Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 631 of 770
Found at i:197932197 original size:80 final size:79
Alignment explanation
Indices: 197932047--197932213 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
197932037 CGGAATATAA
* *
197932047 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
197932112 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
197932127 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
197932189 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
197932206 CCGGATAT
1 CCGGATAT
197932214 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:197933053 original size:17 final size:19
Alignment explanation
Indices: 197933030--197933075 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
197933020 AAGAAGCATG
197933030 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
197933048 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
197933066 AATCATGCTC
1 AATCATGCTC
197933076 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:197936592 original size:12 final size:12
Alignment explanation
Indices: 197936575--197936607 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
197936565 AGGGTTTTAA
197936575 CGGCGTTTTCAG
1 CGGCGTTTTCAG
197936587 CGGCGTTTTCAG
1 CGGCGTTTTCAG
197936599 CGGCGTTTT
1 CGGCGTTTT
197936608 ATCAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.33, T:0.36
Consensus pattern (12 bp):
CGGCGTTTTCAG
Found at i:197936767 original size:81 final size:79
Alignment explanation
Indices: 197936631--197936919 Score: 362
Period size: 81 Copynumber: 3.6 Consensus size: 79
197936621 GCAAAAATTA
* * **
197936631 TAAAACATAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGGCATT
1 TAAAA-ATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCT-AAAACAGAGCAATAGCGGC-GC
*
197936696 TTTTGTTAAAACGCCGC
63 TTTTGGTAAAACGCCGC
* * *
197936713 TAAAAATAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAACAGAGCAATAGCGACGCTT
1 TAAAAATAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAACAGAGCAATAGCGGCGCTT
197936778 TTGGTAAAACGCCGC
65 TTGGTAAAACGCCGC
* * * *
197936793 TAAAAATAGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGTCGGGGCAATAGCGGCGCT
1 TAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA--CAGAGCAATAGCGGCGCT
*
197936858 TTCGGTAAAACGCCGC
64 TTTGGTAAAACGCCGC
* * * *
197936874 TAAAAGTCGGGGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAA
1 TAAAAAT-AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
197936920 GTCATATAAC
Statistics
Matches: 183, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
79 20 0.11
80 37 0.20
81 70 0.38
82 56 0.31
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (79 bp):
TAAAAATAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAACAGAGCAATAGCGGCGCTTT
TGGTAAAACGCCGC
Found at i:197936920 original size:41 final size:41
Alignment explanation
Indices: 197936639--197936923 Score: 346
Period size: 41 Copynumber: 7.0 Consensus size: 41
197936629 TATAAAACAT
* *
197936639 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAA-AC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
* ** * *
197936679 AAAGCAATAGCGGCATTTTTTGTTAAAACGCCGCTAAAAAT-
1 AGAGCAATAGCGGC-GCTTTTGGTAAAACGCCGCTAAAAGTC
* *
197936720 AGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAA--C
1 AGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGTC
* *
197936760 AGAGCAATAGCGACGCTTTTGGTAAAACGCCGCTAAAAAT-
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
* *
197936800 AGAGCAATAGCGACGCTTTCGGTAAAACGCCGCTAAAAGTC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
* * *
197936841 GGGGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
* * *
197936882 GGGGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAAGTC
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
197936923 A
1 A
197936924 TATAACCCCT
Statistics
Matches: 221, Mismatches: 17, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
39 21 0.10
40 65 0.29
41 135 0.61
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
Found at i:197937002 original size:37 final size:37
Alignment explanation
Indices: 197936960--197937030 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
197936950 AAAAATCATG
* * *
197936960 AACACTAATCTATAACTCCTAAAATACTAAACCCTTA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCTTA
* *
197936997 AACACTAAACCATAACTTCTAAAACCCTAAACCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCC
197937031 AAAAAAACGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCTTA
Found at i:197937170 original size:7 final size:7
Alignment explanation
Indices: 197937160--197937206 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
197937150 CGGTTTAGTA
197937160 TTTAAGG
1 TTTAAGG
197937167 TTTAAGG
1 TTTAAGG
* *
197937174 TCTATGG
1 TTTAAGG
*
197937181 TTTAGGG
1 TTTAAGG
*
197937188 TTTATGG
1 TTTAAGG
197937195 TTTAAGG
1 TTTAAGG
197937202 TTTAA
1 TTTAA
197937207 TGGCCATGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:197937203 original size:14 final size:14
Alignment explanation
Indices: 197937160--197937205 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
197937150 CGGTTTAGTA
*
197937160 TTTAAGGTTTAAGG
1 TTTATGGTTTAAGG
* *
197937174 TCTATGGTTTAGGG
1 TTTATGGTTTAAGG
197937188 TTTATGGTTTAAGG
1 TTTATGGTTTAAGG
197937202 TTTA
1 TTTA
197937206 ATGGCCATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (14 bp):
TTTATGGTTTAAGG
Found at i:197937809 original size:7 final size:7
Alignment explanation
Indices: 197937799--197937831 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
197937789 AAATAAACTC
197937799 AAAATTT
1 AAAATTT
197937806 AAAAATTT
1 -AAAATTT
197937814 AAAATTT
1 AAAATTT
197937821 AAAATTT
1 AAAATTT
197937828 AAAA
1 AAAA
197937832 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:197937812 original size:8 final size:8
Alignment explanation
Indices: 197937799--197937874 Score: 72
Period size: 8 Copynumber: 10.1 Consensus size: 8
197937789 AAATAAACTC
197937799 AAAATTTA
1 AAAATTTA
197937807 AAAATTT-
1 AAAATTTA
197937814 AAAATTT-
1 AAAATTTA
197937821 AAAATTTA
1 AAAATTTA
197937829 AAAA--TA
1 AAAATTTA
* *
197937835 AAAAATAA
1 AAAATTTA
* *
197937843 AAAAATAA
1 AAAATTTA
*
197937851 AAAACTTA
1 AAAATTTA
197937859 AAAATTT-
1 AAAATTTA
197937866 AAAATTTA
1 AAAATTTA
197937874 A
1 A
197937875 TATTTTAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.10
7 21 0.35
8 33 0.55
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATTTA
Found at i:197937819 original size:15 final size:15
Alignment explanation
Indices: 197937799--197937874 Score: 73
Period size: 15 Copynumber: 5.1 Consensus size: 15
197937789 AAATAAACTC
197937799 AAAATTTAAAAATTT-
1 AAAATTT-AAAATTTA
197937814 AAAATTTAAAATTTA
1 AAAATTTAAAATTTA
** **
197937829 AAAATAAAAAATAAA
1 AAAATTTAAAATTTA
** *
197937844 AAAATAAAAAACTTA
1 AAAATTTAAAATTTA
197937859 AAAATTTAAAATTTA
1 AAAATTTAAAATTTA
197937874 A
1 A
197937875 TATTTTAGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 7 0.14
15 43 0.86
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTTAAAATTTA
Found at i:197941855 original size:2 final size:2
Alignment explanation
Indices: 197941848--197941876 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
197941838 TCTAATACTT
197941848 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
197941877 TTTTATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:197942106 original size:22 final size:20
Alignment explanation
Indices: 197942040--197942095 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
197942030 AAATTTCAAA
*
197942040 AATTAAATATAATATAATATTT
1 AATTAAA-ATAA-ATATTATTT
*
197942062 AACATAGAAATAAATATTATTT
1 AA-TTA-AAATAAATATTATTT
197942084 AATTAAAATAAA
1 AATTAAAATAAA
197942096 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTAAAATAAATATTATTT
Found at i:197942183 original size:43 final size:43
Alignment explanation
Indices: 197942118--197942278 Score: 216
Period size: 43 Copynumber: 3.8 Consensus size: 43
197942108 TATCATTATT
* * * * * * *
197942118 TTTAGCGGCGTTTGTGAGAAAAGTGCTGCTAAAGTTTATGATC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
**
197942161 TTTAGCGGCGTTTGCGAAAAAAGCG-CATTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
* *
197942203 TTTAGCGGCGTTTGTGAAAAAAGCGCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
197942246 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAA
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAA
197942279 AGTATTAGCG
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 35 0.34
43 69 0.66
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:197942413 original size:3 final size:3
Alignment explanation
Indices: 197942383--197942447 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
197942373 TACTATTCTT
* * *
197942383 TTA TTT TTA TTT TTA TTT TTGA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
197942428 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
197942448 GTTGTTGTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:197943604 original size:24 final size:26
Alignment explanation
Indices: 197943568--197943616 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
197943558 TCAAACATGC
197943568 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
197943593 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
197943617 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:197945141 original size:26 final size:26
