Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 12 of 163
Found at i:3445132 original size:39 final size:38
Alignment explanation
Indices: 3445072--3445295 Score: 153
Period size: 39 Copynumber: 5.8 Consensus size: 38
3445062 AATGACTACA
* * *
3445072 ATCTGCCCTAAGCTCGGGGTAAGAGATTGGCTGATAGTG
1 ATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGAT-GTG
* * * ** ** *
3445111 ATCTGCCTCAGGCTTGAGGTAAGAAACCGAATGGT-TG
1 ATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGATGTG
* *
3445148 CAATCTGCCCCAAGCTCGAGGTAAGAGATTTGCTGATGATG
1 --ATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGATG-TG
* * * * * *
3445189 ATCTGCCCCAAGCTTGGGGTAAGAGATCGAACAGCTGTA
1 ATCTGCCCCAAGCTTGAGGTAAGAGATTG-GCTGATGTG
* * * * *
3445228 ATCTACCCCAAGCTCGGGGTAAGAAATTGGTTGATGGTG
1 ATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGAT-GTG
* *
3445267 ATCTGCCCCAAGCTCGAGGTAAAAGATTG
1 ATCTGCCCCAAGCTTGAGGTAAGAGATTG
3445296 AATAACTATA
Statistics
Matches: 137, Mismatches: 42, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 127 0.93
40 4 0.03
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (38 bp):
ATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGATGTG
Found at i:3445175 original size:78 final size:78
Alignment explanation
Indices: 3444996--3445344 Score: 328
Period size: 78 Copynumber: 4.5 Consensus size: 78
3444986 AATGATAGCC
* * * * ** * *
3444996 ATCTGCCCCATGATC-GGGTAAGAGATTGGTTGATGATGATCTACCTTAGGCTCGAGGTAA-AAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGAGGTAAGAAA
* *
3445059 TCGAATGACTACA
66 TCGAATGGCTGCA
* * * *
3445072 ATCTGCCCTAAGCTCGGGGTAAGAGATTGGCTGAT-AGTGATCTGCCTCAGGCTTGAGGTAAGAA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGA-TGATCTGCCCCAAGCTCGAGGTAAGAA
* *
3445136 ACCGAATGGTTGCA
65 ATCGAATGGCTGCA
* * * * *
3445150 ATCTGCCCCAAGCTCGAGGTAAGAGATTTGCTGATGATGATCTGCCCCAAGCTTGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGAGGTAAGAAA
** *
3445215 TCGAACAGCTGTA
66 TCGAATGGCTGCA
* * * *
3445228 ATCTACCCCAAGCTCGGGGTAAGAAATTGGTTGATGGTGATCTGCCCCAAGCTCGAGGTAA-AAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGAGGTAAGAA-
* ** **
3445292 ATTGAATAACTATA
65 ATCGAATGGCTGCA
* **
3445306 ATTTGCCCCAAGCTCGGGGTAAGAGATTGATTGATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGATG
3445345 TAACTTCACT
Statistics
Matches: 226, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
76 13 0.06
77 40 0.18
78 172 0.76
79 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGAGGTAAGAAA
TCGAATGGCTGCA
Found at i:3445695 original size:49 final size:50
Alignment explanation
Indices: 3445639--3446795 Score: 556
Period size: 49 Copynumber: 23.7 Consensus size: 50
3445629 TACTAGATTT
* * *
3445639 ACCGTTGCGGCTTAAATCTTTTCCTTCATGCTTC-CGGGGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
* * * * *
3445688 ACTGTTGCGACTTAAACCTTTCCCTCCATG-TCCTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGG-TTC
* * * * * * *
3445737 GCCGTTGCAGCTTAAATCTTTCCCTTCATGC-TCTTGAGGTGCAAGGTTT
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
* * * * * *
3445786 ATCGTTGCGACTTAAACCTTTCCCTCCAT--ATCTTCGTGGTACTAGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGGTTC
* * *
3445835 ACCATTGCGGCTTAAATCTTTCCCATCTCAT-CTT-TTGAGGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCC-TC-CATGCTTCTCGTGGTACAAGGTTC
* * * * * *
3445885 GCCGTTGTGACTTAAACCTTTCCCTCCCTG--TCTTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGG-TTC
* * * *
3445934 ACCGTTGTGGC------C---CCATCTCAT-CTT-TTGAGGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCCTC-CATGCTTCTCGTGGTACAAGGTTC
* * * *
3445974 GCCGTTGCGACTTAAACCTTTCCCTCCATGTCTT-T-GTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATG-CTTCTCGTGGTACAAGG-TTC
* *
3446023 GCCGTTGCGGCTTAAATCTTTCCCATCTCAT-CTTCT-GAGGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCC-TC-CATGCTTCTCGTGGTACAAGGTTC
* * * * *
3446073 ACTGTTGTGACTTAAACCTTTCCCTCCATG--TCTTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGG-TTC
* ** *
3446122 GCCGTTGCGGCTTAAATCTTTCCCTTAATG--TCTTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGG-TTC
* * *
3446171 ACCATTGCGGCTTAAATCTTTCCCATCTCAT-CTTCT-GAGGTACAAGTTTC
1 ACCGTTGCGGCTTAAATCTTTCCC-TC-CATGCTTCTCGTGGTACAAGGTTC
* * *
3446221 GCCGTTGCGGCTTAAACCTTTCCCTCCATG--TCTTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGG-TTC
* * * * * *** *
3446270 GCCATTGCGGCTTAAATCTTTCCATTCATG-TTTTTAAGGTACAAGGTTT
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
* * * * *
3446319 ATCTTTGCGACTTAAACCTTTCCCTCCATG--TCTTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGG-TTC
** * * * ***
3446368 GTCGTTGTGGCTTAAATCTTTCCCTTCATGTTTCT-AACGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
* * * * * * * *
3446417 GCCGTTGCGACTTAAACCTTTCCCTCTAT--ATCTTCGTGGCACTAGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGGTTC
* ** * * * *
3446466 GCCGTTATGGCTTAAATCTTTCCCTTCATACTTCT-GAGGTATAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
* * * * *
3446515 GCCGTTGCGACTTAAACCTTTCCCTCCAT--ATCTTCGTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGG-TTC
** * * *
3446564 GTCATTGTGGCTTAAATCTTTCCCATCTCAT-CTTCT-GAGGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCC-TC-CATGCTTCTCGTGGTACAAGGTTC
* * * *
3446614 ACCGTTGCGACTTAAACCTTTCCCTCCATATCTT-T-GTGGTAC-TGGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCAT-GCTTCTCGTGGTACAAGG-TTC
** * *
3446663 GTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCT-GAGGTACAAGGTTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
* ** * * * *
3446712 GCCGTTGCAACTTAAACCTTTCCCTCCAT--ATCTTCGTGGTACTAGATTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTC-TCGTGGTACAAGGTTC
* ** *
3446761 GCCGTTGTAGCTTAAATCTTTCCCTTCATGTCTTC
1 ACCGTTGCGGCTTAAATCTTTCCCTCCATG-CTTC
3446796 ATGGTAATGA
Statistics
Matches: 835, Mismatches: 199, Indels: 145
0.71 0.17 0.12
Matches are distributed among these distances:
40 22 0.03
41 4 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 11 0.01
48 42 0.05
49 582 0.70
50 142 0.17
51 22 0.03
52 7 0.01
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.37
Consensus pattern (50 bp):
ACCGTTGCGGCTTAAATCTTTCCCTCCATGCTTCTCGTGGTACAAGGTTC
Found at i:3445919 original size:99 final size:99
Alignment explanation
Indices: 3445604--3446145 Score: 689
Period size: 99 Copynumber: 5.6 Consensus size: 99
3445594 TTACGGTTGC
* * * * * *
3445604 AACCTTTCCCTCTATATCTTCTTGGTACTAGATTTACCGTTGCGGCTTAAATCTTTTCC-T-TCA
1 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
** * *
3445667 TGCTTCCGGGGTACAAGGTTCACTGTTGCGACTTA
66 T-CTTTTGAGGTACAAGGTTCACCGTTGCGACTTA
* * *
3445702 AACCTTTCCCTCCATGTCCTCGTGGTACTGGATTCGCCGTTGCAGCTTAAATCTTTCCC-T-TCA
1 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
* * * *
3445765 TGCTCTTGAGGTGCAAGGTTTATCGTTGCGACTTA
66 T-CTTTTGAGGTACAAGGTTCACCGTTGCGACTTA
* * *
3445800 AACCTTTCCCTCCATATCTTCGTGGTACTAGATTCACCATTGCGGCTTAAATCTTTCCCATCTCA
1 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
* *
3445865 TCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTA
66 TCTTTTGAGGTACAAGGTTCACCGTTGCGACTTA
* *
3445899 AACCTTTCCCTCCCTGTCTTCGTGGTACTGGATTCACCGTTGTGG-------C---CCCATCTCA
1 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
*
3445954 TCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTA
66 TCTTTTGAGGTACAAGGTTCACCGTTGCGACTTA
* *
3445988 AACCTTTCCCTCCATGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCA
1 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
* * *
3446053 TCTTCTGAGGTACAAGGTTCACTGTTGTGACTTA
66 TCTTTTGAGGTACAAGGTTCACCGTTGCGACTTA
*
3446087 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCC
1 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCC
3446146 TTAATGTCTT
Statistics
Matches: 388, Mismatches: 44, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
89 83 0.21
92 1 0.00
96 1 0.00
98 134 0.35
99 165 0.43
100 4 0.01
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (99 bp):
AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
TCTTTTGAGGTACAAGGTTCACCGTTGCGACTTA
Found at i:3446007 original size:89 final size:91
Alignment explanation
Indices: 3445855--3446131 Score: 396
Period size: 89 Copynumber: 3.0 Consensus size: 91
3445845 CTTAAATCTT
*
3445855 TCCCATCTCATCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCCTGTCTTC
1 TCCCATCTCATCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCATGTCTTC
* *
3445920 GTGGTACTGGATTCACCGTTGTGG-C
66 GTGGTACTGGATTCGCCGTTGCGGAC
* *
3445945 -CCCATCTCATCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATGTCTTT
1 TCCCATCTCATCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCATGTCTTC
3446009 GTGGTACTGGATTCGCCGTTGCGGCTTAAATC
66 GTGGTACTGGATTCGCCGTTGCGG-----A-C
* * *
3446041 TTTCCCATCTCATCTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCT
1 --TCCCATCTCATCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCATGTCT
3446106 TCGTGGTACTGGATTCGCCGTTGCGG
64 TCGTGGTACTGGATTCGCCGTTGCGG
3446132 CTTAAATCTT
Statistics
Matches: 167, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
89 83 0.50
96 1 0.01
99 83 0.50
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (91 bp):
TCCCATCTCATCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCATGTCTTC
GTGGTACTGGATTCGCCGTTGCGGAC
Found at i:3446015 original size:188 final size:190
Alignment explanation
Indices: 3445604--3446129 Score: 695
Period size: 188 Copynumber: 2.7 Consensus size: 190
3445594 TTACGGTTGC
* * *
3445604 AACCTTTCCCTCTATATCTTCT-TGGTACTAGATTTACCGTTGCGGCTTAAATCTTTTCC-T-TC
1 AACCTTTCCCTCCATATCTT-TGTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCATCTC
* * * *
3445666 ATGCTTCCGGGGTACAAGGTTCACTGTTGCGACTTAAACCTTTCCCTCCATGTCCTCGTGGTACT
65 AT-CTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACT
* * * *
3445731 GGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCATGCTCTTGAGGTGCAAGGTTTATCGTTGCGA
129 GGATTCGCCGTTGCAGC----A-C--TCCATTCATGCTCTTGAGGTACAAGGTTCACCGTTGCGA
3445796 CTTA
187 CTTA
* *
3445800 AACCTTTCCCTCCATATCTTCGTGGTACTAGATTCACCATTGCGGCTTAAATCTTTCCCATCTCA
1 AACCTTTCCCTCCATATCTTTGTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
* * * *
3445865 TCTTTTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCCCTGTCTTCGTGGTACTGG
66 TCTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
* ** * *
3445930 ATTCACCGTTGTGGC-C-CCATCTCAT-CTTTTGAGGTACAAGGTTCGCCGTTGCGACTTA
131 ATTCGCCGTTGCAGCACTCCAT-TCATGCTCTTGAGGTACAAGGTTCACCGTTGCGACTTA
* * *
3445988 AACCTTTCCCTCCATGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCA
1 AACCTTTCCCTCCATATCTTTGTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
3446053 TCTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
66 TCTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
3446118 ATTCGCCGTTGC
131 ATTCGCCGTTGC
3446130 GGCTTAAATC
Statistics
Matches: 293, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
188 162 0.55
189 4 0.01
191 1 0.00
196 53 0.18
197 69 0.24
198 4 0.01
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (190 bp):
AACCTTTCCCTCCATATCTTTGTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCATCTCA
TCTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
ATTCGCCGTTGCAGCACTCCATTCATGCTCTTGAGGTACAAGGTTCACCGTTGCGACTTA
Found at i:3446156 original size:99 final size:99
Alignment explanation
Indices: 3445954--3446255 Score: 355
Period size: 99 Copynumber: 3.1 Consensus size: 99
3445944 CCCCATCTCA
* * *
3445954 TCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATGTCTTTGTGGTACTGG
1 TCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
3446019 ATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCA--
66 ATTCGCCGTTGCGGCTTAAATCTTTCCC-T-TCATG
* *
3446053 TCTTCTGAGGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
1 TCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
*
3446118 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTAATG
66 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
* * * * * *
3446152 TCTTC-GTGGTAC-TGGATTCACCATTGCGGCTTAAATCTTTCCCATCTCA--TCTTCTGAGGTA
