Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 305 of 356
Found at i:99258704 original size:135 final size:135
Alignment explanation
Indices: 99258454--99258887 Score: 678
Period size: 135 Copynumber: 3.2 Consensus size: 135
99258444 GATTTTGGCA
* * * * *
99258454 AGCCTTATC-CCACTGAGCAGAAGTAGAGCAGGCT-AA-ATACTAAATCTTATCTTCGCTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTTATCTTCACTGAGCA
* * * * * *
99258516 GGAGCGGAGTAGATTAAATTTTGGTGAA-TATTATCTCCATGTATCGGCAATGGAGCAGATTTCA
66 GGAGTGAAGCAGATCAAATTTTGG-CAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
99258580 GCCACC
130 GCCACC
* *
99258586 AGTCTTATATTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTTATCTTCACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTTATCTTCACTGAGCA
*
99258651 GGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCTATGTATCGGCAATGGAGCAGATTTCAG
66 GGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAG
99258716 CCACC
131 CCACC
*
99258721 AGCCTTATCTTCACTGAGCAGGAGTGGGGCAGGCTAAACATACTAGATCTTATCTTCACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTTATCTTCACTGAGCA
* *
99258786 GGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAACAAATTTCAG
66 GGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAG
99258851 CCACC
131 CCACC
99258856 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAG
99258888 ATTAAATTTT
Statistics
Matches: 277, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
132 7 0.03
133 22 0.08
134 4 0.01
135 244 0.88
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (135 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTTATCTTCACTGAGCA
GGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAG
CCACC
Found at i:99258873 original size:90 final size:90
Alignment explanation
Indices: 99258769--99258977 Score: 330
Period size: 90 Copynumber: 2.3 Consensus size: 90
99258759 CATACTAGAT
* *
99258769 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGG-CAAGTCTTATCTCCATGTATCGG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTCAA-TCTTATCTCCATGTATCGA
99258833 CAATGGAACAAATTTCAGCCACCAGC
65 CAATGGAACAAATTTCAGCCACCAGC
* * *
99258859 CTTATCTTCACTGAGCAGGAGTGGAGCAGATTAAATTTTGGTGAATCTTATCTCTATGTATCGAC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTCAATCTTATCTCCATGTATCGAC
* *
99258924 AATGGAGCAGATTTCAGCCACCAGC
66 AATGGAACAAATTTCAGCCACCAGC
*
99258949 CTTATCTTCATTGAGCAGGAGTGGAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
99258978 GCTAAATACT
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
90 108 0.98
91 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (90 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTCAATCTTATCTCCATGTATCGAC
AATGGAACAAATTTCAGCCACCAGC
Found at i:99258897 original size:225 final size:223
Alignment explanation
Indices: 99258634--99259110 Score: 769
Period size: 223 Copynumber: 2.1 Consensus size: 223
99258624 CATACTAGAT
* *
99258634 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGG-CAAGTCTTATCTCTATGTATCGG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTCAA-TCTTATCTCTATGTATCGA
*
99258698 CAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGGGCAGGCTAAACATA
65 CAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATA
* *
99258763 CTAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGG-CAAGTCTTATCTCCATG
128 CTAGATCTTATCTTCACTGAGCAAGAGCGAAGCAGATCAAATTTTGGTCAA-TCTTATCTCCATG
*
99258827 TATCGGCAATGGAACAAATTTCAGCCACCAGC
192 TATCCGCAATGGAACAAATTTCAGCCACCAGC
* *
99258859 CTTATCTTCACTGAGCAGGAGTGGAGCAGATTAAATTTTGGTGAATCTTATCTCTATGTATCGAC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTCAATCTTATCTCTATGTATCGAC
*
99258924 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCATTGAGCAGGAGTGGAGCAGGCTAAATACTA
66 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTA
* * * *
99258989 GATCTTATCTTCGCTGAGCAAGAGCGGAGCAGATCAAGTTTTGGTGAATCTTATCTCCATGTATC
131 GATCTTATCTTCACTGAGCAAGAGCGAAGCAGATCAAATTTTGGTCAATCTTATCTCCATGTATC
* *
99259054 CGCAATGGAGCAGATTTCAGCCACCAGC
196 CGCAATGGAACAAATTTCAGCCACCAGC
99259082 CTTATCTTCACTGAGCAGGAGTGGAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
99259111 GCTATATACT
Statistics
Matches: 235, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
223 116 0.49
224 4 0.02
225 113 0.48
226 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (223 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTCAATCTTATCTCTATGTATCGAC
AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTA
GATCTTATCTTCACTGAGCAAGAGCGAAGCAGATCAAATTTTGGTCAATCTTATCTCCATGTATC
CGCAATGGAACAAATTTCAGCCACCAGC
Found at i:99259019 original size:133 final size:132
Alignment explanation
Indices: 99258859--99259296 Score: 606
Period size: 133 Copynumber: 3.3 Consensus size: 132
99258849 AGCCACCAGC
* *
99258859 CTTATCTTCACTGAGCAGGAGTGGAGCAGATTAAATTTTGGTGAATCTTATCTCTATGTATCGAC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCG-C
*
99258924 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCATTGAGCAGGAGTGGAGCAGGCTAAATACTA
65 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTA
99258989 GAT
130 GAT
* * * *
99258992 CTTATCTTCGCTGAGCAAGAGCGGAGCAGATCAAGTTTTGGTGAATCTTATCTCCATGTATCCGC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT-CGC
*
99259057 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTA
65 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTA
99259122 GAT
130 GAT
* * ** * *
99259125 CTTATCTTCGCAGAGCAGGAGTAAAGCAGATCAAAATTTGATGAATCTTATCTCCATGTATCGGC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATC-GC
* ** ** * *
99259190 AATGGAGCAGATTCCAATCATTAGCCTTATATTCACTGAGCAGGAGTGGAGCAAGCTAAACATAC
65 AATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATAC
*
99259255 AAGAT
128 TAGAT
* **
99259260 CTTATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATT
99259297 ACAGCAGATC
Statistics
Matches: 272, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
132 1 0.00
133 227 0.83
134 3 0.01
135 41 0.15
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (132 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCA
ATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAG
AT
Found at i:99259609 original size:47 final size:46
Alignment explanation
Indices: 99259548--99259678 Score: 147
Period size: 47 Copynumber: 3.0 Consensus size: 46
99259538 CAGCCCAATC
99259548 AAACCATCCACTACCTTCATCACCCCCACTAACTCTATCACCCTACT
1 AAACCATCCACTACCTTCATCACCCCCACTAACTC-ATCACCCTACT
* *
99259595 AAACTATCCACTACCTCCATCA---CC-C---C-CA-CACCCTACT
1 AAACCATCCACTACCTTCATCACCCCCACTAACTCATCACCCTACT
99259632 AAACCATCCACTACC-TCTATCACCCCCACTAACTCCATCACCCTACT
1 AAACCATCCACTACCTTC-ATCACCCCCACTAACT-CATCACCCTACT
99259679 TGTTATAAGT
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
36 1 0.01
37 27 0.39
38 1 0.01
39 1 0.01
40 3 0.04
41 1 0.01
43 1 0.01
44 3 0.04
46 2 0.03
47 29 0.42
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (46 bp):
AAACCATCCACTACCTTCATCACCCCCACTAACTCATCACCCTACT
Found at i:99259641 original size:37 final size:37
Alignment explanation
Indices: 99259586--99259660 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
99259576 CTAACTCTAT
*
99259586 CACCCTACTAAACTATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
99259623 CACCCTACTAAACCATCCACTACCTCTATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
99259660 C
1 C
99259661 TAACTCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:99259662 original size:18 final size:18
Alignment explanation
Indices: 99259602--99259674 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
99259592 ACTAAACTAT
99259602 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
99259620 CCAC-ACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
*
99259639 CCACTACCTCTATCACCC
1 CCACTACCTCCATCACCC
*
99259657 CCACTAACTCCATCACCC
1 CCACTACCTCCATCACCC
99259675 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 23 0.53
19 7 0.16
20 4 0.09
21 3 0.07
ACGTcount: A:0.27, C:0.55, G:0.00, T:0.18
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:99262001 original size:19 final size:18
Alignment explanation
Indices: 99261977--99262031 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
99261967 TTATGTTTCA
99261977 TATTATTATATTATTTATT
1 TATTATTATATTATTTA-T
99261996 TATTATTATA-TATTTAT
1 TATTATTATATTATTTAT
99262013 TATGTAATTATATATATTT
1 TAT-T-ATTATAT-TATTT
99262032 TTAAGCGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.12
18 7 0.22
19 16 0.50
21 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATTATTATATTATTTAT
Found at i:99262002 original size:63 final size:63
Alignment explanation
Indices: 99261862--99262004 Score: 161
Period size: 63 Copynumber: 2.3 Consensus size: 63
99261852 TTTAACCCCT
* *
99261862 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTAATTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTAATTTTATA
* *
99261926 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-T-ATTATTAT
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTAATT-TTAT
99261986 A
63 A
99261987 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
99262005 ATATTTATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
60 3 0.04
61 14 0.20
62 8 0.12
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTAATTTTATA
Found at i:99262004 original size:14 final size:14
Alignment explanation
Indices: 99261985--99262015 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99261975 CATATTATTA
*
99261985 TATTATTTATTTAT
1 TATTATATATTTAT
99261999 TATTATATATTTAT
1 TATTATATATTTAT
99262013 TAT
1 TAT
99262016 GTAATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:99265294 original size:47 final size:47
Alignment explanation
Indices: 99265050--99265412 Score: 266