Alignment explanation
Indices: 197945105--197945239 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
197945095 CATGAAATTC
197945105 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
197945131 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
197945157 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
197945183 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
197945208 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
197945234 TTATCA
1 TTATCA
197945240 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:197945216 original size:51 final size:52
Alignment explanation
Indices: 197945105--197945239 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
197945095 CATGAAATTC
* *
197945105 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
197945157 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
197945208 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
197945240 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:197949448 original size:24 final size:26
Alignment explanation
Indices: 197949412--197949460 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
197949402 TCAAACATGC
197949412 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
197949437 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
197949461 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:197952016 original size:27 final size:27
Alignment explanation
Indices: 197951986--197952047 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
197951976 TAATATCACC
*
197951986 ATATATTTATTTTCAAC-ATA-TATGT
1 ATATATATATTTTCAACTATATTATGT
*
197952011 ATATATATATTTTTAACTATATTATGT
1 ATATATATATTTTCAACTATATTATGT
197952038 AT-TACTATAT
1 ATATA-TATAT
197952048 CTACATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 15 0.47
26 5 0.16
27 12 0.38
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (27 bp):
ATATATATATTTTCAACTATATTATGT
Found at i:197967768 original size:26 final size:26
Alignment explanation
Indices: 197967732--197967841 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
197967722 ACATGAATTC
*
197967732 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
197967758 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
197967784 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
197967810 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
197967836 TTATCA
1 TTATCA
197967842 ATTGTATCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:197970816 original size:53 final size:53
Alignment explanation
Indices: 197970675--197970825 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
197970665 ATAAGTGCGC
* **
197970675 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACT
* * *
197970728 CCGTATAAGACCATCGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACT
* *
197970781 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
197970826 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATATGACT
Found at i:197973489 original size:46 final size:46
Alignment explanation
Indices: 197973439--197973614 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
197973429 TGGTTGAGCA
197973439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
197973485 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
197973530 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
197973578 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
197973615 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:197973595 original size:93 final size:93
Alignment explanation
Indices: 197973436--197973607 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
197973426 GGATGGTTGA
* *
197973436 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
197973501 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
197973529 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
197973594 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
197973608 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:197978030 original size:18 final size:18
Alignment explanation
Indices: 197978007--197978048 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
197977997 AGTCTTAAGT
197978007 ACTTGATGTCACAAAAAG
1 ACTTGATGTCACAAAAAG
197978025 ACTTGATGTCACAAAAAG
1 ACTTGATGTCACAAAAAG
197978043 ACTTGA
1 ACTTGA
197978049 ATGAGACAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (18 bp):
ACTTGATGTCACAAAAAG
Found at i:197981039 original size:46 final size:46
Alignment explanation
Indices: 197980989--197981164 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
197980979 TGGTTGAGCA
197980989 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
197981035 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
197981080 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
197981128 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
197981165 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:197981145 original size:93 final size:93
Alignment explanation
Indices: 197980986--197981157 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
197980976 GGATGGTTGA
* *
197980986 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
197981051 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
197981079 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
197981144 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
197981158 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:197985113 original size:35 final size:35
Alignment explanation
Indices: 197985069--197985235 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
197985059 TCCTCATTGA
** *
197985069 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
197985104 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
197985144 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
197985179 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
197985214 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
197985236 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:197985152 original size:75 final size:73
Alignment explanation
Indices: 197985064--197985235 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
197985054 AGTTTTCCTC
** * * **
197985064 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
197985128 TCAGTATGG
65 TCAGTATGG
*
197985137 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
197985202 CTCAGTATGG
64 CTCAGTATGG
197985212 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
197985236 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:197992615 original size:35 final size:35
Alignment explanation
Indices: 197992550--197992715 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
197992540 TCCTCATTGA
** *
197992550 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
197992584 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
197992624 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
197992659 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
197992694 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
197992716 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:197992674 original size:75 final size:72
Alignment explanation
Indices: 197992545--197992717 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
197992535 GGTTTTCCTC
* * * **
197992545 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
197992609 CAGTATGG
65 CAGTATGG
197992617 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
197992681 ACTCAGTATGG
62 ACTCAGTATGG
197992692 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
197992718 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:197996706 original size:16 final size:16
Alignment explanation
Indices: 197996685--197996718 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
197996675 TAAATCGTAT
197996685 AATACTAGAATATAAA
1 AATACTAGAATATAAA
* *
197996701 AATACTAGTATTTAAA
1 AATACTAGAATATAAA
197996717 AA
1 AA
197996719 AATTGGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AATACTAGAATATAAA
Found at i:197997260 original size:29 final size:27
Alignment explanation
Indices: 197997205--197997266 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
197997195 TTATATTTGA
197997205 ATTTCAAATTTAATTTACATTTCAATTC
1 ATTT-AAATTTAATTTACATTTCAATTC
* * *
197997233 ATTTAAATTTATATTTTCCATTTTAATTT
1 ATTTAAATTTA-A-TTTACATTTCAATTC
197997262 ATTTA
1 ATTTA
197997267 TTTATCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 5 0.17
29 17 0.59
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTAAATTTAATTTACATTTCAATTC
Found at i:197997288 original size:20 final size:21
Alignment explanation
Indices: 197997231--197997289 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
197997221 ACATTTCAAT
*
197997231 TCATTTAAATTTA--TATTT-
1 TCATTTCAATTTATTTATTTA
*
197997249 TCCATTTTAATTTATTTATTTA
1 T-CATTTCAATTTATTTATTTA
197997271 TCATTTCAATTT-TTTATTT
1 TCATTTCAATTTATTTATTT
197997290 CATTTTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 11 0.31
20 7 0.20
21 15 0.43
22 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATTTCAATTTATTTATTTA
Found at i:197997298 original size:21 final size:21
Alignment explanation
Indices: 197997253--197997303 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
197997243 ATATTTTCCA
197997253 TTTT-AATTTATTTATTTATC
1 TTTTCAATTTATTTATTTATC
* *
197997273 ATTTCAATTT-TTTATTTCATT
1 TTTTCAATTTATTTATTT-ATC
197997294 TTTTC-ATTTA
1 TTTTCAATTTA