1 TCTTCTGAGGTACAAGG-TTCACCGTTGCGACTTAAACCTTTCCC-TC-CATGTCTTC-GTGGTA
** * * *
3446213 CAAGTTTCGCCGTTGCGGCTTAAACCTTTCCCTCCATG
62 CTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
3446251 TCTTC
1 TCTTC
3446256 GTGGTACTGG
Statistics
Matches: 177, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
97 4 0.02
98 34 0.19
99 137 0.77
100 2 0.01
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (99 bp):
TCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGG
ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG
Found at i:3446358 original size:98 final size:98
Alignment explanation
Indices: 3445971--3446795 Score: 948
Period size: 98 Copynumber: 8.4 Consensus size: 98
3445961 AGGTACAAGG
* * * * * * *
3445971 TTCGCCGTTGCGACTTAAACCTTTCCCTCCATGTCTT-TGTGGTAC-TGGATTCGCCGTTGCGGC
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGG-TTCGCCGTTGCGAC
* * *
3446034 TTAAATCTTTCCCAT-C-TCATCTTCTGAGGTACAAGG-
64 TTAAACCTTTCCC-TCCAT-ATCTTC-GTGGTAC-TGGA
* * * * * * * *
3446070 TTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTC-GTGGTAC-TGGATTCGCCGTTGCGGC
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGG-TTCGCCGTTGCGAC
* ** *
3446133 TTAAATCTTTCCCTTAATGTCTTCGTGGTACTGGA
64 TTAAACCTTTCCCTCCATATCTTCGTGGTACTGGA
* * * * *
3446168 TTCACCATTGCGGCTTAAATCTTTCCCATCTCAT-CTTCTGAGGTACAAGTTTCGCCGTTGCGGC
1 TTCGCCGTTGTGGCTTAAATCTTTCCC-T-TCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGAC
*
3446232 TTAAACCTTTCCCTCCATGTCTTCGTGGTACTGGA
64 TTAAACCTTTCCCTCCATATCTTCGTGGTACTGGA
* * * * * * *** *
3446267 TTCGCCATTGCGGCTTAAATCTTTCCATTCATGTTTTTAAGGTACAAGGTTTATCTTTGCGACTT
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTT
*
3446332 AAACCTTTCCCTCCATGTCTTCGTGGTACTGGA
66 AAACCTTTCCCTCCATATCTTCGTGGTACTGGA
* * * *
3446365 TTCGTCGTTGTGGCTTAAATCTTTCCCTTCATGTTTCTAACGTACAAGGTTCGCCGTTGCGACTT
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTT
* * *
3446430 AAACCTTTCCCTCTATATCTTCGTGGCACTAGA
66 AAACCTTTCCCTCCATATCTTCGTGGTACTGGA
* * *
3446463 TTCGCCGTTATGGCTTAAATCTTTCCCTTCATACTTCTGAGGTATAAGGTTCGCCGTTGCGACTT
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTT
3446528 AAACCTTTCCCTCCATATCTTCGTGGTACTGGA
66 AAACCTTTCCCTCCATATCTTCGTGGTACTGGA
* * *
3446561 TTCGTCATTGTGGCTTAAATCTTTCCCATCTCAT-CTTCTGAGGTACAAGGTTCACCGTTGCGAC
1 TTCGCCGTTGTGGCTTAAATCTTTCCC-T-TCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGAC
*
3446625 TTAAACCTTTCCCTCCATATCTTTGTGGTACTGGA
64 TTAAACCTTTCCCTCCATATCTTCGTGGTACTGGA
* * *
3446660 TTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCAACTT
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTT
*
3446725 AAACCTTTCCCTCCATATCTTCGTGGTACTAGA
66 AAACCTTTCCCTCCATATCTTCGTGGTACTGGA
*
3446758 TTCGCCGTTGTAGCTTAAATCTTTCCCTTCATGTCTTC
1 TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATG-CTTC
3446796 ATGGTAATGA
Statistics
Matches: 644, Mismatches: 69, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
97 10 0.02
98 378 0.59
99 247 0.38
100 9 0.01
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (98 bp):
TTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTT
AAACCTTTCCCTCCATATCTTCGTGGTACTGGA
Found at i:3446801 original size:49 final size:49
Alignment explanation
Indices: 3445962--3446801 Score: 678
Period size: 49 Copynumber: 17.1 Consensus size: 49
3445952 CATCTTTTGA
* * * * * *
3445962 GGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATGTCTTTGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* *
3446011 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCA--TCTTCTGA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCC-T-TCATGTCTTC-GT
* * * * * * * *
3446061 GGTACAAGGTTCACTGTTGTGACTTAAACCTTTCCCTCCATGTCTTCGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* *
3446110 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTAATGTCTTCGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * *
3446159 GGTACTGGATTCACCATTGCGGCTTAAATCTTTCCCATCTCA--TCTTCTGA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCC-T-TCATGTCTTC-GT
* * * *
3446209 GGTACAAGTTTCGCCGTTGCGGCTTAAACCTTTCCCTCCATGTCTTCGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * * ***
3446258 GGTACTGGATTCGCCATTGCGGCTTAAATCTTTCCATTCATGTTTTTAA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * *** * * * *
3446307 GGTACAAGGTTTATCTTTGCGACTTAAACCTTTCCCTCCATGTCTTCGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * *
3446356 GGTACTGGATTCGTCGTTGTGGCTTAAATCTTTCCCTTCATGT-TTC-T
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * * * *
3446403 AACGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCC-TCTATATCTTCGT
1 --GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTC-ATGTCTTCGT
* ** * *
3446454 GGCACTAGATTCGCCGTTATGGCTTAAATCTTTCCCTTCAT-ACTTCTGA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTC-GT
* * * * *
3446503 GGTA-TAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTTCGT
1 GGTACT-AGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * * * *
3446552 GGTACTGGATTCGTCATTGTGGCTTAAATCTTTCCCATCTCA--TCTTCTGA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCC-T-TCATGTCTTC-GT
* * * * * * * *
3446602 GGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTTTGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
* * *
3446651 GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATG-CTTCTGA
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTC-GT
* * ** * * *
3446700 GGTACAAGGTTCGCCGTTGCAACTTAAACCTTTCCCTCCATATCTTCGT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
** *
3446749 GGTACTAGATTCGCCGTTGTAGCTTAAATCTTTCCCTTCATGTCTTCAT
1 GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
3446798 GGTA
1 GGTA
3446802 ATGAAACCTA
Statistics
Matches: 610, Mismatches: 154, Indels: 54
0.75 0.19 0.07
Matches are distributed among these distances:
47 1 0.00
48 19 0.03
49 464 0.76
50 119 0.20
51 7 0.01
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (49 bp):
GGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGT
Found at i:3452791 original size:30 final size:29
Alignment explanation
Indices: 3452757--3452932 Score: 182
Period size: 30 Copynumber: 6.0 Consensus size: 29
3452747 AGGAATCTTT
*
3452757 GGAAGTTCATGGGTAAAATGGTAATTTTTA
1 GGAAGTTC-GGGGTAAAATGGTAATTTTTA
3452787 GGAAGTTCGGGGTCAAAATGG-AATTTTT-
1 GGAAGTTCGGGGT-AAAATGGTAATTTTTA
* *
3452815 GGAAGTCTAGAGGTAAAATGGTAATTTTTA
1 GGAAGT-TCGGGGTAAAATGGTAATTTTTA
*
3452845 GAAAGTTCGGGGTCAAAAATGG-AATTTTT-
1 GGAAGTTCGGGGT--AAAATGGTAATTTTTA
*
3452874 GGAAGTTTAGGGGTAAAATGGTAATTTTTA
1 GGAAG-TTCGGGGTAAAATGGTAATTTTTA
* *
3452904 GAAAGTTTGGGGTTAAAAATGG-AATTTTT
1 GGAAGTTCGGGG-T-AAAATGGTAATTTTT
3452933 GAAAGTTTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
28 20 0.16
29 45 0.36
30 46 0.37
31 14 0.11
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
GGAAGTTCGGGGTAAAATGGTAATTTTTA
Found at i:3452893 original size:59 final size:59
Alignment explanation
Indices: 3452737--3452940 Score: 302
Period size: 59 Copynumber: 3.5 Consensus size: 59
3452727 GACATTTTGA
* * * * *
3452737 GGTCAAAAAAAGGAATCTTTGGAAGTTCATGGGTAAAATGGTAATTTTTAGGAAGTTCGG
1 GGTC-AAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGAAAGTTCGG
* *
3452797 GGTC-AAAATGGAATTTTTGGAAGTCTAGAGGTAAAATGGTAATTTTTAGAAAGTTCGG
1 GGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGAAAGTTCGG
*
3452855 GGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGAAAGTTTGG
1 GGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGAAAGTTCGG
* *
3452914 GGTTAAAAATGGAATTTTTGAAAGTTT
1 GGTCAAAAATGGAATTTTTGGAAGTTT
3452941 TTGGAAAAAT
Statistics
Matches: 131, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
58 51 0.39
59 76 0.58
60 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (59 bp):
GGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGAAAGTTCGG
Found at i:3452936 original size:29 final size:29
Alignment explanation
Indices: 3452767--3452940 Score: 180
Period size: 29 Copynumber: 6.0 Consensus size: 29
3452757 GGAAGTTCAT
* *
3452767 GGGTAAAATGGTAATTTTTAGGAAGTTCG
1 GGGTAAAATGGTAATTTTTAGAAAGTTTG
* *
3452796 GGGTCAAAATGG-AATTTTT-GGAAGTCTAG
1 GGGT-AAAATGGTAATTTTTAGAAAGT-TTG
* *
3452825 AGGTAAAATGGTAATTTTTAGAAAGTTCG
1 GGGTAAAATGGTAATTTTTAGAAAGTTTG
*
3452854 GGGTCAAAAATGG-AATTTTT-GGAAGTTTAG
1 GGGT--AAAATGGTAATTTTTAGAAAGTTT-G
3452884 GGGTAAAATGGTAATTTTTAGAAAGTTTG
1 GGGTAAAATGGTAATTTTTAGAAAGTTTG
3452913 GGGTTAAAAATGG-AATTTTT-GAAAGTTT
1 GGG-T-AAAATGGTAATTTTTAGAAAGTTT
3452941 TTGGAAAAAT
Statistics
Matches: 126, Mismatches: 8, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
28 20 0.16
29 53 0.42
30 39 0.31
31 14 0.11
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTAGAAAGTTTG
Found at i:3452979 original size:99 final size:100
Alignment explanation
Indices: 3452854--3453039 Score: 254
Period size: 99 Copynumber: 1.9 Consensus size: 100
3452844 AGAAAGTTCG
* * * *
3452854 GGGTCAAAAATGGAATTTTTGGAAGTT-TAGGGGTAAAATGGTAATTTTTAGAAAGTTT-GGGGT
1 GGGTCAAAAATGGAATTTTTGAAAGTTCAAGGGGTAAAAT-ATAATTTTTACAAAGTTTAGGGGT
3452917 TAAAAATGGAA-TTTTTGAAAGTTTTTGGAAAAATCA
65 T-AAAATGGAATTTTTTGAAAGTTTTTGGAAAAATCA
* *
3452953 GGGTC-AAAATGTAATTTTTGAAAAGTTCAAGGGTTAAAATATAATTTTTACAAAGTTTAGGGGT
1 GGGTCAAAAATGGAATTTTTG-AAAGTTCAAGGGGTAAAATATAATTTTTACAAAGTTTAGGGGT
*
3453017 TAAAATGTAATTTTTTGAAAGTT
65 TAAAATGGAATTTTTTGAAAGTT
3453040 AAATGGTTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
98 14 0.18
99 34 0.45
100 28 0.37
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (100 bp):
GGGTCAAAAATGGAATTTTTGAAAGTTCAAGGGGTAAAATATAATTTTTACAAAGTTTAGGGGTT
AAAATGGAATTTTTTGAAAGTTTTTGGAAAAATCA
Found at i:3452992 original size:30 final size:30
Alignment explanation
Indices: 3452952--3453133 Score: 172
Period size: 30 Copynumber: 6.1 Consensus size: 30
3452942 TGGAAAAATC
* *
3452952 AGGGTCAAAATGTAATTTTTGAAAAGTTCA
1 AGGGTTAAAATGTAATTTTTGAAAAGTTTA
*
3452982 AGGGTTAAAATATAATTTTT-ACAAAGTTTA
1 AGGGTTAAAATGTAATTTTTGA-AAAGTTTA
* *
3453012 GGGGTTAAAATGTAATTTTTTG-AAAGTTAA
1 AGGGTTAAAATGTAA-TTTTTGAAAAGTTTA
* * * *
3453042 ATGGTT-AAATGTGATTTTTGGAAATTTTA
1 AGGGTTAAAATGTAATTTTTGAAAAGTTTA
* * *
3453071 GGGGTTAAAATGTGATTTTTAAAAAGTTTA
1 AGGGTTAAAATGTAATTTTTGAAAAGTTTA
* * * * *
3453101 GGGGTTAAATTGTGATTTTTGGATAGTTTA
1 AGGGTTAAAATGTAATTTTTGAAAAGTTTA
3453131 AGG
1 AGG
3453134 ACCTCCTGGG
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
28 6 0.05
29 18 0.14
30 97 0.77
31 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.41
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTTGAAAAGTTTA
Found at i:3454769 original size:29 final size:28
Alignment explanation
Indices: 3454734--3454846 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
3454724 TACTTTAATA
*
3454734 TTAAATTTAAAATTAAGTTTAAAATC-AT
1 TTAAATTTAAAA-TAAATTTAAAATCAAT
*
3454762 TTCAAATTTAAACTAAATTTAAAA-CAAAT
1 TT-AAATTTAAAATAAATTTAAAATC-AAT
*
3454791 TTAAATTTAAAAATAAATTTAAAACCAAT
1 TTAAATTT-AAAATAAATTTAAAATCAAT
* *
3454820 TTAAACTTAATATAAATTTAAAATCAA
1 TTAAATTTAAAATAAATTTAAAATCAA
3454847 AAGTTTGATC
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.01
28 35 0.47
29 37 0.50
30 1 0.01
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (28 bp):
TTAAATTTAAAATAAATTTAAAATCAAT
Found at i:3454798 original size:57 final size:58
Alignment explanation
Indices: 3454734--3454847 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 58
3454724 TACTTTAATA
* * * *
3454734 TTAAATTTAAAATTAAGTTTAAAATC-ATTTCAAATTTAA-ACTAAATTTAAAA-CAAAT
1 TTAAATTTAAAAATAAATTTAAAACCAATTT-AAACTTAATA-TAAATTTAAAATCAAAT
3454791 TTAAATTTAAAAATAAATTTAAAACCAATTTAAACTTAATATAAATTTAAAATCAAA
1 TTAAATTTAAAAATAAATTTAAAACCAATTTAAACTTAATATAAATTTAAAATCAAA
3454848 AGTTTGATCC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
57 41 0.82
58 9 0.18
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (58 bp):
TTAAATTTAAAAATAAATTTAAAACCAATTTAAACTTAATATAAATTTAAAATCAAAT
Found at i:3454808 original size:18 final size:17
Alignment explanation
Indices: 3454775--3454841 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
3454765 AAATTTAAAC
3454775 TAAATTTAAAACAAATT
1 TAAATTTAAAACAAATT
