Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 145 of 222
Found at i:47003152 original size:15 final size:16
Alignment explanation
Indices: 47003118--47003166 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
47003108 AATTTTATAA
*
47003118 AATATTTT-AATTTTT
1 AATATTTTAAATTTAT
47003133 AATATTTTAAATTTAT
1 AATATTTTAAATTTAT
*
47003149 -ATATTTATAAATTAAT
1 AATATTT-TAAATTTAT
47003165 AA
1 AA
47003167 AATAAATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 14 0.48
16 14 0.48
17 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTTTAAATTTAT
Found at i:47005032 original size:25 final size:25
Alignment explanation
Indices: 47004984--47005032 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
47004974 TTATTTTTGG
**
47004984 AAAAAAAACAAAAATTAGTTGTCGA
1 AAAAAAAACAAAAATTAGGAGTCGA
* *
47005009 AAAAAAAATAAAAATTGGGAGTCG
1 AAAAAAAACAAAAATTAGGAGTCG
47005033 CCACCAATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.18
Consensus pattern (25 bp):
AAAAAAAACAAAAATTAGGAGTCGA
Found at i:47010962 original size:11 final size:11
Alignment explanation
Indices: 47010946--47010972 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47010936 TAGAAATTAG
47010946 TTTGTGAAACT
1 TTTGTGAAACT
47010957 TTTGTGAAACT
1 TTTGTGAAACT
47010968 TTTGT
1 TTTGT
47010973 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:47012504 original size:93 final size:92
Alignment explanation
Indices: 47012372--47012566 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
47012362 TTGATTTTGG
* *
47012372 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
47012436 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
47012464 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
47012529 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
47012557 CAAATTCATA
1 TAAATTCATA
47012567 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:47012624 original size:17 final size:17
Alignment explanation
Indices: 47012599--47012632 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47012589 ATAATTTTAA
*
47012599 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
47012616 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
47012633 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:47012634 original size:15 final size:16
Alignment explanation
Indices: 47012599--47012637 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
47012589 ATAATTTTAA
*
47012599 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
47012616 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
47012631 ATTTAAT
1 ATTTAAT
47012638 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:47012641 original size:17 final size:18
Alignment explanation
Indices: 47012603--47012642 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
47012593 TTTTAAATTT
*
47012603 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
47012621 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
47012637 TATTAA
1 TATTAA
47012643 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:47012757 original size:15 final size:15
Alignment explanation
Indices: 47012722--47012773 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
47012712 TTAAGAATTT
*
47012722 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47012736 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47012750 TATTTAATAATAAT-
1 TATTTAATTATAATA
47012764 TATGTTAATT
1 TAT-TTAATT
47012774 TATATTTTAC
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:47012764 original size:120 final size:120
Alignment explanation
Indices: 47012598--47012889 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
47012588 AATAATTTTA
* * *
47012598 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
47012659 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
47012717 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
47012782 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
47012837 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
47012890 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:47012854 original size:59 final size:59
Alignment explanation
Indices: 47012671--47012854 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
47012661 TATAGTATCA
* *
47012671 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
47012730 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
47012789 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
47012850 TATAT
1 TATAT
47012855 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:47012872 original size:16 final size:16
Alignment explanation
Indices: 47012851--47012892 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47012841 TTATTAAATT
*
47012851 ATATATTTTAATTATA
1 ATATATTTTAATAATA
47012867 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
47012882 AT-TATGTTTAA
1 ATATAT-TTTAA
47012893 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:47012877 original size:15 final size:15
Alignment explanation
Indices: 47012842--47012883 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47012832 TTAAGAATTT
*
47012842 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47012856 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47012870 TATTTAATAATAAT
1 TATTTAATTATAAT
47012884 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:47013003 original size:154 final size:157
Alignment explanation
Indices: 47012826--47013140 Score: 564
Period size: 154 Copynumber: 2.0 Consensus size: 157
47012816 ATAAGAATAT
* *
47012826 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
47012891 AAATATGATT-AAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAA
47012953 TAATAATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
47012980 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
47013045 AAATATGATTAAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
66 AAATATGATTAAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACA
* *
47013110 ATAATCATTTACCAAAACAAATTTCTGC
130 ATAATAATTTACCAAAACAAATTTATGC
47013138 TAA
1 TAA
47013141 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
154 73 0.48
155 18 0.12
156 2 0.01
158 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:47013020 original size:18 final size:17
Alignment explanation
Indices: 47012992--47013026 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47012982 ATTATTAAGA
*
47012992 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47013009 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47013027 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47013277 original size:45 final size:44
Alignment explanation
Indices: 47013187--47013279 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 44
47013177 TTACACCTCT
**
47013187 ATTACACTCAACCAAACACAGGATTACTATTACACCTCTATTCC
1 ATTACACTCAACCAAACACAGGATTACTATTACACAGCTATTCC
* *** * *
47013231 ATTACATTCAACCAAACAGTTGATTTGCTATTACACAGCTTTTCC
1 ATTACACTCAACCAAACACAGGA-TTACTATTACACAGCTATTCC
47013276 ATTA
1 ATTA
47013280 TACCTCTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.32
Consensus pattern (44 bp):
ATTACACTCAACCAAACACAGGATTACTATTACACAGCTATTCC
Found at i:47013291 original size:16 final size:16
Alignment explanation
Indices: 47013273--47013329 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
47013263 ACACAGCTTT
* *
47013273 TCCATTATACCTCTAT
1 TCCATTACACCTCTAA
47013289 TCCATTACACCTCTAA
1 TCCATTACACCTCTAA
*
47013305 TCCAATACACCTCTAA
1 TCCATTACACCTCTAA
*
47013321 TCCAATACA
1 TCCATTACA
47013330 GCGAACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.32
Consensus pattern (16 bp):
TCCATTACACCTCTAA
Found at i:47015472 original size:44 final size:44
Alignment explanation
Indices: 47015424--47015936 Score: 235
Period size: 44 Copynumber: 11.8 Consensus size: 44
47015414 GATCCAAGGT
* *
47015424 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGC
* * * *
47015468 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTCT-GCAATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATC-AGC
* * * * *
47015513 TTCAGTTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA-C
1 TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATCAGC
* * * *
47015558 -TTAGTCTACTCCACTGCAACTTCAGGGAGATAAGA--CT-AGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGC
* * * * * * * * *
47015598 TGTGATCTACT-CTCTGCAACTTTAGAGAAATAAGA-T-CCAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATC-A-GC
* * * *
47015641 TTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGC
* *
47015685 TTTAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGGTT-TGCTATC
1 TTTAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTAT-C-AGC
* * *
47015730 TTCAATCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTACTTA-C
1 TTTAATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTA-TCAGC
* * *
47015775 -TTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA-T-T-AGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGC
*** * ** * * * *
47015815 TGGGATCTGCT-CTCTGTGACTTCAGAGAAATAAGA-T-CCAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATC-A-GC
* * ** * *
47015858 TTTAATCCGTTCCACTATAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGC
*
47015902 TTTAA-CTTGCTCCACTGCAACTTCAGAGAGATAAG
1 TTTAATC-TGCTCCACTGCAACTTCAGGGAGATAAG
47015937 GTCTGCAATC
Statistics
Matches: 347, Mismatches: 86, Indels: 72
0.69 0.17 0.14
Matches are distributed among these distances:
39 2 0.01
40 42 0.12
41 13 0.04
42 3 0.01
43 17 0.05
44 193 0.56
45 68 0.20
46 8 0.02
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGC
Found at i:47015733 original size:217 final size:217
Alignment explanation
Indices: 47015345--47016025 Score: 1056
Period size: 217 Copynumber: 3.1 Consensus size: 217
47015335 ACTCCATTAA
* * * ** * * * *
47015345 TCTGTTCCACTGCAATTTTAGAAAGATAAGAGTAGATGCGATCTTCTCTCTGCAACTGCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
* * *
47015410 ATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAACC
66 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACT
*
