTAGTCTTCCTGAAG
1 CAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAAATTTAGACTTCCTGAAG
* * * *
16784548 TTGCAGTGAAGCAGATTTAAGCTACCAACCTAGCTCCCTAAAGCTATAGTGGAGTAGGCTGAGGA
66 TTGCAGTGAAGCAGATTGAAGCCACCAACCTAGCTCCCTAAAGCTATAGCGGAGTAGGCTGAAGA
16784613 TTG
131 TTG
* * ***
16784616 TAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCGGATCGGCGACGACAAATCTT-GAC-TCCTTGA
1 CAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAAAT-TTAGACTTCC-TGA
* * * *
16784679 AGTTGCAGTGAAGCAGACTTGCA-CCACCAACCTAGCTCTCTAAAGTTGTAGCGGAGTAGGCTGA
64 AGTTGCAGTGAAGCAGA-TTGAAGCCACCAACCTAGCTCCCTAAAGCTATAGCGGAGTAGGCTGA
16784743 AGATTG
128 AGATTG
16784749 CAGATCTCGT
1 CAGATCTCGT
16784759 CTCCAGTGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
132 3 0.02
133 113 0.93
134 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (133 bp):
CAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACAAATTTAGACTTCCTGAAG
TTGCAGTGAAGCAGATTGAAGCCACCAACCTAGCTCCCTAAAGCTATAGCGGAGTAGGCTGAAGA
TTG
Found at i:16788081 original size:131 final size:131
Alignment explanation
Indices: 16787815--16788413 Score: 443
Period size: 131 Copynumber: 4.6 Consensus size: 131
16787805 GTAATTCGTG
* * * * ** *
16787815 GAATCGTGCCCCAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTT
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCCCTTTA
** * * * * * * * *
16787880 GAATTTTGCCCATGTCTTTTAAAAATCCCTT-AAGCGAAAGTGATA-T-ATGATATTTGGCAATG
66 GAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAAG-AATATTCA-GATGTTTGACAATT
16787942 C-A
129 CGA
* *
16787944 TGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCAAATATCCCTT
1 --GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCCCTT
* * * * *
16788009 CAAAATTTCATTCATGTCTTCTAAAAATCCGTTAAAACGAAGGCAATATTCAG-TGTTTGACAAT
64 TAGAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAAG-AATATTCAGATGTTTGACAAT
16788073 TCGA
128 TCGA
* * ** * ** *
16788077 GAATCATGCCCTATCGCGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTA
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCCCTTTA
** * * * * *
16788142 GGTTTTCACTCATGT-TGGT-TAAAAA-CCTTTTAAAAC-AAAGGATGTT-AGAGGTTTGGCGAT
66 GAATTTCACTCATGTCT--TCTAAAAATCC-TTTAAAACGAAAGAATATTCAGATGTTTGACAAT
*
16788202 TTGA
128 TCGA
** * * * *
16788206 GAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCTAAACG--ATCGAAGATCCCTT
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCT-TAAA-GTAATCGAATATCCCTT
** * ** * * *
16788269 CGGAATTTCATTCAAATTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTC-GATGTTTGACAAT
64 TAGAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAAG-AATATTCAGATGTTTGACAAT
*
16788333 TCGGG
128 TC-GA
* * * * *
16788338 GAATAGTACCCTATCGTGCTGGGTTGCAATTTCCCGTTTG-TTCAAAATAATCGAATATCTCTTT
1 GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTT-AAAGTAATCGAATATCCCTTT
16788402 AGAATTTCACTC
65 AGAATTTCACTC
16788414 GTATTTCCTA
Statistics
Matches: 366, Mismatches: 82, Indels: 39
0.75 0.17 0.08
Matches are distributed among these distances:
128 3 0.01
129 86 0.23
130 17 0.05
131 179 0.49
132 77 0.21
133 3 0.01
134 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
GAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCCCTTTA
GAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAAGAATATTCAGATGTTTGACAATTCG
A
Found at i:16788278 original size:129 final size:132
Alignment explanation
Indices: 16787946--16788392 Score: 329
Period size: 129 Copynumber: 3.4 Consensus size: 132
16787936 GCAATGCATG
* * * * **
16787946 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATC-AA-ATATCCCTT
1 GAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAACAATCGAAGAT-TCCCTT
** * ** * * * * * *
16788009 CAAAATTTCATTCATGTCT-TCTAAAAATCCGTTAAAACGAAGGCAATATTCAG-TGTTTGACAA
65 -AGGATTTCACTCAAAT-TGTCTAAAAACCCTTTAAAACGAAAGAAATGTT-AGAGGTTTGACAA
16788072 TTC-GA
127 TTCGGA
* * * * * *
16788077 GAATCATGCCCTATCGCGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTA
1 GAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAACAATCGAAGATTCCCTTA
* ** * * * *
16788142 GGTTTTCACTCATGTTGGT-TAAAAACCTTTTAAAAC-AAAG-GATGTTAGAGGTTTGGCGATT-
66 GGATTTCACTCAAATT-GTCTAAAAACCCTTTAAAACGAAAGAAATGTTAGAGGTTTGACAATTC
*
16788203 TGA
130 GGA
* * * * * *
16788206 GAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCTAAACGATCGAAGA-TCCCTTC
1 GAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAACAATCGAAGATTCCCTTA
* * * *
16788270 GGAATTTCATTCAAATTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCGATGTTTGACAATTC
66 GG-ATTTCACTCAAATTGTCTAAAAACCCTTTAAAACGAAAGAAATGTTAGAGGTTTGACAATTC
*
16788335 GGG
130 GGA
* * * * * * *
16788338 GAATAGTACCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAA
1 GAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAACAATCGAA
16788393 TATCTCTTTA
Statistics
Matches: 248, Mismatches: 57, Indels: 21
0.76 0.17 0.06
Matches are distributed among these distances:
128 10 0.04
129 88 0.35
130 8 0.03
131 86 0.35
132 54 0.22
133 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (132 bp):
GAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAACAATCGAAGATTCCCTTA
GGATTTCACTCAAATTGTCTAAAAACCCTTTAAAACGAAAGAAATGTTAGAGGTTTGACAATTCG
GA
Found at i:16789528 original size:44 final size:45
Alignment explanation
Indices: 16789460--16789570 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
16789450 TCCTACTGCA
* * *
16789460 ACTTCAGGGAGATAAGAGT-TGTAACTTCAACCTGTTCCACTA-TG
1 ACTTTAGGGAGATAAG-GTCTGTAACTTCAACATGCTCCACTACTG
* *
16789504 ACTTTAGGGAGATAAGGTCTGTAACTTCGATATGCTCCACTACTG
1 ACTTTAGGGAGATAAGGTCTGTAACTTCAACATGCTCCACTACTG
* *
16789549 -C-TTAGAGAGATAAGATCTGTAA
1 ACTTTAGGGAGATAAGGTCTGTAA
