Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 173 of 444
Found at i:47853453 original size:21 final size:21
Alignment explanation
Indices: 47853403--47853453 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
47853393 CCATCGCTCG
*
47853403 TGCCTCTGCCTCTCTCGTTGC
1 TGCCTCTGCCTCCCTCGTTGC
* *
47853424 AGCCGCTGCCTCCCTC-TCTGC
1 TGCCTCTGCCTCCCTCGT-TGC
47853445 TGCCTCTGC
1 TGCCTCTGC
47853454 TCTAAGTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.02, C:0.47, G:0.20, T:0.31
Consensus pattern (21 bp):
TGCCTCTGCCTCCCTCGTTGC
Found at i:47859111 original size:9 final size:9
Alignment explanation
Indices: 47859097--47859322 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
47859087 TATTTAAGTA
47859097 TTATGTAAG
1 TTATGTAAG
*
47859106 TTATGTAAT
1 TTATGTAAG
*
47859115 TTATGATATG
1 TTATG-TAAG
* * *
47859125 ATATAT-AT
1 TTATGTAAG
*
47859133 TTATGTAAA
1 TTATGTAAG
* *
47859142 TTATAT-AT
1 TTATGTAAG
*
47859150 TTATCTAAG
1 TTATGTAAG
*
47859159 TTATATAAG
1 TTATGTAAG
47859168 TTATGTAAG
1 TTATGTAAG
*
47859177 TTATGTAAA
1 TTATGTAAG
*
47859186 TTATGATATAAAA
1 TTATG---T-AAG
*
47859199 TATATTTAAG
1 T-TATGTAAG
47859209 TATTATGTAAG
1 --TTATGTAAG
47859220 TTATGTAAG
1 TTATGTAAG
* *
47859229 TTATAT-AT
1 TTATGTAAG
*
47859237 TTATCTAAG
1 TTATGTAAG
*
47859246 TTATATAAG
1 TTATGTAAG
*
47859255 TTATATAAG
1 TTATGTAAG
*
47859264 TTATGTATG
1 TTATGTAAG
*
47859273 TTATATAAG
1 TTATGTAAG
47859282 TTATGTAAG
1 TTATGTAAG
* *
47859291 TTATATATG
1 TTATGTAAG
*
47859300 TTATATAAG
1 TTATGTAAG
*
47859309 TTATGTAAA
1 TTATGTAAG
47859318 TTATG
1 TTATG
47859323 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:47859176 original size:18 final size:18
Alignment explanation
Indices: 47859097--47859322 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
47859087 TATTTAAGTA
* *
47859097 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
47859115 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
47859133 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
47859150 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
47859168 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
47859186 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
47859209 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
47859229 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
47859246 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
47859264 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
47859282 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
47859300 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
47859318 TTATG
1 TTATG
47859323 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:47859189 original size:27 final size:27
Alignment explanation
Indices: 47859150--47859322 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
47859140 AATTATATAT
*
47859150 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
47859177 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
47859209 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
47859237 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
47859264 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
47859291 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
47859318 TTATG
1 TTATG
47859323 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:47859207 original size:114 final size:114
Alignment explanation
Indices: 47859073--47859294 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
47859063 ACTAGTTATG
* * * *
47859073 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
47859137 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
47859187 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
47859252 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
47859295 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:47859447 original size:15 final size:15
Alignment explanation
Indices: 47859427--47859482 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
47859417 AAGTAGCGGG
47859427 ATTAAATAATATTTA
1 ATTAAATAATATTTA
47859442 ATTAAATAATATTT-
1 ATTAAATAATATTTA
47859456 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
47859471 ATTAAATAATAT
1 ATTAAATAATAT
47859483 ACATTCGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:47859686 original size:24 final size:24
Alignment explanation
Indices: 47859658--47859725 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
47859648 ACTTAAATGG
47859658 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
47859682 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
* *
47859706 TAAAACGGACAAGAATATTT
1 TAAAACGGACGATAATATTT
47859726 CAATAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.97
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:47860785 original size:126 final size:128
Alignment explanation
Indices: 47860617--47860916 Score: 523
Period size: 126 Copynumber: 2.4 Consensus size: 128
47860607 GATTTTATTG
* *
47860617 ATATTATATTAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGACA
1 ATATTATATAAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGACA
*
47860682 TATTATATTAATAAATAAATTTA-T-AAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
66 TATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
47860743 ATATTATATAAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGACA
1 ATATTATATAAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGACA
*
47860808 TATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGGGAC
66 TATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
* * *
47860871 ATATTATATCAATAAATAAATTCATTAAAAATTGTGATAGAAATAT
1 ATATTATATAAATAAATAAATTTATTAAAAATCGTGATAGAAATAT
47860917 AGAAATATTA
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
126 85 0.52
127 1 0.01
128 79 0.48
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (128 bp):
ATATTATATAAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGACA
TATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
Found at i:47860926 original size:64 final size:64
Alignment explanation
Indices: 47860617--47860916 Score: 523
Period size: 64 Copynumber: 4.7 Consensus size: 64
47860607 GATTTTATTG
*
47860617 ATATTATATTAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
47860681 ATATTATATTAATAAATAAATTTA-T-AAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
* *
47860743 ATATTATATAAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
47860807 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
* *
47860871 ATATTATATCAATAAATAAATTCATTAAAAATTGTGATAGAAATAT
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATAT
47860917 AGAAATATTA
Statistics
Matches: 227, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
62 60 0.26
63 2 0.01
64 165 0.73
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (64 bp):
ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
Found at i:47863902 original size:17 final size:16
Alignment explanation
Indices: 47863880--47863915 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47863870 ATTATTTTAT
47863880 ATATAAATAAAAAAACA
1 ATAT-AATAAAAAAACA
*
47863897 ATATAATTAAAAAACA
1 ATATAATAAAAAAACA
47863913 ATA
1 ATA
47863916 AGTTATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (16 bp):
ATATAATAAAAAAACA
Found at i:47864289 original size:7 final size:7
Alignment explanation
Indices: 47864277--47864348 Score: 63
Period size: 7 Copynumber: 10.0 Consensus size: 7
47864267 ATGTCCCATT
47864277 AACCCTA
1 AACCCTA
*
47864284 AACCCTTG
1 AACCC-TA
*
47864292 AACCTTA
1 AACCCTA
*
47864299 AACCATA
1 AACCCTA
47864306 AACCCTTA
1 AACCC-TA
*
47864314 ATCCCTA
1 AACCCTA
**
47864321 AACTTTA
1 AACCCTA
*
47864328 AACACTA
1 AACCCTA
47864335 AACCCTA
1 AACCCTA
47864342 AACCCTA
1 AACCCTA
47864349 TCCCATTAAC
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
7 40 0.78
8 11 0.22
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (7 bp):
AACCCTA
Found at i:47864301 original size:79 final size:79
Alignment explanation
Indices: 47864185--47864374 Score: 256
Period size: 79 Copynumber: 2.4 Consensus size: 79
47864175 TACCCTTAGC
* *
47864185 CCATGTCCCCTTAATCCCTAAACCCCTCAACCCTAAACCATTAACCCTTAATCCCTAAAATTTAA
1 CCATGTCCCATTAA-CCCTAAACCCCTCAACCCTAAACCATAAACCCTTAATCCCTAAAATTTAA
47864250 ACACTAAACCCAAAA
65 ACACTAAACCCAAAA
* * * * *
47864265 TCATGTCCCATTAACCCTAAACCCTTGAACCTTAAACCATAAACCCTTAATCCCTAAACTTTAAA
1 CCATGTCCCATTAACCCTAAACCCCTCAACCCTAAACCATAAACCCTTAATCCCTAAAATTTAAA
*
47864330 CACTAAACCCTAAA
66 CACTAAACCCAAAA
* * *
47864344 CCCTATCCCATTAACCCTTAGA-CCCTCAACC
1 CCATGTCCCATTAACCC-TAAACCCCTCAACC
47864375 TTTAAATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 80 0.84
80 15 0.16
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.24
Consensus pattern (79 bp):
CCATGTCCCATTAACCCTAAACCCCTCAACCCTAAACCATAAACCCTTAATCCCTAAAATTTAAA
CACTAAACCCAAAA
Found at i:47864304 original size:29 final size:29
Alignment explanation
Indices: 47864272--47864347 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
47864262 AAATCATGTC
* *
47864272 CCATTAACCCTAAACCCTTGAACCTTAAA
1 CCATAAACCCTAAACCCTTAAACCTTAAA
* *
47864301 CCATAAACCCTTAATCCC-TAAACTTTAAA
1 CCATAAACCC-TAAACCCTTAAACCTTAAA
47864330 -CACTAAACCCTAAACCCT
1 CCA-TAAACCCTAAACCCT
47864348 ATCCCATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 8 0.21
29 25 0.64
30 6 0.15
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (29 bp):
CCATAAACCCTAAACCCTTAAACCTTAAA
Found at i:47864322 original size:22 final size:21
Alignment explanation
Indices: 47864277--47864345 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
47864267 ATGTCCCATT
* *
47864277 AACCCTAAACCCTTGAACCTTA
1 AACCATAAACCCTT-AACCCTA
47864299 AACCATAAACCCTTAATCCCTA
1 AACCATAAACCCTTAA-CCCTA
** * *
47864321 AACTTTAAACACTAAACCCTA
1 AACCATAAACCCTTAACCCTA
47864342 AACC
1 AACC
47864346 CTATCCCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 10 0.26
22 29 0.74
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (21 bp):
AACCATAAACCCTTAACCCTA
Found at i:47864402 original size:79 final size:79
Alignment explanation
Indices: 47864185--47864418 Score: 202
Period size: 79 Copynumber: 2.9 Consensus size: 79
47864175 TACCCTTAGC
* * * * * * * * *
47864185 CCATGTCCCCTTAATCCCTAAACCCCTCAACCCTAAACCATTAACCCTTAATCCCTAAAATTTAA
1 CCATATCCCATTAA-CCCTAAACCCTTCAACCTTAAACCATAAACCCCTAAACCATAAACTTTAA
47864250 ACACTAAACCCAAAA
65 ACACTAAACCCAAAA
* * * * * *
47864265 TCATGTCCCATTAACCCTAAACCCTTGAACCTTAAACCATAAACCCTTAATCCCTAAACTTTAAA
1 CCATATCCCATTAACCCTAAACCCTTCAACCTTAAACCATAAACCCCTAAACCATAAACTTTAAA
*
47864330 CACTAAACCCTAAA
66 CACTAAACCCAAAA
* * ** * * *
47864344 CCCTATCCCATTAACCCTTAGACCC-TCAACCTTTAAA-TGTTAACCCCTAAACTATAAACCTTA
1 CCATATCCCATTAACCC-TAAACCCTTCAACC-TTAAACCATAAACCCCTAAACCATAAACTTTA
*
47864407 AATCCCTAAACC
64 AA-CACTAAACC
47864419 TTTAGCCATT
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 98 0.76
80 31 0.24
