Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 18 of 144
Found at i:4490676 original size:17 final size:17
Alignment explanation
Indices: 4490656--4490732 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
4490646 AATAATTTTT
* *
4490656 AATTCAAAATAAATTCA
1 AATTTAAAATAAATTAA
*
4490673 AATTTAAAATAAATTGA
1 AATTTAAAATAAATTAA
* * * * *
4490690 AACTCAACATGAATTTA
1 AATTTAAAATAAATTAA
4490707 AATTTAAAATAAATTAA
1 AATTTAAAATAAATTAA
4490724 AATTTAAAA
1 AATTTAAAA
4490733 ATTAAAAGTT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTTAAAATAAATTAA
Found at i:4491440 original size:102 final size:102
Alignment explanation
Indices: 4491257--4491576 Score: 534
Period size: 102 Copynumber: 3.1 Consensus size: 102
4491247 ACTGCTGTAG
** * * *
4491257 TTTTAATCCAACTTCGCTGCAACTTCAGGAAGATAGGATTTGATG-TTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
* *
4491321 TTACTACAACTTTAGAGAGATAAAGAGTTGCTATTTT
66 TTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
* *
4491358 TTTTAATCCAGCTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAATCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
4491423 TTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
*
4491460 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTT
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
*
4491525 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
4491562 TTTTAATCCAACTTT
1 TTTTAATCCAACTTT
4491577 TTCAGAGAGA
Statistics
Matches: 205, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
101 39 0.19
102 166 0.81
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (102 bp):
TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
TTACTACAACTTTAGAGAGATAAAGACTTGCTATTGT
Found at i:4491587 original size:42 final size:42
Alignment explanation
Indices: 4491535--4491618 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4491525 TTACTACAAC
4491535 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTT
1 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTT
4491577 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTT
1 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTT
4491619 ACTGCAACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (42 bp):
TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTT
Found at i:4491605 original size:144 final size:143
Alignment explanation
Indices: 4491436--4491719 Score: 527
Period size: 144 Copynumber: 2.0 Consensus size: 143
4491426 CTACAACTTT
4491436 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
1 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
4491501 GATGTTTGAAGCTTCATCTTGCT-TTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT-TT
66 GATGTTTGAAGCTTCATCTTGCTCTTT-CTACAACTTCAGAGA-ATAAAGACTTGCTATT-TATT
4491564 TTAATCCAACTTTTTC
128 TTAATCCAACTTTTTC
4491580 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
1 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
4491645 GATGTTTGAAGCTTCATCTTGCTCTTTCTACAACTTCAGAGAATAAAGACTTGCTATTTATTTTA
66 GATGTTTGAAGCTTCATCTTGCTCTTTCTACAACTTCAGAGAATAAAGACTTGCTATTTATTTTA
4491710 ATCCAACTTT
131 ATCCAACTTT
4491720 ACTGCAACTT
Statistics
Matches: 138, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
142 1 0.01
143 31 0.22
144 103 0.75
145 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (143 bp):
AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
GATGTTTGAAGCTTCATCTTGCTCTTTCTACAACTTCAGAGAATAAAGACTTGCTATTTATTTTA
ATCCAACTTTTTC
Found at i:4491787 original size:245 final size:245
Alignment explanation
Indices: 4491334--4491821 Score: 863
Period size: 245 Copynumber: 2.0 Consensus size: 245
4491324 CTACAACTTT
* * *
4491334 AGAGAGATAAAGAGTTGCTATTTTTTTTAATCCAGCTTTACTGCAACTTCAAGAGGATAGGAATT
1 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
* *
4491399 GATGTTTGAATCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATTGTTTTT
66 GATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTT
* *
4491464 AATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTTTTAC
131 AATCCAACTTTACTGCAACTTCAAAAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTAC
4491529 TACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTTTC
196 TACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAA-TTTTTC
4491580 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
1 AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
*
4491645 GATGTTTGAAGCTTCATCTTGCTCTTTCTACAACTTCAGAGA-ATAAAGACTTGCTATT-TATTT
66 GATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT-TTT
*
4491708 TAATCCAACTTTACTGCAACTTCAAAAGGATAGGAATTGATGTTTGAGGCTTCATCTTGCTCTTA
130 TAATCCAACTTTACTGCAACTTCAAAAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTA
4491773 CTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAATTTT
195 CTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAATTTT
4491822 ACTGTAACTT
Statistics
Matches: 232, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
244 5 0.02
245 126 0.54
246 101 0.44
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (245 bp):
AGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATT
GATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTT
AATCCAACTTTACTGCAACTTCAAAAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTAC
TACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAATTTTTC
Found at i:4491831 original size:50 final size:49
Alignment explanation
Indices: 4491770--4492041 Score: 161
Period size: 50 Copynumber: 5.4 Consensus size: 49
4491760 CATCTTGCTC
*
4491770 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAATT
1 TTACTACAACTTCA-AGAGATAAAGAATTGCTATTGTTTTTAATCCAATT
** * * * *** * * * *
4491820 TTACTGTAACTTCAAGAGGAT-AGGAATTGATGTTTGAAGCTTCATCTTACTC
1 TTACTACAACTTCAAGA-GATAAAGAATTGCT-ATTG-TTTTTAATC-CAATT
* *
4491872 TTACTACAACTTCAGAGAGATAAAGATTTGCTATTGTTTTTAATCCAACT
1 TTACTACAACTTCA-AGAGATAAAGAATTGCTATTGTTTTTAATCCAATT
* * * *** * *** *
4491922 TTACTACAACTTCAAGAGGAT-AGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTACTACAACTTCAAGA-GATAAAGAATTGCT-ATTG-TTTTTAATC-CAATT
* **
4491974 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAGCT
1 TTACTACAACTTCA-AGAGATAAAGAATTGCTATTGTTTTTAATCCAATT
*
4492024 TTACTGCAACTTCAAGAG
1 TTACTACAACTTCAAGAG
4492042 GATAGGAATT
Statistics
Matches: 156, Mismatches: 54, Indels: 25
0.66 0.23 0.11
Matches are distributed among these distances:
49 24 0.15
50 52 0.33
51 20 0.13
52 40 0.26
53 20 0.13
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (49 bp):
TTACTACAACTTCAAGAGATAAAGAATTGCTATTGTTTTTAATCCAATT
Found at i:4491845 original size:102 final size:102
Alignment explanation
Indices: 4491577--4492089 Score: 922
Period size: 102 Copynumber: 5.0 Consensus size: 102
4491567 ATCCAACTTT
4491577 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGA
1 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGA
*
4491642 ATTGATGTTTGAAGCTTCATCTTGCTCTTTCTACAAC
66 ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
*
4491679 TTCAGAGA-ATAAAGACTTGCTATT-TATTTTAATCCAACTTTACTGCAACTTCAAAAGGATAGG
1 TTCAGAGAGATAAAGACTTGCTATTGT-TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGG
*
4491742 AATTGATGTTTGAGGCTTCATCTTGCTCTTACTACAAC
65 AATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
* *
4491780 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAATTTTACTGTAACTTCAAGAGGATAGGA
1 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGA
*
4491845 ATTGATGTTTGAAGCTTCATCTTACTCTTACTACAAC
66 ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
* *
4491882 TTCAGAGAGATAAAGATTTGCTATTGTTTTTAATCCAACTTTACTACAACTTCAAGAGGATAGGA
1 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGA
4491947 ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
66 ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
*
4491984 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAGCTTTACTGCAACTTCAAGAGGATAGGA
1 TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGA
4492049 ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
66 ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
4492086 TTCA
1 TTCA
4492090 AGGTAGAAGT
Statistics
Matches: 392, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
100 1 0.00
101 96 0.24
102 294 0.75
103 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (102 bp):
TTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGA
ATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
Found at i:4491892 original size:347 final size:347
Alignment explanation
Indices: 4491257--4491923 Score: 1147
Period size: 347 Copynumber: 1.9 Consensus size: 347
4491247 ACTGCTGTAG
* * *
4491257 TTTTAATCCAACTTCGCTGCAACTTCAGGAAGATAGGATTTGATGTTGAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTGATGTTGAAGCTTCATCTTGCTCT
* * * * *
4491322 TACTACAACTTTAGAGAGATAAAGAGTTGCTATTTTTTTTAATCCAGCTTTACTGCAACTTCAAG
66 TACTACAACTTCAGAGAGATAAAGACTTGCTATTTATTTTAATCCAACTTTACTGCAACTTCAAA
* *
4491387 AGGATAGGAATTGATGTTTGAATCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTT
131 AGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTT
4491452 GCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCA
196 GCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCA
* *
4491517 TCTTGCTTTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTTTCAG
261 TCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTTTCAG
4491582 AGAGATAAAGACTTGCTATTGT
326 AGAGATAAAGACTTGCTATTGT
* *
4491604 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTGATG-TTGAAGCTTCATCTTGCTC
*
4491669 TTTCTACAACTTCAGAGA-ATAAAGACTTGCTATTTATTTTAATCCAACTTTACTGCAACTTCAA
65 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTTATTTTAATCCAACTTTACTGCAACTTCAA
*
4491733 AAGGATAGGAATTGATGTTTGAGGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
130 AAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
* *
4491798 TGCTATTGTTTTTAATCCAATTTTACTGTAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTC
195 TGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTC
*
4491863 ATCTTACTCTTACTACAACTTCAGAGAGATAAAGATTTGCTATTGTTTTTAATCCAACTTT
260 ATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTT
4491924 ACTACAACTT
Statistics
Matches: 300, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
347 265 0.88
348 35 0.12
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (347 bp):
TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTGATGTTGAAGCTTCATCTTGCTCT
TACTACAACTTCAGAGAGATAAAGACTTGCTATTTATTTTAATCCAACTTTACTGCAACTTCAAA
AGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTT
GCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCA
TCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTTTCAG
AGAGATAAAGACTTGCTATTGT
Found at i:4492400 original size:49 final size:49
Alignment explanation
Indices: 4492185--4492474 Score: 271
Period size: 49 Copynumber: 5.9 Consensus size: 49
4492175 AAACCTTCAA
* * * * *
4492185 GGTACTAGATTCGCCGTTGCGGCTTAAAT-TTTCCCTTCATGTTTTCGA