197997304 AATTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCAATTTATTTATTTATC
Found at i:197997315 original size:33 final size:35
Alignment explanation
Indices: 197997230--197997315 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 35
197997220 TACATTTCAA
197997230 TTCATTTAAATTTAT-ATTTTCCATTTTAATTTAT
1 TTCATTTAAATTTATAATTTTCCATTTTAATTTAT
* * ** *
197997264 TT-ATTTATCATTT-CAATTTTTTA-TTTCATTT-T
1 TTCATTTA-AATTTATAATTTTCCATTTTAATTTAT
197997296 TTCATTTAAATTTATAATTT
1 TTCATTTAAATTTATAATTT
197997316 ATTTTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
32 7 0.17
33 22 0.54
34 12 0.29
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (35 bp):
TTCATTTAAATTTATAATTTTCCATTTTAATTTAT
Found at i:197997417 original size:5 final size:5
Alignment explanation
Indices: 197997352--197997408 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
197997342 TCATAATCAC
* * *
197997352 CATTT CATTT CATTT CGTTT CATATT CATTAT AAATTA CATTT CATTT
1 CATTT CATTT CATTT CATTT CAT-TT CATT-T -CATTT CATTT CATTT
197997400 CATATT CAT
1 CAT-TT CAT
197997409 ATTTCATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
5 28 0.67
6 11 0.26
7 3 0.07
ACGTcount: A:0.28, C:0.18, G:0.02, T:0.53
Consensus pattern (5 bp):
CATTT
Found at i:197997593 original size:10 final size:10
Alignment explanation
Indices: 197997575--197997608 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
197997565 ATCAGGGTTA
197997575 TTTAAATTTT
1 TTTAAATTTT
*
197997585 TTTATATTTT
1 TTTAAATTTT
197997595 ATTTAAATTTT
1 -TTTAAATTTT
197997606 TTT
1 TTT
197997609 GTCAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:197997604 original size:11 final size:11
Alignment explanation
Indices: 197997572--197997605 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
197997562 AGTATCAGGG
197997572 TTATTTAAATT
1 TTATTTAAATT
*
197997583 TT-TTTATATT
1 TTATTTAAATT
197997593 TTATTTAAATT
1 TTATTTAAATT
197997604 TT
1 TT
197997606 TTTGTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTAAATT
Found at i:197997836 original size:5 final size:5
Alignment explanation
Indices: 197997828--197997918 Score: 101
Period size: 5 Copynumber: 16.6 Consensus size: 5
197997818 CCTTTTTTTT
*
197997828 TTTCA TTTCA TTTCAA TTTCA ATTCTA TTTCA TTTCA TTTCAA TTTTCA
1 TTTCA TTTCA TTTC-A TTTCA TTTC-A TTTCA TTTCA TTTC-A -TTTCA
197997877 TTTCA TTTCAA TTTTCA TTTCA TTTTCA TTTCCA TTTCA TTT
1 TTTCA TTTC-A -TTTCA TTTCA -TTTCA TTT-CA TTTCA TTT
197997919 AAATTATATT
Statistics
Matches: 76, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
5 45 0.59
6 23 0.30
7 8 0.11
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:197997848 original size:11 final size:11
Alignment explanation
Indices: 197997828--197997923 Score: 99
Period size: 11 Copynumber: 8.7 Consensus size: 11
197997818 CCTTTTTTTT
197997828 TTTC-ATTTCA
1 TTTCAATTTCA
197997838 TTTCAATTTCA
1 TTTCAATTTCA
* *
197997849 ATTCTATTTCA
1 TTTCAATTTCA
197997860 TTTC-ATTTCAA
1 TTTCAATTTC-A
197997871 TTTTC-ATTTCA
1 -TTTCAATTTCA
197997882 TTTCAATTTTCA
1 TTTCAA-TTTCA
*
197997894 TTTCATTTTCA
1 TTTCAATTTCA
*
197997905 TTTCCATTTCA
1 TTTCAATTTCA
*
197997916 TTTAAATT
1 TTTCAATT
197997924 ATATTTTTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
10 13 0.18
11 41 0.56
12 19 0.26
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTCAATTTCA
Found at i:197997859 original size:17 final size:17
Alignment explanation
Indices: 197997828--197997929 Score: 57
Period size: 17 Copynumber: 5.8 Consensus size: 17
197997818 CCTTTTTTTT
*
197997828 TTTCATTTC-ATTTCAA
1 TTTCAATTCTATTTCAA
197997844 TTTCAATTCTATTTCATTTCA
1 TTTCAATTCTATTTCA----A
*
197997865 TTTCAATTTTCATTTC-A
1 TTTCAATTCT-ATTTCAA
* *
197997882 TTTCAATTTTCATTTCAT
1 TTTCAATTCT-ATTTCAA
* *
197997900 TTTCATTTCCATTTC-A
1 TTTCAATTCTATTTCAA
* *
197997916 TTTAAATTATATTT
1 TTTCAATTCTATTT
197997930 TTTCCATTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
16 18 0.26
17 28 0.41
18 7 0.10
21 10 0.15
22 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTCAATTCTATTTCAA
Found at i:197997929 original size:22 final size:21
Alignment explanation
Indices: 197997914--197998063 Score: 85
Period size: 20 Copynumber: 6.8 Consensus size: 21
197997904 ATTTCCATTT
* *
197997914 CATTTAAATTATA-TTTTTTC
1 CATTTAATTTAAATTTTTTTC
197997934 CATTTAATTT-AATTTTTTTCC
1 CATTTAATTTAAATTTTTTT-C
* *
197997955 TCATTTCATTTAATTTATCTATCTTCC
1 -CATTTAATTTAAATT-T-T-T-TT-C
197997982 CATTTTAATTT--ATTTTTTTC
1 CA-TTTAATTTAAATTTTTTTC
* *
197998002 TCATTTTATTTATATTATTTTTTC
1 -CATTTAATTTA-AAT-TTTTTTC
197998026 CATTTAAATTT-AATTTTTTTC
1 CATTT-AATTTAAATTTTTTTC
*
197998047 TCATTTCATTTAAATTT
1 -CATTTAATTTAAATTT
197998064 AAATTTTTTT
Statistics
Matches: 102, Mismatches: 11, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
19 1 0.01
20 23 0.23
21 16 0.16
22 22 0.22
23 10 0.10
24 13 0.13
25 3 0.03
26 3 0.03
27 11 0.11
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.63
Consensus pattern (21 bp):
CATTTAATTTAAATTTTTTTC
Found at i:197997966 original size:27 final size:25
Alignment explanation
Indices: 197997934--197998275 Score: 198
Period size: 27 Copynumber: 14.0 Consensus size: 25
197997924 ATATTTTTTC
197997934 CATTTAATTTAATTTTTTTCCTCATTT
1 CATTTAATTT-ATTTTTTT-CTCATTT
* * *
197997961 CATTTAATTTATCTATCTTCCCA--T
1 CATTTAATTTAT-TTTTTTCTCATTT
197997985 --TTTAATTTATTTTTTTCTCATTT
1 CATTTAATTTATTTTTTTCTCATTT
*
197998008 TATTT-ATATTA-TTTTTTC-CATTT
1 CATTTAAT-TTATTTTTTTCTCATTT
197998031 -A---AATTTAATTTTTTTCTCATTT
1 CATTTAATTT-ATTTTTTTCTCATTT
197998053 CATTTAAATTTAAATTTTTTTCTCATTT
1 CATTT-AATTT--ATTTTTTTCTCATTT
*
197998081 CATTTAATTTA----TCTCTCATTT
1 CATTTAATTTATTTTTTTCTCATTT
* *
197998102 CATTTTAATTTAATTTTTTTATCTTTT
1 CA-TTTAATTT-ATTTTTTTCTCATTT
197998129 CATTT-ATATTATTTTTTTC-CATTT
1 CATTTAAT-TTATTTTTTTCTCATTT
* *
197998153 -A---AATTTAATATTTTCCTCATTT
1 CATTTAATTT-ATTTTTTTCTCATTT
* * *
197998175 TATTTAAATTATCTTTATTT-TAATTT
1 CATTTAATTTAT-TTT-TTTCTCATTT
197998201 -A---AATTTAATTTTTTTCTCATTT
1 CATTTAATTT-ATTTTTTTCTCATTT
*
197998223 CATTTAAATTTATTTTTTTTCTCTTTT
1 CATTT-AATTTA-TTTTTTTCTCATTT
*
197998250 CATTTAAATTATCTTTCTTTC-CATTT
1 CATTTAATTTAT-TTT-TTTCTCATTT
197998276 TAATTTACAT
Statistics
Matches: 250, Mismatches: 23, Indels: 85
0.70 0.06 0.24
Matches are distributed among these distances:
19 2 0.01
20 5 0.02
21 37 0.15
22 41 0.16
23 13 0.05
24 14 0.06
25 21 0.08
26 34 0.14
27 62 0.25
28 21 0.08
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (25 bp):
CATTTAATTTATTTTTTTCTCATTT
Found at i:197998065 original size:33 final size:28
Alignment explanation
Indices: 197998037--197998091 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
197998027 ATTTAAATTT
197998037 AATTTTTTTCTCATTTCATTTAAATTT-A
1 AATTTTTTTCTCATTTCATTT-AATTTAA
197998065 AATTTTTTTCTCATTTCATTTAATTTA
1 AATTTTTTTCTCATTTCATTTAATTTA
197998092 TCTCTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (28 bp):
AATTTTTTTCTCATTTCATTTAATTTAA
Found at i:197998172 original size:94 final size:96
Alignment explanation
Indices: 197998053--197998241 Score: 258
Period size: 94 Copynumber: 2.0 Consensus size: 96
197998043 TTTCTCATTT
* * * * *
197998053 CATTTAAATTTAAATTTTTTTCTCATTTCATTTAATTTATCTCTCA-TTTCATTTTAATTTAATT
1 CATTTAAATTTAAATATTTTCCTCATTTCATTTAAATTATCT-TCATTTTAATTTAAATTTAATT
* *
197998117 TTTTTATCTTTTCATTTATA-TTATTTTTTTC
65 TTTTTATCATTTCATTTAAATTTATTTTTTTC
* *
197998148 CATTTAAATTT-AATATTTTCCTCATTTTATTTAAATTATCTTTATTTTAATTTAAATTTAATTT
1 CATTTAAATTTAAATATTTTCCTCATTTCATTTAAATTATCTTCATTTTAATTTAAATTTAATTT
*
197998212 TTTTCTCATTTCATTTAAATTTATTTTTTT
66 TTTTATCATTTCATTTAAATTTATTTTTTT
197998242 TCTCTTTTCA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
93 2 0.02
94 59 0.72
95 21 0.26
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.63
Consensus pattern (96 bp):
CATTTAAATTTAAATATTTTCCTCATTTCATTTAAATTATCTTCATTTTAATTTAAATTTAATTT
TTTTATCATTTCATTTAAATTTATTTTTTTC
Found at i:197998219 original size:121 final size:122
Alignment explanation
Indices: 197997934--197998291 Score: 417
Period size: 121 Copynumber: 2.9 Consensus size: 122
197997924 ATATTTTTTC
* * * * *
197997934 CATTT-AATTT-AATTTTTTTCCTCATTTCATTTAATTTATCTATC-TTCCCATTTTAATTT-AT
1 CATTTAAATTTAAATTTATTT-CTAATTTAATTTAATTTATCTCTCATT-TCATTTTAATTTAAT
*
197997995 TTTTTTCTCATTTT-ATTTATATTA-TTTTTTCCATTTAAATTTAATTTTTTTCTCATTT
64 TTTTTTCTC-TTTTCATTTATATTATTTTTTTCCATTTAAATTTAATTTTTTCCTCATTT
* * *
197998053 CATTTAAATTTAAATTTTTTTCTCATTTCATTTAATTTATCTCTCATTTCATTTTAATTTAATTT
1 CATTTAAATTTAAATTTATTTCTAATTTAATTTAATTTATCTCTCATTTCATTTTAATTTAATTT
* *
197998118 TTTTATCTTTTCATTTATATTATTTTTTTCCATTTAAATTTAATATTTTCCTCATTT
66 TTTTCTCTTTTCATTTATATTATTTTTTTCCATTTAAATTTAATTTTTTCCTCATTT
* ** * * * *
197998175 TATTTAAA-TTATCTTTATTT-TAATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTATTT
1 CATTTAAATTTAAATTTATTTCTAATTT-AATTTAATTTATCTCTCATTTCATTTTAATTTAATT
* *
197998238 TTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACATTTTTTC
65 TTTTTCTCTTTTCATTTATATTAT-TTT-TTTCCATTTAAATTTA-ATTTTTTC
197998292 ATATTAATTT
Statistics
Matches: 210, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
119 5 0.02
120 48 0.23
121 93 0.44
122 42 0.20
123 15 0.07
124 7 0.03
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (122 bp):
CATTTAAATTTAAATTTATTTCTAATTTAATTTAATTTATCTCTCATTTCATTTTAATTTAATTT
TTTTCTCTTTTCATTTATATTATTTTTTTCCATTTAAATTTAATTTTTTCCTCATTT