Period size: 47 Copynumber: 7.6 Consensus size: 47
99265040 ATGAGAACTT
*
99265050 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGA-GAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--GATGAGCCA
* * * *
99265098 GTGTAAGA-CATGTCTAGGACAT-GCATCGGC-T-ATGAGATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGATG-GATGAGCCA
* *
99265142 GTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGA-GAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG--ATG-GATGAGCCA
* * * *
99265192 GTGTAAGACCATGTCT-GGACAT-GAAGTCGACCTAGATTTCGAT-AGTCA
1 GTGTAAGACCATGTCTGGGACATGGCA-TCGA-CTTGA--TGGATGAGCCA
*
99265240 GTGTAAGACCATG-CTTGGAACATGGCATCGACTTGATGGATGAGCCA
1 GTGTAAGACCATGTC-TGGGACATGGCATCGACTTGATGGATGAGCCA
* ** * * * * * **
99265287 GTGTAAGACCATGCCCAGGACATGGCTTTGGCCTCGATTTCGAT-AGTAA
1 GTGTAAGACCATGTCTGGGACATGGC-ATCGACTTGA--TGGATGAGCCA
* *
99265336 GTGTAAGACCATGTTTGGGACATGGCATCGATTTGATGGATGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCA
99265383 GTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
99265413 GCATTATACC
Statistics
Matches: 247, Mismatches: 44, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.01
44 14 0.06
45 13 0.05
46 21 0.09
47 74 0.30
48 48 0.19
49 44 0.18
50 25 0.10
51 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCA
Found at i:99265357 original size:49 final size:48
Alignment explanation
Indices: 99265138--99265361 Score: 129
Period size: 49 Copynumber: 4.6 Consensus size: 48
99265128 TATGAGATGT
* * * *
99265138 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGT-GAGA
1 GTCAGTGTAAGACCATGCCTGGGACATGGC-TTGGC-CTAGAT-T-TCGATA
* * *
99265188 G-CTAGTGTAAGACCATGTCT-GGACATGAAG-TCGACCTAGATTTCGATA
1 GTC-AGTGTAAGACCATGCCTGGGACATG--GCTTGGCCTAGATTTCGATA
* * * * * * *
99265236 GTCAGTGTAAGACCATGCTTGGAACATGGCATCGACTTGA--TGGATGA
1 GTCAGTGTAAGACCATGCCTGGGACATGGCTTGGCCTAGATTTCGAT-A
* ** *
99265283 GCCAGTGTAAGACCATGCCCAGGACATGGCTTTGGCCTCGATTTCGATA
1 GTCAGTGTAAGACCATGCCTGGGACATGGC-TTGGCCTAGATTTCGATA
* **
99265332 GTAAGTGTAAGACCATGTTTGGGACATGGC
1 GTCAGTGTAAGACCATGCCTGGGACATGGC
99265362 ATCGATTTGA
Statistics
Matches: 133, Mismatches: 29, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
46 4 0.03
47 28 0.21
48 31 0.23
49 47 0.35
50 22 0.17
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGCCTGGGACATGGCTTGGCCTAGATTTCGATA
Found at i:99265404 original size:96 final size:96
Alignment explanation
Indices: 99265050--99265414 Score: 371
Period size: 96 Copynumber: 3.8 Consensus size: 96
99265040 ATGAGAACTT
99265050 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAGAGCCAGTGTAAGA-CATGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGA-GAGAGCCAGTGTAAGACCATGTCT
** *
99265113 AGGACAT-GCATCGG-CT-A-TGAGATGTGTCA
65 AGGACATGGCATCGGCCTGATTTCGAT-AGTCA
** * *
99265142 GTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--ATGAGAGAGCCAGTGTAAGACCATGTC
* *
99265207 T-GGACAT-GAAGTCGACCTAGATTTCGATAGTCA
64 TAGGACATGGCA-TCGGCCT-GATTTCGATAGTCA
* * *
99265240 GTGTAAGACCATG-CTTGGAACATGGCATCGAC-TTGATG-GATGAGCCAGTGTAAGACCATGCC
1 GTGTAAGACCATGTC-TGGGACATGGCATCGGCATTGATGAGA-GAGCCAGTGTAAGACCATGTC
* * * *
99265302 CAGGACATGGCTTTGGCCTCGATTTCGATAGTAA
64 TAGGACATGGCATCGGCCT-GATTTCGATAGTCA
*
99265336 GTGTAAGACCATGTTTGGGACATGGCATC-G-ATTTGATG-GATGAGCCAGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGATGAGA-GAGCCAGTGTAAGACCATGTC
*
99265398 TGGGACATGGCATCGGC
64 TAGGACATGGCATCGGC
99265415 ATTATACCTT
Statistics
Matches: 227, Mismatches: 30, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
92 34 0.15
94 26 0.11
95 33 0.15
96 94 0.41
97 3 0.01
98 33 0.15
99 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGAGAGAGCCAGTGTAAGACCATGTCTA
GGACATGGCATCGGCCTGATTTCGATAGTCA
Found at i:99266576 original size:21 final size:20
Alignment explanation
Indices: 99266552--99266591 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99266542 GTTATAATGA
* *
99266552 CCACACGGGTGTGTTGCCCTT
1 CCACACAGGCGTGTT-CCCTT
99266573 CCACACAGGCGTGTTCCCT
1 CCACACAGGCGTGTTCCCT
99266592 ATTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.12, C:0.38, G:0.25, T:0.25
Consensus pattern (20 bp):
CCACACAGGCGTGTTCCCTT
Found at i:99267983 original size:45 final size:45
Alignment explanation
Indices: 99267919--99268005 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
99267909 AGATAGGGTG
*
99267919 ACAAGATTTTGTCGGATTAGGGTGAAACCTAATGAGGGAGTCTAT
1 ACAAGATTTTGCCGGATTAGGGTGAAACCTAATGAGGGAGTCTAT
99267964 ACAAGATTTTGCCGGATTAGGGTGAAACCTAATGAGGGAGTC
1 ACAAGATTTTGCCGGATTAGGGTGAAACCTAATGAGGGAGTC
99268006 CATAGATCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (45 bp):
ACAAGATTTTGCCGGATTAGGGTGAAACCTAATGAGGGAGTCTAT
Found at i:99272110 original size:41 final size:41
Alignment explanation
Indices: 99272053--99272187 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
99272043 GCTAGGCTCG
* *
99272053 AAGCCTGATAAAAATCACCGACATGAAACCTGATAGGTACA
1 AAGCCTGATATAAATCACCGACATGAAGCCTGATAGGTACA
* *
99272094 AAGCCTGATATAAATCACC-AGCACGAAGCCT-ACTAGTTACA
1 AAGCCTGATATAAATCACCGA-CATGAAGCCTGA-TAGGTACA
* * * *
99272135 AAGCCTGATATAAATCACCGGCATGAAGCTTGCTAGGCACA
1 AAGCCTGATATAAATCACCGACATGAAGCCTGATAGGTACA
*
99272176 AAGCTTGATATA
1 AAGCCTGATATA
99272188 TTATCTCAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.03
41 77 0.97
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
AAGCCTGATATAAATCACCGACATGAAGCCTGATAGGTACA
Found at i:99273790 original size:22 final size:22
Alignment explanation
Indices: 99273755--99273796 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
99273745 AAACTCTAAA
*
99273755 AAATAAATAAAAATATAATCTG
1 AAATAAATAAAAATAAAATCTG
**
99273777 AAATAAATCTAAATAAAATC
1 AAATAAATAAAAATAAAATC
99273797 ATAATAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATAAATAAAAATAAAATCTG
Found at i:99275647 original size:41 final size:40
Alignment explanation
Indices: 99275602--99275775 Score: 170
Period size: 40 Copynumber: 4.3 Consensus size: 40
99275592 GTACTTGAAC
* * * **
99275602 AAAAAACGCCACTGTAGATTGAGTATTAGCGGCGCTTCTT-
1 AAAAAACGCCGCTATAGATCGACCATTAGCGGCGCTT-TTA
* *
99275642 AAAAAACGCTGCTATAGGTCGACCATTAGCGGCGCTTTTTA
1 AAAAAACGCCGCTATAGATCGACCATTAGCGGCGC-TTTTA
* * * *
99275683 AAATAACGCCGCTATAGATCGAGCATTAGCGGCACTTTTG
1 AAAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTTA
** * * *
99275723 GGAAAACGCCGCTATAGGTCGACTATTAGTGGCGCTTTATA
1 AAAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTT-TA
99275764 AAAAAACGCCGC
1 AAAAAACGCCGC
99275776 AAAAAATTAA
Statistics
Matches: 107, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
40 64 0.60
41 43 0.40
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTTA
Found at i:99275670 original size:40 final size:39
Alignment explanation
Indices: 99275626--99275775 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 39
99275616 TAGATTGAGT
*
99275626 ATTAGCGGCGCTTCTTAAAAAACGCTGCTATAGGTCGACC
1 ATTAGCGGCGCTT-TTAAAAAACGCCGCTATAGGTCGACC
* *
99275666 ATTAGCGGCGCTTTTTAAAATAACGCCGCTATAGATCGAGC
1 ATTAGCGGCGC-TTTTAAAA-AACGCCGCTATAGGTCGACC
* ** *
99275707 ATTAGCGGCACTTTTGGGAAAACGCCGCTATAGGTCGACT
1 ATTAGCGGCGCTTTT-AAAAAACGCCGCTATAGGTCGACC
*
99275747 ATTAGTGGCGCTTTATAAAAAAACGCCGC
1 ATTAGCGGCGCTTT-T-AAAAAACGCCGC
99275776 AAAAAATTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
40 50 0.54
41 42 0.46
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTAAAAAACGCCGCTATAGGTCGACC
Found at i:99275712 original size:81 final size:80
Alignment explanation
Indices: 99275602--99275775 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 80
99275592 GTACTTGAAC
* * * * * *
99275602 AAAAAACGCCACTGTAGATTGAGTATTAGCGGCGCTTCTT-AAAAAACGCTGCTATAGGTCGACC
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTT-TTGAAAAAACGCCGCTATAGGTCGACC
*
99275666 ATTAGCGGCGCTTTTT
65 ATTAGCGGCGCTTTAT
** *
99275682 AAAATAACGCCGCTATAGATCGAGCATTAGCGGCACTTTTGGGAAAACGCCGCTATAGGTCGACT
1 AAAA-AACGCCGCTATAGATCGAGCATTAGCGGCACTTTTGAAAAAACGCCGCTATAGGTCGACC
*
99275747 ATTAGTGGCGCTTTAT
65 ATTAGCGGCGCTTTAT
99275763 AAAAAAACGCCGC
1 -AAAAAACGCCGC
99275776 AAAAAATTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
80 6 0.08
81 70 0.88
82 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (80 bp):
AAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTTGAAAAAACGCCGCTATAGGTCGACCA
TTAGCGGCGCTTTAT
Found at i:99275861 original size:40 final size:40
Alignment explanation
Indices: 99275806--99275921 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
99275796 AGCTTTAGTT
* *
99275806 GCATTTGCGGCGCTTTTTGCAAAACGCCGCTATAGAT-AGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCA-A
99275846 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
* * *
99275886 GCATTAGTGGTGCTTTTTGAAAAACGCCACTATAGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
99275922 CAAAGCCACT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 69 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
Found at i:99276277 original size:14 final size:14
Alignment explanation
Indices: 99276255--99276367 Score: 59
Period size: 14 Copynumber: 7.9 Consensus size: 14
99276245 TTAATTATCA
* *
99276255 TTATAGTTTAGTGT
1 TTATGGTTTAGGGT
99276269 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
99276283 ATATGGTTTAGAAGT
1 TTATGGTTTAG-GGT
*
99276298 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
99276312 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* ** *
99276327 TTCTGAATTATGGT
1 TTATGGTTTAGGGT
* *
99276341 TTAAGGGTTAGGGT
1 TTATGGTTTAGGGT
*
99276355 TTAAGGTTTAGGG
1 TTATGGTTTAGGG
99276368 GTTAGGGGTT
Statistics
Matches: 75, Mismatches: 18, Indels: 12
0.71 0.17 0.11
Matches are distributed among these distances:
12 3 0.04
14 52 0.69
15 17 0.23
17 3 0.04
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:99276379 original size:22 final size:22
Alignment explanation
Indices: 99276338--99276401 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
99276328 TCTGAATTAT
99276338 GGTTTAAGGGTTA-GGGTTTAA
1 GGTTTAAGGGTTAGGGGTTTAA
*
99276359 GGTTTAGGGGTTAGGGGTTTAA
1 GGTTTAAGGGTTAGGGGTTTAA
** *
99276381 GGGCTAAGGGTTAGGGATTTA
1 GGTTTAAGGGTTAGGGGTTTA
99276402 GGCCTAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 12 0.32
22 25 0.68
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.34
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTTTAA
Found at i:99277456 original size:14 final size:14
Alignment explanation
Indices: 99277437--99277467 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
99277427 ATCTAATTTT
99277437 TCCCCAAATCAAAA
1 TCCCCAAATCAAAA
99277451 TCCCCAAATCAAAA
1 TCCCCAAATCAAAA
99277465 TCC
1 TCC
99277468 TTCCATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
TCCCCAAATCAAAA
Found at i:99277554 original size:14 final size:14
Alignment explanation
Indices: 99277535--99277564 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
99277525 ATTTCCTGTT
99277535 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
99277549 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
99277563 TC
1 TC
99277565 CCTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:99279152 original size:37 final size:37
Alignment explanation
Indices: 99279110--99279184 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
99279100 GTTTGTTTAC
* *
99279110 TTGCAATCATGCTTATTGCCCTTATTTTTTTTGTTCG
1 TTGCAATCATGCTTATTGCACTTATTTTTGTTGTTCG
99279147 TTGCAATCATGCTTATTGCACTTATTTTTGTTGTTCG
1 TTGCAATCATGCTTATTGCACTTATTTTTGTTGTTCG
99279184 T
1 T
99279185 GCTACTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (37 bp):
TTGCAATCATGCTTATTGCACTTATTTTTGTTGTTCG
Found at i:99282206 original size:42 final size:42
Alignment explanation
Indices: 99282154--99282246 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
99282144 GGGATAGTGG
*
99282154 TGACTTTTAGC-AGTGTTTTTAAGGAAAGCG-TCGCTAAAAG-CA
1 TGACCTTTAGCGA-TGTTTTT-AGGAAAGCGCT-GCTAAAAGTCA
* * *
99282196 TGACCTTTAGCGATGTTTTTGGGGAAGCGCTGCTAAAGGTCA
1 TGACCTTTAGCGATGTTTTTAGGAAAGCGCTGCTAAAAGTCA
99282238 TGACCTTTA
1 TGACCTTTA
99282247 ACGGCGTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
41 14 0.32
42 29 0.66
43 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
TGACCTTTAGCGATGTTTTTAGGAAAGCGCTGCTAAAAGTCA
Found at i:99282332 original size:42 final size:42
Alignment explanation
Indices: 99282179--99282340 Score: 182
Period size: 42 Copynumber: 3.9 Consensus size: 42
99282169 TTTTTAAGGA
* * ** *
99282179 AAGCGTCGCTAAAAG-CATGACCTTTAGCGATGTTTTTGGGG
1 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGG
* * *
99282220 AAGCGCTGCTAAAGGTCATGACCTTTAACGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGG-G
* * * *
99282263 AAGCACCGTTAAAGATCATGATCTTTAGCGGCGTTTGTGGGG
1 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGG
* *
99282305 AAGTGCCGCTAAAGGTAATGACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTT
99282341 TTTTACATAA
Statistics
Matches: 98, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
41 12 0.12
42 51 0.52
43 35 0.36
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGG
Found at i:99282450 original size:31 final size:31
Alignment explanation
Indices: 99282410--99282470 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
99282400 CTTGTAAAAG
*
99282410 CGCCGCAAATAGTTTTAATGGCGTTTATAAA
1 CGCCACAAATAGTTTTAATGGCGTTTATAAA
*
99282441 CGCCACAAATAGTTTTAGTGGCGTTTATAA
1 CGCCACAAATAGTTTTAATGGCGTTTATAA
99282471 GCGTTGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (31 bp):
CGCCACAAATAGTTTTAATGGCGTTTATAAA
Found at i:99306539 original size:10 final size:10
Alignment explanation
Indices: 99306526--99306563 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
99306516 GTTAAAAAAG
99306526 AAAAAAAGAA
1 AAAAAAAGAA
99306536 AAAAAAATTG-A
1 AAAAAAA--GAA
99306547 AAAAAAAGAA
1 AAAAAAAGAA
99306557 AAAAAAA
1 AAAAAAA
99306564 TTGATTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 15 0.60
11 8 0.32
12 1 0.04
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:99306552 original size:21 final size:21
Alignment explanation
Indices: 99306526--99306567 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
99306516 GTTAAAAAAG
99306526 AAAAAAAGAAAAAAAAATTGA
1 AAAAAAAGAAAAAAAAATTGA
99306547 AAAAAAAGAAAAAAAAATTGA
1 AAAAAAAGAAAAAAAAATTGA
99306568 TTCTGTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAAATTGA
Found at i:99311148 original size:42 final size:42
Alignment explanation
Indices: 99311089--99311174 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
99311079 ATTGTGAAAA
99311089 CTCATACATAATACATGCATGCATGCAAGCCCACTTTATTAT
1 CTCATACATAATACATGCATGCATGCAAGCCCACTTTATTAT
99311131 CTCATACATAATACATGCATGCATGCAAGCCCACTTTATTAT
1 CTCATACATAATACATGCATGCATGCAAGCCCACTTTATTAT
99311173 CT
1 CT
99311175 TTGAGAAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (42 bp):
CTCATACATAATACATGCATGCATGCAAGCCCACTTTATTAT
Found at i:99313426 original size:3 final size:3
Alignment explanation
Indices: 99313420--99313456 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
99313410 TCATCATCAT
99313420 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
99313457 CTCAGTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.35, G:0.32, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:99313736 original size:5 final size:5
Alignment explanation
Indices: 99313726--99313756 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
99313716 CCATTTCATG
*
99313726 TTTTC TTTTC TTTTC TTTTC TTCTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
99313757 AATAGATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:99314239 original size:3 final size:3
Alignment explanation
Indices: 99314206--99314249 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
99314196 AAGCTGAGAA
* * * *
99314206 TCC TCC ACC TCC ACC TCC ACC TCC GCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
99314250 ATCATCATAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.07, C:0.66, G:0.02, T:0.25
Consensus pattern (3 bp):
TCC
Found at i:99318233 original size:22 final size:22
Alignment explanation
Indices: 99318201--99318268 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
99318191 TGCACAAACG
99318201 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
99318223 TACTGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
99318245 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
99318268 A
1 A
99318269 TAATAGAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.73
23 8 0.22
24 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:99319117 original size:17 final size:17
Alignment explanation
Indices: 99319095--99319129 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
99319085 CTCCTTATTG
99319095 CAATCTATTTCACAATT
1 CAATCTATTTCACAATT
* *
99319112 CAATCTTTTTCTCAATT
1 CAATCTATTTCACAATT
99319129 C
1 C
99319130 TAATTTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.46
Consensus pattern (17 bp):
CAATCTATTTCACAATT
Found at i:99324537 original size:14 final size:15
Alignment explanation
Indices: 99324520--99324553 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
99324510 AAGAAAAGGG
*
99324520 AAAAATAAA-AATAA
1 AAAAATAAAGAAGAA
99324534 AAAAATAAAGAAGAA
1 AAAAATAAAGAAGAA
99324549 AAAAA
1 AAAAA
99324554 GATACATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAATAAAGAAGAA
Found at i:99327334 original size:25 final size:24
Alignment explanation
Indices: 99327301--99327357 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
99327291 AACAAATATT
99327301 TTTAAAATTATAATTAAAAATAAAA
1 TTTAAAATT-TAATTAAAAATAAAA
* * * *
99327326 TTTATAATTTTATTTAAAATAATA
1 TTTAAAATTTAATTAAAAATAAAA
*
99327350 TTTTAAAT
1 TTTAAAAT
99327358 AGATAATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAAAATTTAATTAAAAATAAAA
Found at i:99331626 original size:18 final size:17
Alignment explanation
Indices: 99331587--99331626 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
99331577 GCAAATAGGC
*
99331587 CGTGTAGGCCACACGGA
1 CGTGTAGGCCACAAGGA
*
99331604 AGTGTAGGCCCACAAGGA
1 CGTGTAGG-CCACAAGGA
99331622 CGTGT
1 CGTGT
99331627 GAGAATCTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (17 bp):
CGTGTAGGCCACAAGGA
Found at i:99332118 original size:40 final size:40
Alignment explanation
Indices: 99332055--99332132 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
99332045 TGCGATACTT
** *
99332055 TATGGTGTGTAGGGTTGGATGGGTCGATTATAACCCCATA
1 TATGGTGTACAGGGATGGATGGGTCGATTATAACCCCATA
* * *
99332095 TATGGTGTACAGGGATGGCTGGGTCGATTTTATCCCCA
1 TATGGTGTACAGGGATGGATGGGTCGATTATAACCCCA
99332133 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (40 bp):
TATGGTGTACAGGGATGGATGGGTCGATTATAACCCCATA
Found at i:99343500 original size:12 final size:12
Alignment explanation
Indices: 99343479--99343511 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
99343469 TGTGTTATGG
99343479 CACACAGCCTAC
1 CACACAGCCTAC
*
99343491 CACACGGCCTAC
1 CACACAGCCTAC
99343503 CACACAGCC
1 CACACAGCC
99343512 ATGTAGCGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.52, G:0.12, T:0.06
Consensus pattern (12 bp):
CACACAGCCTAC
Found at i:99349916 original size:135 final size:134
Alignment explanation
Indices: 99349754--99350000 Score: 379
Period size: 135 Copynumber: 1.8 Consensus size: 134
99349744 GAAAATATAG
* *
99349754 AGGGATATTTGATTATTTTAAACAAACGAGAAGTTGCAACCCAGCACGTTAGGGCACGATTCCAT
1 AGGGATATTTGATTATTTTAAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCAT
99349819 GAATTGCCAAATATCGCACATC-GCCTTCGTTTTAAAGAATTTTTTTTAAAAGGCATGAGTGAAA
66 GAATTGCCAAATATCG-A-ATCAGCCTTCGTTTTAAAGAATTTTTTTTAAAAGGCATGAGTGAAA
99349883 TTGTGA
129 TTGTGA
* * * * * *
99349889 AGGGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGTACTATTCCGT
1 AGGGATATTTGATTATTTTAAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCAT
*
99349954 GAATTGCCAAATATCGAATCTAGCCTTCGTTTTAAAGATTTTTTTTT
66 GAATTGCCAAATATCGAATC-AGCCTTCGTTTTAAAGAATTTTTTTT
99350001 TTATAGTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
133 3 0.03
134 1 0.01
135 97 0.96
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (134 bp):
AGGGATATTTGATTATTTTAAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCAT
GAATTGCCAAATATCGAATCAGCCTTCGTTTTAAAGAATTTTTTTTAAAAGGCATGAGTGAAATT
GTGA
Found at i:99351245 original size:30 final size:31
Alignment explanation
Indices: 99351196--99351253 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
99351186 TAAGATGAAT
*
99351196 AAATAAAAAGGACTTAATTA-AGAAAGAACTA
1 AAATAAAAAGGACTAAATTATA-AAAGAACTA
*
99351227 AAATAAAAGGGAC-AAATTATAAAAGAA
1 AAATAAAAAGGACTAAATTATAAAAGAA
99351254 ATGAACTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (31 bp):
AAATAAAAAGGACTAAATTATAAAAGAACTA
Found at i:99353280 original size:75 final size:75
Alignment explanation
Indices: 99353162--99353308 Score: 222
Period size: 75 Copynumber: 2.0 Consensus size: 75
99353152 ATTCAACTTT
* * * *
99353162 TAGATTTGAATTATAACAACTATATTATTGCAATTATAGTTACTCCAAATCTAGAATTCAAACTC
1 TAGATTTGAAATATAACAACTAGATTATTGCAATTATAATTACTCCAAATCTAAAATTCAAACTC
99353227 AAGAAAATTC
66 AAGAAAATTC
* * **
99353237 TAGATTTGAAATATAATAGCTAGATTATTGCAATTATAATTACTCTGAATCTAAAATTCAAACTC
1 TAGATTTGAAATATAACAACTAGATTATTGCAATTATAATTACTCCAAATCTAAAATTCAAACTC
99353302 AAGAAAA
66 AAGAAAA
99353309 ATAGATCTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (75 bp):
TAGATTTGAAATATAACAACTAGATTATTGCAATTATAATTACTCCAAATCTAAAATTCAAACTC
AAGAAAATTC
Found at i:99353654 original size:21 final size:21
Alignment explanation
Indices: 99353632--99353672 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
99353622 ATATATTTAA
99353632 TTAACTCAATAATTAATTAAAT
1 TTAACTCAA-AATTAATTAAAT
* *
99353654 TTTATTCAAAATTAATTAA
1 TTAACTCAAAATTAATTAA
99353673 TAATTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAACTCAAAATTAATTAAAT
Found at i:99359929 original size:29 final size:30
Alignment explanation
Indices: 99359881--99359944 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
99359871 AACTCTCTAT
*
99359881 AAAATAATAAAAATACATTTTATT-TTTTA
1 AAAATAATAAAAATACATTTAATTCTTTTA
*
99359910 AAAATAA-AAAATATATATTTAATTCTTTTA
1 AAAATAATAAAA-ATACATTTAATTCTTTTA
99359940 AAAAT
1 AAAAT
99359945 CCGCATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.13
29 17 0.55
30 10 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATAATAAAAATACATTTAATTCTTTTA
Found at i:99360789 original size:17 final size:17
Alignment explanation
Indices: 99360767--99360802 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
99360757 GAATCGAGAA
99360767 TCAAGTATCTGA-CAAAT
1 TCAAGTAT-TGATCAAAT
99360784 TCAAGTATTGATCAAAT
1 TCAAGTATTGATCAAAT
99360801 TC
1 TC
99360803 TCCAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (17 bp):
TCAAGTATTGATCAAAT
Found at i:99362687 original size:16 final size:16
Alignment explanation
Indices: 99362651--99362700 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
99362641 GAAACATTTA
99362651 TTTTAATGTTTTTAGTAT
1 TTTTAAT-TTTTTA-TAT
*
99362669 TTTTAATTTATTATAT
1 TTTTAATTTTTTATAT
99362685 TTTTAATTTTTTATAT
1 TTTTAATTTTTTATAT
99362701 AAAAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 18 0.60
17 5 0.17
18 7 0.23
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
TTTTAATTTTTTATAT
Found at i:99373044 original size:22 final size:22
Alignment explanation
Indices: 99373018--99373082 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
99373008 ATTAATATAC
99373018 AAATATTAGTTTTAAATAATAG
1 AAATATTAGTTTTAAATAATAG
*
99373040 AAATA-TA---TT-AAT-ATAC
1 AAATATTAGTTTTAAATAATAG
99373056 AAATATTAGTTTTAAATAATAG
1 AAATATTAGTTTTAAATAATAG
99373078 AAATA
1 AAATA
99373083 AATAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 8 0.23
17 5 0.14
18 2 0.06
20 2 0.06
21 5 0.14
22 13 0.37
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
AAATATTAGTTTTAAATAATAG
Found at i:99373048 original size:38 final size:38
Alignment explanation
Indices: 99373006--99373082 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
99372996 TGTATACTTC
99373006 ATATTAATATACAAATATTAGTTTTAAATAATAGAAAT
1 ATATTAATATACAAATATTAGTTTTAAATAATAGAAAT
99373044 ATATTAATATACAAATATTAGTTTTAAATAATAGAAAT
1 ATATTAATATACAAATATTAGTTTTAAATAATAGAAAT
99373082 A
1 A
99373083 AATAAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (38 bp):
ATATTAATATACAAATATTAGTTTTAAATAATAGAAAT
Found at i:99375186 original size:8 final size:8
Alignment explanation
Indices: 99375173--99375223 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
99375163 AAAAATCAAT
99375173 ATTTTATA
1 ATTTTATA
99375181 ATTTTATA
1 ATTTTATA
*
99375189 ATGTTT-TT
1 AT-TTTATA
*
99375197 ATTTTAAA
1 ATTTTATA
99375205 TATTTTATA
1 -ATTTTATA
99375214 ATTTT-TA
1 ATTTTATA
99375221 ATT
1 ATT
99375224 AGTTAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 8 0.22
8 18 0.50
9 10 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
ATTTTATA
Found at i:99375212 original size:25 final size:23
Alignment explanation
Indices: 99375172--99375219 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
99375162 CAAAAATCAA
*
99375172 TATTTTATAATTTTATAATGTTTT
1 TATTTTAAAATTTTATAAT-TTTT
99375196 TATTTTAAATATTTTATAATTTTT
1 TATTTTAAA-ATTTTATAATTTTT
99375220 AATTAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TATTTTAAAATTTTATAATTTTT
Found at i:99375327 original size:23 final size:23
Alignment explanation
Indices: 99375283--99375327 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
99375273 CTATTTAATT
*
99375283 TAATAGTTGATTTAAATTTTAAA
1 TAATAGTTGATTTAAATCTTAAA
* *
99375306 TAATTGTTGATTTAACTCTTAA
1 TAATAGTTGATTTAAATCTTAA
99375328 TATTAAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATAGTTGATTTAAATCTTAAA
Found at i:99383971 original size:27 final size:27
Alignment explanation
Indices: 99383940--99383994 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
99383930 TGAAACAACA
99383940 TAGATGATGGTACTCAGTCTACAACGT
1 TAGATGATGGTACTCAGTCTACAACGT
99383967 TAGATGATGGTACTCAGTCTACAACGT
1 TAGATGATGGTACTCAGTCTACAACGT
99383994 T
1 T
99383995 TTCTATTCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (27 bp):
TAGATGATGGTACTCAGTCTACAACGT
Found at i:99389537 original size:2 final size:2
Alignment explanation
Indices: 99389530--99389555 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99389520 CGCCTGCATT
99389530 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
99389556 TGGTGAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:99399997 original size:69 final size:70
Alignment explanation
Indices: 99399918--99400056 Score: 208
Period size: 72 Copynumber: 2.0 Consensus size: 70
99399908 ACTTTTTATC
* *
99399918 ATTACGATGATTTTATTTGAACGAGAT-AAAATTTAAATTGTCTGATAGATTTCGAATCAATTCA
1 ATTACGATGATTTTATTTAAACGAGATGAAAATTTAAATTATCTGATAGATTTCGAATCAATTCA
99399982 CTTTT
66 CTTTT
* *
99399987 ATTATGATGATTTTATTTAAATGAGATGGCAAAATTTAAATTATCTGATAGATTTCGAATCAATT
1 ATTACGATGATTTTATTTAAACGAGAT-G-AAAATTTAAATTATCTGATAGATTTCGAATCAATT
*
99400052 TACTT
64 CACTT
99400057 CAAATGGAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
69 24 0.39
72 38 0.61
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (70 bp):
ATTACGATGATTTTATTTAAACGAGATGAAAATTTAAATTATCTGATAGATTTCGAATCAATTCA
CTTTT
Found at i:99408178 original size:13 final size:13
Alignment explanation
Indices: 99408160--99408217 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
99408150 TATTATCTAT
99408160 TTAATTAATTAAA
1 TTAATTAATTAAA
* *
99408173 TTAATTGATTGAA
1 TTAATTAATTAAA
*
99408186 TTAACTAAATT-AA
1 TTAA-TTAATTAAA
*
99408199 TTTATTAATTAAA
1 TTAATTAATTAAA
*
99408212 TAAATT
1 TTAATT
99408218 TTTTAATCCA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
12 5 0.14
13 26 0.74
14 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:99408189 original size:22 final size:21
Alignment explanation
Indices: 99408160--99408217 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
99408150 TATTATCTAT
*
99408160 TTAATTAATTAAATTAATTGA
1 TTAATTAAATAAATTAATTGA
* *
99408181 TTGAATTAACTAAATTAATTTA
1 TT-AATTAAATAAATTAATTGA
99408203 TTAATTAAATAAATT
1 TTAATTAAATAAATT
99408218 TTTTAATCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
TTAATTAAATAAATTAATTGA
Found at i:99408211 original size:17 final size:17
Alignment explanation
Indices: 99408185--99408224 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
99408175 AATTGATTGA
* *
99408185 ATTAACTAAATTAATTT
1 ATTAATTAAATAAATTT
99408202 ATTAATTAAATAAATTT
1 ATTAATTAAATAAATTT
*
99408219 TTTAAT
1 ATTAAT
99408225 CCAATTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATTAAATAAATTT
Found at i:99409651 original size:97 final size:93
Alignment explanation
Indices: 99409449--99409678 Score: 239
Period size: 97 Copynumber: 2.4 Consensus size: 93
99409439 ATGGCTTCAC
* * * * *
99409449 CAAATAAAATTTTA-TTTTTTATATTTAAATTTAAAAAAACACATTTTAAAAAACAGGTACTTAC
1 CAAATAAAATATAATTTTTTTATATTTAAATTTAAAAAAACACATTTAAAAAAACAAGTACATAC
* * * *
99409513 ATTGGTGGTATCATTCTTAATGACTCCA
66 ACTGGTGGCACCATTATTAATGACTCCA
*
99409541 CAAAATAAAATATAATTTTTTTATATTTAAA-TTAAAAAAACGCATTTAAAAAAAAAACAAGTAC