ACGTcount: A:0.38, C:0.35, G:0.02, T:0.25
Consensus pattern (79 bp):
CCATATCCCATTAACCCTAAACCCTTCAACCTTAAACCATAAACCCCTAAACCATAAACTTTAAA
CACTAAACCCAAAA
Found at i:47864596 original size:14 final size:15
Alignment explanation
Indices: 47864577--47864614 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
47864567 ATAATCCATA
47864577 TAAACCATA-AACCC
1 TAAACCATATAACCC
*
47864591 TAAACCATATTTACCC
1 TAAACCATA-TAACCC
47864607 TAAACCAT
1 TAAACCAT
47864615 GCATAAACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCATATAACCC
Found at i:47864867 original size:14 final size:14
Alignment explanation
Indices: 47864848--47864898 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
47864838 TCATTAATTA
47864848 AGGGTTTATAGTTT
1 AGGGTTTATAGTTT
*
47864862 AGGGTTTCA-AATTT
1 AGGGTTT-ATAGTTT
* *
47864876 AAGGTCTATAGTTT
1 AGGGTTTATAGTTT
47864890 ATGGGTTTA
1 A-GGGTTTA
47864899 GGGGTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.75
15 6 0.21
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.45
Consensus pattern (14 bp):
AGGGTTTATAGTTT
Found at i:47865450 original size:42 final size:43
Alignment explanation
Indices: 47865373--47865481 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
47865363 AATTGTTTAC
* * * * *
47865373 ATCTATAGCGGCGTTTTTCCA-AAAAGCGTCGCTAAAACTCAA
1 ATCTATAGCGGCGTTTTTCTATAAAAACGCCACTAAAACCCAA
*
47865415 ATCTATTGCGGCGTTTTT-TATAAAAACGCCACTAAAACCCAA
1 ATCTATAGCGGCGTTTTTCTATAAAAACGCCACTAAAACCCAA
*
47865457 ATCCT-TAGCGGCGTTTTTGTATAAA
1 AT-CTATAGCGGCGTTTTTCTATAAA
47865482 CGCCGCTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 48 0.84
43 8 0.14
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (43 bp):
ATCTATAGCGGCGTTTTTCTATAAAAACGCCACTAAAACCCAA
Found at i:47866314 original size:15 final size:16
Alignment explanation
Indices: 47866294--47866350 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
47866284 AATAGGAAGA
47866294 TGGCAAGCTAG-GGAG
1 TGGCAAGCTAGTGGAG
* *
47866309 TGGCAAACTAGTGTAG
1 TGGCAAGCTAGTGGAG
*
47866325 TGGAAAGCTAGTGGAGG
1 TGGCAAGCTAGTGGA-G
*
47866342 TGGCGAGCT
1 TGGCAAGCT
47866351 GGTTGACATC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
15 10 0.30
16 15 0.45
17 8 0.24
ACGTcount: A:0.26, C:0.12, G:0.42, T:0.19
Consensus pattern (16 bp):
TGGCAAGCTAGTGGAG
Found at i:47867197 original size:108 final size:108
Alignment explanation
Indices: 47867051--47867534 Score: 508
Period size: 108 Copynumber: 4.5 Consensus size: 108
47867041 TCAACAACTA
* * *
47867051 CAAGATTCTAG-AAATCTTGTAAGTATAAGGTTGGGATCTTAAATCAATGAGCTGCAAGATTCGA
1 CAAGATTC-AGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAGTGAGCCGCAAGATTCGA
* ** *
47867115 AAAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGTGAGCCG
65 AAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACCG
* * **
47867159 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-TGTTGAGCCACAAGATTAAA
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAG-TGAGCCGCAAGATTCGA
* * *
47867223 AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGG-ATACCCG
65 AAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCA-AACCG
* * ** * * *
47867267 CAATATTCAGAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGGTGAGCCGCGAGATTTGCA
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAGTGAGCCGCAAGATTCGAA
* ** *
47867332 AAATCTTATAAGTATAAGGTTGTGATCTTAAATTGGCAAACCG
66 AAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACCG
* * * * * **
47867375 TAAGATAT-AGAAAATCCTATAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGCAAGATTCGA
1 CAAGAT-TCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAGTGAGCCGCAAGATTCGA
* * **
47867439 AAAATGTTGTAAGTATAAGGTTGCAATCTTAAATCGACAATTCG
65 AAAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACCG
* * * * * * * *
47867483 TAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTAAACCGGTGAGC
1 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAGTGAGC
47867535 TGATTAGGTT
Statistics
Matches: 313, Mismatches: 56, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
107 3 0.01
108 307 0.98
109 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (108 bp):
CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAGTGAGCCGCAAGATTCGAA
AAATCTTGTAAGTATAAGGTTGCAATCTTAAATCGGCAAACCG
Found at i:47867488 original size:54 final size:54
Alignment explanation
Indices: 47867051--47867534 Score: 431
Period size: 54 Copynumber: 9.0 Consensus size: 54
47867041 TCAACAACTA
* * * * *
47867051 CAAGATTCTAGAAATCTTGTAAGTATAAGGTTGGGATCTTAAATCAATGAGCTG
1 CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
47867105 CAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGTGAGCCG
1 CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
47867159 CAAGATTC-AGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGTTGAGCCA
1 CAAGATTCGA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
** * *
47867213 CAAGATTAAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAT-ACCCG
1 CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAA-TCGATGAGCCG
* * * *
47867267 CAATATTC-AGAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGGTGAGCCG
1 CAAGATTCGA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * * * *** *
47867321 CGAGATTTGCAAAATCTTATAAGTATAAGGTTGTGATCTTAAATTGGCAAACCG
1 CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * * *
47867375 TAAGATATAG-AAAATCCTATAAGTATAAGGTCGCGATATTAAATC-A-GCAAGCCG
1 CAAGAT-TCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATG--AGCCG
* * ** **
47867429 CAAGATTCGAAAAATGTTGTAAGTATAAGGTTGCAATCTTAAATCGACAATTCG
1 CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * * * * *
47867483 TAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTAAACCGGTGAGC
1 CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGC
47867535 TGATTAGGTT
Statistics
Matches: 348, Mismatches: 70, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
53 7 0.02
54 334 0.96
55 7 0.02
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (54 bp):
CAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
Found at i:47867499 original size:162 final size:162
Alignment explanation
Indices: 47867070--47867525 Score: 513
Period size: 162 Copynumber: 2.8 Consensus size: 162
47867060 AGAAATCTTG
* *** *
47867070 TAAGTATAAGGTTGGGATCTTAAATCAATGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGG
1 TAAGTATAAGGTTGCGATCTTAAATCAGCAAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGG
* * *
47867135 CTGCAATCTTAAATCGGTGAGCCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTA
66 CTGCAATCTTAAATCGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCTTA
*** * * *
47867200 AATTGTTGAGCCACAAGATTAAAAAAATCTTG
131 AATTGGCAAACCACAAGATTAAAAAAATCCTA
* * * *
47867232 TAAGTATAAGGTTGCGATCTTAAAT-TGGATACCCGCAATATTC-AGAAAATCTTGTAAGTATAA
1 TAAGTATAAGGTTGCGATCTTAAATCAGCA-AGCCGCAAGATTCGA-AAAATCTTGTAAGTATAA
* * * ***
47867295 GGCTGCGATCTTAAATTGGTGAGCCGCGAGATTTGCAAAATCTTATAAGTATAAGGTTGTGATCT
64 GGCTGCAATCTTAAATCGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCT
** *
47867360 TAAATTGGCAAACCGTAAGA-TATAGAAAATCCTA
129 TAAATTGGCAAACCACAAGATTA-AAAAAATCCTA
* * *
47867394 TAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGCAAGATTCGAAAAATGTTGTAAGTATAAGG
1 TAAGTATAAGGTTGCGATCTTAAATCAGCAAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGG
* *** ** * * *
47867459 TTGCAATCTTAAATCGACAATTCGTAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTA
66 CTGCAATCTTAAATCGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCTTA
47867524 AA
131 AA
47867526 CCGGTGAGCT
Statistics
Matches: 242, Mismatches: 47, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
161 3 0.01
162 236 0.98
163 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (162 bp):
TAAGTATAAGGTTGCGATCTTAAATCAGCAAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGG
CTGCAATCTTAAATCGGTGAGCCGCAAGATTCAAAAAATCTTATAAGTATAAGGTTGTGATCTTA
AATTGGCAAACCACAAGATTAAAAAAATCCTA
Found at i:47868892 original size:20 final size:22
Alignment explanation
Indices: 47868863--47868906 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
47868853 TCTTCTTTCA
*
47868863 TTTTTCTGTTTA-T-ATGGATT
1 TTTTTATGTTTATTCATGGATT
47868883 TTTTTATGTTTATTCATGGATT
1 TTTTTATGTTTATTCATGGATT
47868905 TT
1 TT
47868907 CTTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTTTATGTTTATTCATGGATT
Found at i:47869834 original size:56 final size:51
Alignment explanation
Indices: 47869733--47869835 Score: 125
Period size: 56 Copynumber: 1.9 Consensus size: 51
47869723 ACATATATTA
* * *
47869733 TTTATTTTAACTATTATACATATTACTTATTTTGAATTTTTTTATATTTCT
1 TTTATTTTAACTATTATACATATTACTTATTTTAAAATTTATTATATTTCT
*
47869784 TTTATTTTAAACTATTATACGTGTATATTATTTATTTTAAAATTTATTATAT
1 TTTATTTT-AACTATTATAC----ATATTACTTATTTTAAAATTTATTATAT
47869836 GTTATTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
51 8 0.19
52 11 0.26
56 24 0.56
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (51 bp):
TTTATTTTAACTATTATACATATTACTTATTTTAAAATTTATTATATTTCT
Found at i:47870194 original size:22 final size:24
Alignment explanation
Indices: 47870163--47870220 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
47870153 ATTTTTTATG
* *
47870163 TATTACTTATTTAAAATTG-TTTC
1 TATTATTTATTTAAAATGGTTTTC
*
47870186 -ATTATTTATTTTAAATGGTTTTC
1 TATTATTTATTTAAAATGGTTTTC
*
47870209 TGTTATTTATTT
1 TATTATTTATTT
47870221 CATTCTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 15 0.52
23 4 0.14
24 10 0.34
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (24 bp):
TATTATTTATTTAAAATGGTTTTC
Found at i:47882214 original size:28 final size:27
Alignment explanation
Indices: 47882148--47882216 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
47882138 TAGTGAGTCT
47882148 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTCAGTGCTATATAATCAACTC
*
47882175 GCACACTCAGTGCTATATGATCAAACTC
1 GCACACTCAGTGCTATATAATC-AACTC
*
47882203 GCACACTTAGTGCT
1 GCACACTCAGTGCT
47882217 GTACAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
GCACACTCAGTGCTATATAATCAACTC
Found at i:47885350 original size:44 final size:44
Alignment explanation
Indices: 47885284--47885526 Score: 136
Period size: 44 Copynumber: 5.5 Consensus size: 44
47885274 TAGGAGCGAC
* *
47885284 TCGAAGCCACAATTCT-TATCTCCTTAAAGTTCCAGCAGAGTAGA
1 TCGAAGCTACAAATCTCT-TCTCCTTAAAGTTCCAGCAGAGTAGA
* * ** *** ** *
47885328 TCGAAGTTACAAATCTCTTCTCCCTGAAA-TGGCATTGGAGCGGT
1 TCGAAGCTACAAATCTCTTCT-CCTTAAAGTTCCAGCAGAGTAGA
* * *
47885372 TCGAAGCCACAATTCT-TATCTCCTTGAAGTTCCAGCAGAGTAGA
1 TCGAAGCTACAAATCTCT-TCTCCTTAAAGTTCCAGCAGAGTAGA
* * ** ** ** *
47885416 TTGAAGCTACAAATCTCTTCTCCCTGAAA-TGGCATTAGAGCGGT
1 TCGAAGCTACAAATCTCTTCT-CCTTAAAGTTCCAGCAGAGTAGA
* * * * *
47885460 TCGAAGCCACAATTCT-TATCTCCTTGAAGTTCCAACAGAGTATA
1 TCGAAGCTACAAATCTCT-TCTCCTTAAAGTTCCAGCAGAGTAGA
*
47885504 TTGAAGCTACAAATCTCTTCTCC
1 TCGAAGCTACAAATCTCTTCTCC
47885527 CTGAAATGGC
Statistics
