Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 112 of 310
Found at i:35820723 original size:12 final size:12
Alignment explanation
Indices: 35820708--35820768 Score: 79
Period size: 12 Copynumber: 5.1 Consensus size: 12
35820698 TTCAAATTTA
35820708 ATTTCGATTTTG
1 ATTTCGATTTTG
*
35820720 ATTTTGATTTTG
1 ATTTCGATTTTG
35820732 ATTTCGATTTCT-
1 ATTTCGATTT-TG
35820744 ATTTCGATTTTG
1 ATTTCGATTTTG
* *
35820756 ATTACAATTTTG
1 ATTTCGATTTTG
35820768 A
1 A
35820769 AACACTCACT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.57
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:35820834 original size:42 final size:42
Alignment explanation
Indices: 35820788--35820870 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
35820778 TAATTCTGAT
*
35820788 TTAGATTTTGATTTCA-ATTTCGATTTCA-ATCTCAATTTAGGA
1 TTAGAATTTGATTT-AGATTTCGATTT-AGATCTCAATTTAGGA
*
35820830 TTAGAATTTGATTTAGATTTCGATTTAGATTTCAATTTAGG
1 TTAGAATTTGATTTAGATTTCGATTTAGATCTCAATTTAGG
35820871 GTTATTTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.48
Consensus pattern (42 bp):
TTAGAATTTGATTTAGATTTCGATTTAGATCTCAATTTAGGA
Found at i:35820854 original size:12 final size:12
Alignment explanation
Indices: 35820830--35820869 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
35820820 CAATTTAGGA
35820830 TTAGAATTT-GAT
1 TTAG-ATTTCGAT
35820842 TTAGATTTCGAT
1 TTAGATTTCGAT
*
35820854 TTAGATTTCAAT
1 TTAGATTTCGAT
35820866 TTAG
1 TTAG
35820870 GGTTATTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (12 bp):
TTAGATTTCGAT
Found at i:35821074 original size:34 final size:34
Alignment explanation
Indices: 35821036--35821203 Score: 98
Period size: 34 Copynumber: 5.2 Consensus size: 34
35821026 TTGTATGAAC
35821036 GCCATTATCAAACTGATCTTTATTGTGTATATCT
1 GCCATTATCAAACTGATCTTTATTGTGTATATCT
* * *
35821070 GCCATT-GC---TTG-TCTCTGTCA-T-TGTATGA-AT
1 GCCATTATCAAACTGATCT-T-T-ATTGTGTAT-ATCT
35821100 GCCATTATCAAACTGATCTTTATTGTGTATATCT
1 GCCATTATCAAACTGATCTTTATTGTGTATATCT
* * *
35821134 GCCATT-GC---TTG-TCTCTGTCA-T-TGTATGA-AT
1 GCCATTATCAAACTGATCT-T-T-ATTGTGTAT-ATCT
35821164 GCCATTATCAAACTGATCTTTATTGTGTATATCT
1 GCCATTATCAAACTGATCTTTATTGTGTATATCT
35821198 GCCATT
1 GCCATT
35821204 GTGTGAATGT
Statistics
Matches: 98, Mismatches: 12, Indels: 48
0.62 0.08 0.30
Matches are distributed among these distances:
29 6 0.06
30 30 0.31
31 8 0.08
32 4 0.04
33 8 0.08
34 36 0.37
35 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (34 bp):
GCCATTATCAAACTGATCTTTATTGTGTATATCT
Found at i:35821093 original size:64 final size:64
Alignment explanation
Indices: 35821009--35821204 Score: 356
Period size: 64 Copynumber: 3.1 Consensus size: 64
35820999 TTTGATGTTT
* * * *
35821009 ATTGTTTGTATCTGCCATTGTATGAACGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
1 ATTGCTTGTCTCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
35821073 ATTGCTTGTCTCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
1 ATTGCTTGTCTCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
35821137 ATTGCTTGTCTCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
1 ATTGCTTGTCTCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
35821201 ATTG
1 ATTG
35821205 TGTGAATGTC
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 128 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (64 bp):
ATTGCTTGTCTCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
Found at i:35821095 original size:30 final size:30
Alignment explanation
Indices: 35821061--35821159 Score: 71
Period size: 30 Copynumber: 3.2 Consensus size: 30
35821051 ATCTTTATTG
35821061 TGTATATCTGCCATTGCTTGTCTCTGTCAT
1 TGTATATCTGCCATTGCTTGTCTCTGTCAT
* * *
35821091 TGTATGA-ATGCCATTATCAAACTGATCT-T-T-ATT
1 TGTAT-ATCTGCCATT-GC---TTG-TCTCTGTCA-T
35821124 GTGTATATCTGCCATTGCTTGTCTCTGTCAT
1 -TGTATATCTGCCATTGCTTGTCTCTGTCAT
35821155 TGTAT
1 TGTAT
35821160 GAATGCCATT
Statistics
Matches: 51, Mismatches: 6, Indels: 24
0.63 0.07 0.30
Matches are distributed among these distances:
29 3 0.06
30 20 0.39
31 4 0.08
32 2 0.04
33 4 0.08
34 15 0.29
35 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (30 bp):
TGTATATCTGCCATTGCTTGTCTCTGTCAT
Found at i:35821229 original size:48 final size:48
Alignment explanation
Indices: 35821147--35821301 Score: 247
Period size: 48 Copynumber: 3.2 Consensus size: 48
35821137 ATTGCTTGTC
* * *
35821147 TCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATA
1 TCTGCCATTGTATGAATGTCATTATCAAATTGATCTTTATTGTGTATA
* *
35821195 TCTGCCATTGTGTGAATGTCATTAGCAAATTGATCTTTATTGTGTATA
1 TCTGCCATTGTATGAATGTCATTATCAAATTGATCTTTATTGTGTATA
* *
35821243 TCTGCCATTGTATGAATGTCATTTTCAAATTGATGTTTATTGTGTATA
1 TCTGCCATTGTATGAATGTCATTATCAAATTGATCTTTATTGTGTATA
35821291 TCTGCCATTGT
1 TCTGCCATTGT
35821302 TTGTATCTGC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.45
Consensus pattern (48 bp):
TCTGCCATTGTATGAATGTCATTATCAAATTGATCTTTATTGTGTATA
Found at i:35821355 original size:46 final size:46
Alignment explanation
Indices: 35821305--35821407 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
35821295 CCATTGTTTG
35821305 TATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTA
1 TATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTA
*
35821351 TATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTA
1 TATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTA
*
35821397 TATCTGTCATT
1 TATCTGCCATT
35821408 GTTTGTATCC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (46 bp):
TATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTA
Found at i:35821408 original size:108 final size:110
Alignment explanation
Indices: 35821214--35821416 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 110
35821204 GTGTGAATGT
* ** * *
35821214 CATTAGCAAATTGATCTTTATTGTGTATATCTGCCATTGTATGAATGTCATTTTCAAATTGATGT
1 CATTAGCAAACTGATCTTTATTGTGTATATCTGCCATTAAATGAATGACATTTTCAAACTGATGT
35821279 TTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
66 TTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
* * *
35821324 CATTATCAAACTGATGTTTATTGTGTATATCTGCCATTAAAT-TAT-ACATTATT-AAACTGATG
1 CATTAGCAAACTGATCTTTATTGTGTATATCTGCCATTAAATGAATGACATT-TTCAAACTGATG
*
35821386 TTTATTGTGTATATCTGTCATTGTTTGTATC
65 TTTATTGTGTATATCTGCCATTGTTTGTATC
35821417 CAAGCTCCTA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
108 42 0.51
109 4 0.05
110 37 0.45
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (110 bp):
CATTAGCAAACTGATCTTTATTGTGTATATCTGCCATTAAATGAATGACATTTTCAAACTGATGT
TTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATA
Found at i:35821719 original size:15 final size:16
Alignment explanation
Indices: 35821701--35821734 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
35821691 TGAAGAAAAT
35821701 GTGTCTGGTAGTGA-A
1 GTGTCTGGTAGTGATA
35821716 GTGTCTGGTAGTGATA
1 GTGTCTGGTAGTGATA
35821732 GTG
1 GTG
35821735 ATGCATCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.18, C:0.06, G:0.41, T:0.35
Consensus pattern (16 bp):
GTGTCTGGTAGTGATA
Found at i:35834467 original size:40 final size:39
Alignment explanation
Indices: 35834369--35834631 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
35834359 TCCTCGTTCA
* * * *
35834369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35834408 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35834447 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35834487 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
35834527 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
35834567 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
35834608 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35834632 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:35834591 original size:120 final size:119
Alignment explanation
Indices: 35834369--35834631 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
35834359 TCCTCGTTCA
* * *
35834369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
35834434 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
35834487 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
35834552 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
35834608 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35834632 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:35834640 original size:41 final size:41
Alignment explanation
Indices: 35834563--35834640 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35834553 TTTGTATCTC
* * *
35834563 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35834604 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35834641 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35836748 original size:3 final size:3
Alignment explanation
Indices: 35836733--35836783 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
35836723 CCATTTTTCC
* *
35836733 TCT TCT CCT TCT TCT TCT TC- TCT TCCT GCT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT
*
35836777 TTT TCT T
1 TCT TCT T
35836784 TTTTTCAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:35836753 original size:15 final size:14
Alignment explanation
Indices: 35836733--35836777 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 14
35836723 CCATTTTTCC
35836733 TCTTCTCCTTCTTCT
1 TCTTCT-CTTCTTCT
35836748 TCTTCTCTTC--CT
1 TCTTCTCTTCTTCT
*
35836760 GCTTCTCTTCTTCT
1 TCTTCTCTTCTTCT
35836774 TCTT
1 TCTT
35836778 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.42
14 9 0.35
15 6 0.23
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.60
Consensus pattern (14 bp):
TCTTCTCTTCTTCT
Found at i:35837378 original size:6 final size:6