Found at i:197998234 original size:75 final size:76
Alignment explanation
Indices: 197998148--197998290 Score: 200
Period size: 75 Copynumber: 1.9 Consensus size: 76
197998138 TATTTTTTTC
*
197998148 CATTTAAATTTAATATTTTCCTCATTTT-ATTTAAATTATCTTTATTTTAATTTAAATTTA-ATT
1 CATTTAAATTTAATATTTTCCTC-TTTTCATTTAAATTATCTTTATTTCAATTTAAATTTACATT
197998211 TTTTTCTCATTT
65 TTTTTCTCATTT
* * * * * *
197998223 CATTTAAATTTATTTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACATTT
1 CATTTAAATTTAATATTTTCCTCTTTTCATTTAAATTATCTTTATTTCAATTTAAATTTACATTT
197998288 TTT
66 TTT
197998291 CATATTAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
74 4 0.07
75 48 0.81
76 7 0.12
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (76 bp):
CATTTAAATTTAATATTTTCCTCTTTTCATTTAAATTATCTTTATTTCAATTTAAATTTACATTT
TTTTCTCATTT
Found at i:197998255 original size:48 final size:48
Alignment explanation
Indices: 197997934--197998256 Score: 174
Period size: 48 Copynumber: 6.7 Consensus size: 48
197997924 ATATTTTTTC
* * * * * * *
197997934 CATTT-AATTTAATTTTTTTCCTCATTTCATTTAATTTATCTATC-TTCC
1 CATTTAAATTT-ATTTTTTTTCTCTTTTAATTTAATTTTTTTCTCATT-T
*
197997982 CATTTTAATTTA-TTTTTTTCTCATTTT-ATTTATATTATTTTT-TC----
1 CATTTAAATTTATTTTTTTTCTC-TTTTAATTTA-ATT-TTTTTCTCATTT
*
197998026 CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAAATTTTTTTCTCATTT
1 CATTTAAATTT-ATTTTTTT-TC---TC-TTTTAATTT-AATTTTTTTCTCATTT
** * * *
197998081 CATTT-AATTTATCTCTCATTTC-ATTTTAATTTAATTTTTTTATCTTTT
1 CATTTAAATTTAT-T-TTTTTTCTCTTTTAATTTAATTTTTTTCTCATTT
* * * *
197998129 CATTTATA-TTA-TTTTTTTC-CATTTAAATTTAATATTTTCCTCATTT
1 CATTTAAATTTATTTTTTTTCTC-TTTTAATTTAATTTTTTTCTCATTT
* ** *
197998175 TATTTAAA-TTATCTTTATTTT-AATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAT-TTT-TTTTCTCTTTTAATTTAATTTTTTTCTCATTT
*
197998223 CATTTAAATTTATTTTTTTTCTCTTTTCATTTAA
1 CATTTAAATTTATTTTTTTTCTCTTTTAATTTAA
197998257 ATTATCTTTC
Statistics
Matches: 217, Mismatches: 31, Indels: 54
0.72 0.10 0.18
Matches are distributed among these distances:
44 10 0.05
45 6 0.03
46 36 0.17
47 20 0.09
48 81 0.37
49 25 0.12
50 11 0.05
51 9 0.04
52 1 0.00
53 2 0.01
54 8 0.04
55 8 0.04
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (48 bp):
CATTTAAATTTATTTTTTTTCTCTTTTAATTTAATTTTTTTCTCATTT
Found at i:197998275 original size:48 final size:48
Alignment explanation
Indices: 197997911--197998291 Score: 166
Period size: 48 Copynumber: 7.9 Consensus size: 48
197997901 TTCATTTCCA
* * *
197997911 TTTCATTTAAATTATATTT-TTTCCATTT-AATTTAATTTTTTTCCTCA
1 TTTCATTTAAATTATCTTTCTTTCCATTTAAATTT-ATTTTTTTTCTCT
* * * *
197997958 TTTCATTTAATTTATCTATCTTCCCATTTTAATTTA-TTTTTTTCTCAT
1 TTTCATTTAAATTATCTTTCTTTCCATTTAAATTTATTTTTTTTCTC-T
* * *
197998006 TTT-ATTTATATTA--TTT-TTTCCATTTAAATTTAATTTTTTTCTCA
1 TTTCATTTAAATTATCTTTCTTTCCATTTAAATTTATTTTTTTTCTCT
** * * * * * *
197998050 TTTCATTTAAATTTAAATTTTTTTCTCATTT-CATTTAATTTATCTCTCA
1 TTTCATTTAAA-TTATCTTTCTTTC-CATTTAAATTTATTTTTTTTCTCT
* * * *
197998099 TTTCATTTTAATTTAATTTTTTTATCTTTTCATTTATA-TTA-TTTTTTTC-CAT
1 TTTCA-TTT-A---AATTATCTT-TCTTTCCATTTAAATTTATTTTTTTTCTC-T
** * * * **
197998151 TTAAATTTAATATTTTC-CTCATTT-TATTTAAA-TTATCTTTATTTT-AAT
1 TTTCATTTAA-ATTATCTTTC-TTTCCATTTAAATTTAT-TTT-TTTTCTCT
** * *
197998199 TTAAATTT-AATT-TTTTTCTCATTTCATTTAAATTTATTTTTTTTCTCT
1 TTTCATTTAAATTATCTTTCT--TTCCATTTAAATTTATTTTTTTTCTCT
* **
197998247 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACATTTTTTC
1 TTTCATTTAAATTATCTTTCTTTCCATTTAAATTTATTTTTTTTC
197998292 ATATTAATTT
Statistics
Matches: 258, Mismatches: 44, Indels: 63
0.71 0.12 0.17
Matches are distributed among these distances:
44 17 0.07
45 20 0.08
46 19 0.07
47 44 0.17
48 69 0.27
49 41 0.16
50 15 0.06
51 5 0.02
52 9 0.03
53 12 0.05
54 7 0.03
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (48 bp):
TTTCATTTAAATTATCTTTCTTTCCATTTAAATTTATTTTTTTTCTCT
Found at i:197998276 original size:27 final size:27
Alignment explanation
Indices: 197998191--197998287 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
197998181 AATTATCTTT
197998191 ATTTTAATTTAAATTTAATTTTTTTCTC
1 ATTTTAATTTAAATTT-ATTTTTTTCTC
*
197998219 A-TTTCATTTAAATTTATTTTTTTTCTC
1 ATTTTAATTTAAATTTA-TTTTTTTCTC
*
197998246 -TTTTCATTTAAA-TTATCTTTCTTTC-C
1 ATTTTAATTTAAATTTAT-TTT-TTTCTC
*
197998272 ATTTTAATTTACATTT
1 ATTTTAATTTAAATTT
197998288 TTTCATATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
25 1 0.02
26 8 0.13
27 48 0.80
28 3 0.05
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTAATTTAAATTTATTTTTTTCTC
Found at i:198007299 original size:40 final size:40
Alignment explanation
Indices: 198007254--198007421 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
198007244 CGGAATATAA
198007254 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
198007294 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
198007334 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
198007374 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
198007414 CCGGATAT
1 CCGGATAT
198007422 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:198009844 original size:40 final size:39
Alignment explanation
Indices: 198009785--198010032 Score: 237
Period size: 40 Copynumber: 6.2 Consensus size: 39
198009775 CAATTGAATG
* * * **
198009785 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
* * * *
198009825 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTG-TT
* *
198009865 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTT
* *
198009905 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTT
* * * *
198009945 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
* * * *
198009985 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
198010025 ATATCCGG
1 ATATCCGG
198010033 TCGTATTCCG
Statistics
Matches: 177, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
40 175 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGGTTGTT
Found at i:198009920 original size:80 final size:81
Alignment explanation
Indices: 198009787--198010016 Score: 272
Period size: 80 Copynumber: 2.9 Consensus size: 81
198009777 ATTGAATGAT
* * * * *
198009787 ATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
* *
198009851 TT-GTGCTAG-TGACTAC
65 TTCGTGCGAGTTG-CTAA
* * *
198009867 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
198009931 TCGTGCGAGTTGTTAA
66 TCGTGCGAGTTGCTAA
* * * *
198009947 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
198010011 TCGTGC
66 TCGTGC
198010017 ATGTGGTTAT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 4 0.03
80 124 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TCGTGCGAGTTGCTAA
Found at i:198010031 original size:120 final size:119
Alignment explanation
Indices: 198009785--198010032 Score: 304
Period size: 120 Copynumber: 2.1 Consensus size: 119
198009775 CAATTGAATG
* * * *
198009785 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGTAATTAAATCCGGGCTAAGACCCGAAGGCA
* *
198009850 ATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
66 ATTGTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* * * ** *
198009905 AAATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GTAATTAAATCCGGGCTAAGACCCGAAGGC
* *
198009969 ATTTGTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTCGTGC-ATGTGGTT
65 AATTGTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGGTT
198010025 ATATCCGG
1 ATATCCGG
198010033 TCGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
119 2 0.02
120 104 0.95
121 1 0.01
122 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGTAATTAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
Found at i:198013206 original size:30 final size:29
Alignment explanation
Indices: 198013112--198013213 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
198013102 TATAGTGAAT
* * *
198013112 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
198013141 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
198013169 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
198013199 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
198013214 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:198020947 original size:124 final size:121
Alignment explanation
Indices: 198020725--198020947 Score: 333
Period size: 124 Copynumber: 1.8 Consensus size: 121
198020715 GAATTATGTG
* * *
198020725 AAATGAAATATGGATGTGTAATGATTATTGATTATGTGTGTATGAGTATTTGAATGATACCCGGG
1 AAATGAAACATGGATGTGTAATGATTATTGATTATGTGTGTATGAGCAATTGAATGATACCCGGG
* *
198020790 CTAAGTCCCGAAGGCGATTATGCTAGTGATATATTGTGTTTGAGCCTTAGTAACGA
66 CTAAGTCCCGAAGACGATTATGCTAGTAATATATTGTGTTTGAGCCTTAGTAACGA
*
198020846 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAACATGGATGTGTAATGATTATTGAT-TATGTGTGT--ATGAGCAATTGAATGATACCC
198020911 GGGCTAAGTCCCGAAGAC-ATTTATGCT-GTAATTATAT
63 GGGCTAAGTCCCGAAGACGA-TTATGCTAGTAA-TATAT
198020948 CCGGGTTAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
121 31 0.34
122 9 0.10
123 4 0.04
124 47 0.52
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (121 bp):
AAATGAAACATGGATGTGTAATGATTATTGATTATGTGTGTATGAGCAATTGAATGATACCCGGG
CTAAGTCCCGAAGACGATTATGCTAGTAATATATTGTGTTTGAGCCTTAGTAACGA
Found at i:198021037 original size:38 final size:38
Alignment explanation
Indices: 198020907--198021131 Score: 238
Period size: 38 Copynumber: 5.8 Consensus size: 38
198020897 ATTGAATGAT
* * ** ** *
198020907 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-GTTGTTAA
* * *
