Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 119 of 170
Found at i:36485036 original size:23 final size:22
Alignment explanation
Indices: 36484993--36485050 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
36484983 AAAAGGTATC
* *
36484993 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
36485014 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
36485037 TGCATATCATATCT
1 TACAAATCATATCT
36485051 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:36485053 original size:19 final size:19
Alignment explanation
Indices: 36485029--36485101 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
36485019 AATCATATCT
36485029 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
36485048 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
36485067 TCTAAGATTACATATGATA
1 TCTAAGATTGCATATCATA
36485086 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
36485102 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:36485616 original size:45 final size:45
Alignment explanation
Indices: 36485562--36486083 Score: 205
Period size: 45 Copynumber: 11.9 Consensus size: 45
36485552 GATTTGTTTA
* * * *
36485562 TTTAGTCTGCCCCACTGTAATTTCAGGGGGATAAGACTTGATTTC
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTC
*
36485607 TTTAGTCTGCTCCACTGCAACTTT-AGGGAGATAAGACTCGCTTTC
1 TTTAGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATTTC
** * * *
36485652 TTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTC
* * * * *
36485696 --GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG-TGAT-
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTC-GAT-TTC
* ** * * *
36485736 TTTAATCCACTCCACTGCAACTTT-AGGGAGATAGGA-T-TATTGGC
1 TTTAGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATT-TC
* * * * * * ***
36485780 TTTAATATGCTCTACTGCAACTTCAAGGAGATAAGATTCGCCATC
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTC
* * * * * * *
36485825 TTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTAC
1 TTTAGTCTGCTC-CACTGCAATTTCAGGGA-GATAAGACTCGATTTC
* *
36485870 -TTAGTCTGCTCCACTGCAACTTT-AGGGAGATAAGACTAGA-TGC
1 TTTAGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATTTC
* * * * * ** *
36485913 --GA-TCTG-TTCTCTACAACTTCATAGAGATAAGA-TCTG-TGAT-
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTC-GAT-TTC
* * ** * *
36485953 TTTAATCCGCTCCACTGTGACTTCAGGGAGATAAGA-T-TATTGTC
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATT-TC
* * * *
36485997 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTCGCTTTC
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTC
** * * *
36486042 TTGGGTTTGCTCCACTGCAACTTCAGGGAGATAAGACCCGAT
1 TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGAT
36486084 GCGATCTGCT
Statistics
Matches: 352, Mismatches: 91, Indels: 68
0.69 0.18 0.13
Matches are distributed among these distances:
39 4 0.01
40 41 0.12
41 10 0.03
42 4 0.01
43 14 0.04
44 129 0.37
45 145 0.41
46 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
TTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTC
Found at i:36485902 original size:44 final size:44
Alignment explanation
Indices: 36485527--36485903 Score: 172
Period size: 44 Copynumber: 8.6 Consensus size: 44
36485517 TTCTAATCCA
* * * * *
36485527 CTCCACTACAACTTTAGGGAGAT-GGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGG-CTTGATTACTTAGTCTG
* * * * *
36485571 CCCCACTGTAA-TTTCAGGGGGATAAGACTTGATTTCTTTAGTCTG
1 CTCCACTGCAACTTT-AGGGAGATAAGGCTTGATTAC-TTAGTCTG
* * * * *
36485616 CTCCACTGCAACTTTAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGCTTGATTACTT-AGTCTG
* * ** * *
36485661 CTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC-GA-TCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGCTTGATTACTTAGTCTG
* * * * * **
36485702 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCCA
1 CTCCACTGCAACTTTAGGGAGATAAG-GCT-TGATTACTTAGTCTG
* * * *
36485745 CTCCACTGCAACTTTAGGGAGAT-AGGATT-ATTGGCTTTAATATG
1 CTCCACTGCAACTTTAGGGAGATAAGGCTTGATT-AC-TTAGTCTG
* * * *
36485789 CTCTACTGCAACTTCAAGGAGATAA-GATTCGCCA-T-CTTCAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGCTT-G--ATTACTT-AGTCTG
* * *
36485834 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTTAGGGA-GATAAGGCTTGATTACTTAGTCTG
36485878 CTCCACTGCAACTTTAGGGAGATAAG
1 CTCCACTGCAACTTTAGGGAGATAAG
36485904 ACTAGATGCG
Statistics
Matches: 256, Mismatches: 49, Indels: 56
0.71 0.14 0.16
Matches are distributed among these distances:
40 24 0.09
41 8 0.03
42 4 0.02
43 10 0.04
44 101 0.39
45 101 0.39
46 6 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGGCTTGATTACTTAGTCTG
Found at i:36485968 original size:84 final size:83
Alignment explanation
Indices: 36485877--36486158 Score: 275
Period size: 84 Copynumber: 3.3 Consensus size: 83
36485867 TACTTAGTCT
*
36485877 GCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGTTCTCTACAACTTCATAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTACAACTTCA-AGAGATA
36485942 AGATCTGTGATTTTAATCC
65 AGATCTGTGATTTTAATCC
** * * * * * *
36485961 GCTCCACTGTGACTTCAGGGAGATAAGATTA-TTGTCTTTAATCTGCTCCACTGCAACTTCAAGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATG-C---GATCTG-TTCTCTACAACTTCAA-G
** **
36486025 AGATAAGA-CTCGCT--TTCTTGGGTTT
60 AGATAAGATCT-G-TGATT-TT-AATCC
** *
36486050 GCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTACAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTACAACTTCA-AGAGATA
36486115 AGATCTGTGATTTTAATCC
65 AGATCTGTGATTTTAATCC
*
36486134 ACTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
36486159 GGATTATTGG
Statistics
Matches: 154, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
83 2 0.01
84 54 0.35
85 23 0.15
86 10 0.06
87 10 0.06
88 24 0.16
89 29 0.19
90 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (83 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTACAACTTCAAGAGATAA
GATCTGTGATTTTAATCC
Found at i:36485985 original size:173 final size:173
Alignment explanation
Indices: 36485793--36486205 Score: 508
Period size: 173 Copynumber: 2.4 Consensus size: 173
36485783 AATATGCTCT
* * *
36485793 ACTGCAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTACAACTTC-AGGAGGA
1 ACTGCAACTTCAGGGAGATAAGATT-ACCATCTTCAATCTGCTC-CACTACAACTTCAAGGA-GA
* * * * *
36485856 TAAGGCTTGCTTACTT-AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGT
63 TAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGC
* *
36485920 TCTCTACAACTTCATAGAGATAAGATCTGTGATTTTAATCCGCTCC
128 TCTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
** *** * *
36485966 ACTGTGACTTCAGGGAGATAAGATTATTGTCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTACCATCTTCAATCTGCTCCACTACAACTTCAAGGAGATAA
* * * *
36486031 GACTCGCTTTCTTGGGTTTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCT
66 GACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCT
36486096 CTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
131 CTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
* **** * * **
36486139 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTATAACTTCTGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTACCATCTTCAATCTGCTCCACTACAACTTCAAGGAGATAA
36486204 GA
66 GA
36486206 TTCACCATAT
Statistics
Matches: 208, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
172 36 0.17
173 172 0.83
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (173 bp):
ACTGCAACTTCAGGGAGATAAGATTACCATCTTCAATCTGCTCCACTACAACTTCAAGGAGATAA
GACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCT
CTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
Found at i:36486065 original size:217 final size:218
Alignment explanation
Indices: 36485520--36486078 Score: 685
Period size: 217 Copynumber: 2.6 Consensus size: 218
36485510 AGAGAAATTC
* * ** *** * * * *
36485520 TAATCCACTCCACTACAACTTTAGGGAGATGGGATT-TGTTTATTTAGTCTGCCCCACTGTAATT
1 TAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAT-TGGCTTTAATCTGCTCCACTGCAACT
* * * * * *
36485584 TCAGGGGGATAAGACTTGATTTCTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTCGCT
65 TCAAGGAGATAAGACTCGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCT
* * * *
36485649 TTCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACT
130 TACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTACAACT
36485714 TCAGAGAGATAAGATCTGTGATTT
195 TCAGAGAGATAAGATCTGTGATTT
* * * *
36485738 TAATCCACTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATATGCTCTACTGCAACTT
1 TAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTT
* ** * * *
36485803 CAAGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGC
66 CAAGGAGATAAGACTCGCTTTCTTCAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGC
* * *
36485866 TTACTT-AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGTTCTCTACAAC
129 TTACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTACAAC
*
36485930 TTCATAGAGATAAGATCTGTGATTT
194 TTCAGAGAGATAAGATCTGTGATTT
* ** *
36485955 TAATCCGCTCCACTGTGACTTCAGGGAGATAAGATTATTGTCTTTAATCTGCTCCACTGCAACTT
1 TAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTT
** *
36486020 CAAGGAGATAAGACTCGCTTTCTTGGGTTTGCTCCACTGCAACTTCAGGGAGATAAGAC
66 CAAGGAGATAAGACTCGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
36486079 CCGATGCGAT
Statistics
Matches: 289, Mismatches: 47, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
217 182 0.63
218 106 0.37
219 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (218 bp):
TAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTT
CAAGGAGATAAGACTCGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT
ACTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTACAACTT
CAGAGAGATAAGATCTGTGATTT
Found at i:36486149 original size:217 final size:217
Alignment explanation
Indices: 36485656--36486207 Score: 526
Period size: 217 Copynumber: 2.5 Consensus size: 217
36485646 GCTTTCTTGG
* * ** * * *
36485656 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCT-CTCTGCAACTTCAGAG
1 GTCTGCTCCACTACAACTTCAGAGAGATAAGACTAGATGCAATC-ACTCCACTGCAACTTCAGAG
* * * *
36485720 AGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAA
65 AGATAAGATCTGTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTATTGGCTTTAA
* *
36485785 TATGCTCTACTGCAACTTCAAGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCA
130 TATGCTCCACTGCAACTTCAAGGAGATAAGACTCGCCATCTTCAGTCTGCCTCACTACAACTTCA
* ** * *
36485850 GGAGGATAAGGCTTGCTTACTTA
195 GGAGGATAAGACCCGCATACTGA
* * * * ** * * * *
36485873 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGTTCTCTACAACTTCATAGA
1 GTCTGCTCCACTACAACTTCAGAGAGATAAGACTAGATGCAATCACTCCACTGCAACTTCAGAGA
* *
36485938 GATAAGATCTGTGATTTTAATCCGCTCCACTGTGACTTCAGGGAGATAAGATTATTGTCTTTAAT
66 GATAAGATCTGTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTATTGGCTTTAAT
* ** ** * *
36486003 CTGCTCCACTGCAACTTCAAGGAGATAAGACTCGCTTTCTTGGGTTTG-CTCCACTGCAACTTCA
131 ATGCTCCACTGCAACTTCAAGGAGATAAGACTCGCCATCTTCAGTCTGCCT-CACTACAACTTCA
*
36486067 GG-GAGATAAGACCCG-ATGC-GA
195 GGAG-GATAAGACCCGCATACTGA
* * **
36486088 -TCTGCT-CTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
1 GTCTGCTCCACTACAACTTCAGAGAGATAAGA-CT-AGA-TGCAAT-CACTCCACTGCAACTTCA
* * * ** * * *
36486151 GGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTATAACTTCTGGGAGATAAGATT
62 GAGAGATAAGATCT-GTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATT
36486208 CACCATATTC
Statistics
Matches: 276, Mismatches: 51, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
213 20 0.07
214 8 0.03
215 3 0.01
216 10 0.04
217 235 0.85
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
GTCTGCTCCACTACAACTTCAGAGAGATAAGACTAGATGCAATCACTCCACTGCAACTTCAGAGA
GATAAGATCTGTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTATTGGCTTTAAT
ATGCTCCACTGCAACTTCAAGGAGATAAGACTCGCCATCTTCAGTCTGCCTCACTACAACTTCAG
GAGGATAAGACCCGCATACTGA
Found at i:36486151 original size:44 final size:44
Alignment explanation
Indices: 36485657--36486206 Score: 216
Period size: 44 Copynumber: 12.7 Consensus size: 44
36485647 CTTTCTTGGG
* ** ***
36485657 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CCGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
*
36485698 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
** * * * * **
36485741 TCCACTCCACTGCAACTTTAGGGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAA
* * ** * *
36485785 TATGCTCTACTGCAACTTCA-AGGAGATAAGAT-TCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-GTGAT-TTTAA
* * * *
36485830 TCTGC-CTCACTACAACTTCAG-GAGGATAAG-GCT-TGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGATCTGTGATT--TTAA
* * * ***
36485874 TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CT-AGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * * *
36485915 TCTG-TTCTCTACAACTTCATAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* ** * *
36485958 TCCGCTCCACTGTGACTTCAGGGAGATAAGAT-TATTG-TCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGAT-TTTAA
**
36486002 TCTGCTCCACTGCAACTTCA-AGGAGATAAGA-CTCGCT--TTCTTGGG
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-G-TGATT-TT-AA
* * ** ***
36486047 TTTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CCGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* *
36486088 TCTGCT-CTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
** * * * **
36486131 TCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAA
** * *
36486175 TCTGCTCCACTATAACTTCTGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
36486207 TCACCATATT
Statistics
Matches: 369, Mismatches: 105, Indels: 67
0.68 0.19 0.12
Matches are distributed among these distances:
40 63 0.17
41 20 0.05
42 7 0.02
43 25 0.07
44 196 0.53
45 58 0.16
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
Found at i:36486243 original size:44 final size:44
Alignment explanation
Indices: 36486195--36486290 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
36486185 TATAACTTCT
* * *
36486195 GGGAGATAAGA-TTCACCATATTCAACCTATTCCATTGTTGACCA
1 GGGAGATAAGACTT-ACAATATTCAACCTATTCCACTGCTGACCA
* * *
36486239 GGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCTA
1 GGGAGATAAGACTTACAATATTCAACCTATTCCACTGCTGACCA
36486283 GGGAGATA
1 GGGAGATA
36486291 GGGCTGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (44 bp):
GGGAGATAAGACTTACAATATTCAACCTATTCCACTGCTGACCA
Found at i:36486415 original size:88 final size:88
Alignment explanation
Indices: 36486292--36486781 Score: 703
Period size: 88 Copynumber: 5.6 Consensus size: 88
36486282 AGGGAGATAG
* * * * * *
36486292 GGCTGGGGTCATCGATCTGCTTCGTTGTCGATGCAGGAAAGCAAGATCTGCTATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
36486357 TTCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * *
36486380 GGCTGATGTCTTCGATCTGTTTCGCTATCAGTGCAGTAAAGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
36486445 TCTGCTACAACCTAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
36486468 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATATGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
36486533 TCCGCTACAACCCAGAGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
36486556 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG-TAATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
36486620 CTCCGCTGCAACCCAGGGAGGCAA
65 CTCCGCTGCAACCCAGGGAGGCAA
* * *
36486644 GGCTGGTGTCTTCGATCTACTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
36486709 TCCGCTGTAACCCAGGAAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
36486732 GGCTAGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
36486782 TTATCTTCAC
Statistics
Matches: 359, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 357 0.99
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:36486510 original size:44 final size:44
Alignment explanation
Indices: 36486462--36486776 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
36486452 CAACCTAGGG
*
36486462 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
* * * * ** * * * * **
36486506 AGGCAAGATATGCTATTTTTAACCTGCTCCGCT-ACAACCCA-GA
1 AGGCAAGGT-TGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
* * *
36486549 GAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGA
1 -AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
* * * ** * * * ** *
36486594 AGGCAAGATCT-GTAATTTTTAACCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAGGT-TGGT-GTCTTCGATCTGCTTCGCTGTCGATGCAGGA
* *
36486638 AGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGATGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
* * * * ** * * * * **
36486682 AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGT-AACCCAGGA
1 AGGCAAGGT-TGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
* * * *
36486726 AGGCAAGGCTAGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
36486770 AGGCAAG
1 AGGCAAG
36486777 ATCTGTTATC
Statistics
Matches: 179, Mismatches: 82, Indels: 20
0.64 0.29 0.07
Matches are distributed among these distances:
43 47 0.26
44 82 0.46
45 50 0.28
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (44 bp):
AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
Found at i:36489036 original size:25 final size:26
Alignment explanation
Indices: 36488985--36489045 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
36488975 AAGAAAATCT
* **
36488985 AAAAGAATGAAACAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
36489011 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
36489036 AAAATGAATG
1 AAAA-GAATG
36489046 TAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:36491416 original size:27 final size:29
Alignment explanation
Indices: 36491380--36491461 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 29
36491370 GAATATAAAG
36491380 GGGGTTGCTAAGTGCTGATTCCC-CCA-A
1 GGGGTTGCTAAGTGCTGATTCCCACCATA
*
36491407 GGGGTTGCTAAGTGCTGATTCCCTTAACCATT
1 GGGGTTGCTAAGTGCTGATTCCC---ACCATA
36491439 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
36491462 ACCGTATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 23 0.48
31 3 0.06
32 2 0.04
33 20 0.42
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (29 bp):
GGGGTTGCTAAGTGCTGATTCCCACCATA
Found at i:36491530 original size:27 final size:27
Alignment explanation
Indices: 36491479--36491531 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
36491469 TTTAAATGTG
36491479 AAGGAGGTTGCTAAGTGCTGATCCCCC
1 AAGGAGGTTGCTAAGTGCTGATCCCCC
*
36491506 AAGG-GGTTGCTAAGTGCTGATTCCCC
1 AAGGAGGTTGCTAAGTGCTGATCCCCC
36491532 GAATCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.25
Consensus pattern (27 bp):
AAGGAGGTTGCTAAGTGCTGATCCCCC
Found at i:36491552 original size:33 final size:33
Alignment explanation
Indices: 36491510--36491745 Score: 137
Period size: 33 Copynumber: 6.7 Consensus size: 33
36491500 TCCCCCAAGG
36491510 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
36491543 GGTTGCTAAGTGCTGATTCCATC-ATATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-A---T-CAT-T---GGT
*
36491585 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
36491612 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
36491645 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-TG---GT
* *
36491688 GGTTGCTAAGTGCTGATTTCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
36491721 GGTTGCAAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
36491746 TAACGGTTGA
Statistics
Matches: 160, Mismatches: 14, Indels: 57
0.69 0.06 0.25
Matches are distributed among these distances:
27 22 0.14
28 2 0.01
31 2 0.01
32 2 0.01
33 61 0.38
34 11 0.07
36 2 0.01
37 2 0.01
38 2 0.01
39 3 0.02
40 2 0.01
41 1 0.01
42 27 0.17
43 21 0.13
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:36491663 original size:102 final size:102
Alignment explanation
Indices: 36491377--36491705 Score: 570
Period size: 101 Copynumber: 3.2 Consensus size: 102
36491367 ATTGAATATA
** *
36491377 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTTAACCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
36491442 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTG
*
36491479 AAGGAGGTTGCTAAGTGCTGA-TCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
36491543 GGTTGCTAAGTGCTGATTCCATCATATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTG
36491580 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
36491645 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATAT-TTTAAATGTG
*
36491683 AAAGGGGTTGCTAAGTGCTGATT
1 AAGGGGGTTGCTAAGTGCTGATT
36491706 TCCCGAATCA
Statistics
Matches: 215, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
101 95 0.44
102 89 0.41
103 31 0.14
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTG
Found at i:36495179 original size:202 final size:202
Alignment explanation
Indices: 36494833--36495236 Score: 790
Period size: 202 Copynumber: 2.0 Consensus size: 202
36494823 TTTAGAAAAA
*
36494833 TGGATCCAGGAGTCGGTTACGTACGATGAAGGATTAGCACTCTCGTAACGCCCAAAATTGGTACC
1 TGGATCCAGGAGTCGGTTACGTACGAGGAAGGATTAGCACTCTCGTAACGCCCAAAATTGGTACC
*
36494898 TAGTTAATTAATTAGTGTCTTAATATCGAAAATTTAAAAATATGATCCTTAATAAAAAAACGTTG
66 TAGTTAATTAATTAGTGTCTTAATATCGAAAATTTAAAAATATGATCCTTAATAAAAAAACGTTA
36494963 CTTATTAAGACTCTTATCATTTCAGAGAAAGAAAATGTCACACCCAATGCGTTAGGGCACGACAT
131 CTTATTAAGACTCTTATCATTTCAGAGAAAGAAAATGTCACACCCAATGCGTTAGGGCACGACAT
36495028 TCTAATT
196 TCTAATT
36495035 TGGATCCAGGAGTCGGTTACGTACGAGGAAGGATTAGCACTCTCGTAACGCCCAAAATTGGTACC
1 TGGATCCAGGAGTCGGTTACGTACGAGGAAGGATTAGCACTCTCGTAACGCCCAAAATTGGTACC
36495100 TAGTTAATTAATTAGTGTCTTAATATCGAAAATTTAAAAATATGATCCTTAATAAAAAAACGTTA
66 TAGTTAATTAATTAGTGTCTTAATATCGAAAATTTAAAAATATGATCCTTAATAAAAAAACGTTA
36495165 CTTATTAAGACTCTTATCATTTCAGAGAAAGAAAATGTCACACCCAATGCGTTAGGGCACGACAT
131 CTTATTAAGACTCTTATCATTTCAGAGAAAGAAAATGTCACACCCAATGCGTTAGGGCACGACAT
36495230 TCTAATT
196 TCTAATT
36495237 CCTCAAAAAT
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
202 200 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (202 bp):
TGGATCCAGGAGTCGGTTACGTACGAGGAAGGATTAGCACTCTCGTAACGCCCAAAATTGGTACC
TAGTTAATTAATTAGTGTCTTAATATCGAAAATTTAAAAATATGATCCTTAATAAAAAAACGTTA
CTTATTAAGACTCTTATCATTTCAGAGAAAGAAAATGTCACACCCAATGCGTTAGGGCACGACAT
TCTAATT
Found at i:36496768 original size:19 final size:19
Alignment explanation
Indices: 36496744--36496797 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
36496734 AATCATATCT
36496744 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
36496763 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
36496782 TCTAA-ATTTGCATATC
1 TCTAAGA-TTGCATATC