16789571 TCCCCAACCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 21 0.36
44 35 0.60
45 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (45 bp):
ACTTTAGGGAGATAAGGTCTGTAACTTCAACATGCTCCACTACTG
Found at i:16789690 original size:44 final size:44
Alignment explanation
Indices: 16789642--16790211 Score: 302
Period size: 44 Copynumber: 13.0 Consensus size: 44
16789632 AAGATCTATA
16789642 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * * *
16789686 ATCTTC-GATCTATTCCCCTACTGCTTAGGGTGATAA-GATCTAT-
1 ATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TATC
** **
16789729 AAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * ** *
16789773 GTCTTC-GATCTGCT-CCACTACTGCTTAGGGAGACAAGG-TCTATA
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-TATC
* *
16789817 ATCTTCAGCCTGTTACCTTACTGCTTAGGGGGTTAAGTCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * *
16789861 ATCTTC-GATCTATT-CCTCTACTGCTTAGGGTGG-TAAGATCTGTA--
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGG-GGTTAAG-GCT-TATC
* * * * **
16789905 A-ATTCAGCTTGTTACCCTACTGCTTATGGGGTTAATGCCCATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * ** * *
16789948 GTCTTC-GATCTGCT-CCACTACTGCTTAGGGAGACAA-GATCTATA
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-TATC
16789992 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * ** * *
16790036 ATCTTC-GATCTGCT-CCGCTACTGCTTAGGGAGACAA-GATCTATA
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-TATC
* * *
16790080 ATCTTTAGCATGTTACCCTACTGCTCAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * *
16790124 ATCTTC-GCTCTATT-CCCTTACTGCTTAGGGTGATAAGATCTGTA-A
1 ATCTTCAGC-CTGTTACCC-TACTGCTTAGGGGGTTAAG-GCT-TATC
* * * *
16790169 AT-TTCTAACCTGTTACCCTACTACTCAGAGGGTTAAGGCTTAT
1 ATCTTC-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTAT
16790212 GAATTCACCG
Statistics
Matches: 382, Mismatches: 102, Indels: 84
0.67 0.18 0.15
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 75 0.20
44 254 0.66
45 41 0.11
46 8 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (44 bp):
ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
Found at i:16789866 original size:88 final size:88
Alignment explanation
Indices: 16789599--16790211 Score: 802
Period size: 88 Copynumber: 7.0 Consensus size: 88
16789589 AGGCTCACTG
*
16789599 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
16789664 GCTTAGGGGGTTAAGGCTTATCA
66 GCTTAGGGGGTTAAGGCTTATCA
** * * * *
16789687 TCTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTATAA-ATTCAGCCTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
** *
16789751 GCTTAGGGGGTTAAGGCCCATCG
66 GCTTAGGGGGTTAAGGCTTATCA
* *
16789774 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGGTCTATAATCTTCAGCCTGTTACCTTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
*
16789839 GCTTAGGGGGTTAAGTCTTATCA
66 GCTTAGGGGGTTAAGGCTTATCA
** * * ** * * *
16789862 TCTTCGATCTATTCCTCTACTGCTTAGGGTGGTAAGATCTGTAA-ATTCAGCTTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
* * ** *
16789926 GCTTATGGGGTTAATGCCCATCG
66 GCTTAGGGGGTTAAGGCTTATCA
16789949 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
16790014 GCTTAGGGGGTTAAGGCTTATCA
66 GCTTAGGGGGTTAAGGCTTATCA
* * *
16790037 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATCTTTAGCATGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
*
16790102 GCTCAGGGGGTTAAGGCTTATCA
66 GCTTAGGGGGTTAAGGCTTATCA
* ** * * * *
16790125 TCTTCGCTCTATTCC-CTTACTGCTTAGGGTGATAAGATCTGTAAAT-TTCTAACCTGTTACCCT
1 TCTTCGATCTGCTCCAC-TACTGCTTAGGGAGACAAGATCTAT-AATCTTC-AGCCTGTTACCCT
* * *
16790188 ACTACTCAGAGGGTTAAGGCTTAT
63 ACTGCTTAGGGGGTTAAGGCTTAT
16790212 GAATTCACCG
Statistics
Matches: 452, Mismatches: 68, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
87 149 0.33
88 267 0.59
89 36 0.08
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (88 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
GCTTAGGGGGTTAAGGCTTATCA
Found at i:16789900 original size:175 final size:175
Alignment explanation
Indices: 16789598--16790211 Score: 890
Period size: 175 Copynumber: 3.5 Consensus size: 175
16789588 AAGGCTCACT
*
16789598 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTAC
16789663 TGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTA
66 TGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTA
*
16789728 TAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
131 TAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
* *
16789773 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGGTCTATAATCTTCAGCCTGTTACCTTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTAC
* * * *
16789838 TGCTTAGGGGGTTAAGTCTTATCATCTTCGATCTATTCCTCTACTGCTTAGGGTGGTAAGATCTG
66 TGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTA
* * *
16789903 TAAATTCAGCTTGTTACCCTACTGCTTATGGGGTTAATGCCCATC
131 TAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
16789948 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTAC
** * * *
16790013 TGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTA
66 TGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTA
* * * **
16790078 TAATCTTTAGCATGTTACCCTACTGCTCAGGGGGTTAAGGCTTATC
131 TAA-ATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
* * ** * * * *
16790124 ATCTTCGCTCTATTCC-CTTACTGCTTAGGGTGATAAGATCTGTAAAT-TTCTAACCTGTTACCC
1 GTCTTCGATCTGCTCCAC-TACTGCTTAGGGAGACAAGATCTAT-AATCTTC-AGCCTGTTACCC
* * *
16790187 TACTACTCAGAGGGTTAAGGCTTAT
63 TACTGCTTAGGGGGTTAAGGCTTAT
16790212 GAATTCACCG
Statistics
Matches: 396, Mismatches: 39, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
175 289 0.73
176 71 0.18
177 36 0.09
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (175 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTAC
TGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTA
TAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
Found at i:16795423 original size:42 final size:42
Alignment explanation
Indices: 16795358--16795513 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
16795348 AAATCGTACA
*
16795358 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
16795400 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
16795442 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
16795486 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16795514 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:16802751 original size:42 final size:42
Alignment explanation
Indices: 16802686--16802841 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
16802676 AATTCGTACA
*
16802686 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
16802728 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
16802770 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
16802814 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16802842 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:16812982 original size:26 final size:26
Alignment explanation
Indices: 16812953--16813004 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16812943 GATAATATGT
*
16812953 TAGTAATAATAACAATATAGTAATAG
1 TAGTAATAATAACAATAAAGTAATAG
* **
16812979 TAGTAGTAATAGTAATAAAGTAATAG
1 TAGTAATAATAACAATAAAGTAATAG
16813005 CAATAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.31
Consensus pattern (26 bp):
TAGTAATAATAACAATAAAGTAATAG
Found at i:16813041 original size:26 final size:26
Alignment explanation
Indices: 16812986--16813039 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
16812976 TAGTAGTAGT
16812986 AATAGTAATAAAGTAATAGCAATAAA
1 AATAGTAATAAAGTAATAGCAATAAA
* * *
16813012 AATAGTACTAATGTTAATAGTAATAAA
1 AATAGTAATAAAG-TAATAGCAATAAA
16813039 A
1 A
16813040 TAAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (26 bp):
AATAGTAATAAAGTAATAGCAATAAA
Found at i:16813176 original size:3 final size:3
Alignment explanation
Indices: 16813155--16813242 Score: 72
Period size: 3 Copynumber: 29.0 Consensus size: 3
16813145 TAATGCTAAG
* * * *
16813155 ATA ATG ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA GTA ATG A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16813202 ATTCA ATA ATA GTA ATA ATG ACA ATA ATA GA-A ATA ATA ATA
1 A-T-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
16813243 GTGTTTGAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 2 0.03
3 59 0.89
4 3 0.05
5 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16816001 original size:4 final size:4
Alignment explanation
Indices: 16815974--16816043 Score: 54
Period size: 4 Copynumber: 18.0 Consensus size: 4
16815964 TACAAATTGT
* * * * * *
16815974 TTTA TTTG TTTG TTTG TTTG TTTA TTTA TCTA TTTA TTTA -TTA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
16816021 TTTC TTTA TTT- TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA
16816044 GAAAAAATCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 6 0.11
4 50 0.89
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:16816019 original size:19 final size:19
Alignment explanation
Indices: 16815995--16816038 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16815985 GTTTGTTTGT
16815995 TTATTTATCTATTTATTTA
1 TTATTTATCTATTTATTTA
* * * *
16816014 TTATTTCTTTCTTTATTTT
1 TTATTTATCTATTTATTTA
16816033 TTATTT
1 TTATTT
16816039 TTTTAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTATCTATTTATTTA
Found at i:16816133 original size:18 final size:18
Alignment explanation
Indices: 16816093--16816134 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16816083 TCTTTGTTCA
*
16816093 TTTATTATTATTTTCATT
1 TTTATTATTATTTTAATT
*
16816111 ATTATT-TTATCTTTAATT
1 TTTATTATTAT-TTTAATT
16816129 TTTATT
1 TTTATT
16816135 CTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTAATT
Found at i:16816146 original size:21 final size:21
Alignment explanation
Indices: 16816109--16816148 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16816099 ATTATTTTCA
16816109 TTATTATTTTATCTTTAATTT
1 TTATTATTTTATCTTTAATTT
*
16816130 TTATTCTTGTTAT-TTTAAT
1 TTATTATT-TTATCTTTAAT
16816149 ATTCCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTATTTTATCTTTAATTT
Found at i:16819919 original size:18 final size:18
Alignment explanation
Indices: 16819898--16819932 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16819888 TGAATGATAC
*
16819898 TGACAGTTACTGAATAAT
1 TGACAGATACTGAATAAT
*
16819916 TGACTGATACTGAATAA
1 TGACAGATACTGAATAA
16819933 CTAACTGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
TGACAGATACTGAATAAT
Found at i:16819939 original size:18 final size:17
Alignment explanation
Indices: 16819905--16819948 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
16819895 TACTGACAGT
* *
16819905 TACTGAATAATTGACTG
1 TACTGAATAACTAACTG
16819922 ATACTGAATAACTAACTG
1 -TACTGAATAACTAACTG
16819940 TCACTGAAT
1 T-ACTGAAT
16819949 TGAGACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (17 bp):
TACTGAATAACTAACTG
Found at i:16825636 original size:44 final size:44
Alignment explanation
Indices: 16825587--16825763 Score: 167
Period size: 44 Copynumber: 3.9 Consensus size: 44
16825577 CAATGAAACC
* *
16825587 ACAAATCTCATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
* * *
16825631 ACAAATCTTGTCTCCATAAAGTTACAGTGGAGCAGATTAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
* * * * * *
16825675 ACGAATTTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTACAACTT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAA-G----A--T
*