198020946 ATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGT--TG-TTAA
198020986 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
198021024 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
* * * **
198021062 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC--GTTGTTAA
198021102 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
198021132 ATGTGGTTAT
Statistics
Matches: 160, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
37 1 0.01
38 68 0.43
39 27 0.17
40 63 0.39
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
Found at i:198021043 original size:78 final size:78
Alignment explanation
Indices: 198020907--198021131 Score: 253
Period size: 78 Copynumber: 2.9 Consensus size: 78
198020897 ATTGAATGAT
* * * * * *
198020907 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGTAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTAGTTATATCCGGGCTAAGACCCGAAGGCAATT
*
198020972 -GTGC-TAGTGACTAC
66 CGTGCGT--TG-CTAA
* * *
198020986 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-GTTGTTAAATCCGGGCTAAGACCCGAAGGC-ATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTAGTTATATCCGGGCTAAGACCCGAAGGCAATT
*
198021049 CGTGCGTTGTTAA
66 CGTGCGTTGCTAA
* * *
198021062 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
198021126 TCGTGC
65 TCGTGC
198021132 ATGTGGTTAT
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
76 30 0.24
77 5 0.04
78 65 0.51
79 27 0.21
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (78 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTAGTTATATCCGGGCTAAGACCCGAAGGCAATT
CGTGCGTTGCTAA
Found at i:198021112 original size:116 final size:116
Alignment explanation
Indices: 198020907--198021131 Score: 301
Period size: 116 Copynumber: 1.9 Consensus size: 116
198020897 ATTGAATGAT
* * * *
198020907 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGTAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCTGTAATTAAATCCGGGCTAAGACCCGAAGGCAATT
*
198020972 GTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
66 GTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
* * ** * *
198021024 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-GTTGTTAAATCCGGGCTAATACCCGAAGGCATTT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCTGTAATTAAATCCGGGCTAAGACCCGAAGGCAATT
*
198021088 GTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTCGTGC
66 GTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGC
198021132 ATGTGGTTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
116 65 0.69
117 27 0.29
118 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (116 bp):
ATCCGGGCTAAGACCCGAAGACATTCATGCTGTAATTAAATCCGGGCTAAGACCCGAAGGCAATT
GTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTTAA
Found at i:198021125 original size:40 final size:38
Alignment explanation
Indices: 198020905--198021147 Score: 247
Period size: 40 Copynumber: 6.2 Consensus size: 38
198020895 CAATTGAATG
* * ** **
198020905 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GTTGTT
* *
198020944 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGT--TG-TT
*
198020984 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTT
*
198021022 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTT
* * * *
198021060 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC--GTTGTT
* *
198021100 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC--GTTGTT
198021140 ATATCCGG
1 ATATCCGG
198021148 TTGTATTCCG
Statistics
Matches: 175, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 68 0.39
39 29 0.17
40 76 0.43
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTTGTT
Found at i:198022797 original size:2 final size:2
Alignment explanation
Indices: 198022790--198022833 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
198022780 TGATGATTTC
*
198022790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
198022830 AT AT
1 AT AT
198022834 GTAAATTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:198025877 original size:39 final size:40
Alignment explanation
Indices: 198025819--198025919 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
198025809 AAATTGAATG
* *
198025819 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
198025858 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
198025898 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
198025920 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:198025912 original size:40 final size:40
Alignment explanation
Indices: 198025819--198026001 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
198025809 AAATTGAATG
* * * * *
198025819 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
198025858 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
198025898 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
198025938 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
198025978 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
198026002 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:198033918 original size:40 final size:39
Alignment explanation
Indices: 198033816--198033964 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 39
198033806 AAATTGAATG
* * * * *
198033816 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-AGTT
* *
198033856 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-AGTT
198033896 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-A-AGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGAGTT
* *
198033933 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
198033965 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
37 30 0.32
38 2 0.02
39 4 0.04
40 59 0.62
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGTT
Found at i:198033948 original size:37 final size:36
Alignment explanation
Indices: 198033858--198033966 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 36
198033848 TGGAAATTAT
* *
198033858 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGC-A--AGCTAA
*
198033898 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGCTAA
198033935 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCAA
198033967 ATCGTGATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
37 33 0.52
38 2 0.03
39 4 0.06
40 25 0.39
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (36 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGCTAA
Found at i:198033977 original size:77 final size:81
Alignment explanation
Indices: 198033814--198033996 Score: 205
Period size: 77 Copynumber: 2.3 Consensus size: 81
198033804 AGAAATTGAA
* * * * * *
198033814 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTACGCTGCAAATTAAATCCGGGCTAAGACCCGAAGG
* *
198033879 CAATTGTGCTAGTAGC
66 CAATTGTGCAAATAGC
*
198033895 T-ATATCCGGGCTAAGACCCGAAGGC-ATT-CG-TGCAAGTTAAATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTACGCTGCAAATTAAATCCGGGCTAAGACCCGAAGG
* *
198033956 CATTTGTGCAAATCG-
66 CAATTGTGCAAATAGC
* * *
198033971 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
198033997 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
76 1 0.01
77 59 0.68
78 1 0.01
79 3 0.03
80 22 0.25
81 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (81 bp):
TGATATCCGGGCTAAGACCCGAAGGCAATTACGCTGCAAATTAAATCCGGGCTAAGACCCGAAGG
CAATTGTGCAAATAGC
Found at i:198037014 original size:66 final size:68
Alignment explanation
Indices: 198036938--198037124 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
198036928 TAGTACCACT
*
198036938 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
198037000 CACG
65 CACG
198037004 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
198037069 ATCACG
63 ATCACG
198037075 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
198037125 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:198037049 original size:71 final size:71
Alignment explanation
Indices: 198036961--198037124 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
198036951 CGATTTGTCT
198036961 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
198037026 CTTTCA
66 CTTTCA
198037032 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
198037097 CTTTCA
66 CTTTCA
198037103 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
198037125 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:198037162 original size:71 final size:70
Alignment explanation
Indices: 198036961--198037158 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
198036951 CGATTTGTCT
* * *
198036961 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
198037026 CTTTCA
65 CTTTCA
* * *
198037032 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
198037097 CTTTCA
65 CTTTCA
* *
198037103 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
198037159 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:198044581 original size:66 final size:68
Alignment explanation
Indices: 198044505--198044691 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
198044495 TAGTACCACT
*
198044505 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
198044567 CACG
65 CACG
198044571 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
198044636 ATCACG
63 ATCACG
198044642 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
198044692 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:198044616 original size:71 final size:71
Alignment explanation
Indices: 198044528--198044691 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
198044518 CGATTTGTCT