36496798 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:36499229 original size:14 final size:15
Alignment explanation
Indices: 36499212--36499249 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
36499202 TCATTTATTG
36499212 ATATATTTTT-ATAA
1 ATATATTTTTAATAA
36499226 ATATATTTTTAATAA
1 ATATATTTTTAATAA
*
36499241 AAATATTTT
1 ATATATTTT
36499250 CATTCACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATTTTTAATAA
Found at i:36499628 original size:88 final size:87
Alignment explanation
Indices: 36499448--36499649 Score: 248
Period size: 87 Copynumber: 2.3 Consensus size: 87
36499438 AACTTAAAAA
* *
36499448 AAAAAAAGCAATTAAGCTCCTCT-TTTTTTTTCATTCAATTGAGCACTTGAACTTTCAAAATGCA
1 AAAAAAAGCAATTAAGC-CC-CTGATTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCA
* ** * * *
36499512 TCAAACAGGCCCTCAGACTTCTTG
64 TCAAAAAAACCCTCAAAATTCTTC
*
36499536 AAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATT-AGGTACTTGAACTTTCAAAATGCAT
1 AAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATTGA-GCACTTGAACTTTCAAAATGCAT
*
36499600 CAAAAAAAACCCTCAAAATTTTTC
65 C-AAAAAAACCCTCAAAATTCTTC
*
36499624 -AAAAAAGCAATTAAGCCCCTGCTTTT
1 AAAAAAAGCAATTAAGCCCCTGATTTT
36499650 ATTAAAAAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
86 3 0.03
87 65 0.65
88 32 0.32
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATC
AAAAAAACCCTCAAAATTCTTC
Found at i:36499970 original size:11 final size:9
Alignment explanation
Indices: 36499941--36500115 Score: 81
Period size: 9 Copynumber: 18.4 Consensus size: 9
36499931 TTTTAGTATA
36499941 ATAATTTTT
1 ATAATTTTT
36499950 ATAATTTTT
1 ATAATTTTT
36499959 ATAATTTTT
1 ATAATTTTT
* **
36499968 TTACGAAATTT
1 ATA--ATTTTT
36499979 AT-ATTTATT
1 ATAATTT-TT
36499988 -TACATTTTGT
1 ATA-ATTTT-T
36499998 ATAATTTTCT
1 ATAATTTT-T
**
36500008 -TACAACTTT
1 ATA-ATTTTT
**
36500017 ATAGAACTTT
1 ATA-ATTTTT
36500027 ATAATTTTT
1 ATAATTTTT
* *
36500036 TTATATTTCT
1 ATA-ATTTTT
36500046 AT-ATATTTT
1 ATAAT-TTTT
36500055 ATAATTTTTT
1 ATAA-TTTTT
*
36500065 ACAATTTTT
1 ATAATTTTT
*
36500074 ATAAATTTT
1 ATAATTTTT
36500083 ATAATTTTT
1 ATAATTTTT
36500092 -TATATTTTT
1 ATA-ATTTTT
*
36500101 TTACGATTTTT
1 ATA--ATTTTT
36500112 ATAA
1 ATAA
36500116 AAAATTCTAA
Statistics
Matches: 128, Mismatches: 22, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.05
9 64 0.50
10 41 0.32
11 16 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:36500034 original size:39 final size:39
Alignment explanation
Indices: 36499947--36500035 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 39
36499937 TATAATAATT
* **
36499947 TTTATAATTTTTATAATTTTTTTACGAAATTTATATTTA
1 TTTATAATTTTTATAATTTTCTTACGAAATTTATATGAA
* *
36499986 TTTA-CATTTTGTATAATTTTCTTAC-AACTTTATA-GAA
1 TTTATAATTTT-TATAATTTTCTTACGAAATTTATATGAA
36500023 CTTTATAATTTTT
1 -TTTATAATTTTT
36500036 TTATATTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
37 1 0.02
38 18 0.44
39 22 0.54
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.58
Consensus pattern (39 bp):
TTTATAATTTTTATAATTTTCTTACGAAATTTATATGAA
Found at i:36500071 original size:38 final size:38
Alignment explanation
Indices: 36500024--36500116 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 38
36500014 TTTATAGAAC
* * *
36500024 TTTATAATTTTTTTATATTTCTAT-ATATTTTATAATTT
1 TTTACAATTTTTATAAATTT-TATAATATTTTATAATTT
* *
36500062 TTTACAATTTTTATAAATTTTATAATTTTTTATATTTT
1 TTTACAATTTTTATAAATTTTATAATATTTTATAATTT
*
36500100 TTTACGATTTTTATAAA
1 TTTACAATTTTTATAAA
36500117 AAATTCTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
37 3 0.06
38 45 0.94
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (38 bp):
TTTACAATTTTTATAAATTTTATAATATTTTATAATTT
Found at i:36500110 original size:19 final size:18
Alignment explanation
Indices: 36499941--36500115 Score: 90
Period size: 19 Copynumber: 9.2 Consensus size: 18
36499931 TTTTAGTATA
36499941 ATAATTTTTATA-ATTTTT
1 ATAATTTTT-TACATTTTT
**
36499959 ATAATTTTTTTACGAAATTT
1 ATAA-TTTTTTAC-ATTTTT
36499979 AT-ATTTATTTACATTTTGT
1 ATAATTT-TTTACATTTT-T
*
36499998 ATAATTTTCTTACAACTTTAT
1 ATAATTTT-TTAC-A-TTTTT
* * *
36500019 AGAACTTTATA-ATTTTT
1 ATAATTTTTTACATTTTT
* * *
36500036 -TTATATTTCTATATATTTT
1 ATAAT-TTTTTACAT-TTTT
36500055 ATAATTTTTTACAATTTTT
1 ATAATTTTTTAC-ATTTTT
*
36500074 ATAAATTTTATA-ATTTTTT
1 AT-AATTTTTTACA-TTTTT
*
36500093 ATATTTTTTTACGATTTTT
1 ATAATTTTTTAC-ATTTTT
36500112 ATAA
1 ATAA
36500116 AAAATTCTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 35
0.68 0.11 0.20
Matches are distributed among these distances:
16 1 0.01
17 9 0.08
18 23 0.19
19 45 0.38
20 30 0.25
21 8 0.07
22 3 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
ATAATTTTTTACATTTTT
Found at i:36500110 original size:28 final size:27
Alignment explanation
Indices: 36500014--36500100 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
36500004 TTCTTACAAC
*
36500014 TTTATAGAACTTTATAATTTTTTTATATT
1 TTTATA-AATTTTATAA-TTTTTTATATT
* * *
36500043 TCTATATATTTTATAATTTTTTACAATT
1 TTTATAAATTTTATAATTTTTTA-TATT
36500071 TTTATAAATTTTATAATTTTTTATATT
1 TTTATAAATTTTATAATTTTTTATATT
36500098 TTT
1 TTT
36500101 TTACGATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.26
28 32 0.64
29 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATAAATTTTATAATTTTTTATATT
Found at i:36500131 original size:38 final size:38
Alignment explanation
Indices: 36500048--36500131 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
36500038 ATATTTCTAT
**
36500048 ATATTTTATAATTTTTTACAATTTTTATAAATTTTATA
1 ATATTTTATAATTTTTTACAATTTTTATAAAAATTATA
* * * *
36500086 ATTTTTTATATTTTTTTACGATTTTTATAAAAAATTCTA
1 ATATTTTATAATTTTTTACAATTTTTAT-AAAAATTATA
36500125 A-ATTTTA
1 ATATTTTA
36500132 ATAAAAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 30 0.79
39 8 0.21
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (38 bp):
ATATTTTATAATTTTTTACAATTTTTATAAAAATTATA
Found at i:36500974 original size:19 final size:19
Alignment explanation
Indices: 36500952--36500995 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
36500942 AAATTTTAAT
36500952 TTATAAAAAATAAAAATAA
1 TTATAAAAAATAAAAATAA
*
36500971 TTAT-AAAAATTAAAATAA
1 TTATAAAAAATAAAAATAA
*
36500989 ATATAAA
1 TTATAAA
36500996 TATTCAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TTATAAAAAATAAAAATAA
Found at i:36501743 original size:18 final size:18
Alignment explanation
Indices: 36501720--36501759 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
36501710 CTTTCTTTGA
*
36501720 TTTTCTTT-TTCTCCATTT
1 TTTTCTTTGTT-TCAATTT
36501738 TTTTCTTTGTTTCAATTT
1 TTTTCTTTGTTTCAATTT
36501756 TTTT
1 TTTT
36501760 ATAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTCTTTGTTTCAATTT
Found at i:36503379 original size:21 final size:20
Alignment explanation
Indices: 36503355--36503397 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
36503345 ATTTTTATAA
36503355 TTTATTAATTATATATATATG
1 TTTATTAATTATA-ATATATG
*
36503376 TTTATT-TTTATAATATATG
1 TTTATTAATTATAATATATG
36503395 TTT
1 TTT
36503398 TAATTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATTAATTATAATATATG
Found at i:36509290 original size:17 final size:18
Alignment explanation
Indices: 36509268--36509303 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
36509258 TATTAACTAT
*
36509268 TTATAAAATTTTAT-TTA
1 TTATAAAATATTATCTTA
36509285 TTATAAAATATTATCTTA
1 TTATAAAATATTATCTTA
36509303 T
1 T
36509304 GATATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAAAATATTATCTTA
Found at i:36509312 original size:18 final size:17
Alignment explanation
Indices: 36509270--36509312 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
36509260 TTAACTATTT
* *
36509270 ATAAAATTTTATTTATT
1 ATAAAATATTATTTATG
36509287 ATAAAATATTATCTTATG
1 ATAAAATATTAT-TTATG
*
36509305 ATATAATA
1 ATAAAATA
36509313 AATTTTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
ATAAAATATTATTTATG
Found at i:36515022 original size:19 final size:20
Alignment explanation
Indices: 36514993--36515037 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
36514983 CACCTAATTA
*
36514993 AATTAATTTAAT-CATACTTT
1 AATTAACTTAATCCAT-CTTT
36515013 -ATTAACTTAATCCATCTTT
1 AATTAACTTAATCCATCTTT
36515032 AATTAA
1 AATTAA
36515038 TATAAGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAACTTAATCCATCTTT
Found at i:36520325 original size:23 final size:23
Alignment explanation
Indices: 36520297--36520345 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
36520287 AAGAAAATAA
*
36520297 GCACATCAACTAATGATGTACGT
1 GCACATCAACTAATGATATACGT
*
36520320 GCACATCAACTAATGATATAGGT
1 GCACATCAACTAATGATATACGT
36520343 GCA
1 GCA
36520346 AAGTTTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (23 bp):
GCACATCAACTAATGATATACGT
Found at i:36524699 original size:25 final size:26
Alignment explanation
Indices: 36524642--36524693 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36524632 CTATCAAATT
* *
36524642 AATATTAATTTTTAAATTCAATGTAA
1 AATATTAATATTTAAATTAAATGTAA
*
36524668 AATATTAATATTT-AATTAAATTTAA
1 AATATTAATATTTAAATTAAATGTAA
36524693 A
1 A
36524694 CAATTATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
AATATTAATATTTAAATTAAATGTAA
Found at i:36530175 original size:13 final size:13
Alignment explanation
Indices: 36530157--36530193 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
36530147 TTTTTATCGC
36530157 ACACGGGCGTGTG
1 ACACGGGCGTGTG
36530170 ACACGGGCGTGTG
1 ACACGGGCGTGTG
*
36530183 ACACGGCCGTG
1 ACACGGGCGTG
36530194 AGGTCCAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.27, G:0.43, T:0.14
Consensus pattern (13 bp):
ACACGGGCGTGTG
Found at i:36530616 original size:21 final size:23
Alignment explanation
Indices: 36530578--36530629 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
36530568 GTTATATAAT
*
36530578 TTATATTTCTTTTGATTCTTGTTA
1 TTAT-TTTGTTTTGATTCTTGTTA
36530602 TT-TTTTGTTTT-ATTCTTGTTA
1 TTATTTTGTTTTGATTCTTGTTA
36530623 TTATTTT
1 TTATTTT
36530630 TTCAGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 12 0.46
22 11 0.42
23 1 0.04
24 2 0.08
ACGTcount: A:0.13, C:0.06, G:0.08, T:0.73
Consensus pattern (23 bp):
TTATTTTGTTTTGATTCTTGTTA
Found at i:36530626 original size:12 final size:12
Alignment explanation
Indices: 36530592--36530627 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
36530582 ATTTCTTTTG
36530592 ATTCTTGTTATT
1 ATTCTTGTTATT
36530604 -TT-TTGTT-TT
1 ATTCTTGTTATT
36530613 ATTCTTGTTATT
1 ATTCTTGTTATT
36530625 ATT
1 ATT
36530628 TTTTCAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.10
10 7 0.33
11 7 0.33
12 5 0.24
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (12 bp):
ATTCTTGTTATT
Found at i:36530631 original size:24 final size:23
Alignment explanation
Indices: 36530599--36530654 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
36530589 TTGATTCTTG
*
36530599 TTATTTTTT-GTTTTATTCTTGTTA
1 TTATTTTTTAGTTTTAGT-TT-TTA
36530623 TTATTTTTTCAGTTTTAGTTTTTA
1 TTATTTTTT-AGTTTTAGTTTTTA
36530647 TTATTTTT
1 TTATTTTT
36530655 ATTCATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 20 0.69
25 2 0.07
26 7 0.24
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.75
Consensus pattern (23 bp):
TTATTTTTTAGTTTTAGTTTTTA
Found at i:36538586 original size:69 final size:69