1 GGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGT
* * ** ** * * * *
4492233 GGTACAAGG-TTCATCGTTGCAACTCAAACCTTTCCCTTTAT-TACTTCGT
1 GGTAC-TGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGT-CTTCGT
*
4492282 GGTATTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGT
1 GGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGT
** * * **
4492331 GGTACTGGATCCGTTGTTGCGGCTTAGATCTTTCCCATCGTGTCTTCAC
1 GGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGT
* * * * * *
4492380 GGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCTCGTCGTGTTTTTGT
1 GGTACTGGATCCGCCGTTGCGG-CTTAGATCTTTCCCTTCATGTCTTCGT
*
4492430 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATGTCT
1 GGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCT
4492475 CTGAGGTAAT
Statistics
Matches: 192, Mismatches: 44, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
48 22 0.11
49 128 0.67
50 42 0.22
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (49 bp):
GGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGT
Found at i:4492452 original size:99 final size:98
Alignment explanation
Indices: 4492282--4492474 Score: 269
Period size: 99 Copynumber: 2.0 Consensus size: 98
4492272 ATTACTTCGT
* * * **
4492282 GGTATTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGTTG
1 GGTACTGGATCCGCCATTGCGGCTTAGATCTTTCCCGTCATGTCTTCGTGGTACTGGATCCGCCG
* *
4492347 TTGCGGCTTAGATCTTTCCCATCGTGTCTTCAC
66 TCGCGGCTTAGATCTTTCCCATCATGTCTTCAC
* * * *
4492380 GGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCTCGTCGTGTTTTTGTGGTACTGGATCCGCC
1 GGTACTGGATCCGCCATTGCGG-CTTAGATCTTTCCCGTCATGTCTTCGTGGTACTGGATCCGCC
*
4492445 GTCGCGGCTTAGATCTTTCCCTTCATGTCT
65 GTCGCGGCTTAGATCTTTCCCATCATGTCT
4492475 CTGAGGTAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
98 20 0.24
99 62 0.76
ACGTcount: A:0.11, C:0.26, G:0.25, T:0.38
Consensus pattern (98 bp):
GGTACTGGATCCGCCATTGCGGCTTAGATCTTTCCCGTCATGTCTTCGTGGTACTGGATCCGCCG
TCGCGGCTTAGATCTTTCCCATCATGTCTTCAC
Found at i:4492534 original size:148 final size:147
Alignment explanation
Indices: 4492280--4492562 Score: 338
Period size: 148 Copynumber: 1.9 Consensus size: 147
4492270 TTATTACTTC
* * * * *
4492280 GTGGTATTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGT
1 GTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATGTCTTCGAGGTAATGGATCCAT
* * * * *
4492345 TGTTGCGGCTTAGATCTTTCCCATCGTGTCTTCACGGTACTGGATCCGCCATTGCGGTCTTAGAT
66 TGTT-CGACTTAAACCTTTCCCATCGTATCTTCACGATACTGGATCCGCCATTGCGGTCTTAGAT
4492410 CTTTCTCGTCGTGTTTTT
130 CTTTCTCGTCGTGTTTTT
*
4492428 GTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATGTC-TCTGAGGTAATAGGTTCA
1 GTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATGTCTTC-GAGGTAAT-GGAT--
* * * ** *
4492492 CCATTG-T-GACTTAAACCTTTCCCTTTGTATCTTTACGATACTGGATTTGCCGTTGCGGTCTTA
62 CCATTGTTCGACTTAAACCTTTCCCATCGTATCTTCACGATACTGGATCCGCCATTGCGGTCTTA
*
4492555 GATTTTTC
127 GATCTTTC
4492563 CTGTCATGTC
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
147 2 0.02
148 102 0.90
149 3 0.03
150 1 0.01
151 5 0.04
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.39
Consensus pattern (147 bp):
GTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTCATGTCTTCGAGGTAATGGATCCAT
TGTTCGACTTAAACCTTTCCCATCGTATCTTCACGATACTGGATCCGCCATTGCGGTCTTAGATC
TTTCTCGTCGTGTTTTT
Found at i:4492555 original size:99 final size:102
Alignment explanation
Indices: 4492432--4492665 Score: 291
Period size: 101 Copynumber: 2.3 Consensus size: 102
4492422 GTTTTTGTGG
* *
4492432 TACTGGATCCGCCGTCGCGG-CTTAGATCTTTCCCT-TCATGTCTCTGAGGTA-ATAGGTTCACC
1 TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTGTCATGTCTCGGAGGTACA-AGGTTCACC
* *
4492494 ATT-GTGACTTAAACCTTTCCC-TTTGTATCTTTACGA
65 ATTACTGACTTAAACCCTTCCCTTTTGTATCTTTACGA
** * * *
4492530 TACTGGATTTGCCGTTGCGGTCTTAGAT-TTTTCCTGTCATGTCTCGGAGGTACAAGGTTCGCCG
1 TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTGTCATGTCTCGGAGGTACAAGGTTCACCA
* *
4492594 TTACTGACTTAAACCCTTCCCTTTTGTATCTTTGCGG
66 TTACTGACTTAAACCCTTCCCTTTTGTATCTTTACGA
* * *
4492631 TACTAGATCCACCGTTTCGGTCTTAGATCTTTCCC
1 TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCC
4492666 GTCGTGTTTC
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
98 23 0.20
99 32 0.28
100 17 0.15
101 36 0.32
102 5 0.04
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.38
Consensus pattern (102 bp):
TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTGTCATGTCTCGGAGGTACAAGGTTCACCA
TTACTGACTTAAACCCTTCCCTTTTGTATCTTTACGA
Found at i:4493780 original size:6 final size:6
Alignment explanation
Indices: 4493771--4493837 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
4493761 CGACCTCTCC
* * * * * *
4493771 TTTTCT TTTTCT TTTT-T CTCTAT TTTTGT TTTTGT TTTTAT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
4493818 TCTTT-T TTTTC- TTTTCT TTT
1 T-TTTCT TTTTCT TTTTCT TTT
4493838 ATTCATTGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 11 0.22
6 36 0.72
7 3 0.06
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:4493832 original size:29 final size:28
Alignment explanation
Indices: 4493771--4493837 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
4493761 CGACCTCTCC
*
4493771 TTTTCTTTTTCTTTTTTCTCTATTTTTGT
1 TTTTCTTTTT-ATTTTTCTCTATTTTTGT
* *
4493800 TTTTGTTTTTATTTTTCTTCT-TTTTTTT
1 TTTTCTTTTTATTTTTC-TCTATTTTTGT
4493828 CTTTTCTTTT
1 -TTTTCTTTT
4493838 ATTCATTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (28 bp):
TTTTCTTTTTATTTTTCTCTATTTTTGT
Found at i:4499220 original size:97 final size:97
Alignment explanation
Indices: 4499045--4499238 Score: 268
Period size: 97 Copynumber: 2.0 Consensus size: 97
4499035 AATTTTGGAA
*
4499045 AAGGATATTCGATTATCTCGATTTGCAGAAAAGTCACACCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGCAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCA
* * *
4499110 GAATCGGAGAT-AAAGAAACATTGCCTCGATTT
66 GAATCCGAAATAAAAG-AACATTACCTCGATTT
* * *
4499142 AAGGGTATTCGATTATTTCGATTTG-AGGAAAAATTACACCTAGTAAGTTAAGGCACAAATTTTC
1 AAGGATATTCGATTATCTCGATTTGCA-GAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTC
*
4499206 A-AATCTCGAAATAAAAGAATATTACCTCGATTT
65 AGAATC-CGAAATAAAAGAACATTACCTCGATTT
4499239 TAAAGTTTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
96 5 0.06
97 77 0.90
98 4 0.05
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTGCAGAAAAATCACACCTAGTAAGTTAAGGCACAAATTTTCA
GAATCCGAAATAAAAGAACATTACCTCGATTT
Found at i:4499544 original size:30 final size:31
Alignment explanation
Indices: 4499502--4499655 Score: 112
Period size: 30 Copynumber: 5.2 Consensus size: 31
4499492 ACTCGAGGGC
*
4499502 AAAATGGTAATTTTTGGAAGGTTTGAGGTCA
1 AAAATGGTAATTTTTAGAAGGTTTGAGGTCA
** *
4499533 AAAATGG-AATTTTT-GAATATTCGAGGGT--
1 AAAATGGTAATTTTTAGAAGGTTTGA-GGTCA
*
4499561 AAAATGGTAATTTTT-GAAAGGTTCGAGGTCA
1 AAAATGGTAATTTTTAG-AAGGTTTGAGGTCA
* * * *
4499592 AAAATAG-AGTTTTTAGACA-TTTTGGGGT--
1 AAAATGGTAATTTTTAGA-AGGTTTGAGGTCA
*
4499620 AAAATGGTAATTTTTAGAAGTTTTTG-GGTCA
1 AAAATGGTAATTTTTAGAAG-GTTTGAGGTCA
4499651 AAAAT
1 AAAAT
4499656 AGAGTTTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
28 14 0.14
29 30 0.30
30 35 0.35
31 20 0.20
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (31 bp):
AAAATGGTAATTTTTAGAAGGTTTGAGGTCA
Found at i:4499545 original size:29 final size:31
Alignment explanation
Indices: 4499494--4499596 Score: 117
Period size: 30 Copynumber: 3.5 Consensus size: 31
4499484 TTTTGGACAC
*
4499494 TCGAGGGC-AAAATGGTAATTTTTGGAAGGT
1 TCGAGGTCAAAAATGGTAATTTTTGGAAGGT
* **
4499524 TTGAGGTCAAAAATGG-AATTTTT-GAATAT
1 TCGAGGTCAAAAATGGTAATTTTTGGAAGGT
*
4499553 TCGAGGGT--AAAATGGTAATTTTTGAAAGGT
1 TCGA-GGTCAAAAATGGTAATTTTTGGAAGGT
4499583 TCGAGGTCAAAAAT
1 TCGAGGTCAAAAAT
4499597 AGAGTTTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
28 7 0.12
29 17 0.29
30 23 0.39
31 12 0.20
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (31 bp):
TCGAGGTCAAAAATGGTAATTTTTGGAAGGT
Found at i:4499557 original size:59 final size:60
Alignment explanation
Indices: 4499494--4499753 Score: 277
Period size: 59 Copynumber: 4.4 Consensus size: 60
4499484 TTTTGGACAC
* *
4499494 TCGAGGGCAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAATGGAATTTTT-GA-ATAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAATAGAATTTTTAGACAT-T
* * *
4499553 TCGAGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTCAAAAATAGAGTTTTTAGACATT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAATAGAATTTTTAGACATT
* * * * *
4499613 TTG-GGGTAAAATGGTAATTTTTAGAAGTTTTTG-GGTCAAAAATAGAGTTTTTTGGACA-T
1 TCGAGGGTAAAATGGTAATTTTTGGAAG-GTTTGAGGTCAAAAATAGA-ATTTTTAGACATT
* * *
4499672 TC-AGGGGTAAAATAGTAATTTTTGGAAAGTTT-AGGGT-TAAAATAGAATTTTTAGACATT
1 TCGA-GGGTAAAATGGTAATTTTTGGAAGGTTTGA-GGTCAAAAATAGAATTTTTAGACATT
* *
4499731 TAG-GGGTAAAATGATAATTTTTG
1 TCGAGGGTAAAATGGTAATTTTTG
4499754 AAAGTTTTAG
Statistics
Matches: 168, Mismatches: 23, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
58 27 0.16
59 98 0.58
60 41 0.24
61 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (60 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAATAGAATTTTTAGACATT
Found at i:4499574 original size:28 final size:29
Alignment explanation
Indices: 4499456--4499578 Score: 90
Period size: 28 Copynumber: 4.2 Consensus size: 29
4499446 AAAATGAGAC
* * **
4499456 TTTTGGATACTCGGGGGTAAAACAGTAA-
1 TTTTGAATACTCGAGGGTAAAATGGTAAT
* * *
4499484 TTTTGGACACTCGAGGGCAAAATGGTAAT
1 TTTTGAATACTCGAGGGTAAAATGGTAAT
*** *
4499513 TTTTGGAAGGTTTGA-GGTCAAAAATGG-AAT
1 TTTT-GAATACTCGAGGGT--AAAATGGTAAT
*
4499543 TTTTGAATATTCGAGGGTAAAATGGTAAT
1 TTTTGAATACTCGAGGGTAAAATGGTAAT
4499572 TTTTGAA
1 TTTTGAA
4499579 AGGTTCGAGG
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
28 30 0.40
29 23 0.31
30 15 0.20
31 7 0.09
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (29 bp):
TTTTGAATACTCGAGGGTAAAATGGTAAT
Found at i:4499713 original size:30 final size:28
Alignment explanation
Indices: 4499661--4499800 Score: 126
Period size: 29 Copynumber: 4.9 Consensus size: 28
4499651 AAAATAGAGT
* *
4499661 TTTTTGGACA-TTCAGGGGTAAAATAGTAA
1 TTTTTGGAAAGTTTAGGGGTAAAAT-G-AA
*
4499690 TTTTTGGAAAGTTTAGGGTTAAAATAGAA
1 TTTTTGGAAAGTTTAGGGGTAAAAT-GAA
* *
4499719 TTTTTAGACA-TTTAGGGGTAAAATGATAA
1 TTTTTGGAAAGTTTAGGGGTAAAATG--AA
*
4499748 TTTTT-GAAAGTTTTAGGGTTAAGAATGAGA
1 TTTTTGGAAAG-TTTAGGGGTAA-AATGA-A
4499778 -TTTTGGAAAGTTTAGGGGTAAAA
1 TTTTTGGAAAGTTTAGGGGTAAAA
4499801 ATGTGTTTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.01
28 18 0.19
29 41 0.44
30 30 0.32
31 4 0.04
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (28 bp):
TTTTTGGAAAGTTTAGGGGTAAAATGAA
Found at i:4499714 original size:118 final size:116
Alignment explanation
Indices: 4499502--4499800 Score: 329
Period size: 118 Copynumber: 2.5 Consensus size: 116
4499492 ACTCGAGGGC
* *
4499502 AAAATGGTAATTTTTGGAAG-GTTTGAGGTCAAAAATGGAATTTTT-GAATATTC-GAGGGTAAA
1 AAAATGGTAATTTTT-GAAGTTTTTG-GGTCAAAAAT-GAGTTTTTGGAA-ATTCAG-GGGTAAA