198044528 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
198044593 CTTTCA
66 CTTTCA
198044599 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
198044664 CTTTCA
66 CTTTCA
198044670 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
198044692 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:198044729 original size:71 final size:70
Alignment explanation
Indices: 198044528--198044725 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
198044518 CGATTTGTCT
* * *
198044528 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
198044593 CTTTCA
65 CTTTCA
* * *
198044599 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
198044664 CTTTCA
65 CTTTCA
* *
198044670 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
198044726 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:198055182 original size:40 final size:39
Alignment explanation
Indices: 198055064--198055189 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
198055054 TTCGAATGAT
*
198055064 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-AAGT-ACTAA
* * * *
198055104 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
*
198055144 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
*
198055184 TTCCGG
1 ATCCGG
198055190 GTTGAGTCCC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 65 0.92
41 6 0.08
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAGTACTAA
Found at i:198055242 original size:80 final size:80
Alignment explanation
Indices: 198055064--198055251 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
198055054 TTCGAATGAT
* *
198055064 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
198055129 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * ** *
198055144 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAATTCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
198055205 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
198055225 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
198055252 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:198069934 original size:47 final size:48
Alignment explanation
Indices: 198069876--198070113 Score: 358
Period size: 47 Copynumber: 4.9 Consensus size: 48
198069866 TGCAAGACCA
198069876 TATGGCA-TATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
* *
198069923 TATGG-ACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
198069970 TATGGCACTATGTGTGCGATTC-CTATGGCACTATGTGTGCGATTCGTGTAC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTC----AC
198070021 TATGGCACTATGTGTGCGATTTCACTATGGCACTATGTGTGCGATT-AC
1 TATGGCACTATGTGTGCGA-TTCACTATGGCACTATGTGTGCGATTCAC
** *
198070069 TATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATT
198070114 TGGCTATAGT
Statistics
Matches: 176, Mismatches: 7, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
46 1 0.01
47 93 0.53
48 36 0.20
51 21 0.12
52 3 0.02
53 22 0.12
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCAC
Found at i:198070115 original size:24 final size:24
Alignment explanation
Indices: 198069876--198070114 Score: 360
Period size: 24 Copynumber: 9.9 Consensus size: 24
198069866 TGCAAGACCA
*
198069876 TATGGCA-TATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
198069899 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
198069923 TATGG-ACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
198069946 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
198069970 TATGGCACTATGTGTGCGA-TTCC
1 TATGGCACTATGTGTGCGATTTAC
198069993 TATGGCACTATGTGTGCGATTCGTGTAC
1 TATGGCACTATGTGTGCGA-T--T-TAC
198070021 TATGGCACTATGTGTGCGATTTCAC
1 TATGGCACTATGTGTGCGATTT-AC
198070046 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
*
198070069 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
*
198070093 TATAGCACTATGTGTGCGATTT
1 TATGGCACTATGTGTGCGATTT
198070115 GGCTATAGTC
Statistics
Matches: 202, Mismatches: 5, Indels: 17
0.90 0.02 0.08
Matches are distributed among these distances:
23 72 0.36
24 85 0.42
25 22 0.11
27 2 0.01
28 21 0.10
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:198078078 original size:24 final size:24
Alignment explanation
Indices: 198077834--198078076 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
198077824 GCAAAGACCA
*
198077834 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
198077858 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
198077882 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
198077906 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
198077930 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
198077954 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
198077978 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
198078002 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
198078026 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
198078050 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
198078074 TAT
1 TAT
198078077 AGTCACATTC
Statistics
Matches: 212, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 212 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:198082621 original size:28 final size:28
Alignment explanation
Indices: 198082581--198082640 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
198082571 CTGTTATAGT
*
198082581 TACTGAAATGGGCTAAGGCCC-ACACTGA
1 TACTAAAATGGGCTAAGGCCCTA-ACTGA
**
198082609 TACTAAAATGGGCTGTGGCCCTAACTGA
1 TACTAAAATGGGCTAAGGCCCTAACTGA
198082637 TACT
1 TACT
198082641 GGACTGTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
TACTAAAATGGGCTAAGGCCCTAACTGA
Found at i:198085607 original size:40 final size:41
Alignment explanation
Indices: 198085541--198085636 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
198085531 TGACTATGTT
*
198085541 TGGCACTAAGTGTGCGGTTCAAAATAGCTTTGGCTACA-AA
1 TGGCACTAAGTGTGCGGTTCAAAATAGCTTCGGCTACATAA
* ** * *
198085581 TGGCACTAAGTGTGTGAGTT-GGAATAGCTTCGGCTATATGA
1 TGGCACTAAGTGTGCG-GTTCAAAATAGCTTCGGCTACATAA
198085622 -GGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
198085637 ATACCAAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 43 0.91
41 4 0.09
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGGTTCAAAATAGCTTCGGCTACATAA
Found at i:198087523 original size:2 final size:2
Alignment explanation
Indices: 198087516--198087548 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
198087506 GAGACTAGTC
198087516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
198087549 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:198089525 original size:30 final size:30
Alignment explanation
Indices: 198089491--198089551 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
198089481 TCCTTAACTC
198089491 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
198089521 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
198089551 A
1 A
198089552 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:198094441 original size:17 final size:18
Alignment explanation
Indices: 198094399--198094447 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
198094389 AGTTGAAAAG
198094399 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
198094418 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
198094435 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
198094448 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:198095327 original size:40 final size:39
Alignment explanation
Indices: 198095261--198095410 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 39
198095251 AAATTGAATG
* * *
198095261 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
198095300 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
198095339 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* *
198095379 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
198095411 ACTGATTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.45
40 46 0.49
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:198103765 original size:29 final size:29
Alignment explanation
Indices: 198103732--198103805 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
198103722 GTGACGAGAT
198103732 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
198103761 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
198103790 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
198103806 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:198103821 original size:29 final size:29
Alignment explanation
Indices: 198103789--198103864 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
198103779 CTGGAAATAT
* *
198103789 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
198103818 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
198103847 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
198103865 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:198103832 original size:58 final size:58
Alignment explanation
Indices: 198103732--198103864 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
198103722 GTGACGAGAT
* * * * * *
198103732 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
198103790 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
198103848 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
198103865 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:198111632 original size:29 final size:29
Alignment explanation
Indices: 198111599--198111672 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
198111589 GTGACGAGAT