Matches: 137, Mismatches: 53, Indels: 18
0.66 0.25 0.09
Matches are distributed among these distances:
43 12 0.09
44 111 0.81
45 14 0.10
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
TCGAAGCTACAAATCTCTTCTCCTTAAAGTTCCAGCAGAGTAGA
Found at i:47885369 original size:88 final size:88
Alignment explanation
Indices: 47885277--47885605 Score: 475
Period size: 88 Copynumber: 3.8 Consensus size: 88
47885267 AGCAGCATAG
* * * *
47885277 GAGCGACTCGAAGCCACAATTCTTATCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGTTACAAAT
1 GAGCGATTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATTGAAGCTACAAAT
*
47885342 CTCTTCTCCCTGAAATGGCATTG
66 CTCTTCTCCCTGAAATGGCATTA
*
47885365 GAGCGGTTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATTGAAGCTACAAAT
1 GAGCGATTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATTGAAGCTACAAAT
47885430 CTCTTCTCCCTGAAATGGCATTA
66 CTCTTCTCCCTGAAATGGCATTA
* * *
47885453 GAGCGGTTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAACAGAGTATATTGAAGCTACAAAT
1 GAGCGATTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATTGAAGCTACAAAT
47885518 CTCTTCTCCCTGAAATGGCATTA
66 CTCTTCTCCCTGAAATGGCATTA
* * * * * * *
47885541 GAGCAATT-GAAGACACCAA-TCTTATCTCCCTGAAATTGCAG-TGAGGCAGATTGAAGCTACAA
1 GAGCGATTCGAAGCCA-CAATTCTTATCTCCTTGAAGTTCCAGCAGA-GTAGATTGAAGCTACAA
47885603 ATC
64 ATC
47885606 ACAAACCTTA
Statistics
Matches: 221, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.01
87 42 0.19
88 177 0.80
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (88 bp):
GAGCGATTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATTGAAGCTACAAAT
CTCTTCTCCCTGAAATGGCATTA
Found at i:47885781 original size:45 final size:45
Alignment explanation
Indices: 47885607--47885769 Score: 186
Period size: 45 Copynumber: 3.6 Consensus size: 45
47885597 CTACAAATCA
* * ** *
47885607 CAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* *
47885651 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * *
47885696 CAAATCTTATCTCCCTAAAGTTGCAATAGAGCA-AGCTGAAGGTAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAG
**
47885741 CAAATCTTATCTCTATGAAGTTGCAGTGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGG
47885770 GACAGATTGA
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 38 0.38
45 61 0.62
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
Found at i:47885781 original size:90 final size:89
Alignment explanation
Indices: 47885607--47885769 Score: 218
Period size: 89 Copynumber: 1.8 Consensus size: 89
47885597 CTACAAATCA
* * * * * * * * *
47885607 CAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAATAGAGCAAGCTGAAGGTACAAATCTTATCTCCATGAAGT
47885672 TGCAGTGGAGCAGACTGAAGATGG
66 TGCAGTGGAGCAGACTGAAGATGG
* *
47885696 CAAATCTTATCTCCCTAAAGTTGCAATAGAGCAAGCTGAAGGTAGCAAATCTTATCTCTATGAAG
1 CAAACCTTATCTCCCTAAAGTTGCAATAGAGCAAGCTGAAGGTA-CAAATCTTATCTCCATGAAG
47885761 TTGCAGTGG
65 TTGCAGTGG
47885770 GACAGATTGA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
89 36 0.58
90 26 0.42
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (89 bp):
CAAACCTTATCTCCCTAAAGTTGCAATAGAGCAAGCTGAAGGTACAAATCTTATCTCCATGAAGT
TGCAGTGGAGCAGACTGAAGATGG
Found at i:47887363 original size:27 final size:27
Alignment explanation
Indices: 47887315--47887453 Score: 119
Period size: 27 Copynumber: 5.2 Consensus size: 27
47887305 ATGTCTTATG
* **
47887315 TATTTTAAAT-TATTATAGATTTTAAA
1 TATTTTACATATATTATTTATTTTAAA
*
47887341 TATTTTACATATATTATTTATTTTAAC
1 TATTTTACATATATTATTTATTTTAAA
*
47887368 TATTATAC--ATATTATTTATTTTGAAA
1 TATTTTACATATATTATTTATTTT-AAA
**
47887394 T-TTTTTTATATATCT-TTTATTTTAAA
1 TATTTTACATATAT-TATTTATTTTAAA
*
47887420 CTATTATACATGTATATTATTTATTTTAAA
1 -TATTTTACA--TATATTATTTATTTTAAA
47887450 -ATTT
1 TATTT
47887454 CTTATATGTT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
25 17 0.19
26 15 0.17
27 33 0.37
28 8 0.09
29 1 0.01
30 16 0.18
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTTTACATATATTATTTATTTTAAA
Found at i:47887381 original size:52 final size:53
Alignment explanation
Indices: 47887325--47887430 Score: 137
Period size: 52 Copynumber: 2.0 Consensus size: 53
47887315 TATTTTAAAT
47887325 TATTATAGATTTT-AAATATTTTACATATAT-TATTTATTTT-AACTATTATACA
1 TATTATAGATTTTGAAAT-TTTTACATATATCT-TTTATTTTAAACTATTATACA
** **
47887377 TATTATTTATTTTGAAATTTTTTTATATATCTTTTATTTTAAACTATTATACA
1 TATTATAGATTTTGAAATTTTTACATATATCTTTTATTTTAAACTATTATACA
47887430 T
1 T
47887431 GTATATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
52 29 0.62
53 18 0.38
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (53 bp):
TATTATAGATTTTGAAATTTTTACATATATCTTTTATTTTAAACTATTATACA
Found at i:47887452 original size:57 final size:52
Alignment explanation
Indices: 47887349--47887467 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 52
47887339 AATATTTTAC
*
47887349 ATATATTATTTATTTTAACTATTATACATATTATTTATTTTGAAATTTTTTT
1 ATATATTATTTATTTTAACTATTATACATATTATTTATTTTAAAATTTTTTT
*
47887401 ATATATCT-TTTATTTTAAACTATTATACATGTATATTATTTATTTTAAAA-TTTCTT
1 ATATAT-TATTTATTTT-AACTATTATAC----ATATTATTTATTTTAAAATTTTTTT
*
47887457 ATATGTTATTT
1 ATATATTATTT
47887468 TGCTATTCTA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
52 14 0.25
53 12 0.21
55 1 0.02
56 13 0.23
57 17 0.30
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (52 bp):
ATATATTATTTATTTTAACTATTATACATATTATTTATTTTAAAATTTTTTT
Found at i:47887814 original size:22 final size:22
Alignment explanation
Indices: 47887789--47887832 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47887779 TTTTTTATGT
*
47887789 ATTACTTATTTAAAATTGTTTC
1 ATTACTTATTTAAAATGGTTTC
* *
47887811 ATTATTTATTTTAAATGGTTTC
1 ATTACTTATTTAAAATGGTTTC
47887833 CTGTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTACTTATTTAAAATGGTTTC
Found at i:47890157 original size:2 final size:2
Alignment explanation
Indices: 47890150--47890176 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47890140 AGCACATAGG
47890150 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
47890177 CTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47890183 original size:2 final size:2
Alignment explanation
Indices: 47890178--47890209 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47890168 TATATATATC
47890178 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
47890210 ACGATGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:47892222 original size:28 final size:29
Alignment explanation
Indices: 47892181--47892236 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
47892171 GGCATTCCCT
* *
47892181 TCATAGATCGCCACAAAGGC-TTCTTTTA
1 TCATAAATCACCACAAAGGCTTTCTTTTA
47892209 TCATAAATCACCACAAAGGCTTTCTTTT
1 TCATAAATCACCACAAAGGCTTTCTTTT
47892237 TTTTTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (29 bp):
TCATAAATCACCACAAAGGCTTTCTTTTA
Found at i:47893748 original size:48 final size:48
Alignment explanation
Indices: 47893679--47894168 Score: 302
Period size: 50 Copynumber: 10.0 Consensus size: 48
47893669 ACTAGGGTTA
* * *
47893679 TATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGTCATTGT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCATTGT
* ** ** * * * * ***
47893727 TATGAGGGTTAGTGTAAGACCACATTTGGGACATGACATCGGCCTCAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCATTGT
*
47893775 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGT-ATTGT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GTCATTGT
* * ***
47893823 TATGTA-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACCAAT
1 TATG-AGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCA-TTGT
* * * * ***
47893872 ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACCAAT
1 -TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCA-TTGT
* * * * * ***
47893922 ATATGAGAGCCAGTGTAATACCATGTCTGGGATATGGCATCGGCCCCGAT
1 -TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCATTG-T
* * * * * *
47893972 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACACTGAT
1 -TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCATTG-T
* * * ***
47894022 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAAT
1 -TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCA-TTGT
* * * ** *
47894072 ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAG-CACAGACA
1 -TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GTCATTG--T
* * * *
47894123 TATGGGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCATT
47894169 TTACCTTTTT
Statistics
Matches: 371, Mismatches: 59, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
47 1 0.00
48 106 0.29
49 7 0.02
50 255 0.69
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGTCATTGT
Found at i:47893903 original size:50 final size:50
Alignment explanation
Indices: 47893737--47894163 Score: 544
Period size: 50 Copynumber: 8.6 Consensus size: 50
47893727 TATGAGGGTT
** * * *
47893737 AGTGTAAGACCACATTTGGGACATGACATCGGC-CTC-A-ATATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CAATATATGAGAGCC
* * * ***
47893785 AGTGTAAGACCATGTTTGGAACATGGCATCGGTA-TTGT-TATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATG-AGAGCC
*
47893833 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACCAATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
*
47893883 AATGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
* * * * *
47893933 AGTGTAATACCATGTCTGGGATATGGCATCGGCCCCGATATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
* * **
47893983 AGTGTAAGACCATGTCTGGGACATGGCATTGACACTGATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
47894033 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
* * * *
47894083 AATGTAAGACCATGTCTGGGACATGGCATCAGCA-CAGACATATGGGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCA-ATATATGAGAGCC
47894133 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
47894164 ACATTTTACC
Statistics
Matches: 333, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
48 68 0.20
49 4 0.01
50 261 0.78
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCC
Found at i:47894025 original size:150 final size:150
Alignment explanation
Indices: 47893677--47894166 Score: 591
Period size: 150 Copynumber: 3.3 Consensus size: 150
47893667 ATACTAGGGT
* * * * * * * * **
47893677 TATATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGTCATTG-T-TATGAGGGTTAGT
1 TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATATATGAGAGCCAGT
** * * * *
47893740 GTAAGACCACATTTGGGACATGACATCGGC-CTC-A-ATATGTGAGCCAGTGTAAGACCATGTTT
66 GTAAGACCATGTCTGGGACATGGCATCGGCAC-CAATATATGAGAGCCAGTGTAAGACCATGTCT
* * **
47893802 GGAACATGGCATCGGTATTG-
130 GGGACATGGCATCGGCACAGA
* * ** *
47893822 T-TATGTA-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACCAATATATGAGAGCCAA
1 TATATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATATATGAGAGCCAG
*
47893885 TGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCCAGTGTAATACCATGTCT
65 TGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCCAGTGTAAGACCATGTCT
* * *
47893950 GGGATATGGCATCGGCCCCGA
130 GGGACATGGCATCGGCACAGA
* *
47893971 TATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACACTGATATATGAGAGCCAGT
1 TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATATATGAGAGCCAGT
*
47894036 GTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCCAATGTAAGACCATGTCTG
66 GTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCCAGTGTAAGACCATGTCTG
*
47894101 GGACATGGCATCAGCACAGA
131 GGACATGGCATCGGCACAGA
* *
47894121 CATATGGGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
1 TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
47894167 TTTTACCTTT
Statistics
Matches: 294, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
144 38 0.13
145 2 0.01
146 36 0.12
147 2 0.01
148 39 0.13
149 2 0.01
150 175 0.60
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (150 bp):
TATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACTGATATATGAGAGCCAGT
GTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCACAGA
Found at i:47905325 original size:29 final size:29
Alignment explanation
Indices: 47905263--47905365 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
47905253 GTGACGAGAT
* * *
47905263 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
47905292 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
47905321 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
47905350 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47905366 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:47915165 original size:25 final size:25
Alignment explanation
Indices: 47915137--47915188 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
47915127 TTTGGCTTGA
**
47915137 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
47915162 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
47915187 CA
1 CA
47915189 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:47921228 original size:16 final size:15
Alignment explanation
Indices: 47921203--47921232 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47921193 AACTGTTTTA
47921203 TTACTAATTTCACTC
1 TTACTAATTTCACTC
47921218 TTACATAATTTCACT
1 TTAC-TAATTTCACT
47921233 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
TTACTAATTTCACTC
Found at i:47921516 original size:49 final size:49
Alignment explanation
Indices: 47921444--47921720 Score: 270
Period size: 49 Copynumber: 5.5 Consensus size: 49
47921434 TTGGTACGCA
* * * *
47921444 TAGTAGCCTGTACTTAGTACTACACATGCGACC-AACAATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC-ATCTGATACACG
*
47921493 TAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CATCTGATACACG
* ** * * * *
47921543 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA--CATCTGATACACG
* *
47921594 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACATCTGATACACG
* * * * *
47921643 TAGTAGCCTACACTTAGTACTACACACATGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AA-CATCTGATACACG
* * *
47921695 TAGTATCCTACACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
47921721 TGTGTTCTCA
Statistics
Matches: 190, Mismatches: 30, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
49 69 0.36
50 45 0.24
51 42 0.22
52 34 0.18
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACATCTGATACACG
Found at i:47921669 original size:150 final size:151
Alignment explanation
Indices: 47921436--47921720 Score: 421
Period size: 150 Copynumber: 1.9 Consensus size: 151
47921426 GAAGCAATTT
*
47921436 GGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAACAATCCGATACACGTAGTAACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACGTAGTAACC
* * * * * *
47921501 TGCACTTAGTACTACACACGTGACCT-AACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 TACACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
47921565 CACACGTGATTGAAGTTGTCA
131 CACACGTGATTGAAGTTGTCA
* * * *
47921586 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC-ATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGATACACGTAGTAAC
* *
47921650 CTACACTTAGTACTACACACATGACCTAAAACCATCTTAAACACATAGTATCCTACACATAGTAC
65 CTACACTTAGTACTACACACATGACCT-AAACCATCTGAAACACATAGTAGCCTACACATAGTAC
47921715 TACACA
129 TACACA
47921721 TGTGTTCTCA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
150 80 0.67
151 3 0.03
152 36 0.30
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACGTAGTAACC
TACACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
CACACGTGATTGAAGTTGTCA
Found at i:47921697 original size:101 final size:101
Alignment explanation
Indices: 47921488--47921724 Score: 278
Period size: 101 Copynumber: 2.3 Consensus size: 101
47921478 ACAATCCGAT
* * *
47921488 ACACGTAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTA
* * * **** **
47921553 CACTTAGTACTACACACGTGATTGAAGTTGTCAGGT
66 CACTTAGTACTACACACATGACTAAAACCATCAGAA
* * *
47921589 ACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CATCTGGTACACGTAGTAGCCTA
1 ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTA
**
47921653 CACTTAGTACTACACACATGACCTAAAACCATCTTAA
66 CACTTAGTACTACACACATGA-CTAAAACCATCAGAA
* * *
47921690 ACACATAGTATCCTACACATAGTACTACACATGTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTG
47921725 TTCTCACAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
100 41 0.36
101 73 0.64
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTA
CACTTAGTACTACACACATGACTAAAACCATCAGAA
Found at i:47924668 original size:37 final size:36
Alignment explanation
Indices: 47924617--47924703 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
47924607 TACGAAGTCT
47924617 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
47924653 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
47924690 TCACCCGGAACATA
1 T-ACCCGG-ACATA
47924704 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:47924838 original size:49 final size:49
Alignment explanation
Indices: 47924772--47925269 Score: 851
Period size: 49 Copynumber: 10.2 Consensus size: 49
47924762 TTTACCACAT
*
47924772 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
47924821 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
47924870 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
47924919 ATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
47924968 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
47925017 ATATATATACACTTTCACATTCATCACGTCGACCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47925066 ATATAT-TCACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
47925115 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47925164 ATATATACACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
47925212 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
47925261 ATATATATA
1 ATATATATA
47925270 TCTCATACAT
Statistics
Matches: 431, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
48 49 0.11
49 381 0.88
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:47928575 original size:15 final size:15
Alignment explanation
Indices: 47928541--47928596 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
47928531 TAAAGGTAAC
* * *
47928541 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
47928556 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
47928571 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
47928586 AAGAAATCCAA
1 AAGAAATCCAA
47928597 TATACAATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:47941972 original size:37 final size:37
Alignment explanation
Indices: 47941910--47941981 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
47941900 TACAAGCCAC
*
47941910 AATCATTATAAGCCACATCTCATGGAT-ATATACAATG
1 AATCAATATAAGCCACATCTCATGGATCATA-ACAATG
47941947 AATCAATATAAGCCA-ATACAT-ATGGATCATAACAA
1 AATCAATATAAGCCACAT-C-TCATGGATCATAACAA
47941982 CATCTATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 2 0.06
37 25 0.81
38 4 0.13
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (37 bp):
AATCAATATAAGCCACATCTCATGGATCATAACAATG
Found at i:47943158 original size:42 final size:42
Alignment explanation
Indices: 47943111--47943195 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
47943101 TTAGAAGATG
47943111 AAAAAAGTATGAAATTAAATTTTATTGAGTCTAGTTTCTCAT
1 AAAAAAGTATGAAATTAAATTTTATTGAGTCTAGTTTCTCAT
47943153 AAAAAAGTATGAAATTAAATTTTATTGAGTCTAGTTTCTCAT
1 AAAAAAGTATGAAATTAAATTTTATTGAGTCTAGTTTCTCAT
47943195 A
1 A
47943196 GAAGAAACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (42 bp):
AAAAAAGTATGAAATTAAATTTTATTGAGTCTAGTTTCTCAT
Found at i:47953531 original size:15 final size:16
Alignment explanation
Indices: 47953513--47953542 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47953503 AATTGTTTTA
47953513 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
47953528 TTACATAATTTCACT
1 TTACATAATTTCACT
47953543 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:47953972 original size:50 final size:50
Alignment explanation
Indices: 47953740--47953983 Score: 242
Period size: 50 Copynumber: 4.9 Consensus size: 50
47953730 GTAACCGAAG
* *
47953740 CTATCTGGTACGCATAGTATCCTGCACTTAGTACTACACATGTGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * * *
47953789 CAATCCGGTACACGTAGTAACATGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * ** * * *
47953839 CCATCTGATACATGTAGTAGCCTGCACTTAATACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * **
47953889 AT-TGTTGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCTAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
47953940 CTATCTGGTACACCTAGTAGCCTGCACATAGTACTATACATGTG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
47953984 TTCTCACAAT
Statistics
Matches: 156, Mismatches: 33, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
49 42 0.27
50 76 0.49
51 36 0.23
52 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:47956089 original size:41 final size:41
Alignment explanation
Indices: 47956044--47956123 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
47956034 GGATCACACG
*
47956044 GCCTGGGACAC-GAGTCGTCACATGGCCATGTGACACACAAA
1 GCCTGGGACACTG-GTCGTCACACGGCCATGTGACACACAAA
* **
47956085 GCCTGGGACACTGGTTGTCACACGGCTGTGTGACACACA
1 GCCTGGGACACTGGTCGTCACACGGCCATGTGACACACA
47956124 TGGCTTGGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (41 bp):
GCCTGGGACACTGGTCGTCACACGGCCATGTGACACACAAA
Found at i:47960373 original size:20 final size:20
Alignment explanation
Indices: 47960348--47960387 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47960338 GCTTGTACAA
47960348 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
47960368 GTTTGCACTTTGTTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
47960388 ATAGCACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.28, G:0.23, T:0.45
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:47960905 original size:16 final size:16
Alignment explanation
Indices: 47960884--47960915 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47960874 TTTGAGATTG
47960884 TGGCATGTATCTAGTA