3454792 TAAATTT--AA-AAA--
1 TAAATTTAAAACAAATT
*
3454804 TAAATTTAAAACCAATT
1 TAAATTTAAAACAAATT
* * *
3454821 TAAACTTAATATAAATT
1 TAAATTTAAAACAAATT
3454838 TAAA
1 TAAA
3454842 ATCAAAAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.17
14 5 0.12
15 4 0.10
17 24 0.60
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTTAAAACAAATT
Found at i:3458138 original size:19 final size:19
Alignment explanation
Indices: 3458109--3458176 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
3458099 TCATGTTAAC
3458109 AAATAATTTAAAAATTATAA
1 AAAT-ATTTAAAAATTATAA
3458129 AAATATTT-AAAA--ATAA
1 AAATATTTAAAAATTATAA
*
3458145 AAAT-TTCATAAAATATATAA
1 AAATATTTA-AAAAT-TATAA
*
3458165 AAATAATTAAAA
1 AAATATTTAAAA
3458177 GTGGCATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
15 2 0.05
16 8 0.21
17 4 0.10
18 4 0.10
19 4 0.10
20 15 0.38
21 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATATTTAAAAATTATAA
Found at i:3463636 original size:19 final size:17
Alignment explanation
Indices: 3463603--3463654 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
3463593 CTTACATTAT
3463603 ATTTTAAATATTTTTAA-A
1 ATTTT-AAT-TTTTTAATA
3463621 ATATTTATATTATTTTAATA
1 AT-TTTA-ATT-TTTTAATA
3463641 ATTTTAATTTTTTA
1 ATTTTAATTTTTTA
3463655 TTTATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.17
18 7 0.23
19 15 0.50
20 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAATTTTTTAATA
Found at i:3464438 original size:27 final size:27
Alignment explanation
Indices: 3464383--3464438 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
3464373 ATCTAGTTCA
* * * *
3464383 TTTATTTTTTTTTTTAAGAATTTATTT
1 TTTATTTTTTTATTTAAAAATTCAATT
3464410 TTTATTTTTTTATTTAAAAATTCAATT
1 TTTATTTTTTTATTTAAAAATTCAATT
3464437 TT
1 TT
3464439 AATTGTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTATTTTTTTATTTAAAAATTCAATT
Found at i:3470337 original size:18 final size:18
Alignment explanation
Indices: 3470314--3470350 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3470304 GGAGAATCGA
3470314 AATTAAATTATAATTTTT
1 AATTAAATTATAATTTTT
3470332 AATTAAATTATAATTTTT
1 AATTAAATTATAATTTTT
3470350 A
1 A
3470351 CGATAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTAAATTATAATTTTT
Found at i:3471084 original size:17 final size:17
Alignment explanation
Indices: 3471051--3471084 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3471041 TCTTAAAAGT
* *
3471051 TAAAGCTAAAAATAAAA
1 TAAAACTAAAAAAAAAA
3471068 TAAAACTAAAAAAAAAA
1 TAAAACTAAAAAAAAAA
3471085 CCATAATACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (17 bp):
TAAAACTAAAAAAAAAA
Found at i:3477688 original size:31 final size:32
Alignment explanation
Indices: 3477648--3477714 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
3477638 TTTTTCTTCT
* *
3477648 AATTAGGCATCTAAACTTAGCTTTTTGGTTTA
1 AATTAGGCATCTAAACTTAACTTTTTGGTTGA
*
3477680 AATT-GGCATTTAAACTTAACTTTTTGGTTGA
1 AATTAGGCATCTAAACTTAACTTTTTGGTTGA
3477711 AATT
1 AATT
3477715 TATACTCCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (32 bp):
AATTAGGCATCTAAACTTAACTTTTTGGTTGA
Found at i:3478014 original size:27 final size:27
Alignment explanation
Indices: 3477968--3478020 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
3477958 GTAATTCAAA
3477968 ATTTTGTATTAATTACAAAAATGATCT
1 ATTTTGTATTAATTACAAAAATGATCT
3477995 ATTTT-TATT-ATATACAAAAATGATCT
1 ATTTTGTATTAAT-TACAAAAATGATCT
3478021 GAAATGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 2 0.08
26 18 0.72
27 5 0.20
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (27 bp):
ATTTTGTATTAATTACAAAAATGATCT
Found at i:3488480 original size:25 final size:26
Alignment explanation
Indices: 3488426--3488480 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
3488416 TAATTAAAGG
* *
3488426 TTTGGGTTTTTTTTTTTATATATAAA
1 TTTGGGTTTTTCTGTTTATATATAAA
3488452 -TTGGGTTTTTCTGTTTAGTA-A-AAA
1 TTTGGGTTTTTCTGTTTA-TATATAAA
3488476 TTTGG
1 TTTGG
3488481 AGAGCAGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.12
25 20 0.80
26 2 0.08
ACGTcount: A:0.22, C:0.02, G:0.18, T:0.58
Consensus pattern (26 bp):
TTTGGGTTTTTCTGTTTATATATAAA
Found at i:3496652 original size:21 final size:18
Alignment explanation
Indices: 3496626--3496664 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
3496616 AAATTATAAA
3496626 ATTTAAAGAATATATAAAAAT
1 ATTTAAA-AAT-TA-AAAAAT
3496647 ATTTAAAAATTAAAAAAT
1 ATTTAAAAATTAAAAAAT
3496665 TCAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 3 0.17
21 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTTAAAAATTAAAAAAT
Found at i:3503591 original size:24 final size:23
Alignment explanation
Indices: 3503551--3503595 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
3503541 TTGCCTTTAA
3503551 TATTTAAATAATAAAATGATAATT
1 TATTTAAATAATAAAAT-ATAATT
*
3503575 TATTTAATTAAGT-AAATATAA
1 TATTTAAATAA-TAAAATATAA
3503596 ATAAGTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 14 0.74
25 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TATTTAAATAATAAAATATAATT
Found at i:3507665 original size:20 final size:20
Alignment explanation
Indices: 3507637--3507674 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3507627 ACCATTGCCT
*
3507637 TATTGAATAAAGCACATTGG
1 TATTAAATAAAGCACATTGG
3507657 TATTAAATAAAGCACATT
1 TATTAAATAAAGCACATT
3507675 TATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
TATTAAATAAAGCACATTGG
Found at i:3512950 original size:17 final size:17
Alignment explanation
Indices: 3512930--3512972 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
3512920 TCTATAAATG
*
3512930 ATATTTTTTTATAATTT
1 ATATTTTTTTAAAATTT
* *
3512947 ATATATTTTAAAAATTT
1 ATATTTTTTTAAAATTT
3512964 AT-TTTTTTT
1 ATATTTTTTT
3512973 GAATTTTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTTTTAAAATTT
Found at i:3523039 original size:58 final size:58
Alignment explanation
Indices: 3522971--3523262 Score: 224
Period size: 59 Copynumber: 5.0 Consensus size: 58
3522961 ATTGATAAAT
* * *
3522971 GATGAAATCGGGGTGAAAAATGGGACTTATGGATACCCGGGGGCAAAATGGTAATTTT-
1 GATGAAATCGGGGTTAAAAATGGGAATTATGGATA-CCGGGGGTAAAATGGTAATTTTC
* * * **
3523029 GATAAAATCGGGGTTAAAAAT-GGAATTTTGAAAGAT-TCGGGGGTAAAATGGCGATTTTC
1 GATGAAATCGGGGTTAAAAATGGGAATTATG---GATACCGGGGGTAAAATGGTAATTTTC
* **
3523088 GATGCAATCGGGGTTAAAAAT-GGAATTTTAAAGAT-CCGGGGGTAAAATGGTAATTTTC
1 GATGAAATCGGGGTTAAAAATGGGAA--TTATGGATACCGGGGGTAAAATGGTAATTTTC
*** * *
3523146 GATGAAATCGGGGTTAAAAA-CAAAATTTTAGA-AGCTTCGGGGGTAAAATGGTAATTTTC
1 GATGAAATCGGGGTTAAAAATGGGAATTATGGATA-C--CGGGGGTAAAATGGTAATTTTC
* * * * *
3523205 GGTGAAATCGAGGTTAAAAAT-GAAATTTTAGA-AGCTTCGGGGGTAAAATGGTAATTTT
1 GATGAAATCGGGGTTAAAAATGGGAATTATGGATA-C--CGGGGGTAAAATGGTAATTTT
3523263 TGAAAGTTTT
Statistics
Matches: 198, Mismatches: 24, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.03
57 8 0.04
58 81 0.41
59 99 0.50
60 3 0.02
61 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (58 bp):
GATGAAATCGGGGTTAAAAATGGGAATTATGGATACCGGGGGTAAAATGGTAATTTTC
Found at i:3523040 original size:29 final size:28
Alignment explanation
Indices: 3523008--3523158 Score: 101
Period size: 30 Copynumber: 5.2 Consensus size: 28
3522998 TATGGATACC
*
3523008 CGGGGGCAAAATGGTAATTTTGATAAAAT
1 CGGGGGAAAAATGG-AATTTTGATAAAAT
* *
3523037 CGGGGTTAAAAATGGAATTTTGA-AAGATT
1 CGGGG-GAAAAATGGAATTTTGATAA-AAT
* * **
3523066 CGGGGGTAAAATGGCGATTTTCGATGCAAT
1 CGGGGGAAAAATGG-AATTTT-GATAAAAT
* *
3523096 CGGGGTTAAAAATGGAATTTT-A-AAGAT
1 CGGGG-GAAAAATGGAATTTTGATAAAAT
* *
3523123 CCGGGGGTAAAATGGTAATTTTCGATGAAAT
1 -CGGGGGAAAAATGG-AATTTT-GATAAAAT
3523154 CGGGG
1 CGGGG
3523159 TTAAAAACAA
Statistics
Matches: 92, Mismatches: 19, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
27 9 0.10
28 21 0.23
29 25 0.27
30 27 0.29
31 10 0.11
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (28 bp):
CGGGGGAAAAATGGAATTTTGATAAAAT
Found at i:3523110 original size:59 final size:59
Alignment explanation
Indices: 3523008--3523262 Score: 354
Period size: 59 Copynumber: 4.4 Consensus size: 59
3522998 TATGGATACC
* * *
3523008 CGGGGGCAAAATGGTAATTTT-GATAAAATCGGGGTTAAAAATGGAATTTT-GAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTAG-AAGATT
** * * *
3523066 CGGGGGTAAAATGGCGATTTTCGATGCAATCGGGGTTAAAAATGGAATTTTA-AAGATC
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTAGAAGATT
** *
3523124 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACAAAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTAGAAGATT
* * *
3523183 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTAGAAGATT
3523242 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
3523263 TGAAAGTTTT
Statistics
Matches: 176, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
58 69 0.39
59 107 0.61
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.29
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGAAATTTTAGAAGATT
Found at i:3523185 original size:117 final size:117
Alignment explanation
Indices: 3523007--3523262 Score: 354
Period size: 117 Copynumber: 2.2 Consensus size: 117
3522997 TTATGGATAC
* ***
3523007 CCGGGGGCAAAATGGTAATTTTGATAAAATCGGGGTTAAAAATGGAATTTTGAAAGATTCGGGGG
1 CCGGGGGTAAAATGGTAATTTTGATAAAATCGGGGTTAAAAACAAAATTTTGAAAGATTCGGGGG
* * * *
3523072 TAAAATGGCGATTTTCGATGCAATCGGGGTTAAAAATGGAATTTTA-AAGAT
66 TAAAATGGCAATTTTCGATGAAATCGAGGTTAAAAATGAAATTTTAGAAGAT
* *
3523123 CCGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACAAAATTTT-AGAAGCTTCGGG
1 CCGGGGGTAAAATGGTAATTTT-GATAAAATCGGGGTTAAAAACAAAATTTTGA-AAGATTCGGG
* * *
3523187 GGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCT
64 GGTAAAATGGCAATTTTCGATGAAATCGAGGTTAAAAATGAAATTTTAGAAGAT
*
3523241 TCGGGGGTAAAATGGTAATTTT
1 CCGGGGGTAAAATGGTAATTTT
3523263 TGAAAGTTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
116 22 0.18
117 76 0.62
118 25 0.20
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (117 bp):
CCGGGGGTAAAATGGTAATTTTGATAAAATCGGGGTTAAAAACAAAATTTTGAAAGATTCGGGGG
TAAAATGGCAATTTTCGATGAAATCGAGGTTAAAAATGAAATTTTAGAAGAT
Found at i:3523201 original size:29 final size:29
Alignment explanation
Indices: 3523008--3523295 Score: 149
Period size: 29 Copynumber: 9.9 Consensus size: 29
3522998 TATGGATACC
* * *
3523008 CGGGGGCAAAATGGTAATTTT-GATAAAAT
1 CGGGGGTAAAATGGTAATTTTAGA-AGATT
*
3523037 CGGGGTTAAAAATGG-AATTTT-GAAAGATT
1 CGGGGGT-AAAATGGTAATTTTAG-AAGATT
** * * *
3523066 CGGGGGTAAAATGGCGATTTTCGATGCAAT
1 CGGGGGTAAAATGGTAATTTTAGAAG-ATT
* *
3523096 CGGGGTTAAAAATGG-AATTTTA-AAGATC
1 CGGGGGT-AAAATGGTAATTTTAGAAGATT
* * *
3523124 CGGGGGTAAAATGGTAATTTTCGATGAAAT
1 CGGGGGTAAAATGGTAATTTTAGAAG-ATT
* **** *
3523154 CGGGGTTAAAAACAAAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTAGAAGATT
* ** *
3523183 CGGGGGTAAAATGGTAATTTTCGGTGAAAT
1 CGGGGGTAAAATGGTAATTTTAGAAG-ATT
* * * *
3523213 CGAGGTTAAAAAT-GAAATTTTAGAAGCTT
1 CGGGGGT-AAAATGGTAATTTTAGAAGATT
* *
3523242 CGGGGGTAAAATGGTAATTTTTGAAAGTTT
1 CGGGGGTAAAATGGTAATTTTAG-AAGATT
** *
3523272 TAGGGTTAAAAT-GTAATTTTAGAA
1 CGGGGGTAAAATGGTAATTTTAGAA
3523296 AAGTTTTGGG
Statistics
Matches: 191, Mismatches: 55, Indels: 27
0.70 0.20 0.10
Matches are distributed among these distances:
27 7 0.04
28 27 0.14
29 74 0.39
30 71 0.37
31 12 0.06
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (29 bp):
CGGGGGTAAAATGGTAATTTTAGAAGATT
Found at i:3523279 original size:59 final size:58
Alignment explanation
Indices: 3523008--3523295 Score: 261
Period size: 59 Copynumber: 4.9 Consensus size: 58
3522998 TATGGATACC
* * * * *
3523008 CGGGGGCAAAATGGTAATTTTGAT-AAAATCGGGGTTAAAAATGGAATTTT-GAAAGATT
1 CGGGGGTAAAATGGTAATTTTG-TGAAATTCAGGGTTAAAAATGAAATTTTAG-AAGCTT
** * * * * *
3523066 CGGGGGTAAAATGGCGATTTTCGATGCAA-TCGGGGTTAAAAATGGAATTTTA-AAGATC
1 CGGGGGTAAAATGGTAATTTT-G-TGAAATTCAGGGTTAAAAATGAAATTTTAGAAGCTT
* **
3523124 CGGGGGTAAAATGGTAATTTTCGATGAAA-TCGGGGTTAAAAACAAAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTT-G-TGAAATTCAGGGTTAAAAATGAAATTTTAGAAGCTT
3523183 CGGGGGTAAAATGGTAATTTTCGGTGAAA-TC-GAGGTTAAAAATGAAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTT--GTGAAATTCAG-GGTTAAAAATGAAATTTTAGAAGCTT
* *