Alignment explanation
Indices: 36538469--36538630 Score: 225
Period size: 69 Copynumber: 2.3 Consensus size: 69
36538459 ACCTTTGATG
* * * *
36538469 TCCAACACAATTAGCGAGAGCAAAGCTCCCAGCTGACATATTAAGGCTCGTAGGTGAAGAGCCGC
1 TCCAACACAGTTAGCGAGAGCAAACCTCCCAACTGACAAATTAAGGCTCGTAGGTGAAGAGCCGC
*
36538534 GGCC
66 AGCC
* * * * *
36538538 TCCAACACAGTTAGCAAGAGCAAACCTCCCAACTGTCAAATTATGGCTCGTAGGTGAAGAGTCGT
1 TCCAACACAGTTAGCGAGAGCAAACCTCCCAACTGACAAATTAAGGCTCGTAGGTGAAGAGCCGC
36538603 AGCC
66 AGCC
*
36538607 TCCAACACAGTTAACGAGAGCAAA
1 TCCAACACAGTTAGCGAGAGCAAA
36538631 GCTCATTGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 81 1.00
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (69 bp):
TCCAACACAGTTAGCGAGAGCAAACCTCCCAACTGACAAATTAAGGCTCGTAGGTGAAGAGCCGC
AGCC
Found at i:36541517 original size:69 final size:69
Alignment explanation
Indices: 36541402--36541597 Score: 223
Period size: 69 Copynumber: 2.8 Consensus size: 69
36541392 GTTGTTATAG
* * * * *
36541402 TAAGGCTCGCAGGTGAAGAGCCGTAGCGTCCAACACAGTTAACGAGAGCAAAACTCTC-AGCGAT
1 TAAGGCTCGTAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCAAGCG-T
36541466 CATAT
65 CATAT
* * * * **
36541471 TAAGGCTCGTAGGTGAAAAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAATTGTC
1 TAAGGCTCGTAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCAAGCGTC
36541536 ATAT
66 ATAT
* * * * * *
36541540 TAAGGCTTGTAGGTGAAGAGCCGCAACCTTCAACACAGTTAGTGTGAGCAAAGCTCCC
1 TAAGGCTCGTAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCC
36541598 GCAGGTGAAG
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
69 105 0.98
70 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (69 bp):
TAAGGCTCGTAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCAAGCGTC
ATAT
Found at i:36541625 original size:50 final size:50
Alignment explanation
Indices: 36541550--36541697 Score: 215
Period size: 50 Copynumber: 3.0 Consensus size: 50
36541540 TAAGGCTTGT
*
36541550 AGGTGAAGAGCCGCAACCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
1 AGGTGAAGAGCCGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
* * *
36541600 AGGTGAAGAGCTGCAGCCTTCAACACAATTAGTGTGAGTAAAGCTCCCGC
1 AGGTGAAGAGCCGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
* * * * *
36541650 AGGTGAAGAACCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCC
1 AGGTGAAGAGCCGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCC
36541698 ATCTGTCATA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.32, C:0.28, G:0.25, T:0.16
Consensus pattern (50 bp):
AGGTGAAGAGCCGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
Found at i:36542002 original size:69 final size:68
Alignment explanation
Indices: 36541647--36542039 Score: 396
Period size: 69 Copynumber: 5.7 Consensus size: 68
36541637 GTAAAGCTCC
** * * *
36541647 CGCAGGTGAAGAACCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCATCTGTCATAGTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCT-CCAACTGTCATATTAA
* *
36541712 TGTT
65 GGCT
* * * *
36541716 CGTAGGTGAAAAGTCGCAGCCTCCAACACAGTTAGCGAGAGC-AAGCTTCCAGCTGTCATATTAC
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGC-TCCAACTGTCATATTAA
36541780 GGCT
65 GGCT
* * * ** * * *
36541784 GGCAGGTGAAAAGCCATAGCCTCCAACATAGTTAGTGTGAGCAAAGCTCCTAACTGTCATATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC-AACTGTCATATTAA
36541849 GGCT
65 GGCT
* * * * * * *
36541853 CGCAGGTGAAGAGTCGTATCCTCTAACACAGCT-GCGAAAACAAAGCTCTCAACTATCATATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC-CAACTGTCATATTAA
36541917 GGCT
65 GGCT
* **
36541921 CGCAGGTGAAGAGTCGCAGCCTCCAGCACAGTTAGCGAGAGCAAAGCTGCCAACTGTTTTATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCT-CCAACTGTCATATTAA
*
36541986 GGTT
65 GGCT
* * * * *
36541990 CGCAGGTGAAGAG-CTGTAACCTTCAACACAGTTAGCGTGAGCAAAACTCC
1 CGCAGGTGAAGAGTC-GCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
36542040 CACAGGTGAA
Statistics
Matches: 267, Mismatches: 50, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
68 114 0.43
69 152 0.57
70 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (68 bp):
CGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCAACTGTCATATTAAG
GCT
Found at i:36542018 original size:137 final size:136
Alignment explanation
Indices: 36541647--36542026 Score: 399
Period size: 137 Copynumber: 2.8 Consensus size: 136
36541637 GTAAAGCTCC
* * * *
36541647 CGCAGGTGAAGAACCGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTCCCATCTGTCATAGTAA
1 CGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCT-CCAACTGTCATATTAA
* * * * * * * * * * *
36541712 TGTTCGTAGGTGAAAAGTCGCAGCCTCCAACACAGTTAGCGAGAGCAAGCTTCCAGCTGTCATAT
65 GGTTCGCAGGTGAAGAGTCGTAACCTTCAACACAGCTAGCGAAAACAAGCTTCCAACTATCATAT
*
36541777 TACGGCT
130 TAAGGCT
* * ** * * *
36541784 GGCAGGTGAAAAGCCATAGCCTCCAACATAGTTAGTGTGAGCAAAGCTCCTAACTGTCATATTAA
1 CGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC-AACTGTCATATTAA
* *
36541849 GGCTCGCAGGTGAAGAGTCGTATCC-TCTAACACAGCT-GCGAAAACAAAGC-TCTCAACTATCA
65 GGTTCGCAGGTGAAGAGTCGTAACCTTC-AACACAGCTAGCGAAAAC-AAGCTTC-CAACTATCA
36541911 TATTAAGGCT
127 TATTAAGGCT
* * **
36541921 CGCAGGTGAAGAGTCGCAGCCTCCAGCACAGTTAGCGAGAGCAAAGCTGCCAACTGTTTTATTAA
1 CGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCT-CCAACTGTCATATTAA
*
36541986 GGTTCGCAGGTGAAGAG-CTGTAACCTTCAACACAGTTAGCG
65 GGTTCGCAGGTGAAGAGTC-GTAACCTTCAACACAGCTAGCG
36542027 TGAGCAAAAC
Statistics
Matches: 197, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
136 12 0.06
137 178 0.90
138 7 0.04
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.21
Consensus pattern (136 bp):
CGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCAACTGTCATATTAAG
GTTCGCAGGTGAAGAGTCGTAACCTTCAACACAGCTAGCGAAAACAAGCTTCCAACTATCATATT
AAGGCT
Found at i:36548892 original size:42 final size:42
Alignment explanation
Indices: 36548822--36548904 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
36548812 AATCCTAATT
* *
36548822 GGAAAATAATTCCTTTATTCTAATAAACTACTAAAACATAAG
1 GGAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAG
* * *
36548864 GGAAAATAATTCCATTCTTTTAAGAAACTACTAAAAGATAA
1 GGAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAA
36548905 AATAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.30
Consensus pattern (42 bp):
GGAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAG
Found at i:36548912 original size:42 final size:42
Alignment explanation
Indices: 36548823--36548917 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
36548813 ATCCTAATTG
* * **
36548823 GAAAATAATTCCTTTATTCTAATAAACTACTAAAACATAAGG
1 GAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAAA
* * *
36548865 GAAAATAATTCCATTCTTTTAAGAAACTACTAAAAGATAAAA
1 GAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAAA
*
36548907 TAAAAT-ATTCC
1 GAAAATAATTCC
36548918 TAGAATATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (42 bp):
GAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAAA
Found at i:36548957 original size:19 final size:18
Alignment explanation
Indices: 36548935--36548974 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
36548925 TGAATAAAAC
36548935 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
36548954 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
36548972 TTA
1 TTA
36548975 AAATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:36551926 original size:26 final size:26
Alignment explanation
Indices: 36551897--36551951 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
36551887 TAACCTTATC
36551897 AAAATCAGAAACAAAATTTAAACATA
1 AAAATCAGAAACAAAATTTAAACATA
*
36551923 AAAATTAGAAACAAAATTTAAACATA
1 AAAATCAGAAACAAAATTTAAACATA
36551949 AAA
1 AAA
36551952 TAGTTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAATCAGAAACAAAATTTAAACATA
Found at i:36551951 original size:13 final size:13
Alignment explanation
Indices: 36551909--36551952 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
36551899 AATCAGAAAC
36551909 AAAATTTAAACAT
1 AAAATTTAAACAT
* *
36551922 AAAAATTAGAA-AC
1 AAAATTTA-AACAT
36551935 AAAATTTAAACAT
1 AAAATTTAAACAT
36551948 AAAAT
1 AAAAT
36551953 AGTTGTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (13 bp):
AAAATTTAAACAT
Found at i:36552499 original size:42 final size:42
Alignment explanation
Indices: 36552441--36552521 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
36552431 TCCTAATTGG
* *
36552441 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGGA
36552483 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAA
36552522 AATAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGGA
Found at i:36552529 original size:42 final size:42
Alignment explanation
Indices: 36552441--36552534 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
36552431 TCCTAATTGG
* * *
36552441 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGAA
36552483 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAA-AA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGAA
36552524 TAAAAT-ATTCC
1 -AAAATAATTCC
36552535 TAGAATATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
41 6 0.12
42 42 0.88
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGAA
Found at i:36554007 original size:20 final size:21
Alignment explanation
Indices: 36553982--36554022 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
36553972 TGAGTGAAGC
36553982 TTTCTCTCTCT-AGCTTCAAG
1 TTTCTCTCTCTAAGCTTCAAG
*
36554002 TTTCTCTTTCTAAGCTTCAAG
1 TTTCTCTCTCTAAGCTTCAAG
36554023 AACCCTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.17, C:0.27, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCTCTCTCTAAGCTTCAAG
Found at i:36554524 original size:40 final size:39
Alignment explanation
Indices: 36554417--36554524 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 39
36554407 GTTGAGCTTT
*
36554417 ATTG-GCTTTAGTGGCGCTTTCTAAAAAACGCCGCAATAG
1 ATTGAGCTTTAGTGGCGCTTT-TAAGAAACGCCGCAATAG
* * * * * * * *
36554456 ATCGAACATTAGCGACGCTAGTTGAGAAACGCCGTAATAG
1 ATTGAGCTTTAGTGGCGCT-TTTAAGAAACGCCGCAATAG
36554496 ATTGAGCTTTAGTGGCGCTTTATAAGAAA
1 ATTGAGCTTTAGTGGCGCTTT-TAAGAAA
36554525 TGCCAATAAA
Statistics
Matches: 50, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
39 4 0.08
40 45 0.90
41 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (39 bp):
ATTGAGCTTTAGTGGCGCTTTTAAGAAACGCCGCAATAG
Found at i:36554659 original size:195 final size:187
Alignment explanation
Indices: 36554375--36554852 Score: 557
Period size: 195 Copynumber: 2.5 Consensus size: 187
36554365 TAAAGCGCCG
* * *
36554375 CAAAAATGTTGAGCAAAACGACTTTGTTTTTTGTTGAGCTTTATTGGCTTTAGTGGCGCTTTCTA
1 CAAAAAAGTTGAGCAAAACGACTTT-TTTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTA
* * * **
36554440 AAAAACGCCGCAATAGATCGAACATTAGCGACGCTAGTTGAGAAACGCCGTAATAGATTGAGCTT
65 AAAAATGCCGCAATAGATCGAACATTAGCGACGCAACTTGAGAAACGCCACAATAGA-T---C--
* * *
36554505 TAGTGGCGCTTTATAAGAAATGCCAATAAAGATCAAGAATTAGCGGCGCTTGTTT-TAAAACACC
124 -AGTGGCGCTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTT-TTTGTAAAACAAC
*
36554569 G
187 A
* *
36554570 TAAAAAAGTTGAGCAAAACAACTTCTTTTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTA
1 CAAAAAAGTTGAGCAAAACGACTT-TTTTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTA
** * * *
36554635 AAAAATGTTGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAATGCCACAATAGATCGGTGGC
65 AAAAATGCCGCAATAGATCGAACATTAGCGACGCAACTTGAGAAACGCCACAATAGATCAGTGGC
** * *
36554700 GCTTTATAAGAAACGCCGCTATAGATCAGGAATTAGCGGCACTTTTTGTAAAACAACA
130 GCTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTTTTGTAAAACAACA
* * * * *
36554758 CAAAAAATTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTAGTGGCATTAG-CAGTGCTTTTTC
1 CAAAAAAGTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTATTGGCTTTAGTGA-CGCTTTTT-
*
36554822 AAAAAATGCCACAATAGATCGATA-ATTAGCG
64 AAAAAATGCCGCAATAGATCGA-ACATTAGCG
36554853 GCGTTTTTGG
Statistics
Matches: 245, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
186 1 0.00
187 36 0.15
188 98 0.40
189 1 0.00
191 1 0.00
194 1 0.00
195 106 0.43
196 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (187 bp):
CAAAAAAGTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAA
AAAATGCCGCAATAGATCGAACATTAGCGACGCAACTTGAGAAACGCCACAATAGATCAGTGGCG
CTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTTTTGTAAAACAACA
Found at i:36554828 original size:188 final size:189
Alignment explanation
Indices: 36554376--36554855 Score: 556
Period size: 188 Copynumber: 2.5 Consensus size: 189
36554366 AAAGCGCCGC
* *
36554376 AAAAATGTTGAGCAAAACGACTTTGTTTTTTGTTGAGCTTTATTGGCTTTAGTGGCGCTTTCTAA
1 AAAAAT-TTGAGCAAAACGACTTT-TTTTTTGTTGAGCTTTATTGGCTTTAG-AGCGCTTTTTAA
* * * * **
36554441 AAAACGCCGCAATAGATCGAACATTAGCGACGCTAGTTGAGAAACGCCGTAATAGATTGAGCTTT
63 AAAATGCCGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAACGCCACAATAGATT--GC--T
* * * **
36554506 AGTGGCGCTTTATAAGAAATGCCAATAAAGATCAAGAATTAGCGGCGCTTGTTTTAAAACACCGT
124 AGTGGCGCTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTGTTTTAAAACAACAC
36554571 A
189 A
* * *
36554572 AAAAAGTTGAGCAAAACAACTTCTTTTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAAA
1 AAAAATTTGAGCAAAACGACTT-TTTTTTTGTTGAGCTTTATTGGCTTTAGAG-CGCTTTTTAAA
** * *
36554637 AAATGTTGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAATGCCACAATAGA-T-C-GGTGG
64 AAATGCCGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAACGCCACAATAGATTGCTAGTGG
** * *
36554699 CGCTTTATAAGAAACGCCGCTATAGATCAGGAATTAGCGGCACTT-TTTGTAAAACAACACA
129 CGCTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTGTTT-TAAAACAACACA
* * *
36554760 AAAAATTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTAGTGGCATTAGCAGTGCTTTTTCAAA
1 AAAAATTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTATTGGCTTTAG-AGCGCTTTTT-AAA
*
36554825 AAATGCCACAATAGATCGATA-ATTAGCGGCG
64 AAATGCCGCAATAGATCGA-ACATTAGCGGCG
36554856 TTTTTGGGAA
Statistics
Matches: 246, Mismatches: 32, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
187 36 0.15
188 102 0.41
189 1 0.00
191 1 0.00
194 2 0.01
195 98 0.40
196 6 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (189 bp):
AAAAATTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTATTGGCTTTAGAGCGCTTTTTAAAAA
ATGCCGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAACGCCACAATAGATTGCTAGTGGCG
CTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTGTTTTAAAACAACACA
Found at i:36555684 original size:21 final size:20
Alignment explanation
Indices: 36555641--36555693 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
36555631 GAGTTTTAAT
*
36555641 TTTAGTGTTTAGGGTATAGG
1 TTTAGAGTTTAGGGTATAGG
* *
36555661 TTTAGAGTTTGGGGTTTAAGG
1 TTTAGAGTTTAGGGTAT-AGG
*
36555682 TTTAGGGTTTAG
1 TTTAGAGTTTAG
36555694 TGTTAAGAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (20 bp):
TTTAGAGTTTAGGGTATAGG
Found at i:36555812 original size:7 final size:7
Alignment explanation
Indices: 36555641--36555854 Score: 85
Period size: 7 Copynumber: 30.3 Consensus size: 7
36555631 GAGTTTTAAT
*
36555641 TTTAGTG
1 TTTAGGG
36555648 TTTAGGG
1 TTTAGGG
*
36555655 TATA-GG
1 TTTAGGG
*
36555661 TTTAGAG
1 TTTAGGG
*
36555668 TTTGGGG
1 TTTAGGG
*
36555675 TTTAAGG
1 TTTAGGG
36555682 TTTAGGG
1 TTTAGGG
*
36555689 TTTAGTG
1 TTTAGGG
* *
36555696 TTAAGAG
1 TTTAGGG
*
36555703 TTTAGTG
1 TTTAGGG
*
36555710 TTTATGGC
1 TTTA-GGG
* *
36555718 TTATAAGA
1 TT-TAGGG
** *
36555726 CCTAGAAG
1 TTTAG-GG
36555734 TTTAGGG
1 TTTAGGG
*
36555741 TTTTAAGG
1 -TTTAGGG
36555749 TTT-GGTG
1 TTTAGG-G
*
36555756 TTTATGG
1 TTTAGGG
*
36555763 TATAGGG
1 TTTAGGG
*
36555770 TATAGGG
1 TTTAGGG
*
36555777 -TTATGG
1 TTTAGGG
*
36555783 TATAGGG
1 TTTAGGG
**
36555790 TTTATAG
1 TTTAGGG
*
36555797 TTTATGG
1 TTTAGGG
36555804 TTTAGGG
1 TTTAGGG
*
36555811 TTTTAGGT
1 -TTTAGGG
36555819 TTTA-GG
1 TTTAGGG
*
36555825 TGTAGGG
1 TTTAGGG
*
36555832 TTCAGGG
1 TTTAGGG
* *
36555839 TCTACGG
1 TTTAGGG
36555846 TTTAGGG
1 TTTAGGG
36555853 TT
1 TT
36555855 GCAATATATC
Statistics
Matches: 147, Mismatches: 50, Indels: 20
0.68 0.23 0.09
Matches are distributed among these distances:
6 14 0.10
7 111 0.76
8 20 0.14
9 2 0.01
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:36556883 original size:7 final size:7
Alignment explanation
Indices: 36556854--36557065 Score: 59
Period size: 7 Copynumber: 29.7 Consensus size: 7
36556844 AGAGTTTTAA
*
36556854 GTTTAGT
1 GTTTAGG
*
36556861 GTTTATG
1 GTTTAGG
*
36556868 GTGTA-G
1 GTTTAGG
36556874 GTTTAGG
1 GTTTAGG
*
36556881 GTTTGGG
1 GTTTAGG
*
36556888 GTTTAAG
1 GTTTAGG
**
36556895 GTTTATA
1 GTTTAGG
*
36556902 ATTTAGG
1 GTTTAGG
**
36556909 GTTTAAT
1 GTTTAGG
* *
36556916 GTTAAGA
1 GTTTAGG
*
36556923 GTTTAGT
1 GTTTAGG
36556930 GTTTATGG
1 GTTTA-GG
* *
36556938 CTTATAAG
1 GTT-TAGG
** *
36556946 ACTTAGAA
1 GTTTAG-G
36556954 GTTTAGG
1 GTTTAGG
36556961 GTTTTAGG
1 G-TTTAGG
36556969 GTTT-GG
1 GTTTAGG
* *
36556975 TATTTATG
1 -GTTTAGG
*
36556983 GTTTATG
1 GTTTAGG
* *
36556990 GTATAGT
1 GTTTAGG
*
36556997 GTTTATG
1 GTTTAGG
** *
36557004 GAATAAG
1 GTTTAGG
*
36557011 GTTTACG
1 GTTTAGG
* *
36557018 ATTTATG
1 GTTTAGG
36557025 GTTTAGG
1 GTTTAGG
*
36557032 GTTTAAG
1 GTTTAGG
*
36557039 GTCTAGG
1 GTTTAGG
*
36557046 ATTTAGG
1 GTTTAGG
36557053 GTTTTAGG
1 G-TTTAGG
36557061 GTTTA
1 GTTTA
36557066 ATTACTTTTG
Statistics
Matches: 142, Mismatches: 55, Indels: 16
0.67 0.26 0.08
Matches are distributed among these distances:
6 7 0.05
7 109 0.77
8 24 0.17
9 2 0.01
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:36557815 original size:15 final size:15
Alignment explanation
Indices: 36557795--36557825 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36557785 AGAGGACTTG
36557795 TTTTGGTGCTTCGAT
1 TTTTGGTGCTTCGAT
*
36557810 TTTTGGTTCTTCGAT
1 TTTTGGTGCTTCGAT
36557825 T
1 T
36557826 CTTCATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (15 bp):
TTTTGGTGCTTCGAT
Found at i:36559012 original size:9 final size:9
Alignment explanation
Indices: 36558994--36559024 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36558984 TTTGGTTAAA
36558994 AATTAACCG
1 AATTAACCG
*
36559003 AATTACCCG
1 AATTAACCG
36559012 AATTAACCG
1 AATTAACCG
36559021 AATT
1 AATT
36559025 GAATCCCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:36560067 original size:21 final size:20
Alignment explanation
Indices: 36560042--36560094 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
36560032 TTATATATAT
*
36560042 TATATTTTAAATATTAAAATC
1 TATATTTTAAATA-TAAAACC
* *
36560063 TATATTTTTAATATATAACC
1 TATATTTTAAATATAAAACC
*
36560083 TATATTTCAAAT
1 TATATTTTAAAT
36560095 TCATTACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATTTTAAATATAAAACC
Found at i:36560163 original size:21 final size:20
Alignment explanation
Indices: 36560139--36560181 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
36560129 TTATATATAT
36560139 TATATTTTAAATATTAAAACC
1 TATATTTTAAATA-TAAAACC
* *
36560160 TATATTTTTAATATATAACC
1 TATATTTTAAATATAAAACC
36560180 TA
1 TA
36560182 AATTAGTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTTTAAATATAAAACC
Found at i:36560210 original size:120 final size:120
Alignment explanation
Indices: 36560073--36560392 Score: 570
Period size: 120 Copynumber: 2.7 Consensus size: 120
36560063 TATATTTTTA
36560073 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
36560138 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTA-AATTAGTATGG
66 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATAA-TAGTATGG
*
36560193 ATATATAACCTATATTTCAAATTCATTACTAATAAATTTTTAAATTTTATACATAATTATATATA
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
36560258 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATAATAGTATGG
66 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATAATAGTATGG
* * * *
36560313 ATATGTTACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATAAATA
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
36560378 TTATATTTTTAAATA
66 TTATA-TTTTAAATA
36560393 ACTTATTACT
Statistics
Matches: 192, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 181 0.94
121 11 0.06
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (120 bp):
ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATAATAGTATGG
Found at i:36560283 original size:21 final size:20
Alignment explanation
Indices: 36560259--36560303 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
36560249 TTATATATAT
36560259 TATATTTTAAATATTAAAACC
1 TATATTTTAAATA-TAAAACC
* *
36560280 TATATTTTTAATATATAACC
1 TATATTTTAAATATAAAACC
36560300 TATA
1 TATA
36560304 ATAGTATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTTTAAATATAAAACC
Found at i:36560501 original size:9 final size:9
Alignment explanation
Indices: 36560489--36560628 Score: 112
Period size: 9 Copynumber: 16.0 Consensus size: 9
36560479 TATATCATAT
36560489 CATAACTTA
1 CATAACTTA
*
36560498 CATAACTCA
1 CATAACTTA
36560507 CATAACTTA
1 CATAACTTA
36560516 CATAA--TA
1 CATAACTTA
*
36560523 CATAA-ATA
1 CATAACTTA
* * *
36560531 TATATCATA
1 CATAACTTA
*
36560540 TCATAACTCA
1 -CATAACTTA
36560550 CATAACTTA
1 CATAACTTA
*
36560559 CATAACTCA
1 CATAACTTA
*
36560568 CTTAACTTA
1 CATAACTTA
36560577 CATAACTTA
1 CATAACTTA
36560586 CATAA--TA
1 CATAACTTA
*
36560593 CATAA-ATA
1 CATAACTTA
* * *
36560601 TATATCATA
1 CATAACTTA
36560610 TCATAACTTA
1 -CATAACTTA
36560620 CATAACTTA
1 CATAACTTA
36560629 ATTATACTTA
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
7 14 0.13
8 10 0.09
9 72 0.67
10 11 0.10
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:36560544 original size:52 final size:51
Alignment explanation
Indices: 36560454--36560565 Score: 163
Period size: 52 Copynumber: 2.2 Consensus size: 51
36560444 AACTAATTTC
* * *
36560454 CACATAACATACATAATAACTTATATATATCATATCATAACTTACATAACT
1 CACATAACTTACATAATAACTAATATATATCATATCATAACTCACATAACT
36560505 CACATAACTTACATAAT-ACATAAATATATATCATATCATAACTCACATAACT
1 CACATAACTTACATAATAAC-T-AATATATATCATATCATAACTCACATAACT
*
36560557 TACATAACT
1 CACATAACT
36560566 CACTTAACTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 2 0.04
51 17 0.31
52 36 0.65
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (51 bp):
CACATAACTTACATAATAACTAATATATATCATATCATAACTCACATAACT
Found at i:36560574 original size:70 final size:70
Alignment explanation
Indices: 36560489--36560628 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
36560479 TATATCATAT
*
36560489 CATAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTCACATA
1 CATAACTCACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTCACATA
36560554 ACTTA
66 ACTTA
* * *
36560559 CATAACTCACTTAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATA
1 CATAACTCACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTCACATA
36560624 ACTTA
66 ACTTA
36560629 ATTATACTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (70 bp):
CATAACTCACATAACTCACATAACTTACATAATACATAAATATATATCATATCATAACTCACATA
ACTTA
Found at i:36565670 original size:13 final size:14
Alignment explanation
Indices: 36565654--36565682 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36565644 TTTTAAATAT
36565654 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
36565667 TTATAATGGTTTAA
1 TTATAATGGTTTAA
36565681 TT
1 TT
36565683 CTTTGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:36567900 original size:20 final size:19
Alignment explanation
Indices: 36567875--36567991 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 19
36567865 TGTTTAAGCT
*
36567875 TAAAAATTATTTAAATATTA
1 TAAAAATTATTGAAA-ATTA
* **
36567895 TAAAAATT-TAGAAAAGGA
1 TAAAAATTATTGAAAATTA
36567913 TAAAAATT-TATGAAATATTA
1 TAAAAATTAT-TGAAA-ATTA
*
36567933 TAAAATATTA-TGAAAAATA
1 TAAAA-ATTATTGAAAATTA
*
36567952 TGAAAATATTA-T-AAAATAA
1 T-AAAA-ATTATTGAAAATTA
36567971 TAAAAATTATTAGAAACATTA
1 TAAAAATTATT-GAAA-ATTA
36567992 ATTACATGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 17
0.73 0.10 0.16
Matches are distributed among these distances:
17 4 0.05
18 16 0.21
19 18 0.23
20 33 0.43
21 6 0.08
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (19 bp):
TAAAAATTATTGAAAATTA
Found at i:36567938 original size:10 final size:10
Alignment explanation
Indices: 36567915--36567980 Score: 63
Period size: 10 Copynumber: 7.0 Consensus size: 10
36567905 GAAAAGGATA
36567915 AAAAT-TTAT
1 AAAATATTAT
*
36567924 GAAATATTAT
1 AAAATATTAT
36567934 AAAATATTAT
1 AAAATATTAT
36567944 GAAAA-A-TAT
1 -AAAATATTAT
36567953 GAAAATATTAT
1 -AAAATATTAT
36567964 AAAATA--AT
1 AAAATATTAT
36567972 AAAA-ATTAT
1 AAAATATTAT
36567981 TAGAAACATT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
9 14 0.29
10 21 0.43
11 7 0.14
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
AAAATATTAT
Found at i:36567951 original size:12 final size:11
Alignment explanation
Indices: 36567915--36567969 Score: 68
Period size: 10 Copynumber: 5.5 Consensus size: 11
36567905 GAAAAGGATA
36567915 AAAAT-TTATG
1 AAAATATTATG
36567925 -AAATATTAT-
1 AAAATATTATG
36567934 AAAATATTATG
1 AAAATATTATG
36567945 AAAA-A-TATG
1 AAAATATTATG
36567954 AAAATATTAT-
1 AAAATATTATG
36567964 AAAATA
1 AAAATA
36567970 ATAAAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 12 0.30
10 21 0.52
11 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (11 bp):
AAAATATTATG
Found at i:36568473 original size:8 final size:8
Alignment explanation
Indices: 36568460--36568492 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
36568450 TACTTTGATA
36568460 AATTTTAT
1 AATTTTAT
36568468 AATTTTAT
1 AATTTTAT
36568476 AATTTTA-
1 AATTTTAT
36568483 AATTTT-T
1 AATTTTAT
36568490 AAT
1 AAT
36568493 CATTTAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 9 0.38
8 15 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AATTTTAT
Found at i:36572718 original size:23 final size:22
Alignment explanation
Indices: 36572661--36572730 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
36572651 AAAAGTAAAA
*
36572661 TAAATTCAAATCATATATAT-T
1 TAAATTCAAATAATATATATCT
*
36572682 TCAATT--AATAATATATATCT
1 TAAATTCAAATAATATATATCT
* *
36572702 TAATATTCAAATTATATTTATCT
1 TAA-ATTCAAATAATATATATCT
36572725 TAAATT
1 TAAATT
36572731 TAATATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.28
20 3 0.08
21 8 0.20
22 3 0.08
23 15 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATTCAAATAATATATATCT
Found at i:36573808 original size:22 final size:23
Alignment explanation
Indices: 36573780--36573830 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
36573770 AATAGAATGT
*
36573780 TTAAAATAT-TTTTATAAAATAA
1 TTAAAATATGTTTTAGAAAATAA
* *
36573802 TTAAAATATGTTTTAGATAATAT
1 TTAAAATATGTTTTAGAAAATAA
36573825 TTAAAA
1 TTAAAA
36573831 CTTTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAAAATATGTTTTAGAAAATAA
Found at i:36574025 original size:26 final size:26
Alignment explanation
Indices: 36573995--36574047 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
36573985 GGTCGTAATG
36573995 TTGGGCTCCATAGTTGCAATGTTGCA
1 TTGGGCTCCATAGTTGCAATGTTGCA
36574021 TTGGGCTCCATAGTTGCAATGTTGCA
1 TTGGGCTCCATAGTTGCAATGTTGCA
36574047 T
1 T
36574048 CTTTGTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (26 bp):
TTGGGCTCCATAGTTGCAATGTTGCA
Found at i:36587538 original size:13 final size:13
Alignment explanation
Indices: 36587522--36587563 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
36587512 CTTTTTCAGT
36587522 AGTGCTTTTTAAA
1 AGTGCTTTTTAAA
36587535 AGTGCTTTTTAAA
1 AGTGCTTTTTAAA
*
36587548 AGTGCTTTTGAAA
1 AGTGCTTTTTAAA
36587561 AGT
1 AGT
36587564 CAACAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (13 bp):
AGTGCTTTTTAAA
Found at i:36588364 original size:34 final size:34
Alignment explanation
Indices: 36588257--36588386 Score: 108
Period size: 34 Copynumber: 3.9 Consensus size: 34
36588247 TTTTAAAAAA
* *
36588257 TAAATTAGGATTTAGTGTTCTTTTTTAAAAATTAAT
1 TAAATTAGGATTTA--GTTATTTTTAAAAAATTAAT
** ***
36588293 TAAATTAGGGCTTAG-GGGTTTTAAATAAA-T-A-
1 TAAATTAGGATTTAGTTATTTTTAAA-AAATTAAT
*
36588324 -AAATTAGGGTTTAGTTATTTTTAAAAAATTAAT
1 TAAATTAGGATTTAGTTATTTTTAAAAAATTAAT
* *
36588357 TAAATTAGGATTTAGTTTTTTTTTAAAAAT
1 TAAATTAGGATTTAGTTATTTTTAAAAAAT
36588387 AATATTGTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
30 16 0.21
31 8 0.11
32 2 0.03
33 7 0.09
34 30 0.40
36 12 0.16
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (34 bp):
TAAATTAGGATTTAGTTATTTTTAAAAAATTAAT
Found at i:36588388 original size:64 final size:64
Alignment explanation
Indices: 36588247--36588371 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
36588237 ATTTTAAGAA
* * *
36588247 TTTTAAAAAAT-AAATTAGGATTTAGTGTTCTTTTTTAAAAATTAATTAAATTAGGGCTTAGGGG
1 TTTTAAAAAATAAAATTAGGATTTAG-GTTATTTTTAAAAAATTAATTAAATTAGGACTTAGGGG
* *
36588311 TTTTAAATAAATAAAATTAGGGTTTA-GTTATTTTTAAAAAATTAATTAAATTAGGATTTAG
1 TTTTAAA-AAATAAAATTAGGATTTAGGTTATTTTTAAAAAATTAATTAAATTAGGACTTAG
36588372 TTTTTTTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 38 0.70
65 4 0.07
66 12 0.22
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (64 bp):
TTTTAAAAAATAAAATTAGGATTTAGGTTATTTTTAAAAAATTAATTAAATTAGGACTTAGGGG
Found at i:36588599 original size:125 final size:124
Alignment explanation
Indices: 36588455--36588701 Score: 331
Period size: 125 Copynumber: 2.0 Consensus size: 124
36588445 TTTTTTACAA
* * * * *
36588455 TAGTTCCTGAAAAATAATTTTGAGAATACGGTT-CTGAACAAATAATGTTAAAAATGCTTCAAGC
1 TAGTTCCTAAAAAATAATTTTGAGAAGAC-GTTCCTGAACAAATAATGTCAAAAAAGCTTCAACC
* * *
36588519 AGGATGCACTGTCT-GTAAAATTTCA-GAAAAAAGCT-CTCATGTGGACACTCTTTTTCTACTG
65 AGGATGCACTGT-TAGCAAAA-TTCATGAAAAAA-CTCCT-ACGTCGACACTCTTTTTCTACTG
*
36588580 TAGTTCCTAAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAGTGTCAAAAAAGCTTCAACCA
1 TAGTTCCTAAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAATGTCAAAAAAGCTTCAACCA
*
36588645 GGATGCACTGTTAGCAAAATTGATGAAAAAACTCCTACGTCGACACTCTTTTTCTAC
66 GGATGCACTGTTAGCAAAATTCATGAAAAAACTCCTACGTCGACACTCTTTTTCTAC
36588702 AATAGTTCAT
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
124 28 0.26
125 80 0.74
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (124 bp):
TAGTTCCTAAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAATGTCAAAAAAGCTTCAACCA
GGATGCACTGTTAGCAAAATTCATGAAAAAACTCCTACGTCGACACTCTTTTTCTACTG
Found at i:36591826 original size:25 final size:26
Alignment explanation
Indices: 36591768--36591829 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
36591758 AAAGAACTTC
36591768 TATTTTATTAAAAATATAAAAATAAT
1 TATTTTATTAAAAATATAAAAATAAT
**
36591794 T-TACTATT-AAAATATTAAAAA-AAT
1 TATTTTATTAAAAATA-TAAAAATAAT
36591818 TATTTTATTAAA
1 TATTTTATTAAA
36591830 TGAAACAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 10 0.34
25 16 0.55
26 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTTTATTAAAAATATAAAAATAAT
Found at i:36592249 original size:18 final size:18
Alignment explanation
Indices: 36592226--36592262 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36592216 GGAAAAGAAA
* *
36592226 ACATATAAGGGTTAGGAT
1 ACATATAAAGGCTAGGAT
36592244 ACATATAAAGGCTAGGAT
1 ACATATAAAGGCTAGGAT
36592262 A
1 A
36592263 TGCACCTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAAGGCTAGGAT
Found at i:36594065 original size:30 final size:30
Alignment explanation
Indices: 36594001--36594068 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
36593991 TTAATTAAAG
* *
36594001 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
1 AGAGTTTTGAGAAATTTAAGGAGAAATTTC
* **
36594031 AGAGTTTTGAGAAATTTAGGGAGAGGTTTC
1 AGAGTTTTGAGAAATTTAAGGAGAAATTTC
36594061 AGAGTTTT
1 AGAGTTTT
36594069 TTGTCAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (30 bp):
AGAGTTTTGAGAAATTTAAGGAGAAATTTC
Found at i:36600384 original size:22 final size:21
Alignment explanation
Indices: 36600359--36600408 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
36600349 CTTTTCCTGT
*
36600359 TTTTATTTTTTATTTTATAATA
1 TTTTATTTTATATTTTA-AATA
* *
36600381 TTTTAAATTTATATTTTAAATG
1 TTTT-ATTTTATATTTTAAATA
36600403 TTTTAT
1 TTTTAT
36600409 AATATTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTATTTTATATTTTAAATA
Found at i:36600485 original size:10 final size:10
Alignment explanation
Indices: 36600470--36600503 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
36600460 GTTTATTATT
36600470 TATTTTATAA
1 TATTTTATAA
36600480 TATTTTA-AA
1 TATTTTATAA
36600489 TATTTTATAA
1 TATTTTATAA
36600499 TATTT
1 TATTT
36600504 GTTTATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:36600698 original size:11 final size:11
Alignment explanation
Indices: 36600682--36600711 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
36600672 AATGTTATAA
36600682 AATAAATAAAT
1 AATAAATAAAT
36600693 AATAAATAAAT
1 AATAAATAAAT
*
36600704 AAAAAATA
1 AATAAATA
36600712 GGAAAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:36600699 original size:15 final size:15
Alignment explanation
Indices: 36600681--36600711 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36600671 AAATGTTATA
*
36600681 AAATAAATAAATAAT
1 AAATAAATAAAAAAT
36600696 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
36600711 A
1 A
36600712 GGAAAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAATAAAAAAT
Found at i:36609728 original size:10 final size:10
Alignment explanation
Indices: 36609713--36609741 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
36609703 ATTACGTGTT
36609713 TGAATAGAAA
1 TGAATAGAAA
36609723 TGAATAG-AA
1 TGAATAGAAA
36609732 TGAATAGAAA
1 TGAATAGAAA
36609742 ATGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:36609840 original size:6 final size:6
Alignment explanation
Indices: 36609829--36609867 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
36609819 AGGTTTCCAA
* *