1 TGGCATGTATCTAGTA
47960900 TGGCATGTATCTAGTA
1 TGGCATGTATCTAGTA
47960916 GGTTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
TGGCATGTATCTAGTA
Found at i:47962771 original size:13 final size:13
Alignment explanation
Indices: 47962753--47962777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47962743 GTAAGTGATT
47962753 TTGATGATTTTTC
1 TTGATGATTTTTC
47962766 TTGATGATTTTT
1 TTGATGATTTTT
47962778 GTACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:47963521 original size:47 final size:44
Alignment explanation
Indices: 47963446--47963571 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 44
47963436 GGGTTATTGT
*
47963446 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGACGA
*
47963492 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT--GACGA
*
47963540 GAGCTAGTGTAAGAAATGTCTGGGACATGCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
47963572 TGGCTGTAAC
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 4 0.06
46 18 0.25
47 27 0.38
48 23 0.32
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGACGA
Found at i:47964938 original size:37 final size:37
Alignment explanation
Indices: 47964888--47964995 Score: 216
Period size: 37 Copynumber: 2.9 Consensus size: 37
47964878 TTATAAAGAA
47964888 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
47964925 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
47964962 GTCTTACCCGGTCATAATCTCCACACGTAGTCAT
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCAT
47964996 TGTAACACCC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:47966508 original size:39 final size:39
Alignment explanation
Indices: 47966390--47966572 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
47966380 TCGTTCAAAC
* * ** * **
47966390 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
47966430 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
47966470 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
47966509 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
47966548 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
47966573 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:47968298 original size:50 final size:51
Alignment explanation
Indices: 47968233--47968413 Score: 223
Period size: 50 Copynumber: 3.6 Consensus size: 51
47968223 CGTAAACCAA
* * *
47968233 TGTAAGA-CATGTCTGGGACATGGTATTGGCATAGATATGCGAGAGCTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCGAGAGCTCAG
*
47968282 TGTAAGACCATGTCTGGGACATGACATCGGCA-CGAATATGCGAGAGCT-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCG-ATATGCGAGAGCTCAG
** * *
47968332 TGTAAGATAATGTCTGGGACATGGCATCGGCCTCG--ATGACGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATG-CGAGAGCTCAG
47968381 TGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT
47968414 TACACCCTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
48 4 0.04
49 46 0.40
50 62 0.54
51 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (51 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCGAGAGCTCAG
Found at i:47976093 original size:24 final size:24
Alignment explanation
Indices: 47976056--47976208 Score: 254
Period size: 24 Copynumber: 6.4 Consensus size: 24
47976046 TTGGAGGCCT
* *
47976056 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTGATAACTGGGGCATA
**
47976081 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
47976105 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
47976128 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
47976152 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
47976176 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTGATAACTGGGGCATA
47976200 AGCCCTTTT
1 AGCCCTTTT
47976209 TCACTTCCTC
Statistics
Matches: 124, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
23 23 0.19
24 97 0.78
25 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAACTGGGGCATA
Found at i:47976284 original size:20 final size:20
Alignment explanation
Indices: 47976259--47976318 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
47976249 TATGATTACC
47976259 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
47976279 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
47976299 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
47976319 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:47976393 original size:25 final size:25
Alignment explanation
Indices: 47976361--47976408 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47976351 ATACATAAAC
* * *
47976361 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
47976386 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
47976409 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:47977947 original size:27 final size:27
Alignment explanation
Indices: 47977645--47977936 Score: 331
Period size: 27 Copynumber: 10.8 Consensus size: 27
47977635 GGGTATTTTA
* * *
47977645 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
47977672 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
47977699 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
* * *
47977726 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
47977753 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47977780 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
**
47977807 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47977834 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
47977861 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
47977888 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
47977915 ATAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
47977937 CTTTGGTAAT
Statistics
Matches: 233, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.01
27 227 0.97
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:47977958 original size:27 final size:27
Alignment explanation
Indices: 47977926--47978164 Score: 202
Period size: 27 Copynumber: 8.9 Consensus size: 27
47977916 TAATTCTATA
*
47977926 AATCGA-GGGTACTTTGGTAATTTTAC
1 AATCGAGGGGTATTTTGGTAATTTTAC
***
47977952 AAGTCGA-GGGTATTTCAATAATTTTAC
1 AA-TCGAGGGGTATTTTGGTAATTTTAC
* ** *
47977979 AGGTCGA-GGGTATTTCAGTAATTTCAC
1 A-ATCGAGGGGTATTTTGGTAATTTTAC
*
47978006 AAAT-TAGGGGTATTTTGGTAATTTTAC
1 -AATCGAGGGGTATTTTGGTAATTTTAC
* * *
47978033 AAACTAGGGGTATTTTGATAATTTTAC
1 AATCGAGGGGTATTTTGGTAATTTTAC
* *
47978060 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGAGGGGTATTTTGGTAATTTTAC
* * *
47978087 AAACTAGGGGTATTTTGGTAATTTTAT
1 AATCGAGGGGTATTTTGGTAATTTTAC
* * * *
47978114 AAACCATGGGTATTTTAGTAATTTTAC
1 AATCGAGGGGTATTTTGGTAATTTTAC
*
47978141 AA-AGCA-GGGTATTTTGGTAATTTT
1 AATCG-AGGGGTATTTTGGTAATTTT
47978165 GTAAACCAAA
Statistics
Matches: 184, Mismatches: 23, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.12
27 161 0.88
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AATCGAGGGGTATTTTGGTAATTTTAC
Found at i:47977986 original size:54 final size:54
Alignment explanation
Indices: 47977849--47978009 Score: 153
Period size: 54 Copynumber: 3.0 Consensus size: 54
47977839 TCTGTAAACT
** * ***
47977849 GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAATC
* * *
47977903 GAGGGTAAAACGATAATTCTATAAATCGAGGGTACTTT-GGTAATTTTACAAGTC
1 GAGGGTAAAACAATAATTCTACAAATCGAGGGTA-TTTCGGTAATTTTACAAATC
*** * ** * *
47977957 GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAAT
1 GAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAAT
47978010 TAGGGGTATT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
53 3 0.03
54 86 0.97
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (54 bp):
GAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCGGTAATTTTACAAATC
Found at i:47978071 original size:81 final size:81
Alignment explanation
Indices: 47977932--47978143 Score: 241
Period size: 81 Copynumber: 2.6 Consensus size: 81
47977922 TATAAATCGA
* * * * ** *
47977932 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTAC-AGGTCGAGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACAAACTAGAGGGTATTTC
*
47977995 AGTAATTTCACAAATTAG
64 AGTAATTTCACAAACTAG
**
47978013 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACTAGAGGGTATTTCA
*
47978077 GTAATTTTACAAACTAG
65 GTAATTTCACAAACTAG
* * *
47978094 GGGTATTTTGGTAATTTTATAAACCATGGGTATTTTAGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAA
47978144 GCAGGGTATT
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
80 1 0.01
81 105 0.93
82 7 0.06
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACTAGAGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:47978181 original size:26 final size:27
Alignment explanation
Indices: 47977986--47978164 Score: 234
Period size: 27 Copynumber: 6.7 Consensus size: 27
47977976 TACAGGTCGA
** * **
47977986 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47978013 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47978040 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47978067 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47978094 GGGTATTTTGGTAATTTTATAAACCAT
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47978121 GGGTATTTTAGTAATTTTACAAAGCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
47978147 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
47978165 GTAAACCAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 17 0.12
27 122 0.88
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:47983220 original size:22 final size:22
Alignment explanation
Indices: 47983176--47983221 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
47983166 TGAAACCGTT
**
47983176 ACTCGGTAGCAATTCATGTTTA
1 ACTCGGTAGCAATTCATAATTA
47983198 ACTCGGTAGCAATTCATAATTA
1 ACTCGGTAGCAATTCATAATTA
47983220 AC
1 AC
47983222 AATTAGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (22 bp):
ACTCGGTAGCAATTCATAATTA
Found at i:47986670 original size:48 final size:48
Alignment explanation
Indices: 47986576--47986670 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
47986566 ATAGCACAAC
* * ** *
47986576 TATGGTCTTATACATTATAGTCTCATGTTTACAGTCCTGGCGGACTTT
1 TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTAACAGACTTT
**
47986624 TATGGTCTTACACATTATAATCTCATGTTTATTGTCCTAACAGACTT
1 TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTAACAGACTT
47986671 CATATGCTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (48 bp):
TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTAACAGACTTT
Found at i:47997397 original size:17 final size:17
Alignment explanation
Indices: 47997377--47997409 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47997367 ACTAATCATT
47997377 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
47997394 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
47997410 GTGCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:48000743 original size:62 final size:63
Alignment explanation
Indices: 48000665--48000787 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 63