3523242 CGGGGGTAAAATGGTAATTTT-TGAAAGTTTTAGGGTT-AAAATGTAATTTTAGAA
1 CGGGGGTAAAATGGTAATTTTGTGAAA--TTCAGGGTTAAAAATGAAATTTTAGAA
3523296 AAGTTTTGGG
Statistics
Matches: 202, Mismatches: 18, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
56 5 0.02
58 86 0.43
59 107 0.53
60 4 0.02
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGTGAAATTCAGGGTTAAAAATGAAATTTTAGAAGCTT
Found at i:3523290 original size:117 final size:115
Alignment explanation
Indices: 3523007--3523295 Score: 323
Period size: 117 Copynumber: 2.5 Consensus size: 115
3522997 TTATGGATAC
* * * *
3523007 CCGGGGGCAAAATGGTAATTTTGATAAAATCGGGGTTAAAAATGGAATTTT-GAAAGATTCGGGG
1 CCGGGGGTAAAATGGTAATTTT-ATGAAATCAGGGTTAAAAATGAAATTTTAG-AAGATTCGGGG
* * * *
3523071 GTAAAATGGCGATTTTCGATGCAATCGGGGTTAAAAATGGAATTTTAAAGAT
64 GTAAAATGGCAATTTTCGATGAAATCGAGGTTAAAAATGAAATTTTAAAGAT
* ** *
3523123 CCGGGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACAAAATTTTAGAAGCTTCGGGG
1 CCGGGGGTAAAATGGTAATTTT--ATGAAATCAGGGTTAAAAATGAAATTTTAGAAGATTCGGGG
* * *
3523188 GTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCT
64 GTAAAATGGCAATTTTCGATGAAATCGAGGTTAAAAATGAAATTTTA-AAGAT
* * *
3523241 TCGGGGGTAAAATGGTAATTTT-TGAAAGTTTTAGGGTT-AAAATGTAATTTTAGAA
1 CCGGGGGTAAAATGGTAATTTTATGAAA---TCAGGGTTAAAAATGAAATTTTAGAA
3523296 AAGTTTTGGG
Statistics
Matches: 148, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
115 5 0.03
116 21 0.14
117 90 0.61
118 32 0.22
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (115 bp):
CCGGGGGTAAAATGGTAATTTTATGAAATCAGGGTTAAAAATGAAATTTTAGAAGATTCGGGGGT
AAAATGGCAATTTTCGATGAAATCGAGGTTAAAAATGAAATTTTAAAGAT
Found at i:3523296 original size:29 final size:29
Alignment explanation
Indices: 3523216--3523320 Score: 122
Period size: 30 Copynumber: 3.6 Consensus size: 29
3523206 GTGAAATCGA
* * *
3523216 GGTTAAAAATGAAATTTTAG-AAGCTTCGG
1 GGTT-AAAATGTAATTTTAGAAAGTTTTGG
* * *
3523245 GGGTAAAATGGTAATTTTTGAAAGTTTTAG
1 GGTTAAAAT-GTAATTTTAGAAAGTTTTGG
3523275 GGTTAAAATGTAATTTTAGAAAAGTTTTGG
1 GGTTAAAATGTAATTTTAG-AAAGTTTTGG
3523305 GGTTAAAATGTAATTT
1 GGTTAAAATGTAATTT
3523321 CTGGACAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.08
29 20 0.31
30 39 0.61
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTAGAAAGTTTTGG
Found at i:3523604 original size:163 final size:162
Alignment explanation
Indices: 3523418--3523743 Score: 483
Period size: 163 Copynumber: 2.0 Consensus size: 162
3523408 ATTTGAAAAT
* *
3523418 CTTGAAAAATTTTTGGACCAATTTTGTAATT-AAATAAAAGTCGATTTAAGGATTAAATTATAAC
1 CTTGAAAAATTATTGGACCAATTTTGTAATTAAAAT-AAAGTCGATTTAAGGATTAAATTAAAAC
*
3523482 AAATTAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAAATGACACGTGGCAACCTCTGG
65 AAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCC-AAAAAATGACACGTGGCAACCTCTGG
** **
3523547 TGCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
129 CACAGTCAAACAGTCAAAGGACTAAATTATAAAC
* * **
3523581 CTTGAAAAATTATTGGGCCAATTTTGTAATTAAAATAAAGTTGATTTGGGGATTAAATTAAAACA
1 CTTGAAAAATTATTGGACCAATTTTGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAACA
* * * * *
3523646 AATAAAAAATAAAAAGGACTAAATGCATAAATAATGCAATACATGACACGTGGCAACCTCTGGCA
66 AATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAATGACACGTGGCAACCTCTGGCA
3523711 CAGTCAAACAGTCAAAGGACTAAATTATAAAC
131 CAGTCAAACAGTCAAAGGACTAAATTATAAAC
3523743 C
1 C
3523744 AATTAAAATT
Statistics
Matches: 146, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
162 55 0.38
163 87 0.60
164 4 0.03
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (162 bp):
CTTGAAAAATTATTGGACCAATTTTGTAATTAAAATAAAGTCGATTTAAGGATTAAATTAAAACA
AATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAATGACACGTGGCAACCTCTGGCA
CAGTCAAACAGTCAAAGGACTAAATTATAAAC
Found at i:3523812 original size:162 final size:161
Alignment explanation
Indices: 3523464--3523815 Score: 388
Period size: 162 Copynumber: 2.2 Consensus size: 161
3523454 AAAGTCGATT
*
3523464 TAAGGATTAAATTATAACAAATTAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAAATG
1 TAAGGATTAAATTA-AACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAAATG
** ** *
3523529 ACACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTAT
65 ACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATTAC
* * * * * **
3523594 TGGGCCAATTTTGTAATTAAAATAAAGTTGATT
129 AGGGCCAAATTTGCAAATAAAATAAAGATGACA
** * * * * *
3523627 TGGGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCATAAATAATGC-AATACATG
1 TAAGGATTAAATT-AAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAAATG
3523691 ACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AAAATTA
65 ACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAATTA
* *
3523755 CAGGG-TAAATTTGCAAATAATTAA-AAAGATGCCA
128 CAGGGCCAAATTTGCAAATAA--AATAAAGATGACA
* *
3523789 TAAGGACTAAATTGAAGCAAATAAAAA
1 TAAGGATTAAATT-AAACAAATAAAAA
3523816 TGCGGAAGGA
Statistics
Matches: 157, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
161 11 0.07
162 93 0.59
163 50 0.32
164 3 0.02
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (161 bp):
TAAGGATTAAATTAAACAAATAAAAAATAAAAAGGACTAAATGAAGAAATAATCCAAAAAAATGA
CACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTACAG
GGCCAAATTTGCAAATAAAATAAAGATGACA
Found at i:3525161 original size:14 final size:14
Alignment explanation
Indices: 3525125--3525177 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
3525115 ACCGGGCTAC
3525125 TGTAATTGGGCC--
1 TGTAATTGGGCCTT
* *
3525137 TCTAGTTGGGCCTT
1 TGTAATTGGGCCTT
*
3525151 TGTAATTGGGCCAT
1 TGTAATTGGGCCTT
3525165 TGTAATTGGGCCT
1 TGTAATTGGGCCT
3525178 CTAACTTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 10 0.30
14 23 0.70
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (14 bp):
TGTAATTGGGCCTT
Found at i:3525309 original size:6 final size:6
Alignment explanation
Indices: 3525270--3525389 Score: 88
Period size: 6 Copynumber: 20.2 Consensus size: 6
3525260 CTTTGGACTC
* * ** *
3525270 TTAAATT TTTAAT TTAATAT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA-
1 TTAAA-T TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
3525319 TTAAAT TTAAATAT TTAAAT TTAAAT TTAAA- ATAAAT CTAAAT TTAAA-
1 TTAAAT TT-AA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
3525367 -TAAAT TTAAA- ATCAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
3525390 CAAAAGTCCA
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
4 4 0.04
5 11 0.12
6 58 0.64
7 13 0.14
8 4 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:3525322 original size:17 final size:17
Alignment explanation
Indices: 3525302--3525389 Score: 85
Period size: 17 Copynumber: 5.4 Consensus size: 17
3525292 TAATTTTTAT
3525302 TTAAATTTAAATTCAAA
1 TTAAATTTAAATTCAAA
*
3525319 TTAAATTTAAA-T--AT
1 TTAAATTTAAATTCAAA
*
3525333 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTCAAA
* * *
3525350 ATAAATCTAAATTTAAA
1 TTAAATTTAAATTCAAA
* *
3525367 -TAAATTTAAAATCAAT
1 TTAAATTTAAATTCAAA
3525383 TTAAATT
1 TTAAATT
3525390 CAAAAGTCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.20
15 1 0.02
16 13 0.22
17 33 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAATTCAAA
Found at i:3542520 original size:45 final size:43
Alignment explanation
Indices: 3542466--3542556 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 43
3542456 GTTGGAGTAA
* * *
3542466 AATAGAAATTGTAATAATTACATATTTTAAAAATAACTATAATTT
1 AATAAAAATTGCAATAATTACACA-TTT-AAAATAACTATAATTT
* **
3542511 AATAAAAATTGCGATAATTACACATTTAAAATAGTTATAATTT
1 AATAAAAATTGCAATAATTACACATTTAAAATAACTATAATTT
3542554 AAT
1 AAT
3542557 TTATAATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 17 0.43
44 3 0.08
45 20 0.50
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (43 bp):
AATAAAAATTGCAATAATTACACATTTAAAATAACTATAATTT
Found at i:3546107 original size:42 final size:42
Alignment explanation
Indices: 3546022--3546136 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
3546012 CCCGCACCAG
* * **
3546022 TATATTTACTTCAATATATTTGATGATGCACTTATGTGCCAA
1 TATATTTACTTCGATATATTCGATGATGCACTTACATGCCAA
* *
3546064 TATATTTACTTCGGTATATTCGATGATGCACTTACATGTCAA
1 TATATTTACTTCGATATATTCGATGATGCACTTACATGCCAA
* * *
3546106 TATAATTGCTTCGAT-TCATCCGATGATGCAC
1 TATATTTACTTCGATAT-ATTCGATGATGCAC
3546137 CTTGTGTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 61 0.98
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (42 bp):
TATATTTACTTCGATATATTCGATGATGCACTTACATGCCAA
Found at i:3546158 original size:43 final size:42
Alignment explanation
Indices: 3546043--3546159 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
3546033 CAATATATTT
* * * * *
3546043 GATGATGCACTTATGTGCCAATATATTTACTTCGGTATATTC
1 GATGATGCACTTATGTGTCAATATAATTGCTTCGATATATCC
**
3546085 GATGATGCACTTACATGTCAATATAATTGCTTCGAT-TCATCC
1 GATGATGCACTTATGTGTCAATATAATTGCTTCGATAT-ATCC
*
3546127 GATGATGCACCTTGTGTGTCAATATAATTGCTT
1 GATGATGCA-CTTATGTGTCAATATAATTGCTT
3546160 TGGCTTCCCG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.67
43 20 0.32
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.38
Consensus pattern (42 bp):
GATGATGCACTTATGTGTCAATATAATTGCTTCGATATATCC
Found at i:3546171 original size:42 final size:40
Alignment explanation
Indices: 3546100--3546187 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 40
3546090 TGCACTTACA
*
3546100 TGTCAATATAATTGCTTCGATTCATCCGATGATGCACCTTGTG
1 TGTCAATATAATTGCTTCGATTCA-CCGATGATACA-C-TGTG
* *
3546143 TGTCAATATAATTGCTTTGGCTTC-CCGATGATACACTGTG
1 TGTCAATATAATTGC-TTCGATTCACCGATGATACACTGTG
3546183 TGTCA
1 TGTCA
3546188 GCATCTTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
40 9 0.22
41 1 0.02
42 10 0.24
43 15 0.37
44 6 0.15
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (40 bp):
TGTCAATATAATTGCTTCGATTCACCGATGATACACTGTG
Found at i:3553581 original size:42 final size:43
Alignment explanation
Indices: 3553397--3553625 Score: 239
Period size: 43 Copynumber: 5.4 Consensus size: 43
3553387 AAATACTATA
* * * * * *
3553397 TTCTTTAGCGGCGTTTGCGGGAAAAGTGCTGCTAAAGATCATG
1 TTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATG
* *
3553440 GTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATG
1 TTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATG
* * * * * *
3553483 TTCTTTAGCGGCATTTGTGTGATAAA-CGCCGTTAAAAATCATG
1 TTCTTTAGCAGCGTTTGTGAGA-AAAGCGCCGCTAAAGACCATG
* * *
3553526 GTCTGTAGCAGCGTTTGTG-GAAAAGTGCCGCTAAAGACCATG
1 TTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATG
* * *
3553568 TTCTTTACCAGCGTTTATGAGATAAGC-CCGCTAAAGACCATG
1 TTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATG
*
3553610 TTCTATAGCAGCGTTT
1 TTCTTTAGCAGCGTTT
3553626 TTCTTTCGCC
Statistics
Matches: 155, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
41 3 0.02
42 59 0.38
43 90 0.58
44 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
TTCTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATG
Found at i:3553592 original size:85 final size:85
Alignment explanation
Indices: 3553427--3553625 Score: 256
Period size: 85 Copynumber: 2.3 Consensus size: 85
3553417 GAAAAGTGCT
* * *
3553427 GCTAAAGATCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGC
1 GCTAAAGATCATGGTCTATAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTACC
* * *
3553492 GGCATTTGTGTGATAAACGCC
66 AGCATTTATGAGATAAAC-CC
* * * *
3553513 GTTAAAAATCATGGTCTGTAGCAGCGTTTGTG-GAAAAGTGCCGCTAAAGACCATGTTCTTTACC
1 GCTAAAGATCATGGTCTATAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTACC
* *
3553577 AGCGTTTATGAGATAAGCCC
66 AGCATTTATGAGATAAACCC
* *
3553597 GCTAAAGACCATGTTCTATAGCAGCGTTT
1 GCTAAAGATCATGGTCTATAGCAGCGTTT
3553626 TTCTTTCGCC
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 26 0.27
85 43 0.44
86 28 0.29
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (85 bp):
GCTAAAGATCATGGTCTATAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTACC
AGCATTTATGAGATAAACCC
Found at i:3553760 original size:23 final size:24
Alignment explanation
Indices: 3553732--3553782 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
3553722 AGCGATAATT
3553732 ATATATAAAATAATAA-TAATATTAA
1 ATAT-TAAAATAA-AACTAATATTAA
*
3553757 ATATTAAATTAAAACTAATA-TAA
1 ATATTAAAATAAAACTAATATTAA