16825726 ACAAATCTTATCT-CCTAGAAGTTGCAGTGGAGTAGATT
1 ACAAATCTTATCTCCCTA-AAGTTACAGTGGAGTAGATT
16825764 GAAACAATAA
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
44 71 0.67
45 1 0.01
49 1 0.01
50 3 0.03
51 30 0.28
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
Found at i:16825873 original size:145 final size:146
Alignment explanation
Indices: 16825682--16826138 Score: 699
Period size: 145 Copynumber: 3.2 Consensus size: 146
16825672 GATACGAATT
* * *
16825682 TTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTACAACTTACAAATCTTATCT-CCTAGAA
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
* * * * * *
16825746 GTTGCAGTGGAGTAGATTGAAACAATAAGTCTTATACATCTGAGGTTGTAGTAGGTCAGATTAAA
66 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
16825811 TCTACCATAGCAAGTC
131 TCTACCATAGCAAGTC
16825827 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCT-GAA
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
* *
16825891 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTGGTAAGTCGGATTAAA
66 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
*
16825956 TCTACCATA--ATGTC
131 TCTACCATAGCAAGTC
* * *
16825970 TTATCTCCCTGAAGTTGCAGTGGAATATACTAAAGTTACAAGCTACAAATCTTATCTCCCTA-AA
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
* * * *
16826034 GTTGTAGTGGAGCAGATTGAAACGATAAGTCCTATACCTTTGAAGTTGCAGTAGGTTGGATTAAA
66 GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
16826099 TCTACCATAGCAAGTC
131 TCTACCATAGCAAGTC
*
16826115 TTATCTCCCTGAAGTTGTAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
16826139 GCAGATTGAA
Statistics
Matches: 285, Mismatches: 23, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
143 132 0.46
145 150 0.53
146 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (146 bp):
TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTAGAA
GTTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAA
TCTACCATAGCAAGTC
Found at i:16826224 original size:44 final size:45
Alignment explanation
Indices: 16826105--16826224 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
16826095 TAAATCTACC
* *
16826105 ATAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
* * *
16826150 ATAGCAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAG
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
* * *
16826195 ATA-CGAGTCTCATCACCCTGAAGTTGCAGT
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGT
16826225 GGAATAGACC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 22 0.34
45 43 0.66
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
Found at i:16827743 original size:4 final size:4
Alignment explanation
Indices: 16827734--16827796 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
16827724 TACAAATTGT
* ** * *
16827734 TTTA TTTA TTTA TTTG TTCG TTTA TTTA TCTA TTTC TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
16827781 TTTA TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA
16827797 GAAAAAAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
3 3 0.06
4 45 0.94
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:16827887 original size:18 final size:18
Alignment explanation
Indices: 16827847--16827888 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16827837 TCTTTGTTCA
*
16827847 TTTATTATTATTTTCATT
1 TTTATTATTATTTTAATT
*
16827865 ATTATT-TTATCTTTAATT
1 TTTATTATTAT-TTTAATT
16827883 TTTATT
1 TTTATT
16827889 CTTGTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTAATT
Found at i:16833876 original size:25 final size:26
Alignment explanation
Indices: 16833831--16833881 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
16833821 TATCCCTTTA
* *
16833831 TTTTATAATTTTATTTCAATTGGTTT
1 TTTTATAATTTTATTTAAATTCGTTT
*
16833857 TTTTATTATTTT-TTTAAATTCGTTT
1 TTTTATAATTTTATTTAAATTCGTTT
16833882 CACATTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTATAATTTTATTTAAATTCGTTT
Found at i:16844133 original size:18 final size:18
Alignment explanation
Indices: 16844110--16844162 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
16844100 GATAAATCCT
16844110 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
** *
16844128 AATCAAGGATTGGCCCCC
1 AATCAAGGATTTACTCCC
16844146 AAT-AAGGGATTTACTCC
1 AATCAA-GGATTTACTCC
16844163 TATATTAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:16844230 original size:41 final size:41
Alignment explanation
Indices: 16844173--16844256 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
16844163 TATATTAACA
16844173 GGATTCTATCCTAATCAAGGATATTATGTTCATTATCCAAT
1 GGATTCTATCCTAATCAAGGATATTATGTTCATTATCCAAT
*
16844214 GGATTCTATCCTAATCAAGGATATTATGTTCCTTATCCAAT
1 GGATTCTATCCTAATCAAGGATATTATGTTCATTATCCAAT
16844255 GG
1 GG
16844257 TAAGACAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (41 bp):
GGATTCTATCCTAATCAAGGATATTATGTTCATTATCCAAT
Found at i:16844246 original size:21 final size:21
Alignment explanation
Indices: 16844181--16844246 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
16844171 CAGGATTCTA
16844181 TCCTAATCAAGGATATTATGT
1 TCCTAATCAAGGATATTATGT
* *
16844202 TCATTATCCAATGGAT-TCTA---
1 TCCTAAT-CAA-GGATAT-TATGT
16844222 TCCTAATCAAGGATATTATGT
1 TCCTAATCAAGGATATTATGT
16844243 TCCT
1 TCCT
16844247 TATCCAATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
18 6 0.18
19 4 0.12
20 5 0.15
21 9 0.26
22 4 0.12
23 6 0.18
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
TCCTAATCAAGGATATTATGT
Found at i:16851356 original size:43 final size:45
Alignment explanation
Indices: 16851288--16851379 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 45
16851278 TACCAGCCTC
* **
16851288 ATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-A-ATCTT
