Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 171 of 444
Found at i:47222531 original size:40 final size:38
Alignment explanation
Indices: 47222406--47222554 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
47222396 ACGATTTGCA
* *
47222406 CAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-G
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAATTAC-CAG
* *** *
47222444 CACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAG
1 CA--AATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
* *
47222484 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAG
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
*
47222524 CATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 CA-AA-TGCCTTCGGG-TCTTAGCCCGGATAT
47222555 CATTCAATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 84 0.94
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (38 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
Found at i:47222537 original size:80 final size:80
Alignment explanation
Indices: 47222403--47222552 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
47222393 ATCACGATTT
*
47222403 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGAT-TTAGC
47222467 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * ** * *
47222483 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGATTTAG
47222546 CCCGGAT
64 CCCGGAT
47222553 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:47236592 original size:22 final size:21
Alignment explanation
Indices: 47236552--47236592 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47236542 CTCTTAACAC
* *
47236552 AGGGGCACATGCCCGTGTGGA
1 AGGGGCACACGCCCATGTGGA
47236573 AGGGGCAACACGCCCATGTG
1 AGGGGC-ACACGCCCATGTG
47236593 ACATATCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.27, G:0.39, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGA
Found at i:47241816 original size:24 final size:24
Alignment explanation
Indices: 47241779--47241832 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
47241769 GAAATTGAAA
47241779 GAAAAAGTACAAGA-AA-AAAAGATT
1 GAAAAAGTACAAGATAAGAAAA-A-T
47241803 GAAAAAGTGA-AAGATAAGAAAAAT
1 GAAAAAGT-ACAAGATAAGAAAAAT
47241827 GAAAAA
1 GAAAAA
47241833 AAGAAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 19 0.70
25 4 0.15
26 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.19, T:0.11
Consensus pattern (24 bp):
GAAAAAGTACAAGATAAGAAAAAT
Found at i:47248190 original size:46 final size:46
Alignment explanation
Indices: 47248086--47248246 Score: 146
Period size: 46 Copynumber: 3.5 Consensus size: 46
47248076 GCCACATTAT
* * *
47248086 GAGAGCCTGTGTAAGACATGTCTGAGACATGGCATCGGCATCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCATCGAGAC
* * * * *
47248133 GAGTGCTAGTGTAAGACATATTTGGGACATGCATCAGCCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGAC
* * * *
47248179 GTA-AGCCAGTGTAAAACATGTCTGGAACATGCATCGGC-TACGAGAT
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAT-CGAGAC
* *
47248225 GATAGTCAGTGTAAGACCATGT
1 GAGAGCCAGTGTAAGA-CATGT
47248247 TTGGAATATG
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 60 0.65
47 30 0.33
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGAC
Found at i:47257159 original size:19 final size:19
Alignment explanation
Indices: 47257135--47257174 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
47257125 CTTGATGGAA
47257135 ATGTAAAAAGCATGAATGT
1 ATGTAAAAAGCATGAATGT
*
47257154 ATGTAAAAAGTATGAATGT
1 ATGTAAAAAGCATGAATGT
47257173 AT
1 AT
47257175 CACAATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (19 bp):
ATGTAAAAAGCATGAATGT
Found at i:47271913 original size:26 final size:24
Alignment explanation
Indices: 47271876--47271924 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
47271866 AAGGATACAC
*
47271876 ATATATAGATTTAAAATAGATAAA
1 ATATATAGATTTAAAATAAATAAA
*
47271900 ATATATATGAATTTCAAATAAATAA
1 ATATATA-G-ATTTAAAATAAATAA
47271925 TATGTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
26 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATAGATTTAAAATAAATAAA
Found at i:47274063 original size:131 final size:132
Alignment explanation
Indices: 47273824--47274063 Score: 281
Period size: 131 Copynumber: 1.8 Consensus size: 132
47273814 ACTTTAGGGG
* * * *
47273824 GATAAGGCTGATGGCTTCAATCTGCTTCCCTATTACCTCTGGAAAATAAGATTTGCCATCTTCGA
1 GATAAGGCTGATGGCTTAAATCTACTTCCCTATTACCTCTGGAAAATAAAATTCGCCATCTTCGA
* * *
47273889 TTTTCTCCACTACTACTTAGAGAGACAAGATTCGCAATCTTCAGCCTACTCTACTATTGCTCAAG
66 TCTGCTCCACTACTACTTAGAGAGACAAGATTCACAATCTTCAGCCTACTCTACTATTGCTCAAG
47273954 GA
131 GA
* * *
47273956 GATAAGGCT-AGTGGCTTAAATCTAC-TCCCTGTTACCT-TGGGAAGATAAAATTCGCCATTTTC
1 GATAAGGCTGA-TGGCTTAAATCTACTTCCCTATTACCTCT-GGAAAATAAAATTCGCCATCTTC
* * * * * *
47274018 GATCTGCTTCACTGCTGCTTAGGGAGATAAGA-TCTACAATTTTCAG
64 GATCTGCTCCACTACTACTTAGAGAGACAAGATTC-ACAATCTTCAG
47274064 TCTGCTCCAC
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
130 3 0.03
131 65 0.73
132 21 0.24
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
GATAAGGCTGATGGCTTAAATCTACTTCCCTATTACCTCTGGAAAATAAAATTCGCCATCTTCGA
TCTGCTCCACTACTACTTAGAGAGACAAGATTCACAATCTTCAGCCTACTCTACTATTGCTCAAG
GA
Found at i:47274157 original size:44 final size:44
Alignment explanation
Indices: 47274064--47274514 Score: 117
Period size: 44 Copynumber: 10.2 Consensus size: 44
47274054 CAATTTTCAG
* * * *
47274064 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
* * * * *
47274108 CCTGCTCCACTGCAACTTCAGAGAGATTAGGCTGGTGGCTTAAA
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
* ** * * ** * **
47274152 TCTGCTCCATTGC-TGCTACATGA-AGATAAGATTCGCCGTTTTTGA
1 TCTGCTCCACTGCAACCT-CA-GAGAGATAAGACTGGTAG-CTTAAA
* * ** * * ** ** * *
47274197 TCTGCTCTACTACTGCTTAAG-GAGATAAGATCTGCAATTTTTAG
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGA-CTGGTAGCTTAAA
* * * * *
47274241 TTTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
* * * * * * *
47274285 CCTGCTTCACTGCAACTTCAGGGAGATTAGGCTGGTGGCTTAAA
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
* * * * **
47274329 TCTGCTCCATTGC--CGCTACACG-GAGATAAGATTCGTCGTCTTCGA
1 TCTGCTCCACTGCAAC-CT-CA-GAGAGATAAGACTGGTAG-CTTAAA
* ** * * * ** * *
47274374 TCTGCTCCACTAC-TGCTTAGGGAAATAAGATCT-GTAATTTTCAG
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGA-CTGGT-AGCTTAAA
* * * * *
47274418 TCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
* * * * * * *
47274462 CCTACTCCACTGCAACTTCAGGGAGATTAGGCTGGTGGCTTAAA
1 TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
47274506 TCTGCTCCA
1 TCTGCTCCA
47274515 TTGCCGCTAC
Statistics
Matches: 286, Mismatches: 104, Indels: 34
0.67 0.25 0.08
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 221 0.77
45 60 0.21
46 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGTAGCTTAAA
Found at i:47274201 original size:177 final size:177
Alignment explanation
Indices: 47273996--47274759 Score: 1118
Period size: 177 Copynumber: 4.3 Consensus size: 177
47273986 GTTACCTTGG
* * * * *
47273996 GAAGATAAAATTCGCCATTTTCGATCTGCTTCACTGCTGCTTAGGGAGATAAGATCTACAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
47274061 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
66 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
* *
47274126 CAGAGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCTGCTACAT
131 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* * * * *
47274173 GAAGATAAGATTCGCCGTTTTTGATCTGCTCTACTACTGCTTAAGGAGATAAGATCTGCAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
* * *
47274238 TAGTTTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTTCACTGCAACTT
66 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
*
47274303 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAC
131 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* * * **
47274350 GGAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGTAATTTT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
* *
47274415 CAGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGCAACTT
66 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
47274480 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
131 CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* **
47274527 -AGATATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAGA-AAGATCTACAATTT
1 GA-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
* * * * * * * **
47274590 TTAGTCTACTCCACTACCACTTCAGGGAGATAAGGCTTGTATCTTAAACCTGCTCCACTAAAACT
65 TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACT
* * * * * *
47274655 TTAGGGAGATAAGACTGGTAGTTTAAATCTGCTCTATTGCCGCTACAT
130 TCAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
* *
47274703 GAAGATAAGATTCGCCGTATTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
47274760 GTAAATTCAC
Statistics
Matches: 526, Mismatches: 58, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
176 150 0.29
177 376 0.71
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (177 bp):
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTT
CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTT
CAGGGAGATTAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACAT
Found at i:47274646 original size:44 final size:44
Alignment explanation
Indices: 47274598--47274688 Score: 94
Period size: 44 Copynumber: 2.1 Consensus size: 44
47274588 TTTTAGTCTA
* * *
47274598 CTCCACTACCACTTCAGGGAGATAAGGCTTGTATCTTAAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTATCTTAAATCTG
** * * *
47274642 CTCCACTAAAACTTTAGGGAGATAAGACTGGTAGT-TTAAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTA-TCTTAAATCTG
47274686 CTC
1 CTC
47274689 TATTGCCGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTTGTATCTTAAATCTG
Found at i:47275182 original size:11 final size:11
Alignment explanation