Alignment explanation
Indices: 35837367--35837392 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35837357 ATATGTAACT
35837367 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
35837393 GCAGAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:35858654 original size:26 final size:26
Alignment explanation
Indices: 35858623--35858730 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
35858613 TGAAATGCCC
35858623 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
35858649 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
35858675 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
35858701 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
35858727 ATCA
1 ATCA
35858731 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:35859741 original size:35 final size:37
Alignment explanation
Indices: 35859662--35859742 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
35859652 TTTGAAATTG
*
35859662 AGATAACTACCATAATATTTTAAAAAATATATTGTACA
1 AGATAA-TACCATAATATTTTAAAAAATATACTGTACA
* * **
35859700 AAATAATACTATAATATTTT-TTAAA-ATACTGTACA
1 AGATAATACCATAATATTTTAAAAAATATACTGTACA
35859735 AGATAATA
1 AGATAATA
35859743 TTAAATAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 16 0.43
36 3 0.08
37 13 0.35
38 5 0.14
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.36
Consensus pattern (37 bp):
AGATAATACCATAATATTTTAAAAAATATACTGTACA
Found at i:35859882 original size:20 final size:21
Alignment explanation
Indices: 35859857--35859895 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35859847 TTGAAGCATT
35859857 ATATTTTAA-AATTTTAATAA
1 ATATTTTAATAATTTTAATAA
*
35859877 ATATTTTAATTATTTTAAT
1 ATATTTTAATAATTTTAAT
35859896 TTTCATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTAATAATTTTAATAA
Found at i:35860431 original size:22 final size:23
Alignment explanation
Indices: 35860382--35860434 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
35860372 ATGCACAATG
*
35860382 AATAAAAATAGTAGTAAAGCATT
1 AATAAAAATAGTAGTAAAGAATT
* * *
35860405 GATAAAAAT-GTAGTATATAATT
1 AATAAAAATAGTAGTAAAGAATT
35860427 AATAAAAA
1 AATAAAAA
35860435 AAGTTCAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (23 bp):
AATAAAAATAGTAGTAAAGAATT
Found at i:35871919 original size:49 final size:48
Alignment explanation
Indices: 35871830--35871923 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 48
35871820 TTAAATAACA
*
35871830 TTTTTTGGCCAAGCATTAGATTATTTATTAAATAAGTTTTTTTTTGGT
1 TTTTTTGGCCAAGCATTAGATTATTTATTAAATAAATTTTTTTTTGGT
* * **
35871878 TTTTGTTGGCCAAGCATT-GCATTGTTTGTTGTATAAATTTTTTTTT
1 TTTT-TTGGCCAAGCATTAG-ATTATTTATTAAATAAATTTTTTTTT
35871924 AATATCTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 5 0.13
49 34 0.87
ACGTcount: A:0.21, C:0.07, G:0.16, T:0.55
Consensus pattern (48 bp):
TTTTTTGGCCAAGCATTAGATTATTTATTAAATAAATTTTTTTTTGGT
Found at i:35876941 original size:3 final size:3
Alignment explanation
Indices: 35876859--35876923 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
35876849 ATTAGTGAAT
35876859 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35876907 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
35876924 TTTACGTTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35878719 original size:39 final size:39
Alignment explanation
Indices: 35878674--35878801 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
35878664 CATGGTCTGG
* * *
35878674 CACACGGCCTGACACACACTCATGTGACTCACAAGCTCT
1 CACACGGCCTGTCACACACTCGTGTGACTCACAAGCCCT
* * **
35878713 TACACGGCCTGTCACACACTTGTGTGACTTGCAAGCCCT
1 CACACGGCCTGTCACACACTCGTGTGACTCACAAGCCCT
*
35878752 CACACGGCCTGTCACACACTCGTGTGACTCACTAGCCCT
1 CACACGGCCTGTCACACACTCGTGTGACTCACAAGCCCT
*
35878791 CACATGGCCTG
1 CACACGGCCTG
35878802 GGCATACGCC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.21
Consensus pattern (39 bp):
CACACGGCCTGTCACACACTCGTGTGACTCACAAGCCCT
Found at i:35880546 original size:48 final size:48
Alignment explanation
Indices: 35880474--35880568 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
35880464 CAGTATATGT
* * *
35880474 GATACATTGAGTTGGCTTCAGGCCACGATATTGTCACTTCGGGTGCGA
1 GATACATTGAGTTAGCTTCAGGCCACGATATTGGCACTTCAGGTGCGA
* ** *
35880522 GATACATTGATTTAGCTTTGGGCCATGATATTGGCACTTCAGGTGCG
1 GATACATTGAGTTAGCTTCAGGCCACGATATTGGCACTTCAGGTGCG
35880569 GGATTCTCGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (48 bp):
GATACATTGAGTTAGCTTCAGGCCACGATATTGGCACTTCAGGTGCGA
Found at i:35883308 original size:19 final size:21
Alignment explanation
Indices: 35883284--35883334 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
35883274 TGATATTTGT
**
35883284 TGATTAATTAA-G-GAAATTA
1 TGATTAATTAAGGTGAAAACA
35883303 TGATTAATTAAGGTGAAAACA
1 TGATTAATTAAGGTGAAAACA
35883324 TGATTAATTAA
1 TGATTAATTAA
35883335 ACTAATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.39
20 1 0.04
21 16 0.57
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (21 bp):
TGATTAATTAAGGTGAAAACA
Found at i:35892947 original size:18 final size:19
Alignment explanation
Indices: 35892926--35892961 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35892916 AAAATTAAAA
*
35892926 AGAAAAT-ATGTAAAAATT
1 AGAAAATAATGAAAAAATT
35892944 AGAAAATAATGAAAAAAT
1 AGAAAATAATGAAAAAAT
35892962 ATTTTTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (19 bp):
AGAAAATAATGAAAAAATT
Found at i:35896631 original size:46 final size:44
Alignment explanation
Indices: 35896545--35896652 Score: 146
Period size: 46 Copynumber: 2.4 Consensus size: 44
35896535 ATCGAAGCCT
*
35896545 TGTCCCAGACATGGTCATTCACTGACACATCTTGTAGCCGATGCA
1 TGTCCCAGACAT-GTCTTTCACTGACACATCTTGTAGCCGATGCA
* *
35896590 TGTCCCAGATATGTCTTTCACTGGCTTACATCTTG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTTCACTGAC--ACATCTTGTA-GCCGATGCA
35896636 TGTCCCAGACATGTCTT
1 TGTCCCAGACATGTCTT
35896653 ACATTAGCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.20
45 12 0.21
46 33 0.59
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTTCACTGACACATCTTGTAGCCGATGCA
Found at i:35904029 original size:19 final size:20
Alignment explanation
Indices: 35903992--35904035 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
35903982 GAAAAACTAG
*
35903992 AAAATTATTAAAAACATTA-
1 AAAATTATGAAAAACATTAT
35904011 AAAATTATGAACAAA-ATTAT
1 AAAATTATGAA-AAACATTAT
35904031 AAAAT
1 AAAAT
35904036 CCAATATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATTATGAAAAACATTAT
Found at i:35906350 original size:42 final size:42
Alignment explanation
Indices: 35906297--35906439 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 42
35906287 CTAAGTTTAT
* *
35906297 GTGTAAAACCATATCTGGGATATGGCATC-AGTATGATACTTC
1 GTGTAAAACCATATCTGGAATATGGCATCGA-TATGAGACTTC
* * *
35906339 GTGTAAGACCATATTTGGAATATGGCATCGATATGAGATTTC
1 GTGTAAAACCATATCTGGAATATGGCATCGATATGAGACTTC
* * ** * *
35906381 GTGTAATACCGTAGT-TGGGCTATTGGTATTGATATGAGA-TTAC
1 GTGTAAAACCATA-TCTGGAATA-TGGCATCGATATGAGACTT-C
*
35906424 ATGTAAAACCATATCT
1 GTGTAAAACCATATCT
35906440 AAGATATGCC
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 54 0.66
43 28 0.34
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (42 bp):
GTGTAAAACCATATCTGGAATATGGCATCGATATGAGACTTC
Found at i:35910774 original size:42 final size:41
Alignment explanation
Indices: 35910714--35910862 Score: 187
Period size: 42 Copynumber: 3.5 Consensus size: 41
35910704 TAAGTTTATG
35910714 TGTAAGACCATATCTGGGATATGGCATC-AGTATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGA-TTCA
* *
35910756 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCA
*
35910798 TGTAAGACCATAGT-T-GGACTATTGGTATCGATATGAGATTACA
1 TGTAAGACCATA-TCTGGGA-TA-TGGCATCGATATGAGATT-CA
35910841 TGTAAGACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGATAT
35910863 ACCATTGGTA
Statistics
Matches: 95, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
41 3 0.03
42 56 0.59
43 33 0.35
44 3 0.03
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
Found at i:35912402 original size:12 final size:13
Alignment explanation
Indices: 35912373--35912405 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35912363 GAAGCACGTG
*
35912373 TAAAACATATCTT
1 TAAAACATAGCTT
35912386 TAAAACATAGC-T
1 TAAAACATAGCTT
35912398 TAAAACAT
1 TAAAACAT
35912406 GACTTGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAAACATAGCTT
Found at i:35915344 original size:43 final size:44
Alignment explanation
Indices: 35915283--35915367 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
35915273 TAGCATAACC
* * *
35915283 TGTAACACCGCTCACCCGT-ATTCAACACCGGA-TAGGGTTACAG
1 TGTAACACCCCTAACCCGTAATT-AACACCAGATTAGGGTTACAG
*
35915326 TGTAACACCCCTAACCCGTAATTAACATCAGATTAGGGTTAC
1 TGTAACACCCCTAACCCGTAATTAACACCAGATTAGGGTTAC
35915368 GAGGCATTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 24 0.67
44 12 0.33
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (44 bp):
TGTAACACCCCTAACCCGTAATTAACACCAGATTAGGGTTACAG
Found at i:35917156 original size:12 final size:12
Alignment explanation
Indices: 35917141--35917174 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
35917131 GTGAATAAAG
35917141 AAGATAAATGGA
1 AAGATAAATGGA
35917153 AAGAT-AATGGA
1 AAGATAAATGGA
35917164 AAGATAGAATG
1 AAGATA-AATG
35917175 TGGCGTGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:35919774 original size:69 final size:69
Alignment explanation
Indices: 35919688--35919825 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
35919678 CTTTAAAGTT
35919688 TGAAAAGCCTTTTCCTGAACTTCT-TCCCATTTAAAACCCACAGATTTTTTAATAATATCAGTTA
