Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 256 of 349
Found at i:85095835 original size:40 final size:41
Alignment explanation
Indices: 85095741--85095847 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
85095731 TTTAAACTCA
* * * **
85095741 CACACAATGTGCCTTACATAGCCGAAGCTATCTCGATCTCG
1 CACACTATGTGCCATACATAGCCGAAGCTATCTCCAAATCG
* * *
85095782 CACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAAATTG
1 CACACTATGTGCCATACATAGCCGAAGCTATCTCCAAATCG
*
85095822 CACACTATGTGCCATACATAGTCGAA
1 CACACTATGTGCCATACATAGCCGAA
85095848 TTTTTGTCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 28 0.51
41 27 0.49
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CACACTATGTGCCATACATAGCCGAAGCTATCTCCAAATCG
Found at i:85098084 original size:27 final size:27
Alignment explanation
Indices: 85098051--85098225 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
85098041 TAAATTGTGC
*
85098051 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
85098078 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
85098105 AGCACTAAGTGTGCGATTTAGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGT
* *
85098133 --CGCTAAGTGTGCGAGCTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
85098158 AGCACTAAGTGTGCGAGTTCA-TTTAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
85098184 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
85098211 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85098226 GACTTATTAT
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
25 8 0.06
26 37 0.28
27 78 0.60
28 8 0.06
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:85098153 original size:53 final size:53
Alignment explanation
Indices: 85098051--85098225 Score: 212
Period size: 53 Copynumber: 3.3 Consensus size: 53
85098041 TAAATTGTGC
*
85098051 AGCACTAAGTGTGCGAATT-GACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTAGACTATGT--CACTAAGTGTGCGAGTTGACTATGT
* *
85098105 AGCACTAAGTGTGCGATTTAGACTATGTCGCTAAGTGTGCGAGCTGACTATGT
1 AGCACTAAGTGTGCGATTTAGACTATGTCACTAAGTGTGCGAGTTGACTATGT
* ** * *
85098158 AGCACTAAGTGTGCGAGTTCA-TTTATAG-CACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTAGACTAT-GTCACTAAGTGTGCGAGTTGACTATGT
*
85098211 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85098226 GACTTATTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
53 77 0.72
54 22 0.21
55 8 0.07
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTAGACTATGTCACTAAGTGTGCGAGTTGACTATGT
Found at i:85098222 original size:80 final size:82
Alignment explanation
Indices: 85098051--85098225 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 82
85098041 TAAATTGTGC
* * *
85098051 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
1 AGCACTAAGTGTGCGAACTGACTATGTAGCACTAAGTGTGCGAGTTCACTATATAGCACTAAGTG
* *
85098116 TGCGATTTAGACTATGT
66 TGCGAGTTAGACTATAT
* * *
85098133 --CGCTAAGTGTGCGAGCTGACTATGTAGCACTAAGTGTGCGAGTTCA-TTTATAGCACTAAGTG
1 AGCACTAAGTGTGCGAACTGACTATGTAGCACTAAGTGTGCGAGTTCACTATATAGCACTAAGTG
*
85098195 TGCGAGTT-GATTATAT
66 TGCGAGTTAGACTATAT
*
85098211 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85098226 GACTTATTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
78 6 0.08
79 21 0.26
80 53 0.66
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAACTGACTATGTAGCACTAAGTGTGCGAGTTCACTATATAGCACTAAGTG
TGCGAGTTAGACTATAT
Found at i:85104839 original size:45 final size:45
Alignment explanation
Indices: 85104780--85104867 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
85104770 ACATGGTGGC
85104780 CGGCCAAGGAGTGATGATGCTCCACTCATTCTAATTTAATATGGT
1 CGGCCAAGGAGTGATGATGCTCCACTCATTCTAATTTAATATGGT
85104825 CGGCCAAGGAGTGATGATGCTCCACTCATTCTAATTTAATATG
1 CGGCCAAGGAGTGATGATGCTCCACTCATTCTAATTTAATATG
85104868 TTTTCTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (45 bp):
CGGCCAAGGAGTGATGATGCTCCACTCATTCTAATTTAATATGGT
Found at i:85106281 original size:28 final size:28
Alignment explanation
Indices: 85106224--85106403 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
85106214 TAAATTGTGC
*
85106224 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
85106251 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
85106279 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
85106307 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
85106334 AGCACTAAGTGTGCGAGTTCGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
85106362 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
85106389 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85106404 GACTTATTAT
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 66 0.46
28 79 0.54
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:85106288 original size:55 final size:54
Alignment explanation
Indices: 85106224--85106403 Score: 270
Period size: 55 Copynumber: 3.3 Consensus size: 54
85106214 TAAATTGTGC
85106224 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
85106279 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * * *
85106334 AGCACTAAGTGTGCGAGTTCGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATT-GACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
85106389 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85106404 GACTTATTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 2 0.02
55 87 0.75
56 27 0.23
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:85106365 original size:83 final size:82
Alignment explanation
Indices: 85106224--85106403 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
85106214 TAAATTGTGC
* *
85106224 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTCGACTATATAGCACTAAGT
*
85106289 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
85106307 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTCGATTATATAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTCGACTATATAGCACTAAGT
*
85106372 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
85106389 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85106404 GACTTATTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 22 0.24
83 68 0.76
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTCGACTATATAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:85110795 original size:26 final size:27
Alignment explanation
Indices: 85110730--85110856 Score: 116
Period size: 27 Copynumber: 4.7 Consensus size: 27
85110720 CCCTAATTGA
* *
85110730 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
85110757 TAAAATGATTGTTTTGCCCATATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
85110784 T-AAATGACTGTTTTTCCCTTATATAG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
85110810 -AAATAT-AGTTGTTTTGCCTTTATATGG
1 TAAA-ATGA-CTGTTTTGCCCTTATATGG
** *
85110837 TAAGGTGACTGTTATGCCCT
1 TAAAATGACTGTTTTGCCCT
85110857 ATGTGATGTA
Statistics
Matches: 78, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
26 24 0.31
27 51 0.65
28 3 0.04
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:85114628 original size:27 final size:27
Alignment explanation
Indices: 85114598--85114676 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
85114588 CCCTAATTGA
*
85114598 TAAAATAATTGTTTTGCCCTTATGTGG
1 TAAAATAACTGTTTTGCCCTTATGTGG
*
85114625 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATAACTGTTTTGCCCTTATGTGG
** **
85114652 TAAGGTGGCTGTTTTGCCC-TATGTG
1 TAAAATAACTGTTTTGCCCTTATGTG
85114677 ATGTATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 6 0.13
27 41 0.87
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (27 bp):
TAAAATAACTGTTTTGCCCTTATGTGG
Found at i:85123204 original size:34 final size:33
Alignment explanation
Indices: 85123161--85123232 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
85123151 CATTTCAGTA
* *
85123161 ACAGTTCAATTTCAGT-TAGGGCCTTAGCCCATT
1 ACAGTTCAATATCAATGT-GGGCCTTAGCCCATT
85123194 ACAGTATCAATATCAATGTGGGCCTTAGCCCATT
1 ACAGT-TCAATATCAATGTGGGCCTTAGCCCATT
85123228 ACAGT
1 ACAGT
85123233 GATAGTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 5 0.14
34 29 0.83
35 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
ACAGTTCAATATCAATGTGGGCCTTAGCCCATT
Found at i:85128777 original size:46 final size:46
Alignment explanation
Indices: 85128710--85128875 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 46
85128700 GCCCACAAGC
* *
85128710 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGT
* * *
85128756 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAAGT
* *
85128803 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGT
85128849 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
85128876 AATGCTCAAC
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.52
47 28 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGT
Found at i:85128822 original size:93 final size:93
Alignment explanation
Indices: 85128709--85128880 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
85128699 CGCCCACAAG
* *
85128709 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
85128774 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
* *
85128802 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85128867 ACGAGTTCGAATGC
66 ACGAGTTCGAATGC
85128881 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:85128896 original size:46 final size:44
Alignment explanation
Indices: 85128753--85128896 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
85128743 CGCATCCATA
*
85128753 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCC-A---ACCATCT
* * * *
85128800 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CAACCATCT
85128846 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGC-CAACCAT-CT
85128892 AGTGA
1 AGTGA
85128897 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 3 0.04
46 31 0.39
47 29 0.37
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCAACCATCT
Found at i:85139269 original size:24 final size:25