Indices: 47275166--47275190 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47275156 ATAGGATCTG
47275166 AATCTTTCACC
1 AATCTTTCACC
47275177 AATCTTTCACC
1 AATCTTTCACC
47275188 AAT
1 AAT
47275191 TTGGTCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (11 bp):
AATCTTTCACC
Found at i:47276432 original size:26 final size:24
Alignment explanation
Indices: 47276395--47276443 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
47276385 AAGGATATAC
*
47276395 ATATATAGATTTAAAATAGATAAA
1 ATATATAGATTTAAAATAAATAAA
*
47276419 ATATATATGAATTTCAAATAAATAA
1 ATATATA-G-ATTTAAAATAAATAA
47276444 TATGTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
26 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATAGATTTAAAATAAATAAA
Found at i:47277677 original size:14 final size:16
Alignment explanation
Indices: 47277658--47277689 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
47277648 AAGTACGGGT
47277658 AACAAATA-AAAT-AA
1 AACAAATAGAAATCAA
47277672 AACAAATAGAAATCAA
1 AACAAATAGAAATCAA
47277688 AA
1 AA
47277690 GCCAAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.75, C:0.09, G:0.03, T:0.12
Consensus pattern (16 bp):
AACAAATAGAAATCAA
Found at i:47284626 original size:3 final size:3
Alignment explanation
Indices: 47284618--47284662 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
47284608 CTTGTTTGGT
47284618 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
47284663 GTTAGAAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47289939 original size:43 final size:42
Alignment explanation
Indices: 47289886--47290090 Score: 155
Period size: 43 Copynumber: 4.7 Consensus size: 42
47289876 AAAATTTGAT
*
47289886 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTAT-TAGC
* * **
47289929 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGT-ATT--AGC
* * * ** * *
47289973 CTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCATCAAAATTCGAT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-T-AGTATTAG-C
* * *
47290019 CTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTA-TTAGC
47290062 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
47290091 GCTGATGATT
Statistics
Matches: 123, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
42 5 0.04
43 61 0.50
44 26 0.21
45 2 0.02
46 23 0.19
47 6 0.05
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (42 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTAGC
Found at i:47289998 original size:133 final size:132
Alignment explanation
Indices: 47289744--47290367 Score: 852
Period size: 133 Copynumber: 4.7 Consensus size: 132
47289734 GATCTGCTGT
* * * *
47289744 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGTATGTTTAGCCTACTTCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTA--TATAGCCTGCTTCACTCCT
* * ** * * * ** ** * * *
47289809 GCTCAATGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCTATATATAGAGATAAGACTCG
64 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
47289874 CCAA
129 CCAA
*
47289878 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* *
47289943 CTCAGTGAAGATAAGGCTGGTGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
47290008 CAA
130 CAA
* * * *
47290011 AATTCGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* *
47290076 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
47290141 CAA
130 CAA
* * *
47290144 AATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTTTATAGCCTGCTTCACTCCTA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* *
47290209 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCACCGGTACGTGGAGATAAGATTTAC
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
47290274 CAA
130 CAA
* * * *
47290277 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTGCTATATTTAACCTGCTTCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTG-TATA--TAGCCTGCTTCACTCC
47290342 TGCTCAGTGAAGATAAGGCTGATGAT
63 TGCTCAGTGAAGATAAGGCTGATGAT
47290368 ATCTGTAATC
Statistics
Matches: 445, Mismatches: 41, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
132 1 0.00
133 362 0.81
134 39 0.09
135 43 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTATATAGCCTGCTTCACTCCTGC
TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACC
AA
Found at i:47304766 original size:11 final size:11
Alignment explanation
Indices: 47304727--47304766 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
47304717 AAAACATATT
*
47304727 AAAATATAAATA
1 AAAAAATAAA-A
*
47304739 AAAAAATACAA
1 AAAAAATAAAA
47304750 AAAAAATAAAA
1 AAAAAATAAAA
47304761 AAAAAA
1 AAAAAA
47304767 AGTAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:47305335 original size:3 final size:3
Alignment explanation
Indices: 47305329--47305486 Score: 71
Period size: 3 Copynumber: 52.7 Consensus size: 3
47305319 TTTTTTTACA
* *
47305329 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
47305373 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
47305418 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
47305464 T-T CTAGT T-T TAT TAT TAT TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TA
47305487 ATACTAGTGT
Statistics
Matches: 115, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
2 12 0.10
3 91 0.79
4 11 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:47305357 original size:23 final size:23
Alignment explanation
Indices: 47305331--47305376 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47305321 TTTTTACATA
47305331 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
47305354 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
47305377 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:47305516 original size:17 final size:16
Alignment explanation
Indices: 47305494--47305525 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
47305484 TTAATACTAG
47305494 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
47305511 TGTATGTATATATAT
1 TGTATGTATATATAT
47305526 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:47305754 original size:23 final size:23
Alignment explanation
Indices: 47305727--47305845 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 23
47305717 TTTTCAATAT
47305727 TATATTTTTTATATATTATTATA
1 TATATTTTTTATATATTATTATA
47305750 TATA--TTTTA-ATATTATTAGTTA
1 TATATTTTTTATATATTATTA--TA
*
47305772 TATATTTTTTATACTATTA-TATG
1 TATATTTTTTATA-TATTATTATA
* *
47305795 TATA-TTTCTA-ATATTA-TATTG
1 TATATTTTTTATATATTATTA-TA
* *
47305816 TATATTTCTAATACTATTATTTATA
1 TATATTTTTTATA-TATTA-TTATA
47305841 TATAT
1 TATAT
47305846 ATATATATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 22
0.74 0.06 0.21
Matches are distributed among these distances:
20 16 0.21
21 12 0.15
22 14 0.18
23 10 0.13
24 10 0.13
25 9 0.12
26 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (23 bp):
TATATTTTTTATATATTATTATA
Found at i:47305757 original size:21 final size:22
Alignment explanation
Indices: 47305724--47305845 Score: 96
Period size: 21 Copynumber: 5.5 Consensus size: 22
47305714 ATGTTTTCAA
47305724 TATTATAT-T-TTTTATA-TAT
1 TATTATATATATTTTATACTAT
*
47305743 TATTATATATATTTTAATATTAT
1 TATTATATATATTTT-ATACTAT
*
47305766 TAGTTATATATTTTTTATACTAT
1 TA-TTATATATATTTTATACTAT
*
47305789 TA-TATGTATATTTCTA-A-TAT
1 TATTATATATATTT-TATACTAT
*
47305809 TA-TATTGTATATTTCTAATACTAT
1 TATTA-TATATATTT-T-ATACTAT
47305833 TATTTATATATAT
1 TA-TTATATATAT
47305846 ATATATATAT
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
19 8 0.09
20 8 0.09
21 25 0.29
22 6 0.07
23 14 0.16
24 17 0.20
25 6 0.07
26 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTATATATATTTTATACTAT
Found at i:47305790 original size:43 final size:42
Alignment explanation
Indices: 47305723--47305841 Score: 134
Period size: 44 Copynumber: 2.8 Consensus size: 42
47305713 TATGTTTTCA
*
47305723 ATATTATAT-TTTTTATATATTATTATATATATTT-TAATATT
1 ATATTATATATTTTT-TATACTATTATATATATTTCTAATATT
47305764 ATTAGTTATATATTTTTTATACTATTATATGTATATTTCTAATATT
1 A-TA-TTATATATTTTTTATACTATTATA--TATATTTCTAATATT
* * * *
47305810 ATATTGTATATTTCTAATACTATTATTTATAT
1 ATATTATATATTTTTTATACTATTATATATAT
47305842 ATATATATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.01
42 7 0.10
43 17 0.25
44 25 0.37
45 9 0.13
46 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (42 bp):
ATATTATATATTTTTTATACTATTATATATATTTCTAATATT
Found at i:47305868 original size:16 final size:17
Alignment explanation
Indices: 47305847--47305881 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47305837 TATATATATA
47305847 TATATATATGTGT-GTG
1 TATATATATGTGTAGTG
*
47305863 TATATATTTGTGTAGTG
1 TATATATATGTGTAGTG
47305880 TA
1 TA
47305882 CAAAGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (17 bp):
TATATATATGTGTAGTG
Found at i:47306082 original size:33 final size:34
Alignment explanation
Indices: 47306027--47306092 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
47306017 CCATCTTATG
* *
47306027 TATATATTTTTAAATACTATATTGTATATATATA
1 TATATATTCTTAAATACCATATTGTATATATATA
*
47306061 TATATATTCTT-AATACCATATTGTGTATATAT
1 TATATATTCTTAAATACCATATTGTATATATAT
47306093 CATTATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (34 bp):
TATATATTCTTAAATACCATATTGTATATATATA
Found at i:47306226 original size:34 final size:36
Alignment explanation
Indices: 47306183--47306249 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
47306173 TATATATAGT
*
47306183 ATTATTTTCA-TAT-ATCA-TTATAATTATTATACCC
1 ATTAGTTTCACTATCATCACTTATAATT-TTATACCC
*
47306217 ATTAGTTTCACTATCATCACTTATTATTTTATA
1 ATTAGTTTCACTATCATCACTTATAATTTTATA
47306250 TTACTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.32
35 3 0.11
36 9 0.32
37 7 0.25
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.51
Consensus pattern (36 bp):
ATTAGTTTCACTATCATCACTTATAATTTTATACCC
Found at i:47310676 original size:23 final size:22
Alignment explanation