1 TGAAAAGCCTTTTCCTGAACTTCTCT-CCATTTAAAACCCACAGATTTTTTAATAATATCAGTTA
35919752 ATGGA
65 ATGGA
* *
35919757 TGAAAAGCCTTTTCCTGAACTTCTCTCCATTTAAAACCCACATATTTTTTAATAATCTCAGTTAA
1 TGAAAAGCCTTTTCCTGAACTTCTCTCCATTTAAAACCCACAGATTTTTTAATAATATCAGTTAA
35919822 TGGA
66 TGGA
35919826 GCAGTAATAG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 65 0.98
70 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (69 bp):
TGAAAAGCCTTTTCCTGAACTTCTCTCCATTTAAAACCCACAGATTTTTTAATAATATCAGTTAA
TGGA
Found at i:35923712 original size:12 final size:12
Alignment explanation
Indices: 35923697--35923725 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
35923687 GTGAATAAAG
35923697 AAGATAAATGGA
1 AAGATAAATGGA
35923709 AAGAT-AATGGA
1 AAGATAAATGGA
35923720 AAGATA
1 AAGATA
35923726 GAACGTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:35935738 original size:35 final size:35
Alignment explanation
Indices: 35935699--35935769 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
35935689 TTAAAAAGAC
* *
35935699 TTAATTGTATAAATTGAGTATTTATGAGGTTTAAA
1 TTAATTGTATAAATTGAGTATTTATAAAGTTTAAA
35935734 TTAATTGTATAAATTGAGTATTTATAAAGTTTAAA
1 TTAATTGTATAAATTGAGTATTTATAAAGTTTAAA
35935769 T
1 T
35935770 GGATTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (35 bp):
TTAATTGTATAAATTGAGTATTTATAAAGTTTAAA
Found at i:35936906 original size:124 final size:124
Alignment explanation
Indices: 35936758--35937003 Score: 483
Period size: 124 Copynumber: 2.0 Consensus size: 124
35936748 AAGTTTGATC
35936758 TTTTGGTCATATATAGTATAGCTCATATTGCTTTGGTATTTAATGGTTAAATGGATGAATTGATG
1 TTTTGGTCATATATAGTATAGCTCATATTGCTTTGGTATTTAATGGTTAAATGGATGAATTGATG
*
35936823 AGTGAAATTGTGATAGATGAATGTGATTTTGTTTAGGTGTTTGAATTGTGGTGTCAACG
66 AGTGAAATCGTGATAGATGAATGTGATTTTGTTTAGGTGTTTGAATTGTGGTGTCAACG
35936882 TTTTGGTCATATATAGTATAGCTCATATTGCTTTGGTATTTAATGGTTAAATGGATGAATTGATG
1 TTTTGGTCATATATAGTATAGCTCATATTGCTTTGGTATTTAATGGTTAAATGGATGAATTGATG
35936947 AGTGAAATCGTGATAGATGAATGTGATTTTGTTTAGGTGTTTGAATTGTGGTGTCAA
66 AGTGAAATCGTGATAGATGAATGTGATTTTGTTTAGGTGTTTGAATTGTGGTGTCAA
35937004 TGAGGGCACA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.43
Consensus pattern (124 bp):
TTTTGGTCATATATAGTATAGCTCATATTGCTTTGGTATTTAATGGTTAAATGGATGAATTGATG
AGTGAAATCGTGATAGATGAATGTGATTTTGTTTAGGTGTTTGAATTGTGGTGTCAACG
Found at i:35941395 original size:16 final size:17
Alignment explanation
Indices: 35941369--35941411 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
35941359 TAAAATTTTA
35941369 AAATT-ATTTTATG-TT
1 AAATTAATTTTATGTTT
*
35941384 ATATTAATTTTATGTTT
1 AAATTAATTTTATGTTT
35941401 AAATTAATTTT
1 AAATTAATTTT
35941412 GACTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 8 0.33
17 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
AAATTAATTTTATGTTT
Found at i:35942901 original size:177 final size:176
Alignment explanation
Indices: 35942703--35943146 Score: 438
Period size: 178 Copynumber: 2.5 Consensus size: 176
35942693 ATTTTTTATA
*** * * * *
35942703 ATTATATAAGAATGATTAAATTTCAATTTT-AATCACTATATTTTGTTTAAATTTTATATTCAGT
1 ATTATATAAGAATGATTAAATTTCAATTTTGAATC-CTATATTTCACTCAAATTTGAGATTCAAT
* * * *
35942767 TTCTACACTTTAATTTTTACATAATTTAGACATCC-GCCCATTC-TTTTTT-CTTTTCTTTTGAC
65 CTCTACACTTT-ATTTTGACATAATTTAGA-A-CCTGACCATTCTTTTTTTCCTTTTCTTTTCAC
* * **
35942829 ATGAAAAAAATAATGGTTAAATTTCAGTTCTAATCCCTCTACCTTCTCAAG
127 ATG-AAAAAATAATGGCTAAATTTCAGTTCTAATCACAATACCTTCTCAAG
* * * * * * *
35942880 ATTATATAAGAACGGTTAAATTTTAGTTTTGAGTCTTATATTTCACTCAAATTTGAGATTTAATC
1 ATTATATAAGAATGATTAAATTTCAATTTTGAATCCTATATTTCACTCAAATTTGAGATTCAATC
* **
35942945 TCTATACTTTATTTTGACATAATTTAGAACCTGACTGTTCTTTTTTTTTCCTTTTCTTTTCACAT
66 TCTACACTTTATTTTGACATAATTTAGAACCTGACCATTC--TTTTTTTCCTTTTCTTTTCACAT
* * * * *
35943010 GAGAAAATAATGGCTAAATTTCAGTTCTAGTCACAATACTTTTTTAAG
129 GAAAAAATAATGGCTAAATTTCAGTTCTAATCACAATACCTTCTCAAG
* ** *
35943058 ATTATATAAGAATGATTAAATTTCAGTGCTG-ATCCCTATATTTCACTCAAATTTGAGATTTAAT
1 ATTATATAAGAATGATTAAATTTCAATTTTGAAT-CCTATATTTCACTCAAATTTGAGATTCAAT
*
35943122 CTCT--A--TAATTTTGACATAATTTAGA
65 CTCTACACTTTATTTTGACATAATTTAGA
35943147 TTAAAATGCT
Statistics
Matches: 222, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
174 21 0.09
175 6 0.03
176 18 0.08
177 56 0.25
178 106 0.48
179 15 0.07
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (176 bp):
ATTATATAAGAATGATTAAATTTCAATTTTGAATCCTATATTTCACTCAAATTTGAGATTCAATC
TCTACACTTTATTTTGACATAATTTAGAACCTGACCATTCTTTTTTTCCTTTTCTTTTCACATGA
AAAAATAATGGCTAAATTTCAGTTCTAATCACAATACCTTCTCAAG
Found at i:35943033 original size:178 final size:174
Alignment explanation
Indices: 35942810--35943146 Score: 462
Period size: 178 Copynumber: 1.9 Consensus size: 174
35942800 CCGCCCATTC
* * * **
35942810 TTTTTTCTTTTCTTTTGACATGAAAAAAATAATGGTTAAATTTCAGTTCTAATCCCTCTACCTTC
1 TTTTTTCTTTTCTTTTCACATGAAAAAAATAATGGCTAAATTTCAGTTCTAATCACAATACCTTC
* * ** *
35942875 TCAAGATTATATAAGAACGGTTAAATTTTAGTTTTGAGT-CTTATATTTCACTCAAATTTGAGAT
66 TCAAGATTATATAAGAACGATTAAATTTCAGTGCTGA-TCCCTATATTTCACTCAAATTTGAGAT
35942939 TTAATCTCTATACTTTATTTTGACATAATTTAGAACCTGACTGTTCTTT
130 TTAATCTCTATA----ATTTTGACATAATTTAGAACCTGACTGTTCTTT
* * *
35942988 TTTTTTCCTTTTCTTTTCACATG-AGAAAATAATGGCTAAATTTCAGTTCTAGTCACAATACTTT
1 TTTTTT-CTTTTCTTTTCACATGAAAAAAATAATGGCTAAATTTCAGTTCTAATCACAATACCTT
* * *
35943052 TTTAAGATTATATAAGAATGATTAAATTTCAGTGCTGATCCCTATATTTCACTCAAATTTGAGAT
65 CTCAAGATTATATAAGAACGATTAAATTTCAGTGCTGATCCCTATATTTCACTCAAATTTGAGAT
35943117 TTAATCTCTATAATTTTGACATAATTTAGA
130 TTAATCTCTATAATTTTGACATAATTTAGA
35943147 TTAAAATGCT
Statistics
Matches: 141, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
174 18 0.13
177 1 0.01
178 107 0.76
179 15 0.11
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (174 bp):
TTTTTTCTTTTCTTTTCACATGAAAAAAATAATGGCTAAATTTCAGTTCTAATCACAATACCTTC
TCAAGATTATATAAGAACGATTAAATTTCAGTGCTGATCCCTATATTTCACTCAAATTTGAGATT
TAATCTCTATAATTTTGACATAATTTAGAACCTGACTGTTCTTT
Found at i:35945755 original size:17 final size:17
Alignment explanation
Indices: 35945733--35945778 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
35945723 TGTGTTATAG
*
35945733 TAATTTTGGGTTTAAAT
1 TAATTTTGAGTTTAAAT
*
35945750 TAATTTTGACTTTAAAT
1 TAATTTTGAGTTTAAAT
35945767 T-ATTTTGAGTTT
1 TAATTTTGAGTTT
35945779 GTGTCACCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (17 bp):
TAATTTTGAGTTTAAAT
Found at i:35947082 original size:177 final size:176
Alignment explanation
Indices: 35946791--35947120 Score: 444
Period size: 177 Copynumber: 1.9 Consensus size: 176
35946781 ATATTCAGTT
* * * *
35946791 TCTACACTTTAATTTTTACATAATTTAGACATCTGCCCGTTCTTTTTTCTTTTCTTTTGACATGA
1 TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTCTTTTTTCTTTTCTTTTGACATGA
* * *** *
35946856 AAAAATAATGGTTAAATTTCAGTTCTAACCCCTCTACCTTCTCAAGATTATATAAGAACGGTTAA
66 AAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTAA
* *
35946921 ATTTTAGTTTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
131 ATTTCAGTGTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
* * *
35946967 TCTATACTTTTATTTTGACATAATTTAGACACCTGACTATTCTTTTTTTCTTTTCTTTTGACATG
1 TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTC-TTTTTTCTTTTCTTTTGACATG
* * ** * * *
35947032 AGAAAATAATGGCTAAATTTCAGGTCTAATCCAAATATTTTTTTAAGATTATATAAGAATGATTA
65 AAAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTA
*
35947097 AATTTCAGTGTTGATCCCTATATT
130 AATTTCAGTGTTGAGCCCTATATT
35947121 CCAGTTGAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
176 35 0.27
177 95 0.73
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (176 bp):
TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTCTTTTTTCTTTTCTTTTGACATGA
AAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTAA
ATTTCAGTGTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
Found at i:35949126 original size:43 final size:43
Alignment explanation
Indices: 35949042--35949127 Score: 165
Period size: 42 Copynumber: 2.0 Consensus size: 43
35949032 TTGCTCAAAT
35949042 AAAGATTTTCTTTTACCTATTTTAACTCGATTTATACAAAAAA
1 AAAGATTTTCTTTTACCTATTTTAACTCGATTTATACAAAAAA
35949085 AAAGATTTT-TTTTACCTATTTTAACTCGATTTATACAAAAAA
1 AAAGATTTTCTTTTACCTATTTTAACTCGATTTATACAAAAAA
35949127 A
1 A
35949128 TTAAGTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 34 0.79
43 9 0.21
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.42
Consensus pattern (43 bp):
AAAGATTTTCTTTTACCTATTTTAACTCGATTTATACAAAAAA
Found at i:35950763 original size:20 final size:20
Alignment explanation
Indices: 35950734--35950784 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
35950724 AAATATATAT
* *
35950734 AAATACATAAAT-ATTTTCAA
1 AAATATATAAATAAATTT-AA
35950754 AAATATAT-AATAAATTTAA
1 AAATATATAAATAAATTTAA
*
35950773 ATATATATAAAT
1 AAATATATAAAT
35950785 TATAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATAAATAAATTTAA
Found at i:35950784 original size:16 final size:17
Alignment explanation
Indices: 35950754--35950799 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
35950744 ATATTTTCAA
35950754 AAATATATAATAAATT-T
1 AAATATAT-ATAAATTAT
35950771 AAATATATATAAATTAT
1 AAATATATATAAATTAT
*
35950788 AAAAAT-TATAAA
1 AAATATATATAAA
35950800 GATAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATATATAAATTAT
Found at i:35950808 original size:26 final size:26
Alignment explanation
Indices: 35950754--35950819 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
35950744 ATATTTTCAA
* *
35950754 AAATATATAATAAATT-TAAATATATAT
1 AAAT-TATAA-AAATTATAAAGATAAAT
35950781 AAATTATAAAAATTATAAAGATAAAT
1 AAATTATAAAAATTATAAAGATAAAT
35950807 AAA-TA-AAAAATTA