198111599 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
198111628 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
198111657 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
198111673 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:198111688 original size:29 final size:29
Alignment explanation
Indices: 198111656--198111731 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
198111646 CTGGAAATAT
* *
198111656 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
198111685 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
198111714 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
198111732 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:198111699 original size:58 final size:58
Alignment explanation
Indices: 198111599--198111731 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
198111589 GTGACGAGAT
* * * * * *
198111599 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
198111657 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
198111715 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
198111732 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:198119997 original size:2 final size:2
Alignment explanation
Indices: 198119990--198120023 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
198119980 ATGTTTCGGT
198119990 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
198120024 AAGTTGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:198138348 original size:28 final size:28
Alignment explanation
Indices: 198138279--198138379 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
198138269 GACAAGATTG
* * * *
198138279 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
198138309 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
198138337 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
198138366 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
198138380 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:198138373 original size:29 final size:28
Alignment explanation
Indices: 198138308--198138379 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
198138298 AAAATTGTAC
*
198138308 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
198138336 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
198138365 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
198138380 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:198146189 original size:28 final size:28
Alignment explanation
Indices: 198146120--198146220 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
198146110 GACAAGATTG
* * * *
198146120 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
198146150 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
198146178 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
198146207 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
198146221 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:198146214 original size:29 final size:28
Alignment explanation
Indices: 198146149--198146220 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
198146139 AAAATTGTAC
*
198146149 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
198146177 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
198146206 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
198146221 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:198150242 original size:17 final size:17
Alignment explanation
Indices: 198150205--198150244 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
198150195 CATTGAAGTG
*
198150205 TTTTATTGAAAACCTTA
1 TTTTATTGAAAACCCTA
*
198150222 TTTTCATTGAAAACCCTT
1 TTTT-ATTGAAAACCCTA
198150240 TTTTA
1 TTTTA
198150245 AAATAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTTATTGAAAACCCTA
Found at i:198155342 original size:40 final size:40
Alignment explanation
Indices: 198155265--198155442 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
198155255 AAACCAAGTA
* * ** *
198155265 CCTTCGGGATTTAG-CCGGATATAGCT-ACTAGTTCAAATT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
198155304 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
198155344 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
198155384 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
198155424 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
198155443 TTATCATCCG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.89
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:198163233 original size:40 final size:39
Alignment explanation
Indices: 198163163--198163297 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 39
198163153 AAACCAAGTA
* * * *
198163163 CCTTCGAGATTTAGCCGGATATAGCT-ACTCGCTCAAATT
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
198163202 CCTTCGGGACTTAGACCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
198163242 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
198163282 CCTTCAGGACTTAGCC
1 CCTTCGGGACTTAGCC
198163298 TGTAACACCC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 15 0.17
40 71 0.83
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:198164716 original size:40 final size:40
Alignment explanation
Indices: 198164668--198164912 Score: 296
Period size: 40 Copynumber: 6.2 Consensus size: 40
198164658 TTCTTCGAAT
* * * *
198164668 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
* * ** * * *
198164707 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
* * *
198164747 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGAC
* *
198164787 TTCGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
*
198164827 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
* *
198164867 GTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
198164907 TTAGCC
1 TTAGCC
198164913 GGGTATCATT
Statistics
Matches: 179, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.02
40 175 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
Found at i:198174163 original size:20 final size:20
Alignment explanation
Indices: 198174138--198174175 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
198174128 GTTTATTCGC
*
198174138 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
198174158 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
198174176 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:198175833 original size:28 final size:28
Alignment explanation
Indices: 198175801--198175869 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
198175791 GCGTAGATCA
198175801 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
198175829 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
198175857 CGATA-TACCCCTA
1 CGAAATTACCCCTA
198175870 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:198177551 original size:33 final size:31
Alignment explanation
Indices: 198177483--198177563 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
198177473 AGAATTAATG
*
198177483 TTTTTGGTTGCATTTTTTATGCTAAATTTGCTA
1 TTTTTGGTTGCA--TTTTATACTAAATTTGCTA
* * *
198177516 TTTTTGGTTGCATTTTATACTATATTTGTTG
1 TTTTTGGTTGCATTTTATACTAAATTTGCTA
* *
198177547 TATTTGGTTGGATTTTA
1 TTTTTGGTTGCATTTTA
198177564 ATGCAGGAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 30 0.71
33 12 0.29
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.59
Consensus pattern (31 bp):
TTTTTGGTTGCATTTTATACTAAATTTGCTA
Found at i:198180976 original size:43 final size:43
Alignment explanation
Indices: 198180929--198181041 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
198180919 GGGAAAAGCA
* * * *
198180929 CCGCTAAAAGCCATGACTTTTAGCGGCACTTTTCCCACAAATG
1 CCGCTAAAAGACGTGACTTTTAGCGGCACTTTTCACACAAACG
* **
198180972 CCGCTAAAAGACGTGACTTTTAGCAGTGCTTTTCACACAAACG
1 CCGCTAAAAGACGTGACTTTTAGCGGCACTTTTCACACAAACG
198181015 CCGCTAAAAGACGTGACTTTTAGCGGC
1 CCGCTAAAAGACGTGACTTTTAGCGGC
198181042 GTTTGTTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
CCGCTAAAAGACGTGACTTTTAGCGGCACTTTTCACACAAACG
Found at i:198181486 original size:44 final size:44
Alignment explanation
Indices: 198181435--198181522 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
198181425 CTATGCCTTT
*
198181435 GATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGGTATCTTC
1 GATCTGCTCTCCGACAATACAGAGATGCCAAATCTGGTATCTTC
** *
198181479 GATCTGCTCTTTGACAATACAGAGATGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGACAATACAGAGATGCCAAATCTGGTATCTTC
198181523 AACTTGTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
GATCTGCTCTCCGACAATACAGAGATGCCAAATCTGGTATCTTC
Found at i:198181550 original size:44 final size:44
Alignment explanation
Indices: 198181453--198182041 Score: 382
Period size: 44 Copynumber: 13.4 Consensus size: 44
198181443 CTCCGCCAAT
* * * * * *
198181453 ACAGAGATGCCAAATCTGGTATCTTCGATCTG--CTCTTTGACAAT
1 ACAGGGATGCCAAATCTGTTATCTTCAATCTGTTCCCTAT-A-AAC
*
198181497 ACAGAGATGCCAAATCTGTTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGTTATCTTCAATC-TGTTCCCTATAAAC
** * * * * *
198181541 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAAC
* ** * * *
198181585 ACA-AGAGTGTTAGATCTGTTATCTTCGATCTATTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGTTATCTTCAATCTGTTCCCTATAAAC
*
198181629 ACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGTTATCTTCAATC-TGTTCCCTATAAAC
* ** * * * * *
198181673 ATAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAAC
* * *
198181717 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGTTATCTTCAATCTGTTCCCTATAAAC