Indices: 47310641--47310691 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
47310631 TTGGGATTTC
* **
47310641 ATATTTTATTTTTTTATACATT
1 ATATTTTACTTTTCAATACATT
*
47310663 ATATTATTACTTTTCAATATATT
1 ATATT-TTACTTTTCAATACATT
47310686 ATATTT
1 ATATTT
47310692 AAGTTTAGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTTTACTTTTCAATACATT
Found at i:47312824 original size:19 final size:19
Alignment explanation
Indices: 47312800--47312839 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
47312790 AATTACGGCA
47312800 TGTGTATGGGAATATTTCT
1 TGTGTATGGGAATATTTCT
47312819 TGTGTATGGGAATATTTCT
1 TGTGTATGGGAATATTTCT
47312838 TG
1 TG
47312840 AAGTTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.28, T:0.47
Consensus pattern (19 bp):
TGTGTATGGGAATATTTCT
Found at i:47312978 original size:20 final size:20
Alignment explanation
Indices: 47312953--47312999 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47312943 TTGTACAAGA
** *
47312953 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCAGTGCCTCTAT
47312973 TTGCACTTCAGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
47312993 TTGCACT
1 TTGCACT
47313000 ACGGTACCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTAT
Found at i:47313009 original size:20 final size:20
Alignment explanation
Indices: 47312966--47313011 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
47312956 CACTTTGGTG
* * *
47312966 CCTCTGTTTGCACTTCAGTG
1 CCTCTATTTGCACTACAGTA
*
47312986 CCTCTATTTGCACTACGGTA
1 CCTCTATTTGCACTACAGTA
47313006 CCTCTA
1 CCTCTA
47313012 GTTAGCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (20 bp):
CCTCTATTTGCACTACAGTA
Found at i:47320442 original size:11 final size:11
Alignment explanation
Indices: 47320426--47320477 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
47320416 TATACTAAAT
47320426 AAATAATAATA
1 AAATAATAATA
*
47320437 AAATAAT-ATT
1 AAATAATAATA
* *
47320447 AAATATCTCATA
1 AAATA-ATAATA
*
47320459 AAATATTAATA
1 AAATAATAATA
47320470 AAATAATA
1 AAATAATA
47320478 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:47323320 original size:46 final size:46
Alignment explanation
Indices: 47323253--47323388 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
47323243 AGTGTGCTCT
47323253 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
47323299 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
47323345 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTAATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
47323389 TCATGTCAGA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:47324380 original size:51 final size:52
Alignment explanation
Indices: 47324312--47324414 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 52
47324302 TATTTTCTAA
47324312 AATGAAAATGAATAATAAATGTCTCCTTCCTTC-TTTCCATAAGTTATTCTC
1 AATGAAAATGAATAATAAATGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
*
47324363 AATGAAAATGAATAATAAGTGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
1 AATGAAAATGAATAATAAATGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
47324415 TTTTTCTTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 32 0.64
52 18 0.36
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (52 bp):
AATGAAAATGAATAATAAATGTCTCCTTCCTTCTTTTCCATAAGTTATTCTC
Found at i:47324848 original size:30 final size:30
Alignment explanation
Indices: 47324814--47324871 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47324804 TTCTTTTAAC
47324814 AATTAAATCGTGAATTATTATTTATTAAAA
1 AATTAAATCGTGAATTATTATTTATTAAAA
* * *
47324844 AATTAAATTGTGATTTATTTTTTATTAA
1 AATTAAATCGTGAATTATTATTTATTAA
47324872 CTATCATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (30 bp):
AATTAAATCGTGAATTATTATTTATTAAAA
Found at i:47325315 original size:25 final size:25
Alignment explanation
Indices: 47325265--47325315 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
47325255 CTGACTTGTA
* * *
47325265 GTTAGGGTTTTCCTTTTGTAGTTTT
1 GTTAGGGTTTGCATTTTGTAGGTTT
47325290 GTTAGGGTTTGCA-TTTGTTAGGTTT
1 GTTAGGGTTTGCATTTTG-TAGGTTT
47325315 G
1 G
47325316 GGCTCTAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.10, C:0.06, G:0.29, T:0.55
Consensus pattern (25 bp):
GTTAGGGTTTGCATTTTGTAGGTTT
Found at i:47326089 original size:17 final size:18
Alignment explanation
Indices: 47326053--47326096 Score: 81
Period size: 17 Copynumber: 2.5 Consensus size: 18
47326043 AGTCAAAATT
47326053 TATTTTATAATAAGATAA
1 TATTTTATAATAAGATAA
47326071 TATTTTATAATAA-ATAA
1 TATTTTATAATAAGATAA
47326088 TATTTTATA
1 TATTTTATA
47326097 TAGACTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATTTTATAATAAGATAA
Found at i:47326401 original size:21 final size:22
Alignment explanation
Indices: 47326370--47326411 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
47326360 ATGTTTAATA
47326370 ATATTGAAAA-TTATAATATTTG
1 ATATTGAAAATTTA-AATATTTG
47326392 ATATT-AAAATTTAAATATTT
1 ATATTGAAAATTTAAATATTT
47326412 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATTGAAAATTTAAATATTTG
Found at i:47326991 original size:20 final size:20
Alignment explanation
Indices: 47326949--47327002 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
47326939 ATTATTAATA
**
47326949 AATTTAAATTTTAGTAACTT
1 AATTTAAATTTTAGTAAAAT
47326969 AATTTAAATTATTA-TAAAAT
1 AATTTAAATT-TTAGTAAAAT
47326989 AATCATTAAATTTT
1 AAT--TTAAATTTT
47327003 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 17 0.59
21 5 0.17
22 7 0.24
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTTAAATTTTAGTAAAAT
Found at i:47327142 original size:2 final size:2
Alignment explanation
Indices: 47327131--47327174 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
47327121 TGAAAATTTA
47327131 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47327172 AT A
1 AT A
47327175 AACAGGATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47328253 original size:12 final size:12
Alignment explanation
Indices: 47328238--47328264 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47328228 TTTGCCTAGC
47328238 AATTGATTAGAA
1 AATTGATTAGAA
47328250 AATTGATTAGAA
1 AATTGATTAGAA
47328262 AAT
1 AAT
47328265 CAATTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (12 bp):
AATTGATTAGAA
Found at i:47332404 original size:27 final size:28
Alignment explanation
Indices: 47332348--47332417 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
47332338 AAACTTGTAC
47332348 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
47332376 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
47332403 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47332418 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:47332428 original size:27 final size:27
Alignment explanation
Indices: 47332348--47332429 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
47332338 AAACTTGTAC
* *
47332348 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
47332376 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
47332403 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
47332430 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:47340420 original size:27 final size:28
Alignment explanation
Indices: 47340364--47340433 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
47340354 AAACTTGTAC
47340364 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
47340392 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
47340419 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47340434 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:47340444 original size:27 final size:27
Alignment explanation
Indices: 47340364--47340445 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
47340354 AAACTTGTAC
* *
47340364 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
47340392 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
47340419 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
47340446 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:47345872 original size:19 final size:20
Alignment explanation
Indices: 47345831--47345875 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
47345821 TAAAAAAAAT
* *
47345831 AAAAAT-TCTAAAATTCTTG
1 AAAAATATCTAAAAGTCTTA
47345850 AAAAATATCTAAAAGT-TTA
1 AAAAATATCTAAAAGTCTTA
47345869 AAAAATA
1 AAAAATA
47345876 AAAAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATATCTAAAAGTCTTA
Found at i:47348292 original size:40 final size:40
Alignment explanation
Indices: 47348213--47348389 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
47348203 CGGATGATAA
* * **
47348213 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * *
47348253 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
*
47348293 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* *
47348333 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
*
47348373 TC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
47348390 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 101 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:47348351 original size:80 final size:80
Alignment explanation
Indices: 47348213--47348389 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
47348203 CGGATGATAA
* * * *
47348213 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
47348278 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* *
47348293 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
47348358 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*
47348373 TC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
47348390 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 71 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:47348657 original size:22 final size:22
Alignment explanation
Indices: 47348617--47348658 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47348607 GAATGTGCAT
*