1 AAATTATAAAAATTA
35950820 AAAAACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 8 0.22
25 7 0.19
26 17 0.47
27 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATTATAAAAATTATAAAGATAAAT
Found at i:35950877 original size:16 final size:16
Alignment explanation
Indices: 35950856--35950889 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35950846 TTTTTCCTTC
*
35950856 TCTTTTCTTCTTTTTT
1 TCTTTTATTCTTTTTT
*
35950872 TCTTTTATTTTTTTTT
1 TCTTTTATTCTTTTTT
35950888 TC
1 TC
35950890 CTAATTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TCTTTTATTCTTTTTT
Found at i:35958639 original size:48 final size:48
Alignment explanation
Indices: 35958541--35958649 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
35958531 TGATGTCAAT
* * *
35958541 GCCATGTCTCAAACATGATCTTACATGGGATCACATAATGATGCCAAA
1 GCCATATCTCAGACATGATCTTACATGGGATCACATAATCATGCCAAA
* * * * *
35958589 GCCTTATCTCAGACATGGTTTTACATGGGATCACAT-GTCACTGCCGAA
1 GCCATATCTCAGACATGATCTTACATGGGATCACATAATCA-TGCCAAA
*
35958637 GCCATATCCCAGA
1 GCCATATCTCAGA
35958650 TATAGTCTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.04
48 48 0.96
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCATATCTCAGACATGATCTTACATGGGATCACATAATCATGCCAAA
Found at i:35972708 original size:43 final size:43
Alignment explanation
Indices: 35972624--35972708 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
35972614 TGAAGTGATA
* *
35972624 TTATTGTGTTTTGCATGCTTTTGTATATATTATTGTGATTTTT
1 TTATTGTGATTTGCATGCTTTTGTATATATTATTGTCATTTTT
*
35972667 TTATTGTGATTTGCATGTTTTTGTATTATACTTA-TG-CATTTT
1 TTATTGTGATTTGCATGCTTTTGTA-TATA-TTATTGTCATTTT
35972709 GTTAATGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 28 0.76
44 6 0.16
45 3 0.08
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (43 bp):
TTATTGTGATTTGCATGCTTTTGTATATATTATTGTCATTTTT
Found at i:35977655 original size:22 final size:21
Alignment explanation
Indices: 35977567--35977705 Score: 89
Period size: 22 Copynumber: 6.1 Consensus size: 21
35977557 CCTAAGCTGA
* **
35977567 TGAATAGTAAGCTCATTTGAGC
1 TGAACAGTAAGCTC-TACGAGC
* * *
35977589 TGAAACGGTAAGCTCTATCCAGG
1 TG-AACAGTAAGCTCTA-CGAGC
*
35977612 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTA-CGAGC
35977634 TGAACAGTAAGCTCATACGAGC
1 TGAACAGTAAGCTC-TACGAGC
* * *
35977656 TAAAACGGTAAGCTCTAATGAGC
1 T-GAACAGTAAGCTCT-ACGAGC
*
35977679 TAAAAACAGTAAGCTCTTACGAGC
1 T--GAACAGTAAGCTC-TACGAGC
35977703 TGA
1 TGA
35977706 TATATCAATA
Statistics
Matches: 93, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
22 40 0.43
23 33 0.35
24 19 0.20
25 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (21 bp):
TGAACAGTAAGCTCTACGAGC
Found at i:35977702 original size:24 final size:23
Alignment explanation
Indices: 35977614--35977703 Score: 94
Period size: 24 Copynumber: 3.9 Consensus size: 23
35977604 TATCCAGGTG
* *
35977614 AACAGTAAGCTC-TATTGAGCT-G
1 AACAGTAAGCTCTTA-CGAGCTAA
*
35977636 AACAGTAAGCTCATACGAGCTAA
1 AACAGTAAGCTCTTACGAGCTAA
* * *
35977659 AACGGTAAGCTCTAATGAGCTAAA
1 AACAGTAAGCTCTTACGAGCT-AA
35977683 AACAGTAAGCTCTTACGAGCT
1 AACAGTAAGCTCTTACGAGCT
35977704 GATATATCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 17 0.30
23 19 0.34
24 20 0.36
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTTACGAGCTAA
Found at i:35978339 original size:21 final size:21
Alignment explanation
Indices: 35978315--35978360 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35978305 AATCACTTTG
*
35978315 TAAAACTTGTAT-ATCTATCAT
1 TAAAACTT-TATAATCTATCAA
*
35978336 TAAACCTTTATAATCTATCAA
1 TAAAACTTTATAATCTATCAA
35978357 TAAA
1 TAAA
35978361 CATTTAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAACTTTATAATCTATCAA
Found at i:35978361 original size:21 final size:21
Alignment explanation
Indices: 35978327--35978366 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35978317 AAACTTGTAT
* *
35978327 ATCTATCATTAAACCTTTATA
1 ATCTATCAATAAACATTTATA
35978348 ATCTATCAATAAACATTTA
1 ATCTATCAATAAACATTTA
35978367 AGAACTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCTATCAATAAACATTTATA
Found at i:35986145 original size:16 final size:16
Alignment explanation
Indices: 35986124--35986157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35986114 CCAATATCCA
* *
35986124 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
35986140 ATTATCACATTTACAC
1 ATTATCACATTTACAC
35986156 AT
1 AT
35986158 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:35988909 original size:13 final size:13
Alignment explanation
Indices: 35988891--35988916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35988881 GACAAATAAA
35988891 ATATAATAAATTT
1 ATATAATAAATTT
35988904 ATATAATAAATTT
1 ATATAATAAATTT
35988917 GAACCCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATAATAAATTT
Found at i:35990877 original size:40 final size:40
Alignment explanation
Indices: 35990812--35990888 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
35990802 GTACTCTATG
* * *
35990812 GTGTGTAGGGTTGGATGGGTTGATTTTATCCCCACATTTT
1 GTGTGTAGGGATGGATGGATCGATTTTATCCCCACATTTT
* *
35990852 GTGTGTAGGGATGGGTGGATCGATTTTATCCCTACAT
1 GTGTGTAGGGATGGATGGATCGATTTTATCCCCACAT
35990889 GGTGTGTTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.17, C:0.13, G:0.31, T:0.39
Consensus pattern (40 bp):
GTGTGTAGGGATGGATGGATCGATTTTATCCCCACATTTT
Found at i:35995979 original size:13 final size:13
Alignment explanation
Indices: 35995961--35995985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35995951 TAAATATTTT
35995961 TAAAAATAAAAAA
1 TAAAAATAAAAAA
35995974 TAAAAATAAAAA
1 TAAAAATAAAAA
35995986 TTATTATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:35996526 original size:15 final size:13
Alignment explanation
Indices: 35996496--35996521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35996486 CAGTACTTAG
35996496 AGTGGATTGCATT
1 AGTGGATTGCATT
35996509 AGTGGATTGCATT
1 AGTGGATTGCATT
35996522 TTAGTCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
AGTGGATTGCATT
Found at i:36002508 original size:27 final size:26
Alignment explanation
Indices: 36002491--36002560 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
36002481 ATATTAAGTC
36002491 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
36002518 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
36002546 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
36002561 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:36002554 original size:28 final size:28
Alignment explanation
Indices: 36002491--36002588 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
36002481 ATATTAAGTC
*
36002491 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
36002518 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
36002546 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
36002575 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36002589 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:36003046 original size:2 final size:2
Alignment explanation
Indices: 36003039--36003068 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36003029 CATACTTATG
*
36003039 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36003069 CTTCGGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36008069 original size:40 final size:40
Alignment explanation
Indices: 36008023--36008147 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 40
36008013 TCGTTGGTAT
*
36008023 ATCCGACTAGAGTTGGGTTCACATTCAATACTATCGGCTA
1 ATCCGACTAGAGTTGGGTTCACATTCAATACTATCGGTTA
* * *
36008063 ATCCGACTAGCA-TTGGGTGTGA-A-T--AT-C-ATTGGTTT
1 ATCCGACTAG-AGTTGGGT-TCACATTCAATACTATCGGTTA
* * * *
36008098 ATCCAACTAGAGCTGGGCTCACATTCAATAATATCGGTTA
1 ATCCGACTAGAGTTGGGTTCACATTCAATACTATCGGTTA
36008138 ATCCGACTAG
1 ATCCGACTAG
36008148 CACTGGGTGC
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
34 3 0.05
35 19 0.30
36 2 0.03
37 2 0.03
38 2 0.03
39 1 0.02
40 32 0.50
41 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
ATCCGACTAGAGTTGGGTTCACATTCAATACTATCGGTTA
Found at i:36008199 original size:75 final size:75
Alignment explanation
Indices: 36007906--36008233 Score: 342
Period size: 75 Copynumber: 4.4 Consensus size: 75
36007896 CACACAACTG
* ** * * * ** *
36007906 TCGGTTTATCCGACTAGTGCTGGATGCAATTATCATTGGTTTATCTGACTAGCGCTGGGCTCACA
1 TCGGTTAATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCAC-
*
36007971 ATT--ATAATCG
65 ATTCAATAAT-A
* * * * * *
36007981 TTGG-TATACCCGACTAGCACTGGGTGCAAATATCGTTGGTATATCCGACTAGAGTTGGGTTCAC
1 TCGGTTA-ATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCAC
*
36008045 ATTCAATACTA
65 ATTCAATAATA
* * ** *
36008056 TCGGCTAATCCGACTAGCATTGGGTGTGAATATCATTGGTTTATCCAACTAGAGCTGGGCTCACA
1 TCGGTTAATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
36008121 TTCAATAATA
66 TTCAATAATA
* *
36008131 TCGGTTAATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAATTAGAGCTGGGCTCATA
1 TCGGTTAATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
*
36008196 TTCAA-AACTG
66 TTCAATAA-TA
* *
36008206 TCAGTTAATCCG-CTAGCGCTGGGTGCAA
1 TCGGTTAATCCGACTAGCACTGGGTGCAA
36008234 TCTCTTTTAC
Statistics
Matches: 212, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
74 21 0.10
75 185 0.87
76 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (75 bp):
TCGGTTAATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
TTCAATAATA
Found at i:36010513 original size:47 final size:45
Alignment explanation
Indices: 36010313--36010584 Score: 219
Period size: 47 Copynumber: 5.8 Consensus size: 45
36010303 TGGAATAAGT
* * *