47015475 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTTTGCCTCACTGCAACTTCAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
47015540 AGGATAAGACTTGCTTACTTAG
196 AGGATAAGACTTGCTTACTTAG
* * *
47015562 TCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTACTCTCTGCAACTTTAGAGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
47015627 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACT
66 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACT
* * * *
47015692 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAATCTGCCCCACTGCAACTTCAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
*
47015757 AGGATAAGACTTACTTACTTAG
196 AGGATAAGACTTGCTTACTTAG
* * * * **
47015779 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGGGATCTGCTCTCTGTGACTTCAGAGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
**
47015844 ATAAGATCCAAGGTTTTAATCCGTTCCACTATAACTTCAGGGAGATAGGATTATCGGCTTTAACT
66 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACT
* *
47015909 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
*
47015974 ACGATAAGACTTGCTTACTTAG
196 AGGATAAGACTTGCTTACTTAG
* *
47015996 TCTGCTCCACTACAACTTCAGGGAGTTAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
47016026 GTCTGCAATC
Statistics
Matches: 422, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 422 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAA
ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACT
TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
AGGATAAGACTTGCTTACTTAG
Found at i:47015980 original size:45 final size:44
Alignment explanation
Indices: 47015914--47016115 Score: 177
Period size: 45 Copynumber: 4.5 Consensus size: 44
47015904 TAACTTGCTC
47015914 CACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCT
1 CACTGCAACTTCAG-GAGATAAGGTCTGCAATCTTCAGTCTGCCT
* * *
47015959 CACTGCAACTTTAGGACGATAA-GACTTGC-TTACTT-AGTCTG-CT
1 CACTGCAACTTCAGGA-GATAAGGTC-TGCAAT-CTTCAGTCTGCCT
* *
47016002 CCACTACAACTTCAGGGAGTTAAGGTCTGCAATCTTCAGTCTGCCT
1 -CACTGCAACTTCA-GGAGATAAGGTCTGCAATCTTCAGTCTGCCT
* * *
47016048 CATTGCAACTTCAGGAGGATAA-GACTTGC-TTACTT-AGTCTG-CT
1 CACTGCAACTTCAGGA-GATAAGGTC-TGCAAT-CTTCAGTCTGCCT
47016091 CCACTGCAACTTCAAGGAGATAAGG
1 -CACTGCAACTTC-AGGAGATAAGG
47016116 CTAGATGGGA
Statistics
Matches: 128, Mismatches: 14, Indels: 30
0.74 0.08 0.17
Matches are distributed among these distances:
43 4 0.03
44 60 0.47
45 62 0.48
46 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CACTGCAACTTCAGGAGATAAGGTCTGCAATCTTCAGTCTGCCT
Found at i:47016012 original size:89 final size:89
Alignment explanation
Indices: 47015909--47016115 Score: 344
Period size: 89 Copynumber: 2.3 Consensus size: 89
47015899 GGCTTTAACT
*
47015909 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
47015974 ACGATAAGACTTGCTTACTTAGTC
66 ACGATAAGACTTGCTTACTTAGTC
* * * *
47015998 TGCTCCACTACAACTTCAGGGAGTTAAGGTCTGCAATCTTCAGTCTGCCTCATTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
*
47016063 AGGATAAGACTTGCTTACTTAGTC
66 ACGATAAGACTTGCTTACTTAGTC
47016087 TGCTCCACTGCAACTTCA-AGGAGATAAGG
1 TGCTCCACTGCAACTTCAGA-GAGATAAGG
47016116 CTAGATGGGA
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
89 108 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
ACGATAAGACTTGCTTACTTAGTC
Found at i:47016181 original size:434 final size:431
Alignment explanation
Indices: 47015345--47016190 Score: 1028
Period size: 434 Copynumber: 1.9 Consensus size: 431
47015335 ACTCCATTAA
* * * *
47015345 TCTGTTCCACTGCAATTTTAGAAAGATAAGAGTAGATGCGATCTTCTCTCTGCAACTGCAGAGAG
1 TCTGCTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTGCAGAGAA
*
47015410 ATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAACC
66 ATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTTAACC
* *
47015475 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTTTGCCTCACTGCAACTTCAGG
131 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
* * *
47015540 AGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATC
196 ACGATAAGACTTGCTTACTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTAGATGTCATC
* * * *
47015605 TACTCTCTGCAACTTTAGAGAAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAACTTCAGGGA
261 TACTCTCTGCAACTTCAGAGAAATAAGA-CCAAGCTTTTAATCCGCTCCACTGCAACTTCAAGGA
* * * * * *
47015670 GATAGGATTATCGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAA
325 GATAGGATGATCGG--TGAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTATCCAATCTTCAA
**
47015735 TCTGCCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
388 TCCACCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
** * * ** *
47015779 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGGGATCTGCTCTCTGTGACTTCAGAGAA
1 TCTGCTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTGCAGAGAA
* * * *
47015844 ATAAGATCCAAGGTTTTAATCCGTTCCACTATAACTTCAGGGAGATAGGATTATCGGCTTTAACT
66 ATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTTAACC
*
47015909 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTAGG
131 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
* * * *
47015974 ACGATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGTTAAGGTCT-GCAATCTT
196 ACGATAAGACTTGCTTACTTAGTCTACTCCACTACAACTTCAGGGAGATAA-GACTAG--AT-GT
* * ** * *
47016038 CAGTCTGC-CTCATTGCAACTTCAG-GAGGATAAGA-CTTGCTTACTTAGTCTGCTCCACTGCAA
257 CA-TCTACTCTC--TGCAACTTCAGAGA-AATAAGACCAAGCTT--TTAATCCGCTCCACTGCAA
* * *
47016100 CTTCAAGGAGATAAGGCTAGAT-GG-GATC-TGCT-CTCTGCAACTTCAGAGAGATAA-G-ATCC
316 CTTCAAGGAGAT-AGGAT-GATCGGTGAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTATCC
* * *
47016159 AATGTTTTAATCCACTCCACTGCAACTTCAGG
379 AAT-CTTCAATCCACCCCACTGCAACTTCAGG
47016191 GAGATAGGAT
Statistics
Matches: 349, Mismatches: 50, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
433 4 0.01
434 248 0.71
435 23 0.07
436 6 0.02
437 11 0.03
438 6 0.02
439 43 0.12
440 6 0.02
441 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (431 bp):
TCTGCTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTGCAGAGAA
ATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTTAACC
TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
ACGATAAGACTTGCTTACTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTAGATGTCATC
TACTCTCTGCAACTTCAGAGAAATAAGACCAAGCTTTTAATCCGCTCCACTGCAACTTCAAGGAG
ATAGGATGATCGGTGAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTATCCAATCTTCAATCC
ACCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
Found at i:47028082 original size:15 final size:15
Alignment explanation
Indices: 47028064--47028098 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
47028054 CAAATGCCAT
47028064 AATAATAAATACAAC
1 AATAATAAATACAAC
*
47028079 AATAATAAATACATC
1 AATAATAAATACAAC
47028094 AATAA
1 AATAA
47028099 CATAGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:47028623 original size:31 final size:31
Alignment explanation
Indices: 47028546--47028624 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 31
47028536 AAATAAATGG
47028546 ATACATA-AAAAATATATAAAAAAAATATTAA
1 ATACATATAAAAATAT-TAAAAAAAATATTAA
* * *
47028577 ATA-ATAATTACAATATTAAAAATAAATA-TAC
1 ATACAT-ATAAAAATATTAAAAA-AAATATTAA
47028608 ATACATATAAAAATATT
1 ATACATATAAAAATATT
47028625 TGTTTTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
30 2 0.05
31 24 0.62
32 13 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (31 bp):
ATACATATAAAAATATTAAAAAAAATATTAA
Found at i:47029540 original size:14 final size:15
Alignment explanation
Indices: 47029512--47029544 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
47029502 TTTCTTTTAA
47029512 AAAATAACAAAAACG
1 AAAATAACAAAAACG
47029527 AAAATAAC-AAAACG
1 AAAATAACAAAAACG
47029541 AAAA
1 AAAA
47029545 AAAATCAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.76, C:0.12, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAATAACAAAAACG
Found at i:47029545 original size:15 final size:16
Alignment explanation
Indices: 47029511--47029545 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
47029501 ATTTCTTTTA
47029511 AAAAATAACAAAAACG
1 AAAAATAACAAAAACG
47029527 -AAAATAAC-AAAACG
1 AAAAATAACAAAAACG
47029541 AAAAA
1 AAAAA
47029546 AAATCAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.77, C:0.11, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAAATAACAAAAACG
Found at i:47030479 original size:39 final size:39
Alignment explanation
Indices: 47030421--47030496 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
47030411 TTCCGGTTCT
*
47030421 TTCATAACAACCAACACATTATAAGAAAAAAATATACCA
1 TTCATAACAACCAACACATTATAAGAAAAAAAAATACCA
* *
47030460 TTCATAACAACCAATACATTATAGGAAAAAAAAATAC
1 TTCATAACAACCAACACATTATAAGAAAAAAAAATAC
47030497 ACCATTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.57, C:0.18, G:0.04, T:0.21
Consensus pattern (39 bp):
TTCATAACAACCAACACATTATAAGAAAAAAAAATACCA
Found at i:47039233 original size:175 final size:173
Alignment explanation
Indices: 47038922--47039239 Score: 476
Period size: 175 Copynumber: 1.8 Consensus size: 173
47038912 ACTATTCATA
* *
47038922 GACTAAACTGAATAAATCATGGATTTTGGGCAAAATCGTAAAGTAAGGGTCACATAGTGGTGTGG
1 GACTAAACTAAATAAATCATGGATTTTGGGCAAAATCATAAAGTAAGGGTCACATAGTGGTGTGG
** * * * * *
47038987 CCCGGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTATACAACCGTGTGGCCAGGTCGTGTA
66 CCAAGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTACACAACCGTGTGGCCAAGCCATATA
47039052 ATAGACTGTGGTCATGTCTAATACAATTCGAGGATTATTTAGG
131 ATAGACTGTGGTCATGTCTAATACAATTCGAGGATTATTTAGG
*
47039095 GACTAAACTAAATAAATCATGGATTTTTGGGCAAAATCATAAAGTAGGGGTCACATAGTGGTGTG
1 GACTAAACTAAATAAATCATGGA-TTTTGGGCAAAATCATAAAGTAAGGGTCACATAGTGGTGTG
* ** *
47039160 GCCAAAGCCATGTGAGAA-GCTGTAGGCTGTGTGGAAGGGTTACACAGCCGTGTGGCCAAGCCAT
65 GCC-AAGCCATGTGA-AAGGCTATAGGCCATGTGGAAGGGTTACACAACCGTGTGGCCAAGCCAT
47039224 ATAATAGACTGTGGTC
128 ATAATAGACTGTGGTC
47039240 GTGTGACAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
173 22 0.17
174 42 0.33
175 62 0.48
176 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (173 bp):
GACTAAACTAAATAAATCATGGATTTTGGGCAAAATCATAAAGTAAGGGTCACATAGTGGTGTGG