47348617 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
47348639 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
47348659 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:47352567 original size:40 final size:40
Alignment explanation
Indices: 47352477--47352686 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
47352467 ACCCAATTAT
* ** *
47352477 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
47352515 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
47352555 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
47352595 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * *
47352635 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
47352675 CTTCGGGACTTA
1 CTTCGGGACTTA
47352687 ACCCCGTTAT
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 123 0.81
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:47354761 original size:40 final size:40
Alignment explanation
Indices: 47354668--47354923 Score: 358
Period size: 40 Copynumber: 6.5 Consensus size: 40
47354658 AAGCCAAGTA
* * * *
47354668 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATG
* * *
47354706 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* * *
47354746 CCTTCGGGACTTAGCCCGTATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
47354786 CC-TCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
47354825 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
47354865 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
47354905 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47354924 TTATCATCTG
Statistics
Matches: 201, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 12 0.06
39 51 0.25
40 138 0.69
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:47354800 original size:79 final size:79
Alignment explanation
Indices: 47354668--47354923 Score: 374
Period size: 79 Copynumber: 3.2 Consensus size: 79
47354658 AAGCCAAGTA
* * * * * *
47354668 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
*
47354731 TAACTCGCACCAATG
65 TAACTCGCACAAATG
*
47354746 CCTTCGGGACTTAGCCCGTATATAGTAGCTCGCACAAATGCC-TCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
47354810 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
47354825 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
47354890 TAACTCGCACAAATG
65 TAACTCGCACAAATG
47354905 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47354924 TTATCATCTG
Statistics
Matches: 162, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
78 14 0.09
79 85 0.52
80 63 0.39
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAAT
AACTCGCACAAATG
Found at i:47361243 original size:40 final size:40
Alignment explanation
Indices: 47361181--47361433 Score: 359
Period size: 40 Copynumber: 6.4 Consensus size: 40
47361171 AAGCCAGGTA
* * *
47361181 CCTTCGGGATTTA-ACCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47361220 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
47361260 CCTTC-GGACTTAGCCCGGATACAGTGACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47361299 CCTTCGGGACTTAGCCCGGATATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47361339 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
47361379 CCTTCGGGACTTAGCCTGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47361419 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
47361434 TCGGTTATCA
Statistics
Matches: 200, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 50 0.25
40 150 0.75
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47369441 original size:40 final size:40
Alignment explanation
Indices: 47369379--47369556 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
47369369 AAGCCAGGTA
* * *
47369379 CCTTCGGGATTTA-ACCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47369418 CCTTCGGGACTTAGCCCGGATATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47369458 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47369498 CCTTCGGGACTTAGCCCGGA-ACTAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47369538 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47369557 TTATCATCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.10
40 117 0.90
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47376960 original size:46 final size:47
Alignment explanation
Indices: 47376893--47377152 Score: 217
Period size: 47 Copynumber: 5.6 Consensus size: 47
47376883 TTTCTTGTGT
* * * * *
47376893 GCCAGTATAAGACATGTCTGGGACATGCATCGGC-CACATTATGAGG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGATAATGAGA
* *
47376939 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCGTAGA-GATGAGT
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCGTAGATAATGAGA
* * * *
47376986 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCTTTGATAATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGATAATGAGA
* * * * * ***
47377033 GCCAATGTAAGACGTGTCTGGGACATGCATCGAC-TA-AGAGT-CTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGATAATGAGA
* * * *
47377077 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATAT-ACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCGTAGATAATGAGA
* *
47377125 GCTAGTATAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
47377153 AGATCGACAA
Statistics
Matches: 175, Mismatches: 30, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
44 29 0.17
45 4 0.02
46 39 0.22
47 74 0.42
48 14 0.08
49 15 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGATAATGAGA
Found at i:47376990 original size:47 final size:45
Alignment explanation
Indices: 47376891--47377107 Score: 224
Period size: 47 Copynumber: 4.7 Consensus size: 45
47376881 GATTTCTTGT
* * * *
47376891 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGA-GATGA
*
47376937 GGGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCGTAGAGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TAGAGATGA
* * *
47376984 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTTTGATAATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-TAGA-GATGA
* * * *
47377031 -TAGCCAATGTAAGACGTGTCTGGGACATGCATCGACTA-AGA-GTC
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATG-A
* *
47377075 TTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
47377108 AGCACGTATA
Statistics
Matches: 145, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 29 0.20
45 2 0.01
46 39 0.27
47 72 0.50
48 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATGA
Found at i:47377101 original size:91 final size:93
Alignment explanation
Indices: 47376891--47377160 Score: 264
Period size: 93 Copynumber: 2.9 Consensus size: 93
47376881 GATTTCTTGT
* * * *
47376891 GTGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATTATGAGGGCCAGTGTAAGACATGT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAATGTAAGACATGT
*
47376956 CTGGGACATGGCATCGGCGTAGAGATGA
66 CTGGGACATGGCATCGACGTAGAGATGA
* *** * *
47376984 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTTTGATAATGATAGCCAATGTAAGACGTG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACATAATGAGAGCCAATGTAAGACATG
*
47377049 TCTGGGACAT-GCATCGAC-TA-AGA-GTC
65 TCTGGGACATGGCATCGACGTAGAGATG-A
* * * * * * *
47377075 TTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--ATA-ATGAGAGCCAATGTAAGA-C
47377139 ATGTCTGGGACATGAG-ATCGAC
62 ATGTCTGGGACATG-GCATCGAC
47377161 AACTTATTCC
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
90 1 0.01
91 37 0.26
92 15 0.10
93 54 0.38
94 36 0.25
95 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAATGTAAGACATGT
CTGGGACATGGCATCGACGTAGAGATGA
Found at i:47377982 original size:55 final size:55
Alignment explanation
Indices: 47377898--47378032 Score: 186
Period size: 55 Copynumber: 2.5 Consensus size: 55
47377888 GCACTTAAAA
* * * *
47377898 TTTT-AAGTCAGT-TTAGTACACGGGCAGGCCACATGGGCGTGTGTCATGGCCGTG
1 TTTTAAAGTCAGTGTT-GTCCACGGGTAGGCCACACGGGCATGTGTCATGGCCGTG
*
47377952 TTTTAAAGTCAGTGTTGTCCACGGGTAGGCCATACGGGCATGTGTCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTCCACGGGTAGGCCACACGGGCATGTGTCATGGCCGTG
47378007 TTTTAAAGTCAGTGTTG-CACACGGGT
1 TTTTAAAGTCAGTGTTGTC-CACGGGT
47378033 TAAGGGCAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
54 5 0.07
55 66 0.90
56 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTCCACGGGTAGGCCACACGGGCATGTGTCATGGCCGTG
Found at i:47378067 original size:20 final size:20
Alignment explanation
Indices: 47378042--47378089 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
47378032 TTAAGGGCAA
47378042 GGGCGTGTCCCAAGCCACAT
1 GGGCGTGTCCCAAGCCACAT
47378062 GGGCGTGTCCCAAGCCACAT
1 GGGCGTGTCCCAAGCCACAT
47378082 GGGCGTGT
1 GGGCGTGT
47378090 GTGACCACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.31, G:0.35, T:0.17
Consensus pattern (20 bp):
GGGCGTGTCCCAAGCCACAT
Found at i:47383142 original size:24 final size:21
Alignment explanation
Indices: 47383090--47383136 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
47383080 GTTTTTTTTT
*
47383090 AAAAGCAAGAAGGAAATGAAA
1 AAAAACAAGAAGGAAATGAAA
47383111 AAAAACAAGAAGGAAATGAAA
1 AAAAACAAGAAGGAAATGAAA
47383132 AAAAA
1 AAAAA
47383137 AAACAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.72, C:0.04, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAACAAGAAGGAAATGAAA
Found at i:47383871 original size:14 final size:14
Alignment explanation
Indices: 47383852--47383884 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47383842 TTGTTTTTAT
47383852 ATATATGTATATAG
1 ATATATGTATATAG
*
47383866 ATATATGTATATAT
1 ATATATGTATATAG
47383880 ATATA
1 ATATA
47383885 GTAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (14 bp):
ATATATGTATATAG
Found at i:47384068 original size:23 final size:23
Alignment explanation
Indices: 47384027--47384074 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
47384017 TTGTTACACC
*
47384027 TTTTACTATTATTACTATTGTAT