48000655 ATTGCATACC
* * *
48000665 TTGAATAAATATAGCTCGTTCCAATGATACTTCACTACTTCACGAAGAAAT-TTTTCTTTTCT
1 TTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACAAAGAAATCTTTTCTTTTCT
* * *
48000727 TTGAATAAATACAGCTCATTCCAATGATACTTTACTACTTCATAAAGAAATCTTTTTTTTT
1 TTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACAAAGAAATCTTTTCTTTT
48000788 ATGGTCTGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 46 0.85
63 8 0.15
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (63 bp):
TTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACAAAGAAATCTTTTCTTTTCT
Found at i:48027073 original size:22 final size:22
Alignment explanation
Indices: 48027045--48027088 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48027035 GGAGTAGCAA
48027045 ATGATAAATGGTTGTCTATGTT
1 ATGATAAATGGTTGTCTATGTT
48027067 ATGATAAATGGTTGTCTATGTT
1 ATGATAAATGGTTGTCTATGTT
48027089 TCCCTATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (22 bp):
ATGATAAATGGTTGTCTATGTT
Found at i:48035338 original size:39 final size:39
Alignment explanation
Indices: 48035281--48035362 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
48035271 TGGCGATGGG
* *
48035281 ATGTGGAAGTGCTGACAAATCTGCTGTAGAGTAGCATCA
1 ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATCA
*
48035320 ATGTGGAAGTGCTAACAAATCTGTTGTAAAGTAGCATCA
1 ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATCA
48035359 ATGT
1 ATGT
48035363 TATCGAAGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (39 bp):
ATGTGGAAGTGCTAACAAATCTGCTGTAAAGTAGCATCA
Found at i:48036968 original size:13 final size:13
Alignment explanation
Indices: 48036950--48036975 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48036940 TTTTGGGGAG
48036950 GGAGATGATTAAT
1 GGAGATGATTAAT
48036963 GGAGATGATTAAT
1 GGAGATGATTAAT
48036976 CGGTGTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
GGAGATGATTAAT
Found at i:48042224 original size:40 final size:40
Alignment explanation
Indices: 48041992--48042217 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
48041982 TCGAATGATG
* * *
48041992 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
48042032 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
48042072 TCCGGACTAAGAT-CTGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48042112 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48042152 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48042193 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48042218 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48062382 original size:46 final size:46
Alignment explanation
Indices: 48062264--48062539 Score: 426
Period size: 46 Copynumber: 6.0 Consensus size: 46
48062254 TCGTTTTTTG
* ** ***
48062264 TCATGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCG
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATA
** *
48062311 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATG
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
*
48062357 TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
*
48062403 TCATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
48062449 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
* *
48062495 TCAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
48062540 TTCAGAGAGC
Statistics
Matches: 217, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
46 179 0.82
47 38 0.18
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:48066732 original size:45 final size:47
Alignment explanation
Indices: 48066586--48066943 Score: 265
Period size: 47 Copynumber: 7.6 Consensus size: 47
48066576 TTTGAGCTAC
* *
48066586 TGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAG
1 TGTAAGACCATGTCTGGGACATGCATC-GCCTCGA-GATGTAGAGCCAG
* * * * *
48066632 TGTAAGACCATG-CTTGGGACATGGCATCGGCATTGAGACG-AGTGCTAG
1 TGTAAGACCATGTC-TGGGACAT-GCATC-GCCTCGAGATGTAGAGCCAG
* *
48066680 TGCAAGA-CATGTCTGGTACATGCATCGCCTCGAGATGTA-AGCCAG
1 TGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGTAGAGCCAG
* *
48066725 TGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGT---GTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGATGTAGAGCCAG
* * * *
48066769 TGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATC-GCCTCGAGATGT-AGAGCCAG
* * * * *
48066819 TGTAAGACCATATCTGGGACATGACGTTAGCCTCGATGATG-ATAGTCAG
1 TGTAAGACCATGTCTGGGACATG-C-ATCGCCTCGA-GATGTAGAGCCAG
** * *
48066868 TGTAAGACCATGTCTGGGACATGGCATCGAGTTGAGATAT-GAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGCCTCGAGATGTAGAGCCAG
**
48066915 TGTAAGACCATGTCTAAGACATGGCATCG
1 TGTAAGACCATGTCTGGGACAT-GCATCG
48066944 ACAACTTATC
Statistics
Matches: 249, Mismatches: 44, Indels: 37
0.75 0.13 0.11
Matches are distributed among these distances:
44 11 0.04
45 53 0.21
46 33 0.13
47 60 0.24
48 28 0.11
49 29 0.12
50 31 0.12
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGTAGAGCCAG
Found at i:48066884 original size:49 final size:46
Alignment explanation
Indices: 48066678--48066890 Score: 168
Period size: 45 Copynumber: 4.5 Consensus size: 46
48066668 GACGAGTGCT
* * * * *
48066678 AGTGCAAGA-CATGTCTGGTACATGCATCGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCTTAGCCTCGAGATGTAAGTC
* * *
48066723 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCTTAGCCT-CGAGATGTAAGTC
** * * *
48066767 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACAT-GC-TTAGCCTCGAGATGT-A-AGTC
*
48066816 TAGTGTAAGACCATATCTGGGACATGACGTTAGCCTCGATGATG-ATAGTC
1 -AGTGTAAGACCATGTCTGGGACATG-C-TTAGCCTCGA-GATGTA-AGTC
48066866 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
48066891 GCATCGAGTT
Statistics
Matches: 136, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
44 11 0.08
45 43 0.32
46 16 0.12
47 2 0.01
49 29 0.21
50 32 0.24
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCTTAGCCTCGAGATGTAAGTC
Found at i:48074558 original size:50 final size:49
Alignment explanation
Indices: 48074313--48074668 Score: 245
Period size: 47 Copynumber: 7.6 Consensus size: 49
48074303 TATGAGCTAC
* * * *
48074313 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATCATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGAGAGTCAG
* * * * * *
48074359 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGA-GACGAGTG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGAGAGTC-AG
**
48074407 TGTAAGA-CATGTCTAAGACAT-GCATC-AGCCTCGA-GATGTA-AGT-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CCTCGATGATG-AGAGTCAG
* *
48074452 TGTAAGA-CATGTCTGGGACAT-GCATCG-GCTACGA-GAT--GTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCT-CGATGATGAGAGTCAG
* *
48074496 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAT-ATGTGAGAGGT-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGATGA--TGAGA-GTCAG
* *
48074546 TGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATGATGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGAGAGTCAG
* * * * **
48074595 TGTAAGACCATGTCTAGGACATGGCATTGA-CTTGA-GAT-ATAAACCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGA-GAGTCAG
*
48074642 TGTAAGACCATATCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
48074669 TGACACCATA
Statistics
Matches: 250, Mismatches: 35, Indels: 49
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.01
44 11 0.04
45 46 0.18
46 29 0.12
47 60 0.24
48 29 0.12
49 35 0.14
50 35 0.14
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGATGAGAGTCAG
Found at i:48075773 original size:31 final size:31
Alignment explanation
Indices: 48075714--48075777 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
48075704 TGTAGGTGTG
*
48075714 CATTTAGAATTATTTCCACACGACTGGAGGA
1 CATTTAGAATTATTTCCACACAACTGGAGGA
* *
48075745 CATTTAGAATTATTTCCACATAAGTGGAGGA
1 CATTTAGAATTATTTCCACACAACTGGAGGA
48075776 CA
1 CA
48075778 CGGGCGTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (31 bp):
CATTTAGAATTATTTCCACACAACTGGAGGA
Found at i:48075886 original size:20 final size:21
Alignment explanation
Indices: 48075848--48075886 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48075838 TCGAATTGGT
*
48075848 CACACGTGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
48075869 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
48075887 ATTTCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:48082850 original size:66 final size:66
Alignment explanation
Indices: 48082760--48082903 Score: 243
Period size: 66 Copynumber: 2.2 Consensus size: 66
48082750 AATGTGAGGT
* * *
48082760 ACACAGCCGTGTCCCAGCCCGTGTCCTTACTCGTGTAACTCTCTAACTTGGGTCACACGGCCAAC
1 ACACGGCCGTGTCCCAGCCCGTGTCCTTACCCATGTAACTCTCTAACTTGGGTCACACGGCCAAC
48082825 C
66 C
*
48082826 ACACGGCCGTGTCCCAGCCTGTGTCCTTACCCATGTAACTCTCTAACTTGGGTCACACGGCCAAC
1 ACACGGCCGTGTCCCAGCCCGTGTCCTTACCCATGTAACTCTCTAACTTGGGTCACACGGCCAAC
48082891 C
66 C
*
48082892 ACACGTCCGTGT
1 ACACGGCCGTGT
48082904 GCTAGACCGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.19, C:0.38, G:0.20, T:0.23
Consensus pattern (66 bp):
ACACGGCCGTGTCCCAGCCCGTGTCCTTACCCATGTAACTCTCTAACTTGGGTCACACGGCCAAC
C
Found at i:48089146 original size:28 final size:28
Alignment explanation
Indices: 48089102--48089172 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
48089092 ATTCTCGAGA
**
48089102 TATTTTCTCAGAACCCATCTTGTCAAAAT
1 TATTTT-TCAGAACCCATCTCATCAAAAT
*
48089131 TATTTTTCAGAACCCATCTCATCTAAAT
1 TATTTTTCAGAACCCATCTCATCAAAAT
*
48089159 CATTTTTTCAGAAC
1 TA-TTTTTCAGAAC
48089173 TCCTGAACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (28 bp):
TATTTTTCAGAACCCATCTCATCAAAAT
Found at i:48089361 original size:41 final size:42
Alignment explanation
Indices: 48089275--48089377 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 42
48089265 AAAACTCTAA
*** *
48089275 TTAATAAACACTTAAAAATTAAATAAAACACAAAAACCATAAT
1 TTAATAAACAC-TAAACCCTAATTAAAACACAAAAACCATAAT
* * *
48089318 TTAATAAACACTAAGCCCTAATTAAAAC-CATAAACCCTAAT
1 TTAATAAACACTAAACCCTAATTAAAACACAAAAACCATAAT
*
48089359 TTAATAAACCCTAAACCCT
1 TTAATAAACACTAAACCCT
48089378 TAAAAAACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 28 0.55
42 12 0.24
43 11 0.22
ACGTcount: A:0.53, C:0.21, G:0.01, T:0.24
Consensus pattern (42 bp):
TTAATAAACACTAAACCCTAATTAAAACACAAAAACCATAAT
Found at i:48089373 original size:22 final size:22
Alignment explanation
Indices: 48089308--48089377 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
48089298 TAAAACACAA
* *
48089308 AAACCATAATTTAATAAACACT
1 AAACCCTAATTTAATAAACCCT
* *
48089330 AAGCCCTAA-TT-A-AAACCAT
1 AAACCCTAATTTAATAAACCCT
48089349 AAACCCTAATTTAATAAACCCT
1 AAACCCTAATTTAATAAACCCT
48089371 AAACCCT
1 AAACCCT
48089378 TAAAAAACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 3 0.08
22 20 0.51
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAATTTAATAAACCCT
Found at i:48089834 original size:19 final size:19
Alignment explanation
Indices: 48089810--48089855 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
48089800 GAAATTCCTC