CCAAGCCATGTGAAAGGCTATAGGCCATGTGGAAGGGTTACACAACCGTGTGGCCAAGCCATATA
ATAGACTGTGGTCATGTCTAATACAATTCGAGGATTATTTAGG
Found at i:47041978 original size:23 final size:22
Alignment explanation
Indices: 47041936--47041994 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
47041926 TAAAAGCTAT
* *
47041936 TTACAAATCAAATC-CCTAAGA
1 TTACAAATCATATCTTCTAAGA
*
47041957 TTACAGAATCATATCTTCTAAGC
1 TTACA-AATCATATCTTCTAAGA
*
47041980 TTACATATCATATCT
1 TTACAAATCATATCT
47041995 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.16
22 17 0.53
23 10 0.31
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:47045320 original size:17 final size:19
Alignment explanation
Indices: 47045281--47045320 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47045271 AATACATACA
47045281 TTAATCCAATCAAGAAAAC
1 TTAATCCAATCAAGAAAAC
*
47045300 TTAATCCAA-CAA-AAAAG
1 TTAATCCAATCAAGAAAAC
47045317 TTAA
1 TTAA
47045321 ATTCATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (19 bp):
TTAATCCAATCAAGAAAAC
Found at i:47048169 original size:135 final size:135
Alignment explanation
Indices: 47047990--47048295 Score: 447
Period size: 135 Copynumber: 2.3 Consensus size: 135
47047980 ATTTTTGTGA
* * *
47047990 TAATTAATCATGCAATTTAATTGATGCACCACAATTGTTGTTAATTTTAAAAA-ACGATCAATTG
1 TAATTACTCATGCAATTTAATTGATGCACCACAATTCTTGTTAATTTTAAAAACAAG-TCAATT-
* ** *
47048054 C-TGTTATCATTTTATTGTAATTACCTGTGCAATTTAATTGATGCACCATAATTATTATTACCAT
64 CTTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTATTATTACCAT
47048118 TTTATTG
129 TTTATTG
* * * *
47048125 TAATTACTCATGCAATTTAATCGATGGATCACAATTACTT-TTAATTTTAAAAACAAGTCTATTC
1 TAATTACTCATGCAATTTAATTGATGCACCACAATT-CTTGTTAATTTTAAAAACAAGTCAATTC
* *
47048189 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTATTGTTATCATT
65 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTATTATTACCATT
47048254 TTATTG
130 TTATTG
47048260 TAATTACTCATGCAATTTAATTGATGCACCACAATT
1 TAATTACTCATGCAATTTAATTGATGCACCACAATT
47048296 TAATTAAAAG
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
134 1 0.01
135 147 0.97
136 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (135 bp):
TAATTACTCATGCAATTTAATTGATGCACCACAATTCTTGTTAATTTTAAAAACAAGTCAATTCT
TGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTATTATTACCATTT
TATTG
Found at i:47048249 original size:54 final size:54
Alignment explanation
Indices: 47048189--47048295 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
47048179 AAGTCTATTC
47048189 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
1 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
* *
47048243 TTGTTATCATTTTATTGTAATTACTCATGCAATTTAATTGATGCACCACAATT
1 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATT
47048296 TAATTAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (54 bp):
TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
Found at i:47051144 original size:5 final size:5
Alignment explanation
Indices: 47051129--47051158 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
47051119 TTTTAAAACA
47051129 AAAAT ATAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAA
47051159 ATAAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:47051159 original size:11 final size:11
Alignment explanation
Indices: 47051129--47051162 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
47051119 TTTTAAAACA
*
47051129 AAAATATAAAT
1 AAAATAAAAAT
47051140 AAAAT-AAAAT
1 AAAATAAAAAT
47051150 AAAATAAAAAT
1 AAAATAAAAAT
47051161 AA
1 AA
47051163 GTTAATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:47059193 original size:86 final size:87
Alignment explanation
Indices: 47058976--47059241 Score: 358
Period size: 86 Copynumber: 3.1 Consensus size: 87
47058966 AAACCACTGC
* * * *
47058976 TTATTTG-CAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGCCA
1 TTATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTA
* *
47059040 CTTGGTTCATGATCGAACAACA
66 CTTGGTTCATAATCGAACCACA
* * * *
47059062 TATATTT-TAAGTTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAATAAACTGTT
1 T-TATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCT
* *
47059126 GCTTGGTTCATAATCTAACCACA
65 ACTTGGTTCATAATCGAACCACA
* * *
47059149 TTGTTTGTAA-TTACTGCCACTTGTTGTGAGTGCATAACATATTTGTAAATTAAACAAACTGCTA
1 TTATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTA
*
47059213 CTTGGTTAATAATCGAACCACA
66 CTTGGTTCATAATCGAACCACA
47059235 TTATTTG
1 TTATTTG
47059242 CATATTAAAC
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
86 78 0.51
87 76 0.49
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (87 bp):
TTATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTA
CTTGGTTCATAATCGAACCACA
Found at i:47059823 original size:27 final size:28
Alignment explanation
Indices: 47059752--47059823 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
47059742 ATAAAATTTT
*
47059752 GGGCAAAATTATAAAATCTAAAAAATAA
1 GGGCAAAATTGTAAAATCTAAAAAATAA
* * * * *
47059780 AGGCAAATTTGTTAAATC-CAAAAATAG
1 GGGCAAAATTGTAAAATCTAAAAAATAA
*
47059807 GGGCAAAACTGTAAAAT
1 GGGCAAAATTGTAAAAT
47059824 TTGGAAAACA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 20 0.59
28 14 0.41
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (28 bp):
GGGCAAAATTGTAAAATCTAAAAAATAA
Found at i:47064734 original size:2 final size:2
Alignment explanation
Indices: 47064727--47064755 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47064717 ATCTCATGGA
47064727 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
47064756 TATCATGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:47066604 original size:13 final size:15
Alignment explanation
Indices: 47066575--47066607 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
47066565 TTGGATACCA
47066575 AAATTGCAACACAAC
1 AAATTGCAACACAAC
47066590 AAATTGC-AC-CAAC
1 AAATTGCAACACAAC
47066603 AAATT
1 AAATT
47066608 TGTTTACCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.52, C:0.24, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATTGCAACACAAC
Found at i:47066715 original size:5 final size:5
Alignment explanation
Indices: 47066705--47066748 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
47066695 GATTTTTGGG
*
47066705 AATAA AATAA AATAA AATAAA AATAA AATAA ACTCAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AAT-AA AATAA AA
47066749 ATCCCACTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 26 0.74
6 9 0.26
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:47066729 original size:11 final size:10
Alignment explanation
Indices: 47066705--47066748 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
47066695 GATTTTTGGG
47066705 AATAAAATAA
1 AATAAAATAA
47066715 AATAAAATAAA
1 AATAAAAT-AA
47066726 AATAAAATAA
1 AATAAAATAA
*
47066736 ACTCAAAATAA
1 AAT-AAAATAA
47066747 AA
1 AA
47066749 ATCCCACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (10 bp):
AATAAAATAA
Found at i:47066729 original size:16 final size:16
Alignment explanation
Indices: 47066708--47066748 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
47066698 TTTTGGGAAT
47066708 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
47066724 AAAATAAAATAAACTC
1 AAAATAAAATAAAATA
47066740 AAAATAAAA
1 AAAATAAAA
47066749 ATCCCACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:47068745 original size:23 final size:24
Alignment explanation
Indices: 47068702--47068762 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
47068692 TATTGATGAT
* **
47068702 ATAAATATAT-TTATTTTAAAT-A
1 ATAAATAAATATTATTAAAAATAA
47068724 ATAAATAAATATTATTAAAAATAA
1 ATAAATAAATATTATTAAAAATAA
*
47068748 ATAGATAAA-ATTATT
1 ATAAATAAATATTATT
47068763 TTCTTGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 9 0.27
23 15 0.45
24 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAAATAAATATTATTAAAAATAA
Found at i:47068746 original size:20 final size:20
Alignment explanation
Indices: 47068713--47068750 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47068703 TAAATATATT
47068713 TATTTTAAATAATAAATAAA
1 TATTTTAAATAATAAATAAA
47068733 TATTATTAAA-AATAAATA
1 TATT-TTAAATAATAAATA
47068751 GATAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TATTTTAAATAATAAATAAA
Found at i:47068760 original size:20 final size:21
Alignment explanation
Indices: 47068717--47068760 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
47068707 TATATTTATT
**
47068717 TTAAATAATAAATAAATATTA
1 TTAAATAATAAATAAATAAAA
*
47068738 TTAAA-AATAAATAGATAAAA
1 TTAAATAATAAATAAATAAAA
47068758 TTA
1 TTA
47068761 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATAATAAATAAATAAAA
Found at i:47069649 original size:16 final size:16
Alignment explanation
Indices: 47069628--47069696 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
47069618 TTTGGTTCGC
47069628 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47069644 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47069660 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
47069677 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47069693 TGTA
1 TGTA
47069697 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47069674 original size:33 final size:32
Alignment explanation
Indices: 47069628--47069696 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
47069618 TTTGGTTCGC
47069628 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
47069660 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
47069693 TGTA
1 TGTA
47069697 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:47069761 original size:44 final size:45
Alignment explanation
Indices: 47069677--47069767 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47069667 GGATTAGAGG
* * *
47069677 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
47069722 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
47069766 TG
1 TG
47069768 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:47069953 original size:18 final size:19
Alignment explanation
Indices: 47069932--47069968 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47069922 TTATTATTAA