1 TTTTACTATTATTACTATTATAT
**
47384050 TTTTACTATTATTGTTATTATAT
1 TTTTACTATTATTACTATTATAT
47384073 TT
1 TT
47384075 CCCTCTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTACTATTATTACTATTATAT
Found at i:47384297 original size:12 final size:12
Alignment explanation
Indices: 47384258--47384406 Score: 52
Period size: 12 Copynumber: 11.8 Consensus size: 12
47384248 CATTTGTATT
*
47384258 TTATTTTTACTA
1 TTATTATTACTA
*
47384270 TT-TGTATTTACCA
1 TTAT-TA-TTACTA
47384283 TTATTATTACTA
1 TTATTATTACTA
**
47384295 TTATTTTCATTTTTTA
1 TTA--TT-A-TTACTA
*
47384311 TTACTATTACTA
1 TTATTATTACTA
* * *
47384323 ATATCATTCCT-
1 TTATTATTACTA
*
47384334 TTATTATTTTCTA
1 TTATTA-TTACTA
47384347 TTATTATTATCACTA
1 TTATTA-T-T-ACTA
*
47384362 TTATTAATAC-A
1 TTATTATTACTA
* *
47384373 TTTATTAATACTC
1 -TTATTATTACTA
* *
47384386 TTATTATTATTT
1 TTATTATTACTA
47384398 TTATTATTA
1 TTATTATTA
47384407 TCATCAATAT
Statistics
Matches: 103, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
11 6 0.06
12 56 0.54
13 19 0.18
14 5 0.05
15 10 0.10
16 7 0.07
ACGTcount: A:0.29, C:0.11, G:0.01, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:47384339 original size:42 final size:44
Alignment explanation
Indices: 47384293--47384374 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
47384283 TTATTATTAC
*
47384293 TATTATTTTC-ATT-TT-TTATTACTATTACTAATATCATTCCTT
1 TATTATTTTCTATTATTATTATCACTATTACTAATA-CATTCCTT
*
47384335 TATTATTTTCTATTATTATTATCACTATTATTAATACATT
1 TATTATTTTCTATTATTATTATCACTATTACTAATACATT
47384375 TATTAATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
42 10 0.29
43 3 0.09
44 6 0.17
45 16 0.46
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (44 bp):
TATTATTTTCTATTATTATTATCACTATTACTAATACATTCCTT
Found at i:47384419 original size:18 final size:18
Alignment explanation
Indices: 47384398--47384464 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
47384388 ATTATTATTT
*
47384398 TTATTATTATCATCAATA
1 TTATTATTATCAACAATA
* * * *
47384416 TTATAGTTTTACCACCACTA
1 TTAT--TATTATCAACAATA
* *
47384436 TTATCATTATCAACATTA
1 TTATTATTATCAACAATA
47384454 TTATTATTATC
1 TTATTATTATC
47384465 GTTTTCATCA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
18 23 0.62
20 14 0.38
ACGTcount: A:0.34, C:0.16, G:0.01, T:0.48
Consensus pattern (18 bp):
TTATTATTATCAACAATA
Found at i:47384463 original size:24 final size:24
Alignment explanation
Indices: 47384434--47384479 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47384424 TTACCACCAC
47384434 TATTATCATTATCAACATTATTAT
1 TATTATCATTATCAACATTATTAT
* * *
47384458 TATTATCGTTTTCATCATTATT
1 TATTATCATTATCAACATTATT
47384480 GTCATTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTATCATTATCAACATTATTAT
Found at i:47385718 original size:2 final size:2
Alignment explanation
Indices: 47385711--47385742 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47385701 GAAGATTTTA
47385711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47385743 AAGTAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47394899 original size:17 final size:18
Alignment explanation
Indices: 47394877--47394914 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
47394867 GGCCTATGAC
*
47394877 TTTTTAAATTT-TGAAAG
1 TTTTTAAATTTCTCAAAG
*
47394894 TTTTTAACTTTCTCAAAG
1 TTTTTAAATTTCTCAAAG
47394912 TTT
1 TTT
47394915 GTGAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (18 bp):
TTTTTAAATTTCTCAAAG
Found at i:47395157 original size:116 final size:117
Alignment explanation
Indices: 47394914--47395267 Score: 620
Period size: 117 Copynumber: 3.0 Consensus size: 117
47394904 TCTCAAAGTT
47394914 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
1 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
*
47394979 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAACGATGATTGTACAAA
66 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
* *
47395031 TGTGAATGTTATCGGTTTAGTTCCAAACCGCTTCTAAGTATGTTTTAAGGTCTCGTAGGA-CTTA
1 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
*
47395095 TCAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
66 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
* *
47395147 TGTGATTGTTATCGATTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
1 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
* * *
47395212 TAAGGGACAAAGTGATTGAGATGAATGGGGTTTTTAATGACGATTGTACAAA
66 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
47395264 TGTG
1 TGTG
47395268 TGATTTATGT
Statistics
Matches: 224, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
116 110 0.49
117 114 0.51
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (117 bp):
TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
Found at i:47395564 original size:48 final size:48
Alignment explanation
Indices: 47395508--47395646 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
47395498 ACGTAGTAAC
* * * * *
47395508 ATGCCAATGCCATATCCCAGATATGGTCTTGCATGGGATCACGT-GTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAT-G
* *
47395556 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCTCATAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATG
47395604 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
47395647 CATAACCCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 80 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATG
Found at i:47398281 original size:48 final size:48
Alignment explanation
Indices: 47398223--47398769 Score: 729
Period size: 48 Copynumber: 11.0 Consensus size: 48
47398213 TTGATGCATA
47398223 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
47398271 AGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** * * * * * *
47398319 AGATATGTATATGTGAGATATGTATATGTGGTAAAGCCGAGTG-GCTAATGTGAAATATG
1 AGATATGTATATGTG-G-TA---A-A-GCCG-AATGGCTAATGTG-AAATATG---TATG
47398378 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 ----AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
47398430 AGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
47398478 AGATATGTATATGTGGTAATGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
47398526 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
47398574 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
*
47398626 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
47398674 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
47398724 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47398770 GGCGATGTGT
Statistics
Matches: 443, Mismatches: 31, Indels: 50
0.85 0.06 0.10
Matches are distributed among these distances:
47 1 0.00
48 286 0.65
49 6 0.01
50 44 0.10
51 2 0.00
52 49 0.11
53 1 0.00
54 1 0.00
55 15 0.03
56 14 0.03
57 1 0.00
58 1 0.00
59 4 0.01
61 2 0.00
62 1 0.00
63 15 0.03
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:47398332 original size:17 final size:16
Alignment explanation
Indices: 47398310--47398347 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
47398300 CTAATGTGAA
47398310 ATATGTATGAGATATGT
1 ATATGT-TGAGATATGT
47398327 ATATG-TGAGATATGT
1 ATATGTTGAGATATGT
47398342 ATATGT
1 ATATGT
47398348 GGTAAAGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 15 0.75
17 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
ATATGTTGAGATATGT
Found at i:47398337 original size:15 final size:15
Alignment explanation
Indices: 47398317--47398348 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
47398307 GAAATATGTA
47398317 TGAGATATGTATATG
1 TGAGATATGTATATG
47398332 TGAGATATGTATATG
1 TGAGATATGTATATG
47398347 TG
1 TG
47398349 GTAAAGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
TGAGATATGTATATG
Found at i:47398357 original size:63 final size:63
Alignment explanation
Indices: 47398269--47398396 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
47398259 GAAATATGTA
47398269 TGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATG
47398332 TGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATG
47398395 TG
1 TG
47398397 GTAAAGCCGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.34
Consensus pattern (63 bp):
TGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATG
Found at i:47398502 original size:144 final size:144
Alignment explanation
Indices: 47398223--47398769 Score: 808
Period size: 144 Copynumber: 3.7 Consensus size: 144
47398213 TTGATGCATA
47398223 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
47398288 AAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATGTGAGATATGTATATGTGGTAA
66 AAAGCCGAATGGCTAA--TG-----TG-A--A-ATATG--TA--TGAGATATGTATATGTGGTAA
*
47398353 AGCCGAGTGGCTAATGTGAAATATGTATG
116 AGCCGAATGGCTAATGTGAAATATGTATG
47398382 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
47398447 AAAGCCGAGTGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAATGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
47398512 GTGAAATATGTATG
131 GTGAAATATGTATG
47398526 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
47398591 AAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGC
66 AAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
*
47398656 TAATGTGAAAAATGTATG
127 TAATGTGAAATATGTATG
* *
47398674 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGTATATGT
*
47398738 GGTAAAGCCGAATGGCTAGTGTGAAATATGTA
63 GGTAAAGCCGAATGGCTAATGTGAAATATGTA
47398770 GGCGATGTGT
Statistics
Matches: 371, Mismatches: 10, Indels: 27
0.91 0.02 0.07
Matches are distributed among these distances:
144 132 0.36
146 9 0.02
147 3 0.01
148 94 0.25
149 3 0.01
150 44 0.12
151 1 0.00
152 2 0.01
157 2 0.01
159 81 0.22
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (144 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
GTGAAATATGTATG
Found at i:47399024 original size:37 final size:37
Alignment explanation
Indices: 47398916--47399024 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