*
198181761 ACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGTTATCTTCAATC-TGTTCCCTATAAAC
*** * * * *
198181805 ACAGGGATGCC--ATGCTAAAATCTTTAATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAAC
* * * * *
198181849 ACAGGAATGTCAGATTTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGTTATCTTCAATCTGTTCCCTATAAAC
*
198181893 ACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGTTATCTTCAATC-TGTTCCCTATAAAC
** ** ** * *
198181937 ACAGGGATGCC--ATGCTGAAATCTTTGATCTGCTTTACTGTAAGC
1 ACAGGGATGCCAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAAC
* * * * * *
198181981 ACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGTTATCTTCAATCTGTTCCCTATAAAC
198182025 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
198182042 TATTTCTTTG
Statistics
Matches: 419, Mismatches: 96, Indels: 60
0.73 0.17 0.10
Matches are distributed among these distances:
42 8 0.02
43 53 0.13
44 288 0.69
45 58 0.14
46 12 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGTTATCTTCAATCTGTTCCCTATAAAC
Found at i:198181703 original size:132 final size:132
Alignment explanation
Indices: 198181497--198182041 Score: 919
Period size: 132 Copynumber: 4.1 Consensus size: 132
198181487 CTTTGACAAT
* *
198181497 ACAGAGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* * *
198181562 CCTCGATCTGCTTCGCTGTAAGCACAAGAGTGTTAGATCTGTTATCTTCGATCTATTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
198181627 AC
131 AC
*
198181629 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* *
198181694 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
198181759 AC
131 AC
*
198181761 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* ** * *
198181826 CTTTAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATTTGTTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
198181891 AC
131 AC
198181893 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* * ** *
198181958 CTTTGATCTGCTTTACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
198182023 AC
131 AC
198182025 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
198182042 TATTTCTTTG
Statistics
Matches: 393, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 393 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
CCTCGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
AC
Found at i:198182959 original size:19 final size:20
Alignment explanation
Indices: 198182937--198182987 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
198182927 TCCATTTTTA
198182937 TTTTTTCTCTTTTTATTAT-
1 TTTTTTCTCTTTTTATTATC
* *
198182956 TTTTTT-TCTTTTTCTTTTC
1 TTTTTTCTCTTTTTATTATC
198182975 TTTTTTC-CTTTTT
1 TTTTTTCTCTTTTT
198182988 TTTGAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTCTCTTTTTATTATC
Found at i:198182978 original size:18 final size:18
Alignment explanation
Indices: 198182934--198182987 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
198182924 CTCTCCATTT
*
198182934 TTATTTTTTCTCTTTTTA
1 TTATTTTTTTTCTTTTTA
*
198182952 TTATTTTTTTTCTTTTTC
1 TTATTTTTTTTCTTTTTA
198182970 TT-TTCTTTTTTCCTTTTT
1 TTATT-TTTTTT-CTTTTT
198182988 TTTGAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 2 0.06
18 24 0.75
19 6 0.19
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (18 bp):
TTATTTTTTTTCTTTTTA
Found at i:198186466 original size:24 final size:24
Alignment explanation
Indices: 198186434--198186494 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
198186424 AAAATCCAAT
* * *
198186434 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
198186458 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
198186482 GCACTATGTGTGC
1 GCACTATGTGTGC
198186495 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:198191077 original size:29 final size:27
Alignment explanation
Indices: 198191043--198191145 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
198191033 TACTCAATCA
*
198191043 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
198191072 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
198191101 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
198191130 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
198191146 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:198199073 original size:29 final size:29
Alignment explanation
Indices: 198199033--198199106 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
198199023 GATTCAAGCC
* * *
198199033 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACAGTACAAACT
* * *
198199062 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACAGTACAAACT
*
198199091 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
198199107 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACAGTACAAACT
Found at i:198202046 original size:25 final size:25
Alignment explanation
Indices: 198202018--198202066 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
198202008 ATATATATCA
198202018 TAAA-ATAGCACATAAAAGAAATAAT
1 TAAACATAGCACATAAAA-AAATAAT
*
198202043 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCACATAAAAAAATAA
198202067 ACTATGCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAACATAGCACATAAAAAAATAAT
Found at i:198202565 original size:22 final size:21
Alignment explanation
Indices: 198202535--198202600 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
198202525 TACAAATTAA
198202535 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
198202557 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
198202578 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
198202597 ATCT
1 ATCT
198202601 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:198202587 original size:19 final size:19
Alignment explanation
Indices: 198202552--198202649 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
198202542 AGATTACAAG
198202552 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
198202573 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
198202592 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
198202609 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
198202628 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
198202647 ATC
1 ATC
198202650 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:198202616 original size:36 final size:37
Alignment explanation
Indices: 198202552--198202649 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
198202542 AGATTACAAG
198202552 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
198202592 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
198202628 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
198202650 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:198203976 original size:39 final size:39
Alignment explanation
Indices: 198203913--198203987 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
198203903 AATCGAGACT
* *
198203913 TAGCCTGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
*
198203952 TAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
1 TAGCCCGGATATAGTAACTAGCACAAATGCCTTCGG
198203988 ATCTTAGTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (39 bp):
TAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:198205864 original size:51 final size:51
Alignment explanation
Indices: 198205747--198205882 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
198205737 CTACCACCAA
* * *
198205747 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
198205798 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
198205849 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
198205883 CATGTTTCTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:198208685 original size:51 final size:51
Alignment explanation
Indices: 198208568--198208703 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
198208558 CTACCACCAA
* * *
198208568 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
198208619 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
198208670 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
198208704 CATGTTTCTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:198215350 original size:40 final size:40
Alignment explanation
Indices: 198215281--198215402 Score: 192
Period size: 40 Copynumber: 3.1 Consensus size: 40
198215271 AACCCAAGTA
* **
198215281 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
198215320 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
198215360 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
198215400 CCT
1 CCT
198215403 CCGGATCTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.17
40 64 0.83
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:198218701 original size:53 final size:54
Alignment explanation
Indices: 198218615--198218819 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 54
198218605 TTTCCTTTTT
* * * * *
198218615 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCTTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATA
* * * * *
198218668 GAACTCACCAATGGCATGCCTTGGCATGGTCTTACACGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATA
* * * * * *
198218722 GTAACTCATCAATGCCATGTCTTGACATGATCTTACATGAT-TTTCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCT-TTGCCTTATA
* * * *
198218777 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
198218820 CTTATCTTAC
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
53 43 0.35
54 37 0.30
55 42 0.34
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATA
Done.