36010313 TGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTC--ATCT-TG
* *
36010363 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCAC-AACTCTT-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCA-TCTTG
* ** * *
36010407 AGCCGATGTGTGTCCCAGACACGTCTTACACTGGCTA-TCATCGTTG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGC-ACTCATC-TTG
* * * * *
36010453 AGGCTGATGCATGTCCTAGACATGTCTTACACTGGCACTCGTCTCTG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCT-TG
* **
36010500 TGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTTG
*
36010547 TGGCC-ATTGCATGTCCCAGACATGTCTTACACTGGCAC
1 T-GCCGA-TGCATGTCCCAGACATGTCTTACACTAGCAC
36010585 ACAAGAAATT
Statistics
Matches: 181, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
44 31 0.17
45 6 0.03
46 23 0.13
47 66 0.36
48 34 0.19
49 14 0.08
50 7 0.04
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTG
Found at i:36010559 original size:94 final size:92
Alignment explanation
Indices: 36010312--36010585 Score: 299
Period size: 94 Copynumber: 2.9 Consensus size: 92
36010302 ATGGAATAAG
*
36010312 TTGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATATGT-GCTGATGCATGT
1 TTGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACTC--ATA-ATGTGGCTGATGCATGT
*
36010376 CCCAGACATGTCTTACACTAGCACAACTCT
63 CCCAGACATGTCTTACACTGGCACAACTCT
* ** * * * ** *
36010406 TAGCCGATG-TGTGTCCCAGACA-CGTCTTACACTGGCTA-TCATCGTTGAGGCTGATGCATGTC
1 TTGCCGATGCCATGTCCCAGACATGGTCTTATACTAGC-ACTCAT-AATGTGGCTGATGCATGTC
* *
36010468 CTAGACATGTCTTACACTGGCAC-TCGTCT
64 CCAGACATGTCTTACACTGGCACAAC-TCT
*
36010497 CTGTGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAATGTGGC-CATTGCATGT
1 -T-TGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAATGTGGCTGA-TGCATGT
36010561 CCCAGACATGTCTTACACTGGCACA
63 CCCAGACATGTCTTACACTGGCACA
36010586 CAAGAAATTT
Statistics
Matches: 145, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
90 5 0.03
91 37 0.26
92 14 0.10
93 19 0.13
94 55 0.38
95 15 0.10
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
TTGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAATGTGGCTGATGCATGTCCC
AGACATGTCTTACACTGGCACAACTCT
Found at i:36012893 original size:27 final size:27
Alignment explanation
Indices: 36012855--36012908 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36012845 GAAGGTCCTT
36012855 GTAGTTGGAAAAATATAAAAAATCAGC
1 GTAGTTGGAAAAATATAAAAAATCAGC
36012882 GTAGTTGGAAAAATATAAAAAATCAGC
1 GTAGTTGGAAAAATATAAAAAATCAGC
36012909 CCACCAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (27 bp):
GTAGTTGGAAAAATATAAAAAATCAGC
Found at i:36020332 original size:48 final size:48
Alignment explanation
Indices: 36020123--36020328 Score: 295
Period size: 48 Copynumber: 4.2 Consensus size: 48
36020113 NNNNNNNNNN
* *
36020123 TATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATG
36020173 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACATGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-A-A--TGTGAAATATG
* *
36020225 TATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
36020273 TATGAGATGTGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
36020321 TAGGAGAT
1 TATGAGAT
36020329 GTGTGTATAT
Statistics
Matches: 143, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
48 62 0.43
50 34 0.24
51 2 0.01
52 39 0.27
53 2 0.01
54 4 0.03
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:36020520 original size:37 final size:37
Alignment explanation
Indices: 36020470--36020541 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
36020460 GAAATATATT
**
36020470 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATAACTACGTGTGGAGATTATGC
*
36020507 CCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATAACTACGTGTGGAGATTAT
36020542 TCGAGCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATAACTACGTGTGGAGATTATGC
Found at i:36030273 original size:24 final size:24
Alignment explanation
Indices: 36030236--36030284 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36030226 TGGAAAGGCT
* *
36030236 AGAGCAGCTTCAAAAAGAAATGCA
1 AGAGCAACTGCAAAAAGAAATGCA
* *
36030260 AGAGCAACTGCAAACATAAATGCA
1 AGAGCAACTGCAAAAAGAAATGCA
36030284 A
1 A
36030285 CAACAATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.12
Consensus pattern (24 bp):
AGAGCAACTGCAAAAAGAAATGCA
Found at i:36032251 original size:25 final size:25
Alignment explanation
Indices: 36032219--36032267 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
36032209 AATCCTTCTG
36032219 TGAAATAGGCTATGTCCAAAATCTC
1 TGAAATAGGCTATGTCCAAAATCTC
36032244 TGAAATAGGCTATGTCCAAAATCT
1 TGAAATAGGCTATGTCCAAAATCT
36032268 TTTTTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (25 bp):
TGAAATAGGCTATGTCCAAAATCTC
Found at i:36034174 original size:27 final size:26
Alignment explanation
Indices: 36034144--36034226 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 26
36034134 TTTGCTCCTA
36034144 ATCAATTTACTTCTTATTACATTTGCT
1 ATCAATTTACTTCTTATT-CATTTGCT
* *
36034171 ATC-ATTGA-TTAACTTATTCATTT-CG
1 ATCAATTTACTT--CTTATTCATTTGCT
* *
36034196 AGTTAATTTCCTTCTTATTGCATTTGCT
1 A-TCAATTTACTTCTTATT-CATTTGCT
36034224 ATC
1 ATC
36034227 TTTGATTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
25 4 0.10
26 16 0.38
27 18 0.43
28 4 0.10
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (26 bp):
ATCAATTTACTTCTTATTCATTTGCT
Found at i:36034232 original size:53 final size:53
Alignment explanation
Indices: 36034147--36034250 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
36034137 GCTCCTAATC
36034147 AATTTACTTCTTATTACATTTGCTATCATTGATTAACTTATTCATTTCGAGTT
1 AATTTACTTCTTATTACATTTGCTATCATTGATTAACTTATTCATTTCGAGTT
* * * *
36034200 AATTTCCTTCTTATTGCATTTGCTATCTTTGATTAATTTATTCATTTCGAG
1 AATTTACTTCTTATTACATTTGCTATCATTGATTAACTTATTCATTTCGAG
36034251 CTATGCTCCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (53 bp):
AATTTACTTCTTATTACATTTGCTATCATTGATTAACTTATTCATTTCGAGTT
Found at i:36035856 original size:40 final size:40
Alignment explanation
Indices: 36035812--36036075 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
36035802 GCTCCTCGTT
* *
36035812 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
36035852 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
36035892 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
36035932 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36035972 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
36036011 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
36036052 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36036076 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36049492 original size:46 final size:46
Alignment explanation
Indices: 36049391--36049529 Score: 190
Period size: 46 Copynumber: 3.0 Consensus size: 46
36049381 ATTGCATTGG
* * *
36049391 GATACAAATCCTATACCCCTGAGTTACAATTAGAATGGATTGAAGAA
1 GATACAAATCCTATACCCCTGAGTTAC-AGTAGGATGGACTGAAGAA
* *
36049438 GATACAAATCCTATACCCCTGAGTTACAGTGGGATGGACTGAAGAT
1 GATACAAATCCTATACCCCTGAGTTACAGTAGGATGGACTGAAGAA
* *
36049484 GATACAAATCCTATACCCTTGAGTTGCAGTAGGATGGA-TGGAAGAA
1 GATACAAATCCTATACCCCTGAGTTACAGTAGGATGGACT-GAAGAA
36049530 ACTAAATTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 54 0.66
47 27 0.33
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (46 bp):
GATACAAATCCTATACCCCTGAGTTACAGTAGGATGGACTGAAGAA
Found at i:36050159 original size:143 final size:139
Alignment explanation
Indices: 36049895--36050293 Score: 412
Period size: 143 Copynumber: 2.8 Consensus size: 139
36049885 CATCTCCCTG
* * * *
36049895 AAGTTGCAGTGAAGTAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTATAGTAGAGCAGACTG
1 AAGTTGCAGTGGAGTAGATTGAAGCCACC-AGCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTG
* * * ** * * * *
36049960 AAGACAACGAACCTTAATTCCCCGACGTTGCAGCAGAATAGATTAAAGCCACAAATTATGGCGGA
65 AAGAC-A-GAATCTT-ATTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAA
36050025 TCTTATCTT-TCTA
127 TCTTATCTTCT-TA
*
36050038 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTTAATCTCCCTGAAGTTGTAGCAGAGCAGACTG
1 AAGTTGCAGTGGAGTAGATTGAAGCCACCAGCTT-ATCTCCCTGAAGTTGTAGCAGAGCAGACTG
* * * * *
36050103 AAGACAGTGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTATAAATTTTGGCTAA
65 AAGACA--GAATCTTAT-TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAA
*
36050168 TCTTATCTTCTTG
127 TCTTATCTTCTTA
* * * * * *
36050181 AAGCTGCAGTAGAGTAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACT-
1 AAGTTGCAGTGGAGTAGATTGAAGCCACCAG-CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTG
* *
36050245 -AG-C-GAATCTTATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTACAA
65 AAGACAGAATCTTA-TTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAA
36050294 GTCGCAAACC
Statistics
Matches: 217, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
137 39 0.18
138 1 0.00
140 1 0.00
141 2 0.01
142 7 0.03
143 163 0.75
144 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (139 bp):
AAGTTGCAGTGGAGTAGATTGAAGCCACCAGCTTATCTCCCTGAAGTTGTAGCAGAGCAGACTGA
AGACAGAATCTTATTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTT
ATCTTCTTA
Found at i:36050628 original size:179 final size:179
Alignment explanation
Indices: 36050298--36050629 Score: 434
Period size: 179 Copynumber: 1.9 Consensus size: 179
36050288 CTACAAGTCG
* *
36050298 CAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTCAAAATTACCAATTCTTACCTCCTTGAAG
1 CAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTCAAAATTACCAATTCTTACCTCCTTGAAG
* * * * ** *
36050363 TTCCAGCGGAGTAGATCGAATCTACAAATCTCTTCTCCCTGATATTACGTTGGAGTGGATCGAAG