Alignment explanation
Indices: 85139238--85139299 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
85139228 AACCGATTTC
*
85139238 GCACACATAGTGCTAAT-C-AAATT
1 GCACACATAGTGCTAATGCTAAACT
*
85139261 AGCACACATAGTGC-CATGCTAAACT
1 -GCACACATAGTGCTAATGCTAAACT
85139286 GCACACATAGTGCT
1 GCACACATAGTGCT
85139300 TTGGAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 27 0.82
25 4 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (25 bp):
GCACACATAGTGCTAATGCTAAACT
Found at i:85139386 original size:24 final size:24
Alignment explanation
Indices: 85139237--85139396 Score: 74
Period size: 24 Copynumber: 6.7 Consensus size: 24
85139227 CAACCGATTT
* * *
85139237 CGCACACATAGTGCTAATCAAATT
1 CGCACACATAGTGCCATTCAAATC
* *
85139261 AGCACACATAGTGCCATGCTAAA-C
1 CGCACACATAGTGCCATTC-AAATC
* * * *
85139285 TGCACACATAGTG-CTTTGGAAATT
1 CGCACACATAGTGCCATT-CAAATC
* * ** * *
85139309 CACTCATTTATTGACATTCAAA-C
1 CGCACACATAGTGCCATTCAAATC
* * * * *
85139332 CAGCATACATAGTGCCAATCGATTT
1 C-GCACACATAGTGCCATTCAAATC
*
85139357 CACACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
85139381 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
85139397 ATGTTGGCTC
Statistics
Matches: 92, Mismatches: 38, Indels: 12
0.65 0.27 0.08
Matches are distributed among these distances:
23 6 0.07
24 79 0.86
25 7 0.08
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:85145450 original size:33 final size:34
Alignment explanation
Indices: 85145400--85145492 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
85145390 TTTCATACTA
* *
85145400 TACTGATT-CTGTTATGGGCTTAGGCCC-CACTGC
1 TACTG-TTACTGTAATGGGCTAAGGCCCACACTGC
* * *
85145433 TACTGTTACTGTAATGGGCTCAGGCCCAGACTTC
1 TACTGTTACTGTAATGGGCTAAGGCCCACACTGC
* *
85145467 TATTGTTACTGTATTGGGCTAAGGCC
1 TACTGTTACTGTAATGGGCTAAGGCC
85145493 TAACTAATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.04
33 22 0.43
34 27 0.53
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (34 bp):
TACTGTTACTGTAATGGGCTAAGGCCCACACTGC
Found at i:85150699 original size:24 final size:24
Alignment explanation
Indices: 85150552--85150709 Score: 79
Period size: 24 Copynumber: 6.6 Consensus size: 24
85150542 ACCGATTTCC
* * *
85150552 CACACATAGTGCTAATCAAATTCG
1 CACACATAGTGCCATTCAAATCCG
* *
85150576 CACACATAATGCCATGCTAAA-CCG
1 CACACATAGTGCCATTC-AAATCCG
* * * *
85150600 CACACATAGTG-CTTTGGAAATTCA
1 CACACATAGTGCCATT-CAAATCCG
* ** * *
85150624 CTCATTTATTGACATTCAAA-CCAG
1 CACACATAGTGCCATTCAAATCC-G
* * * * * *
85150648 CATACATAGTGCCAATCGATTTCA
1 CACACATAGTGCCATTCAAATCCG
85150672 CACACATAGTGCCATTCAAATCCG
1 CACACATAGTGCCATTCAAATCCG
*
85150696 CACACTTAGTGCCA
1 CACACATAGTGCCA
85150710 ATGTTGGCTC
Statistics
Matches: 91, Mismatches: 37, Indels: 12
0.65 0.26 0.09
Matches are distributed among these distances:
23 6 0.07
24 78 0.86
25 7 0.08
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (24 bp):
CACACATAGTGCCATTCAAATCCG
Found at i:85153972 original size:15 final size:15
Alignment explanation
Indices: 85153952--85153981 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85153942 AAAATGTGAA
85153952 ATAAATGAAAATTAT
1 ATAAATGAAAATTAT
85153967 ATAAATGAAAATTAT
1 ATAAATGAAAATTAT
85153982 GGACTACTAG
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:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAAATGAAAATTAT
Found at i:85154486 original size:41 final size:42
Alignment explanation
Indices: 85154419--85154511 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 42
85154409 GCTATATATA
* * **
85154419 GCACTTAGTGTGTAAGACTGAGATAGCTTTGGCTATGT-AAG
1 GCACTTAGTGTGCAAGACTGAAATAGCTTCAGCTATGTGAAG
* **
85154460 GCACTTAGTGTGCGAGACT-ATAATAGCTTCAGCTATGTGTTG
1 GCACTTAGTGTGCAAGACTGA-AATAGCTTCAGCTATGTGAAG
85154502 GCACTTAGTG
1 GCACTTAGTG
85154512 CACGAGACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 31 0.72
42 11 0.26
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
GCACTTAGTGTGCAAGACTGAAATAGCTTCAGCTATGTGAAG
Found at i:85155503 original size:12 final size:12
Alignment explanation
Indices: 85155486--85155516 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85155476 CAGTATGCTC
85155486 CACACGGCCTAG
1 CACACGGCCTAG
*
85155498 CACACGGCCTGG
1 CACACGGCCTAG
85155510 CACACGG
1 CACACGG
85155517 GTGTGTGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:85161059 original size:39 final size:38
Alignment explanation
Indices: 85161009--85161102 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 38
85160999 TAATTACTAT
* * **
85161009 AATTACCATAATTATAATAATGTTTTACCGAAAAATTAC
1 AATTACAATAATTATAATAATATTCGACCG-AAAATTAC
* * *
85161048 AATTACAATAATTATAATAATATTCGATCGTAAATTAT
1 AATTACAATAATTATAATAATATTCGACCGAAAATTAC
85161086 AATTACAAT-ATTATAAT
1 AATTACAATAATTATAAT
85161103 TATGATTTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 8 0.17
38 15 0.31
39 25 0.52
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTACAATAATTATAATAATATTCGACCGAAAATTAC
Found at i:85161103 original size:20 final size:20
Alignment explanation
Indices: 85161042--85161105 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
85161032 TTTACCGAAA
*
85161042 AATTACAATTACAATAATTAT
1 AATTATAATTACAAT-ATTAT
* * **
85161063 AATAAT-ATT-CGATCGTA-
1 AATTATAATTACAATATTAT
85161080 AATTATAATTACAATATTAT
1 AATTATAATTACAATATTAT
85161100 AATTAT
1 AATTAT
85161106 GATTTCGATA
Statistics
Matches: 31, Mismatches: 9, Indels: 7
0.66 0.19 0.15
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 8 0.26
20 9 0.29
21 4 0.13
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
AATTATAATTACAATATTAT
Found at i:85163815 original size:47 final size:47
Alignment explanation
Indices: 85163762--85164243 Score: 734
Period size: 47 Copynumber: 10.2 Consensus size: 47
85163752 AATTCTAAAT
*
85163762 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
85163809 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
85163856 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
85163904 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATA
*
85163953 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
85163998 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
85164045 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
85164094 TGTGATAAGGCTTAACGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
85164141 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
85164188 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
85164235 TGTGATAAG
1 TGTGATAAG
85164244 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
45 43 0.11
47 221 0.55
48 46 0.12
49 89 0.22
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:85163980 original size:22 final size:22
Alignment explanation
Indices: 85163952--85164025 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
85163942 GTGTGTATAT
85163952 ATGTGATAAGGCTTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
* * * ***
85163974 ATGTGATGAATG-TGAAAGTGTAT
1 ATGTGAT-AAGGCTTAATG-GCCG
*
85163997 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
85164019 ATGTGAT
1 ATGTGAT
85164026 GAATGTGGAA
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCG
Found at i:85164135 original size:96 final size:94
Alignment explanation
Indices: 85163762--85164243 Score: 734
Period size: 96 Copynumber: 5.1 Consensus size: 94
85163752 AATTCTAAAT
*
85163762 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
85163827 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
*
85163856 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
85163921 GCCGATGTGATGAATGTGAAAGTGTGTATATA
65 GCCGATGTGATGAATGTGAAA--GTGTATATA
*
85163953 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* *
85164016 CCGATGTGATGAATGTGGAAGTGTATATG
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * *
85164045 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAC
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
85164110 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
85164141 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
85164206 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
85164235 TGTGATAAG
1 TGTGATAAG
85164244 TCCCGAAGGG
Statistics
Matches: 355, Mismatches: 26, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
92 47 0.13
94 95 0.27
95 79 0.22
96 121 0.34
97 13 0.04
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:85166356 original size:43 final size:43
Alignment explanation
Indices: 85166295--85166440 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
85166285 TTGGTTTTCA
85166295 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
*
85166338 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGGTTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
*
85166381 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
85166424 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
85166441 TTGAAATGCA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
Found at i:85166457 original size:29 final size:29
Alignment explanation
Indices: 85166422--85166495 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
85166412 GTTGTGAGAT
* *
85166422 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
85166451 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
85166480 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85166496 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:85166897 original size:40 final size:40
Alignment explanation
Indices: 85166846--85167258 Score: 557
Period size: 40 Copynumber: 10.3 Consensus size: 40
85166836 CATTTGAATG
*
85166846 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
85166886 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
85166926 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* **