1 ATCTTCCTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGATCTT
* *
16851331 ATCTTCCTGAGGTAGC-AGGGAAGCAGACTGAAGATTGAAGATCTT
1 ATCTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGAATGAAGATCTT
16851376 ATCT
1 ATCT
16851380 CCCTAAGCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.07
43 28 0.68
44 1 0.02
45 9 0.22
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (45 bp):
ATCTTCCTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGATCTT
Found at i:16851481 original size:176 final size:175
Alignment explanation
Indices: 16851187--16851810 Score: 678
Period size: 176 Copynumber: 3.5 Consensus size: 175
16851177 GAGTATACAT
* * *
16851187 GATTGAAGATCTTATCTCCCTAA--AGTTGCAGTGGAGCAGATCGAAA-AAGGTGAATCTTATCT
1 GATTGAAGATCTTATCTCCCTAAGCAGTAGCA---AAGCAGATCGAAAGACGGTGAATCTTATCT
* * * * *
16851249 CCACGTATCAGCAATGGAGTAGATTTTACTACCAGCCTCATCT-TTCTGAGGTAGCAAGAGAGCA
63 CCATGTATCGGCAATGGAGCAGATTTAAC-CCCAGCCTCATCTCTT-TGAGGTAGCAAGAGAGCA
* * *
16851313 GGTTGAAGAATGAATCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTGAA
126 GGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
*
16851363 GATTGAAGATCTTATCTCCCTAAGCAGTAGCAAAGCAGATCGAAAGA-GGCGAATCTTATCTCCA
1 GATTGAAGATCTTATCTCCCTAAGCAGTAGCAAAGCAGATCGAAAGACGGTGAATCTTATCTCCA
* * *
16851427 TGTATCGGTAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAATGGAGCAGATTTAA-CCCC-AGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGGT
16851492 TGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACT-AA
129 TGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * * *** * *
16851538 GAATTGAAGATTTTATCTCCC-AGAGACTGCAGTGGAGTAGATCTTCG-CAGACGGTGAATCTTA
1 G-ATTGAAGATCTTATCTCCCTA-AG-CAGTAGCAAAGCAGA---TCGAAAGACGGTGAATCTTA
* * *
16851601 TCTCCATGTATCGGCAATAGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAG
60 TCTCCATGTATCGGCAATGGAGCAGATTTAACC-CCAGCCTCATCTCTTTGAGGTAGCAAGAGAG
* * * **
16851666 CAGGTTGAAGAATGAGTATTATCTTCTTGAGATAGCAAGGAAGCAAACTGTG
124 CAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * **
16851718 GATTGAGGATCTTATCTCCCTGAAGTTGCAGT-G-GAA-CAGATCGAAA-ATAGTGAATCTTATC
1 GATTGAAGATCTTATCTCCCT-AA---GCAGTAGCAAAGCAGATCGAAAGACGGTGAATCTTATC
*
16851779 TCTATGTATCGGCAATGGAGCAGATTTAACCC
62 TCCATGTATCGGCAATGGAGCAGATTTAACCC
16851811 ACCAACCTCA
Statistics
Matches: 381, Mismatches: 46, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
175 54 0.14
176 160 0.42
177 12 0.03
178 6 0.02
179 98 0.26
180 46 0.12
181 2 0.01
182 2 0.01
183 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (175 bp):
GATTGAAGATCTTATCTCCCTAAGCAGTAGCAAAGCAGATCGAAAGACGGTGAATCTTATCTCCA
TGTATCGGCAATGGAGCAGATTTAACCCCAGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGGTTG
AAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
Found at i:16853267 original size:25 final size:26
Alignment explanation
Indices: 16853238--16853288 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
16853228 TATCCCTTTA
*
16853238 TTTTATAATTTTATTTCAATT-GTTT
1 TTTTATAATTTTATTTAAATTCGTTT
* *
16853263 TTTTATTATTTTTTTTAAATTCGTTT
1 TTTTATAATTTTATTTAAATTCGTTT
16853289 CACATTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTATAATTTTATTTAAATTCGTTT
Found at i:16863080 original size:48 final size:48
Alignment explanation
Indices: 16863021--16863242 Score: 241
Period size: 48 Copynumber: 4.6 Consensus size: 48
16863011 TATGTGTGCT
*
16863021 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
* * *
16863069 AGTGTATGACCATGTCTGGGACATGGCATCGGCAATG-TAACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ACGAGAGCC
* ** * * * *
16863117 AGTGTAAGACCATGTTTGAAACATGGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATACGAGAGCC
* * * * * *
16863165 AGTGTAAGACCATGTCTTGGATATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
* *
16863213 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
16863243 AGCAATTCAC
Statistics
Matches: 142, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
47 3 0.02
48 137 0.96
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
Found at i:16863191 original size:96 final size:96
Alignment explanation
Indices: 16863021--16863242 Score: 270
Period size: 96 Copynumber: 2.3 Consensus size: 96
16863011 TATGTGTGCT
* * * * * *
16863021 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTATGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACACGAGACGAGAGCCAGTGTAAGACCATGTCT
16863086 GGGACATGGCATCGGCAAT-GTA-ACGAGAGCC
66 GGGACATGGCATCGGC-ATCG-ACACGAGAGCC
* * *
16863117 AGTGTAAGACCATGTTTGAAACATGGCATC-GACATTGAGACGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACA-CGAGACGAGAGCCAGTGTAAGACCATGTC
* * * * *
16863181 TTGGATATGGCATCGGCCTCGACATGTGAGCC
65 TGGGACATGGCATCGGCATCGACACGAGAGCC
16863213 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTTTGGAACATGGCATC
16863243 AGCAATTCAC
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
95 5 0.05
96 103 0.95
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGACACGAGACGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCATCGACACGAGAGCC
Found at i:16871306 original size:12 final size:12
Alignment explanation
Indices: 16871289--16871346 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
16871279 TCAGTTTAGT
16871289 TTTAATATTTAA
1 TTTAATATTTAA
*
16871301 TTTAATACTTAA
1 TTTAATATTTAA
16871313 TTT--T-TTTAA
1 TTTAATATTTAA
*
16871322 TTTGATATTTAA
1 TTTAATATTTAA
*
16871334 GTTTGAT-TTTAA
1 -TTTAATATTTAA
16871346 T
1 T
16871347 GTTTATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 7 0.17
10 1 0.03
11 2 0.05
12 24 0.60
13 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (12 bp):
TTTAATATTTAA
Found at i:16871340 original size:13 final size:12
Alignment explanation