66 TTCCAGCGGAGTAGATCGAAGCGACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAG
*
36050428 CCACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACA
131 CCACAATCCTCATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACA
* * ** ** *
36050477 CAAACTTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAATTGTCAATTCTTATCTCCTTGAAG
1 CAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTCAAAATTACCAATTCTTACCTCCTTGAAG
* * * *
36050542 TTTCAGCGGAGTAGATCGAAGCGGCAAATCTCTTTTCCCTGAAATTATATTGGAGCAGATCAAAG
66 TTCCAGCGGAGTAGATCGAAGCGACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAG
*
36050607 -CACCAATTCTCATAC-CTCTGAAG
131 CCA-CAATCCTCAT-CTCTCTGAAG
36050630 ATACAGTCGA
Statistics
Matches: 129, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
178 2 0.02
179 126 0.98
180 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (179 bp):
CAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTCAAAATTACCAATTCTTACCTCCTTGAAG
TTCCAGCGGAGTAGATCGAAGCGACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAG
CCACAATCCTCATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACA
Found at i:36050959 original size:17 final size:17
Alignment explanation
Indices: 36050937--36050978 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
36050927 CTCAAAAAGG
*
36050937 CCCAAATTAACCCTTAA
1 CCCAAATTAAACCTTAA
*
36050954 CCCAAA-CAAACCTTAA
1 CCCAAATTAAACCTTAA
*
36050970 CCCGAATTA
1 CCCAAATTA
36050979 TAACAGCCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.19
Consensus pattern (17 bp):
CCCAAATTAAACCTTAA
Found at i:36053622 original size:21 final size:21
Alignment explanation
Indices: 36053596--36053635 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36053586 TTGCAATATC
36053596 TATTTGATTGTCTAATTGAAT
1 TATTTGATTGTCTAATTGAAT
*
36053617 TATTTGATTGTCTGATTGA
1 TATTTGATTGTCTAATTGA
36053636 CTGAGAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (21 bp):
TATTTGATTGTCTAATTGAAT
Found at i:36058671 original size:9 final size:9
Alignment explanation
Indices: 36058642--36058678 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
36058632 TGAGTTTTTG
36058642 AATTCGAAT
1 AATTCGAAT
*
36058651 AACTCGAAT
1 AATTCGAAT
36058660 AATTCGAAT
1 AATTCGAAT
*
36058669 AATTTGAAT
1 AATTCGAAT
36058678 A
1 A
36058679 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36059573 original size:7 final size:7
Alignment explanation
Indices: 36059545--36059594 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
36059535 TGTCATGCAA
36059545 ATAAACAT
1 ATAAA-AT
*
36059553 AGAAAAT
1 ATAAAAT
36059560 A-ATAAAT
1 ATA-AAAT
36059567 ATAAAAT
1 ATAAAAT
36059574 ATAAAAT
1 ATAAAAT
36059581 ATAAAAT
1 ATAAAAT
36059588 ATAAAAT
1 ATAAAAT
36059595 TACATGGTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
6 1 0.03
7 33 0.85
8 5 0.13
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (7 bp):
ATAAAAT
Found at i:36060092 original size:7 final size:6
Alignment explanation
Indices: 36060076--36060232 Score: 81
Period size: 5 Copynumber: 26.5 Consensus size: 6
36060066 AAAATTATAC
*
36060076 ATAATA ATAAGTA ATAAATA ATAAT- ATAAT- ATAAT- ATATATA ACAATA
1 ATAATA ATAA-TA AT-AATA ATAATA ATAATA ATAATA ATA-ATA ATAATA
*
36060124 A-AA-A AT-ATA ATGAATA AT-ATA TATAATA A-AATG ATATATA ATAA-A
1 ATAATA ATAATA AT-AATA ATAATA -ATAATA ATAATA ATA-ATA ATAATA
36060169 ATATATAA ATAA-A AT-ATA ATAA-A AT-ATAA ATAAT- ATAATAA ATAATA
1 ATA-AT-A ATAATA ATAATA ATAATA ATAAT-A ATAATA ATAAT-A ATAATA
*
36060216 CATAAATA AAAATA ATA
1 -AT-AATA ATAATA ATA
36060233 TATATAGTAA
Statistics
Matches: 122, Mismatches: 5, Indels: 48
0.70 0.03 0.27
Matches are distributed among these distances:
4 5 0.04
5 43 0.35
6 30 0.25
7 34 0.28
8 10 0.08
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:36060092 original size:10 final size:9
Alignment explanation
Indices: 36060076--36060232 Score: 81
Period size: 9 Copynumber: 17.7 Consensus size: 9
36060066 AAAATTATAC
36060076 ATAATAATA
1 ATAATAATA
36060085 AGTAATAAATA
1 A-TAAT-AATA
36060096 ATAAT-ATA
1 ATAATAATA
36060104 AT-ATAAT-
1 ATAATAATA
*
36060111 ATATATAACA
1 ATA-ATAATA
36060121 ATAA-AA-A
1 ATAATAATA
36060128 AT-ATAATGA
1 ATAATAAT-A
36060137 ATAAT-ATA
1 ATAATAATA
36060145 TATAATAA-A
1 -ATAATAATA
*
36060154 ATGATATATA
1 ATAATA-ATA
36060164 ATAA-AATA
1 ATAATAATA
36060172 TATAAATAA-A
1 -AT-AATAATA
36060182 AT-ATAATA
1 ATAATAATA
36060190 A-AAT-ATAA
1 ATAATAAT-A
36060198 ATAAT-ATA
1 ATAATAATA
36060206 ATAAATAATA
1 AT-AATAATA
*
36060216 CATAAATAAAA
1 -AT-AATAATA
36060227 ATAATA
1 ATAATA
36060233 TATATAGTAA
Statistics
Matches: 120, Mismatches: 4, Indels: 48
0.70 0.02 0.28
Matches are distributed among these distances:
6 1 0.01
7 15 0.12
8 27 0.22
9 35 0.29
10 26 0.22
11 16 0.13
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAATAATA
Found at i:36060103 original size:29 final size:28
Alignment explanation
Indices: 36060071--36060243 Score: 106
Period size: 27 Copynumber: 6.3 Consensus size: 28
36060061 TTTTAAAAAT
36060071 TATACATAATAATAAGTAATA-AATAATAA
1 TATA-ATAATAATAA-TAATATAATAATAA
*
36060100 TATAAT-ATAAT-AT-ATATAACAATAA
1 TATAATAATAATAATAATATAATAATAA
* *
36060125 AAAATATAATGAATAATATATATAATAA-AA
1 TATA-ATAAT-AATAATA-ATATAATAATAA
36060155 TGATATATAATAA-AAT-ATATAAATAA-AA
1 T-ATA-ATAATAATAATAATAT-AATAATAA
36060183 TATAATAA-AAT-ATAA-ATAAT-ATAA
1 TATAATAATAATAATAATATAATAATAA
36060207 TA-AATAATACATAAATAA-A-AATAATATA
1 TATAATAATA-AT-AATAATATAATAATA-A
*
36060235 TATAGTAAT
1 TATAATAAT
36060244 TTGTTACATA
Statistics
Matches: 118, Mismatches: 7, Indels: 38
0.72 0.04 0.23
Matches are distributed among these distances:
23 6 0.05
24 11 0.09
25 18 0.15
26 11 0.09
27 22 0.19
28 16 0.14
29 14 0.12
30 4 0.03
31 16 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
TATAATAATAATAATAATATAATAATAA
Found at i:36060127 original size:58 final size:60
Alignment explanation
Indices: 36060087--36060238 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 60
36060077 TAATAATAAG
*
36060087 TAAT-AAATAATAATATAATATAATATATATAACAATAAAAAATATAATGAATAATATATA
1 TAATAAAATAAT-ATATAATAAAATATATATAACAATAAAAAATATAATGAATAATATATA
* *
36060147 TAATAAAATGATATATAATAAAATATATAAATAA-AATATAATAAA-AT-ATAAATAATATA-A
1 TAATAAAATAATATATAATAAAATATAT--ATAACAATA-AA-AAATATAATGAATAATATATA
* * *
36060207 TAA-ATAATACATAAATAAAAATAATATATATA
1 TAATAAAATA-ATATATAATAA-AATATATATA
36060239 GTAATTTGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
59 7 0.09
60 32 0.41
61 28 0.36
62 8 0.10
63 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (60 bp):
TAATAAAATAATATATAATAAAATATATATAACAATAAAAAATATAATGAATAATATATA
Found at i:36060163 original size:31 final size:29
Alignment explanation
Indices: 36060066--36060238 Score: 116
Period size: 28 Copynumber: 5.9 Consensus size: 29
36060056 AAATTTTTTA
*
36060066 AAAATTATACATAATAATAAGTA-ATA-AAT
1 AAAA-TATATATAATAATAA-TATATATAAT
*
36060095 AATAATATA-AT-ATAAT-ATATATAACAAT
1 AA-AATATATATAATAATAATATAT-ATAAT
36060123 AAAA-A-ATATAATGAATAATATATATAAT
1 AAAATATATATAAT-AATAATATATATAAT
36060151 AAAATGATATATAATAA-AATATATA-AAT
1 AAAAT-ATATATAATAATAATATATATAAT
*
36060179 AAAATATA-ATAA-AATATAAATAATATAAT
1 AAAATATATATAATAATA-ATAT-ATATAAT
* *
36060208 AAATAATACATAAATAAAAATAATATATATA
1 -AA-AAT--ATATATAATAATAATATATATA
36060239 GTAATTTGTT
Statistics
Matches: 120, Mismatches: 3, Indels: 38
0.75 0.02 0.24
Matches are distributed among these distances:
25 5 0.04
26 11 0.09
27 16 0.13
28 29 0.24
29 23 0.19
30 7 0.06
31 10 0.08
33 8 0.07
34 7 0.06
35 4 0.03
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAATATATATAATAATAATATATATAAT
Found at i:36060185 original size:23 final size:23
Alignment explanation
Indices: 36060159--36060232 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
36060149 ATAAAATGAT
36060159 ATATAATAAAATATATAAATAAA
1 ATATAATAAAATATATAAATAAA
36060182 ATATAAT-AAA-ATATAAAT--A
1 ATATAATAAAATATATAAATAAA
*
36060201 ATATAATAAATAATACATAAATAAA
1 ATATAAT-AA-AATATATAAATAAA
36060226 A-ATAATA
1 ATATAATA
36060233 TATATAGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
19 8 0.18
21 9 0.20
22 5 0.11
23 15 0.34
24 5 0.11
25 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (23 bp):
ATATAATAAAATATATAAATAAA
Found at i:36060210 original size:33 final size:35
Alignment explanation
Indices: 36060088--36060238 Score: 125
Period size: 37 Copynumber: 4.3 Consensus size: 35
36060078 AATAATAAGT
*
36060088 AATAA-ATAATAATATAATATAATATATATAACAATA-A
1 AATAATATAATAA-ATAATA-CATATA-ATAA-AATATA
* *
36060125 AA-AATATAATGAATAATATATATAATAAAATGATA
1 AATAATATAATAAATAATACATATAATAAAAT-ATA
* * * *
36060160 TATAATAAAATATATAAATAAAATATAATAAAATATA
1 AATAATATAATAAAT-AAT-ACATATAATAAAATATA
36060197 AATAATATAATAAATAATACATA-AATAAAA-AT-
1 AATAATATAATAAATAATACATATAATAAAATATA
36060229 AATATATATA
1 AATA-ATATA
36060239 GTAATTTGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
32 4 0.04
33 10 0.10
34 12 0.12
35 11 0.11
36 20 0.21
37 26 0.27
38 13 0.14
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (35 bp):
AATAATATAATAAATAATACATATAATAAAATATA
Found at i:36060220 original size:11 final size:11
Alignment explanation
Indices: 36060089--36060224 Score: 92
Period size: 12 Copynumber: 12.7 Consensus size: 11
36060079 ATAATAAGTA
36060089 ATAAATAATAAT
1 ATAAATAAT-AT
36060101 ATAATATAATAT
1 ATAA-ATAATAT
*
36060113 AT--ATAACA-
1 ATAAATAATAT
*
36060121 ATAAAAAATAT
1 ATAAATAATAT
*
36060132 AATGAATAATAT
1 -ATAAATAATAT
36060144 AT--AT-A-AT
1 ATAAATAATAT
*
36060151 A-AAATGATAT
1 ATAAATAATAT
*
36060161 ATAATAAAATAT
1 ATAA-ATAATAT