48089810 TAATATATTAT-TATATACA
1 TAATATATTATGTATATA-A
48089829 TAATATATTATGTATATAA
1 TAATATATTATGTATATAA
48089848 TAATATAT
1 TAATATAT
48089856 AAATACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATATATTATGTATATAA
Found at i:48090196 original size:41 final size:42
Alignment explanation
Indices: 48090148--48090226 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
48090138 TTCATCAACC
* *
48090148 AATTTTAAATGAGAT-AATATTGTTAACAATAAAAATACCAA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
* * *
48090189 AATTTTAAATTAAATCAATTTTATTAGCAATAAAAATA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATA
48090227 TTCAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (42 bp):
AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
Found at i:48092058 original size:20 final size:20
Alignment explanation
Indices: 48092029--48092066 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48092019 ATCGTTTTGA
48092029 TTTTTCTTTTATTTATTGGG
1 TTTTTCTTTTATTTATTGGG
*
48092049 TTTTTTTTTTATTTATTG
1 TTTTTCTTTTATTTATTG
48092067 TTTTCTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (20 bp):
TTTTTCTTTTATTTATTGGG
Found at i:48097294 original size:191 final size:192
Alignment explanation
Indices: 48096970--48097336 Score: 675
Period size: 191 Copynumber: 1.9 Consensus size: 192
48096960 CTTTTTTGCT
*
48096970 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAGAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
*
48097035 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGCCCAAAATGCATTGGC
66 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
48097100 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGA-CTTCATTTTTCCCGTATCTGACACACGG
131 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCCCGTATCTGACACACGG
48097161 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
48097226 GGCTTCACCACTTCAATCAAGCTAG-CTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
66 GGCTTCACCACTTCAATCAAGCT-GTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
*
48097290 CGCGAGGGCCCATTTAGAATCTATGTTGCTTAGACTCTTCATTTTTC
130 CGCGAGGGCCCATTTAAAATCTATGTTGCTTAGAC-CTTCATTTTTC
48097337 ATGAAGTGCC
Statistics
Matches: 170, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
191 158 0.93
192 1 0.01
193 11 0.06
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (192 bp):
ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCCCGTATCTGACACACGG
Found at i:48107237 original size:23 final size:24
Alignment explanation
Indices: 48107197--48107241 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
48107187 GAAATACTTG
48107197 AGGATTCAATAAGTAATTAAACTA
1 AGGATTCAATAAGTAATTAAACTA
48107221 AGGATCTCAA-AA-TAATTAAAC
1 AGGAT-TCAATAAGTAATTAAAC
48107242 CATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 7 0.35
25 4 0.20
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (24 bp):
AGGATTCAATAAGTAATTAAACTA
Found at i:48113209 original size:42 final size:42
Alignment explanation
Indices: 48113150--48113234 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
48113140 TTCTCTGGGT
48113150 TGAATCAGATGAGTCAGATAGGTTGCCAATCGTTATTTCTTC
1 TGAATCAGATGAGTCAGATAGGTTGCCAATCGTTATTTCTTC
48113192 TGAATCAGATGAGTCAGATAGGTTGCCAATCGTTATTTCTTC
1 TGAATCAGATGAGTCAGATAGGTTGCCAATCGTTATTTCTTC
48113234 T
1 T
48113235 ATGTCTGCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (42 bp):
TGAATCAGATGAGTCAGATAGGTTGCCAATCGTTATTTCTTC
Found at i:48113931 original size:20 final size:21
Alignment explanation
Indices: 48113906--48113944 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48113896 AATGTAAACA
48113906 AGGGC-ACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
48113926 AGGGCAACATGCCCGTGTG
1 AGGGCAACATGCCCGTGTG
48113945 TCCTCTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.18, C:0.26, G:0.41, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGG
Found at i:48114205 original size:13 final size:13
Alignment explanation
Indices: 48114187--48114219 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
48114177 ACCATTTAGG
48114187 GGCACACTGCCAA
1 GGCACACTGCCAA
48114200 GGCACACTGCCAA
1 GGCACACTGCCAA
48114213 GGCACAC
1 GGCACAC
48114220 GCCCGTGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.39, G:0.24, T:0.06
Consensus pattern (13 bp):
GGCACACTGCCAA
Found at i:48115249 original size:48 final size:48
Alignment explanation
Indices: 48115173--48115600 Score: 482
Period size: 48 Copynumber: 8.9 Consensus size: 48
48115163 AAAGGGTAAG
* * * * *
48115173 ATGCTGATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTGATATAA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
*
48115221 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
* * *
48115269 ATGCCAATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCATATAA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
* * * * **
48115317 ATGCCGATGCTATGTTCCAAACATGGTCTTATATTGGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
* * *
48115365 AGGCCGATGCCATG-TCTCAGACATGGTCTTACATTGGCTCTCATATAA
1 ATGCCGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCTCATATAA
* * * **
48115413 ATGCCAACGCCATGTTCCAAACATGGTCTTACACTGGC-CACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
* *
48115460 AGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
* ** * * **
48115508 ATACTAATGCCATGTTCCAAACATGGTCTTTCACTGGCTCACATATTG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
* * ** * * *
48115556 AGGCTGATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA
48115601 ACCCTAGTAT
Statistics
Matches: 319, Mismatches: 58, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
47 42 0.13
48 275 0.86
49 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAA
Found at i:48115343 original size:96 final size:96
Alignment explanation
Indices: 48115178--48115600 Score: 544
Period size: 96 Copynumber: 4.4 Consensus size: 96
48115168 GTAAGATGCT
* * * * *
48115178 GATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
* * ** *
48115243 ATGGTCTTACACTAGCTCTCATATAAATGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * *
48115274 AATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
* *
48115339 ATGGTCTTATATTGGCTCACATATCGAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
48115370 GATGCCATG-TCTCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAA
1 GATGCCATGTTC-CAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAA
48115434 CATGGTCTTACACTGGC-CACATATCGAGGCC
65 CATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
48115465 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
* * *
48115530 ATGGTCTTTCACTGGCTCACATATTGAGGCT
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
** * * *
48115561 GATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA
48115601 ACCCTAGTAT
Statistics
Matches: 286, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
95 88 0.31
96 198 0.69
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:48115548 original size:191 final size:192
Alignment explanation
Indices: 48115178--48115600 Score: 598
Period size: 191 Copynumber: 2.2 Consensus size: 192
48115168 GTAAGATGCT
* * * * *
48115178 GATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
* * * *
48115243 ATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAATATGGTCTTACACTAGCT
66 ATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCT
* * * *
48115308 CTCATATAAATGCCGATGCTATGTTCCAAACATGGTCTTATATTGGCTCACATATCGAGGCC
131 CTCATATAAATACCAATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATCGAGGCC
*
48115370 GATGCCATGTCTCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
* ** * *
48115435 ATGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
66 ATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCT
* * *
48115499 CTCATATAAATACTAATGCCATGTTCCAAACATGGTCTT-TCACTGGCTCACATATTGAGGCT
131 CTCATATAAATACCAATGCCATGTTCCAAACATGGTCTTAT-ACTGGCTCACATATCGAGGCC
** *
48115561 GATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA
48115601 ACCCTAGTAT
Statistics
Matches: 204, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
190 1 0.00
191 129 0.63
192 74 0.36
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (192 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCT
CTCATATAAATACCAATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATCGAGGCC
Found at i:48127709 original size:50 final size:50
Alignment explanation
Indices: 48127646--48127791 Score: 190
Period size: 50 Copynumber: 2.9 Consensus size: 50
48127636 TCTTTAGAAA
* *
48127646 ATTGTCTCTATAGTCGCAACATTCCATTGA-TGAAGTCACGACATCAAGCT
1 ATTGTCTCCATAGTCGCAACATTCCCTT-ATTGAAGTCACGACATCAAGCT
* *
48127696 GTTGTCTCCATAGTCGCAACATTCCCCTATTGAAGCTGCA--ACATCAAGCT
1 ATTGTCTCCATAGTCGCAACATTCCCTTATTGAAG-T-CACGACATCAAGCT
* *
48127746 ACTGTCTCCATAGTTGCAACATTCCCTTATTGAAGTCACGACATCA
1 ATTGTCTCCATAGTCGCAACATTCCCTTATTGAAGTCACGACATCA
48127792 TGATATTGCT
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 76 0.92
51 1 0.01
52 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (50 bp):
ATTGTCTCCATAGTCGCAACATTCCCTTATTGAAGTCACGACATCAAGCT
Found at i:48130189 original size:29 final size:30
Alignment explanation
Indices: 48130152--48130240 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 30
48130142 CCCAATCCCG
48130152 TTCATATGGCCCATCT-GGCCCAATTCATA
1 TTCATATGGCCCATCTAGGCCCAATTCATA
* * *
48130181 TTCTTATGGACCA-CTAGGCCCAATTCACA
1 TTCATATGGCCCATCTAGGCCCAATTCATA
* *
48130210 TTCATATGGCCCAT-TAGGCCTAAGTCATA
1 TTCATATGGCCCATCTAGGCCCAATTCATA
48130239 TT
1 TT
48130241 ATACTCATGC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.04
29 48 0.96
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
TTCATATGGCCCATCTAGGCCCAATTCATA
Found at i:48137661 original size:15 final size:17
Alignment explanation
Indices: 48137631--48137662 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48137621 GATTATGGGT
48137631 TGCATGCTACTGATTCA
1 TGCATGCTACTGATTCA
48137648 TGCATGC-A-TGATTCA
1 TGCATGCTACTGATTCA
48137663 ATAGTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (17 bp):
TGCATGCTACTGATTCA
Found at i:48140906 original size:16 final size:16
Alignment explanation
Indices: 48140885--48140916 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48140875 GGTGTAATGC
48140885 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
48140901 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
48140917 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:48144119 original size:40 final size:40
Alignment explanation
Indices: 48144070--48144237 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
48144060 TCTTCGGAAT
* *
48144070 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
48144109 TTAACCCGGAT-TTGGTAGCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * *
48144149 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
48144189 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
48144229 TTAGCCCGG