Indices: 16871316--16871356 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
16871306 TACTTAATTT
16871316 TTTTAA-TTTGA
1 TTTTAAGTTTGA
16871327 TATTTAAGTTTGA
1 T-TTTAAGTTTGA
16871340 TTTTAATGTTT-A
1 TTTTAA-GTTTGA
16871352 TTTTA
1 TTTTA
16871357 GTATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 16 0.59
13 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (12 bp):
TTTTAAGTTTGA
Found at i:16872669 original size:13 final size:13
Alignment explanation
Indices: 16872651--16872675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16872641 ATTTACAAAG
16872651 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
16872664 GAAAAAGAAAAA
1 GAAAAAGAAAAA
16872676 CTAGGCTTCA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:16873371 original size:7 final size:7
Alignment explanation
Indices: 16873336--16873367 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16873326 GTTAATGTTG
16873336 TAAAAAA
1 TAAAAAA
16873343 TAAAAAA
1 TAAAAAA
16873350 TAAAAAA
1 TAAAAAA
*
16873357 TAAATAA
1 TAAAAAA
16873364 TAAA
1 TAAA
16873368 TAATTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAAAAA
Found at i:16874190 original size:17 final size:16
Alignment explanation
Indices: 16874153--16874186 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16874143 GAGAATAATC
16874153 AATTTTTATATAAATT
1 AATTTTTATATAAATT
* *
16874169 AATTTTTTTGTAAATT
1 AATTTTTATATAAATT
16874185 AA
1 AA
16874187 ATTTATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTTTTATATAAATT
Found at i:16875651 original size:23 final size:23
Alignment explanation
Indices: 16875603--16875651 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
16875593 TCCATTTCTT
*
16875603 TTATTTATATTATAAAATTTTTA
1 TTATTTATATTATAAAATTTTCA
* *
16875626 TTATATTATA-TATACACTTTTCA
1 TTAT-TTATATTATAAAATTTTCA
16875649 TTA
1 TTA
16875652 GTCGGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTATATTATAAAATTTTCA
Found at i:16876916 original size:11 final size:11
Alignment explanation
Indices: 16876900--16876929 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16876890 AAAGAACACA
*
16876900 AAAGCATAAAC
1 AAAGCAGAAAC
16876911 AAAGCAGAAAC
1 AAAGCAGAAAC
16876922 AAAGCAGA
1 AAAGCAGA
16876930 GAAATGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.17, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAGCAGAAAC
Found at i:16877836 original size:3 final size:3
Alignment explanation
Indices: 16877828--16877859 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16877818 AATCGATCCT
16877828 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16877860 GTAATTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16878006 original size:18 final size:16
Alignment explanation
Indices: 16877968--16878012 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
16877958 TAAGTCTTCG
16877968 TTTATTTAATTATTTAA
1 TTTATTT-ATTATTTAA
16877985 -TTATTTATTATTATACA
1 TTTATTTATTATT-TA-A
16878002 TTTATTTATTA
1 TTTATTTATTA
16878013 CTCTTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 1 0.04
18 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATTTATTATTTAA
Found at i:16878423 original size:20 final size:20
Alignment explanation
Indices: 16878380--16878430 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
16878370 AAAAATGATT
*
16878380 TATTTTATTATCGTCATTAT
1 TATTTTATTATCGTCATTAC
*
16878400 TATTATTATT-TCGTCTTTAC
1 TATT-TTATTATCGTCATTAC
*
16878420 TATTTCATTAT
1 TATTTTATTAT
16878431 TTTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (20 bp):
TATTTTATTATCGTCATTAC
Found at i:16884742 original size:20 final size:20
Alignment explanation
Indices: 16884717--16884756 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16884707 ATGATACTCT
*
16884717 GCATTCATGTAAATATCAGA
1 GCATTCATATAAATATCAGA
16884737 GCATTCATATAAATATCAGA
1 GCATTCATATAAATATCAGA
16884757 CATATACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATTCATATAAATATCAGA
Found at i:16885246 original size:44 final size:44
Alignment explanation
Indices: 16885160--16885247 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
16885150 ATGAATTCAC
* * **
16885160 AGTCTTATTTTTCTGAGGTAGCAAGAGATCAGGTTGAAGATTGA
1 AGTCTTATTTTCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGA
*
16885204 AGTCTTATTTTCCTGAGGTAGCAAG-GAAGCAGACTGAGGATTGA
1 AGTCTTATTTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGATTGA
16885248 CCATCCTATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (44 bp):
AGTCTTATTTTCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGA
Found at i:16885306 original size:44 final size:44
Alignment explanation
Indices: 16885256--16885439 Score: 126
Period size: 44 Copynumber: 4.2 Consensus size: 44
16885246 GACCATCCTA
*
16885256 TCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTGCAGATCTTG
1 TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCAGATCTTG
** * * * * * * *
16885300 TCTCCCTGAAGTTGCAGTGGAATAGATTAAAGATGGC-GAATATTG
1 TCTCCCT-AAGCAGTAATGGAGTAGACTGAAGATTGCAG-ATCTTG
* * * * * * *
16885345 TCTCCCTAACCAGTAGTGGAGCAGATTTAAG--T-CACCATAC-TA
1 TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCA-GAT-CTTG
* *
16885387 TCTCCCTAAGCAGTAATGAAGTAGACTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCAGATCTTG
16885431 TCTCCCTAA
1 TCTCCCTAA
16885440 AGTTGCAGTG
Statistics
Matches: 102, Mismatches: 29, Indels: 18
0.68 0.19 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.27
43 1 0.01
44 38 0.37
45 34 0.33
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAATGGAGTAGACTGAAGATTGCAGATCTTG
Found at i:16885481 original size:131 final size:131
Alignment explanation
Indices: 16885247--16885728 Score: 705
Period size: 131 Copynumber: 3.7 Consensus size: 131