* * * *
4499564 ATGGTAATTTTTGAAAGGTTCGAGGTCAAAAATAGAGTTTTTAGACATTTTGGGGT
61 ATAGTAATTTTTGAAAGGTTAGAGGTCAAAAATAGAATTTTTAGACATTTAGGGGT
*
4499620 AAAATGGTAATTTTTAGAAGTTTTTGGGTCAAAAATAGAGTTTTTTGGACATTCAGGGGTAAAAT
1 AAAATGGTAATTTTT-GAAGTTTTTGGGTCAAAAAT-GAG-TTTTTGGAAATTCAGGGGTAAAAT
* *
4499685 AGTAATTTTTGGAAAGTTTAG-GGT-TAAAATAGAATTTTTAGACATTTAGGGGT
63 AGTAATTTTT-GAAAGGTTAGAGGTCAAAAATAGAATTTTTAGACATTTAGGGGT
* * * * * *
4499738 AAAATGATAATTTTTGAAAGTTTTAGGGTTAAGAATGAGATTTTGGAAAGTTTAGGGGTAAAA
1 AAAATGGTAATTTTTG-AAGTTTTTGGGTCAAAAATGAGTTTTTGGAAA-TTCAGGGGTAAAA
4499801 ATGTGTTTTT
Statistics
Matches: 156, Mismatches: 18, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
116 8 0.05
117 16 0.10
118 87 0.56
119 34 0.22
120 11 0.07
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (116 bp):
AAAATGGTAATTTTTGAAGTTTTTGGGTCAAAAATGAGTTTTTGGAAATTCAGGGGTAAAATAGT
AATTTTTGAAAGGTTAGAGGTCAAAAATAGAATTTTTAGACATTTAGGGGT
Found at i:4499766 original size:29 final size:29
Alignment explanation
Indices: 4499557--4499800 Score: 121
Period size: 29 Copynumber: 8.3 Consensus size: 29
4499547 GAATATTCGA
* * *
4499557 GGGTAAAATGGTAATTTTT-GAAAGGTTCG
1 GGGTAAAAT-ATAATTTTTAGAAAGTTTAG
* * *
4499586 AGGTCAAAA-ATAGAGTTTTTAGACA-TTTTG
1 GGGT-AAAATATA-A-TTTTTAGAAAGTTTAG
* **
4499616 GGGTAAAATGGTAATTTTTAG-AAGTTTTT
1 GGGTAAAAT-ATAATTTTTAGAAAGTTTAG
* * *
4499645 GGGTCAAAA-ATAGAGTTTTTTGGACA-TTCAG
1 GGGT-AAAATATA-A--TTTTTAGAAAGTTTAG
*
4499676 GGGTAAAATAGTAATTTTTGGAAAGTTTAG
1 GGGTAAAATA-TAATTTTTAGAAAGTTTAG
* * *
4499706 GGTTAAAATAGAATTTTTAGACA-TTTAG
1 GGGTAAAATATAATTTTTAGAAAGTTTAG
4499734 GGGTAAAATGATAATTTTT-GAAAGTTTTAG
1 GGGTAAAAT-ATAATTTTTAGAAAG-TTTAG
* * *
4499764 GGTTAAGAATGA-GA-TTTTGGAAAGTTTAG
1 GGGTAA-AAT-ATAATTTTTAGAAAGTTTAG
4499793 GGGTAAAA
1 GGGTAAAA
4499801 ATGTGTTTTT
Statistics
Matches: 168, Mismatches: 27, Indels: 41
0.71 0.11 0.17
Matches are distributed among these distances:
28 23 0.14
29 65 0.39
30 53 0.32
31 24 0.14
32 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
GGGTAAAATATAATTTTTAGAAAGTTTAG
Found at i:4499803 original size:29 final size:29
Alignment explanation
Indices: 4499691--4499879 Score: 122
Period size: 29 Copynumber: 6.5 Consensus size: 29
4499681 AAATAGTAAT
*
4499691 TTTTGGAAAGTTTA-GGGTTAAAAT-AGAA
1 TTTTGGAAAGTTTAGGGGTAAAAATGAG-A
* * *
4499719 TTTTTAGACA-TTTAGGGGT-AAAATGATAA
1 -TTTTGGAAAGTTTAGGGGTAAAAATGA-GA
* * *
4499748 TTTTTGAAAGTTTTAGGGTTAAGAATGAGA
1 TTTTGGAAAG-TTTAGGGGTAAAAATGAGA
* *
4499778 TTTTGGAAAGTTTAGGGGTAAAAATGTGT
1 TTTTGGAAAGTTTAGGGGTAAAAATGAGA
** * *
4499807 TTTTAGGAAAAATGA-GGGTCAAAAATGGGA
1 TTTT-GGAAAGTTTAGGGGT-AAAAATGAGA
*
4499837 TTTTGGAAAG-TTCGGGGTAAAAATGTA-A
1 TTTTGGAAAGTTTAGGGGTAAAAATG-AGA
*
4499865 TTTCTGGATAGTTTA
1 TTT-TGGAAAGTTTA
4499880 AGGACCTTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
28 28 0.23
29 51 0.41
30 39 0.31
31 6 0.05
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.36
Consensus pattern (29 bp):
TTTTGGAAAGTTTAGGGGTAAAAATGAGA
Found at i:4501829 original size:17 final size:17
Alignment explanation
Indices: 4501754--4501840 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 17
4501744 TTTTAATATT
* * *
4501754 AATAATTTTTAATTCAA
1 AATAAATTTAAATTTAA
**
4501771 AATAAATTCGAATTTAA
1 AATAAATTTAAATTTAA
* *
4501788 AATAAATTTAAACTCAA
1 AATAAATTTAAATTTAA
* *
4501805 CATGAATTTAAATTTAA
1 AATAAATTTAAATTTAA
*
4501822 AATAAATTCAAATTTAA
1 AATAAATTTAAATTTAA
4501839 AA
1 AA
4501841 ATTAAAAGTT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 55 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:4502484 original size:56 final size:56
Alignment explanation
Indices: 4502416--4502527 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
4502406 TTTGAGCTAG
* * * * *
4502416 ATACAGAATAATGTTCTTTTGAGCCAGAATATAGAGTAGCGCTCTTTCGAGCCAGA
1 ATACAGAATAATGCTCCTTCGAGCCAGAATACAGAGTAACGCTCTTTCGAGCCAGA
* *
4502472 ATACAGAGTAATGCTCCTTCGAGCCATAATACAGAGTAACGCTCTTTCGAGCCAGA
1 ATACAGAATAATGCTCCTTCGAGCCAGAATACAGAGTAACGCTCTTTCGAGCCAGA
4502528 GTCCAAAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (56 bp):
ATACAGAATAATGCTCCTTCGAGCCAGAATACAGAGTAACGCTCTTTCGAGCCAGA
Found at i:4502537 original size:28 final size:28
Alignment explanation
Indices: 4502416--4502527 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 28
4502406 TTTGAGCTAG
* * * *
4502416 ATACAGAATAATGTTCTTTTGAGCCAGA
1 ATACAGAGTAACGCTCTTTCGAGCCAGA
* *
4502444 ATATAGAGTAGCGCTCTTTCGAGCCAGA
1 ATACAGAGTAACGCTCTTTCGAGCCAGA
* * *
4502472 ATACAGAGTAATGCTCCTTCGAGCCATA
1 ATACAGAGTAACGCTCTTTCGAGCCAGA
4502500 ATACAGAGTAACGCTCTTTCGAGCCAGA
1 ATACAGAGTAACGCTCTTTCGAGCCAGA
4502528 GTCCAAAGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (28 bp):
ATACAGAGTAACGCTCTTTCGAGCCAGA
Found at i:4503380 original size:357 final size:358
Alignment explanation
Indices: 4502724--4503405 Score: 1213
Period size: 357 Copynumber: 1.9 Consensus size: 358
4502714 TCTAATACAT
* *
4502724 TAAATCATTCAATTATCTCAATCAATATGAAATCTAAATCATTTTATGCAATTAAGTCCTTTTTT
1 TAAATCATTCAATTATCTCAATCAACATGAAATATAAATCATTTTATGCAATTAAGTCCTTTTTT
* *
4502789 ATATCTTTTTACAAAATTGCCCTCAATATTTCACTTTTATTCAATTTAGTCCTTAAGTCTCAAAC
66 ATATCTTTTTACAAAATTGCCCTCAATATTTCACTTTTATTCAATTTAATCCTTAAGTCCCAAAC
* *
4502854 ATGCAAAATGCCCATTTTTATTTAAACTCATCACTAATCGCACCTTTAATAAACCCATACAATCC
131 ATGCAAAATGCCCATTTTTATTTAAAATCATCACTAACCGCACCTTTAATAAACCCATACAATCC
4502919 CTACATGTAATTATTTCACATCAATTACTTGCACTTTTATCATTTTAACAATCCTATCCTCAAAC
196 CTACATGTAATTATTTCACATCAATTACTTGCACTTTTATCATTTTAACAATCCTATCCTCAAAC
*
4502984 GTTAAAATCATCAAAAACTACTTTACAAAACAATCAAATCTAAGCACCAAGCTTGTAAAATTTCC
261 GTTAAAATCATCAAAAACTACTTTACAAAACAATCAAATCTAAGCACCAAGCTTGTAAAACTTCC
4503049 TTTCCTTTCCCACGATCCACAGCTCGTTCTTGA
326 TTTCCTTTCCCACGATCCACAGCTCGTTCTTGA
4503082 TAAATCATTCAATTATCTCAATCAACATGAAATATAAATCATTTTATGCAATTAAGTCC-TTTTT
1 TAAATCATTCAATTATCTCAATCAACATGAAATATAAATCATTTTATGCAATTAAGTCCTTTTTT
* * **
4503146 ATATCTTTTTACAAAATTGCCCTCAATATTTCACTTTTGTTCAATTTAATTCTTATTTCCCAAAC
66 ATATCTTTTTACAAAATTGCCCTCAATATTTCACTTTTATTCAATTTAATCCTTAAGTCCCAAAC
* *
4503211 ATGTAAAATGCCCATTTTTATTTAAAATCATCACTAACCGCACCTTTAATAAACTCATACAATCC
131 ATGCAAAATGCCCATTTTTATTTAAAATCATCACTAACCGCACCTTTAATAAACCCATACAATCC
* * *
4503276 CTACATGTAATTATTTCACATCAATTACTTGCACTTTTATCATTTTAACAATCTTGTCCTTAAAC
196 CTACATGTAATTATTTCACATCAATTACTTGCACTTTTATCATTTTAACAATCCTATCCTCAAAC
4503341 GTTAAAATCATCAAAAACTACTTTACAAAACAATCAAATCTAAGCACCAAGCTTGTAAAACTTCC
261 GTTAAAATCATCAAAAACTACTTTACAAAACAATCAAATCTAAGCACCAAGCTTGTAAAACTTCC
4503406 ATAAATTTTC
Statistics
Matches: 308, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
357 251 0.81
358 57 0.19
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (358 bp):
TAAATCATTCAATTATCTCAATCAACATGAAATATAAATCATTTTATGCAATTAAGTCCTTTTTT
ATATCTTTTTACAAAATTGCCCTCAATATTTCACTTTTATTCAATTTAATCCTTAAGTCCCAAAC
ATGCAAAATGCCCATTTTTATTTAAAATCATCACTAACCGCACCTTTAATAAACCCATACAATCC
CTACATGTAATTATTTCACATCAATTACTTGCACTTTTATCATTTTAACAATCCTATCCTCAAAC
GTTAAAATCATCAAAAACTACTTTACAAAACAATCAAATCTAAGCACCAAGCTTGTAAAACTTCC
TTTCCTTTCCCACGATCCACAGCTCGTTCTTGA
Found at i:4504282 original size:12 final size:13
Alignment explanation
Indices: 4504267--4504317 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
4504257 ATATGATCAC
4504267 AATTTATA-ATAT
1 AATTTATATATAT
*
4504279 AATTCATATATAT
1 AATTTATATATAT
*
4504292 -ATATATATATAT
1 AATTTATATATAT
*
4504304 -ATATATATATAT
1 AATTTATATATAT
4504316 AA
1 AA
4504318 AACGAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 29 0.85
13 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTATATATAT
Found at i:4504291 original size:2 final size:2
Alignment explanation
Indices: 4504284--4504316 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4504274 AATATAATTC
4504284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4504317 AAACGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4515762 original size:20 final size:19
Alignment explanation
Indices: 4515737--4515790 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
4515727 AAAATTACAA
*
4515737 AAAAATTCAAAATTATTTT
1 AAAAATTCAAAATTATTAT
*
4515756 CAAAAATTCAAAATGATTAT
1 -AAAAATTCAAAATTATTAT
4515776 AAAAATTCTAAAATT
1 AAAAATTC-AAAATT
4515791 TATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATTATTAT
Found at i:4515825 original size:10 final size:9
Alignment explanation
Indices: 4515797--4515823 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4515787 AATTTATATT
4515797 TTTAAAAAA
1 TTTAAAAAA
4515806 TTTAAAAAA
1 TTTAAAAAA
4515815 TTTAAAAAA
1 TTTAAAAAA
4515824 ATCGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:4516873 original size:45 final size:45
Alignment explanation
Indices: 4516788--4516883 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
4516778 AATAAAAATT
* *
4516788 TTAAAATTTTATAAATTTATAAAAATATAGAACTATATAAAACAA
1 TTAAAATTTTATAAATTTATAAAAATATAGAAATACATAAAACAA
* * *
4516833 TTAAAATTTTATAAATTTATAAAAATGTATAAATACATAAAAGAA
1 TTAAAATTTTATAAATTTATAAAAATATAGAAATACATAAAACAA
*
4516878 CTAAAA
1 TTAAAA
4516884 AGCGTATCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (45 bp):
TTAAAATTTTATAAATTTATAAAAATATAGAAATACATAAAACAA
Found at i:4517248 original size:21 final size:20
Alignment explanation
Indices: 4517222--4517263 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
4517212 CTCCCCCAAA
*
4517222 TTTTTTTGTTTTTCCGTTCTT
1 TTTTTTTCTTTTTCC-TTCTT
4517243 TTTTTTTCTTTTTCCTTCTT
1 TTTTTTTCTTTTTCCTTCTT
4517263 T
1 T
4517264 CTTCTTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTTTTCCTTCTT
Found at i:4519253 original size:15 final size:15
Alignment explanation
Indices: 4519233--4519262 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4519223 AATTTCATAC
4519233 TTCAATCACCATGTT
1 TTCAATCACCATGTT
4519248 TTCAATCACCATGTT
1 TTCAATCACCATGTT
4519263 ATCACTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
TTCAATCACCATGTT
Found at i:4521616 original size:14 final size:15
Alignment explanation
Indices: 4521588--4521620 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4521578 TTATTTAAAA
*
4521588 TTATAAAATTAATTT
1 TTATAAAAATAATTT
4521603 TTATAAAAAT-ATTT
1 TTATAAAAATAATTT
4521617 TTAT
1 TTAT
4521621 TTTTTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAAAAATAATTT
Found at i:4523771 original size:116 final size:115
Alignment explanation
Indices: 4523667--4523923 Score: 354
Period size: 116 Copynumber: 2.2 Consensus size: 115
4523657 CTGAGAATTC
* * **
4523667 CTACCCTGCAACTTCTACCGATACAAGTATTTAAACTACCGATACCTTAATGTACTGAACTACCG
1 CTACCCTG-AACTTCTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCG
* *
4523732 ATACTTGTTATACAACTACTGAAACAACTCAAGTCAGAGAACAACCTCTCTT
65 ATACATGTTATACAACTACTGAAACAACTCAAGTCAGAGAACAACATCTC-T
* *
4523784 GTACCCTGTACTTCTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCGA
1 CTACCCTGAACTTCTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCGA
* * *