47398906 GGAAATATAT
*
47398916 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
47398953 TCCGGGTAAGACCCGATGACTACTTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
47398990 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
47399025 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47403123 original size:12 final size:12
Alignment explanation
Indices: 47403106--47403135 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
47403096 GATCACATGG
47403106 CCGTGTCCTACC
1 CCGTGTCCTACC
47403118 CCGTGTCCTACC
1 CCGTGTCCTACC
47403130 CCGTGT
1 CCGTGT
47403136 AACTATCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.47, G:0.20, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTACC
Found at i:47404052 original size:14 final size:14
Alignment explanation
Indices: 47404018--47404065 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
47404008 GTACGGATGG
* *
47404018 AATGGTAGGACCGA
1 AATGGTAGGAACAA
*
47404032 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
47404046 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
47404060 ATTGGT
1 AATGGT
47404066 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:47411420 original size:39 final size:39
Alignment explanation
Indices: 47411366--47411442 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
47411356 TTTAGTTTGT
*
47411366 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATGA
1 GTCTTTAATTATGTCATAGTTTGAACATCAGTAATATGA
* *
47411405 GTCTTTAATTATGTCATAGTTTGCATATCAGTAATATG
1 GTCTTTAATTATGTCATAGTTTGAACATCAGTAATATG
47411443 TGTTTTGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (39 bp):
GTCTTTAATTATGTCATAGTTTGAACATCAGTAATATGA
Found at i:47413887 original size:27 final size:27
Alignment explanation
Indices: 47413847--47413917 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
47413837 TGAAAAATAA
* *
47413847 AAAGAAATAGAAAAAGAAAAAAAGAATG
1 AAAGAAA-ACAAAAAGAAAAAAAGAACG
*
47413875 AAAGAAAACAAAAAGAAAAAGAGAACG
1 AAAGAAAACAAAAAGAAAAAAAGAACG
* *
47413902 AAAGAGAGCAAAAAGA
1 AAAGAAAACAAAAAGA
47413918 GACTGAAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 31 0.82
28 7 0.18
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (27 bp):
AAAGAAAACAAAAAGAAAAAAAGAACG
Found at i:47413899 original size:19 final size:19
Alignment explanation
Indices: 47413838--47413899 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
47413828 AAAATCATGT
*
47413838 GAAAAATAAAAAGAAATAGA
1 GAAAAA-AAAAAGAAAAAGA
* *
47413858 AAAAGAAAAAAAGAATGAA-A
1 GAAA-AAAAAAAGAA-AAAGA
*
47413878 GAAAACAAAAAGAAAAAGA
1 GAAAAAAAAAAGAAAAAGA
47413897 GAA
1 GAA
47413900 CGAAAGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 15 0.45
21 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (19 bp):
GAAAAAAAAAAGAAAAAGA
Found at i:47423053 original size:21 final size:20
Alignment explanation
Indices: 47423020--47423091 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
47423010 CACAGCCTGA
*
47423020 TCACATGGCCGTGTCCCTACT
1 TCACACGGCCGTGT-CCTACT
*
47423041 TCACACGGGCGTGTGCCT-CT
1 TCACACGGCCGTGT-CCTACT
* *
47423061 GTCACAAGGCCGTGTGCTAAGCT
1 -TCACACGGCCGTGTCCT-A-CT
47423084 TCACACGG
1 TCACACGG
47423092 GCATTTGGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.10
21 27 0.68
22 7 0.17
23 2 0.05
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.24
Consensus pattern (20 bp):
TCACACGGCCGTGTCCTACT
Found at i:47423670 original size:33 final size:34
Alignment explanation
Indices: 47423628--47423693 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
47423618 GATTGAACTA
47423628 GCAGTTTTAC-ACAACCTAACAGTATAGCGGGTG
1 GCAGTTTTACTACAACCTAACAGTATAGCGGGTG
*
47423661 GCAGTTTTACTACAACCTAACGGTATAGCGGGT
1 GCAGTTTTACTACAACCTAACAGTATAGCGGGT
47423694 TACCGCACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 10 0.32
34 21 0.68
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
GCAGTTTTACTACAACCTAACAGTATAGCGGGTG
Found at i:47434448 original size:124 final size:124
Alignment explanation
Indices: 47434226--47434450 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
47434216 GAATTATGTG
* * * ** * * *
47434226 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
47434291 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
47434350 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
47434415 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
47434451 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:47434572 original size:40 final size:40
Alignment explanation
Indices: 47434445--47434574 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
47434435 ATGCTGGAAA
* *
47434445 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
47434485 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
47434525 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
47434565 TTATATCCGG
1 TTATATCCGG
47434575 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:47434573 original size:80 final size:80
Alignment explanation
Indices: 47434407--47434574 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
47434397 CAATTGAATG
* * *
47434407 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
47434472 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
47434487 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
47434551 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
47434567 ATATCCGG
1 ATATCCGG
47434575 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:47443104 original size:15 final size:15
Alignment explanation
Indices: 47443084--47443117 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
47443074 ATTATAGATA
47443084 ATAAATGTACCCGTG
1 ATAAATGTACCCGTG
47443099 ATAAATGTACCCGTG
1 ATAAATGTACCCGTG
47443114 ATAA
1 ATAA
47443118 CATTCAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (15 bp):
ATAAATGTACCCGTG
Found at i:47454349 original size:41 final size:43
Alignment explanation
Indices: 47454268--47454392 Score: 148
Period size: 41 Copynumber: 3.0 Consensus size: 43
47454258 TGGCATTGAT
*
47454268 ATATTTGGTTACGTGTAAGACCATGTCTGAGACATCGGCATCG
1 ATATTTGATTACGTGTAAGACCATGTCTGAGACATCGGCATCG
* * *
47454311 -TATTTGATT-CGTGTAAGACCCTGTTTGGGACAGT-GGCATCG
1 ATATTTGATTACGTGTAAGACCATGTCTGAGACA-TCGGCATCG
* * * *
47454352 ATATGTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
1 ATATTTGATTACGTGTAAGACCATGTCTGAGACATCGGCAT
47454393 TGTACGATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 27 0.40
42 18 0.26
43 23 0.34
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
ATATTTGATTACGTGTAAGACCATGTCTGAGACATCGGCATCG
Found at i:47454596 original size:18 final size:19
Alignment explanation
Indices: 47454562--47454599 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
47454552 GATGCAAATT
47454562 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
47454581 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
47454599 A
1 A
47454600 GTACATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:47455144 original size:2 final size:2
Alignment explanation
Indices: 47455139--47455176 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47455129 TATGTGTGTG
47455139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47455177 AAAGCCATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47456396 original size:51 final size:51
Alignment explanation
Indices: 47456320--47456419 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
47456310 GTATAAAATG
47456320 TAGTGAATGTCTGTTTAAGTTGTTCTATGATAGGAAATGCCTTGTAAATCT
1 TAGTGAATGTCTGTTTAAGTTGTTCTATGATAGGAAATGCCTTGTAAATCT
47456371 TAGTGAATGTCTGTTTAAGTTGTTCTATGATAGGAAATGCCTTGTAAAT
1 TAGTGAATGTCTGTTTAAGTTGTTCTATGATAGGAAATGCCTTGTAAAT
47456420 TTTCTCCGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (51 bp):
TAGTGAATGTCTGTTTAAGTTGTTCTATGATAGGAAATGCCTTGTAAATCT
Found at i:47458218 original size:48 final size:48
Alignment explanation
Indices: 47458159--47458567 Score: 385
Period size: 48 Copynumber: 8.7 Consensus size: 48
47458149 TATGTGTGCT
47458159 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
*
47458207 AGTGTAAGACCATGTTT-GGA-AT----T-GGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
47458248 AGTGTAAGACCATGTTTGGAACTTGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * *
47458296 AGTGTAAGACCATGTTTGGAATATGGCATC-GACATTG-TAATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGAT-ATGAGAGCC
* * * * * * * * *
47458344 AATGTAAGAGCATG-CTGAGACATGGCATCAG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *
47458391 AGTGTAAGACCATGTCTGGGACATAGCATCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * *
47458439 AGTGTAAGACCATGTTTGGGACATGGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * * * * *
47458487 AGTGTAGGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * *
47458535 AGTGTAAGATCATGTTTGGAACATTGCATCGGC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
47458568 AATTCATCCT
Statistics
Matches: 296, Mismatches: 48, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
41 34 0.11
42 3 0.01
43 1 0.00
46 2 0.01
47 45 0.15
48 206 0.70
49 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:47458445 original size:143 final size:144
Alignment explanation
Indices: 47458159--47458565 Score: 424
Period size: 143 Copynumber: 2.9 Consensus size: 144
47458149 TATGTGTGCT
* * * * * * *
47458159 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATC-GACATTGAGACGAGAGCCAATGTAAGACCATGTC
* * * * * *
47458223 TG-GA-ATTGG---C--CAT-GATATGAGAGCCAGTGTAAGACCATGTTTGGAACTTGGCATCGG
65 TGAGACA-TGGCATCAGCATCGACATGTGAGCTAGTGTAAGACCATGTTTGGAACATAGCATCGA
47458280 CCACGATATGAGAGCC
129 CCACGATATGAGAGCC
* * *
47458296 AGTGTAAGACCATGTTTGGAATATGGCATCGACATTGTA-ATGAGAGCCAATGTAAGAGCATG-C
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACATTG-AGACGAGAGCCAATGTAAGACCATGTC