85166966 ATATCCGGGCTAAGACCCGACGGTGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
85167006 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
85167046 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * * * *
85167086 ATATCCCGGCTAAGTA-CCGAAGGCAATTGAGC-TAGTGATT
1 ATATCCGGGCTAAG-ACCCGAAGGCATTTGTGCGAATTGA-T
85167126 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
85167166 ATATCCAGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* *
85167206 ATATCCGGGCTAAGACCCGAAGGCATTGGTGCGAGTT-ACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA-T
*
85167246 AAATCCGGGCTAA
1 ATATCCGGGCTAA
85167259 ATTCCGAAGA
Statistics
Matches: 326, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
39 8 0.02
40 311 0.95
41 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:85167292 original size:40 final size:40
Alignment explanation
Indices: 85167248--85167408 Score: 169
Period size: 40 Copynumber: 3.9 Consensus size: 40
85167238 GAGTTACTAA
* ***
85167248 ATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAGGT
1 ATCCGGGCTAAATTCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
85167288 ATCCGGACTAAGTTCCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAATTCCGAAGAGCATTCGTGCTGGTGTTAT
85167328 ATCCGGGCTAGGTCAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTA----AA-TTCCGAAGAGCATTCGTGCTGGTGTTAT
** * * *
85167373 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 ATCCGGGCTAAATTCCGAAGAGCATTCGTGCTGGTG
85167409 ACATGTATTC
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
40 63 0.62
44 1 0.01
45 37 0.37
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAATTCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:85167361 original size:45 final size:45
Alignment explanation
Indices: 85167297--85167386 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
85167287 TATCCGGACT
85167297 AAGTTCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 AAGTTCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
*
85167342 AAGTTCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 AAGTTCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
85167387 CCGAAGAGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
AAGTTCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
Found at i:85170839 original size:47 final size:47
Alignment explanation
Indices: 85170786--85171267 Score: 734
Period size: 47 Copynumber: 10.2 Consensus size: 47
85170776 AATTCTAAAT
85170786 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
85170833 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
**
85170880 TGTGAATGGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
85170928 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATA
* *
85170977 TGTGATAAGGCTTCATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
85171022 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
85171069 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
85171118 TGTGATAAGGCTTAACGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
85171165 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
85171212 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
85171259 TGTGATAAG
1 TGTGATAAG
85171268 TCCCGAAGGG
Statistics
Matches: 398, Mismatches: 30, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
45 43 0.11
47 222 0.56
48 45 0.11
49 88 0.22
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:85171159 original size:96 final size:94
Alignment explanation
Indices: 85170786--85171267 Score: 734
Period size: 96 Copynumber: 5.1 Consensus size: 94
85170776 AATTCTAAAT
85170786 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
85170851 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
**
85170880 TGTGAATGGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
85170945 GCCGATGTGATGAATGTGAAAGTGTGTATATA
65 GCCGATGTGATGAATGTGAAA--GTGTATATA
* *
85170977 TGTGATAAGGCTTCATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
85171040 CCGATGTGATGAATGTGAAAGTGTATATG
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * *
85171069 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAC
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
85171134 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
85171165 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
85171230 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
85171259 TGTGATAAG
1 TGTGATAAG
85171268 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 27, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
92 46 0.13
94 96 0.27
95 79 0.22
96 120 0.34
97 13 0.04
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:85171442 original size:37 final size:37
Alignment explanation
Indices: 85171386--85171464 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
85171376 CCGAGTTCTA
* * *
85171386 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
85171423 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
85171460 AAGAC
1 AAGAC
85171465 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:85175960 original size:29 final size:27
Alignment explanation
Indices: 85175858--85175969 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
85175848 ATACCCCTAC
* *
85175858 ATTCATGCATATAGCCCACTAGGTCCA
1 ATTCATTCATATAGCCCACTAGGCCCA
* * *
85175885 ATCTTATTCAAATGGCCCATCT-GGCCCA
1 AT-TCATTCATATAGCCCA-CTAGGCCCA
*
85175913 ATTCATATTCTTATAGCCCACTAGGCCCA
1 ATTC--ATTCATATAGCCCACTAGGCCCA
* *
85175942 ATTCACCTTCATATGGCCCATTAGGCCC
1 ATTCA--TTCATATAGCCCACTAGGCCC
85175970 CAATCATATT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
27 4 0.06
28 21 0.32
29 41 0.62
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (27 bp):
ATTCATTCATATAGCCCACTAGGCCCA
Found at i:85175977 original size:58 final size:57
Alignment explanation
Indices: 85175867--85175979 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 57
85175857 CATTCATGCA
* *
85175867 TATAGCCCACTAGGTCCAATCTTATTCAAATGGCCCATCTGGCCCAATTCATATTCT
1 TATAGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAATTCATATTCT
*
85175924 TATAGCCCACTAGGCCCAAT-TCACCTTCATATGGCCCAT-TAGGCCCCAA-TCATATT
1 TATAGCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATCT-GG-CCCAATTCATATT
85175980 ATACTCATGC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
56 2 0.04
57 20 0.41
58 22 0.45
59 5 0.10
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (57 bp):
TATAGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAATTCATATTCT
Found at i:85178284 original size:7 final size:7
Alignment explanation
Indices: 85178272--85178321 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
85178262 TATGCATGCC
85178272 ATATGAT
1 ATATGAT
85178279 ATATGAT
1 ATATGAT
85178286 ATATGAT
1 ATATGAT
*
85178293 ATAAGTAT
1 ATATG-AT
*
85178301 GTATG-T
1 ATATGAT
*
85178307 ATATAAT
1 ATATGAT
85178314 -TATGAT
1 ATATGAT
85178320 AT
1 AT
85178322 GCATGTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
6 9 0.26
7 20 0.59
8 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (7 bp):
ATATGAT
Found at i:85178556 original size:5 final size:5
Alignment explanation
Indices: 85178546--85178617 Score: 54
Period size: 5 Copynumber: 14.4 Consensus size: 5
85178536 GGGGTAGGAC
* * * ** * *
85178546 ATGAT ATGAT ATGCT TTGTT ACAAT ATGAT ATGAT ATGAT ATGTT ACGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * *
85178596 ACGTT ATGAT ATGAT AAGAT AT
1 ATGAT ATGAT ATGAT ATGAT AT
85178618 ACTTTAATTT
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:85178580 original size:25 final size:25
Alignment explanation
Indices: 85178546--85178611 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
85178536 GGGGTAGGAC
* *
85178546 ATGATATGATATGCTTTGTTACAAT
1 ATGATATGATATGATATGTTACAAT
*
85178571 ATGATATGATATGATATGTTACGAT
1 ATGATATGATATGATATGTTACAAT
* *
85178596 ACGTTATGATATGATA
1 ATGATATGATATGATA
85178612 AGATATACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (25 bp):
ATGATATGATATGATATGTTACAAT
Found at i:85180192 original size:15 final size:15
Alignment explanation
Indices: 85180172--85180204 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85180162 TTTCTTTAAG
85180172 CTTTTCTTTCTTTTC
1 CTTTTCTTTCTTTTC
85180187 CTTTTCTTTCTTTTC
1 CTTTTCTTTCTTTTC
85180202 CTT
1 CTT
85180205 CACAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTCTTTCTTTTC
Found at i:85180399 original size:11 final size:11
Alignment explanation
Indices: 85180383--85180409 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
85180373 TTTTGCGCAT
85180383 TTAATTTTTAA
1 TTAATTTTTAA
85180394 TTAATTTTTAA
1 TTAATTTTTAA
85180405 TTAAT
1 TTAAT
85180410 GTATTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:85181063 original size:27 final size:26
Alignment explanation
Indices: 85181020--85181070 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
85181010 TTGCATGTGA
*
85181020 TTTTATATACTTAATTTTTTAATTAAT
1 TTTTATATAATTAA-TTTTTAATTAAT
85181047 TTTTATATAATGT-ATTTTTAATTA
1 TTTTATATAAT-TAATTTTTAATTA
85181071 TTGCAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 11 0.50
28 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTATATAATTAATTTTTAATTAAT
Found at i:85181801 original size:18 final size:18
Alignment explanation
Indices: 85181780--85181816 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85181770 TTGGTTTTTG
* *
85181780 AATTTGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
85181798 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
85181816 A
1 A
85181817 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:85182942 original size:15 final size:15
Alignment explanation
Indices: 85182922--85182950 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85182912 GAACCTTGAA
85182922 CCTTGAACCCCAAAC
1 CCTTGAACCCCAAAC
85182937 CCTTGAACCCCAAA
1 CCTTGAACCCCAAA
85182951 TCTCAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.45, G:0.07, T:0.14