4523849 TACCTGTTATTCAACTACTGAAACAACTCAAGTTAGAGAACAATC-TCTCT
66 TACATGTTATACAACTACTGAAACAACTCAAGTCAGAGAACAA-CATCTCT
* *
4523899 CCTACCTTGTACTTCTACCGATACA
1 -CTACCCTGAACTTCTACCGATACA
4523924 TTCATGAATT
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
115 1 0.01
116 118 0.93
117 8 0.06
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (115 bp):
CTACCCTGAACTTCTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCGA
TACATGTTATACAACTACTGAAACAACTCAAGTCAGAGAACAACATCTCT
Found at i:4532252 original size:131 final size:132
Alignment explanation
Indices: 4532013--4532269 Score: 392
Period size: 131 Copynumber: 2.0 Consensus size: 132
4532003 GGATTTACAA
* * * *
4532013 GTTATATGGGTGCTGGTCTTAGATGTCCTATCGATGGCTAAGATCCGACATTTATTGTGGATTCT
1 GTTATATGCGTGCTGCTCTTAGATGTCCTACCGATGGCTAAGATCCGACATTTATTGCGGATTCT
* ** **
4532078 CCACAGCTCGTGTGAGCAGCATTGTGTAGCCTTACATTACGA-CCACAGCTCGTGTGAGCATTAA
66 CCACAGCTCATGTGAGCAGCATCATGTAGCCCAACATTACGACCCACAGCTCGTGTGAGCATTAA
4532142 AG
131 AG
*
4532144 GTTATATGCGTGCTGCTCTTAGATGTCCTACCGATGGCTGAGATCCGACATTTATTGCGGATTCT
1 GTTATATGCGTGCTGCTCTTAGATGTCCTACCGATGGCTAAGATCCGACATTTATTGCGGATTCT
*
4532209 CCACAGCTCATGTGAGTAGCATCATGTAGCCCAACATCT-CGACCCACAGCTCGTGTGAGCA
66 CCACAGCTCATGTGAGCAGCATCATGTAGCCCAACAT-TACGACCCACAGCTCGTGTGAGCA
4532270 GGCCCATTTC
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
131 94 0.83
132 19 0.17
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (132 bp):
GTTATATGCGTGCTGCTCTTAGATGTCCTACCGATGGCTAAGATCCGACATTTATTGCGGATTCT
CCACAGCTCATGTGAGCAGCATCATGTAGCCCAACATTACGACCCACAGCTCGTGTGAGCATTAA
AG
Found at i:4534066 original size:27 final size:27
Alignment explanation
Indices: 4534036--4534094 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
4534026 AAATAATTTT
4534036 TAAAATTCTA-AA-TATTTCTAAAAATTC
1 TAAAATTCTATAATTATTT-TAAAAA-TC
*
4534063 TAAAATTTTATAATTATTTTAAAAATC
1 TAAAATTCTATAATTATTTTAAAAATC
4534090 TAAAA
1 TAAAA
4534095 AATATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 16 0.55
28 8 0.28
29 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAAATTCTATAATTATTTTAAAAATC
Found at i:4534095 original size:28 final size:28
Alignment explanation
Indices: 4534044--4534124 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
4534034 TTTAAAATTC
* *
4534044 TAAATATTTCTAAAAATTCT-AAAATTTTA
1 TAAATATTT-TAAAAA-TCTAAAAAATATA
*
4534073 TAATTATTTTAAAAATCTAAAAAATATA
1 TAAATATTTTAAAAATCTAAAAAATATA
* * *
4534101 TAAAAAATTTAAAAATTTAAAAAA
1 TAAATATTTTAAAAATCTAAAAAA
4534125 ATTATGAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 3 0.07
28 33 0.75
29 8 0.18
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAATATTTTAAAAATCTAAAAAATATA
Found at i:4534195 original size:30 final size:30
Alignment explanation
Indices: 4534161--4534265 Score: 117
Period size: 29 Copynumber: 3.5 Consensus size: 30
4534151 ATTATTTCAT
*
4534161 AATATAATTTTGGAAAAGTTTAGGGGTCAA
1 AATATAATTTTGGAAAAGTTTAGAGGTCAA
4534191 AATATAATTTTGG-AAAGATTT-GAGGTCAA
1 AATATAATTTTGGAAAAG-TTTAGAGGTCAA
* * *
4534220 AATGTAATTTTAGAGAAGTTTA-AGGTCAA
1 AATATAATTTTGGAAAAGTTTAGAGGTCAA
* *
4534249 AAAATGATTTTTGGAAA
1 AATAT-AATTTTGGAAA
4534266 GTTCAAGGAC
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
29 35 0.56
30 27 0.44
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (30 bp):
AATATAATTTTGGAAAAGTTTAGAGGTCAA
Found at i:4537249 original size:23 final size:22
Alignment explanation
Indices: 4537219--4537294 Score: 98
Period size: 23 Copynumber: 3.2 Consensus size: 22
4537209 GCACGTCTCA
4537219 TGCTCTCTGTTATTAGCACTGTGTG
1 TGCTCTCTG--ATTAGCACT-TGTG
*
4537244 TGCTCTCCGATTAGCACTTCGTG
1 TGCTCTCTGATTAGCACTT-GTG
4537267 TGCTCTCTGATTAGCACTTTGTG
1 TGCTCTCTGATTAGCAC-TTGTG
4537290 TGCTC
1 TGCTC
4537295 AGTACTTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.02
23 36 0.77
24 2 0.04
25 8 0.17
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (22 bp):
TGCTCTCTGATTAGCACTTGTG
Found at i:4537323 original size:39 final size:39
Alignment explanation
Indices: 4537259--4537333 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
4537249 TCCGATTAGC
*
4537259 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
4537298 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
4537334 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:4538756 original size:75 final size:75
Alignment explanation
Indices: 4538677--4538905 Score: 204
Period size: 75 Copynumber: 3.1 Consensus size: 75
4538667 CAAAACTTCA
*
4538677 TATTATTTAAACAAAATTAGTAAAATAATATAAATTTATTTTTAAAATAAAGTATATGTTCTAAA
1 TATTATTTAAACAAAATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAAA
4538742 GTTAAAATAC
66 GTTAAAATAC
* * * * ** * ** * * *
4538752 TATTA--T--ACTAATTTAGTTAAATATTTAGTAGGTAAAAATGTATGAA-AAAGAATAT-TTCT
1 TATTATTTAAACAAAATTAGTAAAATA-ATA-TAAATATATTTTTA-AAATAAAGTATATGTTCT
* * *
4538811 CAA--CAAAACTTC
63 AAAGTTAAAA-TAC
*
4538823 ATATTATTTAAACAAGATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAA
1 -TATTATTTAAACAAAATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAA
4538888 AGTTAAAATAC
65 AGTTAAAATAC
4538899 TATTATT
1 TATTATT
4538906 ATTGCATAAA
Statistics
Matches: 109, Mismatches: 32, Indels: 26
0.65 0.19 0.16
Matches are distributed among these distances:
70 4 0.04
71 16 0.15
72 13 0.12
73 18 0.17
74 19 0.17
75 20 0.18
76 15 0.14
77 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (75 bp):
TATTATTTAAACAAAATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAAA
GTTAAAATAC
Found at i:4538777 original size:146 final size:147
Alignment explanation
Indices: 4538615--4538904 Score: 546
Period size: 147 Copynumber: 2.0 Consensus size: 147
4538605 AATACTATGC
4538615 AATTTAGTTAAATATTTAATAGGTAAAAATGTAT-AAAAAGAATATTTCTCAACAAAACTTCATA
1 AATTTAGTTAAATATTTAATAGGTAAAAATGTATGAAAAAGAATATTTCTCAACAAAACTTCATA
*
4538679 TTATTTAAACAAAATTAGTAAAATAATATAAATTTATTTTTAAAATAAAGTATATGTTCTAAAGT
66 TTATTTAAACAAAATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAAAGT
4538744 TAAAATACTATTATACT
131 TAAAATACTATTATACT
*
4538761 AATTTAGTTAAATATTTAGTAGGTAAAAATGTATGAAAAAGAATATTTCTCAACAAAACTTCATA
1 AATTTAGTTAAATATTTAATAGGTAAAAATGTATGAAAAAGAATATTTCTCAACAAAACTTCATA
*
4538826 TTATTTAAACAAGATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAAAGT
66 TTATTTAAACAAAATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAAAGT
4538891 TAAAATACTATTAT
131 TAAAATACTATTAT
4538905 TATTGCATAA
Statistics
Matches: 140, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
146 33 0.24
147 107 0.76
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (147 bp):
AATTTAGTTAAATATTTAATAGGTAAAAATGTATGAAAAAGAATATTTCTCAACAAAACTTCATA
TTATTTAAACAAAATTAGTAAAATAATATAAATATATTTTTAAAATAAAGTATATGTTCTAAAGT
TAAAATACTATTATACT
Found at i:4542602 original size:16 final size:16
Alignment explanation
Indices: 4542583--4542615 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4542573 ATGATGAAAC
4542583 TGTTTCCAACATTAAG
1 TGTTTCCAACATTAAG
4542599 TGTTTCCAACATTAAG
1 TGTTTCCAACATTAAG
4542615 T
1 T
4542616 TCTGTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (16 bp):
TGTTTCCAACATTAAG
Found at i:4554554 original size:2 final size:2
Alignment explanation
Indices: 4554547--4554580 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4554537 GATTTTTCAA
4554547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4554581 TGGTAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4555632 original size:19 final size:19
Alignment explanation
Indices: 4555596--4555632 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4555586 ATAAATTTAA
*
4555596 TAATTAAAAGATACAAAAT
1 TAATTAAAAGATAAAAAAT
*
4555615 TAATTCAAAGATAAAAAA
1 TAATTAAAAGATAAAAAA
4555633 ATATCTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (19 bp):
TAATTAAAAGATAAAAAAT
Found at i:4556547 original size:20 final size:20
Alignment explanation
Indices: 4556509--4556547 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4556499 AAGTTTGGAT
*
4556509 TAAATGTTATTTTTCATCTC
1 TAAATGTTATTTTTAATCTC
4556529 TAAAT-TTATTCTTTAATCT
1 TAAATGTTATT-TTTAATCT
4556548 TACTTAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
TAAATGTTATTTTTAATCTC
Found at i:4566161 original size:58 final size:58
Alignment explanation
Indices: 4566067--4566177 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
4566057 GCATCTCAGC
** *
4566067 CCTTCCATAAACCCTTTGGGCTCTCAATGGAGATGAGGCATATCTTTTACATTCGGGT
1 CCTTCCATAAACCCTTTGGGCTCTCAATAAAGATGAGGCATATCTTCTACATTCGGGT
* * * * *
4566125 CCTTCCATGAACCCTTTGGGCTGTCAGTAAATATGAGTCATATCTTCTACATT
1 CCTTCCATAAACCCTTTGGGCTCTCAATAAAGATGAGGCATATCTTCTACATT
4566178 TGGCCATTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (58 bp):
CCTTCCATAAACCCTTTGGGCTCTCAATAAAGATGAGGCATATCTTCTACATTCGGGT
Found at i:4576262 original size:19 final size:19
Alignment explanation
Indices: 4576238--4576274 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4576228 TAGCGTTAGA
4576238 CGCAAATAATTACTTTGGG
1 CGCAAATAATTACTTTGGG
4576257 CGCAAATAATTACTTTGG
1 CGCAAATAATTACTTTGG
4576275 ATTTATCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (19 bp):
CGCAAATAATTACTTTGGG
Found at i:4582421 original size:20 final size:20
Alignment explanation
Indices: 4582384--4582421 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4582374 AAGTAAACTG
*
4582384 TCAACGGTCAAAGTCAACGA
1 TCAACGGTCAAAGGCAACGA
*
4582404 TCAACGGTCAATGGCAAC
1 TCAACGGTCAAAGGCAAC
4582422 AGTCAAAGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (20 bp):
TCAACGGTCAAAGGCAACGA
Found at i:4582427 original size:20 final size:19
Alignment explanation
Indices: 4582383--4582427 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4582373 AAAGTAAACT
*
4582383 GTCAACGGTCAAAGTCAAC
1 GTCAACGGTCAAAGGCAAC
*
4582402 GATCAACGGTCAATGGCAAC
1 G-TCAACGGTCAAAGGCAAC
4582422 AGTCAA
1 -GTCAA
4582428 AGGCAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (19 bp):
GTCAACGGTCAAAGGCAAC
Found at i:4582443 original size:7 final size:7
Alignment explanation
Indices: 4582422--4582501 Score: 51
Period size: 7 Copynumber: 11.9 Consensus size: 7
4582412 CAATGGCAAC
4582422 AGTCAA-
1 AGTCAAT
*
4582428 AGGCAAT
1 AGTCAAT
4582435 AGTCAAT
1 AGTCAAT
4582442 AGTCAAT
1 AGTCAAT
4582449 AGTCAA-
1 AGTCAAT
4582455 AGGTCAA-
1 A-GTCAAT
* *
4582462 ATTTAAT
1 AGTCAAT
4582469 AGTCAA-
1 AGTCAAT
* *
4582475 AATCAAC
1 AGTCAAT
*
4582482 GGTCAAT
1 AGTCAAT
*
4582489 GGTCAAT
1 AGTCAAT
*
4582496 GGTCAA
1 AGTCAA
4582502 CGGTCAATGG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
6 14 0.23
7 46 0.77
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (7 bp):
AGTCAAT
Found at i:4582506 original size:7 final size:7
Alignment explanation
Indices: 4582477--4582513 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
4582467 ATAGTCAAAA
*
4582477 TCAACGG
1 TCAATGG
4582484 TCAATGG
1 TCAATGG
4582491 TCAATGG
1 TCAATGG
*
4582498 TCAACGG
1 TCAATGG
4582505 TCAATGG
1 TCAATGG
4582512 TC
1 TC