1 C-AAATAAAATATAATTTTTTTATATTTAAATTTAAAAAAACACATTT---AAAAAAACAAGTAC
* *
99409605 AATACACTGTTGGCGCCATTATTAATGACTCCA
62 -ATACACTGGTGGCACCATTATTAATGACTCCA
* ** *
99409638 TCAAATAAAATATAGTTTTTAAAAATTTTAAATTTAAAAAA
1 -CAAATAAAATATAATTTTTTTATA-TTTAAATTTAAAAAA
99409679 CCAAAAAAAA
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
92 1 0.01
93 26 0.23
94 15 0.13
96 12 0.11
97 44 0.39
98 7 0.06
99 8 0.07
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (93 bp):
CAAATAAAATATAATTTTTTTATATTTAAATTTAAAAAAACACATTTAAAAAAACAAGTACATAC
ACTGGTGGCACCATTATTAATGACTCCA
Found at i:99410333 original size:16 final size:17
Alignment explanation
Indices: 99410302--99410336 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
99410292 TTAATTCAAA
*
99410302 TAAAATATATTTTTATT
1 TAAAATATAGTTTTATT
99410319 TAAAA-ATAGTTTTATT
1 TAAAATATAGTTTTATT
99410335 TA
1 TA
99410337 TCTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TAAAATATAGTTTTATT
Found at i:99410926 original size:21 final size:21
Alignment explanation
Indices: 99410883--99410926 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
99410873 GATGCGGTTT
* * *
99410883 GGATTTTAGGTTTGAATGGAA
1 GGATGTTAGGTTTCAATGCAA
*
99410904 GGATGTTAGGTTTCAATTCAA
1 GGATGTTAGGTTTCAATGCAA
99410925 GG
1 GG
99410927 GTGGTAATGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.36
Consensus pattern (21 bp):
GGATGTTAGGTTTCAATGCAA
Found at i:99412344 original size:89 final size:89
Alignment explanation
Indices: 99412192--99412391 Score: 251
Period size: 89 Copynumber: 2.2 Consensus size: 89
99412182 AACTACTATT
* * * *
99412192 TAAAATATTCGTATTATTTTTGTATCCGTAAATCAATTTTAGTCAGTATTATTTATTGGTCAAAT
1 TAAAATGTTCGTATTATTTTTGGATCCGAAAAT-AATTTTAGTCAGTATTATTTATCGGTCAAAT
** *
99412257 TTTATACTTTCGTATATCAGTTTTG
65 TTTATACTTTCGTATATCAAATTTC
* * *
99412282 TAAAATGTTTGTATTATTTTTGGATCTGAAAA-ATATTTTAGTTCA-TATTATTTGTCGGTCAAA
1 TAAAATGTTCGTATTATTTTTGGATCCGAAAATA-ATTTTAG-TCAGTATTATTTATCGGTCAAA
* *
99412345 TTTTATATTTTTGTATATCAAATTTC
64 TTTTATACTTTCGTATATCAAATTTC
99412371 TAAAATGTTCGTATTATTTTT
1 TAAAATGTTCGTATTATTTTT
99412392 TTATATGTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 64 0.67
90 30 0.32
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (89 bp):
TAAAATGTTCGTATTATTTTTGGATCCGAAAATAATTTTAGTCAGTATTATTTATCGGTCAAATT
TTATACTTTCGTATATCAAATTTC
Found at i:99412535 original size:179 final size:177
Alignment explanation
Indices: 99412192--99412535 Score: 379
Period size: 179 Copynumber: 1.9 Consensus size: 177
99412182 AACTACTATT
* * * *
99412192 TAAAATATTCGTATTATTTTTGTATCCGTAAATCAATTTTAGTCAGTATTATTTATTGGTCAAAT
1 TAAAATATTCGTATTATTTTTGTATACGTAAATAAAATTTAGCCAGTATTATTTATTGGTCAAAT
* * * * * *
99412257 TTTATACTTTCGTATATCAGTTTTGTAAAATGTTTGTATTATTTTTGGATCTGAAAAATATTTTA
66 TATATAATTTCGTATATCAGTTTTGTAAAATGTTCGTATTATTCTTGGATATGAAAAAAATTTTA
*
99412322 GTTCATATTATTTGTCGGTCAAATTTTATATTTTTGTATATCAAATTTC
131 GTTCATATTATTTGT--GTCAAATTATATATTTTTGTATATCAAATTTC
* * * * * * **
99412371 TAAAATGTTCGTATTATTTTTTTATATGTAAATAAAATTTAGCCGGTTTTATTTGTTGGTTGAAT
1 TAAAATATTCGTATTATTTTTGTATACGTAAATAAAATTTAGCCAGTATTATTTATTGGTCAAAT
* ** *
99412436 TATATAATTTCGTATATTAGTTTTGTAGTATGTTCGTATT-TTCTTGTATATGTAAAAAAAAATT
66 TATATAATTTCGTATATCAGTTTTGTAAAATGTTCGTATTATTCTTGGATATG---AAAAAAATT
* *
99412500 TGTTGTGTCTTATTATTTGT-TCAAATTAT-TATTTTT
128 T-TAGT-TCATATTATTTGTGTCAAATTATATATTTTT
99412536 ACTTAATATT
Statistics
Matches: 135, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
178 9 0.07
179 94 0.70
180 8 0.06
181 9 0.07
182 3 0.02
183 12 0.09
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (177 bp):
TAAAATATTCGTATTATTTTTGTATACGTAAATAAAATTTAGCCAGTATTATTTATTGGTCAAAT
TATATAATTTCGTATATCAGTTTTGTAAAATGTTCGTATTATTCTTGGATATGAAAAAAATTTTA
GTTCATATTATTTGTGTCAAATTATATATTTTTGTATATCAAATTTC
Found at i:99416643 original size:15 final size:16
Alignment explanation
Indices: 99416622--99416663 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
99416612 AATCTTTTTT
99416622 TTTACTTTTAAATTTA
1 TTTACTTTTAAATTTA
*
99416638 -TTAC-TTTAATTTTA
1 TTTACTTTTAAATTTA
99416652 TTTATCTTTTAA
1 TTTA-CTTTTAA
99416664 TTAAAGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 1 0.05
17 5 0.23
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTACTTTTAAATTTA
Found at i:99416651 original size:14 final size:15
Alignment explanation
Indices: 99416618--99416665 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
99416608 TTTAAATCTT
*
99416618 TTTTTTTACTTTTAA
1 TTTTATTACTTTTAA
*
99416633 ATTTATTAC-TTTAA
1 TTTTATTACTTTTAA
99416647 TTTTATTTATCTTTTAA
1 TTTTA-TTA-CTTTTAA
99416664 TT
1 TT
99416666 AAAGAAGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
16 1 0.04
17 7 0.26
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATTACTTTTAA
Found at i:99416802 original size:17 final size:17
Alignment explanation
Indices: 99416756--99416804 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
99416746 TTAAAAAAAT
99416756 ATTTATCCTTAAAATTG
1 ATTTATCCTTAAAATTG
*
99416773 A--TAT--TTTAAATTG
1 ATTTATCCTTAAAATTG
99416786 ATTTATCCTTAAAATTG
1 ATTTATCCTTAAAATTG
99416803 AT
1 AT
99416805 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 9 0.35
15 6 0.23
17 11 0.42
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATCCTTAAAATTG
Found at i:99417383 original size:38 final size:37
Alignment explanation
Indices: 99417305--99417383 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
99417295 CATCTAGATA
* * *
99417305 TGCATGCGCACACGATATCGAAGAGTTTGGAACCTTT
1 TGCATGCGCACACGATATCGAAAAGTCTAGAACCTTT
*
99417342 TGCATGCGCACATGAATATCGAAAAGTCTAGAA-CTTCT
1 TGCATGCGCACACG-ATATCGAAAAGTCTAGAACCTT-T
99417380 TGCA
1 TGCA
99417384 CTTGCAACGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 16 0.44
38 20 0.56
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (37 bp):
TGCATGCGCACACGATATCGAAAAGTCTAGAACCTTT
Found at i:99418897 original size:3 final size:3
Alignment explanation
Indices: 99418889--99418915 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
99418879 GTGCTCAAAA
99418889 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
99418916 TTGAGGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:99421018 original size:40 final size:40
Alignment explanation
Indices: 99420960--99421087 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
99420950 CGTTTGGATA
* * * *
99420960 AAAAACGCCGCTACAGATCGAGCACTAGCGGCGCTTTTTG
1 AAAAACGCCACTATAGATCGAGCATTAGCGACGCTTTTTG
* * *
99421000 AAAAACGCCACTATAGATCGAGAATTAGTGACAC-TTTT-
1 AAAAACGCCACTATAGATCGAGCATTAGCGACGCTTTTTG
* * *
99421038 AAGAAACACCACTATAGGTCGATCATTAGCGACGCTTTTTG
1 AA-AAACGCCACTATAGATCGAGCATTAGCGACGCTTTTTG
99421079 AAAAACGCC
1 AAAAACGCC
99421088 GCAAAAAAAG
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.03
39 30 0.42
40 37 0.52
41 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAACGCCACTATAGATCGAGCATTAGCGACGCTTTTTG
Found at i:99421066 original size:39 final size:39
Alignment explanation
Indices: 99421002--99421076 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
99420992 GCTTTTTGAA
* *
99421002 AAACGCCACTATAGATCGAGAATTAGTGACACTTTTAAG
1 AAACACCACTATAGATCGAGAATTAGCGACACTTTTAAG
* ** *
99421041 AAACACCACTATAGGTCGATCATTAGCGACGCTTTT
1 AAACACCACTATAGATCGAGAATTAGCGACACTTTT
99421077 TGAAAAACGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (39 bp):
AAACACCACTATAGATCGAGAATTAGCGACACTTTTAAG
Found at i:99421263 original size:114 final size:114
Alignment explanation
Indices: 99421114--99421325 Score: 279
Period size: 114 Copynumber: 1.9 Consensus size: 114
99421104 CAATGCTGCC
** ** *
99421114 GTTTTATGTTGAGCTTTAGTGGTTCTAGGAGCGCTTTTTGAAAATTACCGCTATAGATCGAG-TA
1 GTTTTATGTTGAGCTTTAGTGCATCTAGGAGCGCTTTTTGAAAAACACCGCTATAGATCAAGCT-
* *
99421178 TTAGTGGCGGTTT-TTGAAAAACGCAGCAAAAAATTCAATAAGGCGCAGTA
65 TTAGCGGCGCTTTATT-AAAAACGCAGCAAAAAATTCAATAAGGCGCAGTA
*
99421228 GTTTTATGTTGAGCTTTAGTGACAT-TA-GAGACGCTTTTTGAAAAACGCCGCTATAGATCAAGC
1 GTTTTATGTTGAGCTTTAGTG-CATCTAGGAG-CGCTTTTTGAAAAACACCGCTATAGATCAAGC
*
99421291 TTTAGCGGCGCTTTATTAAAAACGCCGCAAAAAAT
64 TTTAGCGGCGCTTTATTAAAAACGCAGCAAAAAAT
99421326 ATTTTTATCT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
113 3 0.04
114 78 0.92
115 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (114 bp):
GTTTTATGTTGAGCTTTAGTGCATCTAGGAGCGCTTTTTGAAAAACACCGCTATAGATCAAGCTT
TAGCGGCGCTTTATTAAAAACGCAGCAAAAAATTCAATAAGGCGCAGTA
Found at i:99421647 original size:14 final size:14
Alignment explanation
Indices: 99421628--99421676 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
99421618 TTATCACATA
99421628 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* *
99421642 GTTTAGAGTATATG
1 GTTTAGGGTTTATG
* *
99421656 GTTTAAGGTTTAAG
1 GTTTAGGGTTTATG
99421670 GTTTAGG
1 GTTTAGG
99421677 AGTTACTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:99421731 original size:7 final size:7
Alignment explanation
Indices: 99421718--99421760 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
99421708 TTAAGGGTTG
99421718 GGGTTTA
1 GGGTTTA
*
99421725 AGGTTTA
1 GGGTTTA
*
99421732 GGGGTTA
1 GGGTTTA
99421739 GGGGTTTA
1 -GGGTTTA
99421747 GGGTTTAA
1 GGGTTT-A
99421755 GGGTTT
1 GGGTTT
99421761 GGTTTTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:99421736 original size:21 final size:22
Alignment explanation
Indices: 99421712--99421801 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 22
99421702 GATGGATTAA
99421712 GGGTT-GGGGTTTAAGGTTTAG
1 GGGTTAGGGGTTTAAGGTTTAG
* *
99421733 GGGTTAGGGGTTTAGGGTTTAA
1 GGGTTAGGGGTTTAAGGTTTAG
* * * *
99421755 GGGTT-TGGTTTTATGATTTAG
1 GGGTTAGGGGTTTAAGGTTTAG
* * *
99421776 AGGTTAGGGG-ATAAGGGTTAG
1 GGGTTAGGGGTTTAAGGTTTAG
99421797 GGGTT