36609829 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
36609868 CTTGCAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:36616534 original size:15 final size:15
Alignment explanation
Indices: 36616486--36616535 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
36616476 GTATCTTGGG
*
36616486 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
36616501 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
36616516 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
36616531 TTTCT
1 TTTCT
36616536 CTATCTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:36623245 original size:33 final size:32
Alignment explanation
Indices: 36623208--36623345 Score: 114
Period size: 33 Copynumber: 4.1 Consensus size: 32
36623198 ATAGCTGGAC
36623208 TATGGCATTCTGATGATAAGACCATAATTGGGT
1 TATGGCATTCTGATG-TAAGACCATAATTGGGT
* * * ** *
36623241 TATGGCACTATGAACGTAAGACCATGGTTGGAT
1 TATGGCATTCTG-ATGTAAGACCATAATTGGGT
* * * ** *
36623274 CATGGCAGTGTTTATATGTAAGACCATAGCTGGGC
1 TATGGCA-T-TCT-GATGTAAGACCATAATTGGGT
36623309 TATGGCATTCTGATGATAAGACCATAATTGGGT
1 TATGGCATTCTGATG-TAAGACCATAATTGGGT
36623342 TATG
1 TATG
36623346 TCACTACGAA
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
32 3 0.04
33 50 0.63
34 3 0.04
35 23 0.29
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (32 bp):
TATGGCATTCTGATGTAAGACCATAATTGGGT
Found at i:36623298 original size:35 final size:34
Alignment explanation
Indices: 36623154--36623302 Score: 108
Period size: 33 Copynumber: 4.4 Consensus size: 34
36623144 TGTGATTTCG
* *
36623154 TGTAAGACCATGGTTGGACCATGGCAGTGTTTATA
1 TGTAAGACCATAGTTGGATCATGGCAGT-TTTATA
* * * *
36623189 TGTAAGACTATAGCTGGA-CTATGGCA-TTCT-GA
1 TGTAAGACCATAGTTGGATC-ATGGCAGTTTTATA
* * * * * *
36623221 TGATAAGACCATAATTGGGTTATGGCACTATGA-A
1 TG-TAAGACCATAGTTGGATCATGGCAGTTTTATA
* *
36623255 CGTAAGACCATGGTTGGATCATGGCAGTGTTTATA
1 TGTAAGACCATAGTTGGATCATGGCAGT-TTTATA
36623290 TGTAAGACCATAG
1 TGTAAGACCATAG
36623303 CTGGGCTATG
Statistics
Matches: 84, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
32 3 0.04
33 41 0.49
34 7 0.08
35 33 0.39
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (34 bp):
TGTAAGACCATAGTTGGATCATGGCAGTTTTATA
Found at i:36623314 original size:35 final size:34
Alignment explanation
Indices: 36623154--36623315 Score: 98
Period size: 35 Copynumber: 4.8 Consensus size: 34
36623144 TGTGATTTCG
* * * *
36623154 TGTAAGACCATGGTTGGACCATGGCAGTGTTTATA
1 TGTAAGACCATAGCTGGGCTATGGCAGT-TTTATA
* * * *
36623189 TGTAAGACTATAGCTGGACTATGGCA-TTCT-GA
1 TGTAAGACCATAGCTGGGCTATGGCAGTTTTATA
** * * * *
36623221 TGATAAGACCATAATTGGGTTATGGCACTATGA-A
1 TG-TAAGACCATAGCTGGGCTATGGCAGTTTTATA
* * * *
36623255 CGTAAGACCAT-GGTTGGATCATGGCAGTGTTTATA
1 TGTAAGACCATAGCTGGGCT-ATGGCAGT-TTTATA
36623290 TGTAAGACCATAGCTGGGCTATGGCA
1 TGTAAGACCATAGCTGGGCTATGGCA
36623316 TTCTGATGAT
Statistics
Matches: 94, Mismatches: 26, Indels: 14
0.70 0.19 0.10
Matches are distributed among these distances:
32 7 0.07
33 37 0.39
34 6 0.06
35 39 0.41
36 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (34 bp):
TGTAAGACCATAGCTGGGCTATGGCAGTTTTATA
Found at i:36623330 original size:101 final size:101
Alignment explanation
Indices: 36623155--36623360 Score: 358
Period size: 101 Copynumber: 2.0 Consensus size: 101
36623145 GTGATTTCGT
*
36623155 GTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACTATAGCTGGACTATGGCATTCTG
1 GTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTG
*
36623220 ATGATAAGACCATAATTGGGTTATGGCACTATGAAC
66 ATGATAAGACCATAATTGGGTTATGGCACTACGAAC
* *
36623256 GTAAGACCATGGTTGGATCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 GTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTG
* *
36623321 ATGATAAGACCATAATTGGGTTATGTCACTACGAAT
66 ATGATAAGACCATAATTGGGTTATGGCACTACGAAC
36623357 GTAA
1 GTAA
36623361 ATGATGAATT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
GTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTG
ATGATAAGACCATAATTGGGTTATGGCACTACGAAC
Found at i:36624289 original size:16 final size:17
Alignment explanation
Indices: 36624268--36624300 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36624258 TAAACATAAA
*
36624268 AAACAAGCAAA-CATAT
1 AAACAAACAAACCATAT
36624284 AAACAAACAAACCATAT
1 AAACAAACAAACCATAT
36624301 CTTCGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.21, G:0.03, T:0.12
Consensus pattern (17 bp):
AAACAAACAAACCATAT
Found at i:36637814 original size:16 final size:16
Alignment explanation
Indices: 36637793--36637844 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
36637783 ATAAATTTTA
36637793 TGAAGAGTTAGAAATG
1 TGAAGAGTTAGAAATG
*
36637809 TGAAGAGACTT-GAAA-A
1 TGAAGAG--TTAGAAATG
36637825 TGAAGAGTTAGAAATG
1 TGAAGAGTTAGAAATG
36637841 TGAA
1 TGAA
36637845 AAGACTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.07
15 4 0.13
16 18 0.60
17 4 0.13
18 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (16 bp):
TGAAGAGTTAGAAATG
Found at i:36637833 original size:32 final size:32
Alignment explanation
Indices: 36637792--36637866 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
36637782 AATAAATTTT
*
36637792 ATGAAGAGTTAGAAATGTGAAGAGACTTGAAA
1 ATGAAGAGTTAGAAATGTGAAAAGACTTGAAA
*
36637824 ATGAAGAGTTAGAAATGTGAAAAGACTTGAAG
1 ATGAAGAGTTAGAAATGTGAAAAGACTTGAAA
36637856 ATGAAGAGTTA
1 ATGAAGAGTTA
36637867 TACACATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.23
Consensus pattern (32 bp):
ATGAAGAGTTAGAAATGTGAAAAGACTTGAAA
Found at i:36642374 original size:39 final size:39
Alignment explanation
Indices: 36642320--36642415 Score: 156
Period size: 39 Copynumber: 2.5 Consensus size: 39
36642310 ACATACATGC
*
36642320 ATGTATATGAATAGTCACAACTCCTACAACATTTAAGTG
1 ATGTAGATGAATAGTCACAACTCCTACAACATTTAAGTG
* *
36642359 ATGTAGATGAATAGTCACAACTCCTATAGCATTTAAGTG
1 ATGTAGATGAATAGTCACAACTCCTACAACATTTAAGTG
*
36642398 ATGTAGATGAATAATCAC
1 ATGTAGATGAATAGTCAC
36642416 TTACAACTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (39 bp):
ATGTAGATGAATAGTCACAACTCCTACAACATTTAAGTG
Found at i:36644742 original size:13 final size:13
Alignment explanation
Indices: 36644724--36644749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36644714 GGTTTTTTTG
36644724 TGTTTTTTAAATT
1 TGTTTTTTAAATT
36644737 TGTTTTTTAAATT
1 TGTTTTTTAAATT
36644750 ATTTTCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
TGTTTTTTAAATT
Found at i:36645689 original size:98 final size:98
Alignment explanation
Indices: 36645570--36645766 Score: 360
Period size: 98 Copynumber: 2.0 Consensus size: 98
36645560 TTAAAAATAA
36645570 TAAAGGAAATATTTCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTTCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
36645635 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
*
36645668 TAAAGGAAATA-TTCTATGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTTCGA-GTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
*
36645732 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATATTCTTTTAAAG
36645766 T
1 T
36645767 TTTATTGCAC
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
97 4 0.04
98 92 0.96
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTTCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:36657442 original size:44 final size:44
Alignment explanation
Indices: 36657259--36657707 Score: 163
Period size: 44 Copynumber: 10.2 Consensus size: 44
36657249 AAGGTTATAG
* *
36657259 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* * * ** *
36657303 ATTTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCGA
* * * * * * ** * ** *
36657346 AGCCTTGTCTCCTTGAGCAGTAGCGGAGAAGGCTAAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* * *
36657390 GATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* * ** *
36657435 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCGA
* * * * * * * ** *
36657478 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* *
36657522 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAGGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
** * ** *
36657567 ATCTTATCT-TTTCAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCT-AAGCAGTAGT-GG-AGCAGATTGAAGACGGCGA
* * * * * ** *
36657610 AGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
*
36657654 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
36657699 ATCTTATCT
1 ATCTTATCT
36657708 TTCCAAGATA
Statistics
Matches: 278, Mismatches: 97, Indels: 60
0.64 0.22 0.14
Matches are distributed among these distances:
42 12 0.04
43 25 0.09
44 211 0.76
45 22 0.08
46 8 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
Found at i:36657465 original size:132 final size:132
Alignment explanation
Indices: 36657154--36657779 Score: 1041
Period size: 132 Copynumber: 4.8 Consensus size: 132
36657144 TTGAAGTTAC
*
36657154 AGTGGAGCAGATCGAAGACGGCGAATATTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
36657219 CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTT----A---TAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
36657277 GT
131 GT
* *
36657279 AGTGGAGCAGATCGAAGACGGCAAATTTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
36657344 CAAGCCTTGTCTCCTTGAGCAGTAGCGGAGAAGGCTAAAGATTGTAGATATTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
36657409 GT
131 GT
*
36657411 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
36657476 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
36657541 GT
131 GT
* *
36657543 AGTGGAGCAGATCGAAGAGGGCGAATCTTATCTTTTCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
36657608 CAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
36657673 GT
131 GT
* ** *
36657675 AGTGGAGCAGATAGAAGACGGCGAATCTTATCTTTCCAAGATAGTAAGAAGCAGATTAAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
36657740 CAAGCCTTGTCTCCGTGAGCAGCAGCGGAGAAGGTTGAAG
66 CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAG
36657780 CTACAAGTCT
Statistics
Matches: 467, Mismatches: 27, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
125 97 0.21
129 1 0.00
132 369 0.79
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:36658416 original size:18 final size:18
Alignment explanation
Indices: 36658393--36658435 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36658383 TTGATACTTG
36658393 TATTTTCATTGT-TATATT
1 TATTTT-ATTGTATATATT
* *
36658411 TATTTTTTTGTATATTTT
1 TATTTTATTGTATATATT
36658429 TATTTTA
1 TATTTTA
36658436 CATACGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (18 bp):
TATTTTATTGTATATATT
Found at i:36659927 original size:98 final size:98
Alignment explanation
Indices: 36659799--36659995 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
36659789 TAAAAAATAA
* *
36659799 TAAAGGAAATATTCCGAGTTTGAGATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTAATTTC
1 TAAAAGAAATATTCCAAGTTTGAGATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTAATTTC
36659864 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
36659897 TAAAAGAAATATTTCAAGTTT-AGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAAGAAATATTCCAAGTTTGA-GATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTAATTT
36659961 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
36659995 T
1 T