47069932 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
47069950 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
47069969 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:47070076 original size:59 final size:58
Alignment explanation
Indices: 47070010--47070195 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
47070000 CTCAAATCAT
* *
47070010 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
47070069 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
47070129 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
47070189 AATATAT
1 AATATAT
47070196 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:47070133 original size:120 final size:120
Alignment explanation
Indices: 47069912--47070201 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
47069902 TTAATCATAT
47069912 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
47069977 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
47070034 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
47070098 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
47070154 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
47070202 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:47072539 original size:6 final size:6
Alignment explanation
Indices: 47072528--47072556 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47072518 GTTATCCCCA
47072528 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
47072557 CCAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:47076230 original size:120 final size:120
Alignment explanation
Indices: 47076092--47076504 Score: 740
Period size: 120 Copynumber: 3.4 Consensus size: 120
47076082 AATTATTTTA
* * * * *
47076092 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--ACTTTATATT
*
47076155 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
47076212 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
47076277 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
47076332 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
47076397 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
47076452 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
47076505 TAAATATGAT
Statistics
Matches: 285, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.01
120 279 0.98
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:47076252 original size:15 final size:15
Alignment explanation
Indices: 47076217--47076258 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47076207 TTAAGAATTT
*
47076217 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47076231 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47076245 TATTTAATAATAAT
1 TATTTAATTATAAT
47076259 TATGTTACTT
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:47076372 original size:15 final size:15
Alignment explanation
Indices: 47076337--47076378 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47076327 TTAAGAATTT
*
47076337 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47076351 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47076365 TATTTAATAATAAT
1 TATTTAATTATAAT
47076379 TATGTTACTT
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:47076487 original size:16 final size:16
Alignment explanation
Indices: 47076466--47076507 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47076456 TTATTAAATT
*
47076466 ATATATTTTAATTATA
1 ATATATTTTAATAATA
47076482 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
47076497 AT-TATGTTTAA
1 ATATAT-TTTAA
47076508 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:47076492 original size:15 final size:15
Alignment explanation
Indices: 47076457--47076498 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47076447 TTAAGAATTT
*
47076457 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47076471 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47076485 TATTTAATAATAAT
1 TATTTAATTATAAT
47076499 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:47076648 original size:157 final size:157
Alignment explanation
Indices: 47076441--47076757 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
47076431 ATAAGAATAT
*
47076441 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
47076506 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
47076571 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
47076598 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
47076662 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
47076727 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
47076755 TAA
1 TAA
47076758 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 25 0.16
157 127 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:47076835 original size:39 final size:40
Alignment explanation
Indices: 47076786--47076894 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 40
47076776 AGTTTTTTCC
47076786 ATTATGCTATTACACCTCTATTCCATTCAACCAAACACAAG
1 ATTA-GCTATTACACCTCTATTCCATTCAACCAAACACAAG
* ***
47076827 ATTA-CTATTACGCCTCTATTCTATTACATTCAACCAAACAGTGG
1 ATTAGCTATTACACCTCTATTC-----CATTCAACCAAACACAAG
*
47076871 ATTAGCTATTACACCTCTAATCCA
1 ATTAGCTATTACACCTCTATTCCA
47076895 ATACACCTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
39 16 0.29
40 2 0.04
41 4 0.07
44 19 0.34
45 15 0.27
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (40 bp):
ATTAGCTATTACACCTCTATTCCATTCAACCAAACACAAG
Found at i:47076865 original size:44 final size:45
Alignment explanation
Indices: 47076802--47076889 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
47076792 CTATTACACC
* *
47076802 TCTATTCCATTCAACCAAACACAAGATTA-CTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTAGCTATTACACCTCTAT
***
47076846 TCTATTACATTCAACCAAACAGTGGATTAGCTATTACACCTCTA
1 TCTATTACATTCAACCAAACACAAGATTAGCTATTACACCTCTA
47076890 ATCCAATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 25 0.66
45 13 0.34
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACACAAGATTAGCTATTACACCTCTAT
Found at i:47076901 original size:16 final size:16
Alignment explanation
Indices: 47076880--47076948 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
47076870 GATTAGCTAT
47076880 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47076896 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
47076913 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47076929 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47076945 TACA
1 TACA
47076949 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47076922 original size:33 final size:32
Alignment explanation
Indices: 47076880--47076948 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
47076870 GATTAGCTAT
47076880 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
47076913 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
47076945 TACA
1 TACA
47076949 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:47081226 original size:14 final size:14
Alignment explanation
Indices: 47081207--47081244 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
47081197 GTTTGGCAAT
47081207 AAAATGTTTTCCGG
1 AAAATGTTTTCCGG
* *
47081221 AAAATGATTTCTGG
1 AAAATGTTTTCCGG
47081235 AAAATGTTTT
1 AAAATGTTTT
47081245 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:47081253 original size:20 final size:20
Alignment explanation
Indices: 47081228--47081267 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47081218 CGGAAAATGA
*
47081228 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
47081248 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
47081268 GGAAAATATT
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:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:47081257 original size:34 final size:35
Alignment explanation
Indices: 47081213--47081279 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
47081203 CAATAAAATG
*
47081213 TTTTCCGGAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
*
47081247 TTTTCTGGAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTT
47081280 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (35 bp):
TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
Found at i:47081401 original size:42 final size:42
Alignment explanation
Indices: 47081354--47081483 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 42
47081344 TCCGAAAAAG
47081354 TTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAA
1 TTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAA
** * *
47081396 TTGTTTTTAC----ATATATT-GCAA-----T-GATTTT-G-
1 TTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAA
47081425 TTGTTTTTACATAATATATATTAATAATTTTTTATATTTTAAA
1 TTGTTTTTACAT-ATATATATTAATAATTTTTTATATTTTAAA
47081468 TTGTTTTTACATATAT
1 TTGTTTTTACATATAT
47081484 TGCAATGATT
Statistics
Matches: 66, Mismatches: 8, Indels: 28
0.65 0.08 0.27
Matches are distributed among these distances:
29 10 0.15
31 5 0.08
32 1 0.02
34 7 0.11
35 2 0.03
37 2 0.03
38 7 0.11
40 1 0.02
41 5 0.08
42 14 0.21
43 12 0.18
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (42 bp):
TTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAA
Found at i:47081423 original size:40 final size:40
Alignment explanation
Indices: 47081354--47081495 Score: 122
Period size: 40 Copynumber: 3.7 Consensus size: 40
47081344 TCCGAAAAAG
**
47081354 TTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAA
1 TTGTTTTTACATATAT-T-GCAATAATTTTTTATATTTTAAA
* * *
47081396 TTGTTTTTACATATATTGCAATGATTTTGTTGT-TTTTACA
1 TTGTTTTTACATATATTGCAATAATTTT-TTATATTTTAAA
* *
47081436 ------TAATATATATT--AATAATTTTTTATATTTTAAA
1 TTGTTTTTACATATATTGCAATAATTTTTTATATTTTAAA
*
47081468 TTGTTTTTACATATATTGCAATGATTTT
1 TTGTTTTTACATATATTGCAATAATTTT
47081496 ATAATCAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 22
0.69 0.12 0.20
Matches are distributed among these distances:
31 3 0.04
32 14 0.18
34 9 0.12
38 9 0.12
40 22 0.29
41 4 0.05
42 16 0.21
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (40 bp):
TTGTTTTTACATATATTGCAATAATTTTTTATATTTTAAA
Found at i:47081454 original size:72 final size:71
Alignment explanation