Consensus pattern (15 bp):
CCTTGAACCCCAAAC
Found at i:85185173 original size:18 final size:19
Alignment explanation
Indices: 85185150--85185186 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
85185140 GCAGGTGCAT
*
85185150 CTGGTGGT-GTTGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
85185168 CTGGTGGTCGTGGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
85185187 TCGTGGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.08, G:0.62, T:0.24
Consensus pattern (19 bp):
CTGGTGGTCGTGGGAGGGG
Found at i:85201911 original size:60 final size:61
Alignment explanation
Indices: 85201811--85201945 Score: 186
Period size: 60 Copynumber: 2.2 Consensus size: 61
85201801 ACTTGTTGTC
*
85201811 TTTTTT-TTTTTTACATAAAAGAATAAAAATAAAATTGAAAATAGTTGCAAGT-ATTTTTTA
1 TTTTTTATTTTTTACATAAAAGAATAAAAATAAAATAGAAAATAGTTGCAAGTGA-TTTTTA
* * * *
85201871 TTTTTTATTTTTTACATCAAA-AATTAAAATAAAGTAGAAAATAGTTGCTAGTGATTTTTA
1 TTTTTTATTTTTTACATAAAAGAATAAAAATAAAATAGAAAATAGTTGCAAGTGATTTTTA
*
85201931 CTTTTTATTTTTTAC
1 TTTTTTATTTTTTAC
85201946 TAACAGATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 53 0.79
61 14 0.21
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (61 bp):
TTTTTTATTTTTTACATAAAAGAATAAAAATAAAATAGAAAATAGTTGCAAGTGATTTTTA
Found at i:85203918 original size:25 final size:25
Alignment explanation
Indices: 85203884--85203933 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
85203874 AGGGTTAAAC
* *
85203884 TAAAACTTGAGAGAGCTGAACTGAA
1 TAAAACTTGAAAGAGCTAAACTGAA
85203909 TAAAACTTGAAAGAGCTAAACTGAA
1 TAAAACTTGAAAGAGCTAAACTGAA
85203934 ACCCATTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (25 bp):
TAAAACTTGAAAGAGCTAAACTGAA
Found at i:85206301 original size:28 final size:28
Alignment explanation
Indices: 85206233--85206324 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
85206223 GATATGACAT
* *
85206233 TGTGCTAACTGAAATAAGACCATGGC-A
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
85206260 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
* *
85206285 TGTGCTAAGTAAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
85206313 TGTGCTAAGTGA
1 TGTGCTAAGTGA
85206325 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
24 20 0.36
25 2 0.04
27 1 0.02
28 33 0.59
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:85206403 original size:51 final size:51
Alignment explanation
Indices: 85206348--85206546 Score: 335
Period size: 51 Copynumber: 3.9 Consensus size: 51
85206338 TGAACCTTAG
85206348 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
85206399 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTCGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
85206450 GAATAAAATAGCTTTGGACACAAGTGTGGTACTAGGTGAATGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
85206501 GAATAAAATAGCTTTGGCCACAAGGGTGGTACTATGTAAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
85206547 CGTGTATCCA
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 137 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:85210143 original size:26 final size:26
Alignment explanation
Indices: 85210107--85210158 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
85210097 TGAAGACTAC
85210107 TCGGTCGAAGCGTTCATCCTAGATGA
1 TCGGTCGAAGCGTTCATCCTAGATGA
85210133 TCGGTCGAAGCGTTCATCCTAGATGA
1 TCGGTCGAAGCGTTCATCCTAGATGA
85210159 ATCGAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (26 bp):
TCGGTCGAAGCGTTCATCCTAGATGA
Found at i:85210901 original size:24 final size:23
Alignment explanation
Indices: 85210874--85210923 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
85210864 TATTATTAAA
*
85210874 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
85210898 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
85210921 ATA
1 ATA
85210924 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:85212681 original size:15 final size:15
Alignment explanation
Indices: 85212661--85212689 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85212651 TTTAAGACAA
85212661 CATAAATACTTACAG
1 CATAAATACTTACAG
85212676 CATAAATACTTACA
1 CATAAATACTTACA
85212690 TTTTAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
CATAAATACTTACAG
Found at i:85216263 original size:17 final size:17
Alignment explanation
Indices: 85216239--85216286 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
85216229 GTGTTGAGAA
85216239 AATT-ATTTAATTGAGT
1 AATTAATTTAATTGAGT
* * *
85216255 AATTAATTTAGTTAATT
1 AATTAATTTAATTGAGT
*
85216272 AATTAAATTAATTGA
1 AATTAATTTAATTGA
85216287 TTAAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (17 bp):
AATTAATTTAATTGAGT
Found at i:85216289 original size:13 final size:13
Alignment explanation
Indices: 85216254--85216292 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
85216244 TTTAATTGAG
* *
85216254 TAATTAATTTAGT
1 TAATTAATTAAAT
85216267 TAATTAATTAAAT
1 TAATTAATTAAAT
*
85216280 TAATTGATTAAAT
1 TAATTAATTAAAT
85216293 AAATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (13 bp):
TAATTAATTAAAT
Found at i:85216289 original size:17 final size:17
Alignment explanation
Indices: 85216245--85216296 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
85216235 AGAAAATTAT
* *
85216245 TTAATTGAGTAATTAAT
1 TTAATTGATTAATTAAA
* *
85216262 TTAGTTAATTAATTAAA
1 TTAATTGATTAATTAAA
*
85216279 TTAATTGATTAAATAAA
1 TTAATTGATTAATTAAA
85216296 T
1 T
85216297 AATATTTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (17 bp):
TTAATTGATTAATTAAA
Found at i:85228115 original size:21 final size:22
Alignment explanation
Indices: 85228089--85228147 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
85228079 GTTTTAAGAA
*
85228089 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
85228110 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
85228132 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
85228148 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:85228162 original size:26 final size:24
Alignment explanation
Indices: 85228118--85228166 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
85228108 ATTTGTTTTA
*
85228118 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
85228142 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
85228167 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:85230756 original size:30 final size:34
Alignment explanation
Indices: 85230706--85230785 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 34
85230696 AGCAAGTTCC
* *
85230706 ATATACATGTAACAATCATTT-CATG-CTTCA-GT
1 ATATACAAGTAA-TATCATTTCCATGACTTCACGT
85230738 ATAT-CAAGTAATATCATTTCCATGTACTTCACGT
1 ATATACAAGTAATATCATTTCCATG-ACTTCACGT
*
85230772 ATATACGAGTAATA
1 ATATACAAGTAATA
85230786 GTTCGTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 7 0.17
31 10 0.25
32 4 0.10
33 5 0.12
34 6 0.15
35 8 0.20
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (34 bp):
ATATACAAGTAATATCATTTCCATGACTTCACGT
Found at i:85232284 original size:93 final size:93
Alignment explanation
Indices: 85232177--85232347 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
85232167 GCCCCTAAGT
* *
85232177 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85232242 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
85232270 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85232335 CGAGTTCGGATGC
66 CGAGTTCGGATGC
85232348 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85232344 original size:46 final size:46
Alignment explanation
Indices: 85232172--85232344 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
85232162 AACCCGCCCC
* * * *
85232172 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
85232218 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
85232266 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
85232311 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85232345 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:85239806 original size:45 final size:45
Alignment explanation
Indices: 85239742--85239912 Score: 215
Period size: 45 Copynumber: 3.8 Consensus size: 45
85239732 AACCCGCCCC
*
85239742 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCA
*
85239787 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTGCATCCA
* * *
85239835 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCA
85239879 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85239913 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCA
Found at i:85239858 original size:92 final size:92
Alignment explanation
Indices: 85239747--85239915 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
85239737 GCCCCTAAGT
*
85239747 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
85239811 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
85239839 GAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
85239904 GAGTTCGGATGC
66 GAGTTCGGATGC
85239916 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 71 0.96
93 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85240369 original size:30 final size:30
Alignment explanation
Indices: 85240335--85240394 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
85240325 ATTTAATACG
85240335 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
85240365 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
85240395 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:85241332 original size:25 final size:24
Alignment explanation
Indices: 85241304--85241427 Score: 72
Period size: 25 Copynumber: 5.0 Consensus size: 24
85241294 GAAAGCCCTT
*
85241304 TGAGCCATATAACTGGAAGCTCATG
1 TGAGCCATATATC-GGAAGCTCATG
** *
85241329 TGAGCTTTACATCGAGAAGCTCATG
1 TGAGCCATATATCG-GAAGCTCATG
*
85241354 CGAGCCA-ATTATCGGGAAGCTCATG
1 TGAGCCATA-TATC-GGAAGCTCATG
* * *
85241379 AGAGCCAT-TAATCGGGAATCTCGTG
1 TGAGCCATAT-ATC-GGAAGCTCATG