3553780 ATA
1 ATA
3553783 ACTATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.33
24 12 0.50
25 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATTAAAATAAAACTAATATTAA
Found at i:3560863 original size:29 final size:30
Alignment explanation
Indices: 3560819--3560878 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
3560809 TGGAGGTGGG
*
3560819 ATGAGAGAGGAGTAAAACTTTTGGGGGAAA
1 ATGAGAGAGGAATAAAACTTTTGGGGGAAA
*
3560849 ATGAGA-AGGAATAAAAGTTTTGGGGGAAA
1 ATGAGAGAGGAATAAAACTTTTGGGGGAAA
3560878 A
1 A
3560879 GTAAAAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.35, T:0.20
Consensus pattern (30 bp):
ATGAGAGAGGAATAAAACTTTTGGGGGAAA
Found at i:3562349 original size:28 final size:28
Alignment explanation
Indices: 3562318--3562377 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
3562308 AAAACGGGAC
*
3562318 TTTTGGA-TACCCGGGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAATGGTAA
*
3562346 TTTTGGACTCGCGAGGGCAAAATGGTAA
1 TTTTGGACTCCCGAGGGCAAAATGGTAA
3562374 TTTT
1 TTTT
3562378 TGGTGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAATGGTAA
Found at i:3562406 original size:30 final size:30
Alignment explanation
Indices: 3562363--3562466 Score: 83
Period size: 30 Copynumber: 3.5 Consensus size: 30
3562353 CTCGCGAGGG
* *
3562363 CAAAATGGTAATTTTTGGTGAAATCGGGGT
1 CAAAAAGGGAATTTTTGGTGAAATCGGGGT
*
3562393 CAAAAAGGGAA-TTTT-G-GAAAGTTTGGGGGT
1 CAAAAAGGGAATTTTTGGTGAAA---TCGGGGT
* *
3562423 -AAAATA-GTAATTTTTGGTGAAATCGAGGT
1 CAAAA-AGGGAATTTTTGGTGAAATCGGGGT
*
3562452 CAAAAATGGAATTTT
1 CAAAAAGGGAATTTT
3562467 GGAAAGTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 17 0.29
30 31 0.53
31 1 0.02
32 4 0.07
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.32
Consensus pattern (30 bp):
CAAAAAGGGAATTTTTGGTGAAATCGGGGT
Found at i:3562407 original size:29 final size:28
Alignment explanation
Indices: 3562375--3562468 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
3562365 AAATGGTAAT
3562375 TTTTGGTGAAATCGGGGTCAAAAAGGGAA
1 TTTTGGTGAAATCGGGGTCAAAAA-GGAA
* *
3562404 TTTT-G-GAAAGTTTGGGGGT-AAAATAGTAA
1 TTTTGGTGAAA---TCGGGGTCAAAA-AGGAA
*
3562433 TTTTTGGTGAAATCGAGGTCAAAAATGGAA
1 -TTTTGGTGAAATCGGGGTCAAAAA-GGAA
3562463 TTTTGG
1 TTTTGG
3562469 AAAGTTTGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 23 0.45
30 18 0.35
31 1 0.02
32 4 0.08
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (28 bp):
TTTTGGTGAAATCGGGGTCAAAAAGGAA
Found at i:3562442 original size:59 final size:59
Alignment explanation
Indices: 3562364--3562674 Score: 410
Period size: 59 Copynumber: 5.3 Consensus size: 59
3562354 TCGCGAGGGC
** * *
3562364 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * *
3562423 AAAATAGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * * * **
3562482 AAAATGGTATTTTTTGGTGAAATCAGGGT-TAAAATGGAATTTTAGAAAGTTCAAGGGT
1 AAAATGGTAATTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * *
3562540 AAAATGGTAATTTTTTTGGTGAAATCAAGGTCAGAAATGGAATTTTGGATAGTTCGAGGGT
1 AAAATGGTAA--TTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * * *
3562601 AAAATGGTAATTTTTGGTAAAATCAAGGT-TAAAATGGAATTTTGGAGAGGTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
3562659 AAAATGGTAATTTTTG
1 AAAATGGTAATTTTTG
3562675 AACAGTCCAA
Statistics
Matches: 224, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
58 73 0.33
59 99 0.44
60 18 0.08
61 34 0.15
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:3562510 original size:29 final size:30
Alignment explanation
Indices: 3562478--3562643 Score: 107
Period size: 30 Copynumber: 5.6 Consensus size: 30
3562468 GAAAGTTTGG
3562478 GGGTAAAATGGTATTTTTTGGTGAAATC-A
1 GGGTAAAATGGTATTTTTTGGTGAAATCAA
* *
3562507 GGGTTAAAATGG-A-ATTTT--AGAAAGTTCAA
1 GGG-TAAAATGGTATTTTTTGGTGAAA--TCAA
3562536 GGGTAAAATGGTAATTTTTTTGGTGAAATCAA
1 GGGTAAAATGGT-A-TTTTTTGGTGAAATCAA
* ** *
3562568 -GGTCAGAAATGG-A-ATTTTGGAT-AGTTCGA
1 GGGT-A-AAATGGTATTTTTTGG-TGAAATCAA
* *
3562597 GGGTAAAATGGTAATTTTTGGTAAAATCAA
1 GGGTAAAATGGTATTTTTTGGTGAAATCAA
* *
3562627 GGTTAAAATGGAATTTT
1 GGGTAAAATGGTATTTT
3562644 GGAGAGGTCG
Statistics
Matches: 105, Mismatches: 15, Indels: 33
0.69 0.10 0.22
Matches are distributed among these distances:
26 4 0.04
28 20 0.19
29 21 0.20
30 37 0.35
31 4 0.04
32 9 0.09
33 6 0.06
34 4 0.04
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
GGGTAAAATGGTATTTTTTGGTGAAATCAA
Found at i:3562601 original size:119 final size:119
Alignment explanation
Indices: 3562357--3562673 Score: 440
Period size: 119 Copynumber: 2.7 Consensus size: 119
3562347 TTTGGACTCG
* * * * *
3562357 CGAGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAGTTTGGGGG
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCAGGGT-TAAAATGGAATTTTGGAAAGTTCGGGGG
* *
3562422 TAAAATAGTAA--TTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTT
65 TAAAATGGTAATTTTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTT
* * * * **
3562475 TGGGGGTAAAATGGTATTTTTTGGTGAAATCAGGGTTAAAATGGAATTTTAGAAAGTTCAAGGGT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAATGGAATTTTGGAAAGTTCGGGGGT
* *
3562540 AAAATGGTAATTTTTTTGGTGAAATCAAGGTCAGAAATGGAATTTTGGATAGTT
66 AAAATGGTAATTTTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTT
* * * *
3562594 CGAGGGTAAAATGGTAATTTTTGGTAAAATCAAGGTTAAAATGGAATTTTGGAGAGGTCGGGGGT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAATGGAATTTTGGAAAGTTCGGGGGT
3562659 AAAATGGTAATTTTT
66 AAAATGGTAATTTTT
3562674 GAACAGTCCA
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
117 32 0.19
118 31 0.18
119 109 0.63
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (119 bp):
CGAGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAATGGAATTTTGGAAAGTTCGGGGGT
AAAATGGTAATTTTTTTGGTGAAATCAAGGTCAAAAATGGAATTTTGGAAAGTT
Found at i:3564769 original size:20 final size:17
Alignment explanation
Indices: 3564744--3564785 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 17
3564734 TTGATTAGAC
3564744 TTAAATTTAAATAAGTAAAT
1 TTAAATTT-AA-AA-TAAAT
3564764 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
3564781 TTAAA
1 TTAAA
3564786 ACCCATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 2 0.09
20 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:3570214 original size:97 final size:97
Alignment explanation
Indices: 3570044--3570232 Score: 265
Period size: 97 Copynumber: 1.9 Consensus size: 97
3570034 TGAAAAAAGA
* * *
3570044 TATTCGATTATCCAGATTTGAAGAAAAGTCGCGCTTAGTAAGTTAAGGCACAAATTTTCAGAATC
1 TATTCGATTATCCAGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATC
* * *
3570109 AGAGATAAAGAAACATTGCCTTGATTTAAGGG
66 AGAAATAAAAAAACATTGCCTCGATTTAAGGG
* *
3570141 TATTCGATTATTTC-GATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
1 TATTCGATTA-TCCAGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAA-
*
3570205 TC-GAAATAAAAAAATATTGCCTCGATTT
64 TCAGAAATAAAAAAACATTGCCTCGATTT
3570233 TAAAGGTTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
97 77 0.95
98 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (97 bp):
TATTCGATTATCCAGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATC
AGAAATAAAAAAACATTGCCTCGATTTAAGGG
Found at i:3570259 original size:97 final size:95
Alignment explanation
Indices: 3570059--3570255 Score: 211
Period size: 97 Copynumber: 2.0 Consensus size: 95
3570049 GATTATCCAG
* * * * *
3570059 ATTTGAAGAAAAGTCGCGCTTAGTAAGTTAAGGCACAAATTTTCAGAATCAGAGATAAAGAAACA
1 ATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAAATAAAAAAACA
* * ** *
3570124 TTGCCTTGATTTAAGGGTATTCGATTATTT
66 TTGCCTCGATTTAAAGGTATTCGAAAATAT
*
3570154 CGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTCAAAACTC-GAAATAAAAAA
1 --ATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAA-TCAGAAATAAAAAA
*
3570218 ATATTGCCTCGATTTTAAAGGT-TTCACGAAAATA-
63 ACATTGCCTCGA-TTTAAAGGTATT--CGAAAATAT
3570252 ATTT
1 ATTT
3570256 TGAAAACAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
96 4 0.05
97 65 0.77
98 10 0.12
99 5 0.06
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (95 bp):
ATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAAATAAAAAAACA
TTGCCTCGATTTAAAGGTATTCGAAAATAT
Found at i:3570568 original size:59 final size:59
Alignment explanation
Indices: 3570501--3570633 Score: 162
Period size: 59 Copynumber: 2.3 Consensus size: 59
3570491 CTATGGGATG
***
3570501 AAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATAGG-ATTTCTAGACA-TTCAAGGGTA
1 AAATGGTAATTTTTGGAAATTTCAAGGTCAAAAAT-GGAATTTCTAGA-AGTTCAAGGGTA
* * * * *
3570560 AAATGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTA
1 AAATGGTAATTTTTGGAAATTTCAAGGTCAAAAATGGAATTTCTAGAAGTTCAAGGGTA
3570619 AAATGGTAATTTTTG
1 AAATGGTAATTTTTG
3570634 AAAAGTTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 3 0.05
59 61 0.95
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (59 bp):
AAATGGTAATTTTTGGAAATTTCAAGGTCAAAAATGGAATTTCTAGAAGTTCAAGGGTA
Found at i:3570586 original size:30 final size:29
Alignment explanation
Indices: 3570553--3570665 Score: 124
Period size: 30 Copynumber: 3.8 Consensus size: 29
3570543 CTAGACATTC
3570553 AAGGGTAAAATGGTAATTTTTGGAAGTTT
1 AAGGGTAAAATGGTAATTTTTGGAAGTTT
3570582 CAA-GGTCAAAAATGG-AATTTTTGGAAGTTT
1 -AAGGGT--AAAATGGTAATTTTTGGAAGTTT
* *
3570612 AGGGGTAAAATGGTAATTTTTGAAAAGTTT
1 AAGGGTAAAATGGTAATTTTTG-GAAGTTT
* *
3570642 AAGGGCT-AAATTGTGATTTTTGGA
1 AAGGG-TAAAATGGTAATTTTTGGA
3570666 CAATTCAAGG
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
28 7 0.10
29 13 0.18
30 43 0.61
31 8 0.11
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
AAGGGTAAAATGGTAATTTTTGGAAGTTT
Found at i:3572322 original size:16 final size:18
Alignment explanation
Indices: 3572295--3572328 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3572285 ATTCAAATAA
3572295 TTAAATATATTTT-AAAG
1 TTAAATATATTTTGAAAG
3572312 TTAAA-ATATTTTGAAAG
1 TTAAATATATTTTGAAAG
3572329 AATAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (18 bp):
TTAAATATATTTTGAAAG
Found at i:3577216 original size:20 final size:21
Alignment explanation
Indices: 3577193--3577231 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
3577183 TCTAAAAAGC
3577193 TCCAAAAAAT-TATAAAAAAA
1 TCCAAAAAATATATAAAAAAA
* *
3577213 TCCAACATATATATAAAAA
1 TCCAAAAAATATATAAAAA
3577232 TTAAACAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (21 bp):
TCCAAAAAATATATAAAAAAA
Found at i:3578325 original size:43 final size:44
Alignment explanation
Indices: 3578235--3578325 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
3578225 GTTGAAGTAA
*
3578235 AATAGAAATTGTAATAATTATACATATTGAAAATAATTATAATTT
1 AATAGAAATTGTAATAATTATA-ATATTAAAAATAATTATAATTT
* * *
3578280 AATAGAAATTGTGATAATTAT-ATTTTAAAAATATTTATAATTT
1 AATAGAAATTGTAATAATTATAATATTAAAAATAATTATAATTT
3578323 AAT
1 AAT
3578326 TTGTAATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 22 0.52
45 20 0.48
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (44 bp):
AATAGAAATTGTAATAATTATAATATTAAAAATAATTATAATTT
Found at i:3583713 original size:30 final size:28
Alignment explanation
Indices: 3583655--3583714 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 28
3583645 AAATTATTAA
*
3583655 TAAATAAAAATATATTATATACTAAATAT
1 TAAATAAAAATATATAATATAC-AAATAT
3583684 TAAATTAAAAATAATATAAATATAC-AATAT
1 TAAA-TAAAAAT-ATAT-AATATACAAATAT
3583714 T
1 T
3583715 TCAACATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.15
30 13 0.48
31 4 0.15
32 6 0.22
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAATAAAAATATATAATATACAAATAT
Found at i:3591770 original size:14 final size:14
Alignment explanation
Indices: 3591751--3591780 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3591741 AATGAGATGG
*
3591751 AAATTGTAAAGAAT
1 AAATTGTAAAAAAT
3591765 AAATTGTAAAAAAT
1 AAATTGTAAAAAAT
3591779 AA
1 AA
3591781 TTTATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AAATTGTAAAAAAT
Found at i:3591797 original size:17 final size:19
Alignment explanation
Indices: 3591775--3591811 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3591765 AAATTGTAAA
*
3591775 AAAT-AATTTATT-TAATT
1 AAATAAATTGATTATAATT