* * * * *
47458359 TGAGACATGGCATCAGCATTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATAGCATCGAC
65 TGAGACATGGCATCAGCATCGACATGTGAGCTAGTGTAAGACCATGTTTGGAACATAGCATCGAC
47458424 CAC-ATTATGAGAGCC
130 CACGA-TATGAGAGCC
* * * *
47458439 AGTGTAAGACCATGTTTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAGGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACATTGAGACGAGAGCCAATGTAAGACCATGTCT
* * * * *
47458504 GGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGATCATGTTTGGAACATTGCATCG
66 GAGACATGGCATCAGCATCGACATGTGAGCTAGTGTAAGACCATGTTTGGAACATAGCATCG
47458566 GCAATTCATC
Statistics
Matches: 225, Mismatches: 32, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
136 5 0.02
137 55 0.24
138 2 0.01
140 1 0.00
142 5 0.02
143 103 0.46
144 54 0.24
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACATTGAGACGAGAGCCAATGTAAGACCATGTCT
GAGACATGGCATCAGCATCGACATGTGAGCTAGTGTAAGACCATGTTTGGAACATAGCATCGACC
ACGATATGAGAGCC
Found at i:47479644 original size:48 final size:48
Alignment explanation
Indices: 47479550--47479873 Score: 266
Period size: 48 Copynumber: 6.8 Consensus size: 48
47479540 TATGCGCACT
* * * *
47479550 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATA-GCAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGACATG-AGAGCC
* * *
47479598 AATGTAAGACCATGTTTGGAACATGGCATCGGCAATGTA-ATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATG-ACATGAGAGCC
* * * * * * * *
47479646 AGTGTAAGACCTTATCTGGGGCATGGCATCGACATTTATAT-ATGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGACATGA-G-AGCC
* * * *
47479694 AGTGTAAAACCATGTCTGGGACATGGCATCGACCACAT--TATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCA-ATGACATGAGAGCC
* * * * * *
47479742 AGTGTAAGACCATGTCTGGGACATGACATTGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGACATGAGAGCC
* *
47479790 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGACATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-GACATGAGAGCC
* * *
47479838 AGTGTAAGACCATGTTTGGAACATGGCATCGACAAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT
47479874 TCACCCTCGT
Statistics
Matches: 220, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
46 1 0.00
47 6 0.03
48 205 0.93
49 7 0.03
50 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGACATGAGAGCC
Found at i:47479718 original size:96 final size:96
Alignment explanation
Indices: 47479550--47479871 Score: 318
Period size: 96 Copynumber: 3.4 Consensus size: 96
47479540 TATGCGCACT
* * * * *
47479550 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATA-GCAGAGCCAATGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGACG-AGAGCTAGTGTAAGACCATGT
*
47479613 TTGGAACATGGCATCGGCAATGTAATGAGAGCC
64 TTGGGACATGGCATCGGCAATGTAATGAGAGCC
* * * * * * *
47479646 AGTGTAAGACCTTATCTGGGGCATGGCATCGACATTTATA-TATGCA-CTAGTGTAAAACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-G-AGCTAGTGTAAGACCATGT
* * *
47479709 CTGGGACATGGCATCGACCACAT-T-ATGAGAGTC
64 TTGGGACATGGCATCG-GCA-ATGTAATGAGAGCC
* * *
47479742 AGTGTAAGACCATGTCTGGGACATGACATTGGCATTGAGACGAGAGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTTT
*
47479807 GGGACATGGCATCGGC-CTCG-ACATGAGAGCC
66 GGGACATGGCATCGGCAAT-GTA-ATGAGAGCC
* *
47479838 AGTGTAAGACCATGTTTGGAACATGGCATCGACA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACA
47479872 ATTCACCCTC
Statistics
Matches: 182, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
93 1 0.01
95 6 0.03
96 168 0.92
97 5 0.03
98 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTTT
GGGACATGGCATCGGCAATGTAATGAGAGCC
Found at i:47479754 original size:144 final size:144
Alignment explanation
Indices: 47479545--47479820 Score: 362
Period size: 144 Copynumber: 1.9 Consensus size: 144
47479535 GGTGATATGC
*
47479545 GCACTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATAGCAGAGCCAATGTAAGACCA
1 GCACTAGTGTAAAACCATGTCTGGGACATGGCATCAGCCACGATAGCAGAGCCAATGTAAGACCA
* * * * *
47479610 TGTTTGGAACATGGCATCGGCAATGTA-ATGAGAGCCAGTGTAAGACCTTATCTGGGGCATGGCA
66 TGTCTGGAACATGACATCGGCAATG-AGACGAGAGCCAGTGTAAGACCATATCTGGGACATGGCA
47479674 TCGACATTTATATAT
130 TCGACATTTATATAT
* *
47479689 GCACTAGTGTAAAACCATGTCTGGGACATGGCATC-GACCAC-ATTATG-AGAGTCAGTGTAAGA
1 GCACTAGTGTAAAACCATGTCTGGGACATGGCATCAG-CCACGA-TA-GCAGAGCCAATGTAAGA
* * * * * *
47479751 CCATGTCTGGGACATGACATTGGCATTGAGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGG
63 CCATGTCTGGAACATGACATCGGCAATGAGACGAGAGCCAGTGTAAGACCATATCTGGGACATGG
47479816 CATCG
128 CATCG
47479821 GCCTCGACAT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
143 3 0.03
144 110 0.96
145 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (144 bp):
GCACTAGTGTAAAACCATGTCTGGGACATGGCATCAGCCACGATAGCAGAGCCAATGTAAGACCA
TGTCTGGAACATGACATCGGCAATGAGACGAGAGCCAGTGTAAGACCATATCTGGGACATGGCAT
CGACATTTATATAT
Found at i:47479842 original size:144 final size:144
Alignment explanation
Indices: 47479545--47479870 Score: 349
Period size: 144 Copynumber: 2.3 Consensus size: 144
47479535 GGTGATATGC
*
47479545 GCACTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCCACGATAGCAGAGCCAATGTAAGACC
1 GCACCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACGATAGCAGAGCCAATGTAAGACC
* * * * *
47479609 ATGTTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACCTTATCTGGGGCATGGCA
65 ATGTCTGGAACATGACATCGGCAATGTAACGAGAGCCAGTGTAAGACCATATCTGGGACATGGCA
** *
47479674 TCGACATTTATATAT
130 TCGACATCGACATAT
* * * *
47479689 GCACTAGTGTAAAACCATGTCTGGGACATGGCATCGACCAC-ATTATG-AGAGTCAGTGTAAGAC
1 GCACCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGA-TA-GCAGAGCCAATGTAAGAC
* * * * * *
47479752 CATGTCTGGGACATGACATTGGCATTG-AGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGG
64 CATGTCTGGAACATGACATCGGCAATGTA-ACGAGAGCCAGTGTAAGACCATATCTGGGACATGG
* *
47479816 CATCGGCCTCGACATGA-
128 CATCGACATCGACAT-AT
* *
47479833 G-AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 GCA-CCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
47479871 AATTCACCCT
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
143 3 0.02
144 147 0.96
145 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (144 bp):
GCACCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATAGCAGAGCCAATGTAAGACCA
TGTCTGGAACATGACATCGGCAATGTAACGAGAGCCAGTGTAAGACCATATCTGGGACATGGCAT
CGACATCGACATAT
Found at i:47482744 original size:20 final size:19
Alignment explanation
Indices: 47482718--47482765 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
47482708 AAGAAATGAA
*
47482718 AAAAAAAAGAAAGAGAAATG
1 AAAAAAAAGAAAGA-AAAGG
* *
47482738 AAGAAAAACAAAGAAAAGG
1 AAAAAAAAGAAAGAAAAGG
47482757 AAAAAAAAG
1 AAAAAAAAG
47482766 TGTTCATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAGAAAAGG
Found at i:47483955 original size:29 final size:29
Alignment explanation
Indices: 47483922--47483986 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
47483912 GTGACGAGAT
*
47483922 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
47483951 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
47483980 CGGCACT
1 TGGCACT
47483987 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:47490628 original size:23 final size:24
Alignment explanation
Indices: 47490591--47490651 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
47490581 GATTATGTAG
47490591 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
47490615 AAAGAAAGAGAAATGAAGAAAAAC
1 AAAGAAAAAGAAATGAAGAAAAAA
*
47490639 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
47490652 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:47490642 original size:20 final size:18
Alignment explanation
Indices: 47490611--47490655 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
47490601 GAAATGAAAA
* *
47490611 AAAAAAAGAAAGAGAAATG
1 AAAAAAACAAAGA-AAAGG
47490630 AAGAAAAACAAAGAAAAGG
1 AA-AAAAACAAAGAAAAGG
47490649 AAAAAAA
1 AAAAAAA
47490656 AAGTGTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 8 0.35
20 10 0.43
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAAACAAAGAAAAGG
Found at i:47491849 original size:29 final size:29
Alignment explanation
Indices: 47491816--47491878 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
47491806 GTGACGAGAT
*
47491816 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
47491845 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
47491874 CGGCA
1 TGGCA
47491879 TGGGTGTGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:47495899 original size:63 final size:63
Alignment explanation
Indices: 47495818--47495943 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
47495808 TCAACCAGTA
*
47495818 GTGAATTTTTATATTCTGCACAAGTATGATCCCATTTTGGTTTTATACCAACACGCCAATGTT
1 GTGAATTTTTATACTCTGCACAAGTATGATCCCATTTTGGTTTTATACCAACACGCCAATGTT
* * * * *
47495881 GTGAATTTTTATACTCTGCACGAGTGTTATCTCATTTTGGTTTTATACCAACATGCCAATGTT
1 GTGAATTTTTATACTCTGCACAAGTATGATCCCATTTTGGTTTTATACCAACACGCCAATGTT
47495944 TTAAGGCTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (63 bp):
GTGAATTTTTATACTCTGCACAAGTATGATCCCATTTTGGTTTTATACCAACACGCCAATGTT
Found at i:47498577 original size:29 final size:30
Alignment explanation
Indices: 47498536--47498598 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
47498526 AGCGCAACCT
47498536 AAAGAAGTACCTTTATAGCTATCTCTG-TA
1 AAAGAAGTACCTTTATAGCTATCTCTGTTA
* * * *
47498565 AAAGAAGTGCCTTTGTGGTTATCTCTGTTA
1 AAAGAAGTACCTTTATAGCTATCTCTGTTA
47498595 AAAG
1 AAAG
47498599 TAAGCTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (30 bp):
AAAGAAGTACCTTTATAGCTATCTCTGTTA
Found at i:47503890 original size:22 final size:22
Alignment explanation
Indices: 47503862--47503907 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47503852 GCCTATGGAA
47503862 AGACTTTGAATGAATGGAAAAT
1 AGACTTTGAATGAATGGAAAAT
47503884 AGACTTTGAATGAATGGAAAAT
1 AGACTTTGAATGAATGGAAAAT