* * *
85241404 AGAGCCAAATATCGGGATGCTCAT
1 TGAGCCATATATC-GGAAGCTCAT
85241428 AAGAGCTGTG
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
24 3 0.04
25 73 0.94
26 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (24 bp):
TGAGCCATATATCGGAAGCTCATG
Found at i:85241409 original size:50 final size:51
Alignment explanation
Indices: 85241318--85241433 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 51
85241308 CCATATAACT
* * * *
85241318 GGAAGCTCATGTGAG-CTTTACATCGAGAAGCTCATGCGAGCCAATTATCG
1 GGAAGCTCATGAGAGCCATTACATCGAGAAGCTCATGAGAGCCAAATATCG
* * *
85241368 GGAAGCTCATGAGAGCCATTA-ATCGGGAATCTCGTGAGAGCCAAATATCG
1 GGAAGCTCATGAGAGCCATTACATCGAGAAGCTCATGAGAGCCAAATATCG
* *
85241418 GGATGCTCATAAGAGC
1 GGAAGCTCATGAGAGC
85241434 TGTGGTGTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 52 0.93
51 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (51 bp):
GGAAGCTCATGAGAGCCATTACATCGAGAAGCTCATGAGAGCCAAATATCG
Found at i:85241432 original size:25 final size:25
Alignment explanation
Indices: 85241347--85241433 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
85241337 ACATCGAGAA
* *
85241347 GCTCATGCGAGCCAATTATCGGGAA
1 GCTCATGAGAGCCAATTATCGGGAT
85241372 GCTCATGAGAGCC-ATTAATCGGGAAT
1 GCTCATGAGAGCCAATT-ATCGGG-AT
* *
85241398 -CTCGTGAGAGCCAAATATCGGGAT
1 GCTCATGAGAGCCAATTATCGGGAT
*
85241422 GCTCATAAGAGC
1 GCTCATGAGAGC
85241434 TGTGGTGTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 5 0.10
25 44 0.85
26 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.21
Consensus pattern (25 bp):
GCTCATGAGAGCCAATTATCGGGAT
Found at i:85250383 original size:200 final size:200
Alignment explanation
Indices: 85250073--85250432 Score: 551
Period size: 200 Copynumber: 1.8 Consensus size: 200
85250063 TCGGAACTTT
* * *
85250073 GGTTTCGAGACCACAAATTCGAGATAGAAATAATGATTTTATGATTATTATGAGGTCCATGATAT
1 GGTTTCGAGACCACAAATCCAAGATAGAAATAATGATTTTATGATTATCATGAGGTCCATGATAT
* *
85250138 GTATGCATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
66 GAATACATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
* * *
85250203 GGGATCAAATTGAAT-AAGATGCAAAACTTGTGTTCTGTAACATCCCGAATTAAGGCCCAGTCAG
131 AGGACCAAATTGAATAAAG-TGAAAAACTTGTGTTCTGTAACATCCCGAATTAAGGCCCAGTCAG
85250267 AATAGA
195 AATAGA
* * ** *
85250273 GGTTTCGAGACCACAAATCCAAGATAGAAATAATTATTTTATGATTCTCATGAGGTTTATGTTAT
1 GGTTTCGAGACCACAAATCCAAGATAGAAATAATGATTTTATGATTATCATGAGGTCCATGATAT
* * * *
85250338 GAATACATGCTTGTGTGAAAGTTTCATGAAGAAATTTTATGCATAAAATGTCTAATTGCATTTTA
66 GAATACATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
85250403 AGGACCAAATTGAATAAAGTGAAAAACTTG
131 AGGACCAAATTGAATAAAGTGAAAAACTTG
85250433 CATTCTAGAA
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
200 139 0.98
201 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (200 bp):
GGTTTCGAGACCACAAATCCAAGATAGAAATAATGATTTTATGATTATCATGAGGTCCATGATAT
GAATACATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
AGGACCAAATTGAATAAAGTGAAAAACTTGTGTTCTGTAACATCCCGAATTAAGGCCCAGTCAGA
ATAGA
Found at i:85251618 original size:18 final size:18
Alignment explanation
Indices: 85251595--85251659 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
85251585 GATACGAGCA
85251595 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
85251613 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
85251631 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
* *
85251649 TTCGAGTTCGT
1 TCCGAGCTCGT
85251660 AATAGATGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.15, C:0.22, G:0.37, T:0.26
Consensus pattern (18 bp):
TCCGAGCTCGTTGAGAGG
Found at i:85252774 original size:40 final size:41
Alignment explanation
Indices: 85252708--85252788 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 41
85252698 TGTTTGAATG
* * *
85252708 TATGGGTGACTATTGGTTTGGAAAATAGCCTTTAAATGGTC
1 TATGAGTGACTATTGGCTTGGAAAATAGCCCTTAAATGGTC
85252749 TATGAGTGACTATT-GCTTGGAAAATAGCCCTTAAATGGTC
1 TATGAGTGACTATTGGCTTGGAAAATAGCCCTTAAATGGTC
85252789 CACAAGGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 24 0.65
41 13 0.35
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (41 bp):
TATGAGTGACTATTGGCTTGGAAAATAGCCCTTAAATGGTC
Found at i:85255598 original size:9 final size:9
Alignment explanation
Indices: 85255575--85255633 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
85255565 ATAAATATAA
*
85255575 AATTAACCG
1 AATTAATCG
*
85255584 AGTTAATCG
1 AATTAATCG
85255593 AATTAATCG
1 AATTAATCG
85255602 AATT-ATCCG
1 AATTAAT-CG
**
85255611 AATTACCCG
1 AATTAATCG
85255620 AATTAATCG
1 AATTAATCG
85255629 AATTA
1 AATTA
85255634 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 2 0.05
9 39 0.95
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (9 bp):
AATTAATCG
Found at i:85255598 original size:18 final size:18
Alignment explanation
Indices: 85255575--85255633 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
85255565 ATAAATATAA
*
85255575 AATTAACCGAGTTAATCG
1 AATTAACCGAATTAATCG
*
85255593 AATTAATCGAATT-ATCCG
1 AATTAACCGAATTAAT-CG
*
85255611 AATTACCCGAATTAATCG
1 AATTAACCGAATTAATCG
85255629 AATTA
1 AATTA
85255634 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:85255606 original size:27 final size:27
Alignment explanation
Indices: 85255575--85255633 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
85255565 ATAAATATAA
* *
85255575 AATTAACCGAGTTAATCGAATTAATCG
1 AATTAACCGAATTAACCGAATTAATCG
* *
85255602 AATTATCCGAATTACCCGAATTAATCG
1 AATTAACCGAATTAACCGAATTAATCG
85255629 AATTA
1 AATTA
85255634 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTAATCG
Found at i:85255734 original size:13 final size:13
Alignment explanation
Indices: 85255718--85255742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85255708 AATTTTTATG
85255718 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
85255731 ATTGGGTTGGGT
1 ATTGGGTTGGGT
85255743 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:85255742 original size:18 final size:18
Alignment explanation
Indices: 85255719--85255756 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
85255709 ATTTTTATGA
85255719 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
85255737 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
85255755 TT
1 TT
85255757 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:85258004 original size:46 final size:47
Alignment explanation
Indices: 85257931--85258207 Score: 201
Period size: 46 Copynumber: 5.9 Consensus size: 47
85257921 TGGTTATTAT
85257931 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGGCGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGGCGA
* * * *
85257978 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTTGAGAC-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGCATTGAGGCGA
* * *
85258023 TAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC--T-ACGAGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGAGGCGA
* * * * * *
85258067 TGTGTCAGTGTAAGACCATATCTGGGACATGGCATCGACATAGCTATGTGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CATTG--AGGCGA
* * * * **
85258118 GAGCAAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGA-GGCGA
* * * *
85258167 TAGTCAGGGTAAGACCATGTTTGGGACATGGCATCGGCATT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCATT
85258208 CTACCCCATG
Statistics
Matches: 181, Mismatches: 35, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 14 0.08
45 19 0.10
46 60 0.33
47 13 0.07
48 1 0.01
49 35 0.19
50 33 0.18
51 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGGCGA
Found at i:85260603 original size:43 final size:43
Alignment explanation
Indices: 85260528--85260651 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
85260518 TTTGAACTTA
* *
85260528 TTCACCGGCATT-TCA-CCTGTTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTAT-AGCCTGCTAGGCTCGAAGCCCGATATCAT
*
85260570 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCAT
* * *
85260613 CTCACTGGTATTATAGCCTGCTAGGC-CTGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCTC-GAAGCCCGATA
85260652 ATATTATTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
42 14 0.19
43 59 0.81
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCAT
Found at i:85265423 original size:16 final size:17
Alignment explanation
Indices: 85265391--85265424 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
85265381 GTCAACGCCT
85265391 AGATCGAATCGAATGAG
1 AGATCGAATCGAATGAG
*
85265408 AGATGGAATC-AATGAG
1 AGATCGAATCGAATGAG
85265424 A
1 A
85265425 ACAGAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (17 bp):
AGATCGAATCGAATGAG
Found at i:85267191 original size:21 final size:21
Alignment explanation
Indices: 85267167--85267210 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
85267157 GTAAAAGTGG
*
85267167 CATAACCGTTGGATGTTGTGA
1 CATAACCATTGGATGTTGTGA
85267188 CATAACCATTGGATGTTGTGA
1 CATAACCATTGGATGTTGTGA
85267209 CA
1 CA
85267211 CACCCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (21 bp):
CATAACCATTGGATGTTGTGA
Found at i:85269491 original size:27 final size:26
Alignment explanation
Indices: 85269443--85269494 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
85269433 GCGAGGCTAC
*
85269443 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
85269469 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
85269495 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:85281649 original size:27 final size:27
Alignment explanation
Indices: 85281618--85281768 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
85281608 TAAATTGTAC
85281618 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
85281645 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85281672 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
85281700 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
85281727 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