3591792 AAATAAATTGATTATAATT
1 AAATAAATTGATTATAATT
3591811 A
1 A
3591812 CGTCTATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATAAATTGATTATAATT
Found at i:3594033 original size:25 final size:24
Alignment explanation
Indices: 3593988--3594034 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
3593978 TAAGGAAACT
* *
3593988 CCAAATAAACAAGTGTAAGAAGTC
1 CCAAACAAACAAGTATAAGAAGTC
*
3594012 CCAAACAAGACAAGTATTAGAAG
1 CCAAACAA-ACAAGTATAAGAAG
3594035 AATCGACCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.15
Consensus pattern (24 bp):
CCAAACAAACAAGTATAAGAAGTC
Found at i:3603416 original size:24 final size:22
Alignment explanation
Indices: 3603397--3603441 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
3603387 GATTTATTGT
*
3603397 TATGTTTATAAAATATTTTATA
1 TATGTTTATAAAAGATTTTATA
3603419 TATGTTTATAAAAGATTTT-TA
1 TATGTTTATAAAAGATTTTATA
3603440 TA
1 TA
3603442 AATATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATGTTTATAAAAGATTTTATA
Found at i:3607145 original size:15 final size:17
Alignment explanation
Indices: 3607125--3607164 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
3607115 TAACTTTTTC
3607125 AAATTATAAAAAT-AT-
1 AAATTATAAAAATAATA
*
3607140 AAATTATTAAAATAATA
1 AAATTATAAAAATAATA
3607157 AAATTATA
1 AAATTATA
3607165 CAATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATAAAAATAATA
Found at i:3610722 original size:30 final size:30
Alignment explanation
Indices: 3610673--3610764 Score: 107
Period size: 29 Copynumber: 3.1 Consensus size: 30
3610663 CCCTAAAGGT
*
3610673 CCCTAAACTTTTTCAAAATTATA-TTTTAA
1 CCCTAAACTTTTTCAAAATTACATTTTTAA
* * *
3610702 CCCTAAATTTTTTTATAAATTACATTTTTAC
1 CCCTAAACTTTTTCA-AAATTACATTTTTAA
* *
3610733 CCCTAAACTTTTTAAAAATT-CATTTTTGA
1 CCCTAAACTTTTTCAAAATTACATTTTTAA
3610762 CCC
1 CCC
3610765 CGATTTCACC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 23 0.43
30 12 0.23
31 18 0.34
ACGTcount: A:0.34, C:0.20, G:0.01, T:0.46
Consensus pattern (30 bp):
CCCTAAACTTTTTCAAAATTACATTTTTAA
Found at i:3610765 original size:30 final size:29
Alignment explanation
Indices: 3610673--3610765 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 29
3610663 CCCTAAAGGT
* *
3610673 CCCTAAACTTTTTCAAAATT-ATATTTTAA
1 CCCTAAACTTTTTAAAAATTCAT-TTTTAC
* *
3610702 CCCTAAATTTTTTTATAAATTACATTTTTAC
1 CCCTAAA-CTTTTTAAAAATT-CATTTTTAC
3610733 CCCTAAACTTTTTAAAAATTCATTTTTGAC
1 CCCTAAACTTTTTAAAAATTCATTTTT-AC
3610763 CCC
1 CCC
3610766 GATTTCACCA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 14 0.26
30 26 0.48
31 12 0.22
32 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.01, T:0.45
Consensus pattern (29 bp):
CCCTAAACTTTTTAAAAATTCATTTTTAC
Found at i:3610778 original size:29 final size:29
Alignment explanation
Indices: 3610746--3610971 Score: 107
Period size: 29 Copynumber: 7.7 Consensus size: 29
3610736 TAAACTTTTT
3610746 AAAAATT-CATTTTTGACCCCGATTTCACC
1 AAAAATTACATTTTT-ACCCCGATTTCACC
3610775 AAAAATTACCA-TTTTACGCCCGAACTTT---C
1 AAAAATTA-CATTTTTAC-CCCG-A-TTTCACC
* * * *
3610804 TAAAATTCCATTTTTGACCTCGATTTCACT
1 AAAAATTACATTTTT-ACCCCGATTTCACC
3610834 AAAAATTACCA-TTTTACCCTCGAACTTT--CC
1 AAAAATTA-CATTTTTACCC-CG-A-TTTCACC
** *
3610864 -AAAATCCCATTTTTAACCTCGATTTCACC
1 AAAAATTACATTTTT-ACCCCGATTTCACC
* * *
3610893 AAAAGTTACCATTTTAACCTCGAACTTT--CC
1 AAAAATTA-CATTTTTACCCCG-A-TTTCACC
** * *
3610923 -AAAATTTTATTTTTAACTCCAATTTCACC
1 AAAAATTACATTTTT-ACCCCGATTTCACC
3610952 AAAAATTACATTTTTACCCC
1 AAAAATTACATTTTTACCCC
3610972 CAAACTTTCT
Statistics
Matches: 146, Mismatches: 25, Indels: 52
0.65 0.11 0.23
Matches are distributed among these distances:
27 9 0.06
28 12 0.08
29 53 0.36
30 50 0.34
31 13 0.09
32 9 0.06
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCCGATTTCACC
Found at i:3610801 original size:59 final size:58
Alignment explanation
Indices: 3610718--3611029 Score: 310
Period size: 59 Copynumber: 5.3 Consensus size: 58
3610708 ATTTTTTTAT
* * *
3610718 AAATTA-CATTTTTACCCCTAAACTTTTTAAAAATTCATTTTTGACCCCGATTTCACCAA
1 AAATTACCA-TTTTACCCC-GAACTTTCTAAAAATTCATTTTTAACCCCGATTTCACCAA
* * *
3610777 AAATTACCATTTTACGCCCGAACTTTCT-AAAATTCCATTTTTGACCTCGATTTCACTAA
1 AAATTACCATTTTAC-CCCGAACTTTCTAAAAATT-CATTTTTAACCCCGATTTCACCAA
* * *
3610836 AAATTACCATTTTACCCTCGAACTTTC-CAAAATCCCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTACCC-CGAACTTTCTAAAAAT-TCATTTTTAACCCCGATTTCACCAA
* * * * * * *
3610895 AAGTTACCATTTTAACCTCGAACTTTCCAAAATTTTATTTTTAACTCCAATTTCACCAA
1 AAATTACCATTTT-ACCCCGAACTTTCTAAAAATTCATTTTTAACCCCGATTTCACCAA
* * * *
3610954 AAATTA-CATTTTTACCCCCAAACTTTCTAAAAATTCA-TTTTAACCCTGATTTTATCAA
1 AAATTACCA-TTTTA-CCCCGAACTTTCTAAAAATTCATTTTTAACCCCGATTTCACCAA
* *
3611012 AAATTACTATTTTGCCCC
1 AAATTACCATTTTACCCC
3611030 CGGGTATCCA
Statistics
Matches: 213, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
57 4 0.02
58 37 0.17
59 160 0.75
60 12 0.06
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (58 bp):
AAATTACCATTTTACCCCGAACTTTCTAAAAATTCATTTTTAACCCCGATTTCACCAA
Found at i:3610855 original size:30 final size:30
Alignment explanation
Indices: 3610756--3610915 Score: 108
Period size: 30 Copynumber: 5.4 Consensus size: 30
3610746 AAAAATTCAT
3610756 TTTTGACCC-CGATTTCACCAAAAATTACCA
1 TTTT-ACCCTCGATTTCACCAAAAATTACCA
*
3610786 TTTTACGCC-CGAACTTT---CTAAAATT-CCA
1 TTTTAC-CCTCG-A-TTTCACCAAAAATTACCA
*
3610814 TTTTTGA-CCTCGATTTCACTAAAAATTACCA
1 -TTTT-ACCCTCGATTTCACCAAAAATTACCA
*
3610845 TTTTACCCTCGAACTTT--CC-AAAA-TCCCA
1 TTTTACCCTCG-A-TTTCACCAAAAATTACCA
* *
3610873 TTTTTAACCTCGATTTCACCAAAAGTTACCA
1 -TTTTACCCTCGATTTCACCAAAAATTACCA
*
3610904 TTTTAACCTCGA
1 TTTTACCCTCGA
3610916 ACTTTCCAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 36
0.70 0.05 0.24
Matches are distributed among these distances:
27 6 0.06
28 11 0.11
29 32 0.31
30 40 0.38
31 9 0.09
32 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (30 bp):
TTTTACCCTCGATTTCACCAAAAATTACCA
Found at i:3610895 original size:118 final size:117
Alignment explanation
Indices: 3610718--3611024 Score: 345
Period size: 118 Copynumber: 2.6 Consensus size: 117
3610708 ATTTTTTTAT
* * * *
3610718 AAATTACATTTTTACCCCTAAACTTTTTAAAAATTCATTTTTGACCCCGATTTCACCAAAAATTA
1 AAATTACATTTTTACCCCCAAACTTTCTAAAAATCCATTTTT-AACCCGATTTCACCAAAAATTA
* * * *
3610783 CCATTTT-ACGCCCGAACTTTCTAAAATTCCATTTTTGAC-CTCGATTTCACTAA
65 CCATTTTAAC-CCCGAACTTTCCAAAATTCCATTTTTAACTC-CAATTTCACCAA
* * * *
3610836 AAATTACCA-TTTTACCCTCGAACTTTC-CAAAATCCCATTTTTAACCTCGATTTCACCAAAAGT
1 AAATTA-CATTTTTACCCCCAAACTTTCTAAAAAT-CCATTTTTAACC-CGATTTCACCAAAAAT
* **
3610899 TACCATTTTAACCTCGAACTTTCCAAAATTTTATTTTTAACTCCAATTTCACCAA
63 TACCATTTTAACCCCGAACTTTCCAAAATTCCATTTTTAACTCCAATTTCACCAA
* * *
3610954 AAATTACATTTTTACCCCCAAACTTTCTAAAAATTCA-TTTTAACCCTGATTTTATCAAAAATTA
1 AAATTACATTTTTACCCCCAAACTTTCTAAAAATCCATTTTTAACCC-GATTTCACCAAAAATTA
*
3611018 CTATTTT
65 CCATTTT
3611025 GCCCCCGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
116 1 0.01
117 38 0.24
118 109 0.69
119 10 0.06
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (117 bp):
AAATTACATTTTTACCCCCAAACTTTCTAAAAATCCATTTTTAACCCGATTTCACCAAAAATTAC
CATTTTAACCCCGAACTTTCCAAAATTCCATTTTTAACTCCAATTTCACCAA
Found at i:3610925 original size:30 final size:29
Alignment explanation
Indices: 3610776--3610928 Score: 131
Period size: 29 Copynumber: 5.2 Consensus size: 29
3610766 GATTTCACCA
* *
3610776 AAAATTACCATTTT-ACGCCCGAACTTTCT
1 AAAATTACCATTTTAAC-CTCGAACTTTCC
*
3610805 AAAATT-CCATTTTTGACCTCG-A-TTTCAC
1 AAAATTACCA-TTTTAACCTCGAACTTTC-C
*
3610833 TAAAAATTACCATTTTACCCTCGAACTTTCC
1 --AAAATTACCATTTTAACCTCGAACTTTCC
*
3610864 AAAA-TCCCATTTTTAACCTCG-A-TTTCACC
1 AAAATTACCA-TTTTAACCTCGAACTTT--CC
3610893 AAAAGTTACCATTTTAACCTCGAACTTTCC
1 AAAA-TTACCATTTTAACCTCGAACTTTCC
3610923 AAAATT
1 AAAATT
3610929 TTATTTTTAA
Statistics
Matches: 102, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
27 7 0.07
28 9 0.09
29 35 0.34
30 34 0.33
31 10 0.10
32 7 0.07
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTAACCTCGAACTTTCC
Found at i:3611150 original size:15 final size:16
Alignment explanation
Indices: 3611130--3611161 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3611120 CATGTTTGTT
3611130 TCGTTTT-TTTGCTTA
1 TCGTTTTATTTGCTTA
3611145 TCGTTTTATTTGCTTA
1 TCGTTTTATTTGCTTA
3611161 T
1 T
3611162 TTATTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.66
Consensus pattern (16 bp):
TCGTTTTATTTGCTTA
Found at i:3615870 original size:9 final size:9
Alignment explanation
Indices: 3615856--3615894 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
3615846 AAACCCAAAT
*
3615856 AAAAAAGAG
1 AAAAAAGAA
3615865 AAAAAAGAA
1 AAAAAAGAA
3615874 AAAAAAGAA
1 AAAAAAGAA
* *
3615883 GAAGAAGAA
1 AAAAAAGAA
3615892 AAA
1 AAA
3615895 GTCAAGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:3616681 original size:5 final size:5
Alignment explanation
Indices: 3616668--3616742 Score: 50
Period size: 5 Copynumber: 15.0 Consensus size: 5
3616658 TTCAATGAAC
*
3616668 AAAAG AAAAT AAAA- AAGAAG AAGAA- AAAAG AAAA- ACAAA- AAAAG
1 AAAAG AAAAG AAAAG AA-AAG AA-AAG AAAAG AAAAG A-AAAG AAAAG
* * *
3616712 TAAAG AAAAAC AAAAA AAAAG AAAAG AAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG
3616743 GAGAGGTCGA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
4 8 0.14
5 42 0.72
6 8 0.14
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:3616700 original size:25 final size:24
Alignment explanation
Indices: 3616668--3616741 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
3616658 TTCAATGAAC
3616668 AAAAGAAAATAAAAAAGAAGAAGAA
1 AAAAGAAAA-AAAAAAGAAGAAGAA
3616693 AAAAGAAAAACAAAAA-AAGTAA-AGA
1 AAAAGAAAAA-AAAAAGAAG-AAGA-A
*
3616718 AAAA-CAAAAAAAAAGAA-AAGAA
1 AAAAGAAAAAAAAAAGAAGAAGAA
3616740 AA
1 AA
3616742 GGAGAGGTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
24 11 0.26
25 21 0.49
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (24 bp):
AAAAGAAAAAAAAAAGAAGAAGAA
Found at i:3616709 original size:26 final size:25
Alignment explanation
Indices: 3616668--3616742 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
3616658 TTCAATGAAC
*
3616668 AAAAG-AAAATAAAAAAGAAGAAGAA
1 AAAAGAAAAAAAAAAAAGAA-AAGAA
*
3616693 AAAAGAAAAACAAAAAAAGTAAAGAA
1 AAAAGAAAAA-AAAAAAAGAAAAGAA
3616719 AAACA-AAAAAAAAGAAAAGAAAAG
1 AAA-AGAAAAAAAA-AAAAGAAAAG
3616743 GAGAGGTCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 8 0.19
26 26 0.60
27 9 0.21
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (25 bp):
AAAAGAAAAAAAAAAAAGAAAAGAA
Found at i:3616730 original size:21 final size:19
Alignment explanation
Indices: 3616693--3616741 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 19
3616683 AGAAGAAGAA
3616693 AAAAGAAAAACAAAAAAAG
1 AAAAGAAAAACAAAAAAAG
*
3616712 TAAAGAAAAACAAAAAAAAAG
1 AAAAGAAAAAC--AAAAAAAG
3616733 AAAAGAAAA
1 AAAAGAAAA
3616742 GGAGAGGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
21 16 0.62
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAACAAAAAAAG
Found at i:3618791 original size:200 final size:200
Alignment explanation
Indices: 3618440--3619150 Score: 1041
Period size: 200 Copynumber: 3.5 Consensus size: 200
3618430 GTGAGATCGC
* * * * *
3618440 CATCTTCCTGATAAGATACAGAGAAGTAGGCCAACTCAAGGCTCAATGCGAGCAAATCTTCGAA-
1 CATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAACGCGAGCAAATCTTCGAAC
* *
3618504 CCAGCTTCCTGATGAGACACTGAAAAGCAGGTCGAAGCAATAAAAGGGTTAGCTTCCTGATAAGA
66 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGGTTAGCTTCCTGATGAGA
* *
3618569 CACAGAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGAGAAGCGAATTAAACCAAGCGAG
131 CACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAG
3618634 GTGGT
196 GTGGT
* *
3618639 CATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAATGCTCAACACGAGCAAATCTTCGAAC
1 CATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAACGCGAGCAAATCTTCGAAC
* * *
3618704 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCTTAATGAGA
66 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGGTTAGCTTCCTGATGAGA
* * *
3618769 CACAGAGAAGCT-GACTAAATTCGCCTTCCTGAGGAGATCCAGAGAAGTGAATTAAAACAAGCGA