Indices: 47081353--47081495 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 71
47081343 TTCCGAAAAA
47081353 GTTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAATTGTTTTTACATATATTGCAAT
1 GTTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAATTGTTTTTACATATATTGCAAT
47081418 GATTTT
66 GATTTT
47081424 GTTGTTTTTACATAATATATATTAATAATTTTTTATATTTTAAATTGTTTTTACATATATTGCAA
1 GTTGTTTTTACAT-ATATATATTAATAATTTTTTATATTTTAAATTGTTTTTACATATATTGCAA
47081489 TGATTTT
65 TGATTTT
47081496 ATAATCAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 13 0.18
72 58 0.82
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (71 bp):
GTTGTTTTTACATATATATATTAATAATTTTTTATATTTTAAATTGTTTTTACATATATTGCAAT
GATTTT
Found at i:47081616 original size:34 final size:32
Alignment explanation
Indices: 47081568--47081630 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 32
47081558 TGAAAACAAC
47081568 TAATATCAATATTTGTAATTGTGTTAAAATAA
1 TAATATCAATATTTGTAATTGTGTTAAAATAA
47081600 TAATACTCAATTATTTGTAATTGTGTTAAAA
1 TAATA-TCAA-TATTTGTAATTGTGTTAAAA
47081631 ACAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.17
33 4 0.14
34 20 0.69
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (32 bp):
TAATATCAATATTTGTAATTGTGTTAAAATAA
Found at i:47083854 original size:13 final size:13
Alignment explanation
Indices: 47083836--47083860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47083826 TACCTTTCTA
47083836 AAGAAAGTCTGCG
1 AAGAAAGTCTGCG
47083849 AAGAAAGTCTGC
1 AAGAAAGTCTGC
47083861 CCAAGACAAG
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:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (13 bp):
AAGAAAGTCTGCG
Found at i:47092752 original size:38 final size:38
Alignment explanation
Indices: 47092701--47092824 Score: 230
Period size: 38 Copynumber: 3.3 Consensus size: 38
47092691 GTACTATTTG
47092701 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
1 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
47092739 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
1 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
* *
47092777 GAGTGTAGGGATGGGTGGGTTGATTATATCCTCACATG
1 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
47092815 GAGTGTAGGG
1 GAGTGTAGGG
47092825 TTGGATGGAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.21, C:0.11, G:0.37, T:0.31
Consensus pattern (38 bp):
GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
Found at i:47094050 original size:58 final size:58
Alignment explanation
Indices: 47093982--47094094 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 58
47093972 TTTTAAATGA
*
47093982 GTTTTGTTTTAAAAATAAATAAAATCAAGTAATTAATATATGATGTTTTAT-CTTTTTG
1 GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATG-TGTTTTATACTTTTTG
* *
47094040 GTTTTGTTTTAAAAATAAATAAAATAAAGTATTTAATATATGTTTTTTATACTTT
1 GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGTGTTTTATACTTT
47094095 CCTTTTTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
57 7 0.14
58 44 0.86
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (58 bp):
GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGTGTTTTATACTTTTTG
Found at i:47101820 original size:24 final size:27
Alignment explanation
Indices: 47101772--47101820 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
47101762 ATAAAATACA
*
47101772 TCTTTGCATTCATTTTTGAGCCAATAT
1 TCTTTGCATTCATTTTTGAGACAATAT
47101799 TCTTT-CATTC-TTTTTGA-ACAAT
1 TCTTTGCATTCATTTTTGAGACAAT
47101821 TACTCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 7 0.33
26 5 0.24
27 5 0.24
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.51
Consensus pattern (27 bp):
TCTTTGCATTCATTTTTGAGACAATAT
Found at i:47104929 original size:44 final size:44
Alignment explanation
Indices: 47104863--47104974 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 44
47104853 AAATAACAAA
*
47104863 CCTAGATCCTTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGATCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
47104907 CCTAGATCCCTGACCAGTAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGATCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
** **
47104951 CCTATCTCCCTGGTCAGCAGTGGA
1 CCTAGATCCCTGACCAGCAGTGGA
47104975 GTGGGTGCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (44 bp):
CCTAGATCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:47105101 original size:128 final size:128
Alignment explanation
Indices: 47104946--47105474 Score: 792
Period size: 128 Copynumber: 4.1 Consensus size: 128
47104936 TTGAAGATTG
*
47104946 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGT-GGGTGCAAAATTACAGATCTTGTCTCCCTAAGC
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTG-AAAATTACAGATCTTGTCTCCCTAAGC
* *
47105010 AGTAGCGGAGCAGATTGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
65 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * *
47105074 CAAGTCCTATATCCCTGGTCAGCAGTGGAATATGTTGAAAATTACAGATCTTGTCTCCTTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
* * * * *
47105139 GTAGTGGAGCAAATCAAAGACGGCGAATCTTTTCTTCAAGTGCAAGGAAGCAGATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* ** * *
47105202 CAAGTCCTATGTCCCTGACCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGTA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
*
47105267 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * *
47105330 CAAGTCCTATGTCCCTGGTTAGCAGTGGAGTAGGTTGGAAATTACAGATCTCGTCTCCCTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
* * *
47105395 GTAGCGGAGCAGATCGAAAATGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTGAAGCCGA
66 GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC-A
*
47105459 TAA-TCCTATCTCCCTG
1 CAAGTCCTATCTCCCTG
47105475 AAGTTGTAGT
Statistics
Matches: 362, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
128 356 0.98
129 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (128 bp):
CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
Found at i:47107308 original size:17 final size:16
Alignment explanation
Indices: 47107286--47107320 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
47107276 ATCTAACTCT
*
47107286 TATATATTATTATTATA
1 TATATACTATTATT-TA
47107303 TATATACTATTATTTA
1 TATATACTATTATTTA
47107319 TA
1 TA
47107321 CTAGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATACTATTATTTA
Found at i:47107391 original size:5 final size:5
Alignment explanation
Indices: 47107374--47107404 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
47107364 AGTTATTCAC
*
47107374 TTTTA TTTCA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
47107405 ATATAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:47110045 original size:25 final size:25
Alignment explanation
Indices: 47110001--47110049 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
47109991 AGTTATAACC
*
47110001 ATTTTTTATGATACGCAAATTAAGT
1 ATTTTTTATAATACGCAAATTAAGT
* *
47110026 ATTTTTTATAATATGTAAATTAAG
1 ATTTTTTATAATACGCAAATTAAG
47110050 CCAAAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (25 bp):
ATTTTTTATAATACGCAAATTAAGT
Found at i:47114728 original size:44 final size:44
Alignment explanation
Indices: 47114590--47114731 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 44
47114580 ATGGGGATGA
* * * *
47114590 GATTTGTGGTTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
* *
47114634 GACTTTTTATGGTAAATTTAATCCGAC-CTACTGCAACTTCAGAGG-TATAG
1 GA---TTTATGGT---TTTAATCCG-CTCCACTGCAACTTCAG-GGAGATAG
* *
47114684 GATTTATGGTTTTAATCCGCTCCACTGAAACTTAAGGGAGATAG
1 GATTTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
47114728 GATT
1 GATT
47114732 GGTCTCTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
47 15 0.19
50 26 0.33
51 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (44 bp):
GATTTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
Found at i:47114795 original size:40 final size:40
Alignment explanation
Indices: 47114743--47115066 Score: 195
Period size: 40 Copynumber: 7.8 Consensus size: 40
47114733 GTCTCTTCTG
**
47114743 TCTGCTCCACTACTGCTTAAAGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
47114783 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
** * ** * * * *
47114826 TCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGATTTCTTCTA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGA--T-GT-GA
* * *
47114870 TCTGTTCCACTAATGCTTAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * *
47114910 TCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
* * ** * * *
47114953 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGA-----TGTGA
* *
47114997 TCTGCTCCACTACTGCTTAGAGAGATAAGACTGGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
*
47115037 TCTGCTCCACTACTGCTTAAGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
47115067 TCAGTGGTTT
Statistics
Matches: 212, Mismatches: 52, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
39 2 0.01
40 88 0.42
41 2 0.01
42 2 0.01
43 62 0.29
44 54 0.25
45 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
Found at i:47114916 original size:127 final size:127
Alignment explanation
Indices: 47114690--47115244 Score: 842
Period size: 127 Copynumber: 4.4 Consensus size: 127
47114680 ATAGGATTTA
* * * *
47114690 TGGTTTTAATCCGCTCCACTGAAACTTAAGGGAGATAGGATTGGTCTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* *
47114755 CTGCTTAAAGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 CTGCTTAGAGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
47114817 TGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTATCTGTTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* * *
47114882 ATGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTG
66 CTGCTTAGAGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
47114944 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* *
47115009 CTGCTTAGAGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCAG
66 CTGCTTAGAGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
** * *
47115071 TGGTTTTAATCCGCAACACTGCAACTTCAGGGAGATATGATTGATTTCTTCTGTCTACTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* * * * * * *