1 GGGTT
99421802 TAGGCTTAGA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 31 0.60
22 21 0.40
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (22 bp):
GGGTTAGGGGTTTAAGGTTTAG
Found at i:99421737 original size:15 final size:15
Alignment explanation
Indices: 99421708--99421756 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
99421698 AGATGATGGA
*
99421708 TTAAGGGTT-GGGGT
1 TTAAGGTTTAGGGGT
99421722 TTAAGGTTTAGGGG-
1 TTAAGGTTTAGGGGT
*
99421736 TTAGGGGTTTA-GGGT
1 TTA-AGGTTTAGGGGT
99421751 TTAAGG
1 TTAAGG
99421757 GTTTGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (15 bp):
TTAAGGTTTAGGGGT
Found at i:99421755 original size:43 final size:43
Alignment explanation
Indices: 99421708--99421794 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
99421698 AGATGATGGA
* * * *
99421708 TTAAGGGTTGGGGTTTAAGGTTTAGGGGTTAGGGGTTTAGGGT
1 TTAAGGGTTGGGGTTTAAGATTTAGAGGTTAGGGGATAAGGGT
* * *
99421751 TTAAGGGTTTGGTTTTATGATTTAGAGGTTAGGGGATAAGGGT
1 TTAAGGGTTGGGGTTTAAGATTTAGAGGTTAGGGGATAAGGGT
99421794 T
1 T
99421795 AGGGGTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (43 bp):
TTAAGGGTTGGGGTTTAAGATTTAGAGGTTAGGGGATAAGGGT
Found at i:99421767 original size:14 final size:15
Alignment explanation
Indices: 99421708--99421760 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
99421698 AGATGATGGA
*
99421708 TTAAGGG-TTGGGGT
1 TTAAGGGTTTAGGGT
*
99421722 TTAA-GGTTTAGGGG
1 TTAAGGGTTTAGGGT
*
99421736 TTAGGGGTTTAGGGT
1 TTAAGGGTTTAGGGT
99421751 TTAAGGGTTT
1 TTAAGGGTTT
99421761 GGTTTTATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.06
14 12 0.38
15 18 0.56
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
TTAAGGGTTTAGGGT
Found at i:99421985 original size:16 final size:16
Alignment explanation
Indices: 99421965--99422020 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
99421955 CGTTTGGTTG
* *
99421965 GCTGTAGTGGAATAGG
1 GCTGTAATGGAATAGA
99421981 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
99421997 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
99422013 GCTGTAAT
1 GCTGTAAT
99422021 AAGTAATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:99422095 original size:44 final size:46
Alignment explanation
Indices: 99422002--99422095 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
99421992 ATAGAGTTGT
*
99422002 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
***
99422048 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
99422092 AATG
1 AATG
99422096 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:99426402 original size:32 final size:32
Alignment explanation
Indices: 99426361--99426425 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
99426351 TTGCAATTTG
99426361 TTTTATATTTGCCCTTACCCTTTACATCTATC
1 TTTTATATTTGCCCTTACCCTTTACATCTATC
** *
99426393 TTTTATATTTGCCCTTGGCTTTTACATCTATC
1 TTTTATATTTGCCCTTACCCTTTACATCTATC
99426425 T
1 T
99426426 CGTCATCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.25, G:0.06, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTACCCTTTACATCTATC
Found at i:99426644 original size:12 final size:12
Alignment explanation
Indices: 99426627--99426653 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
99426617 TAGATTTATG
99426627 CAAAACAATACC
1 CAAAACAATACC
99426639 CAAAACAATACC
1 CAAAACAATACC
99426651 CAA
1 CAA
99426654 TAATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAACAATACC
Found at i:99430175 original size:16 final size:16
Alignment explanation
Indices: 99430154--99430186 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
99430144 ATAGCTATTA
99430154 CAGCCAACTAAATATG
1 CAGCCAACTAAATATG
99430170 CAGCCAACTAAATATG
1 CAGCCAACTAAATATG
99430186 C
1 C
99430187 TGTAAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.18
Consensus pattern (16 bp):
CAGCCAACTAAATATG
Found at i:99431045 original size:114 final size:115
Alignment explanation
Indices: 99430845--99431077 Score: 281
Period size: 114 Copynumber: 2.0 Consensus size: 115
99430835 ATAGCGGTAC
* * *
99430845 AAAAACACCGCAAAAATCATTTTGTTTTAATAAAAACGGCGCCATTCTATTGGATTTCTTAGTTA
1 AAAAACACCGCAAAAATCATTTTGTTTTAATAAAAACGACACCATTCTATTGGATTTCTTAGTGA
* * *
99430910 CATTTTAGGTGAAATGCCGCAATATGTCAGGCTTTAGCGGCGCTA-GTGA
66 CATTTTAGGTAAAATGCCGCAATAGGTCAGGCTTCAGCGGCGCTAGGTGA
* * * * * * *
99430959 AAAAACACCGCAAAAAGTTATTTTGTTTTAATCAAAATGACACCGTTTTATT-TATTTTTTAGTG
1 AAAAACACCGCAAAAA-TCATTTTGTTTTAATAAAAACGACACCATTCTATTGGATTTCTTAGTG
* * * * *
99431023 GCGTTTTTGTTAAAATGCCGCAATAGGTCGGGCTTCAGCGGCGCTAGGTGA
65 ACATTTTAGGTAAAATGCCGCAATAGGTCAGGCTTCAGCGGCGCTAGGTGA
99431074 AAAA
1 AAAA
99431078 TGCCGCAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
114 63 0.64
115 36 0.36
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (115 bp):
AAAAACACCGCAAAAATCATTTTGTTTTAATAAAAACGACACCATTCTATTGGATTTCTTAGTGA
CATTTTAGGTAAAATGCCGCAATAGGTCAGGCTTCAGCGGCGCTAGGTGA
Found at i:99431203 original size:28 final size:27
Alignment explanation
Indices: 99431145--99431202 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
99431135 AATTTTGTAA
99431145 CCCAACCTTTTTTCCTTTACTTTTTTTC
1 CCCAACCTTTTTT-CTTTACTTTTTTTC
99431173 CCCAACCTTTTCTT-TTTACTTTTTTTC
1 CCCAACCTTTT-TTCTTTACTTTTTTTC
99431200 CCC
1 CCC
99431203 CCAAAATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 16 0.55
28 11 0.38
29 2 0.07
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.55
Consensus pattern (27 bp):
CCCAACCTTTTTTCTTTACTTTTTTTC
Found at i:99432947 original size:36 final size:36
Alignment explanation
Indices: 99432900--99432975 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
99432890 CGTTGGCTTC
99432900 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
1 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
99432936 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
1 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
99432972 GCCC
1 GCCC
99432976 CTTGACTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (36 bp):
GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
Found at i:99438530 original size:22 final size:23
Alignment explanation
Indices: 99438503--99438547 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
99438493 GGGTATCTAC
*
99438503 AAATCAAATC-TCTATGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
99438525 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
99438548 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:99438551 original size:17 final size:17
Alignment explanation
Indices: 99438529--99438579 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
99438519 ATTACAAAAT
99438529 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
99438546 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
99438565 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
99438580 CATGTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:99438552 original size:22 final size:22
Alignment explanation
Indices: 99438500--99438557 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
99438490 AAAGGGTATC
* *
99438500 TACAAATCAAATC-TCTATGAT
1 TACAAATCATATCTTCTAAGAT
99438521 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
99438544 TACATATCATATCT
1 TACAAATCATATCT
99438558 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:99440210 original size:17 final size:18
Alignment explanation
Indices: 99440184--99440222 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
99440174 AAAAATGTGG
99440184 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
99440200 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
99440218 AAAAT
1 AAAAT
99440223 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:99440399 original size:15 final size:15
Alignment explanation
Indices: 99440379--99440409 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
99440369 AAAACAATAT
99440379 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
99440394 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
99440409 A
1 A
99440410 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:99444568 original size:17 final size:18
Alignment explanation
Indices: 99444542--99444580 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
99444532 CAAATTGTGG
99444542 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
99444558 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
99444576 AAAAT
1 AAAAT
99444581 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:99444757 original size:15 final size:15
Alignment explanation
Indices: 99444737--99444767 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
99444727 AAAACAATAT
99444737 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
99444752 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
99444767 A
1 A
99444768 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:99445784 original size:29 final size:29
Alignment explanation
Indices: 99445751--99445815 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
99445741 TACTTTTTGT
99445751 GTGGCAATAGCTCTTTTATGTTTTAATTG
1 GTGGCAATAGCTCTTTTATGTTTTAATTG
99445780 GTGGCAATAGCTCTTTTATGTTTTAATTG
1 GTGGCAATAGCTCTTTTATGTTTTAATTG
99445809 GTGGCAA
1 GTGGCAA
99445816 ATGGAACAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.45
Consensus pattern (29 bp):
GTGGCAATAGCTCTTTTATGTTTTAATTG
Found at i:99446709 original size:43 final size:42
Alignment explanation
Indices: 99446661--99447024 Score: 382
Period size: 43 Copynumber: 8.5 Consensus size: 42
99446651 AATATTTTTT
**
99446661 TAAAGGTCATGTTCTTTAGCGGTATTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
* * *
99446704 TAAAGGT-TTGTT-TTATAGTGGTGTTTGTGGCAAAAGCG-CGAC
1 TAAAGGTCATGTTCTT-TAGCGGCGTTTGTGG-AAAAGCGCCG-C
*