36659996 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (98 bp):
TAAAAGAAATATTCCAAGTTTGAGATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTAATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:36666301 original size:23 final size:23
Alignment explanation
Indices: 36666275--36666323 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
36666265 TTGTTTTTTA
36666275 TATGAAAATGCTTATGTTGTGTT
1 TATGAAAATGCTTATGTTGTGTT
*
36666298 TATGAAAATGGTTATGTTGTGTT
1 TATGAAAATGCTTATGTTGTGTT
36666321 TAT
1 TAT
36666324 TTCATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (23 bp):
TATGAAAATGCTTATGTTGTGTT
Found at i:36668153 original size:18 final size:18
Alignment explanation
Indices: 36668124--36668196 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
36668114 ATTAAAAAAA
*
36668124 TTATAATTTTAAAA-TTT
1 TTATATTTTTAAAATTTT
36668141 TTATGATTTTTAAAATTTT
1 TTAT-ATTTTTAAAATTTT
**
36668160 TTATATTTTTTATGATTTT
1 TTATA-TTTTTAAAATTTT
*
36668179 TTAATAATTTT-AAATTTT
1 TT-ATATTTTTAAAATTTT
36668197 AAAATGGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 4 0.09
18 15 0.33
19 24 0.52
20 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTATATTTTTAAAATTTT
Found at i:36668167 original size:9 final size:10
Alignment explanation
Indices: 36668138--36668181 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
36668128 AATTTTAAAA
36668138 TTTTTATGA-
1 TTTTTATGAT
**
36668147 TTTTTAAAAT
1 TTTTTATGAT
36668157 TTTTTAT-AT
1 TTTTTATGAT
36668166 TTTTTATGAT
1 TTTTTATGAT
36668176 TTTTTA
1 TTTTTA
36668182 ATAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 16 0.53
10 14 0.47
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (10 bp):
TTTTTATGAT
Found at i:36668171 original size:19 final size:19
Alignment explanation
Indices: 36668130--36668169 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
36668120 AAAATTATAA
36668130 TTTTAAAA-TTTTTATGAT
1 TTTTAAAATTTTTTATGAT
36668148 TTTTAAAATTTTTTAT-AT
1 TTTTAAAATTTTTTATGAT
36668166 TTTT
1 TTTT
36668170 TATGATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTAAAATTTTTTATGAT
Found at i:36668190 original size:28 final size:27
Alignment explanation
Indices: 36668126--36668196 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
36668116 TAAAAAAATT
*
36668126 ATAATTTTAAAATTTTTATGATTTTTA
1 ATAATTTTAAATTTTTTATGATTTTTA
*
36668153 A-AATTTTTTATATTTTTTATGATTTTTTA
1 ATAA--TTTTAAATTTTTTATGA-TTTTTA
36668182 ATAATTTTAAATTTT
1 ATAATTTTAAATTTT
36668197 AAAATGGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 25 0.68
29 7 0.19
30 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (27 bp):
ATAATTTTAAATTTTTTATGATTTTTA
Found at i:36673480 original size:25 final size:24
Alignment explanation
Indices: 36673345--36673482 Score: 77
Period size: 25 Copynumber: 5.5 Consensus size: 24
36673335 ACACACCTTA
*
36673345 GCTCTTAT-GAGCATCCCGATATATG
1 GCTCTT-TGGAGCTTCCCGATA-ATG
* *
36673370 ACTCTTCGTGAGCTTCCC-ATTAACTG
1 GCTCTTTG-GAGCTTCCCGA-TAA-TG
*
36673396 GCTCTTTGTGAGCTTCCTGAT-ATG
1 GCTCTTTG-GAGCTTCCCGATAATG
* * *
36673420 GCTCGCTT-GAACTTTCCGATATATG
1 GCTC-TTTGGAGCTTCCCGATA-ATG
* **
36673445 GCTATCCGGAGCTTCCCGATTAATG
1 GCTCTTTGGAGCTTCCCGA-TAATG
36673470 GCTCTTTGGAGCT
1 GCTCTTTGGAGCT
36673483 ACCTGTTATA
Statistics
Matches: 84, Mismatches: 19, Indels: 20
0.68 0.15 0.16
Matches are distributed among these distances:
23 9 0.11
24 6 0.07
25 38 0.45
26 30 0.36
27 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
GCTCTTTGGAGCTTCCCGATAATG
Found at i:36673535 original size:73 final size:73
Alignment explanation
Indices: 36673453--36673608 Score: 260
Period size: 73 Copynumber: 2.1 Consensus size: 73
36673443 TGGCTATCCG
*
36673453 GAGCTTCCCGATTAATGGCTCTTTGGA-GCTACCTGTTATAAGCTCGCATGAGATTCTTGAATAT
1 GAGCTTCCCGATTAATGGCTC-TTCGACGCTACCTGTTATAAGCTCGCATGAGATTCTTGAATAT
36673517 GGATCTTAT
65 GGATCTTAT
* * *
36673526 GAGTTTCCCGATTAATGGCTCTTCGACGCTACCTGTTATAGGCTCGCATGAGCTTCTTGAATATG
1 GAGCTTCCCGATTAATGGCTCTTCGACGCTACCTGTTATAAGCTCGCATGAGATTCTTGAATATG
36673591 GATCTTAT
66 GATCTTAT
36673599 GAGCTTCCCG
1 GAGCTTCCCG
36673609 TTATATAGTC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 4 0.05
73 73 0.95
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATGGCTCTTCGACGCTACCTGTTATAAGCTCGCATGAGATTCTTGAATATG
GATCTTAT
Found at i:36677824 original size:27 final size:26
Alignment explanation
Indices: 36677778--36677830 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
36677768 GTTATAAAAC
*
36677778 AAAGAGAAATGAAGAGAATAAAGAAT
1 AAAGAAAAATGAAGAGAATAAAGAAT
36677804 AAAGAAAATATGAA-AGCAATAAAGAAT
1 AAAGAAAA-ATGAAGAG-AATAAAGAAT
36677831 GTACTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.66, C:0.02, G:0.19, T:0.13
Consensus pattern (26 bp):
AAAGAAAAATGAAGAGAATAAAGAAT
Found at i:36678415 original size:22 final size:22
Alignment explanation
Indices: 36678390--36678454 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
36678380 AATATTAATT
36678390 TTAAATTTATTTATTTAAAAT-A
1 TTAAA-TTATTTATTTAAAATAA
*
36678412 TTAAATTA-TTATTTAATATAAA
1 TTAAATTATTTATTTAAAAT-AA
* *
36678434 TAAAATTATTTTTTTATAAAT
1 TTAAATTATTTATTTA-AAAT
36678455 GAAATATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 10 0.29
21 3 0.09
22 13 0.37
23 6 0.17
24 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAAATTATTTATTTAAAATAA
Found at i:36678453 original size:20 final size:20
Alignment explanation
Indices: 36678391--36678463 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
36678381 ATATTAATTT
* *
36678391 TAAATTTATTTATTTA-AAA
1 TAAAATTATTTTTTTATAAA
*
36678410 TATTAAATTATTATTTAATATAAA
1 TA--AAATTATT-TTT-TTATAAA
36678434 TAAAATTATTTTTTTATAAA
1 TAAAATTATTTTTTTATAAA
*
36678454 TGAAA-TATTT
1 TAAAATTATTT
36678464 AACCCCTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 7 0.16
20 10 0.23
21 10 0.23
22 10 0.23
23 2 0.05
24 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (20 bp):
TAAAATTATTTTTTTATAAA
Found at i:36686473 original size:28 final size:28
Alignment explanation
Indices: 36686432--36686492 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
36686422 CTGTTTAGTA
36686432 ACAGT-ACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
36686459 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
36686487 ACAGTA
1 ACAGTA
36686493 TCGGTATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:36686887 original size:27 final size:27
Alignment explanation
Indices: 36686857--36687027 Score: 135
Period size: 27 Copynumber: 6.3 Consensus size: 27
36686847 GGGTATAATA
*
36686857 GTCATTTTACCATATGGGGGTATTTCG
1 GTCATTTTACCATATGGGGGTAATTCG
* * * *
36686884 GTCATATTACCCTATGAGGGTATTTCG
1 GTCATTTTACCATATGGGGGTAATTCG
* * *
36686911 GTCATTTTATCATGTGGAGGTAATTCG
1 GTCATTTTACCATATGGGGGTAATTCG
* * * *
36686938 ATCATTTTACCCTGTAGGGGTAATTCG
1 GTCATTTTACCATATGGGGGTAATTCG
* * * ** **
36686965 ATCATTTTACCCTGTAAGGGTAATTTA
1 GTCATTTTACCATATGGGGGTAATTCG
* * *
36686992 GTCATTTTACCCTATAGAGGTAATTCG
1 GTCATTTTACCATATGGGGGTAATTCG
*
36687019 ATCATTTTA
1 GTCATTTTA
36687028 TGACCTCTCG
Statistics
Matches: 119, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATATGGGGGTAATTCG
Found at i:36686959 original size:54 final size:54
Alignment explanation
Indices: 36686858--36687027 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 54
36686848 GGTATAATAG
* * * * * * *
36686858 TCATTTTACCATATGGGGGTATTTCGGTCATATTACCCTAT-GAGGGTATTTCGG
1 TCATTTTACCATGTGGAGGTAATTCGATCATTTTACCCTATAG-GGGTAATTCGA
* *
36686912 TCATTTTATCATGTGGAGGTAATTCGATCATTTTACCCTGTAGGGGTAATTCGA
1 TCATTTTACCATGTGGAGGTAATTCGATCATTTTACCCTATAGGGGTAATTCGA
* * * *
36686966 TCATTTTACCCTGT-AAGGGTAATT-TAGTCATTTTACCCTATAGAGGTAATTCGA
1 TCATTTTACCATGTGGA-GGTAATTCGA-TCATTTTACCCTATAGGGGTAATTCGA
36687020 TCATTTTA
1 TCATTTTA
36687028 TGACCTCTCG
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 95 0.97
55 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (54 bp):
TCATTTTACCATGTGGAGGTAATTCGATCATTTTACCCTATAGGGGTAATTCGA
Found at i:36686976 original size:81 final size:81
Alignment explanation
Indices: 36686858--36687027 Score: 207
Period size: 81 Copynumber: 2.1 Consensus size: 81
36686848 GGTATAATAG
* * * * * *
36686858 TCATTTTACCATATGGGGGTATTTCGGTCATATTACCCTATGAGGGT-ATTTCGGTCATTTTATC
1 TCATTTTACCATATAGGGGTAATTCGATCATATTACCCTATAAGGGTAATTT-AGTCATTTTACC
* *
36686922 ATGTGGAGGTAATTCGA
65 ATATAGAGGTAATTCGA
* * * * *
36686939 TCATTTTACCCTGTAGGGGTAATTCGATCATTTTACCCTGTAAGGGTAATTTAGTCATTTTACCC
1 TCATTTTACCATATAGGGGTAATTCGATCATATTACCCTATAAGGGTAATTTAGTCATTTTACCA
36687004 TATAGAGGTAATTCGA
66 TATAGAGGTAATTCGA
36687020 TCATTTTA
1 TCATTTTA
36687028 TGACCTCTCG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
81 71 0.95
82 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (81 bp):
TCATTTTACCATATAGGGGTAATTCGATCATATTACCCTATAAGGGTAATTTAGTCATTTTACCA
TATAGAGGTAATTCGA
Found at i:36690519 original size:44 final size:43
Alignment explanation
Indices: 36690470--36690634 Score: 127
Period size: 44 Copynumber: 3.6 Consensus size: 43
36690460 TCGATTCATC
* *
36690470 CCACTACAACTTCAAGGATATAGGATTTGTAGCTTAATCTTGCT
1 CCACTACAACTTCAAGGAGATAAGATTTGTAGCTTAATCTT-CT
* * *
36690514 CCACTACAACTTCAAGGAGATAAGATTCGTTGTTATAAT-TTCAAT
1 CCACTACAACTTCAAGGAGATAAGATTTGTAGCT-TAATCTTC--T
* * *
36690559 CCGATCTAGTACAACTTCAGGGATG-TAGGATTTGTAGCTTCATCTTACT
1 CC-A-C---TACAACTTCAAGGA-GATAAGATTTGTAGCTTAATCTT-CT
* *
36690608 CCATTACATCTTCAAGGAGATAAGATT
1 CCACTACAACTTCAAGGAGATAAGATT
36690635 CGCTAATGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
43 2 0.02
44 49 0.52
45 7 0.07
46 1 0.01
47 1 0.01
48 1 0.01
49 6 0.06
50 25 0.27
51 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (43 bp):
CCACTACAACTTCAAGGAGATAAGATTTGTAGCTTAATCTTCT
Found at i:36690534 original size:94 final size:94
Alignment explanation
Indices: 36690412--36690636 Score: 245
Period size: 94 Copynumber: 2.4 Consensus size: 94
36690402 TTATAACTTT
** * * * * * * * * *
36690412 ATCTTACTCCACTGTATCTTTAGGGAGATGAGATTTGTCATTGTAGTTTCGATTC-ATCCCACTA
1 ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCGTCATTATAATTTCAATCCGAT-CCACTA
36690476 CAACTTCAAGGATATAGGATTTGTAGCTTA
65 CAACTTCAAGGATATAGGATTTGTAGCTTA
* ** * *
36690506 ATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCGTTGTTATAATTTCAATCCGATCTAGTAC
1 ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCGTCATTATAATTTCAATCCGATCCACTAC
* * *
36690571 AACTTCAGGGATGTAGGATTTGTAGCTTC
66 AACTTCAAGGATATAGGATTTGTAGCTTA
* *
36690600 ATCTTACTCCATTACATCTTCAAGGAGATAAGATTCG
1 ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCG
36690637 CTAATGTAGT
Statistics
Matches: 108, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
94 106 0.98
95 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (94 bp):
ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCGTCATTATAATTTCAATCCGATCCACTAC
AACTTCAAGGATATAGGATTTGTAGCTTA
Found at i:36703816 original size:14 final size:14
Alignment explanation
Indices: 36703797--36703823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36703787 AATAGACCTT
36703797 TTTATTTATTTTTG
1 TTTATTTATTTTTG
36703811 TTTATTTATTTTT
1 TTTATTTATTTTT
36703824 ATTTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTG
Done.