47115136 CCG-TGTAGGGAGATAAGACCGAATGTGATCTGCTCCACTACTGGTTAGGAAGATAAGATCTG
66 CTGCT-TAGAGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
47115198 TGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGAATTGATTT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
47115245 TTTTCTTTTT
Statistics
Matches: 388, Mismatches: 39, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
126 1 0.00
127 387 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (127 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
CTGCTTAGAGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
Found at i:47115372 original size:50 final size:50
Alignment explanation
Indices: 47115318--47115767 Score: 164
Period size: 50 Copynumber: 8.9 Consensus size: 50
47115308 ACACCACTAA
* * * *
47115318 GGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTC--GG
* * ** ** * * **** *
47115370 AAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACCACCAG
1 --GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
** * * ** *
47115422 AAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTGAAATTACAATGTCGG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
* * ** * * * ** * *
47115472 GGAAGCAAGATTCGCCATCGTAGCTTTAAT-TTGCTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTT-TTCAATTGCAATGTCGG
* * * * *
47115522 GAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
* ** * ** ** * * ** * *
47115572 AGAAGCAAGATTCGCTATCGTAGCTTTAATCTGCTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
** * *
47115622 AAAAGTAAGATTCGCCGTTGCGGCTTTAATCTTTTAAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
* * * ** * * * ** * *
47115672 GGAAGCAAGATTCGACATCGTAGCTTTAATCTGTTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
* * * * * *
47115722 GAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGTAATG
1 GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATG
47115768 GTGGGTATGA
Statistics
Matches: 264, Mismatches: 130, Indels: 8
0.66 0.32 0.02
Matches are distributed among these distances:
49 2 0.01
50 225 0.85
51 2 0.01
52 1 0.00
54 34 0.13
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTTGCGGCTTTAATCTTTTCAATTGCAATGTCGG
Found at i:47115527 original size:100 final size:100
Alignment explanation
Indices: 47115248--47115767 Score: 684
Period size: 100 Copynumber: 5.2 Consensus size: 100
47115238 TTGATTTTTT
* * * * * * * * * *
47115248 TCTTTTTAATTGTAATGTCGGGG-AGCACGATTCACCGTTGTAGCTTCAATCAGTTCCACTACAC
1 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
* * * *
47115312 CACTA-AGGAAGTAAGATTCACCGTTGCGGCTTCAA
66 CGCCAGA-AAAGTAAGATTCGCCGTTGCGGCTTCAA
* * *
47115347 TCTTTTTAATTGCAATGTCGGGGAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACT
1 TCTTTTAAATTGCAATGTC--GG--GGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACT
*
47115412 GCACCACCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
62 GCACCGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* * *
47115451 TCTTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATTTGCTCCACTGCAC
1 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
* *
47115516 CGCCAGGAAAGTAAGATTCGCCATTGCGGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* * *
47115551 TCTTTTTAATTGCAATGTCGGAGAAGCAAGATTCGCTATCGTAGCTTTAATCTGCTCCACTGCAC
1 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
*
47115616 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTTAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* *
47115651 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGACATCGTAGCTTTAATCTGTTCCACTGCAC
1 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
* *
47115716 CGCCAGGAAAGTAAGATTCGCCATTGCGGCTTCAA
66 CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
* *
47115751 TCTTTTTAATTGTAATG
1 TCTTTTAAATTGCAATG
47115768 GTGGGTATGA
Statistics
Matches: 377, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
99 18 0.05
100 271 0.72
101 2 0.01
102 2 0.01
103 2 0.01
104 81 0.21
105 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (100 bp):
TCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGCAC
CGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCAA
Found at i:47116776 original size:13 final size:12
Alignment explanation
Indices: 47116747--47116809 Score: 65
Period size: 13 Copynumber: 5.0 Consensus size: 12
47116737 GGCCTCTCAT
47116747 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
47116759 -GTTCTTCTTTTC
1 TTTTCTT-TTTTC
47116771 TTTTCTTCTTTTC
1 TTTTCTT-TTTTC
47116784 TTTTCATTTTTTC
1 TTTTC-TTTTTTC
*
47116797 TCTTTTTTTTTTC
1 T-TTTCTTTTTTC
47116810 AAGTGAAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 5 0.11
12 5 0.11
13 29 0.66
14 5 0.11
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:47117271 original size:10 final size:10
Alignment explanation
Indices: 47117267--47117305 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
47117257 CTTTTTTGCT
47117267 TTTTTTTTA-
1 TTTTTTTTAC
*
47117276 TGTTTTTTAC
1 TTTTTTTTAC
*
47117286 ATTTTTTTAC
1 TTTTTTTTAC
47117296 TTTTTTTTAC
1 TTTTTTTTAC
47117306 CTCCACTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:47132936 original size:42 final size:42
Alignment explanation
Indices: 47132875--47132986 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
47132865 AAAAAGGGCG
47132875 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
*
47132917 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGGAGCA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
*
47132959 GCTCAAATACTGATCA-AAGTGGGGCATG
1 GCTCAAATATTGATCAGAA-TGGGGCATG
47132987 CAGTGGTCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
Found at i:47134517 original size:132 final size:132
Alignment explanation
Indices: 47134190--47135839 Score: 2341
Period size: 132 Copynumber: 12.5 Consensus size: 132
47134180 TATAGACAGC
* * *
47134190 GGAGTAGATCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
47134255 ATTCTA-CTTCTCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTACCTTCCT--GCA-T
66 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
*
47134316 AGACA
130 AG--T
* * *
47134321 GCGAAGCAGATCGAAGATGGCGGATTTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCA
1 G-G-AGCAGATCAAAGATGGTGAATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCA
* * * * *
47134385 GTAATTCTATTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
63 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
47134450 GTAGT
128 GTAGT
47134455 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
47134520 ATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAGGATTTTAGATCTTGTCTCCCCAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
47134585 GT
131 GT
* * *
47134587 GGAGTAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTATAATGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
47134652 ATTCTATCTCCCTCGGCAGCAGCGGAATAGATTGAAGATTTCAGATTTTGTCTCCCCAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
47134717 GT
131 GT
* * *
47134719 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGATTACAGTAGAGTACATTGAAGCCAGAA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
47134784 ATTCTA-CTTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
66 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
47134848 AGT
130 AGT
* ** * *
47134851 GGAACAGATCAAAGATGACGGATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * * *
47134916 ATTCTATTTTCTTGGGCAGCAGCGGAATAGATTGAAGATTTTAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
47134981 GT
131 GT
*
47134983 GGAGCAGATCAAAGATGG-CAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCAAAGATGGTGA-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
*
47135047 AATTCTA-CTTCCCTGGGGAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
65 AATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
47135111 TAGT
129 TAGT
* * *
47135115 GGAACAGATCAAAGATGGCTG-ATTTTACCTCCATATGGTTACAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCAAAGATGG-TGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* * *
47135179 AATTCTATCTCCCTAGGCAGCAGTGGAATAAATTGAAGATTTCAGATCTTCTCTCCCTAAGCAGT
65 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
47135244 AGT
130 AGT
* * *
47135247 GGGGCAAATTAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * *
47135312 ATTCTA-CTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTTAGATCTTGTCT-CCTCAAGCAG
66 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAGCAG
47135375 TAGT
129 TAGT
*
47135379 GGAGCAGATCAAAGATGGTAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
47135444 ATTCTATCTCCTTGGGAAGCAGTGGAATAGATTGAAGATTACAGATCTTCTCTCCCTAAGCAATA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
47135509 GT
131 GT
* * * * *
47135511 GGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
47135576 ATTCTATCTCCCTGGGCAACAGTGAAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
47135641 GT
131 GT
* * * * *
47135643 GGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
47135708 ATTCTATCTCCCTGGGCAACAGTGGAATATATTGAAGATTACAGATATTATCTCCCTAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
47135773 GT
131 GT
* * *
47135775 GGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTCCATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
47135840 TTCCTATATC
Statistics
Matches: 1378, Mismatches: 121, Indels: 39
0.90 0.08 0.03
Matches are distributed among these distances:
131 8 0.01
132 1253 0.91
133 110 0.08
134 1 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
GT
Found at i:47134840 original size:44 final size:44
Alignment explanation
Indices: 47134792--47135236 Score: 103
Period size: 44 Copynumber: 10.1 Consensus size: 44
47134782 AAATTCTACT
*
47134792 TCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
** * * ** ** * * *
47134836 TCCCTAAGCAGTAGTGGAACAGATCAAAGATGACGGATTTTACC
1 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
* * * * * *
47134880 TCCATGTGGTTA-CAGTGGAGTACATTGAAG---CCAGTAAT-TCTATT
1 TCCCTG-GG-CAGCAGTGGAATAGATTGAAGATTTCAG--ATCT-TATC