99446746 TAAAGGTC-TGTT-TTATAGAGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTT-TAGCGGCGTTTGT-GGAAAAGCGCCGC
*
99446788 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
* * * *
99446831 TAAAGGTCATGTTCTTTAGCTGTGATTGTGGGAAAAG-GGCGAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG-C
* * *
99446874 TAAAGATCATGTTCTTTAGCGGCGTTTGTGGTAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
* *
99446916 TAAAGGTCATGTTCTATAGCGGTG-TTGATGGAAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTG-TGG-AAAAGCGCCGC
* * * *
99446959 TAAAGGTCATATTCTATAGCGGCATTTGTGGAAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGC
*
99447002 TAAAGGTCATGTTCTATAGCGGC
1 TAAAGGTCATGTTCTTTAGCGGC
99447025 TTTTTTTACA
Statistics
Matches: 278, Mismatches: 30, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
41 8 0.03
42 99 0.36
43 166 0.60
44 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:99446930 original size:128 final size:129
Alignment explanation
Indices: 99446661--99447024 Score: 426
Period size: 128 Copynumber: 2.8 Consensus size: 129
99446651 AATATTTTTT
* *
99446661 TAAAGGTCATGTTCTTTAGCGGTATTTGT-GAGAAAAGCGCCGCTAAAGGT-TTGTT-TTATAG-
1 TAAAGGTCATGTTCTTTAGCGGTGTTTGTAG-GAAAAGCGCCGCTAAAGGTCATGTTCTT-TAGC
* * *
99446722 TGGTGTTTGTGGCAAAAGCGCGACTAAAGGTC-TGTT-TTATAGAGGCGTTTGTGGGAAAAGCGC
64 T-GTGATTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTT-TAGCGGCGTTTGTGGGAAAAGCGC
*
99446785 CGC
127 CAC
* *
99446788 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCTG
1 TAAAGGTCATGTTCTTTAGCGGTGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTG
* * * *
99446853 TGATTGTGGGAAAAGGGCGACTAAAGATCATGTTCTTTAGCGGCGTTTGT-GGTAAAGCGCCAC
66 TGATTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCAC
* * *
99446916 TAAAGGTCATGTTCTATAGCGGTG-TTG-ATGGAAAAAGCGCCGCTAAAGGTCATATTCTATAGC
1 TAAAGGTCATGTTCTTTAGCGGTGTTTGTA-GG-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* *
99446979 -G-GCATTTGTGGAAAAAGCGCCACTAAAGGTCATGTTCTATAGCGGC
64 TGTG-A-TTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTTTAGCGGC
99447025 TTTTTTTACA
Statistics
Matches: 206, Mismatches: 21, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
126 2 0.01
127 52 0.25
128 131 0.64
129 19 0.09
130 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (129 bp):
TAAAGGTCATGTTCTTTAGCGGTGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTG
TGATTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCAC
Found at i:99448536 original size:14 final size:15
Alignment explanation
Indices: 99448500--99448536 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
99448490 TTTTTAATTT
99448500 TTAATTT-ATTCAAA
1 TTAATTTAATTCAAA
*
99448514 TTAAGTTAATT-AAA
1 TTAATTTAATTCAAA
99448528 TTAATTTAA
1 TTAATTTAA
99448537 AGAAATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (15 bp):
TTAATTTAATTCAAA
Found at i:99448569 original size:22 final size:23
Alignment explanation
Indices: 99448544--99448586 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
99448534 TAAAGAAATC
99448544 AAATACTAAATTT-TATTATTTT
1 AAATACTAAATTTATATTATTTT
**
99448566 AAATTTTAAATTTATATTATT
1 AAATACTAAATTTATATTATT
99448587 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATACTAAATTTATATTATTTT
Found at i:99448596 original size:23 final size:22
Alignment explanation
Indices: 99448550--99448611 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
99448540 AATCAAATAC
99448550 TAAATTTTATTATTTTAAATTT
1 TAAATTTTATTATTTTAAATTT
*
99448572 TAAATTTATATTATTATTTAATTT
1 TAAATTT-TATTATT-TTAAATTT
*
99448596 AAATATTTTA-TATTTT
1 TAA-ATTTTATTATTTT
99448612 TACCTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 9 0.26
23 11 0.31
24 11 0.31
25 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TAAATTTTATTATTTTAAATTT
Found at i:99463067 original size:25 final size:25
Alignment explanation
Indices: 99463000--99463163 Score: 210
Period size: 25 Copynumber: 6.7 Consensus size: 25
99462990 TTATTATGCA
* *
99463000 CTAATGAA-CAGAGAACACTGAAGTG
1 CTAAT-AATCAGAGAGCACTGACGTG
*
99463025 CT-AT-A-CAGAGAGCACTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
* **
99463047 CTAATAATCAGAGAGCTCTGGTGTG
1 CTAATAATCAGAGAGCACTGACGTG
**
99463072 CTAATGTTCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
99463097 CTAATAATCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
99463122 CTAATATTCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
99463147 CTAATAATCAGAGAGCA
1 CTAATAATCAGAGAGCA
99463164 TGCTGAGGTC
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
22 17 0.14
23 2 0.02
24 3 0.02
25 100 0.82
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:99468650 original size:3 final size:3
Alignment explanation
Indices: 99468644--99468702 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
99468634 AATCATCATC
* *
99468644 ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
99468692 ATT ATC ATT AT
1 ATT ATT ATT AT
99468703 CATCATCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:99470400 original size:45 final size:47
Alignment explanation
Indices: 99470308--99470436 Score: 174
Period size: 45 Copynumber: 2.8 Consensus size: 47
99470298 GTGTGAATAA
* *
99470308 TACCTTGATTTAGCTACGGGCCATGGTATAGGTATTTTGTGAAAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGTGAAAAGT
* *
99470355 TACCTTGATTTGGCTA-TGG-CACGGTATAGGTACTTTG-GAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGTGAA-AAGT
* *
99470400 TATCTTGACTTGGCTACGGGCCATGGTATAGGTACTT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT
99470437 ATCGAATGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 3 0.04
45 34 0.48
46 4 0.06
47 30 0.42
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGTGAAAAGT
Found at i:99477828 original size:47 final size:47
Alignment explanation
Indices: 99477777--99477901 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
99477767 GTGTGAATAA
* * *
99477777 TACCTTGATTTGGCTACGGGCCATGGTATAGATAT-TTTGTGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGAT-TCTCTGGGAGAAGT
* * *
99477824 TACCTTGATTTGGCTATGGGCCATGGTATAGGTTCTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGATTCTCTGGGAGAAGT
**
99477871 TATATTGATTTGGCTACGGGCCATGGTATAG
1 TACCTTGATTTGGCTACGGGCCATGGTATAG
99477902 GTACTTATCG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 1 0.01
47 67 0.99
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGATTCTCTGGGAGAAGT
Found at i:99482577 original size:3 final size:3
Alignment explanation
Indices: 99482569--99482634 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
99482559 CATAAGTCTT
99482569 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99482617 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
99482635 AGTTTTTTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:99483196 original size:11 final size:9
Alignment explanation
Indices: 99483166--99483196 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
99483156 GTATCTTATA
99483166 ATATAAAAT
1 ATATAAAAT
99483175 ATATAAAAT
1 ATATAAAAT
*
99483184 ATATAAAAC
1 ATATAAAAT
99483193 ATAT
1 ATAT
99483197 TATATACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
ATATAAAAT
Found at i:99484047 original size:30 final size:30
Alignment explanation
Indices: 99484002--99484062 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
99483992 GGGAGTGGGA
* *
99484002 TGGGAGGGTAGTAAAAGTTTTGAGGGGGAAG
1 TGGGAGGGTAGTAAAAGTATTG-GGGGAAAG
99484033 TGGGAGGG-AGTAAAAGTATTGGGGGAAAG
1 TGGGAGGGTAGTAAAAGTATTGGGGGAAAG
99484062 T
1 T
99484063 AAAGATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
30 12 0.43
31 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (30 bp):
TGGGAGGGTAGTAAAAGTATTGGGGGAAAG
Found at i:99486091 original size:47 final size:47
Alignment explanation
Indices: 99486034--99486130 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
99486024 CAATCTCAAA
99486034 AAAAAATATAAATTTACTAATTGATTGGGTTAAGTTTTAATAAAAGT
1 AAAAAATATAAATTTACTAATTGATTGGGTTAAGTTTTAATAAAAGT
99486081 AAAAAATATAAATTTACTAATTGATTGGGTTAAGTTTTAATAAAAGT
1 AAAAAATATAAATTTACTAATTGATTGGGTTAAGTTTTAATAAAAGT
99486128 AAA
1 AAA
99486131 TTAAAATGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.37
Consensus pattern (47 bp):
AAAAAATATAAATTTACTAATTGATTGGGTTAAGTTTTAATAAAAGT
Found at i:99486496 original size:14 final size:16
Alignment explanation
Indices: 99486477--99486508 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
99486467 GGTAAAACTT
99486477 AGTTGATA-GT-TAAA
1 AGTTGATATGTGTAAA
99486491 AGTTGATATGTGTAAA
1 AGTTGATATGTGTAAA
99486507 AG
1 AG
99486509 AGTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (16 bp):
AGTTGATATGTGTAAA
Found at i:99489584 original size:11 final size:11
Alignment explanation
Indices: 99489570--99489600 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99489560 TATTTTTTTA
99489570 AAAATAAAAAT
1 AAAATAAAAAT
*
99489581 AAAACAAAAAT
1 AAAATAAAAAT
99489592 AAAATAAAA
1 AAAATAAAA
99489601 TCCAAATGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:99489585 original size:231 final size:232
Alignment explanation
Indices: 99489157--99489603 Score: 686
Period size: 230 Copynumber: 1.9 Consensus size: 232
99489147 TCAATTGGAA
* * *
99489157 CAAAAGCAAAGACCAATTGAAACAAAAGTCAAAATTCAAGAAAACGGGAAGGAGCCTTTTCTTTT
1 CAAAAGCAAAGACCAATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCC-TTTCTTTT
* * * *
99489222 GTTTTTTTTTTCCTTTACTGTAAGTGCCAAAAAAATCACAGGAATAGACAATTGAACATGAGATA
65 GATTTTTTTTTCCTTCACTGGAAGTGCCAAAAAAATCACAGGAATAGACAATGGAACATGAGATA
*
99489287 AAAAAGGTGAAAAGTGGGAAACAAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATAA
130 AAAAACGTGAAAAGTGGGAAACAAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATAA
99489352 AACAAAACA-AAAACAAAATCCCAACCATCCACTACTCT
195 AACAAAA-ATAAAACAAAATCCCAACCATCCACTACTCT
* *
99489390 CAAAAGTAAAGACCTATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCC-TT-TTTTG
1 CAAAAGCAAAGACCAATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCCTTTCTTTTG
* * * *
99489453 ATTTTTTTTTCCTTCACTGGAAGTGCCAAAAATATCACGGGAATGGACAATGGAACGTGAGA-AA
66 ATTTTTTTTTCCTTCACTGGAAGTGCCAAAAAAATCACAGGAATAGACAATGGAACATGAGATAA
*
99489517 GAAAACGTGAAAAGTGGGAAACAAAACCTTTTAATTTAATTAATATTTTTTTAAAAATAAAAATA
131 -AAAACGTGAAAAGTGGGAAAC-AAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATA
*
99489582 AAACAAAAATAAAATAAAATCC
194 AAACAAAAATAAAACAAAATCC
99489604 AAATGACATA
Statistics
Matches: 195, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
229 2 0.01
230 80 0.41
231 62 0.32
233 51 0.26
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (232 bp):
CAAAAGCAAAGACCAATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCCTTTCTTTTG
ATTTTTTTTTCCTTCACTGGAAGTGCCAAAAAAATCACAGGAATAGACAATGGAACATGAGATAA
AAAACGTGAAAAGTGGGAAACAAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATAAA
ACAAAAATAAAACAAAATCCCAACCATCCACTACTCT
Found at i:99489978 original size:23 final size:23
Alignment explanation
Indices: 99489942--99489985 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
99489932 TTGTGTTTTT
* *
99489942 ATATATATATTATAAAATTATAG
1 ATATAGATAATATAAAATTATAG
*
99489965 ATATAGATAATATAAGATTAT
1 ATATAGATAATATAAAATTAT
99489986 TTTATATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
ATATAGATAATATAAAATTATAG
Found at i:99490469 original size:35 final size:36
Alignment explanation
Indices: 99490414--99490484 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
99490404 TACTTTGGGA
*
99490414 TTCCTACTTCAATTCGGAATTGGATTATTCTCTTTT
1 TTCCTACTTCAATTCGGAATTGAATTATTCTCTTTT
* * *
99490450 TTCCTATTTCCATT-GGAATTGAATTATTTTCTTTT
1 TTCCTACTTCAATTCGGAATTGAATTATTCTCTTTT
99490485 CTCTTTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.54
Consensus pattern (36 bp):
TTCCTACTTCAATTCGGAATTGAATTATTCTCTTTT
Found at i:99490622 original size:12 final size:12
Alignment explanation
Indices: 99490603--99490631 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99490593 TTTCATTTTC
99490603 ATTT-TCTATTT
1 ATTTATCTATTT
99490614 ATTTATCTATTT
1 ATTTATCTATTT
99490626 ATTTAT
1 ATTTAT
99490632 TTTTTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTATCTATTT
Found at i:99490733 original size:25 final size:24
Alignment explanation
Indices: 99490672--99490733 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
99490662 TATAACACTC
* *
99490672 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
99490696 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
99490721 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
99490734 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:99497320 original size:178 final size:178
Alignment explanation
Indices: 99497017--99497431 Score: 686
Period size: 178 Copynumber: 2.3 Consensus size: 178
99497007 CGGTGAATTC
*
99497017 ACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
*
99497082 TCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
66 TCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
* *
99497147 AGCCATCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
131 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAT
* * * *
99497195 ACAAGTCTTATCTTCCTGAGGTAGCAAAGAAGTAGACTGAAAATTATAGATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
*
99497260 TCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATGGAGCAGATTTT
66 TCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
*
99497325 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAATAT
131 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAT
* * * * * *
99497373 ACAAGTCTTATTTTCCTAAGGCAGCAAGGAAGCAGGCTGAAGATTACAGTTCTTATCTC
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTC
99497432 TCTAAGCAGT
Statistics
Matches: 218, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
178 218 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (178 bp):
ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
TCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAT
Found at i:99497856 original size:40 final size:39
Alignment explanation
Indices: 99497810--99497947 Score: 104
Period size: 40 Copynumber: 3.4 Consensus size: 39
99497800 AAGCCTTAAC
*
99497810 CCCCTAAGCAGTAGGGTAACAAGCTAGAAAATACAGATCT
1 CCCCTAAACAGTAGGGTAACAAGCT-GAAAATACAGATCT
* * *
99497850 CCCCTAAACAGTAGTGG-AGC-AGATTGAAGATAGTA-AG-CCTT
1 CCCCTAAACAGTAG-GGTAACAAG-CTGAA-A-A-TACAGATC-T
*
99497891 AACCCCCTAAGCAGTAGGGTAACAAGCTGAAAAATACAGATCT
1 ---CCCCTAAACAGTAGGGTAACAAGCTG-AAAATACAGATCT
99497934 CCCCTAAACAGTAG
1 CCCCTAAACAGTAG
99497948 TGGAGCAGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
39 5 0.07
40 31 0.41
41 6 0.08
42 4 0.05
43 6 0.08
44 19 0.25
45 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (39 bp):
CCCCTAAACAGTAGGGTAACAAGCTGAAAATACAGATCT
Found at i:99498058 original size:85 final size:85
Alignment explanation
Indices: 99497417--99498649 Score: 1551
Period size: 84 Copynumber: 14.5 Consensus size: 85
99497407 GGCTGAAGAT
* * * **
99497417 TACAGTTCTTATCTCTCTAAGCAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACCCCCTAAG
1 TACAGATCTTATC-C-CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAG
* *
99497482 CAGTAGGGTAACTGGCTGAAGAA
64 CAGTAGGGTAACAGGCT-AAAAA
* * *
99497505 TACAGATC-T-CCCCTAAACAGTAGTGGAGCAGATCAAAGATAGCAAGCCTTAACCCCCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99497568 GTCGGGTAACAGGCTAGAAAA
66 GTAGGGTAACAGGCTA-AAAA
* * *
99497589 TACAGATC-T-CCCCTAAACAGTAGTGGGGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGTA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99497652 ATAGGGTAACAGGCTAGAAAA
66 GTAGGGTAACAGGCTA-AAAA
*
99497673 TACAGATC---TCCCTTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCTCTAAGC
1 TACAGATCTTATCCC-TAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGC
*
99497735 AGTAGGGTAACAGGCTGGAAAA
65 AGTAGGGTAACAGGCT-AAAAA
* * * * *
99497757 TACATATC-T-CCCCTAAATAATAGTGGAGCAGATCGAAGACAACAAGCCTTAACCCCCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99497820 GTAGGGTAACAAGCTAGAAAA
66 GTAGGGTAACAGGCTA-AAAA
* * * *
99497841 TACAGATC-T-CCCCTAAACAGTAGTGGAGCAGATTGAAGATAGTAAGCCTTAACCCCCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99497904 GTAGGGTAACAAGCTGAAAAA
66 GTAGGGTAACAGGCT-AAAAA
* * ** *
99497925 TACAGATC-T-CCCCTAAACAGTAGTGGAGCAGATGGAAGACAGTGAGCCTTAACCCCCAAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99497988 GTAGGGTAACAAGCTAAAAA
66 GTAGGGTAACAGGCTAAAAA
* * ** * *
99498008 TACAGATTTTATCCCT-AACTAGTAGTGGAACAGATTAAAGACAGTAAGCCTTAACCCTCTAAGC
1 TACAGATCTTATCCCTAAAC-AGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGC
*
99498072 AGTAGGGTAAGAGGCTAAAAA
65 AGTAGGGTAACAGGCTAAAAA
* * * *
99498093 TACAGATCTTATCCCTAAACAATAGTGGAACAGATCGAAGACAGCGAGCCTTAACCCTCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
**
99498158 GTAGGGTAACAGGCTGGAAA
66 GTAGGGTAACAGGCTAAAAA
* * * *
99498178 TACAGATCTTATCCCTAAATAGTAGTTGAGCAGATCGAAGACAACTAGCCTTAACCCCCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99498243 GTAGGGTAACAGGCTGGAAAA
66 GTAGGGTAACAGGCT-AAAAA
* * *
99498264 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAACCCCTTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99498329 GTAGGGTAACAGGCTGGAAAA
66 GTAGGGTAACAGGCT-AAAAA
* * *
99498350 TACAAATCTTATCCCTAAACAGTAGTGGAGTAGATCGAAGACAGCAAGCCTTAACCCCCTAAGTA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
*
99498415 GCAGGGTAACAGGCTGAAAAA
66 GTAGGGTAACAGGCT-AAAAA
* *
99498436 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGATAGCTAGCCTTAACCCCCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
* *
99498501 GTAGGGAAACAGGCTGAAAA
66 GTAGGGTAACAGGCTAAAAA
* * *
99498521 TACAGATCTTCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAGCCCCCTAAGCA
1 TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
* * **
99498586 GTAGGGTTACAGGCT-GAGT
66 GTAGGGTAACAGGCTAAAAA
* * * *
99498605 TACAGACCTTATCTTCCTAAGCAGTAGTAGAGCAGATCGAGGACA
1 TACAGATCTTATC--CCTAAACAGTAGTGGAGCAGATCGAAGACA
99498650 ATGAGCCTTA
Statistics
Matches: 1026, Mismatches: 106, Indels: 28
0.88 0.09 0.02
Matches are distributed among these distances:
83 16 0.02
84 448 0.44
85 288 0.28
86 266 0.26
87 1 0.00
88 7 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (85 bp):
TACAGATCTTATCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCA
GTAGGGTAACAGGCTAAAAA
Found at i:99498734 original size:44 final size:44
Alignment explanation
Indices: 99498672--99498762 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
99498662 AGTAGGGTAA
* * * * * *
99498672 CAGGCTGAAGGTTGTAGATCTTATCTCACTGAGCAGCAGTAGAG
1 CAGGATGAAGATTATAGATCATATCTCACTAAACAGCAGTAGAG
* *
99498716 CAGGATGAAGATTATAGATCATATCTCCCTAAACAGTAGTAGAG
1 CAGGATGAAGATTATAGATCATATCTCACTAAACAGCAGTAGAG
99498760 CAG
1 CAG
99498763 ATCGAAACGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (44 bp):
CAGGATGAAGATTATAGATCATATCTCACTAAACAGCAGTAGAG
Found at i:99499742 original size:15 final size:15
Alignment explanation
Indices: 99499722--99499787 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
99499712 TCTAATACTG
99499722 TTATTATTTATCTAA
1 TTATTATTTATCTAA
*
99499737 TTATTATTTATCTAT
1 TTATTATTTATCTAA
*
99499752 TTA-TATTTCTACT-A
1 TTATTATTTAT-CTAA
*
99499766 TTATTATATT-TCTAT
1 TTATTAT-TTATCTAA
99499781 TTATTAT
1 TTATTAT
99499788 ATTTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.26
15 30 0.70
16 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATTTATCTAA
Done.