47503906 AG
1 AG
47503908 GTCACACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (22 bp):
AGACTTTGAATGAATGGAAAAT
Found at i:47505830 original size:29 final size:28
Alignment explanation
Indices: 47505797--47505883 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
47505787 TGGTATCTAC
*
47505797 CACCGGTACATTATACTTGATAAATATAA
1 CACCGGTACA-AATACTTGATAAATATAA
* * * *
47505826 CACCGGTACAAAATCCCTGATAACTAAAA
1 CACCGGTAC-AAATACTTGATAAATATAA
*
47505855 CACTGGTACAAAGTACTTGATAAATATAA
1 CACCGGTACAAA-TACTTGATAAATATAA
47505884 TCACTGCCAT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
28 3 0.07
29 42 0.91
30 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (28 bp):
CACCGGTACAAATACTTGATAAATATAA
Found at i:47506484 original size:52 final size:50
Alignment explanation
Indices: 47506364--47506486 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
47506354 ATATTTAATA
*
47506364 AAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
* * * *
47506414 ATGACATGCATTTTGTAACTCCCTTGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCATCA-TAAATT
*
47506466 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
47506487 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 27 0.44
51 12 0.19
52 23 0.37
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
Found at i:47506493 original size:52 final size:49
Alignment explanation
Indices: 47506364--47506493 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 49
47506354 ATATTTAATA
*
47506364 AAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCT-TTGTTAGTTAAGTTTGCATCATAAATT
* * * *
47506414 ATGACATGCATTTTGTAACTCCCTTGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACT-CTTTGTTAGTT-AAGTTTGCATCA-TAAATT
*
47506466 AAGTCATGCATTAAGTAACTCATTTGTT
1 AAGTCATGCATTATGTAACTC-TTTGTT
47506494 CATTTAGTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
50 25 0.38
51 14 0.21
52 27 0.41
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (49 bp):
AAGTCATGCATTATGTAACTCTTTGTTAGTTAAGTTTGCATCATAAATT
Found at i:47510312 original size:9 final size:9
Alignment explanation
Indices: 47510298--47510331 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
47510288 CAAGCATTAA
47510298 AAAAGAAAG
1 AAAAGAAAG
*
47510307 AAAAGAACG
1 AAAAGAAAG
47510316 AAAAGAAAG
1 AAAAGAAAG
47510325 -AAAGAAA
1 AAAAGAAA
47510332 TAGGAAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:47512926 original size:16 final size:16
Alignment explanation
Indices: 47512884--47512926 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
47512874 CTAGATCGGT
47512884 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
** **
47512900 AAAAGTTGAAATGCTG
1 AAAAGCCGAAATGCCA
47512916 AAAAGCCGAAA
1 AAAAGCCGAAA
47512927 GTTTGGCTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.16, G:0.21, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:47513180 original size:29 final size:29
Alignment explanation
Indices: 47513138--47513255 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
47513128 GTGAGCATGA
*
47513138 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
47513166 ATATAAAGGTGATTTGGGTCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * * *
47513195 ATATGAATATGAATTGGGCCTGATGGGTC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *
47513224 ATATAAATGAGA-TTGGGCC-AAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
47513252 ATAT
1 ATAT
47513256 GCATGTATGT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
27 1 0.01
28 20 0.27
29 53 0.72
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:47517723 original size:28 final size:27
Alignment explanation
Indices: 47517622--47517727 Score: 83
Period size: 29 Copynumber: 3.7 Consensus size: 27
47517612 ATAAGGTGAT
** *
47517622 TTGGGCCTAACGGGCCATATAAAGGTGAT
1 TTGGGCCTAATAGGCCATATAAA--TGAA
47517651 TTGGGCCTAAT-GTG-CAGTATGAATATGAA
1 TTGGGCCTAATAG-GCCA-TAT-AA-ATGAA
47517680 TTGGGCCTAATAGGCCATATAAATGAGA
1 TTGGGCCTAATAGGCCATATAAATGA-A
*
47517708 TTGGGCC-AAGTGGGCCATAT
1 TTGGGCCTAA-TAGGCCATAT
47517728 GCATGTATGT
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
27 6 0.09
28 22 0.33
29 32 0.48
30 5 0.08
31 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (27 bp):
TTGGGCCTAATAGGCCATATAAATGAA
Found at i:47517946 original size:14 final size:14
Alignment explanation
Indices: 47517927--47517956 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47517917 TGCATAGTAT
47517927 TCGTTCATTTTAGC
1 TCGTTCATTTTAGC
47517941 TCGTTCATTTTAGC
1 TCGTTCATTTTAGC
47517955 TC
1 TC
47517957 ACAAGATCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (14 bp):
TCGTTCATTTTAGC
Found at i:47525087 original size:27 final size:27
Alignment explanation
Indices: 47525057--47525139 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
47525047 ATCTCATATC
* *
47525057 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGATAGAATTACTGAAATACCCT
* *
47525084 TGTAGGATAGAATTACTGAAATGCCCC
1 TGTAGGATAGAATTACTGAAATACCCT
* *
47525111 TGTAGGGTAGAATTAC-CAAACTACCCT
1 TGTAGGATAGAATTACTGAAA-TACCCT
47525138 TG
1 TG
47525140 GTTTATAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (27 bp):
TGTAGGATAGAATTACTGAAATACCCT
Found at i:47525151 original size:27 final size:27
Alignment explanation
Indices: 47525121--47525298 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47525111 TGTAGGGTAG
* * *
47525121 AATTACCAAACTACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
47525148 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
47525175 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
47525202 AATTACCAAAATACCTCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
** ***
47525229 AATTACTGAAATA-CCCTCGACCTGTAA
1 AATTACCAAAATACCCCT-GGTTTGTAA
** * **
47525256 AATTACTGAAATACCCCCGACTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
47525283 AATTACCAAAGTACCC
1 AATTACCAAAATACCC
47525299 TCGATTTACA
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.02
27 124 0.95
28 3 0.02
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:47525152 original size:54 final size:54
Alignment explanation
Indices: 47525102--47525216 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
47525092 AGAATTACTG
* * * * *
47525102 AAATGCCCCT-GTAGGGTAGAATTACCAAACTACCCTTGGTTTATAAAATTACCA
1 AAATACCCCTGGT-GGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
** *
47525156 AAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
47525210 AAATACC
1 AAATACC
47525217 TCTGATTTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 50 0.96
55 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (54 bp):
AAATACCCCTGGTGGGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
Found at i:47525313 original size:27 final size:27
Alignment explanation
Indices: 47525294--47525649 Score: 462
Period size: 27 Copynumber: 13.2 Consensus size: 27
47525284 ATTACCAAAG
47525294 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
47525321 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
47525348 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
47525375 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
47525402 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
47525429 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAGAATTACTA-TTT
* *
47525456 CACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * **
47525483 TATCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
47525510 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
47525537 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * **
47525564 TATCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
47525591 TACCTTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
47525618 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
47525645 TACCC
1 TACCC
47525650 CTAGGGTGTT
Statistics
Matches: 285, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
27 284 1.00
28 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:47525672 original size:81 final size:81
Alignment explanation
Indices: 47525294--47525649 Score: 525
Period size: 81 Copynumber: 4.4 Consensus size: 81
47525284 ATTACCAAAG
* * * *
47525294 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
47525359 TACAGAATTACTATTT
66 TACAGAATTACTATTT
*
47525375 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
47525440 TACAGAATTAC-AGTTT
66 TACAGAATTACTA-TTT
* * * * *
47525456 CACCCTCGATTTACAAAATTACTATTTTATCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
*
47525521 TATAGAATTACTATTT
66 TACAGAATTACTATTT
* * *
47525537 TACCCTCGATTTACAAAATTACTATTTTATCCTCGATTTATAGAATTACCGTTTTACCTTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
* *
47525602 TACAAAATTACTGTTT
66 TACAGAATTACTATTT
* * *
47525618 TACCCTTGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTATTTTACCC
47525650 CTAGGGTGTT
Statistics
Matches: 250, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
80 1 0.00
81 248 0.99
82 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
TACAGAATTACTATTT
Found at i:47526060 original size:2 final size:2
Alignment explanation
Indices: 47526053--47526078 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47526043 AGCAGAACAG
47526053 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47526079 GTGGCGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47526142 original size:6 final size:6
Alignment explanation
Indices: 47526133--47526207 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
47526123 CTGTCACCTA
* * *
47526133 ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
47526182 ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
47526208 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
5 2 0.04
6 47 0.87
7 4 0.07
8 1 0.02
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (6 bp):
ATTCTG
Done.