4582514 TGACTTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (7 bp):
TCAATGG
Found at i:4582630 original size:25 final size:25
Alignment explanation
Indices: 4582602--4582655 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
4582592 ATATGGTTTA
*
4582602 GGTTTTAAAAGGGTTTGGATTATTG
1 GGTTTTAAAAGGATTTGGATTATTG
* * *
4582627 GGTTTTTAAAGGATTTGGGTTTTTG
1 GGTTTTAAAAGGATTTGGATTATTG
4582652 GGTT
1 GGTT
4582656 AGTGATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (25 bp):
GGTTTTAAAAGGATTTGGATTATTG
Found at i:4589536 original size:13 final size:13
Alignment explanation
Indices: 4589500--4589578 Score: 68
Period size: 13 Copynumber: 5.9 Consensus size: 13
4589490 AAATTCAACG
*
4589500 GTCAACGGTCCAA
1 GTCAACGGTCAAA
**
4589513 GTCAATAGTCAAA
1 GTCAACGGTCAAA
*
4589526 GTCAACGGTCAACG
1 GTCAACGGTCAA-A
* *
4589540 GTAAACGATCAAA
1 GTCAACGGTCAAA
*
4589553 GTCAACGGTCAAT
1 GTCAACGGTCAAA
*
4589566 GATCAATGGTCAA
1 G-TCAACGGTCAA
4589579 CGACTGGTCA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
13 31 0.61
14 20 0.39
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (13 bp):
GTCAACGGTCAAA
Found at i:4589556 original size:20 final size:20
Alignment explanation
Indices: 4589533--4589571 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4589523 AAAGTCAACG
4589533 GTCAACGGTAAACGATCAAA
1 GTCAACGGTAAACGATCAAA
* *
4589553 GTCAACGGTCAATGATCAA
1 GTCAACGGTAAACGATCAA
4589572 TGGTCAACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GTCAACGGTAAACGATCAAA
Found at i:4589556 original size:33 final size:33
Alignment explanation
Indices: 4589494--4589557 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
4589484 TCAAAAAAAT
*
4589494 TCAACGGTCAACGGTCCAAGTCAATAGTCAAAG
1 TCAACGGTCAACGGTCAAAGTCAATAGTCAAAG
4589527 TCAACGGTCAACGGT-AAACGATCAA-AGTCAA
1 TCAACGGTCAACGGTCAAA-G-TCAATAGTCAA
4589558 CGGTCAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 2 0.07
33 22 0.79
34 4 0.14
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (33 bp):
TCAACGGTCAACGGTCAAAGTCAATAGTCAAAG
Found at i:4589594 original size:7 final size:7
Alignment explanation
Indices: 4589494--4589580 Score: 56
Period size: 7 Copynumber: 12.9 Consensus size: 7
4589484 TCAAAAAAAT
4589494 TCAACGG
1 TCAACGG
4589501 TCAACGG
1 TCAACGG
4589508 TCCAA--G
1 T-CAACGG
**
4589514 TCAATAG
1 TCAACGG
*
4589521 TCAA-AG
1 TCAACGG
4589527 TCAACGG
1 TCAACGG
4589534 TCAACGG
1 TCAACGG
* *
4589541 TAAACGA
1 TCAACGG
*
4589548 TCAA-AG
1 TCAACGG
4589554 TCAACGG
1 TCAACGG
* *
4589561 TCAATGA
1 TCAACGG
*
4589568 TCAATGG
1 TCAACGG
4589575 TCAACG
1 TCAACG
4589581 ACTGGTCAAC
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
5 3 0.05
6 12 0.19
7 46 0.72
8 3 0.05
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (7 bp):
TCAACGG
Found at i:4589644 original size:15 final size:16
Alignment explanation
Indices: 4589621--4589671 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4589611 TGGTTTGGGT
*
4589621 TTGGACTTGGTTCA-A
1 TTGGGCTTGGTTCACA
*
4589636 TTGGGCTTGGTTCACT
1 TTGGGCTTGGTTCACA
* *
4589652 TTGGGTTTGGTTCACT
1 TTGGGCTTGGTTCACA
4589668 TTGG
1 TTGG
4589672 TTTGGGCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.10, C:0.14, G:0.31, T:0.45
Consensus pattern (16 bp):
TTGGGCTTGGTTCACA
Found at i:4589661 original size:16 final size:16
Alignment explanation
Indices: 4589627--4589676 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
4589617 GGGTTTGGAC
* *
4589627 TTGGTTCA-ATTGGGC
1 TTGGTTCACTTTGGGT
4589642 TTGGTTCACTTTGGGT
1 TTGGTTCACTTTGGGT
4589658 TTGGTTCACTTT-GGT
1 TTGGTTCACTTTGGGT
4589673 TTGG
1 TTGG
4589677 GCTTAAGCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.08, C:0.12, G:0.32, T:0.48
Consensus pattern (16 bp):
TTGGTTCACTTTGGGT
Found at i:4589675 original size:15 final size:15
Alignment explanation
Indices: 4589627--4589676 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
4589617 GGGTTTGGAC
* * *
4589627 TTGGTTCAATTGGGC
1 TTGGTTCACTTTGGT
4589642 TTGGTTCACTTTGGGT
1 TTGGTTCACTTT-GGT
4589658 TTGGTTCACTTTGGT
1 TTGGTTCACTTTGGT
4589673 TTGG
1 TTGG
4589677 GCTTAAGCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 17 0.55
16 14 0.45
ACGTcount: A:0.08, C:0.12, G:0.32, T:0.48
Consensus pattern (15 bp):
TTGGTTCACTTTGGT
Found at i:4589763 original size:25 final size:25
Alignment explanation
Indices: 4589706--4589763 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
4589696 GTTTATATGG
4589706 TTTGGGTTTTAAAAGGGTTAGGGTT
1 TTTGGGTTTTAAAAGGGTTAGGGTT
* * * *
4589731 ATTAGGTTTTTAAAGGATTTA-GGTT
1 TTTGGGTTTTAAAAGG-GTTAGGGTT
4589756 TTTGGGTT
1 TTTGGGTT
4589764 GGTGATAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (25 bp):
TTTGGGTTTTAAAAGGGTTAGGGTT
Found at i:4595140 original size:2 final size:2
Alignment explanation
Indices: 4595133--4595167 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4595123 TGAATAACTT
4595133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4595168 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4596622 original size:33 final size:33
Alignment explanation
Indices: 4596559--4596622 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
4596549 TTGCATGTCA
*
4596559 ATTTGATTGAAAAAAAATAATGTTTTAGACTAT
1 ATTTGATTGAAAAAAAATAATGTTTGAGACTAT
*
4596592 ATTTGAATT-AAAGAAAA-AATGATTTGAGACT
1 ATTTG-ATTGAAAAAAAATAATG-TTTGAGACT
4596623 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 20 0.74
34 3 0.11
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (33 bp):
ATTTGATTGAAAAAAAATAATGTTTGAGACTAT
Found at i:4597204 original size:64 final size:64
Alignment explanation
Indices: 4597103--4597222 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
4597093 CTATTCTTTA
* * ** * *
4597103 TGGTAGTCTATATGTTTGATTAAATGCCTGTTTGGTGGCAAAAGCTACTATTTCTTATTTATTT
1 TGGTAGTCTAAATGTTCGATTAAATGCCTCATCGGTGGCAAAAGCTACTAATTCTTATTTATTT
* * *
4597167 TGGTAGTTTAAATGTTCGATTAATTGCCTCATCGGTGGCGAAAGCTACTAATTCTT
1 TGGTAGTCTAAATGTTCGATTAAATGCCTCATCGGTGGCAAAAGCTACTAATTCTT
4597223 TTGGTAGTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (64 bp):
TGGTAGTCTAAATGTTCGATTAAATGCCTCATCGGTGGCAAAAGCTACTAATTCTTATTTATTT
Found at i:4611595 original size:22 final size:22
Alignment explanation
Indices: 4611548--4611596 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4611538 ATTCGTTTCA
* *
4611548 AAATTAAAAATTAATTTAATTC
1 AAATTAAAAATGAATTCAATTC
*
4611570 AAATTAAAAGTGATATTCAATT-
1 AAATTAAAAATGA-ATTCAATTC
4611592 AAATT
1 AAATT
4611597 TTTTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (22 bp):
AAATTAAAAATGAATTCAATTC
Found at i:4612685 original size:28 final size:29
Alignment explanation
Indices: 4612626--4612695 Score: 124
Period size: 28 Copynumber: 2.4 Consensus size: 29
4612616 CCTACCTAAA
4612626 ATCTTGAATATTTTAGATAAAAAAAAGAT
1 ATCTTGAATATTTTAGATAAAAAAAAGAT
4612655 ATCTTGAATATTTTAGAT-AAAAAAAGAT
1 ATCTTGAATATTTTAGATAAAAAAAAGAT
*
4612683 ATCTTGAGTATTT
1 ATCTTGAATATTT
4612696 GCTTTTAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 22 0.55
29 18 0.45
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (29 bp):
ATCTTGAATATTTTAGATAAAAAAAAGAT
Found at i:4628073 original size:23 final size:23
Alignment explanation
Indices: 4628047--4628091 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4628037 ATTTACTTGG
4628047 AAATTTCTCCAATGTCTTCAAAT
1 AAATTTCTCCAATGTCTTCAAAT
*
4628070 AAATTTCTTCAATGTCTTCAAA
1 AAATTTCTCCAATGTCTTCAAA
4628092 ACCGATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATTTCTCCAATGTCTTCAAAT
Found at i:4630160 original size:12 final size:12
Alignment explanation
Indices: 4630143--4630167 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4630133 AAATTAAAAT
4630143 TTATATATTAAA
1 TTATATATTAAA
4630155 TTATATATTAAA
1 TTATATATTAAA
4630167 T
1 T
4630168 AAAAGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATATATTAAA
Found at i:4630633 original size:17 final size:19
Alignment explanation
Indices: 4630602--4630639 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4630592 ATTACAAAAT
*
4630602 AATTCAAAATAATTT-TAA
1 AATTAAAAATAATTTATAA
4630620 AATTAAAAAT-ATTTATAA
1 AATTAAAAATAATTTATAA
4630638 AA
1 AA
4630640 ATTCTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTAAAAATAATTTATAA
Found at i:4630642 original size:27 final size:29
Alignment explanation
Indices: 4630589--4630648 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
4630579 TCTCTAAACA
*
4630589 AAAATTACAAAATAATTCAAAATAATTTT
1 AAAATTACAAAATAATTCAAAATAATTCT
*
4630618 AAAATTA-AAAAT-ATTTATAAA-AATTCT
1 AAAATTACAAAATAATTCA-AAATAATTCT
4630645 AAAA
1 AAAA
4630649 AATATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 13 0.46
28 8 0.29
29 7 0.25
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAATTACAAAATAATTCAAAATAATTCT
Found at i:4632172 original size:16 final size:17
Alignment explanation
Indices: 4632141--4632173 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4632131 CATTACTAAT
*
4632141 TAAAATTTTATAAATTA
1 TAAAATATTATAAATTA
4632158 TAAAATATT-TAAATTA
1 TAAAATATTATAAATTA
4632174 AAATTTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATATTATAAATTA
Found at i:4633351 original size:15 final size:16
Alignment explanation
Indices: 4633331--4633365 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4633321 TTACATCAAT
*
4633331 TTTTAA-TATTTTTTA
1 TTTTAATTATTTTTAA
4633346 TTTTAATTATTTTTAA
1 TTTTAATTATTTTTAA
4633362 TTTT
1 TTTT
4633366 TTAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTAATTATTTTTAA
Found at i:4641311 original size:16 final size:17
Alignment explanation
Indices: 4641276--4641310 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4641266 CACATAATAT
4641276 AATAAACATATTTAAAA
1 AATAAACATATTTAAAA
4641293 AATAAACAT-TTATAAAA
1 AATAAACATATT-TAAAA
4641310 A
1 A
4641311 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAACATATTTAAAA
Found at i:4642455 original size:18 final size:19
Alignment explanation
Indices: 4642432--4642469 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4642422 AGCAACCTAA
*
4642432 TAAAATTTTCAAATA-ATT
1 TAAAATATTCAAATACATT
*
4642450 TAAAATATTGAAATACATT
1 TAAAATATTCAAATACATT
4642469 T
1 T
4642470 TATATAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAATATTCAAATACATT
Found at i:4643619 original size:197 final size:197
Alignment explanation
Indices: 4643222--4643631 Score: 590
Period size: 197 Copynumber: 2.1 Consensus size: 197
4643212 CCGTTTGTTT
* * * ***
4643222 TAAACAAAACTAGACTTCCGTACAATTATAGGGATATAAGGCTCAGTTCCTATTTTATTTTGTGC
1 TAAACGAAACTAGACTTCCGTACAATTATAGGAATATAAGGCTCACTTCCTATTTTAACCTGTGC
* *
4643287 AATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTCTGCTGTCAGATTTT
66 AATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTGCCAGATTTT
* * * *
4643352 TATAACCTTTCAACACTAAAAAATAATATCTTTTAAATTACAAGTCGAAATCAATCTCCATTTTT
131 TATAACCTTTCAACACTAAAAAATAATATATTTTAAACTAAAAATCGAAATCAATCTCCATTTTT
4643417 TC
196 TC
* *