85281754 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85281769 GACTCAATAT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 86 0.78
28 24 0.22
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:85281705 original size:55 final size:55
Alignment explanation
Indices: 85281617--85281768 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
85281607 TTAAATTGTA
*
85281617 CAGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCATG
* * * **
85281671 CGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCATG
* * * *
85281726 TAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG
85281769 GACTCAATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 37 0.43
55 49 0.57
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (55 bp):
CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCATG
Found at i:85290188 original size:438 final size:439
Alignment explanation
Indices: 85289326--85290204 Score: 1733
Period size: 440 Copynumber: 2.0 Consensus size: 439
85289316 ATTGACTATT
85289326 ATAAAGCTTACTATAATCTATGTGTGTGAAAGTCAAATCAATATATATATTATTCTGAAAGTAAT
1 ATAAAGCTTACTATAATCTATGTGTGTGAAAGTCAAATCAATATATATATTATTCTGAAAGTAAT
85289391 ACTTGAATAGTCGATTAATGACTATTTTAAATTATTGATTTGGCTCAAGGAGTTAAAGGAGGTGA
66 ACTTGAATAGTCGATTAATGACTATTTTAAATTATTGATTTGGCTCAAGGAGTTAAAGGAGGTGA
85289456 ATCGAGCAAAGGCAAAGAAAAGGTTATCGAGTAGCCGAGTTGGAACCGTCTTACCCAACACGAGG
131 ATCGAGCAAAGGCAAAGAAAAGGTTATCGAGTAGCCGAGTTGGAACCGTCTTACCCAACACGAGG
85289521 TAAGTCATTAAGCATGTAGTTGGTATTATTTCAAATGGTCATAATGTGTATGTATTGATGCTGAA
196 TAAGTCATTAAGCATGTAGTTGGTATTATTTCAAATGGTCATAATGTGTATGTATTGATGCTGAA
85289586 TGGAATGAATAAATATACATATATATATATATATATGCATGTACGTATGTGATGATGAAATTGTT
261 TGGAATGAATAAATATACA-ATATATATATATATATGCATGTACGTATGTGATGATGAAATTGTT
85289651 GAATGAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAACGAGCGGGATAACC
325 GAATGAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAACGAGCGGGATAACC
85289716 ATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTAAATTGTACAGC
390 ATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTAAATTGTACAGC
85289766 ATAAAGCTTACTATAATCTATGTGTGTGAAAGTCAAATCAATATATATATTATTCTGAAAGTAAT
1 ATAAAGCTTACTATAATCTATGTGTGTGAAAGTCAAATCAATATATATATTATTCTGAAAGTAAT
85289831 ACTTGAATAGTCGATTAATGACTATTTTAAATTATTGATTTGGCTCAAGGAGTTAAAGGAGGTGA
66 ACTTGAATAGTCGATTAATGACTATTTTAAATTATTGATTTGGCTCAAGGAGTTAAAGGAGGTGA
85289896 ATCGAGCAAAGGCAAAGAAAAGGTTATCGAGTAGCCGAGTTGGAACCGTCTTACCCAACACGAGG
131 ATCGAGCAAAGGCAAAGAAAAGGTTATCGAGTAGCCGAGTTGGAACCGTCTTACCCAACACGAGG
85289961 TAAGTCATTAAGCATGTAGTTGGTATTATTTCAAATGGTCATAATGTGTATGTATTGATGCTGAA
196 TAAGTCATTAAGCATGTAGTTGGTATTATTTCAAATGGTCATAATGTGTATGTATTGATGCTGAA
85290026 TGGAATGAATAAATATAC-ATATATATATATATATGCATGTACGTATGTGATGATGAAATTGTTG
261 TGGAATGAATAAATATACAATATATATATATATATGCATGTACGTATGTGATGATGAAATTGTTG
*
85290090 AATGAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAACGTGCGGGATAACCA
326 AATGAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAACGAGCGGGATAACCA
85290155 TTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTAAATTGTACAGC
391 TTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTAAATTGTACAGC
85290204 A
1 A
85290205 CTAAGTGTGC
Statistics
Matches: 438, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
438 160 0.37
440 278 0.63
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (439 bp):
ATAAAGCTTACTATAATCTATGTGTGTGAAAGTCAAATCAATATATATATTATTCTGAAAGTAAT
ACTTGAATAGTCGATTAATGACTATTTTAAATTATTGATTTGGCTCAAGGAGTTAAAGGAGGTGA
ATCGAGCAAAGGCAAAGAAAAGGTTATCGAGTAGCCGAGTTGGAACCGTCTTACCCAACACGAGG
TAAGTCATTAAGCATGTAGTTGGTATTATTTCAAATGGTCATAATGTGTATGTATTGATGCTGAA
TGGAATGAATAAATATACAATATATATATATATATGCATGTACGTATGTGATGATGAAATTGTTG
AATGAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAACGAGCGGGATAACCA
TTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTAAATTGTACAGC
Found at i:85290232 original size:27 final size:26
Alignment explanation
Indices: 85290201--85290378 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
85290191 TAAATTGTAC
85290201 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
85290228 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
85290254 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
85290282 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
85290310 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
85290337 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
85290364 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85290379 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:85290317 original size:82 final size:81
Alignment explanation
Indices: 85290202--85290357 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
85290192 AAATTGTACA
*
85290202 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
85290266 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
85290283 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
85290348 TGCGAGTTGA
65 TGCGAATTGA
85290358 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85290369 original size:82 final size:81
Alignment explanation
Indices: 85290198--85290378 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
85290188 GATTAAATTG
*
85290198 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
85290263 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
85290279 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
85290343 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
85290361 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
85290379 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85301943 original size:146 final size:146
Alignment explanation
Indices: 85301679--85301966 Score: 558
Period size: 146 Copynumber: 2.0 Consensus size: 146
85301669 ACCTTCGATG
*
85301679 GCATGACACAACCTAAGTGTGTTGTGACATACCCTTGAAGACATCCCAAAGAAATGTATACTTAC
1 GCATGACACAACCTAAGTGTGTTGTGACATACCCTTGAAGACATCCCAAAGAAAAGTATACTTAC
85301744 TTCTTTGTCGCGACACATGTCCTGATGTGTCGTGACATCGACTCTAGATGGGAAATAATATGAGC
66 TTCTTTGTCGCGACACATGTCCTGATGTGTCGTGACATCGACTCTAGATGGGAAATAATATGAGC
85301809 TAGGGGCGTTTTGGTT
131 TAGGGGCGTTTTGGTT
*
85301825 GCATGACACAGCCTAAGTGTGTTGTGACATACCCTTGAAGACATCCCAAAGAAAAGTATACTTAC
1 GCATGACACAACCTAAGTGTGTTGTGACATACCCTTGAAGACATCCCAAAGAAAAGTATACTTAC
85301890 TTCTTTGTCGCGACACATGTCCTGATGTGTCGTGACATCGACTCTAGATGGGAAATAATATGAGC
66 TTCTTTGTCGCGACACATGTCCTGATGTGTCGTGACATCGACTCTAGATGGGAAATAATATGAGC
85301955 TAGGGGCGTTTT
131 TAGGGGCGTTTT
85301967 AGTCCATATA
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 140 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (146 bp):
GCATGACACAACCTAAGTGTGTTGTGACATACCCTTGAAGACATCCCAAAGAAAAGTATACTTAC
TTCTTTGTCGCGACACATGTCCTGATGTGTCGTGACATCGACTCTAGATGGGAAATAATATGAGC
TAGGGGCGTTTTGGTT
Found at i:85320067 original size:79 final size:81
Alignment explanation
Indices: 85319931--85320113 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
85319921 TCGAATGATG
* *
85319931 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
85319995 TGTGCGAGTTA-CTAA
66 TGTGCGAGTTACCTAA
* * * **
85320010 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
85320072 TTTGTGCGAGTTACTCTAA
64 TTTGTGCGAGTTAC-CTAA
*
85320091 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
85320114 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 29 0.32
81 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACCTAA
Found at i:85320122 original size:40 final size:41
Alignment explanation
Indices: 85319931--85320115 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
85319921 TCGAATGATG
* *
85319931 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-C-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTCTA-A
*
85319971 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA--CTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTCTAA
* *
85320010 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT-AAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA
*
85320050 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA
*
85320091 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85320116 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
39 33 0.26
40 82 0.66
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA
Found at i:85320137 original size:79 final size:78
Alignment explanation
Indices: 85319984--85320148 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 78
85319974 GGACTAAGAT
**
85319984 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
85320049 ATCCGGGTTAAGTC
65 ATCCGGGTTAAATC
* *
85320063 CCGAAGGCATTTGTGCGAGTTACTCTAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTA--CTAATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
85320126 TATATTC-GGTTAAATT
62 TAAATCCGGGTTAAATC
85320142 CCGAAGG
1 CCGAAGG
85320149 TACGTGATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
79 47 0.64
80 23 0.31
81 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:85325699 original size:20 final size:20
Alignment explanation
Indices: 85325674--85325740 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
85325664 GTTTTGATAT
85325674 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
85325694 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85325714 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
85325734 ACATGAT
1 ACATGAT
85325741 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85325701 original size:11 final size:11
Alignment explanation
Indices: 85325685--85325740 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
85325675 CATGATTGAT
85325685 ATGATATGCAC
1 ATGATATGCAC
*
85325696 ATGATATG--T
1 ATGATATGCAC
85325705 ATGATATGCAC
1 ATGATATGCAC
* *
85325716 ATGGTATG--T
1 ATGATATGCAC
85325725 ATGATATGCAC
1 ATGATATGCAC
85325736 ATGAT
1 ATGAT