131 CACAGAGAAG-TGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGA
* *
3618833 GGCGAT
195 GGTGGT
* *
3618839 CATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGTTCAACGCGAGCAAATCTTCGAAC
1 CATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAACGCGAGCAAATCTTCGAAC
* *
3618904 CCAGCTTCCTTATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGGTTAACTTCCTGATGAGA
66 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGGTTAGCTTCCTGATGAGA
* * *
3618969 TACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATTAAAACAATCGAG
131 CACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAG
3619034 GTGGT
196 GTGGT
* * * * *
3619039 CACCTTCCTGATGAGACACTGAGAAGAA-GACCAAATCAAACCAACGCTCAATGCGAGCAAATCT
1 CATCTTCCTGATGAGATACAGAGAAGAATG-CC-AA-C---TCAACGCTCAACGCGAGCAAATCT
*
3619103 TCGAACCCAGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAGTCAAT
60 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG-CAAT
3619151 GAAACTAATG
Statistics
Matches: 458, Mismatches: 44, Indels: 13
0.89 0.09 0.03
Matches are distributed among these distances:
199 59 0.13
200 329 0.72
201 3 0.01
202 1 0.00
205 62 0.14
206 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (200 bp):
CATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAACGCGAGCAAATCTTCGAAC
CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGGTTAGCTTCCTGATGAGA
CACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAG
GTGGT
Found at i:3619439 original size:17 final size:17
Alignment explanation
Indices: 3619417--3619453 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3619407 GTTTTTTCTA
*
3619417 AAATTTAAACTTAATAT
1 AAATTTAAACTTAAAAT
*
3619434 AAATTTAAATTTAAAAT
1 AAATTTAAACTTAAAAT
3619451 AAA
1 AAA
3619454 AATTAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTAAACTTAAAAT
Found at i:3619477 original size:20 final size:19
Alignment explanation
Indices: 3619447--3619492 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
3619437 TTTAAATTTA
3619447 AAATA-AAAATTAAATGTCC
1 AAATACAAAATTAAA-GTCC
3619466 AAATACAAAATTAAAGTCC
1 AAATACAAAATTAAAGTCC
*
3619485 AATTACAA
1 AAATACAA
3619493 GTCAAAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.59, C:0.13, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATACAAAATTAAAGTCC
Found at i:3620317 original size:15 final size:15
Alignment explanation
Indices: 3620297--3620329 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3620287 ATAACTATCT
*
3620297 TTAATAATAATATTA
1 TTAATAATAATAGTA
3620312 TTAATAATAATAGTA
1 TTAATAATAATAGTA
3620327 TTA
1 TTA
3620330 TAAAAAACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TTAATAATAATAGTA
Found at i:3621534 original size:30 final size:31
Alignment explanation
Indices: 3621476--3621550 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
3621466 AAACTTTTCC
* *
3621476 AAAATTATA-TTTTAACCTTAAAAATTTTTG
1 AAAATTACATTTTTAACCTTAAAAATTTTTA
* * *
3621506 TAAATTACATTTTTACCCTT-AAACTTTTTA
1 AAAATTACATTTTTAACCTTAAAAATTTTTA
3621536 AAAATT-CATTTTTAA
1 AAAATTACATTTTTAA
3621551 TCTCGATTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.22
30 20 0.54
31 9 0.24
ACGTcount: A:0.40, C:0.11, G:0.01, T:0.48
Consensus pattern (31 bp):
AAAATTACATTTTTAACCTTAAAAATTTTTA
Found at i:3621581 original size:59 final size:58
Alignment explanation
Indices: 3621507--3621871 Score: 380
Period size: 59 Copynumber: 6.2 Consensus size: 58
3621497 AAATTTTTGT
* ** *
3621507 AAATTA-CATTTTTACCCTTAAACTTTTTAAAAATTCATTTTTAATCTCGATTTCACCAA
1 AAATTACCA-TTTTACCCTCAAAC-TTTCCAAAATTCATTTTTAACCTCGATTTCACCAA
* *
3621566 AAATTACCATTTTACCC-CTAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACTAA
1 AAATTACCATTTTACCCTC-AAACTTTCCAAAATT-CATTTTTAACCTCGATTTCACCAA
* *
3621625 AAAATACCATTTTACCC-CGAACTTTCCAAAATCTCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTACCCTCAAACTTTCCAAAAT-TCATTTTTAACCTCGATTTCACCAA
* * * * *
3621683 AAACTACCATTTTACCCCCGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTACCCTCAAACTTTCCAAAAT-TCATTTTTAACCTCGATTTCACCAA
* * *
3621742 AAATTACCAATTTACCCTCGAACTTTCCAAAATTCTATTTTTAACC-CTAATTTCACCAA
1 AAATTACCATTTTACCCTCAAACTTTCCAAAATTC-ATTTTTAACCTC-GATTTCACCAA
*** * * * * * *
3621801 AAATTATGTTTTTGCCCTCAAACTTTCTAAAAATTTA-TTTTAACCCCGATTTTATCAA
1 AAATTACCATTTTACCCTCAAACTTTC-CAAAATTCATTTTTAACCTCGATTTCACCAA
*
3621859 AAATTACTATTTT
1 AAATTACCATTTT
3621872 GCCCCCGGGT
Statistics
Matches: 264, Mismatches: 33, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
58 88 0.33
59 168 0.64
60 8 0.03
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (58 bp):
AAATTACCATTTTACCCTCAAACTTTCCAAAATTCATTTTTAACCTCGATTTCACCAA
Found at i:3621626 original size:29 final size:28
Alignment explanation
Indices: 3621594--3621743 Score: 80
Period size: 29 Copynumber: 5.1 Consensus size: 28
3621584 TAAACTTTCC
*
3621594 AAAATTCCATTTTTGACCTCGATTTCACT
1 AAAATACCATTTTT-ACCTCGATTTCACT
*
3621623 AAAAAATACCA-TTTTACCCCGAACTTTC-C-
1 --AAAATACCATTTTTACCTCG-A-TTTCACT
*
3621652 AAAAT-CTCATTTTTAACCTCGATTTCACCA
1 AAAATAC-CATTTTT-ACCTCGATTTCA-CT
*
3621682 AAAACTACCA-TTTTACCCCCGAACTTT--CT
1 AAAA-TACCATTTTTA-CCTCG-A-TTTCACT
* *
3621711 AAAATCCCATTTTTAACCTCGATTTCACC
1 AAAATACCATTTTT-ACCTCGATTTCACT
3621740 AAAA
1 AAAA
3621744 ATTACCAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 36
0.68 0.06 0.26
Matches are distributed among these distances:
26 1 0.01
27 14 0.15
28 10 0.11
29 30 0.32
30 19 0.20
31 16 0.17
32 4 0.04
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATACCATTTTTACCTCGATTTCACT
Found at i:3621676 original size:117 final size:117
Alignment explanation
Indices: 3621536--3621806 Score: 402
Period size: 117 Copynumber: 2.3 Consensus size: 117
3621526 AAACTTTTTA
* * *
3621536 AAAATTCATTTTTAATCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTC
1 AAAATTCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCC
* * *
3621601 CATTTTTGACCTCGATTTCACTAAAAAATACCATTTTACCC-CGAACTTTCC
66 CATTTTTAACCTCGATTTCACCAAAAAATACCAATTTACCCTCGAACTTTCC
* * *
3621652 AAAATCTCATTTTTAACCTCGATTTCACCAAAAACTACCATTTTACCCCCGAACTTTCTAAAATC
1 AAAAT-TCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATC
*
3621717 CCATTTTTAACCTCGATTTCACCAAAAATTACCAATTTACCCTCGAACTTTCC
65 CCATTTTTAACCTCGATTTCACCAAAAAATACCAATTTACCCTCGAACTTTCC
*
3621770 AAAATTCTATTTTTAACC-CTAATTTCACCAAAAATTA
1 AAAATTC-ATTTTTAACCTC-GATTTCACCAAAAATTA
3621807 TGTTTTTGCC
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
116 5 0.04
117 94 0.68
118 40 0.29
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (117 bp):
AAAATTCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCC
CATTTTTAACCTCGATTTCACCAAAAAATACCAATTTACCCTCGAACTTTCC
Found at i:3621784 original size:29 final size:29
Alignment explanation
Indices: 3621634--3621789 Score: 76
Period size: 30 Copynumber: 5.3 Consensus size: 29
3621624 AAAAATACCA
3621634 TTTTACCC-CGAACTTTCCAAAA-TCTCAT
1 TTTTACCCTCGAACTTTCCAAAATTCT-AT
* * *
3621662 TTTTAACCTCG-A-TTTCACCAAAA-ACTACCA
1 TTTTACCCTCGAACTTT--CCAAAATTCTA--T
* * * *
3621692 TTTTACCCCCGAACTTTCTAAAATCCCAT
1 TTTTACCCTCGAACTTTCCAAAATTCTAT
* *
3621721 TTTTAACCTCG-A-TTTCACCAAAAATTACCA-
1 TTTTACCCTCGAACTTT--CC-AAAATT-CTAT
*
3621751 ATTTACCCTCGAACTTTCCAAAATTCTAT
1 TTTTACCCTCGAACTTTCCAAAATTCTAT
3621780 TTTTAACCCT
1 TTTT-ACCCT
3621790 AATTTCACCA
Statistics
Matches: 95, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
27 6 0.06
28 12 0.13
29 29 0.31
30 35 0.37
31 7 0.07
32 6 0.06
ACGTcount: A:0.31, C:0.30, G:0.03, T:0.35
Consensus pattern (29 bp):
TTTTACCCTCGAACTTTCCAAAATTCTAT
Found at i:3621844 original size:176 final size:176
Alignment explanation
Indices: 3621542--3621878 Score: 421
Period size: 176 Copynumber: 1.9 Consensus size: 176
3621532 TTTAAAAATT
* *
3621542 CATTTTTAATCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTT
1 CATTTTTAACCTCGATTTCACCAAAAATTACCAATTTACCCCTAAACTTTCCAAAATTCCATTTT
* * * * * *
3621607 TGACCTCGATTTCACTAAAAAATACCATTTTACCCCGAACTTTCCAAAATCTCATTTTTAACCTC
66 TAACCTCAATTTCACCAAAAAATACCATTTTACCCCAAACTTTCAAAAATCTCATTTTTAACCCC
3621672 GATTTCACCAAAAACTACCATTTTACCCCCGAACTTTCTAAAATCC
131 GATTTCACCAAAAACTACCATTTTACCCCCGAACTTTCTAAAATCC
* *
3621718 CATTTTTAACCTCGATTTCACCAAAAATTACCAATTTA-CCCTCGAACTTTCCAAAATTCTATTT
1 CATTTTTAACCTCGATTTCACCAAAAATTACCAATTTACCCCT-AAACTTTCCAAAATTCCATTT
* *** * *
3621782 TTAACC-CTAATTTCACCAAAAATTATGTTTTTGCCCTCAAACTTTCTAAAAAT-TTA-TTTTAA
65 TTAACCTC-AATTTCACCAAAAAATACCATTTTACCC-CAAACTTTC-AAAAATCTCATTTTTAA
* * * * *
3621844 CCCCGATTTTATCAAAAATTACTATTTTGCCCCCG
127 CCCCGATTTCACCAAAAACTACCATTTTACCCCCG
3621879 GGTATCCAAA
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
175 5 0.04
176 116 0.85
177 10 0.07
178 5 0.04
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (176 bp):
CATTTTTAACCTCGATTTCACCAAAAATTACCAATTTACCCCTAAACTTTCCAAAATTCCATTTT
TAACCTCAATTTCACCAAAAAATACCATTTTACCCCAAACTTTCAAAAATCTCATTTTTAACCCC
GATTTCACCAAAAACTACCATTTTACCCCCGAACTTTCTAAAATCC
Found at i:3625767 original size:12 final size:12
Alignment explanation
Indices: 3625750--3625775 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3625740 TGACATGTAG
3625750 TATCATATATTA
1 TATCATATATTA
3625762 TATCATATATTA
1 TATCATATATTA
3625774 TA
1 TA
3625776 AGAGAGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TATCATATATTA
Found at i:3625893 original size:13 final size:13
Alignment explanation
Indices: 3625874--3625919 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
3625864 ATTATAGTAA
3625874 AATTTAATTTTAT
1 AATTTAATTTTAT
* *
3625887 TATTTAATTTAAT
1 AATTTAATTTTAT
3625900 AATTTATATATTTAT
1 AATTTA-AT-TTTAT
3625915 AATTT
1 AATTT
3625920 TGAAAAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 2 0.07
15 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTTAATTTTAT
Found at i:3632722 original size:11 final size:11
Alignment explanation
Indices: 3632691--3632727 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
3632681 TCCACCTTTC
*
3632691 TTTTTCTTTAG
1 TTTTTCTTTTG
3632702 TTTTTCTTTTG
1 TTTTTCTTTTG
*
3632713 TTTTTCTTTTA
1 TTTTTCTTTTG
3632724 TTTT
1 TTTT
3632728 CTCAAGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTG
Found at i:3633367 original size:21 final size:20
Alignment explanation
Indices: 3633316--3633367 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
3633306 ACTTTGACTA
* *
3633316 TTGACCATTGATTTTGATCG
1 TTGACCATTGATGTTGACCG
3633336 TTGA-CAGTTGATAGTTGACCG
1 TTGACCA-TTGAT-GTTGACCG
3633357 TTGACCATTGA
1 TTGACCATTGA
3633368 CTTTAACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.33
21 14 0.52
22 2 0.07
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGACCATTGATGTTGACCG
Found at i:3639347 original size:29 final size:28
Alignment explanation
Indices: 3639294--3639350 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
3639284 AGTTTATATA
* *
3639294 ATTTTAAGTTAGTAAATATTAAAATTAT
1 ATTTTAAATTAGTAAAGATTAAAATTAT
3639322 ATTTTAAATATAGTAAAGA-TATAAATTAT
1 ATTTTAAAT-TAGTAAAGATTA-AAATTAT
3639351 TAAAATGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (28 bp):
ATTTTAAATTAGTAAAGATTAAAATTAT
Found at i:3640267 original size:19 final size:19
Alignment explanation
Indices: 3640245--3640289 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3640235 TTTTATTAGG
3640245 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
3640264 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
3640283 ATTTAAT
1 ATTTAAT
3640290 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:3641111 original size:16 final size:16
Alignment explanation
Indices: 3641090--3641124 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3641080 CTATTTTCTA
3641090 TTTCTTTTAATTTTGT
1 TTTCTTTTAATTTTGT
3641106 TTTCTTTTAATTTTGT
1 TTTCTTTTAATTTTGT
3641122 TTT
1 TTT
3641125 TCCCCAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTCTTTTAATTTTGT
Found at i:3642441 original size:52 final size:52
Alignment explanation
Indices: 3642311--3642454 Score: 164
Period size: 52 Copynumber: 2.8 Consensus size: 52
3642301 AATCCGGTAC
* * * * *
3642311 TTATGTACTAACGAGTTAATACACACTTTGGTGCGACGAGCATAATGATACT