4643419 TAAACGAAATTAGACTTCCGTACAGTTATAGGAATATAAGGCTCACTTCCTATTTTAACCTGTGC
1 TAAACGAAACTAGACTTCCGTACAATTATAGGAATATAAGGCTCACTTCCTATTTTAACCTGTGC
* * *
4643484 AATTTTTTGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGGATTTTGCTGCCAGATTTT
66 AATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTGCCAGATTTT
* * * * *
4643549 TATGACTTTTCAACACTCAAAAATTCATATATTTTAAACTAAAAATCGAAATCGATCT-C-TTTT
131 TATAACCTTTCAACACT-AAAAAATAATATATTTTAAACTAAAAATCGAAATCAATCTCCATTTT
4643612 ATTC
195 -TTC
4643616 TAAACGAAACTAGACT
1 TAAACGAAACTAGACT
4643632 AACTCATTGT
Statistics
Matches: 188, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
196 4 0.02
197 151 0.80
198 33 0.18
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (197 bp):
TAAACGAAACTAGACTTCCGTACAATTATAGGAATATAAGGCTCACTTCCTATTTTAACCTGTGC
AATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTGCCAGATTTT
TATAACCTTTCAACACTAAAAAATAATATATTTTAAACTAAAAATCGAAATCAATCTCCATTTTT
TC
Found at i:4644282 original size:19 final size:18
Alignment explanation
Indices: 4644247--4644281 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4644237 TTGCTAAAGA
4644247 AAATAAATGGAAGAAAAC
1 AAATAAATGGAAGAAAAC
4644265 AAATAAAAT-GAAGAAAA
1 AAAT-AAATGGAAGAAAA
4644282 AGAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.14, T:0.11
Consensus pattern (18 bp):
AAATAAATGGAAGAAAAC
Found at i:4646928 original size:217 final size:211
Alignment explanation
Indices: 4646491--4647026 Score: 666
Period size: 217 Copynumber: 2.5 Consensus size: 211
4646481 CATTGAGCAC
* * * * *
4646491 TTATCGATTTTAAGTAGGATACTCAATTATTTAGGTTC-AAAAAAAATCATACCCAACACGTTAG
1 TTATCGATTTTAAATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTAG
* *
4646555 GACACAATTTCTCGAA-TTCCTTAAAATAAAAGAATATTGCCTTTATTTTTAAAACAATTTTGTA
66 GACACACTTT-TCGAATTTCC-TAAAATAAAAGAACATTGCCTTTATTTTTAAAACAATTTTGTA
** *
4646619 AAAAAATTATATACATTTTATTCTGTTAAAAACGTTTTGCAAAAAATGGATAAATCAATGTAATT
129 AAAAAACGATATACATTTTATTCTGTTAAAAACGCTTTGCAAAAAATGGATAAATCAATGTAATT
* **
4646684 CACGAGTAAAATTGACGA
194 CACAAGTAAAACAGACGA
* *
4646702 TTATCGATTTTAAATAAGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAATACGTTAG
1 TTATCGATTTTAAATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTAG
** * *
4646767 GGTATCACTTTTCGAATTTCCTAAAATGAAAGAACATTGCTTTTATTTTTTAAAACAATTTATGC
66 GACA-CACTTTTCGAATTTCCTAAAATAAAAGAACATTGCCTTTA-TTTTTAAAACAATTT-TG-
** * *
4646832 ATTTAAAAACGATATACATTTTATT-TCGTTAAAAATGCTTTGCAAAAAGATGGATAAATCCATG
127 -TAAAAAAACGATATACATTTTATTCT-GTTAAAAACGCTTTGCAAAAA-ATGGATAAATCAATG
* *
4646896 TAATTTACAAGTAAAAACAG-TGA
189 TAATTCACAAGT-AAAACAGACGA
* * *
4646919 TTATCGATTTTAAACAGGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCTAACATGTTAG
1 TTATCGATTTTAAATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTAG
* * *
4646984 GACACCACTTTTTGAATTCCCTAAAATAAAATAACATTGCCTT
66 GACA-CACTTTTCGAATTTCCTAAAATAAAAGAACATTGCCTT
4647027 AATTAATTTT
Statistics
Matches: 277, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
211 34 0.12
212 51 0.18
213 24 0.09
214 2 0.01
215 1 0.00
216 39 0.14
217 121 0.44
218 5 0.02
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (211 bp):
TTATCGATTTTAAATAGGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTAG
GACACACTTTTCGAATTTCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAATTTTGTAAA
AAAACGATATACATTTTATTCTGTTAAAAACGCTTTGCAAAAAATGGATAAATCAATGTAATTCA
CAAGTAAAACAGACGA
Found at i:4647271 original size:17 final size:18
Alignment explanation
Indices: 4647238--4647276 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4647228 CAAAATAGCA
* *
4647238 TAAATAATATTTGTAAAT
1 TAAATAATATATGTAAAC
4647256 TAAATAATA-ATGTAAAC
1 TAAATAATATATGTAAAC
4647273 TAAA
1 TAAA
4647277 CAAATAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (18 bp):
TAAATAATATATGTAAAC
Found at i:4648248 original size:4 final size:4
Alignment explanation
Indices: 4648235--4648276 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
4648225 AAATCTTTTG
*
4648235 TTTA -TTA TTTA TTTA TTTA TTTA TTTA CTTT- TCTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTT
4648277 TCTTTTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.15
4 25 0.76
5 3 0.09
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4648283 original size:16 final size:16
Alignment explanation
Indices: 4648239--4648283 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4648229 CTTTTGTTTA
*
4648239 TTATTTA-TTTATTTAT
1 TTATTTACTTT-TCTAT
4648255 TTATTTACTTTTCTAT
1 TTATTTACTTTTCTAT
*
4648271 TTATTTTCTTTTC
1 TTATTTACTTTTC
4648284 AAAATAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTACTTTTCTAT
Found at i:4649043 original size:40 final size:40
Alignment explanation
Indices: 4648906--4649336 Score: 233
Period size: 39 Copynumber: 10.9 Consensus size: 40
4648896 TCCTAACCTA
* ** * *
4648906 TCTTCAATCTGCCCTCTGAAT-GGGTAAAAGATAGAATG-G
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTG-GTGTG
* * *
4648945 TCTTCAATCTGCCTTTTAGTTAGGGTAAAAGATTGG-ATG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGTGTG
** * *
4648984 -CTTCAATCTGCCCCATGGTTGGGGTAAGAGATTGGTGTG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGTGTG
* *
4649023 TCTTCAATCTACCCTTTGGTTAGGATAAAAGATTGGTGTG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGTGTG
* * *
4649063 TCTTCAATTTG-CCTTCTGTTTAGGGTAAAAGATTGG-ATG
1 TCTTCAATCTGCCCTT-TGGTTAGGGTAAAAGATTGGTGTG
** * * *
4649102 -CTTCAATCTGCCCCATGGTTGGGGTAAGAGATTAGATGATG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATT-GGTG-TG
* ** * * *
4649143 TCTTCAATCAGCCCCATGGTCAGGGTAAGAGATTAGATG-G
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATT-GGTGTG
* * *
4649183 -CTTCAATATGCCAC-ATGGTTAGGGTAAAGGATTGGATG-G
1 TCTTCAATCTGCC-CTTTGGTTAGGGTAAAAGATTGG-TGTG
* ** ** *
4649222 -CTTCAATTTGCCCCATGGTCGGGGTAAGAA-ATTGG-ATG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAA-AAGATTGGTGTG
* * * ** * *
4649260 ACTTCAGTCTGCCCTATGGGCAGGGTAAGAGATTGGATAATG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGG-T-GTG
* * * **
4649302 TTTTCAATCAGCCCTATGGTCGGGGTAAAAGATTG
1 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTG
4649337 AACAGCTTCA
Statistics
Matches: 311, Mismatches: 61, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
38 57 0.18
39 111 0.36
40 75 0.24
41 2 0.01
42 66 0.21
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGTGTG
Found at i:4649045 original size:78 final size:77
Alignment explanation
Indices: 4648946--4649354 Score: 338
Period size: 78 Copynumber: 5.2 Consensus size: 77
4648936 ATAGAATGGT
* * * **
4648946 CTTCAATCTGCCTTTTAGTTAGGGTAAAAGATTGGATG-CTTCAATCTGCCCCATGGTTGGGGTA
1 CTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGGTCAGGGTA
*
4649010 AGAGATTGGTGTG
66 AGAGATTGG-ATG
* * * * * * * *
4649023 TCTTCAATCTACCCTTTGGTTAGGATAAAAGATTGGTGTGTCTTCAATTTGCCTTC-TGTTTAGG
1 -CTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGG-ATGTCTTCAATCTGCC-CCATGGTCAGG
*
4649087 GTAAAAGATTGGATG
63 GTAAGAGATTGGATG
* * * *
4649102 CTTCAATCTGCCCCATGGTTGGGGTAAGAGATTAGATGATGTCTTCAATCAGCCCCATGGTCAGG
1 CTTCAATCTGCCCTATGGTTAGGGTAAAAGATT-G--GATGTCTTCAATCTGCCCCATGGTCAGG
*
4649167 GTAAGAGATTAGATGG
63 GTAAGAGATTGGAT-G
* * * * *
4649183 CTTCAATATGCCAC-ATGGTTAGGGTAAAGGATTGGATGGCTTCAATTTGCCCCATGGTCGGGGT
1 CTTCAATCTGCC-CTATGGTTAGGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGGTCAGGGT
*
4649247 AAGAAATTGGATG
65 AAGAGATTGGATG
* ** * * * * *
4649260 ACTTCAGTCTGCCCTATGGGCAGGGTAAGAGATTGGATAATGTTTTCAATCAGCCCTATGGTCGG
1 -CTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGG---ATGTCTTCAATCTGCCCCATGGTCAG
* * *
4649325 GGTAAAAGATTGAACAG
62 GGTAAGAGATTGGA-TG
4649342 CTTCAATCTGCCC
1 CTTCAATCTGCCC
4649355 CATGCTCGAG
Statistics
Matches: 265, Mismatches: 51, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
77 2 0.01
78 121 0.46
79 6 0.02
80 60 0.23
81 74 0.28
82 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (77 bp):
CTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGGTCAGGGTA
AGAGATTGGATG
Found at i:4649200 original size:39 final size:39
Alignment explanation
Indices: 4648966--4649297 Score: 246
Period size: 39 Copynumber: 8.4 Consensus size: 39
4648956 CCTTTTAGTT
* * *
4648966 AGGGTAAAAGATTGGAT-GCTTCAATCTGCCCCATGGTT
1 AGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTC
* * * ** *
4649004 GGGGTAAGAGATTGG-TGTGTCTTCAATCTACCCTTTGGTT
1 AGGGTAAGAGATTGGATG-G-CTTCAATATGCCCCATGGTC
* * * * * *
4649044 AGGATAAAAGATTGG-TGTGTCTTCAATTTGCCTTC-TGTTT
1 AGGGTAAGAGATTGGATG-G-CTTCAATATGCC-CCATGGTC
* * *
4649084 AGGGTAAAAGATTGGAT-GCTTCAATCTGCCCCATGGTT
1 AGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTC
* *
4649122 GGGGTAAGAGATTAGATGATGTCTTCAATCA-GCCCCATGGTC
1 AGGGTAAGAGATT-G--GATGGCTTCAAT-ATGCCCCATGGTC
* * *
4649164 AGGGTAAGAGATTAGATGGCTTCAATATGCCACATGGTT
1 AGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTC
*
4649203 AGGGTAA-AGGATTGGATGGCTTCAATTTGCCCCATGGTC
1 AGGGTAAGA-GATTGGATGGCTTCAATATGCCCCATGGTC
* * * * * * *
4649242 GGGGTAAGAAATTGGATGACTTCAGTCTGCCCTATGGGC
1 AGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTC
4649281 AGGGTAAGAGATTGGAT
1 AGGGTAAGAGATTGGAT
4649298 AATGTTTTCA
Statistics
Matches: 240, Mismatches: 40, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.01
38 41 0.17
39 101 0.42
40 63 0.26
41 4 0.02
42 29 0.12
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (39 bp):
AGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTC
Found at i:4649271 original size:159 final size:160
Alignment explanation
Indices: 4648980--4649337 Score: 399
Period size: 159 Copynumber: 2.2 Consensus size: 160
4648970 TAAAAGATTG
* * * * *
4648980 GATG-CTTCAATCTGCCCCATGGTTGGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTTTGGTT
1 GATGTCTTCAATCAGCCCCATGGTCGGGGTAAGAGATTGATGTGTCTTCAATATACCCTATGGTT
* * *
4649044 AGGATAAAAGATTGGTGTGTCTTCAATTTGCCTTCTGTTTAGGGTAAAAGATTGGATGCTTCAAT
66 AGGATAAAAGATTGGTGTGTCTTCAATTTGCCTCCTGGTCAGGGTAAAAGATTGGATGCTTCAAT
***
4649109 CTGCCCCATGGTTGGGGTAAGAGATTAGAT
131 CTGCCCCATGGGCAGGGTAAGAGATTAGAT
* *
4649139 GATGTCTTCAATCAGCCCCATGGTCAGGGTAAGAGATTAGATG-G-CTTCAATATGCCAC-ATGG
1 GATGTCTTCAATCAGCCCCATGGTCGGGGTAAGAGATT-GATGTGTCTTCAATATACC-CTATGG
* * *
4649201 TTAGGGTAAAGGATTGGATG-G-CTTCAATTTGCC-CCATGGTCGGGGTAAGAA-ATTGGATGAC
64 TTAGGATAAAAGATTGG-TGTGTCTTCAATTTGCCTCC-TGGTCAGGGTAA-AAGATTGGATG-C
* * *
4649262 TTCAGTCTGCCCTATGGGCAGGGTAAGAGATTGGAT
125 TTCAATCTGCCCCATGGGCAGGGTAAGAGATTAGAT
* * * *
4649298 AATGTTTTCAATCAGCCCTATGGTCGGGGTAAAAGATTGA
1 GATGTCTTCAATCAGCCCCATGGTCGGGGTAAGAGATTGA
4649338 ACAGCTTCAA
Statistics
Matches: 168, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
157 1 0.01
158 31 0.18
159 99 0.59
160 34 0.20
161 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (160 bp):
GATGTCTTCAATCAGCCCCATGGTCGGGGTAAGAGATTGATGTGTCTTCAATATACCCTATGGTT
AGGATAAAAGATTGGTGTGTCTTCAATTTGCCTCCTGGTCAGGGTAAAAGATTGGATGCTTCAAT
CTGCCCCATGGGCAGGGTAAGAGATTAGAT