85325741 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:85325842 original size:26 final size:25
Alignment explanation
Indices: 85325787--85325890 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
85325777 GAGGAAGTGC
* * **
85325787 AAAAAGGGCTATGCCTCAGTTTACCG
1 AAAAAGGGCTTTGCCCCAGTTTA-TT
85325813 AAAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAAGGGC-TTTGCCCCAGTTTATT
85325839 -AAAAGGGCTTTTGCCCCAGTTTA-T
1 AAAAAGGGC-TTTGCCCCAGTTTATT
* *
85325863 CAAAAGGGCTTTGCCCTAG-TTATT
1 AAAAAGGGCTTTGCCCCAGTTTATT
85325887 AAAA
1 AAAA
85325891 GAAACTAGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.04
24 14 0.20
25 31 0.45
26 9 0.13
27 12 0.17
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATT
Found at i:85326143 original size:31 final size:31
Alignment explanation
Indices: 85326105--85326168 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
85326095 CGTTTACAGT
85326105 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* * **
85326136 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
85326167 AA
1 AA
85326169 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:85335198 original size:17 final size:17
Alignment explanation
Indices: 85335156--85335200 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 17
85335146 AGTGTAGCGC
85335156 ATACTCCTGCACAAGGG
1 ATACTCCTGCACAAGGG
85335173 ATA-----GCACAAGGG
1 ATACTCCTGCACAAGGG
85335185 ATACTCCTGCACAAGG
1 ATACTCCTGCACAAGG
85335201 AGAGGCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
12 12 0.52
17 11 0.48
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (17 bp):
ATACTCCTGCACAAGGG
Found at i:85337296 original size:18 final size:20
Alignment explanation
Indices: 85337269--85337310 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
85337259 TATAGACTCA
85337269 ATATAAAAC-TAAACAT-AT
1 ATATAAAACTTAAACATCAT
* *
85337287 ATATATAACTTAATCATCAT
1 ATATAAAACTTAAACATCAT
85337307 ATAT
1 ATAT
85337311 GCATGCAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAACTTAAACATCAT
Found at i:85338472 original size:21 final size:21
Alignment explanation
Indices: 85338439--85338489 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
85338429 GGCTTAAAAT
* *
85338439 TAATTTAGAAACAATTCGGGAC
1 TAATTT-GAAACAAATCGAGAC
*
85338461 TAATTTGAAACAAATCGAGAT
1 TAATTTGAAACAAATCGAGAC
85338482 TAATTTGA
1 TAATTTGA
85338490 GAAAAAGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (21 bp):
TAATTTGAAACAAATCGAGAC
Found at i:85342247 original size:17 final size:17
Alignment explanation
Indices: 85342225--85342258 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
85342215 TGAGTTCTAG
85342225 TAGCTATA-AGTATCAAA
1 TAGCTATAGAGT-TCAAA
85342242 TAGCTATAGAGTTCAAA
1 TAGCTATAGAGTTCAAA
85342259 ATTTGAGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (17 bp):
TAGCTATAGAGTTCAAA
Found at i:85344048 original size:17 final size:18
Alignment explanation
Indices: 85344010--85344048 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
85344000 AGTTTTGATG
85344010 TTTTGCTCTTCAATTCAT
1 TTTTGCTCTTCAATTCAT
*
85344028 TTTTGGCTCTTC-TTTCAT
1 TTTT-GCTCTTCAATTCAT
85344046 TTT
1 TTT
85344049 ACTTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.10, C:0.21, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTGCTCTTCAATTCAT
Found at i:85346104 original size:14 final size:15
Alignment explanation
Indices: 85346075--85346104 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85346065 AAAAATTAAG
85346075 ACATGATACTTTCAC
1 ACATGATACTTTCAC
85346090 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
85346104 A
1 A
85346105 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:85349381 original size:40 final size:40
Alignment explanation
Indices: 85349307--85349448 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
85349297 AACCCAAGTA
* * *
85349307 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
85349346 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
85349386 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
85349426 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
85349449 CATTCGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 11 0.11
40 84 0.88
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:85355371 original size:27 final size:27
Alignment explanation
Indices: 85355338--85355740 Score: 315
Period size: 27 Copynumber: 15.0 Consensus size: 27
85355328 ACCCCTGTAG
*
85355338 GGTAAAATGACAGTTTTGCCCTTATAT
1 GGTAAAATGACAGTTTTGCCCTTATGT
*
85355365 GGCAAAATGAC-GATTTTGCCCTTATGT
1 GGTAAAATGACAG-TTTTGCCCTTATGT
* * * *
85355392 GATAAATTGACAGTTTTTCCCTTATAT
1 GGTAAAATGACAGTTTTGCCCTTATGT
**
85355419 GGTAAAATGACTA-TTTTGCCCTTATAC
1 GGTAAAATGAC-AGTTTTGCCCTTATGT
* *
85355446 GTTAAATTGAC-GATTTTGCCCTTATGT
1 GGTAAAATGACAG-TTTTGCCCTTATGT
* * **
85355473 GGCAAAATGACTA-TTTTTCCCTTATAC
1 GGTAAAATGAC-AGTTTTGCCCTTATGT
* *
85355500 GTTAAATTGAC-GATTTTGCCCTTATGT
1 GGTAAAATGACAG-TTTTGCCCTTATGT
* * *
85355527 GGCAAAAT-A-ACTTTTGCCCTTATGC
1 GGTAAAATGACAGTTTTGCCCTTATGT
*
85355552 GTTAAAATGAC-GATTTTGCCCTTATGT
1 GGTAAAATGACAG-TTTTGCCCTTATGT
* * * *
85355579 GATAAATTGACAATTTTGCCCTTATAT
1 GGTAAAATGACAGTTTTGCCCTTATGT
* * *
85355606 GATAAAATGATAGTTTTTCCCTTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGT
* *
85355633 GGCAAAATGACTA-TTTTGCCCTTATGC
1 GGTAAAATGAC-AGTTTTGCCCTTATGT
* *
85355660 GTTAAATTGACAGTTTT-CCCTTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGT
* * *
85355686 GATAAAATGA-TGATTTCGCCCTTATGT
1 GGTAAAATGACAG-TTTTGCCCTTATGT
* ** *
85355713 GGCAAAATGATTGTTTTGCCCCTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGT
85355740 G
1 G
85355741 ATGTATGTTT
Statistics
Matches: 295, Mismatches: 62, Indels: 38
0.75 0.16 0.10
Matches are distributed among these distances:
25 20 0.07
26 23 0.08
27 247 0.84
28 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (27 bp):
GGTAAAATGACAGTTTTGCCCTTATGT
Found at i:85355407 original size:54 final size:54
Alignment explanation
Indices: 85355340--85355711 Score: 425
Period size: 54 Copynumber: 6.9 Consensus size: 54
85355330 CCCTGTAGGG
* * * * *
85355340 TAAAATGACAGTTTTGCCCTTATATGGCAAAATGACGATTTTGCCCTTATGTGA
1 TAAATTGACAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
* * * *
85355394 TAAATTGACAGTTTTTCCCTTATATGGTAAAATGACTATTTTGCCCTTATACGT
1 TAAATTGACAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
* *
85355448 TAAATTGAC-GATTTTGCCCTTATGTGGCAAAATGACTATTTTTCCCTTATACGT
1 TAAATTGACAG-TTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
*
85355502 TAAATTGAC-GATTTTGCCCTTATGTGGCAAAATAAC--TTTTGCCCTTATGCGT
1 TAAATTGACAG-TTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
* ** * * ** *
85355554 TAAAATGAC-GATTTTGCCCTTATGTGATAAATTGACAATTTTGCCCTTATATGA
1 TAAATTGACAG-TTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
* * *
85355608 TAAAATGATAGTTTTTCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
1 TAAATTGACAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
** *
85355662 TAAATTGACAGTTTT-CCCTTATGTGATAAAATGA-TGATTTCGCCCTTATG
1 TAAATTGACAGTTTTGCCCTTATGTGGCAAAATGACT-ATTTTGCCCTTATG
85355712 TGGCAAAATG
Statistics
Matches: 277, Mismatches: 36, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
52 46 0.17
53 31 0.11
54 199 0.72
55 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (54 bp):
TAAATTGACAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGCGT
Found at i:85355436 original size:81 final size:80
Alignment explanation
Indices: 85355338--85355733 Score: 388
Period size: 81 Copynumber: 4.9 Consensus size: 80
85355328 ACCCCTGTAG
* ** ** *
85355338 GGTAAAATGACAGTTTTGCCCTTATATGGCAAAATGACGATTTTGCCCTTATGTGATAAATTGAC
1 GGTAAATTGACA-TTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGAC
* *
85355403 -AGTTTTTCCCTTATAT
65 TA-TTTTGCCCTTATAC
* * * *
85355419 GGTAAAATGACTATTTTGCCCTTATACGTTAAATTGACGATTTTGCCCTTATGTGGCAAAATGAC
1 GGTAAATTGAC-ATTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGAC
*
85355484 TATTTTTCCCTTATAC
65 TATTTTGCCCTTATAC
* * ** * * **
85355500 GTTAAATTGACGATTTTGCCCTTATGTGGCAAAATAAC--TTTTGCCCTTATGCGTTAAAATGAC
1 GGTAAATTGAC-ATTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGAC
* **
85355563 GATTTTGCCCTTATGT
65 TATTTTGCCCTTATAC
* * *
85355579 GATAAATTGACAATTTTGCCCTTATATGATAAAATGA-TAGTTTTTCCCTTATGTGGCAAAATGA
1 GGTAAATTGAC-ATTTTGCCCTTATATGATAAAATGACGA-TTTTGCCCTTATGTGGCAAAATGA
*
85355643 CTATTTTGCCCTTATGC
64 CTATTTTGCCCTTATAC
* * * * *
85355660 GTTAAATTGACAGTTTT-CCCTTATGTGATAAAATGATGATTTCGCCCTTATGTGGCAAAATGAT
1 GGTAAATTGACA-TTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGAC
*
85355724 TGTTTTGCCC
65 TATTTTGCCC
85355734 CTATGTGATG
Statistics
Matches: 265, Mismatches: 43, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
79 65 0.25
80 50 0.19
81 148 0.56
82 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (80 bp):
GGTAAATTGACATTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGACT
ATTTTGCCCTTATAC
Found at i:85360238 original size:24 final size:24
Alignment explanation
Indices: 85360206--85360293 Score: 108
Period size: 24 Copynumber: 3.7 Consensus size: 24
85360196 TCTTACTTAT
*
85360206 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCAAGTTTTC
* **
85360230 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCAAGTTTTC
85360254 TCGCACACATAGTGCCATTAGTTTT-
1 TCGCACACATAGTGCCA--AGTTTTC
85360279 T-GCACACATAGTGCC
1 TCGCACACATAGTGCC
85360294 GCATAACCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 52 0.93
25 1 0.02
26 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCCAAGTTTTC
Found at i:85360267 original size:48 final size:47
Alignment explanation
Indices: 85360206--85360316 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
85360196 TCTTACTTAT
* ** *