* * * * *
47134924 TTCTTGGGCAGCAGCGGAATAGATTGAAGATTTTAGATCTTGTC
1 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
** * ** ** ** * *
47134968 TCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
* * * *
47135012 TCCCTGTGGTTA-CAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTG-GG-CAGCAGTGGAATAGATTGAAGATTTCAG--ATCT-TATC
*
47135055 TTCCCTGGGGAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
** * * ** ** * * *
47135100 TCCCTAAGCAGTAGTGGAACAGATCAAAGATGGCTGATTTTACC
1 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
* ** * * *
47135144 TCCATATGGTTA-CAGTGGAGTACATTGAAG---CCAGTAAT-TCTATC
1 TCC--CTGGGCAGCAGTGGAATAGATTGAAGATTTCAG--ATCT-TATC
* * *
47135188 TCCCTAGGCAGCAGTGGAATAAATTGAAGATTTCAGATCTTCTC
1 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
47135232 TCCCT
1 TCCCT
47135237 AAGCAGTAGT
Statistics
Matches: 270, Mismatches: 99, Indels: 64
0.62 0.23 0.15
Matches are distributed among these distances:
42 12 0.04
43 55 0.20
44 148 0.55
45 43 0.16
46 12 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
Found at i:47135512 original size:44 final size:44
Alignment explanation
Indices: 47135463--47135783 Score: 168
Period size: 44 Copynumber: 7.3 Consensus size: 44
47135453 CCTTGGGAAG
* *
47135463 CAGTGGAATAGATTGAAGATTACAGATCTTCTCTCCCTAAGCAA
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGCAA
* * ** * * * * **
47135507 TAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTA
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT-AAGCAA
* * * **
47135552 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAA
* * * *
47135595 CAGTGAAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGCAA
* * ** * * * * **
47135639 TAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTA
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT-AAGCAA
* * * **
47135684 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAA
* * * *
47135727 CAGTGGAATATATTGAAGATTACAGATATTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGCAA
* *
47135771 TAGTGGAGCAGAT
1 CAGTGGAGTAGAT
47135784 CAAAGATGGT
Statistics
Matches: 193, Mismatches: 72, Indels: 24
0.67 0.25 0.08
Matches are distributed among these distances:
41 6 0.03
42 2 0.01
43 39 0.20
44 107 0.55
45 37 0.19
47 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAAGCAA
Found at i:47135742 original size:43 final size:43
Alignment explanation
Indices: 47135419--47135744 Score: 133
Period size: 44 Copynumber: 7.4 Consensus size: 43
47135409 CCCTGTGGTT
*
47135419 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGG-A
1 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
* * * * * **
47135461 AGCAGTGGAATAGATTGAAG--ATTACAGATCTTCTCTCCCTAAGCA
1 A-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCA
* * * *** ** * * **
47135506 ATAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTT
1 ACAGTGGAGTACATTGAAGCCAG-TAATTCTATCTCCCTG-GGCA
47135551 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
* * * * **
47135594 ACAGTGAAATAGATTGAAG--ATTACAGATAT-TATCTCCCTAAGCA
1 ACAGTGGAGTACATTGAAGCCAGT--A-AT-TCTATCTCCCTGGGCA
** * * *** ** * * **
47135638 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTT
1 ACAGTGGAGTACATTGAAGCCAG-TAATTCTATCTCCCTG-GGCA
47135683 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
* *
47135726 ACAGTGGAATATATTGAAG
1 ACAGTGGAGTACATTGAAG
47135745 ATTACAGATA
Statistics
Matches: 196, Mismatches: 70, Indels: 35
0.65 0.23 0.12
Matches are distributed among these distances:
41 5 0.03
42 2 0.01
43 57 0.29
44 92 0.47
45 39 0.20
46 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
Found at i:47137356 original size:3 final size:3
Alignment explanation
Indices: 47137348--47137404 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
47137338 TACTATTCTC
47137348 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47137396 TTA TT- TTA T
1 TTA TTA TTA T
47137405 AACATACATG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47143389 original size:16 final size:16
Alignment explanation
Indices: 47143352--47143393 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47143342 TTAATCATAT
*
47143352 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
47143368 TT-AAATATATTATAA
1 TTAAAATATATTATAA
47143383 TTAAAATATAT
1 TTAAAATATAT
47143394 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:47143400 original size:14 final size:15
Alignment explanation
Indices: 47143361--47143402 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47143351 TTTAAACATA
*
47143361 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47143376 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47143390 A-TATAATTTAATA
1 ATTATAATTAAATA
47143403 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47143500 original size:120 final size:120
Alignment explanation
Indices: 47143355--47143766 Score: 747
Period size: 120 Copynumber: 3.4 Consensus size: 120
47143345 ATCATATTTA
*
47143355 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
47143420 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
47143475 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
47143540 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
47143595 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
47143660 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAT-AATT
66 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
* * *
47143714 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
47143767 TAAAATAATT
Statistics
Matches: 285, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
119 51 0.18
120 234 0.82
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:47143520 original size:14 final size:15
Alignment explanation
Indices: 47143471--47143522 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
47143461 ATAAAATATA
47143471 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
47143486 TATTAAATATATTAT
1 AATTAAATATATTAT
47143501 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
47143514 AATTTAATA
1 AATTAAATA
47143523 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:47143640 original size:14 final size:15
Alignment explanation
Indices: 47143591--47143642 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
47143581 ATAAAATATA
47143591 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
47143606 TATTAAATATATTAT
1 AATTAAATATATTAT
47143621 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
47143634 AATTTAATA
1 AATTAAATA
47143643 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:47143836 original size:26 final size:28
Alignment explanation
Indices: 47143807--47143867 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
47143797 TATGAATTTG
*
47143807 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
47143833 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
47143861 TAAAATT
1 TATAATT
47143868 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:47143858 original size:91 final size:91
Alignment explanation
Indices: 47143782--47143989 Score: 337
Period size: 91 Copynumber: 2.3 Consensus size: 91
47143772 TAATTATAAT
* * * *
47143782 TAAT-AAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAA
1 TAATAAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAA
*
47143846 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
47143873 TAATAAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
47143938 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
47143964 TAATAAAATGTTCTTATATGAATTTA
1 TAATAAAAT-TTCTTATATGAATTTA
47143990 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
91 88 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (91 bp):
TAATAAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:47143865 original size:47 final size:46
Alignment explanation
Indices: 47143814--47143957 Score: 120
Period size: 47 Copynumber: 3.1 Consensus size: 46
47143804 TTGTATAATT
47143814 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* * ** * *
47143861 TAAAAT--TCT-TGA-TAATAAAATTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAATTTAATA-AT-AATATATA-ATTTCA
* *
47143905 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
47143952 TAAAAT
1 TAAAAT
47143958 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
43 10 0.14
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 11 0.15
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:47143949 original size:44 final size:43
Alignment explanation
Indices: 47143763--47143949 Score: 119
Period size: 47 Copynumber: 4.1 Consensus size: 43
47143753 GATTTAATAA
* * * *
47143763 AATTTAAAATAATT-ATAATTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTAAT-ATTAA-ATATAAT-TTA-AT-AATATATAT
* *
47143810 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
** * * * * *
47143854 AATTTCATAAAATTCTTGATAATAAA-AT-TTCTTATATGAATTTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAT
47143901 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
47143945 AATTT
1 AATTT
47143950 CATAAAATTC
Statistics
Matches: 107, Mismatches: 22, Indels: 25
0.69 0.14 0.16
Matches are distributed among these distances:
43 6 0.06
44 34 0.32
45 11 0.10
46 13 0.12
47 39 0.36
48 4 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:47143964 original size:47 final size:47
Alignment explanation
Indices: 47143832--47143970 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
47143822 TTATTATTAC
* *
47143832 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
47143879 A-AT--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
47143923 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
47143970 A
1 A
47143971 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 19 0.28
45 14 0.20
46 14 0.20
47 22 0.32
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:47149769 original size:23 final size:23
Alignment explanation
Indices: 47149702--47149787 Score: 97
Period size: 23 Copynumber: 3.7 Consensus size: 23
47149692 AATCAAAAGT
*
47149702 TTATACAGGCAGAAATAGAAGAC