*
36060173 ATAAATAAAAT
1 ATAAATAATAT
*
36060184 AT-AATAAAAT
1 ATAAATAATAT
36060194 ATAAATAATAT
1 ATAAATAATAT
*
36060205 AATAAATAATAC
1 -ATAAATAATAT
36060217 ATAAATAA
1 ATAAATAA
36060225 AAATAATATA
Statistics
Matches: 100, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
7 3 0.03
8 5 0.05
9 8 0.08
10 17 0.17
11 26 0.26
12 36 0.36
13 5 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:36060311 original size:29 final size:30
Alignment explanation
Indices: 36060275--36060332 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
36060265 TTTATAGTAA
*
36060275 AAATAAATAATATTTAAAA-TATTTAAAAT
1 AAATAAATAATATATAAAATTATTTAAAAT
* *
36060304 AAATAAATTATATATAAAATTTTTTAAAA
1 AAATAAATAATATATAAAATTATTTAAAA
36060333 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAATAATATATAAAATTATTTAAAAT
Found at i:36063865 original size:37 final size:37
Alignment explanation
Indices: 36063765--36063854 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
36063755 TAACTCTTCA
* *
36063765 GAGCAATTGGCATGTTATTGGGTGGCTGAGCTCTTAT
1 GAGCAATTGGAATGTTATTGGGTGGATGAGCTCTTAT
* *
36063802 GAGCAATTGGTATGTTATCGGGTGGATGAGCTCTTAT
1 GAGCAATTGGAATGTTATTGGGTGGATGAGCTCTTAT
*
36063839 TAGCAATTGGAATGTT
1 GAGCAATTGGAATGTT
36063855 TTTGAATGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (37 bp):
GAGCAATTGGAATGTTATTGGGTGGATGAGCTCTTAT
Found at i:36071361 original size:18 final size:20
Alignment explanation
Indices: 36071324--36071364 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
36071314 TAAAAAACCT
36071324 ACAAATTAAAAAGAATTTAA
1 ACAAATTAAAAAGAATTTAA
*
36071344 ACAAA-TAAAAATAA-TTAA
1 ACAAATTAAAAAGAATTTAA
36071362 ACA
1 ACA
36071365 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.22
Consensus pattern (20 bp):
ACAAATTAAAAAGAATTTAA
Found at i:36076007 original size:210 final size:210
Alignment explanation
Indices: 36075575--36076168 Score: 724
Period size: 210 Copynumber: 2.8 Consensus size: 210
36075565 AAATCCGTTT
* * * * * * *
36075575 CTTCGATTTGTTCTCTGACAATACAAAGATAACAATTCGTCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * * *
36075640 GTGAAAGCCAAATCAGCTATGTCTTTGATTTTCTCCTTG--TAAGCACA-AG-GATGCCAA-A-C
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCGAA-TACAGAGAGAT---AAGATC
* ** *
36075699 ---CATCTTGGATCTTGCTTCAGTC-TAATCATCTGAAGGTCTGATCTGCTATGTATCTGCTCTC
127 TGTCATCTTGGATC-TGCTTCAG-CGTAAACATCTGAAGGTGAGATCTGCTATGTATCTCCTCTC
** * *
36075760 CATTGAAGTGGAGATGCTAGA
190 CATCAAAGTGGAAATGCCAGA
* * * *
36075781 CTTCGATCTATTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCCTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
36075846 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* *
36075911 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGACCTGCTATGTGTCTACCT-TCCATCA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTATCT-CCTCTCCATCA
36075975 AAGTGGAAATGCCAGA
195 AAGTGGAAATGCCAGA
* * *
36075991 CTTCGATTTGTTCTCTGACAATATAGAGGTGACAAAGCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
36076056 GTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCCTGCCGACTACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
* *
36076121 ATCTTGGATCTGCTTCAGTGTAAACATCTAAAGGTGAGATCTGCTATG
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATG
36076169 CTGCGGCTTA
Statistics
Matches: 335, Mismatches: 42, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
206 90 0.27
207 4 0.01
208 5 0.01
209 4 0.01
210 219 0.65
211 13 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTATCTCCTCTCCATCAA
AGTGGAAATGCCAGA
Found at i:36086865 original size:53 final size:53
Alignment explanation
Indices: 36086802--36086903 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
36086792 GTTCCTGAAT
36086802 GGAAATGGGATCGGATTACTATGGATTTTATATCAGGGTTGCCGTTAACTCCA
1 GGAAATGGGATCGGATTACTATGGATTTTATATCAGGGTTGCCGTTAACTCCA
* *
36086855 GGAAATGGGATCGGATTACTATGGATTTTGTGTCAGGGTTGCCGTTAAC
1 GGAAATGGGATCGGATTACTATGGATTTTATATCAGGGTTGCCGTTAAC
36086904 AACAGGGAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (53 bp):
GGAAATGGGATCGGATTACTATGGATTTTATATCAGGGTTGCCGTTAACTCCA
Found at i:36089300 original size:46 final size:46
Alignment explanation
Indices: 36089250--36089422 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
36089240 TGGTTGAGCA
*
36089250 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
36089296 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
36089343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
36089389 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36089423 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:36089406 original size:93 final size:93
Alignment explanation
Indices: 36089247--36089417 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
36089237 GGATGGTTGA
* *
36089247 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
36089312 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
36089340 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
36089405 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36089418 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36089683 original size:19 final size:20
Alignment explanation
Indices: 36089646--36089683 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36089636 ATAAGGTGGT
36089646 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36089666 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36089684 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36093996 original size:15 final size:15
Alignment explanation
Indices: 36093955--36094004 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
36093945 ATAACTTTGA
36093955 ATGCAAATG-AT-ATG
1 ATGCAAATGTATGA-G
36093969 ATG-AAATGCTATGAG
1 ATGCAAATG-TATGAG
36093984 ATGCAAATGTATGA-
1 ATGCAAATGTATGAG
36093998 ATGCAAA
1 ATGCAAA
36094005 AAAGAATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATGCAAATGTATGAG
Found at i:36097990 original size:16 final size:16
Alignment explanation
Indices: 36097971--36098022 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
36097961 ATATATATAG
36097971 ATAATAATGTAAAATA
1 ATAATAATGTAAAATA
**
36097987 ATAATTGTGTAAAATA
1 ATAATAATGTAAAATA
36098003 ATATATAA--T-AAATA
1 ATA-ATAATGTAAAATA
36098017 ATAATA
1 ATAATA
36098023 TGAAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 3 0.10
14 8 0.26
15 1 0.03
16 17 0.55
17 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
ATAATAATGTAAAATA
Found at i:36098043 original size:43 final size:41
Alignment explanation
Indices: 36097947--36098044 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 41
36097937 AATATGTACA
* * *
36097947 AATAATTAAT-AAA-AATATATATAGATAATAATGTAAAAT
1 AATAATTATTAAAATAATATATATAAATAATAATATAAAAT
* *
36097986 AATAATTGTGTAAAATAATATATAATAAATAATAATATGAAAT
1 AATAATTAT-TAAAATAATATAT-ATAAATAATAATATAAAAT
36098029 AATATATTATTAAAAT
1 AATA-ATTATTAAAAT
36098045 GTAAAATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
39 7 0.15
40 1 0.02
41 3 0.06
42 7 0.15
43 26 0.54
44 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (41 bp):
AATAATTATTAAAATAATATATATAAATAATAATATAAAAT
Found at i:36100352 original size:22 final size:22
Alignment explanation
Indices: 36100324--36100375 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
36100314 CGTTCAGGTA
36100324 AGATGCAGAACAGATCTA-ATAC
1 AGATGCAGAACAGATC-AGATAC
* * *
36100346 AGATGCAAAATAGATCAGATAT
1 AGATGCAGAACAGATCAGATAC
36100368 AGATGCAG
1 AGATGCAG
36100376 TTTACTATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (22 bp):
AGATGCAGAACAGATCAGATAC
Found at i:36106988 original size:40 final size:38
Alignment explanation
Indices: 36106919--36107006 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 38
36106909 TACGGTACTC
* * *
36106919 TATGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCA
1 TATGGTGTGTAGGGATGGATAGGTCGATTTTATCCCCA
*
36106957 TATTTGGTGTGTAGGGATGGGTAGGTCGATTTTATCCCCA
1 TA--TGGTGTGTAGGGATGGATAGGTCGATTTTATCCCCA
36106997 TATGGTGTGT
1 TATGGTGTGT
36107007 CGGGTTAGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 10 0.23
40 34 0.77
ACGTcount: A:0.16, C:0.10, G:0.34, T:0.40
Consensus pattern (38 bp):
TATGGTGTGTAGGGATGGATAGGTCGATTTTATCCCCA
Found at i:36108048 original size:17 final size:19
Alignment explanation
Indices: 36108012--36108048 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
36108002 AAAGCCCACA
36108012 ACACGGCCCATGTGGGCCC
1 ACACGGCCCATGTGGGCCC
*
36108031 ACAC-GCCCGTGT-GGCCC
1 ACACGGCCCATGTGGGCCC
36108048 A
1 A
36108049 ATAAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.16, C:0.43, G:0.30, T:0.11
Consensus pattern (19 bp):
ACACGGCCCATGTGGGCCC
Found at i:36115159 original size:6 final size:6
Alignment explanation
Indices: 36115148--36115181 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
36115138 TCAGATCAGA
36115148 ACATAT ACATAT ACATAT ACATAT ACATAT ACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACAT
36115182 GCATCACAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:36124132 original size:21 final size:21
Alignment explanation
Indices: 36124106--36124156 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
36124096 ATTATTAGTC
36124106 TGTTATATGCTAAGTATGATA
1 TGTTATATGCTAAGTATGATA
* *
36124127 TGTTATATGCTGAGTATGATT
1 TGTTATATGCTAAGTATGATA
36124148 TGTTATATG
1 TGTTATATG
36124157 AAAAACATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (21 bp):
TGTTATATGCTAAGTATGATA
Found at i:36124177 original size:13 final size:13
Alignment explanation
Indices: 36124161--36124187 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36124151 TATATGAAAA