85360206 TCGCACACATAGTGCCA-CGTTTTCTCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCATAGTTTT-T-GCACACATAGTGCCACATAACC
*
85360254 TCGCACACATAGTGCCATTAGTTTTTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCA-TAGTTTTTGCACACATAGTGCCACATAACC
*
85360302 TTGCACACATAGTGC
1 TCGCACACATAGTGC
85360317 TGAAATTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
48 49 0.89
49 1 0.02
50 5 0.09
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
TCGCACACATAGTGCCATAGTTTTTGCACACATAGTGCCACATAACC
Found at i:85360308 original size:72 final size:73
Alignment explanation
Indices: 85360174--85360316 Score: 175
Period size: 72 Copynumber: 2.0 Consensus size: 73
85360164 GTGCTCGATT
* ***
85360174 TGTAAGTCCGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCTCGCACACA
1 TGTAAGTCCGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACATAACCTCGCACACA
85360239 TAGTGCCA
66 TAGTGCCA
* * * *
85360247 TGTAA-TCTCGCACACATAGTGC-CATTAGTT-TTTGCACACATAGTGCCGCATAACCTTGCACA
1 TGTAAGTC-CGCACACATAGTGCTC-TTACTTATTCGCACACATAGTGCCACATAACCTCGCACA
85360309 CATAGTGC
64 CATAGTGC
85360317 TGAAATTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
72 36 0.60
73 24 0.40
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (73 bp):
TGTAAGTCCGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACATAACCTCGCACACA
TAGTGCCA
Found at i:85361053 original size:20 final size:21
Alignment explanation
Indices: 85361018--85361066 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
85361008 CACTTATTTT
* * *
85361018 TTATTTCTTCTTTTATTCCTA
1 TTATTTATTTTTTTATTCATA
85361039 TT-TTTATTTTTTTATTCATA
1 TTATTTATTTTTTTATTCATA
85361059 TTATTTAT
1 TTATTTAT
85361067 GATATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTATTTTTTTATTCATA
Found at i:85378391 original size:28 final size:28
Alignment explanation
Indices: 85378325--85378380 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
85378315 CCTTCTTAAT
85378325 GCAAACTTTCTCCTCCAATGTTAGTAGG
1 GCAAACTTTCTCCTCCAATGTTAGTAGG
85378353 GCAAACTTTCTCCTCCAATGTTAGTAGG
1 GCAAACTTTCTCCTCCAATGTTAGTAGG
85378381 TTGTCTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
GCAAACTTTCTCCTCCAATGTTAGTAGG
Found at i:85387529 original size:24 final size:24
Alignment explanation
Indices: 85387495--85387552 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
85387485 CCAATTAGGG
85387495 CACAAAGAACCTTTTCAGGAAGTT
1 CACAAAGAACCTTTTCAGGAAGTT
* *
85387519 CACAAAAAACCTTTTCGGGAAGTT
1 CACAAAGAACCTTTTCAGGAAGTT
85387543 CA-AAAGAACC
1 CACAAAGAACC
85387553 ATATCGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (24 bp):
CACAAAGAACCTTTTCAGGAAGTT
Found at i:85387559 original size:23 final size:23
Alignment explanation
Indices: 85387498--85387592 Score: 73
Period size: 24 Copynumber: 4.0 Consensus size: 23
85387488 ATTAGGGCAC
* * *
85387498 AAAGAACCTTTTCAGGAAGTTCA
1 AAAGAACCATATCGGGAAGTTCA
* * *
85387521 CAAAAAACCTTTTCGGGAAGTTCA
1 -AAAGAACCATATCGGGAAGTTCA
* *
85387545 AAAGAACCATATCGGGAAGATCC
1 AAAGAACCATATCGGGAAGTTCA
* * *
85387568 AGATAGCCATTATCGGGAAGTTCA
1 AAAGAACCA-TATCGGGAAGTTCA
85387592 A
1 A
85387593 GTGAGCATTA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
23 24 0.41
24 34 0.59
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (23 bp):
AAAGAACCATATCGGGAAGTTCA
Found at i:85387586 original size:24 final size:23
Alignment explanation
Indices: 85387554--85387610 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
85387544 AAAAGAACCA
*
85387554 TATCGGGAAGATCCAGAT-AGCCAT
1 TATCGGGAAGATCAAG-TGAG-CAT
*
85387578 TATCGGGAAGTTCAAGTGAGCAT
1 TATCGGGAAGATCAAGTGAGCAT
85387601 TATCGGGAAG
1 TATCGGGAAG
85387611 CTCATAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (23 bp):
TATCGGGAAGATCAAGTGAGCAT
Found at i:85387661 original size:25 final size:26
Alignment explanation
Indices: 85387604--85387654 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
85387594 TGAGCATTAT
*
85387604 CGGGAAGCTCATAAAGAGCCAATTTAA
1 CGGGAAGCTCACAAAGAGCC-ATTTAA
85387631 CGGGAAGCTCACAAAGAGCC-TTTA
1 CGGGAAGCTCACAAAGAGCCATTTA
85387655 TTCGGAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
27 19 0.83
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CGGGAAGCTCACAAAGAGCCATTTAA
Found at i:85392152 original size:42 final size:42
Alignment explanation
Indices: 85392067--85392246 Score: 211
Period size: 42 Copynumber: 4.2 Consensus size: 42
85392057 TCCCAGACGT
* * * *
85392067 GGTCTTACATGTAATCAAATATCGATGCCATTGTCCCATATAG
1 GGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGATAG
85392110 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGATAG
1 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGATAG
* * * *
85392152 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGATAG
**
85392194 GGTCTTACACGTAAATCATAAGT-CGATGCCAACATCCCAGAT-G
1 GGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCCCAGATAG
85392237 TGGTCTTACA
1 -GGTCTTACA
85392247 TGATAACACA
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
42 67 0.56
43 25 0.21
44 26 0.22
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGATAG
Found at i:85393347 original size:13 final size:13
Alignment explanation
Indices: 85393329--85393353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85393319 TTATCAAATT
85393329 AAATTTTCACACG
1 AAATTTTCACACG
85393342 AAATTTTCACAC
1 AAATTTTCACAC
85393354 ATACTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:85398069 original size:48 final size:48
Alignment explanation
Indices: 85397998--85398577 Score: 872
Period size: 48 Copynumber: 12.0 Consensus size: 48
85397988 CAAGATAAAT
* ** *
85397998 ATATATATGTGTGGTAAAGCCGAATTTCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
85398046 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
85398094 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
85398142 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
85398190 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
85398238 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** *
85398286 ATATGTATATGTGGTAAAGCCGAATGGCTAACATCAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
85398334 ATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATATATGAG
1 --ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
85398384 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
85398432 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
85398480 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
85398528 ATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
85398576 AT
1 AT
85398578 GTGTGTATAT
Statistics
Matches: 486, Mismatches: 44, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
48 444 0.91
50 42 0.09
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:85398762 original size:37 final size:37
Alignment explanation
Indices: 85398707--85398857 Score: 259
Period size: 37 Copynumber: 4.1 Consensus size: 37
85398697 ACATGAAACT
85398707 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAGAT-TATGTCCGGGTAAGACCCGATGACTACGTG
*
85398744 TGGAGATTATGTCTGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
85398781 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* *
85398818 TGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
85398855 TGG
1 TGG
85398858 GGACTATTCG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 3 0.03
37 106 0.97
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:85403562 original size:40 final size:40
Alignment explanation
Indices: 85403468--85403648 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
85403458 TACTCGAATG
* * *
85403468 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTATGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
85403509 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* * *
85403549 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * **
85403589 ATATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
85403628 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
85403649 ATGCTTGATT
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 12 0.10
39 16 0.14
40 59 0.51
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:85419718 original size:43 final size:43
Alignment explanation
Indices: 85419657--85419777 Score: 190
Period size: 43 Copynumber: 2.8 Consensus size: 43
85419647 CTCCAATATG
* * *
85419657 TGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATAGT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCCATAGT
85419700 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCCATAGT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCCATAGT
* *
85419743 T-ATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
85419778 TGTACGAGCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
42 32 0.44
43 41 0.56
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCCATAGT
Found at i:85424534 original size:42 final size:43
Alignment explanation
Indices: 85424432--85424582 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
85424422 TGTGTTATCG
* * * * * *
85424432 TGTAAGACCACGTCTGAGACATTGGCTTTGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * ***
85424476 TGCAAGACCACATCTGGGACGTTGGCATC-ATATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
85424518 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
85424561 TGTAAGACCACGTCTGGGACGT
1 TGTAAGACCACGTCTGGGACGT
85424583 CAGCATTGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.32
43 34 0.39
44 24 0.28
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:85425280 original size:16 final size:15
Alignment explanation
Indices: 85425255--85425290 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
85425245 TTTTCTTAAT
85425255 TTATTAATTATTATA
1 TTATTAATTATTATA
*
85425270 TTATATAATTATTATT
1 TTAT-TAATTATTATA
85425286 TTATT
1 TTATT
85425291 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Done.