16885237 CTGAGGATTG
* *
16885247 ACCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGT
1 ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* ** * *
16885312 TGCAGTGGAATAGATTAAAGATGGCGAATATTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
16885377 C
131 C
* * *
16885378 ACCATAC-TATCTCCCTAAGCAGTAATGAAGTAGACTGAAGATTACAGATCTTGTCTCCCTAAAG
1 ACCAT-CTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAG
16885442 TTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAG
65 TTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAG
*
16885507 CC
130 TC
* * * * *
16885509 ATCATCTTATCTCTCTAACCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTATCTCCCTGAAGT
1 ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * * * *
16885574 TACGGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCTAACCAGTAGTGAAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
16885639 C
131 C
* * * * *
16885640 ACTATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGCAGATCTCGTCTCCCTGAAGT
1 ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
*
16885705 TGCAGTGGAACAAATCGAAGACGG
66 TGCAGTGGAACAGATCGAAGACGG
16885729 TGAGCCTTAA
Statistics
Matches: 314, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
130 1 0.00
131 312 0.99
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
ACCATCTTATCTCCCTAAGCAGTAATGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
C
Found at i:16885826 original size:88 final size:88
Alignment explanation
Indices: 16885721--16885895 Score: 269
Period size: 88 Copynumber: 2.0 Consensus size: 88
16885711 GGAACAAATC
* * * *
16885721 GAAGACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAATAGGCTGAAAATTACATATCTTATCTC
1 GAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTC
*
16885786 CCTAAGCAGTAGTGGAGCAGATT
66 CCTAAGAAGTAGTGGAGCAGATT
* * **
16885809 GAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTGTAGATCTTATCTC
1 GAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTC
16885874 CCTAAGAAGTAGTGGAGCAGAT
66 CCTAAGAAGTAGTGGAGCAGAT
16885896 CAAAGATAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (88 bp):
GAAGACGATGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTC
CCTAAGAAGTAGTGGAGCAGATT
Found at i:16885921 original size:88 final size:88
Alignment explanation
Indices: 16885733--16885929 Score: 223
Period size: 88 Copynumber: 2.2 Consensus size: 88
16885723 AGACGGTGAG
* * * *
16885733 CCTTAACCCCCTAAGCAATAGGGTAATAGGCTGAAAATTACATATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTAG
** * ** *
16885798 TGGAGCAGATTGAAGACGATGAG
66 TGGAGCAGATCAAAGACAACAAA
* * **
16885821 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTGTAGATCTTATCTCCCTAAGAAGTAG
1 CCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTAG
*
16885886 TGGAGCAGATCAAAGATAACAAA
66 TGGAGCAGATCAAAGACAACAAA
* ** *
16885909 TCTTGTCTCCCTAAGCAATAG
1 CCTTAACCCCCTAAGCAATAG
16885930 TGGAGCAGAT
Statistics
Matches: 88, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (88 bp):
CCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTAG
TGGAGCAGATCAAAGACAACAAA
Found at i:16886133 original size:44 final size:44
Alignment explanation
Indices: 16886073--16886606 Score: 226
Period size: 44 Copynumber: 12.0 Consensus size: 44
16886063 GAGCAGAATA
* *
16886073 AAGATACCAATTTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
1 AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
** * * * *
16886117 AAGCCACTAACCTTATCTCCCTGAAGTCGCAGTAGAACATG-TTG
1 AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCA-GATCG
** * **
16886161 AATTTAC-AAGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGA-CTG
1 AAGATACTAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-G
* * * * * * * *
16886205 AAAATAGCGAATCATATCTCTCTAAAGTTACAGTAGAGTAGAGT-A
1 AAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCG
* * * * *
16886250 AAGCTA-TAAATCATATTTCCCTGAAGTTGCAGTGGAGCGGATCG
1 AAGATACT-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
* * * * * * **
16886294 AAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAGCAGAGTTA
1 AAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCG
* * * * * *
16886340 AAGCTA-TAAACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTG
1 AAGATACT-AATCTTATCT-CCCTGAAGTTGCAGTAGAGCAGATCG
* * * * *
16886384 AAGTTAC-ATGTCCTATCTCCTTGAAGTTGCAGTAGAGCGGATCG
1 AAGATACTA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
** * * * *
16886428 AAGATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG
1 AAGATACT-AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
** * * * * * * * **
16886473 AAGCCACAAACCTTATCTCTCTGAAGTTGTATTGGGGCA-AGTTA
1 AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCG
* *
16886517 AAGTTAC-AAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-CTG
1 AAGATACTAA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-G
* * * * *
16886561 AAGAAAGTAGATTTTATCTCCTTGAAGTTGCAATAGAGCAGATCG
1 AAGATACTA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
16886606 A
1 A
16886607 GTTATAATTT
Statistics
Matches: 352, Mismatches: 111, Indels: 53
0.68 0.22 0.10
Matches are distributed among these distances:
43 8 0.02
44 194 0.55
45 139 0.39
46 11 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AAGATACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCG
Found at i:16886287 original size:89 final size:90
Alignment explanation
Indices: 16886178--16886379 Score: 246
Period size: 89 Copynumber: 2.3 Consensus size: 90
16886168 AAGTCTTATC
* * * * * *
16886178 TCCCTGAAGTTGTAGCGGAGCAGA-CTGAAAATAGCGAATCATATCTCTCTAAAGTTACAGTAGA
1 TCCCTGAAGTTGCAGTGGAGCAGATC-GAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAA
* *