1 TTAGCCCGG
48144238 GTATCATTCA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 5 0.05
40 98 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:48144197 original size:80 final size:80
Alignment explanation
Indices: 48144061--48144237 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
48144051 AACCGAGCTT
* * * * **
48144061 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
*
48144125 -AGCTTGCACAAATGC
66 CA-CTAGCACAAATGC
* ** *
48144140 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
*
48144204 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
48144220 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
48144238 GTATCATTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 10 0.12
80 69 0.84
81 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
CACTAGCACAAATGC
Found at i:48152187 original size:40 final size:40
Alignment explanation
Indices: 48152138--48152305 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
48152128 TCTTCGGAAT
* * *
48152138 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
48152177 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
48152217 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
48152257 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
48152297 TTAGCCCGG
1 TTAGCCCGG
48152306 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:48158114 original size:30 final size:30
Alignment explanation
Indices: 48158078--48158139 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
48158068 TCTTCTGTTA
* *
48158078 TTGTTAATTTTGTTATTCTTTTAAAGACAT
1 TTGTTAATTTTGGTATTATTTTAAAGACAT
*
48158108 TTGTTAATTTTGGTATTATTTTAGAGACAT
1 TTGTTAATTTTGGTATTATTTTAAAGACAT
48158138 TT
1 TT
48158140 TCTTGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGGTATTATTTTAAAGACAT
Found at i:48160214 original size:7 final size:7
Alignment explanation
Indices: 48160201--48160233 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
48160191 TGGGCCGTGT
48160201 TTTAGGG
1 TTTAGGG
*
48160208 ATTAGGG
1 TTTAGGG
48160215 TTTAGGG
1 TTTAGGG
48160222 TTTAGGG
1 TTTAGGG
48160229 TTTAG
1 TTTAG
48160234 AGTGTAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:48163591 original size:68 final size:64
Alignment explanation
Indices: 48163481--48163733 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
48163471 ATACAGATGG
** * * * *
48163481 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
48163544 ATTA
62 A-TA
* *
48163548 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
48163613 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
48163678 TA
63 TA
* * *
48163680 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
48163734 CGAACTATAT
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 3 0.02
66 23 0.15
67 33 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:48164812 original size:2 final size:2
Alignment explanation
Indices: 48164805--48164837 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48164795 TCATGACATG
48164805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48164838 GACTAGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48181579 original size:40 final size:40
Alignment explanation
Indices: 48181523--48181707 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
48181513 ACTACTTGCT
*
48181523 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48181563 CAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48181603 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
48181643 CAAATGCCTTCGGAACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
48181683 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
48181708 TTATCATCCG
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48188790 original size:40 final size:40
Alignment explanation
Indices: 48188737--48188885 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
48188727 ACTACTTGCT
48188737 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
48188777 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
48188817 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
48188857 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
48188886 CATCCGAATA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 100 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:48199428 original size:40 final size:40
Alignment explanation
Indices: 48199350--48199573 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
48199340 ACCCAAGTAT
* * *
48199350 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCGCAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * **
48199389 CTTCGAGTCTTAGCCTGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
48199429 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
48199469 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
48199512 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
48199552 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
48199574 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 11 0.07
40 113 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:48199532 original size:83 final size:80
Alignment explanation
Indices: 48199350--48199573 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
48199340 ACCCAAGTAT
* * * * * *
48199350 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCGCAAATGCCTTCGAGTCTTAGCCTGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
48199413 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
48199429 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
48199493 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
48199512 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
48199574 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 46 0.36
81 1 0.01
83 67 0.53
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:48203359 original size:47 final size:47
Alignment explanation
Indices: 48203290--48203523 Score: 351
Period size: 47 Copynumber: 5.0 Consensus size: 47
48203280 CCCTTCGGGA
* * * *
48203290 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
48203337 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* ** *
48203384 CTTATCACATATATACACTTCCACATTCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48203431 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
48203478 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGG
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG
48203524 TTTTTCACAT
Statistics
Matches: 169, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 169 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:48203530 original size:30 final size:30
Alignment explanation
Indices: 48203496--48203553 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
48203486 ATATATATAC
48203496 TTTCACATTCATCACATTGGCCACTCGGTT
1 TTTCACATTCATCACATTGGCCACTCGGTT
*
48203526 TTTCACATTCATCACATTGGCCATTCGG
1 TTTCACATTCATCACATTGGCCACTCGG
48203554 CCTTATCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (30 bp):
TTTCACATTCATCACATTGGCCACTCGGTT
Found at i:48203539 original size:77 final size:77
Alignment explanation
Indices: 48203448--48203600 Score: 306
Period size: 77 Copynumber: 2.0 Consensus size: 77
48203438 CATATATATA
48203448 TTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACAT
1 TTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACAT
48203513 TGGCCACTCGGT
66 TGGCCACTCGGT
48203525 TTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACAT
1 TTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACAT
48203590 TGGCCACTCGG
66 TGGCCACTCGG
48203601 CCTTATCACA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.36
Consensus pattern (77 bp):
TTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACAT
TGGCCACTCGGT
Found at i:48203554 original size:124 final size:124
Alignment explanation
Indices: 48203405--48203647 Score: 414
Period size: 124 Copynumber: 2.0 Consensus size: 124
48203395 TATACACTTC
** *
48203405 CACATTCATCATGTTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCACTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGC
*
48203470 CATTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGTTTTT
66 CACTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGTTTTT
*
48203529 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCACTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGC
* * *
48203594 CACTCGGCCTTATCACATATATATATTTTCACGTTCATCACATTGGCCATTCGG
66 CACTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGG
48203648 CCTTATCACA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 111 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (124 bp):
CACATTCATCACATTGGCCACTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGC
CACTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGTTTTT
Found at i:48203580 original size:47 final size:47
Alignment explanation
Indices: 48203526--48203661 Score: 245
Period size: 47 Copynumber: 2.9 Consensus size: 47
48203516 CCACTCGGTT
48203526 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* *
48203573 TTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATATAT
1 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
*
48203620 TTTCACGTTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
48203662 CATATCTTGT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (47 bp):
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
Found at i:48207903 original size:13 final size:13
Alignment explanation
Indices: 48207871--48207905 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
48207861 CCAGGTCTTT
* *
48207871 GGACACAGGTTCG
1 GGACACGGGTTCA
48207884 GGACACGGGTTCA
1 GGACACGGGTTCA
48207897 GGACACGGG
1 GGACACGGG
48207906 CATGTCCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.43, T:0.11
Consensus pattern (13 bp):
GGACACGGGTTCA
Found at i:48211083 original size:14 final size:14
Alignment explanation
Indices: 48211064--48211259 Score: 67
Period size: 14 Copynumber: 13.9 Consensus size: 14
48211054 TATCATTATA
*
48211064 GTTTAGGGTTTACG
1 GTTTAGGGTTTAAG
* *
48211078 GTTTAGGGTATATG
1 GTTTAGGGTTTAAG
* *
48211092 ATTAAGGGTTTAAG
1 GTTTAGGGTTTAAG
*
48211106 GTTTATGAG-TTACTA-
1 GTTTA-GGGTTTA--AG
* * *
48211121 TTTTAAGGTTTATG
1 GTTTAGGGTTTAAG
* *
48211135 GATTATGGTTTAAG
1 GTTTAGGGTTTAAG
* *
48211149 GGTTGGGGTTTAAG
1 GTTTAGGGTTTAAG
* *
48211163 GTTTAGGGGTTAGGG
1 GTTTAGGGTTTA-AG
* * *
48211178 GTTAAAGGTTAAAG
1 GTTTAGGGTTTAAG
*
48211192 GTTAAGGG-TTAAGG
1 GTTTAGGGTTTAA-G
*
48211206 GTTAAGGG-TTAAGG
1 GTTTAGGGTTTAA-G
* *
48211220 GTTAAGGGTTTAGG
1 GTTTAGGGTTTAAG
* * *
48211234 GTTAATGGTTTATG
1 GTTTAGGGTTTAAG
* *
48211248 TTTTAGGATTTA
1 GTTTAGGGTTTA
48211260 GGATTTTAAG
Statistics
Matches: 136, Mismatches: 38, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
13 3 0.02
14 111 0.82
15 21 0.15
16 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.40
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Done.