Found at i:4649308 original size:120 final size:117
Alignment explanation
Indices: 4648963--4649375 Score: 422
Period size: 120 Copynumber: 3.5 Consensus size: 117
4648953 CTGCCTTTTA
* *
4648963 GTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTTGGGGTAAGAGATTGGTGTGTCTTC
1 GTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGG-ATGTCTTC
* * * * * * *
4649028 AATCTACCCTTTGGTTAGGATAAAAGATTGG-TGTGTCTTCAATTTGCCTTC-TG
65 AATCTGCCCTATGGTCAGGGTAAGAGATTGGATATGTCTTCAATATGCC--CATG
* *
4649081 TTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTTGGGGTAAGAGATTAGATGATGTCT
1 GTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATT-G--GATGTCT
* * * *
4649146 TCAATCAGCCCCATGGTCAGGGTAAGAGATT--AGATGGCTTCAATATGCCACATG
63 TCAATCTGCCCTATGGTCAGGGTAAGAGATTGGATATGTCTTCAATATGCC-CATG
* * * *
4649200 GTTAGGGTAAAGGATTGGATGGCTTCAATTTGCCCCATGGTCGGGGTAAGAAATTGGATGACTTC
1 GTTAGGGTAAAAGATTGGAT-GCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGTCTTC
* * *
4649265 AGTCTGCCCTATGGGCAGGGTAAGAGATTGGATAATGTTTTCAATCA-GCCCTATG
65 AATCTGCCCTATGGTCAGGGTAAGAGATTGGAT-ATGTCTTCAAT-ATGCCC-ATG
** * * * * *
4649320 GTCGGGGTAAAAGATTGAACAGCTTCAATCTGCCCCATGCTCGAGGTAAAAGATTG
1 GTTAGGGTAAAAGATTGGA-TGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTG
4649376 AATGATGTCT
Statistics
Matches: 246, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
117 33 0.13
118 54 0.22
119 37 0.15
120 120 0.49
121 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (117 bp):
GTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGTCTTCA
ATCTGCCCTATGGTCAGGGTAAGAGATTGGATATGTCTTCAATATGCCCATG
Found at i:4649368 original size:159 final size:158
Alignment explanation
Indices: 4649085--4649375 Score: 363
Period size: 159 Copynumber: 1.8 Consensus size: 158
4649075 CTTCTGTTTA
*** *
4649085 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTTGGGGTAAGAGATTAGATGATGTCTTCAA
1 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGGCAGGGTAAGAGATTAGATAATGTCTTCAA
* ** * * *
4649150 TCAGCCCCATGGTCAGGGTAAGAGATTAGATGGCTTCAATATGCCACATGGTTAGGGTAAAGGAT
66 TCAGCCCCATGGTCAGGGTAAAAGATTAGACAGCTTCAATATGCCACATGCTGAGGGTAAAAGAT
4649215 TGGATGGCTTCAATTTGCCCCATGGTCG
131 TGGATGGCTTCAATTTGCCCCATGGTCG
* * * *
4649243 GGGTAAGAA-ATTGGATGACTTCAGTCTGCCCTATGGGCAGGGTAAGAGATTGGATAATGTTTTC
1 GGGTAA-AAGATTGGATG-CTTCAATCTGCCCCATGGGCAGGGTAAGAGATTAGATAATGTCTTC
* * * *
4649307 AATCAGCCCTATGGTCGGGGTAAAAGATT-GAACAGCTTCAATCTGCCCCATGCTCGA-GGTAAA
64 AATCAGCCCCATGGTCAGGGTAAAAGATTAG-ACAGCTTCAATATGCCACATGCT-GAGGGTAAA
4649370 AGATTG
127 AGATTG
4649376 AATGATGTCT
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
158 15 0.14
159 95 0.86
160 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (158 bp):
GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGGCAGGGTAAGAGATTAGATAATGTCTTCAA
TCAGCCCCATGGTCAGGGTAAAAGATTAGACAGCTTCAATATGCCACATGCTGAGGGTAAAAGAT
TGGATGGCTTCAATTTGCCCCATGGTCG
Found at i:4657283 original size:221 final size:213
Alignment explanation
Indices: 4656819--4657347 Score: 643
Period size: 221 Copynumber: 2.4 Consensus size: 213
4656809 CATTGAGCAC
* * * * *
4656819 TTATCGATTTTAAGTAGGATACTCAATTATTTA-GATTCAA-AAAAATTGTACCCAACATGTTAG
1 TTATCGATTTTAAATAGGATATTCAATTATTTAGGTTTGAAGAAAAATTGTACCCAACACGTTAG
* * *
4656882 GGCACAATTTCTCGAATTCCCTAAAATAAAATAACATTGTCTTTATTTTTAAAACAATTTATGTA
66 GACACAATTT-TCGAATTTCCTAAAATAAAAGAACATTGTCTTTATTTTTAAAACAATTTATGTA
* * * * * *
4656947 TAAAAAACTATATAAATTTTATTTTGTTAAAAAAGTTTTGCAAGAAATGGATAAATCCATGTAAT
130 TAAAAAACAATATAAATTTTATTTCGTTAAAAAAGCTTTGCAAAAAATAGATAAACCCATGTAAT
*
4657012 TCACGAGTAAAAATGGCAG
195 TCACAAGTAAAAATGGCAG
* * *
4657031 TTATCGATTTTAAATAAGATATTCTATTATTTAGGTTTGAAGAAAAATTGTACCCAACACGTTAA
1 TTATCGATTTTAAATAGGATATTCAATTATTTAGGTTTGAAGAAAAATTGTACCCAACACGTTAG
* *
4657096 GACACCACTTTTCGAATTTCCTAAAATAAAAGAACATTGCTTTTTATTTTTTTTAAAACAATTTA
66 GACA-CAATTTTCGAATTTCCTAAAATAAAAGAACATTG-TCTTTA---TTTTTAAAACAATTTA
* * *
4657161 TGCATTTAAAAAACAATATACATTTTATTTCGTTAAAAATGCTTTGCAAAAAGATAGATAAACCC
126 TG--TATAAAAAACAATATAAATTTTATTTCGTTAAAAAAGCTTTGCAAAAA-ATAGATAAACCC
*
4657226 ATGTAATTTACAAGTAAAAATAGTG-A-
188 ATGTAATTCACAAGTAAAAAT-G-GCAG
* * * **
4657252 TTATCGATTTTAAACAGGATATTCGATTATTTAGGTTCGAAGAAAAACCGTACCCAACACGTTAG
1 TTATCGATTTTAAATAGGATATTCAATTATTTAGGTTTGAAGAAAAATTGTACCCAACACGTTAG
* *
4657317 GACATCATTTTTCGAATTTCCTATAATAAAA
66 GACA-CAATTTTCGAATTTCCTAAAATAAAA
4657348 TAACCTTACC
Statistics
Matches: 271, Mismatches: 34, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
212 29 0.11
213 5 0.02
214 50 0.18
215 10 0.04
218 18 0.07
220 41 0.15
221 115 0.42
222 2 0.01
223 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (213 bp):
TTATCGATTTTAAATAGGATATTCAATTATTTAGGTTTGAAGAAAAATTGTACCCAACACGTTAG
GACACAATTTTCGAATTTCCTAAAATAAAAGAACATTGTCTTTATTTTTAAAACAATTTATGTAT
AAAAAACAATATAAATTTTATTTCGTTAAAAAAGCTTTGCAAAAAATAGATAAACCCATGTAATT
CACAAGTAAAAATGGCAG
Found at i:4659138 original size:10 final size:10
Alignment explanation
Indices: 4659105--4659138 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4659095 TTGTTTTTAA
*
4659105 TTTATTTTGT
1 TTTATTTTTT
4659115 TTTATATTTTT
1 TTTAT-TTTTT
4659126 TTTATTTTTT
1 TTTATTTTTT
4659136 TTT
1 TTT
4659139 TGTTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:4660899 original size:42 final size:41
Alignment explanation
Indices: 4660789--4660932 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 41
4660779 TGTATAAAAG
* *
4660789 GGAAGACTCATGTCTCGGGTTGAGCATGAGGATT-TATATAAA
1 GGAAGACTCATGTCTCGGGATGAGAATGA-GATTATAT-TAAA
* * *
4660831 TGAAAGACTCATGTCTCGAGAAGAGAATGAGATTATGATTAAA
1 -GGAAGACTCATGTCTCGGGATGAGAATGAGATTAT-ATTAAA
* *
4660874 GGAAGACTCATGTCTCGGGATGAGAATGAGAATACAATTAAA
1 GGAAGACTCATGTCTCGGGATGAGAATGAGATTA-TATTAAA
* *
4660916 GGAAGACTTATGACTCG
1 GGAAGACTCATGTCTCG
4660933 TTAGAGCATA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 55 0.64
43 29 0.34
44 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (41 bp):
GGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAA
Found at i:4666644 original size:18 final size:19
Alignment explanation
Indices: 4666621--4666659 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
4666611 TGGTTTTCTC
*
4666621 AAAATGAAAAT-TGAAATG
1 AAAATGAAAATGAGAAATG
4666639 AAAATGAAAATGAGAAATG
1 AAAATGAAAATGAGAAATG
4666658 AA
1 AA
4666660 TTCATTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (19 bp):
AAAATGAAAATGAGAAATG
Found at i:4666656 original size:51 final size:50
Alignment explanation
Indices: 4666548--4666660 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 50
4666538 ACAACATTCA
* *
4666548 GGAAATGATTATGGTTTTCTCCAAAATGAAAATGGAGAAAATGAAATCATTT
1 GGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAGAAAATGAAA-CA-TT
*
4666600 GGAAATGAATGTGGTTTTCT-CAAAATGAAAATTGAAATGAAAATGAAA-A-T
1 GGAAATGAATATGGTTTTCTCCAAAATGAAAA-TG-AA-GAAAATGAAACATT
4666650 GAGAAATGAAT
1 G-GAAATGAAT
4666661 TCATTTAGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 2 0.04
51 20 0.37
52 21 0.39
53 1 0.02
54 10 0.19
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.28
Consensus pattern (50 bp):
GGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAGAAAATGAAACATT
Found at i:4666658 original size:7 final size:6
Alignment explanation
Indices: 4666621--4666659 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
4666611 TGGTTTTCTC
4666621 AAAATG AAAATTG -AAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAA-TG AAAATG AAAATG AAAATG A-AAATG AA
4666660 TTCATTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 2 0.07
6 20 0.67
7 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:4686196 original size:22 final size:22
Alignment explanation
Indices: 4686166--4686223 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
4686156 TATGCACTGA
* *
4686166 TGAATGGAGAGCGCCAAGAAGC
1 TGAACGGAGAGCACCAAGAAGC
**
4686188 TGAACGGAGAGCACCAAGGTGC
1 TGAACGGAGAGCACCAAGAAGC
*
4686210 TAAACGGAGAGCAC
1 TGAACGGAGAGCAC
4686224 AAACGTGCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.34, T:0.09
Consensus pattern (22 bp):
TGAACGGAGAGCACCAAGAAGC
Found at i:4686231 original size:22 final size:22
Alignment explanation
Indices: 4686190--4686258 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
4686180 CAAGAAGCTG
* *
4686190 AACGGAGAGCACCAAGGTGCTA
1 AACGGAGAGCACAAACGTGCTA
4686212 AACGGAGAGCACAAACGTGCTA
1 AACGGAGAGCACAAACGTGCTA
* *
4686234 AATGGAGAGCACTATACGTGCTA
1 AACGGAGAGCAC-AAACGTGCTA
4686257 AA
1 AA
4686259 TAATGGAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 31 0.74
23 11 0.26
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (22 bp):
AACGGAGAGCACAAACGTGCTA
Found at i:4688731 original size:16 final size:17
Alignment explanation
Indices: 4688707--4688741 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4688697 CATTGGAGCC
*
4688707 CTAATTTCTTTTTA-TT
1 CTAAATTCTTTTTACTT
4688723 CTAAATTCTTTTTACTT
1 CTAAATTCTTTTTACTT
4688740 CT
1 CT
4688742 TTTCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (17 bp):
CTAAATTCTTTTTACTT
Found at i:4697072 original size:22 final size:22
Alignment explanation
Indices: 4697039--4697083 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
4697029 ATGTTTAATA
4697039 ATATTGAAATTTATAATAT-TTG
1 ATATTGAAATTT-TAATATGTTG
4697061 ATATT-AATATTTTAATATGTTG
1 ATATTGAA-ATTTTAATATGTTG
4697083 A
1 A
4697084 AAAATATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
ATATTGAAATTTTAATATGTTG
Found at i:4699077 original size:23 final size:22
Alignment explanation
Indices: 4699048--4699173 Score: 117
Period size: 23 Copynumber: 5.4 Consensus size: 22
4699038 GAACACTAGC
*
4699048 GTGCTCTCTGTTTAGCACGTCT
1 GTGCTCTCTGTTTAGCACGTGT
4699070 CGTGCTCTCTGTTATTAGCACTGTGT
1 -GTGCTCTCTG-T-TTAGCAC-GTGT
* * *
4699096 GTCCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGTTTAGCAC-GTGT
* * *
4699119 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGTTTAGCAC-GTGT
*
4699142 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGTTTAGCAC-GTGT
4699165 GTGCTCTCT
1 GTGCTCTCT
4699174 CTTGCCCAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 69 0.78
24 1 0.01
25 16 0.18
26 3 0.03
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (22 bp):
GTGCTCTCTGTTTAGCACGTGT
Found at i:4699150 original size:46 final size:47
Alignment explanation
Indices: 4699051--4699173 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 47
4699041 CACTAGCGTG
* * *
4699051 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGTC
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGTA
* * *
4699099 CTCTCTGATTAGCACTTTGTGTGCTCTCTG-ATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
*
4699145 CTCTCTGTTTAGCACTGTGTGTGCTCTCT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCT
4699174 CTTGCCCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 40 0.61
48 24 0.36
49 2 0.03
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (47 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