1 TTATGTACTGACGAGTTAACACGCACTTTGGTGAGACGAGCATAACGATACT
* * * *
3642363 TTATGTACTGATGAGTTAAGACGCACTTTGGTGAGACGAGCATTACGGTACT
1 TTATGTACTGACGAGTTAACACGCACTTTGGTGAGACGAGCATAACGATACT
* * *
3642415 TTGTGTACTGACGAGTTACCATGCACTTTGGT-ACGACGAG
1 TTATGTACTGACGAGTTAACACGCACTTTGGTGA-GACGAG
3642455 TATTGTTCCG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 1 0.01
52 77 0.99
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (52 bp):
TTATGTACTGACGAGTTAACACGCACTTTGGTGAGACGAGCATAACGATACT
Found at i:3642965 original size:22 final size:24
Alignment explanation
Indices: 3642940--3642987 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
3642930 AGTATGGTAC
*
3642940 TTACAAG-AATTTTTATG-AGATT
1 TTACAAGTAATTTTGATGCAGATT
*
3642962 TTACAAGTGATTTTGATGCAGATT
1 TTACAAGTAATTTTGATGCAGATT
3642986 TT
1 TT
3642988 TGAGGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (24 bp):
TTACAAGTAATTTTGATGCAGATT
Found at i:3648618 original size:23 final size:23
Alignment explanation
Indices: 3648575--3648619 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3648565 GCTAGCGCGC
*
3648575 TTACTATTTCTCACTTCGTGTGG
1 TTACTATTTCGCACTTCGTGTGG
*
3648598 TTACTGTTTCGCACCTT-GTGTG
1 TTACTATTTCGCA-CTTCGTGTG
3648620 CCTACTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (23 bp):
TTACTATTTCGCACTTCGTGTGG
Found at i:3648664 original size:45 final size:45
Alignment explanation
Indices: 3648614--3648716 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
3648604 TTTCGCACCT
**
3648614 TGTGTGCCTACTGATTTGCGTTATGTGCGCCTACT-GATTGCACTG
1 TGTGTGCCTACTGA-TTGCACTATGTGCGCCTACTGGATTGCACTG
* *
3648659 TGTGTGCCTACTGATTGCACTGTGTGTGCCTACTGGATTGCACTG
1 TGTGTGCCTACTGATTGCACTATGTGCGCCTACTGGATTGCACTG
* *
3648704 TGCGTGCTTACTG
1 TGTGTGCCTACTG
3648717 TTTCCCCATC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 16 0.31
45 35 0.69
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (45 bp):
TGTGTGCCTACTGATTGCACTATGTGCGCCTACTGGATTGCACTG
Found at i:3648701 original size:23 final size:22
Alignment explanation
Indices: 3648614--3648716 Score: 134
Period size: 22 Copynumber: 4.6 Consensus size: 22
3648604 TTTCGCACCT
** *
3648614 TGTGTGCCTACTGATTTGCGTTA
1 TGTGTGCCTACTGA-TTGCACTG
*
3648637 TGTGCGCCTACTGATTGCACTG
1 TGTGTGCCTACTGATTGCACTG
3648659 TGTGTGCCTACTGATTGCACTG
1 TGTGTGCCTACTGATTGCACTG
3648681 TGTGTGCCTACTGGATTGCACTG
1 TGTGTGCCTACT-GATTGCACTG
* *
3648704 TGCGTGCTTACTG
1 TGTGTGCCTACTG
3648717 TTTCCCCATC
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
22 39 0.54
23 33 0.46
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (22 bp):
TGTGTGCCTACTGATTGCACTG
Found at i:3651632 original size:18 final size:17
Alignment explanation
Indices: 3651609--3651642 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
3651599 AAATGAAGAG
3651609 AAGGAGAAAGACAAAGGT
1 AAGGAGAAAG-CAAAGGT
3651627 AAGGAGAAAGCAAAGG
1 AAGGAGAAAGCAAAGG
3651643 AAATTACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.06, G:0.35, T:0.03
Consensus pattern (17 bp):
AAGGAGAAAGCAAAGGT
Found at i:3651950 original size:52 final size:52
Alignment explanation
Indices: 3651877--3652003 Score: 173
Period size: 52 Copynumber: 2.4 Consensus size: 52
3651867 GAGTAATCCA
*
3651877 GTACTTTATGTACTGATGAGTTAATACACACTTTGGTGCGACGAGCATAACG
1 GTACTTTATGTACTGACGAGTTAATACACACTTTGGTGCGACGAGCATAACG
* * ** * *
3651929 GTACTGTATGTATTGACGAGTTAATATGCACTTTGGTGCGATGAGCATTACG
1 GTACTTTATGTACTGACGAGTTAATACACACTTTGGTGCGACGAGCATAACG
* *
3651981 GTACTTTGTGAACTGACGAGTTA
1 GTACTTTATGTACTGACGAGTTA
3652004 TGCACTTTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (52 bp):
GTACTTTATGTACTGACGAGTTAATACACACTTTGGTGCGACGAGCATAACG
Found at i:3652231 original size:15 final size:15
Alignment explanation
Indices: 3652211--3652240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3652201 GTGATGATTA
3652211 TATGTGAAATACATG
1 TATGTGAAATACATG
*
3652226 TATGTGATATACATG
1 TATGTGAAATACATG
3652241 AGAACTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (15 bp):
TATGTGAAATACATG
Found at i:3652235 original size:22 final size:23
Alignment explanation
Indices: 3652179--3652235 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
3652169 TTACATGTTA
*
3652179 TATGTGATATGATGTGAATCATG
1 TATGTGATATGATGTAAATCATG
*
3652202 TGATGATTATATG-TG-AAATACATG
1 T-ATG-TGATATGATGTAAAT-CATG
3652226 TATGTGATAT
1 TATGTGATAT
3652236 ACATGAGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 10 0.36
25 6 0.21
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (23 bp):
TATGTGATATGATGTAAATCATG
Found at i:3652236 original size:24 final size:22
Alignment explanation
Indices: 3652179--3652236 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 22
3652169 TTACATGTTA
3652179 TATGTGATATGATGTGAATCATG
1 TATGTGATAT-ATGTGAATCATG
3652202 --TGATGATTATATGTGAAATACATG
1 TATG-TGA-TATATGTG-AAT-CATG
3652226 TATGTGATATA
1 TATGTGATATA
3652237 CATGAGAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
21 2 0.07
22 8 0.28
23 6 0.21
24 8 0.28
25 3 0.10
26 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (22 bp):
TATGTGATATATGTGAATCATG
Found at i:3652580 original size:22 final size:24
Alignment explanation
Indices: 3652555--3652602 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
3652545 AGTATGGCAC
*
3652555 TTACAAG-AATTTTTATG-AGATT
1 TTACAAGTAATTTTGATGCAGATT
*
3652577 TTACAAGTGATTTTGATGCAGATT
1 TTACAAGTAATTTTGATGCAGATT
3652601 TT
1 TT
3652603 TGAGGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (24 bp):
TTACAAGTAATTTTGATGCAGATT
Found at i:3655374 original size:29 final size:29
Alignment explanation
Indices: 3655318--3655507 Score: 235
Period size: 29 Copynumber: 6.5 Consensus size: 29
3655308 TCTCGGGGGC
* *
3655318 AAAATGATAATTTTAGGAAATTT-GGGGT-
1 AAAATG-TAATTTTTGGAAGTTTAGGGGTA
* *
3655346 AAAATGGTAATTTTTGAAAGTTTCGGGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTAGGGGT-A
*
3655377 AAAATGTAATTTTTGGAAGTTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
3655406 AAAATGTAATTTTTGGAAGTTTAGGGGTA
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
3655435 AAAA-GTAATTTTTGGAAGTTTTA-GGGTCA
1 AAAATGTAATTTTTGGAAG-TTTAGGGGT-A
* *
3655464 AAAATGTAATTTTTGGAAGTTTAAGGGTC
1 AAAATGTAATTTTTGGAAGTTTAGGGGTA
*
3655493 AAAATATAATTTTTG
1 AAAATGTAATTTTTG
3655508 AATAGCTTAG
Statistics
Matches: 146, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
28 36 0.25
29 66 0.45
30 39 0.27
31 5 0.03
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTAGGGGTA
Found at i:3655400 original size:58 final size:57
Alignment explanation
Indices: 3655258--3655507 Score: 253
Period size: 58 Copynumber: 4.4 Consensus size: 57
3655248 AGATACTCAC
** * * *
3655258 GGGG-CAAAATAGTAA-TTTTGGATTTTTGGGGT-AAAATGGTAA-TTTT-GAACTCTC
1 GGGGTCAAAAT-GTAATTTTTGGAAGTTTGGGGTAAAAAT-GTAATTTTTGGAAGTTTA
* * * * *
3655312 GGGGGCAAAATGATAATTTTAGGAAATTTGGGGT-AAAATGGTAATTTTTGAAAGTTTC
1 GGGGTCAAAATG-TAATTTTTGGAAGTTTGGGGTAAAAAT-GTAATTTTTGGAAGTTTA
3655370 GGGGTCAAAAATGTAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTA
1 GGGGTC-AAAATGTAATTTTTGGAAGTTT-GGGGTAAAAATGTAATTTTTGGAAGTTTA
* *
3655429 GGGGT-AAAAAGTAATTTTTGGAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAGTTTA
1 GGGGTCAAAATGTAATTTTTGGAAG-TTTGGGGT-AAAAATGTAATTTTTGGAAGTTTA
* *
3655487 AGGGTCAAAATATAATTTTTG
1 GGGGTCAAAATGTAATTTTTG
3655508 AATAGCTTAG
Statistics
Matches: 169, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
54 5 0.03
55 9 0.05
56 24 0.14
57 26 0.15
58 55 0.33
59 45 0.27
60 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (57 bp):
GGGGTCAAAATGTAATTTTTGGAAGTTTGGGGTAAAAATGTAATTTTTGGAAGTTTA
Found at i:3655506 original size:87 final size:87
Alignment explanation
Indices: 3655317--3655507 Score: 267
Period size: 87 Copynumber: 2.2 Consensus size: 87
3655307 CTCTCGGGGG
* * *
3655317 CAAAATGATAATTTTAGGAAATTTGGGGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAAT
1 CAAAAT-ATAATTTTTGGAAATTTGGGGTAAAATAGTAATTTTTGAAAGTTTCAGGGTCAAAAAT
**
3655382 GTAATTTTTGGAAGTTTGGGGGT
65 GTAATTTTTGGAAGTTTAAGGGT
* * * * *
3655405 AAAAATGTAATTTTTGGAAGTTTAGGGGTAAAA-AGTAATTTTTGGAAGTTTTAGGGTCAAAAAT
1 CAAAATATAATTTTTGGAAATTT-GGGGTAAAATAGTAATTTTTGAAAGTTTCAGGGTCAAAAAT
3655469 GTAATTTTTGGAAGTTTAAGGGT
65 GTAATTTTTGGAAGTTTAAGGGT
3655492 CAAAATATAATTTTTG
1 CAAAATATAATTTTTG
3655508 AATAGCTTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
87 76 0.84
88 14 0.16
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (87 bp):
CAAAATATAATTTTTGGAAATTTGGGGTAAAATAGTAATTTTTGAAAGTTTCAGGGTCAAAAATG
TAATTTTTGGAAGTTTAAGGGT
Found at i:3655519 original size:29 final size:29
Alignment explanation
Indices: 3655317--3655507 Score: 208
Period size: 30 Copynumber: 6.6 Consensus size: 29
3655307 CTCTCGGGGG
* * *
3655317 CAAAATGATAATTTTAGGAAATTT-GGGGT
1 CAAAATG-TAATTTTTGGAAGTTTAAGGGT
* **
3655346 -AAAATGGTAATTTTTGAAAGTTTCGGGGT
1 CAAAAT-GTAATTTTTGGAAGTTTAAGGGT
**
3655375 CAAAAATGTAATTTTTGGAAGTTTGGGGGT
1 C-AAAATGTAATTTTTGGAAGTTTAAGGGT
* *
3655405 AAAAATGTAATTTTTGGAAGTTTAGGGGT
1 CAAAATGTAATTTTTGGAAGTTTAAGGGT
* *
3655434 -AAAAAGTAATTTTTGGAAGTTTTAGGGT
1 CAAAATGTAATTTTTGGAAGTTTAAGGGT
3655462 CAAAAATGTAATTTTTGGAAGTTTAAGGGT
1 C-AAAATGTAATTTTTGGAAGTTTAAGGGT
*
3655492 CAAAATATAATTTTTG
1 CAAAATGTAATTTTTG
3655508 AATAGCTTAG
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
28 43 0.30
29 47 0.33
30 48 0.34
31 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (29 bp):
CAAAATGTAATTTTTGGAAGTTTAAGGGT
Found at i:3656524 original size:22 final size:21
Alignment explanation
Indices: 3656489--3656547 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
3656479 TCTTTATTTT
* *
3656489 TATTTATTAATATTACCAAAAA
1 TATTTATTATTATTA-AAAAAA
*
3656511 TATTTAATATTATTAAAAAAA
1 TATTTATTATTATTAAAAAAA
3656532 T-TATTATTATTATTAA
1 TAT-TTATTATTATTAA
3656548 CATTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.03
21 18 0.56
22 13 0.41
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTTATTATTATTAAAAAAA
Found at i:3656528 original size:19 final size:18
Alignment explanation
Indices: 3656494--3656571 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 18
3656484 ATTTTTATTT
**
3656494 ATTAATATTACCAAAAATA
1 ATTAATATTATTAAAAA-A
*
3656513 TTTAATATTATTAAAAAA
1 ATTAATATTATTAAAAAA
* ** *
3656531 ATTATTATTATTATTAAC
1 ATTAATATTATTAAAAAA
*
3656549 ATTAATTATTACTAATAAAA
1 ATTAA-TATTATTAA-AAAA
3656569 ATT
1 ATT
3656572 GTTTAATGTA
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
18 18 0.41
19 21 0.48
20 5 0.11
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAATATTATTAAAAAA
Found at i:3656532 original size:21 final size:21
Alignment explanation
Indices: 3656492--3656547 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 21
3656482 TTATTTTTAT
** *
3656492 TTATTAATATTACCAAAAATA
1 TTATTAATATTATTAAAAAAA
3656513 -T-TTAATATTATTAAAAAAA
1 TTATTAATATTATTAAAAAAA
*
3656532 TTATTATTATTATTAA
1 TTATTAATATTATTAA
3656548 CATTAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 15 0.52
20 2 0.07
21 12 0.41
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATTAATATTATTAAAAAAA
Found at i:3659177 original size:15 final size:15
Alignment explanation
Indices: 3659159--3659198 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
3659149 TCTTTTTTCT
3659159 TTTTCTTTTTTTCAA-
1 TTTT-TTTTTTTCAAC
3659174 TTTTTTTCTTTTCAAC
1 TTTTTTT-TTTTCAAC
3659190 TTTTTTTTT
1 TTTTTTTTT
3659199 CTAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.13
15 13 0.57
16 7 0.30
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTTTCAAC
Found at i:3660134 original size:5 final size:5
Alignment explanation
Indices: 3660124--3660184 Score: 59
Period size: 5 Copynumber: 10.8 Consensus size: 5
3660114 AGTGCATAAT
3660124 TAAAA TAAAA TTAAAAA TAAAA TAAAA TAAAA CTAAAAA TGAAAA TAAAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA -T-AAAA T-AAAA T-AAAA
3660175 TGAAAA TAAA
1 T-AAAA TAAA
3660185 GATACTACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 22 0.45
6 19 0.39
7 8 0.16
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Done.