1 TTATACAGGCACAAATAGAAGAC
* *
47149725 TTAACTAAAAGG-ACAGA-A-AAGAC
1 TT-A-T-ACAGGCACAAATAGAAGAC
47149748 TTATACAGGCACAAATAGAAGAC
1 TTATACAGGCACAAATAGAAGAC
47149771 TTATACAGGCACAAATA
1 TTATACAGGCACAAATA
47149788 AAGCTGATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
20 4 0.08
21 5 0.10
22 2 0.04
23 31 0.60
24 2 0.04
25 4 0.08
26 4 0.08
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (23 bp):
TTATACAGGCACAAATAGAAGAC
Found at i:47154256 original size:18 final size:18
Alignment explanation
Indices: 47154233--47154287 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
47154223 GATTAATAAC
47154233 AAAGAAAAAACAGAAAAG
1 AAAGAAAAAACAGAAAAG
* * *
47154251 AAAGAAAAAATACGTAGAG
1 AAAGAAAAAACA-GAAAAG
47154270 AAAG-AAAAACA-AAAAG
1 AAAGAAAAAACAGAAAAG
47154286 AA
1 AA
47154288 CACCTTCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 5 0.17
18 17 0.57
19 8 0.27
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAGAAAAAACAGAAAAG
Found at i:47156753 original size:33 final size:33
Alignment explanation
Indices: 47156707--47156771 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
47156697 TGTGCGAGGC
* * *
47156707 CATGTGTGACACACGGTCTAGGCCATTTTGGGT
1 CATGTGGGACACACGGGCAAGGCCATTTTGGGT
* *
47156740 CATGTGGGCCACACGGGCAAGGCTATTTTGGG
1 CATGTGGGACACACGGGCAAGGCCATTTTGGG
47156772 CTTGTAGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (33 bp):
CATGTGGGACACACGGGCAAGGCCATTTTGGGT
Found at i:47158907 original size:18 final size:18
Alignment explanation
Indices: 47158884--47158925 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
47158874 ATAAAAATTC
*
47158884 ACTTTCTGTTTGTTTGTT
1 ACTTTCTGTTTGTTTATT
47158902 ACTTTCTGTTTGTTTATT
1 ACTTTCTGTTTGTTTATT
47158920 ACTTTC
1 ACTTTC
47158926 AGGTAACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.14, G:0.12, T:0.64
Consensus pattern (18 bp):
ACTTTCTGTTTGTTTATT
Found at i:47166907 original size:23 final size:19
Alignment explanation
Indices: 47166860--47166898 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47166850 AATCATGCCA
47166860 TGGTATCATGTACAAACAT
1 TGGTATCATGTACAAACAT
*
47166879 TGGTATCATGTATAAACAT
1 TGGTATCATGTACAAACAT
47166898 T
1 T
47166899 ATAGAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (19 bp):
TGGTATCATGTACAAACAT
Found at i:47168239 original size:21 final size:21
Alignment explanation
Indices: 47168213--47168252 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47168203 TACCCCCTAA
47168213 ATCCCTTAA-TTAACTCCCCCT
1 ATCCC-TAATTTAACTCCCCCT
*
47168234 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
47168253 AACCGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCCT
Found at i:47180834 original size:6 final size:6
Alignment explanation
Indices: 47180823--47180848 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47180813 ATAAATAAAT
47180823 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
47180849 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:47182246 original size:23 final size:22
Alignment explanation
Indices: 47182195--47182246 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
47182185 CCTCGTCTTT
*
47182195 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
47182217 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
47182240 TTCTTTT
1 TTCTTTT
47182247 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:47184652 original size:6 final size:6
Alignment explanation
Indices: 47184641--47184666 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47184631 ATAAATAAAT
47184641 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
47184667 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:47192156 original size:15 final size:15
Alignment explanation
Indices: 47192136--47192180 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
47192126 GGGGTAGGAC
*
47192136 ATGATATGATATAAT
1 ATGATAAGATATAAT
* * *
47192151 ATGATACGGTATATT
1 ATGATAAGATATAAT
47192166 ATGATAAGATATAAT
1 ATGATAAGATATAAT
47192181 CTGGTGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (15 bp):
ATGATAAGATATAAT
Found at i:47194714 original size:41 final size:42
Alignment explanation
Indices: 47194645--47194733 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 42
47194635 CAACATGACC
*
47194645 ATGTGAGGGGGAGACATGCCCGTATGAGGAAACACACG-CCT
1 ATGTGAGGGGGAGACACGCCCGTATGAGGAAACACACGCCCT
* *
47194686 ATGTGAGGGGGAGACACGCTCGTGTGAGGAAACACACGCCCT
1 ATGTGAGGGGGAGACACGCCCGTATGAGGAAACACACGCCCT
47194728 -TGTGAG
1 ATGTGAG
47194734 AGGAGGCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 41 0.93
42 3 0.07
ACGTcount: A:0.27, C:0.21, G:0.36, T:0.16
Consensus pattern (42 bp):
ATGTGAGGGGGAGACACGCCCGTATGAGGAAACACACGCCCT
Found at i:47194731 original size:20 final size:20
Alignment explanation
Indices: 47194669--47194733 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
47194659 CATGCCCGTA
47194669 TGAGGAAACACACG-CCTATG
1 TGAGGAAACACACGCCCT-TG
** * * *
47194689 TGAGGGGGAGACACGCTCGTG
1 TGA-GGAAACACACGCCCTTG
47194710 TGAGGAAACACACGCCCTTG
1 TGAGGAAACACACGCCCTTG
47194730 TGAG
1 TGAG
47194734 AGGAGGCACA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 19 0.58
21 13 0.39
22 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.34, T:0.15
Consensus pattern (20 bp):
TGAGGAAACACACGCCCTTG
Found at i:47198143 original size:14 final size:14
Alignment explanation
Indices: 47198124--47198153 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47198114 ATTTCGGATT
47198124 ATCCAAATCCACAA
1 ATCCAAATCCACAA
*
47198138 ATCCAAGTCCACAA
1 ATCCAAATCCACAA
47198152 AT
1 AT
47198154 TATCTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (14 bp):
ATCCAAATCCACAA
Found at i:47199406 original size:29 final size:30
Alignment explanation
Indices: 47199371--47199442 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
47199361 AACTTTTCAA
*
47199371 AAATTACATTTTGACCCCTAATAATTT-T-T
1 AAATTACATTTTGACCCCTAA-AATTTCTAG
* * *
47199400 AAATTACATTTGGGCCCCTAAACTTTCTAG
1 AAATTACATTTTGACCCCTAAAATTTCTAG
47199430 AAATTACATTTTG
1 AAATTACATTTTG
47199443 GCCGCATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.11
29 20 0.56
30 12 0.33
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTAAAATTTCTAG
Found at i:47200023 original size:19 final size:18
Alignment explanation
Indices: 47199967--47200023 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
47199957 ACAAGCAAAG
47199967 CAACAAGCAAAATATAAAAA
1 CAACAAGCAAAA-A-AAAAA
*
47199987 CAGCAAGCAAAGAAAAAAA
1 CAACAAGCAAA-AAAAAAA
* *
47200006 CAACAACCAAAAAGAAAA
1 CAACAAGCAAAAAAAAAA
47200024 GGGAGGGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.19
19 14 0.44
20 11 0.34
21 1 0.03
ACGTcount: A:0.70, C:0.18, G:0.09, T:0.04
Consensus pattern (18 bp):
CAACAAGCAAAAAAAAAA
Found at i:47200156 original size:12 final size:12
Alignment explanation
Indices: 47200139--47200228 Score: 60
Period size: 13 Copynumber: 7.2 Consensus size: 12
47200129 GCTCGGCCCG
47200139 AAGAAGAAAAAA
1 AAGAAGAAAAAA
*
47200151 AAGAAGAAAAAG
1 AAGAAGAAAAAA
* *
47200163 AAGGAGAGAAAGA
1 AAGAAGA-AAAAA
47200176 AAGAAGAAAGAAGA
1 AAGAAGAAA-AA-A
*
47200190 AAG-GGAAAGAAA
1 AAGAAGAAA-AAA
47200202 AA-ATAGAAAAAAA
1 AAGA-AG-AAAAAA
*
47200215 AAGAA-ATAAAA
1 AAGAAGAAAAAA
47200226 AAG
1 AAG
47200229 TTAGTTGATC
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
11 8 0.13
12 22 0.35
13 24 0.39
14 8 0.13
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:47200175 original size:18 final size:18
Alignment explanation
Indices: 47200139--47200192 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
47200129 GCTCGGCCCG
* *
47200139 AAGAAGAAAAAAAAGAAGA
1 AAGAAGAAAGAAGA-AAGA
*
47200158 AA-AAGAAGGAGAGAAAGA
1 AAGAAGAAAGA-AGAAAGA
47200176 AAGAAGAAAGAAGAAAG
1 AAGAAGAAAGAAGAAAG
47200193 GGAAAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAAGAAAGAAGAAAGA
Found at i:47200574 original size:12 final size:12
Alignment explanation
Indices: 47200557--47200635 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 12
47200547 GCAACAGGCC
47200557 AAAAAAAAGAAG
1 AAAAAAAAGAAG
*
47200569 -AAAAAAA-TAG
1 AAAAAAAAGAAG
* **
47200579 CAACCAAA-AAG
1 AAAAAAAAGAAG
*
47200590 AAAAAGAAGAAG
1 AAAAAAAAGAAG
47200602 AAAAAAAAGAA-
1 AAAAAAAAGAAG
*
47200613 AAAAGAAAAAAAG
1 AAAA-AAAAGAAG
47200626 AAAGAAAAAG
1 AAA-AAAAAG
47200636 GGGCCCAAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
10 2 0.04
11 22 0.43
12 19 0.37
13 7 0.14
14 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.01
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:47200606 original size:19 final size:18
Alignment explanation
Indices: 47200584--47200635 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
47200574 AATAGCAACC
47200584 AAAAAGAAAAAGAAGAAGAAA
1 AAAAAGAAAAAG-A-AA-AAA
47200605 AAAAAGAAAAAAGAAAAAA
1 AAAAAG-AAAAAGAAAAAA
*
47200624 AGAAAGAAAAAG
1 AAAAAGAAAAAG
47200636 GGGCCCAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 2 0.07
21 7 0.24
22 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAAA
Found at i:47200624 original size:30 final size:32
Alignment explanation
Indices: 47200557--47200634 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 32
47200547 GCAACAGGCC
47200557 AAAAAA-AAGAAGAAAAAAATAGCAACCAAAAA
1 AAAAAAGAAGAAGAAAAAAATAGCAA-CAAAAA
*
47200589 GAAAAAGAAGAAGAAAAAAA-AG-AA-AAAAGA
1 AAAAAAGAAGAAGAAAAAAATAGCAACAAAA-A
47200619 AAAAAAG-A-AAGAAAAA
1 AAAAAAGAAGAAGAAAAA
47200635 GGGGCCCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 8 0.19
29 5 0.12
30 7 0.17
31 2 0.05
32 7 0.17
33 13 0.31
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.01
Consensus pattern (32 bp):
AAAAAAGAAGAAGAAAAAAATAGCAACAAAAA
Found at i:47200625 original size:15 final size:16
Alignment explanation
Indices: 47200590--47200628 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
47200580 AACCAAAAAG
*
47200590 AAAAAG-AAGAAGAAA
1 AAAAAGAAAAAAGAAA
47200605 AAAAAGAAAAAAG-AA
1 AAAAAGAAAAAAGAAA
47200620 AAAAAGAAA
1 AAAAAGAAA
47200629 GAAAAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Done.