Found at i:4700264 original size:20 final size:21
Alignment explanation
Indices: 4700225--4700271 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
4700215 TATTTATTAG
*
4700225 AATAATAATTTTTATAAATAA
1 AATAATAATTATTATAAATAA
*
4700246 AATAATAA-TATTGTAAATAA
1 AATAATAATTATTATAAATAA
4700266 AATAAT
1 AATAAT
4700272 TTAATGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATAATAATTATTATAAATAA
Found at i:4705465 original size:16 final size:16
Alignment explanation
Indices: 4705437--4705478 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
4705427 TATTTGTGTT
*
4705437 TTTTTTTAA-TTTACA
1 TTTTTTAAATTTTACA
*
4705452 TTTTTTAAATTTTATA
1 TTTTTTAAATTTTACA
4705468 TTTTTTAAATT
1 TTTTTTAAATT
4705479 ATTTTTTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATTTTACA
Found at i:4705480 original size:14 final size:14
Alignment explanation
Indices: 4705438--4705485 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 14
4705428 ATTTGTGTTT
* *
4705438 TTTTTTAATTTACA
1 TTTTTTAAATTATA
4705452 TTTTTTAAATTTTATA
1 TTTTTTAAA--TTATA
4705468 TTTTTTAAATTAT-
1 TTTTTTAAATTATA
4705481 TTTTT
1 TTTTT
4705486 GACGTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
16 13 0.43
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTAAATTATA
Found at i:4705820 original size:17 final size:17
Alignment explanation
Indices: 4705798--4705830 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4705788 TATTAATAGG
4705798 AAATTA-TATATTTTAAT
1 AAATTATTA-ATTTTAAT
4705815 AAATTATTAATTTTAA
1 AAATTATTAATTTTAA
4705831 ATAGTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTATTAATTTTAAT
Found at i:4709884 original size:19 final size:20
Alignment explanation
Indices: 4709842--4709888 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
4709832 ATTACAAAAC
4709842 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTCAAA
*
4709862 AATTCAAAATAATTTT-TAA
1 AATTCAAAATAATTTTCAAA
4709881 AATTCAAA
1 AATTCAAA
4709889 TTTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:4711074 original size:11 final size:11
Alignment explanation
Indices: 4711058--4711087 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
4711048 ATGAAACTAT
4711058 AATTTTAATTC
1 AATTTTAATTC
4711069 AATTTTAATTC
1 AATTTTAATTC
4711080 AATTTTAA
1 AATTTTAA
4711088 ATAGCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTTAATTC
Found at i:4723247 original size:69 final size:69
Alignment explanation
Indices: 4723114--4723256 Score: 168
Period size: 69 Copynumber: 2.1 Consensus size: 69
4723104 ATGGTTTAAA
* * * *
4723114 TATTAATATTAATTTATTATAATTTAAAAATGTTATTAATGATTTTTATAGGTTATGTATTTTAT
1 TATTAATAGTAATTTATTATAATTTAAAAATGTTAATAATAATTTTTATAGATTATGTATTTTAT
4723179 ATAT
66 ATAT
* *
4723183 TATTAA-AGTAATTTATTTTAAATTTAAAAATGTTAATATTCAAATTTTTAT-GATT-T-TATAT
1 TATTAATAGTAATTTATTAT-AATTTAAAAATGTTAATAAT--AATTTTTATAGATTATGTAT-T
4723244 TTATATAT
62 TTATATAT
4723252 TATTA
1 TATTA
4723257 TTTTTGAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
68 14 0.22
69 39 0.61
70 3 0.05
71 8 0.12
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.55
Consensus pattern (69 bp):
TATTAATAGTAATTTATTATAATTTAAAAATGTTAATAATAATTTTTATAGATTATGTATTTTAT
ATAT
Found at i:4724186 original size:19 final size:21
Alignment explanation
Indices: 4724159--4724213 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
4724149 AGTGCAATTA
*
4724159 ATTTGAATTA-GTAATTG-TT
1 ATTTTAATTATGTAATTGTTT
*
4724178 ATTTTAATTATTTAATTGTTT
1 ATTTTAATTATGTAATTGTTT
4724199 ATTATTAATTCATGT
1 ATT-TTAATT-ATGT
4724214 TGATATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 9 0.31
20 6 0.21
21 5 0.17
22 6 0.21
23 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (21 bp):
ATTTTAATTATGTAATTGTTT
Found at i:4725980 original size:58 final size:58
Alignment explanation
Indices: 4725918--4726056 Score: 201
Period size: 58 Copynumber: 2.4 Consensus size: 58
4725908 AGACATCCGA
* *
4725918 GGGTAAAATGGTAATTTTTGAGAAAAATCGAGATCAAAAATGGAA-TTTTGGGAGTT-TG
1 GGGTAAAATGGTAATTTTTG-GAAAAATCGAGAT-AAAAATGGAATTTTTGGAAGTTCGG
* * *
4725976 GGGTAAAATGGTAATTTTAGGAAAAATTGAGGTAAAAATGGAATTTTTGGAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGAAAAATCGAGATAAAAATGGAATTTTTGGAAGTTCGG
4726034 GGGTAAAATGGTAATTTTTGGAA
1 GGGTAAAATGGTAATTTTTGGAA
4726057 GTTTTGGGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
56 10 0.14
57 21 0.29
58 42 0.58
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGAAAAATCGAGATAAAAATGGAATTTTTGGAAGTTCGG
Found at i:4726068 original size:58 final size:57
Alignment explanation
Indices: 4725918--4726089 Score: 193
Period size: 58 Copynumber: 3.0 Consensus size: 57
4725908 AGACATCCGA
* * * * *
4725918 GGGTAAAATGGTAATTTTTGAGAAAAATCGAGATCAAAAATGGAA-TTTTGGGAGTTTG
1 GGGTAAAATGGTAATTTTAG-GAAAAATTGAGGT-AAAAATGGAATTTTTGGAAGTTGG
4725976 GGGTAAAATGGTAATTTTAGGAAAAATTGAGGTAAAAATGGAATTTTTGGAAGTTCGG
1 GGGTAAAATGGTAATTTTAGGAAAAATTGAGGTAAAAATGGAATTTTTGGAAGTT-GG
* *** * * *
4726034 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTAAAAATGTAATTTCTTGAAAGTT
1 GGGTAAAATGGTAATTTTAGGAAAAATTGAGGTAAAAATGGAATTT-TTGGAAGTT
4726090 TCGAGACCTC
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
56 10 0.10
57 21 0.21
58 60 0.61
59 8 0.08
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (57 bp):
GGGTAAAATGGTAATTTTAGGAAAAATTGAGGTAAAAATGGAATTTTTGGAAGTTGG
Found at i:4726089 original size:30 final size:29
Alignment explanation
Indices: 4725953--4726090 Score: 115
Period size: 29 Copynumber: 4.8 Consensus size: 29
4725943 AATCGAGATC
* *
4725953 AAAAATGGAA-TTTTGGGAGTTT-GGGGT
1 AAAAATGTAATTTTTGGAAGTTTGGGGGT
* ** *
4725980 -AAAATGGTAATTTTAGGAAAAATT-GAGGT
1 AAAAAT-GTAATTTTTGG-AAGTTTGGGGGT
* *
4726009 AAAAATGGAATTTTTGGAAGTTCGGGGGT
1 AAAAATGTAATTTTTGGAAGTTTGGGGGT
*
4726038 -AAAATGGTAATTTTTGGAAGTTTTGGGGT
1 AAAAAT-GTAATTTTTGGAAGTTTGGGGGT
*
4726067 AAAAATGTAATTTCTTGAAAGTTT
1 AAAAATGTAATTT-TTGGAAGTTT
4726091 CGAGACCTCC
Statistics
Matches: 87, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
26 5 0.06
27 3 0.03
28 13 0.15
29 47 0.54
30 19 0.22
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.36
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTTGGGGGT
Found at i:4727269 original size:2 final size:2
Alignment explanation
Indices: 4727262--4727325 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
4727252 AACAAAACGA
4727262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4727304 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
4727326 TAAATAACAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4727979 original size:6 final size:6
Alignment explanation
Indices: 4727968--4728059 Score: 75
Period size: 6 Copynumber: 15.8 Consensus size: 6
4727958 GATTTTATTG
* *
4727968 ATTTAA ATTTAA GTTTAA ATTT-- ATTTCAA ATTTAA A-CTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA
** ** * *
4728014 ATTTAA AAATAA AAATAA ATTTAA ATTTAA A-GTAA ATTTAA TTTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
4728060 GAAATAAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
4 4 0.06
5 8 0.11
6 54 0.77
7 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:4728015 original size:17 final size:16
Alignment explanation
Indices: 4727971--4728069 Score: 61
Period size: 17 Copynumber: 6.4 Consensus size: 16
4727961 TTTATTGATT
*
4727971 TAAATTTAAGTTTAAA
1 TAAATTTAAATTTAAA
**
4727987 TTTATTTCAAATTTAAA
1 TAAATTT-AAATTTAAA
4728004 CTAAATTTAAATTT-AA
1 -TAAATTTAAATTTAAA
4728020 -AAA--T-AA---AAA
1 TAAATTTAAATTTAAA
4728029 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
4728045 GTAAATTTAATTTTAGAAA
1 -TAAATTTAAATTT--AAA
4728064 TAAATT
1 TAAATT
4728070 CAAAACCCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 24
0.68 0.06 0.26
Matches are distributed among these distances:
9 2 0.03
10 3 0.05
11 2 0.03
12 2 0.03
13 2 0.03
14 3 0.05
16 10 0.16
17 26 0.41
18 11 0.17
19 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:4728026 original size:18 final size:18
Alignment explanation
Indices: 4728011--4728069 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
4728001 AAACTAAATT
**
4728011 TAAATTTAAAAATAAAAA
1 TAAATTTAAATTTAAAAA
*
4728029 TAAATTTAAATTT-AAAG
1 TAAATTTAAATTTAAAAA
* *
4728046 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAAAAA
4728064 TAAATT
1 TAAATT
4728070 CAAAACCCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 15 0.44
18 19 0.56
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAA
Found at i:4730578 original size:15 final size:17
Alignment explanation
Indices: 4730558--4730591 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4730548 TCTCAATCGT
4730558 ATAAA-TATT-GTTTTA
1 ATAAATTATTAGTTTTA
4730573 ATAAATTATTAGTTTTA
1 ATAAATTATTAGTTTTA
4730590 AT
1 AT
4730592 GTATATTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATAAATTATTAGTTTTA
Found at i:4731757 original size:43 final size:43
Alignment explanation
Indices: 4731696--4731837 Score: 203
Period size: 43 Copynumber: 3.3 Consensus size: 43
4731686 TTTATGAGAA
* * *
4731696 AAACGCTGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCAC
* * *
4731739 AAACGCCGGTAAAGAACATGGTCTTTAACGGGGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCAC
* * *
4731782 AAACGCCGCTAAAGAACATGGTATTTAACGGCACTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCAC
4731825 AAACGCCGCTAAA
1 AAACGCCGCTAAA
4731838 ATTAATAGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCAC
Found at i:4732190 original size:21 final size:21
Alignment explanation
Indices: 4732166--4732213 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
4732156 CTGCTTCATT
4732166 CGCTTTTCTCGCTGCTGCCTC
1 CGCTTTTCTCGCTGCTGCCTC
* * *
4732187 CGCTTCTCTTGCTGTTGCCTC
1 CGCTTTTCTCGCTGCTGCCTC
4732208 CGCTTT
1 CGCTTT
4732214 AAGTTGCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.40, G:0.19, T:0.42
Consensus pattern (21 bp):
CGCTTTTCTCGCTGCTGCCTC
Found at i:4737925 original size:8 final size:8
Alignment explanation
Indices: 4737901--4737937 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
4737891 ACATAGTTGC
*
4737901 AAATAAAT
1 AAATAATT
*
4737909 AACTAATT
1 AAATAATT
4737917 AAATAATT
1 AAATAATT
4737925 AAATAATT
1 AAATAATT
4737933 AAATA
1 AAATA
4737938 TTTCAGGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (8 bp):
AAATAATT
Found at i:4738058 original size:26 final size:26
Alignment explanation
Indices: 4738027--4738109 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
4738017 TATTAAACTA
*
4738027 AATAATTAAATATTTGGATTGTTTTT
1 AATAATTAAATATTTGAATTGTTTTT
*
4738053 AATAATTAAATATTT-AATTAAATATTTT
1 AATAATTAAATATTTGAATT--GT-TTTT
4738081 --TAATTAAATATTTGAATTGTTTTT
1 AATAATTAAATATTTGAATTGTTTTT
*
4738105 TATAA
1 AATAA
4738110 ATGACTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 4 0.08
25 4 0.08
26 31 0.65
27 5 0.10
28 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
AATAATTAAATATTTGAATTGTTTTT
Done.