36124161 ACATGTATGTGAT
1 ACATGTATGTGAT
36124174 ACATGTATGTGAT
1 ACATGTATGTGAT
36124187 A
1 A
36124188 TCTATTTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
ACATGTATGTGAT
Found at i:36127157 original size:42 final size:42
Alignment explanation
Indices: 36127110--36127202 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
36127100 TATATGGCTT
* *
36127110 TGGCATCGGTAAGTGATTTCGTATAAGACCATGTCTGGGACA
1 TGGCATCGGTAAGAGATCTCGTATAAGACCATGTCTGGGACA
* *
36127152 TGGCATCGGTATGAGGTCTCGTATAAGACCATGTCTGGGACA
1 TGGCATCGGTAAGAGATCTCGTATAAGACCATGTCTGGGACA
*
36127194 TGGCGTCGG
1 TGGCATCGG
36127203 CACTGATTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (42 bp):
TGGCATCGGTAAGAGATCTCGTATAAGACCATGTCTGGGACA
Found at i:36141231 original size:3 final size:3
Alignment explanation
Indices: 36141223--36141272 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
36141213 AAAGTAGTTT
* *
36141223 TAA TAA TAA TAC TAA TAA TAA TAA TAA CAA TAA TACA -AA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA T-AA
36141269 TAA T
1 TAA T
36141273 CTAAAGTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:36141240 original size:12 final size:12
Alignment explanation
Indices: 36141223--36141267 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
36141213 AAAGTAGTTT
36141223 TAATAATAATAC
1 TAATAATAATAC
*
36141235 TAATAATAATAA
1 TAATAATAATAC
*
36141247 TAACAATAATAC
1 TAATAATAATAC
*
36141259 AAATAATAA
1 TAATAATAA
36141268 ATAATCTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:36141459 original size:3 final size:3
Alignment explanation
Indices: 36141451--36141620 Score: 110
Period size: 3 Copynumber: 56.7 Consensus size: 3
36141441 GAAAGAAAAT
* * * * *
36141451 ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA ATA ACA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
36141498 ATA GTA CTA ATA GTA GTA ATA AAA ATA ATA GTA ATA GTA ATA ATA ACGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * * *
36141547 A-A ATA GTA GTA ATA ATA GTA ATA AAA ATA ATA GTA ATA GTA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
36141594 ATG GTA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA AT-A ATA ATA ATA ATA AT
36141621 TGAAATATTA
Statistics
Matches: 126, Mismatches: 37, Indels: 8
0.74 0.22 0.05
Matches are distributed among these distances:
2 3 0.02
3 118 0.94
4 5 0.04
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:36141539 original size:51 final size:51
Alignment explanation
Indices: 36141446--36141594 Score: 212
Period size: 51 Copynumber: 3.0 Consensus size: 51
36141436 ATAAAGAAAG
* * *
36141446 AAAATA-TAATAATAATAGTAAT-AATACAATAGTAATAATAATAATAACA
1 AAAATAGTAATAATAATAGTAATAAAAATAATAGTAATAGTAATAATAACA
* * *
36141495 AAAATAGTACTAATAGTAGTAATAAAAATAATAGTAATAGTAATAATAACG
1 AAAATAGTAATAATAATAGTAATAAAAATAATAGTAATAGTAATAATAACA
* *
36141546 AAAATAGTAGTAATAATAGTAATAAAAATAATAGTAATAGTAACAATAA
1 AAAATAGTAATAATAATAGTAATAAAAATAATAGTAATAGTAATAATAA
36141595 TGGTAATAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 6 0.07
50 14 0.16
51 69 0.78
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (51 bp):
AAAATAGTAATAATAATAGTAATAAAAATAATAGTAATAGTAATAATAACA
Found at i:36143386 original size:60 final size:57
Alignment explanation
Indices: 36143252--36143388 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 57
36143242 TTTAATTCAT
* **
36143252 ATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
* *
36143310 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTT-TTAAATAAAATATATTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAAT----TATATTTA
*
36143370 ACT-ATAATTTTATTAAAAT
1 A-TAATAATTATATTAAAAT
36143389 TTAATTATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
56 6 0.09
57 22 0.33
58 15 0.22
60 23 0.34
61 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:36143552 original size:16 final size:16
Alignment explanation
Indices: 36143526--36143587 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
36143516 GACTATAGCC
*
36143526 CTATTCCATTACAACT
1 CTATTCAATTACAACT
* * *
36143542 TTATTCAATTATAGCT
1 CTATTCAATTACAACT
* *
36143558 CTAGTCAATTACAACC
1 CTATTCAATTACAACT
*
36143574 CTATTCCATTACAA
1 CTATTCAATTACAA
36143588 TGAACCAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (16 bp):
CTATTCAATTACAACT
Found at i:36143579 original size:32 final size:32
Alignment explanation
Indices: 36143519--36143584 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
36143509 AATTACTGAC
* * **
36143519 TATAGCCCTATTCCATTACAACTTTATTCAAT
1 TATAGCCCTAGTCAATTACAACCCTATTCAAT
* *
36143551 TATAGCTCTAGTCAATTACAACCCTATTCCAT
1 TATAGCCCTAGTCAATTACAACCCTATTCAAT
36143583 TA
1 TA
36143585 CAATGAACCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (32 bp):
TATAGCCCTAGTCAATTACAACCCTATTCAAT
Found at i:36146176 original size:166 final size:167
Alignment explanation
Indices: 36145901--36146230 Score: 468
Period size: 166 Copynumber: 2.0 Consensus size: 167
36145891 TAATATGTGT
* * *
36145901 ATTGAGAAAGTTAAATTTGGCATTATAGATACTAAACGAAAGTGATTCGAGTCTTGATAGGGGGA
1 ATTGAGAAAGTTAAATTTGGCATTATAAATACTAAACAAAAGTGATTCGAGTCTTGATAGGAGGA
* * * * * * *
36145966 AGAACAAGGTTTACGATGACTAGGCTTGTTTCTATCTTTTTTGTACCAAGGTCAGTTCATTTGCA
66 AAAACAAGGTTTACGAGGACTAGGCTCGTTTCTATCATTTTTGTACCAAGGTAACTTCATTCGCA
36146031 AATAATACAACATATACCATGCTTTAAATGCTTTGGC
131 AATAATACAACATATACCATGCTTTAAATGCTTTGGC
* * *
36146068 ATTGAGAAAGTTAAATTTGGCATTATAAAT-C-AAGA-AAAATGTGATTTGGGTCTTGATCGGAG
1 ATTGAGAAAGTTAAATTTGGCATTATAAATACTAA-ACAAAA-GTGATTCGAGTCTTGATAGGAG
* *
36146130 GAAAAACAAGGTTTACGAGGATTAGGCTCGTTTCTATCATTTTTGTACCGAGGTAACTTCATTCG
64 GAAAAACAAGGTTTACGAGGACTAGGCTCGTTTCTATCATTTTTGTACCAAGGTAACTTCATTCG
* *
36146195 CAAATAATGCAACATATAGCATGCTTTAAATGCTTT
129 CAAATAATACAACATATACCATGCTTTAAATGCTTT
36146231 AATATTGCAT
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
165 5 0.03
166 110 0.76
167 29 0.20
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (167 bp):
ATTGAGAAAGTTAAATTTGGCATTATAAATACTAAACAAAAGTGATTCGAGTCTTGATAGGAGGA
AAAACAAGGTTTACGAGGACTAGGCTCGTTTCTATCATTTTTGTACCAAGGTAACTTCATTCGCA
AATAATACAACATATACCATGCTTTAAATGCTTTGGC
Found at i:36146554 original size:45 final size:44
Alignment explanation
Indices: 36146470--36146554 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
36146460 ATGTAATCTG
*
36146470 AACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCCA
1 AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCA
* *
36146514 AACTCATTGAGTTGTGGTCTGAGTTCGTGATATGTATGACA
1 AACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
36146555 CATTTTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (44 bp):
AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCA
Found at i:36149469 original size:39 final size:40
Alignment explanation
Indices: 36149352--36149535 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
36149342 GCTCCTCGTT
* *
36149352 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
36149392 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
36149432 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
36149471 CAAATGCCTTC-GGATCTTAGTCCGAATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
36149512 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36149536 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 62 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:36151591 original size:42 final size:42
Alignment explanation
Indices: 36151532--36151611 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
36151522 CGGGCTCAAC
36151532 TTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGTGAA
1 TTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGTGAA
36151574 TTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGG
1 TTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGG
36151612 CGAAACTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (42 bp):
TTGCCCTTACGGCCAAACCTGAGTACCTTTTTCCAAGGTGAA
Found at i:36162034 original size:16 final size:16
Alignment explanation
Indices: 36162013--36162052 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
36162003 ATTGTTTTGC
36162013 TTTAAGTTAGTCTAAT
1 TTTAAGTTAGTCTAAT
36162029 TTTAAGTTAGTCTAAT
1 TTTAAGTTAGTCTAAT
36162045 TTTAAGTT
1 TTTAAGTT
36162053 GTGACACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTAAGTTAGTCTAAT
Found at i:36168462 original size:63 final size:64
Alignment explanation
Indices: 36168360--36168491 Score: 180
Period size: 63 Copynumber: 2.1 Consensus size: 64
36168350 AAGATAGATT
* * * * *
36168360 TGAGATCGGGTTATTATCAGTTGCAGATTCGAGATTCGGACGTACCCAAAACTGCTTTCA-GAC
1 TGAGATCGGGCTATTATCAATTGCAGATTCGAGAATCGGACATACCCAAAACTGCCTTCAGGAC
*
36168423 TGAGATCGGGCTATTATCAATTG-TGAATTCGAGAATCGGACATACCCAAAACTGCCTTCAGGAC
1 TGAGATCGGGCTATTATCAATTGCAG-ATTCGAGAATCGGACATACCCAAAACTGCCTTCAGGAC
36168487 -GAGAT
1 TGAGAT
36168492 ATGGTCACTA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 1 0.02
63 57 0.93
64 3 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (64 bp):
TGAGATCGGGCTATTATCAATTGCAGATTCGAGAATCGGACATACCCAAAACTGCCTTCAGGAC
Found at i:36168854 original size:28 final size:28
Alignment explanation
Indices: 36168811--36168865 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
36168801 CATACTTAAC
*
36168811 TGGAAGCCTCCGAGAAATGTTACCGAAT
1 TGGAAGCCTCCAAGAAATGTTACCGAAT
36168839 TGGAAGCCTCCAAGAAATGTTACCGAA
1 TGGAAGCCTCCAAGAAATGTTACCGAA
36168866 GTCCGGAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (28 bp):
TGGAAGCCTCCAAGAAATGTTACCGAAT
Done.