16886242 GTAGAG-TAAAGCTATAAATCATATT
65 GCAGAGTTAAAGCTATAAACCATATT
* * * *
16886267 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAAG
*
16886332 CAGAGTTAAAGCTATAAACCTTATT
66 CAGAGTTAAAGCTATAAACCATATT
* *
16886357 CCCCTGAAGTTGCAGTGGGGCAG
1 TCCCTGAAGTTGCAGTGGAGCAG
16886380 GTTGAAGTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 57 0.60
90 38 0.40
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (90 bp):
TCCCTGAAGTTGCAGTGGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAAG
CAGAGTTAAAGCTATAAACCATATT
Found at i:16886370 original size:45 final size:45
Alignment explanation
Indices: 16886229--16886372 Score: 114
Period size: 45 Copynumber: 3.2 Consensus size: 45
16886219 TATCTCTCTA
* * * * *
16886229 AAGTTACAGTAGAGTAGAG-TAAAGCTATAAATCATATTTCCCTG
1 AAGTTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
* * ** * * * *
16886273 AAGTTGCAGTGGAGCGGA-TCGAAGATAGCAAACCTTA-TCTCTCTA
1 AAGTTGCAGTAGAGCAGAGTTAAAGCTA-TAAACCTTATTC-CCCTG
* *
16886318 AAATTGCAGTAAAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
1 AAGTTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
16886363 AAGTTGCAGT
1 AAGTTGCAGT
16886373 GGGGCAGGTT
Statistics
Matches: 71, Mismatches: 24, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
44 20 0.28
45 43 0.61
46 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (45 bp):
AAGTTGCAGTAGAGCAGAGTTAAAGCTATAAACCTTATTCCCCTG
Found at i:16886534 original size:133 final size:134
Alignment explanation
Indices: 16886267--16886554 Score: 337
Period size: 133 Copynumber: 2.2 Consensus size: 134
16886257 AAATCATATT
* *
16886267 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAG
1 TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGCAGTAAAG
* * * * *
16886332 CAGAGTTAAAGCTATAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC
66 CAGAGTTAAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
16886397 TATC
131 TATC
* * ** * * * * **
16886401 TCCTTGAAGTTGCAGTAGAGCGGATCGAAGATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAG
1 TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGCAGTAAAG
* * * * *
16886466 TAGA-TTGAAGCCACAAACCTTA-TCTCTCTGAAGTTGTATTGGGGCAAGTTAAAGTTACAAGTC
66 CAGAGTTAAAGCCACAAACCTTATTC-CCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTC
*
16886529 TTATC
130 CTATC
*
16886534 TCCCTGAAGTTGTAGTAGAGC
1 TCCCTGAAGTTGCAGTAGAGC
16886555 AGACTGAAGA
Statistics
Matches: 128, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
132 2 0.02
133 70 0.55
134 56 0.44
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (134 bp):
TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGCAGTAAAG
CAGAGTTAAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
TATC
Found at i:16886564 original size:133 final size:133
Alignment explanation
Indices: 16886267--16886590 Score: 321
Period size: 133 Copynumber: 2.4 Consensus size: 133
16886257 AAATCATATT
* * * * * * * * * * **
16886267 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGCAGTAAAG
1 TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAGATCTTATCTCCCTGAAGTTGTAGTGGAG
* * * * * * *
16886332 CAGAGTTAAAGCTATAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC
66 TAGA-TTGAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
16886397 TATC
130 TATC
* * **
16886401 TCCTTGAAGTTGCAGTAGAGCGGATCGAAGATGGT-GAATCTTATCTCCCTGAAGTTGTAGTGGA
1 TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAG-ATCTTATCTCCCTGAAGTTGTAGTGGA
* * *
16886465 GTAGATTGAAGCCACAAACCTTA-TCTCTCTGAAGTTGTATTGGGGCAAGTTAAAGTTACAAGTC
65 GTAGATTGAAGCCACAAACCTTATTC-CCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTC
*
16886529 TTATC
129 CTATC
* * *
16886534 TCCCTGAAGTTGTAGTAGAGCAGA-CTGAAGAAAGTAGATTTTATCTCCTTGAAGTTG
1 TCCCTGAAGTTGCAGTAGAGCAGATC-GAAGAAAGTAGATCTTATCTCCCTGAAGTTG
16886591 CAATAGAGCA
Statistics
Matches: 156, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
132 3 0.02
133 97 0.62
134 56 0.36
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (133 bp):
TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAGATCTTATCTCCCTGAAGTTGTAGTGGAG
TAGATTGAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCCT
ATC
Found at i:16888717 original size:14 final size:15
Alignment explanation
Indices: 16888698--16888726 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16888688 ACATCATGTA
16888698 TATTTATTT-TTATT
1 TATTTATTTATTATT
16888712 TATTTATTTATTATT
1 TATTTATTTATTATT
16888727 CTATACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATTTATTATT
Found at i:16890202 original size:53 final size:53
Alignment explanation
Indices: 16890105--16890254 Score: 255
Period size: 53 Copynumber: 2.8 Consensus size: 53
16890095 AGCATCAAAT
* *
16890105 GATTTCCTTGCATTCAACAAACTTATAAAGATTGTAGCTCAAATTTATAAATAA
1 GATTTCTTTGCATTCAACAAACTT-TAGAGATTGTAGCTCAAATTTATAAATAA
* *
16890159 GGTTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTTATAAATAA
1 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAATTTATAAATAA
16890212 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAAT
1 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAAT
16890255 ATCTAGCATT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 68 0.76
54 22 0.24
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (53 bp):
GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAATTTATAAATAA
Found at i:16892092 original size:14 final size:14
Alignment explanation
Indices: 16892073--16892100 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16892063 ATCCAAGAAT
16892073 GCATTAATACATAA
1 GCATTAATACATAA
16892087 GCATTAATACATAA
1 GCATTAATACATAA
16892101 ACATCAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
GCATTAATACATAA
Done.